Citrus Sinensis ID: 009066

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-----
Protein Sequence
MNVKTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGYVPDLEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYISAIEKREIIVRDTTRFHHFKDGTCSCGDYW
Secondary Structure (PSIPRED)
cccccHHHHHHHHHHHHHccccHHHHHHHHcccccccEEEHHHHHHHHHHccccHHHHHHHHHHccccccccHHHHHHHHHccccHHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHHHHHcccccccccccHHHHHHHHHcccccccccHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHccccHHHHHHHHHcccccccEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHcccccHHHHHHHHHHHcHHccccccccccHHHHHHHHHccccHHHHHHHHHcccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccHHHHHHHHHHccccHHHHHHHHHHHHccccccccEEEEEEccEEEEEEccccccccHHHHHHHHHHHHHHHHHcccccccccccccccHHHHHHHHHHccHHHHHHHHHccccccccEEEEcccccccHHHHHHHHHHHHcccEEEEEccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccEHHHHHHHHHHHHHcccHHHHHHHHHHccccccEHHHHHHHHHHHHcccHHHHHHHHHHcccccccHHHHHHHHHHHcccHHHHHHHHHHHcccccHHHHHHHHHHHHcccHHHHHHHHHHccccccEHHHHHHHHHHHccccccccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccEHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccEEEEEccEEEEEEEccccccHHHHHHHHHHHHHHHHHHccccccccEEEEcccHHHHHHHHHHHHHHHHHHHHHHcccccccEEEEEccEEcccHHHHHHHHHHHcccEEEEEcccccEEcccccEcccccc
Coil and Loop (DISEMBL)
MNVKTTVNWNSVLAGFAKQRGKLKDAQElfdkipqpdvvSYNIMLSCILLNSDDVVAAFDffqrlpikdtaswNTMISGFVQKKNMAKARDLFLampeknsvSWSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFgyvenswaeDGLKLLRMMIGlgirpnasslSSVLLGcshlsslqlgKQVHQLvfksplckdttaltpLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKmkdegmkpdSITFVALLLACNHAGLVDLGIQYFDSMVNdygiaakpdhYTCMVDLLGRAGKLVEAVDLikkmpfkpqpaifgTLLSACRVHKRLDLAEFAAMnlfnlnpanaaGCYVQLANIYAAMKKWDDVARIRLSMkennvvkmpgyswiEVGTVVhefrsgdrvhpELVSIHEKLKELEKRMKLAGYVPDLEFALHAVGEEVKEQLLLFHSEKLAIAFGlikvplgtpirvfKNLRVCGDCHRATKYISAIEKREIIVrdttrfhhfkdgtcscgdyw
Flexible Loop (DISEMBL)
mnvkttvnwnsVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQRlpikdtaswNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISgyaqhgkgekALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMkennvvkmpgySWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGYVPDLEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDChratkyisaiekreiivrdttrfhhfkdgtcscgdyw
Low Complexity Region (SEG)
MNVKTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHeklkelekrmklAGYVPDLEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYISAIEKREIIVRDTTRFHHFKDGTCSCGDYW
Disordered region (IsUnstruct)
*****TVNWNSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKM*****KPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGYVPDLEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYISAIEKREIIVRDTTRFHHFKDGTCSCGD**
Disordered Region (DISOPRED)
*NVKTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGYVPDLEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYISAIEKREIIVRDTTRFHHFKDGTCSCGDYW
Disordered Region (DISEMBL)
MNVKTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGYVPDLEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYISAIEKREIIVRDTTRFHHFKDGTCSCGDYW
Disordered Region (DISPRO)
***KTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGYVPDLEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYISAIEKREIIVRDTTRFHHFKDGTCSCGDYW
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
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TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MNVKTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGYVPDLEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYISAIEKREIIVRDTTRFHHFKDGTCSCGDYW
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	545	2.2.26 [Sep-21-2011]
Q9M4P3	656	Pentatricopeptide repeat-	yes	no	0.996	0.827	0.650	0.0
Q9SY02	781	Pentatricopeptide repeat-	no	no	0.985	0.687	0.480	1e-153
Q9FXB9	704	Pentatricopeptide repeat-	no	no	0.994	0.769	0.419	1e-129
Q56XI1	705	Pentatricopeptide repeat-	no	no	0.994	0.768	0.420	1e-129
Q9SUH6	792	Pentatricopeptide repeat-	no	no	0.946	0.651	0.415	1e-119
Q9SHZ8	786	Pentatricopeptide repeat-	no	no	0.974	0.675	0.444	1e-118
Q9S7F4	825	Putative pentatricopeptid	no	no	0.970	0.641	0.393	1e-118
Q9FJY7	620	Pentatricopeptide repeat-	no	no	0.979	0.861	0.409	1e-117
Q9LNU6	760	Pentatricopeptide repeat-	no	no	0.974	0.698	0.401	1e-117
Q9LN01	741	Pentatricopeptide repeat-	no	no	0.954	0.701	0.401	1e-116

>sp|Q9M4P3|PP316_ARATH Pentatricopeptide repeat-containing protein At4g16835, mitochondrial OS=Arabidopsis thaliana GN=DYW10 PE=2 SV=3

 Score =  750 bits (1936), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 372/572 (65%), Positives = 442/572 (77%), Gaps = 29/572 (5%)

Query: 1   MNVKTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFD 60
           M  K T+ WNS+L G +K   ++ +A +LFD+IP+PD  SYNIMLSC + N +    A  
Sbjct: 87  MRAKNTITWNSLLIGISKDPSRMMEAHQLFDEIPEPDTFSYNIMLSCYVRNVN-FEKAQS 145

Query: 61  FFQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKA 120
           FF R+P KD ASWNTMI+G+ ++  M KAR+LF +M EKN VSW+AMISGYIECG L+KA
Sbjct: 146 FFDRMPFKDAASWNTMITGYARRGEMEKARELFYSMMEKNEVSWNAMISGYIECGDLEKA 205

Query: 121 VELFKVAPVKSVVAWTAMISGYMKF---------------------------GYVENSWA 153
              FKVAPV+ VVAWTAMI+GYMK                            GYVENS  
Sbjct: 206 SHFFKVAPVRGVVAWTAMITGYMKAKKVELAEAMFKDMTVNKNLVTWNAMISGYVENSRP 265

Query: 154 EDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPL 213
           EDGLKL R M+  GIRPN+S LSS LLGCS LS+LQLG+Q+HQ+V KS LC D TALT L
Sbjct: 266 EDGLKLFRAMLEEGIRPNSSGLSSALLGCSELSALQLGRQIHQIVSKSTLCNDVTALTSL 325

Query: 214 ISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDS 273
           ISMYCKCG+L DA KLF  +++KDVV WNAMISGYAQHG  +KAL LF +M D  ++PD 
Sbjct: 326 ISMYCKCGELGDAWKLFEVMKKKDVVAWNAMISGYAQHGNADKALCLFREMIDNKIRPDW 385

Query: 274 ITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIK 333
           ITFVA+LLACNHAGLV++G+ YF+SMV DY +  +PDHYTCMVDLLGRAGKL EA+ LI+
Sbjct: 386 ITFVAVLLACNHAGLVNIGMAYFESMVRDYKVEPQPDHYTCMVDLLGRAGKLEEALKLIR 445

Query: 334 KMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWD 393
            MPF+P  A+FGTLL ACRVHK ++LAEFAA  L  LN  NAAG YVQLANIYA+  +W+
Sbjct: 446 SMPFRPHAAVFGTLLGACRVHKNVELAEFAAEKLLQLNSQNAAG-YVQLANIYASKNRWE 504

Query: 394 DVARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAG 453
           DVAR+R  MKE+NVVK+PGYSWIE+   VH FRS DR+HPEL SIH+KLKELEK+MKLAG
Sbjct: 505 DVARVRKRMKESNVVKVPGYSWIEIRNKVHHFRSSDRIHPELDSIHKKLKELEKKMKLAG 564

Query: 454 YVPDLEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATK 513
           Y P+LEFALH V EE KE+LLL+HSEKLA+AFG IK+P G+ I+VFKNLR+CGDCH+A K
Sbjct: 565 YKPELEFALHNVEEEQKEKLLLWHSEKLAVAFGCIKLPQGSQIQVFKNLRICGDCHKAIK 624

Query: 514 YISAIEKREIIVRDTTRFHHFKDGTCSCGDYW 545
           +IS IEKREIIVRDTTRFHHFKDG+CSCGDYW
Sbjct: 625 FISEIEKREIIVRDTTRFHHFKDGSCSCGDYW 656

Arabidopsis thaliana (taxid: 3702)

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

 Score =  541 bits (1393), Expect = e-153,   Method: Compositional matrix adjust.
 Identities = 262/545 (48%), Positives = 361/545 (66%), Gaps = 8/545 (1%)

Query: 1   MNVKTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFD 60
           MNV+  V+WN+++ G+A Q GK+ +A++LFD+ P  DV ++  M+S  + N   V  A +
Sbjct: 245 MNVRDVVSWNTIITGYA-QSGKIDEARQLFDESPVQDVFTWTAMVSGYIQNRM-VEEARE 302

Query: 61  FFQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKA 120
            F ++P ++  SWN M++G+VQ + M  A++LF  MP +N  +W+ MI+GY +CG++ +A
Sbjct: 303 LFDKMPERNEVSWNAMLAGYVQGERMEMAKELFDVMPCRNVSTWNTMITGYAQCGKISEA 362

Query: 121 VELFKVAPVKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLL 180
             LF   P +  V+W AMI+GY + G+     + + L+L   M   G R N SS SS L 
Sbjct: 363 KNLFDKMPKRDPVSWAAMIAGYSQSGH-----SFEALRLFVQMEREGGRLNRSSFSSALS 417

Query: 181 GCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVT 240
            C+ + +L+LGKQ+H  + K            L+ MYCKCG +E+A  LF E+  KD+V+
Sbjct: 418 TCADVVALELGKQLHGRLVKGGYETGCFVGNALLLMYCKCGSIEEANDLFKEMAGKDIVS 477

Query: 241 WNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMV 300
           WN MI+GY++HG GE ALR F+ MK EG+KPD  T VA+L AC+H GLVD G QYF +M 
Sbjct: 478 WNTMIAGYSRHGFGEVALRFFESMKREGLKPDDATMVAVLSACSHTGLVDKGRQYFYTMT 537

Query: 301 NDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLA 360
            DYG+     HY CMVDLLGRAG L +A +L+K MPF+P  AI+GTLL A RVH   +LA
Sbjct: 538 QDYGVMPNSQHYACMVDLLGRAGLLEDAHNLMKNMPFEPDAAIWGTLLGASRVHGNTELA 597

Query: 361 EFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVVKMPGYSWIEVGT 420
           E AA  +F + P N+ G YV L+N+YA+  +W DV ++R+ M++  V K+PGYSWIE+  
Sbjct: 598 ETAADKIFAMEPENS-GMYVLLSNLYASSGRWGDVGKLRVRMRDKGVKKVPGYSWIEIQN 656

Query: 421 VVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGYVPDLEFALHAVGEEVKEQLLLFHSEK 480
             H F  GD  HPE   I   L+EL+ RMK AGYV      LH V EE KE+++ +HSE+
Sbjct: 657 KTHTFSVGDEFHPEKDEIFAFLEELDLRMKKAGYVSKTSVVLHDVEEEEKERMVRYHSER 716

Query: 481 LAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYISAIEKREIIVRDTTRFHHFKDGTCS 540
           LA+A+G+++V  G PIRV KNLRVC DCH A KY++ I  R II+RD  RFHHFKDG+CS
Sbjct: 717 LAVAYGIMRVSSGRPIRVIKNLRVCEDCHNAIKYMARITGRLIILRDNNRFHHFKDGSCS 776

Query: 541 CGDYW 545
           CGDYW
Sbjct: 777 CGDYW 781

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FXB9|PPR84_ARATH Pentatricopeptide repeat-containing protein At1g56690, mitochondrial OS=Arabidopsis thaliana GN=PCMP-H69 PE=2 SV=1

 Score =  461 bits (1186), Expect = e-129,   Method: Compositional matrix adjust.
 Identities = 240/572 (41%), Positives = 339/572 (59%), Gaps = 30/572 (5%)

Query: 1   MNVKTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFD 60
           M  +  V+W  +  G     G++  A++L+D +P  DVV+   M+   L     V  A  
Sbjct: 136 MPERNEVSWTVMFGGLIDD-GRIDKARKLYDMMPVKDVVASTNMIGG-LCREGRVDEARL 193

Query: 61  FFQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKA 120
            F  +  ++  +W TMI+G+ Q   +  AR LF  MPEK  VSW++M+ GY   G+++ A
Sbjct: 194 IFDEMRERNVVTWTTMITGYRQNNRVDVARKLFEVMPEKTEVSWTSMLLGYTLSGRIEDA 253

Query: 121 VELFKVAPVKSVVAWTAMISGYMKFG--------------------------YVENSWAE 154
            E F+V P+K V+A  AMI G+ + G                          Y    +  
Sbjct: 254 EEFFEVMPMKPVIACNAMIVGFGEVGEISKARRVFDLMEDRDNATWRGMIKAYERKGFEL 313

Query: 155 DGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLI 214
           + L L   M   G+RP+  SL S+L  C+ L+SLQ G+QVH  + +     D    + L+
Sbjct: 314 EALDLFAQMQKQGVRPSFPSLISILSVCATLASLQYGRQVHAHLVRCQFDDDVYVASVLM 373

Query: 215 SMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSI 274
           +MY KCG+L  A  +F     KD++ WN++ISGYA HG GE+AL++F +M   G  P+ +
Sbjct: 374 TMYVKCGELVKAKLVFDRFSSKDIIMWNSIISGYASHGLGEEALKIFHEMPSSGTMPNKV 433

Query: 275 TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKK 334
           T +A+L AC++AG ++ G++ F+SM + + +    +HY+C VD+LGRAG++ +A++LI+ 
Sbjct: 434 TLIAILTACSYAGKLEEGLEIFESMESKFCVTPTVEHYSCTVDMLGRAGQVDKAMELIES 493

Query: 335 MPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDD 394
           M  KP   ++G LL AC+ H RLDLAE AA  LF   P N AG YV L++I A+  KW D
Sbjct: 494 MTIKPDATVWGALLGACKTHSRLDLAEVAAKKLFENEPDN-AGTYVLLSSINASRSKWGD 552

Query: 395 VARIRLSMKENNVVKMPGYSWIEVGTVVHEF-RSGDRVHPELVSIHEKLKELEKRMKLAG 453
           VA +R +M+ NNV K PG SWIEVG  VH F R G + HPE   I   L++ +  ++ AG
Sbjct: 553 VAVVRKNMRTNNVSKFPGCSWIEVGKKVHMFTRGGIKNHPEQAMILMMLEKTDGLLREAG 612

Query: 454 YVPDLEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATK 513
           Y PD    LH V EE K   L  HSE+LA+A+GL+K+P G PIRV KNLRVCGDCH A K
Sbjct: 613 YSPDCSHVLHDVDEEEKVDSLSRHSERLAVAYGLLKLPEGVPIRVMKNLRVCGDCHAAIK 672

Query: 514 YISAIEKREIIVRDTTRFHHFKDGTCSCGDYW 545
            IS + +REII+RD  RFHHF +G CSC DYW
Sbjct: 673 LISKVTEREIILRDANRFHHFNNGECSCRDYW 704

Arabidopsis thaliana (taxid: 3702)

>sp|Q56XI1|PPR25_ARATH Pentatricopeptide repeat-containing protein At1g09410 OS=Arabidopsis thaliana GN=PCMP-H18 PE=2 SV=2

 Score =  461 bits (1185), Expect = e-129,   Method: Compositional matrix adjust.
 Identities = 241/573 (42%), Positives = 345/573 (60%), Gaps = 31/573 (5%)

Query: 1   MNVKTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFD 60
           M  K  V+W  +L GF  Q G++ DA +L++ IP  D ++   M+   L     V  A +
Sbjct: 136 MPEKNKVSWTVMLIGFL-QDGRIDDACKLYEMIPDKDNIARTSMIHG-LCKEGRVDEARE 193

Query: 61  FFQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKA 120
            F  +  +   +W TM++G+ Q   +  AR +F  MPEK  VSW++M+ GY++ G+++ A
Sbjct: 194 IFDEMSERSVITWTTMVTGYGQNNRVDDARKIFDVMPEKTEVSWTSMLMGYVQNGRIEDA 253

Query: 121 VELFKVAPVKSVVAWTAMISGYMKFGYV--------------------------ENSWAE 154
            ELF+V PVK V+A  AMISG  + G +                           N +  
Sbjct: 254 EELFEVMPVKPVIACNAMISGLGQKGEIAKARRVFDSMKERNDASWQTVIKIHERNGFEL 313

Query: 155 DGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLI 214
           + L L  +M   G+RP   +L S+L  C+ L+SL  GKQVH  + +     D    + L+
Sbjct: 314 EALDLFILMQKQGVRPTFPTLISILSVCASLASLHHGKQVHAQLVRCQFDVDVYVASVLM 373

Query: 215 SMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEG-MKPDS 273
           +MY KCG+L  +  +F     KD++ WN++ISGYA HG GE+AL++F +M   G  KP+ 
Sbjct: 374 TMYIKCGELVKSKLIFDRFPSKDIIMWNSIISGYASHGLGEEALKVFCEMPLSGSTKPNE 433

Query: 274 ITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIK 333
           +TFVA L AC++AG+V+ G++ ++SM + +G+     HY CMVD+LGRAG+  EA+++I 
Sbjct: 434 VTFVATLSACSYAGMVEEGLKIYESMESVFGVKPITAHYACMVDMLGRAGRFNEAMEMID 493

Query: 334 KMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWD 393
            M  +P  A++G+LL ACR H +LD+AEF A  L  + P N+ G Y+ L+N+YA+  +W 
Sbjct: 494 SMTVEPDAAVWGSLLGACRTHSQLDVAEFCAKKLIEIEPENS-GTYILLSNMYASQGRWA 552

Query: 394 DVARIRLSMKENNVVKMPGYSWIEVGTVVHEF-RSGDRVHPELVSIHEKLKELEKRMKLA 452
           DVA +R  MK   V K PG SW EV   VH F R G   HPE  SI + L EL+  ++ A
Sbjct: 553 DVAELRKLMKTRLVRKSPGCSWTEVENKVHAFTRGGINSHPEQESILKILDELDGLLREA 612

Query: 453 GYVPDLEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRAT 512
           GY PD  +ALH V EE K   L +HSE+LA+A+ L+K+  G PIRV KNLRVC DCH A 
Sbjct: 613 GYNPDCSYALHDVDEEEKVNSLKYHSERLAVAYALLKLSEGIPIRVMKNLRVCSDCHTAI 672

Query: 513 KYISAIEKREIIVRDTTRFHHFKDGTCSCGDYW 545
           K IS +++REII+RD  RFHHF++G CSC DYW
Sbjct: 673 KIISKVKEREIILRDANRFHHFRNGECSCKDYW 705

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SUH6|PP341_ARATH Pentatricopeptide repeat-containing protein At4g30700 OS=Arabidopsis thaliana GN=DYW9 PE=2 SV=1

 Score =  429 bits (1104), Expect = e-119,   Method: Compositional matrix adjust.
 Identities = 230/553 (41%), Positives = 324/553 (58%), Gaps = 37/553 (6%)

Query: 12  VLAGFAK---QRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQRL--- 65
           VL GF     + GK+K    LF +  +PD+V+YN M+     N +  ++    F+ L   
Sbjct: 258 VLTGFISLYSKCGKIKMGSALFREFRKPDIVAYNAMIHGYTSNGETELS-LSLFKELMLS 316

Query: 66  -------------PIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYI 112
                        P+         I G+  K N       FL+     SVS +A+ + Y 
Sbjct: 317 GARLRSSTLVSLVPVSGHLMLIYAIHGYCLKSN-------FLSHA---SVS-TALTTVYS 365

Query: 113 ECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNA 172
           +  +++ A +LF  +P KS+ +W AMISGY      +N   ED + L R M      PN 
Sbjct: 366 KLNEIESARKLFDESPEKSLPSWNAMISGY-----TQNGLTEDAISLFREMQKSEFSPNP 420

Query: 173 SSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLE 232
            +++ +L  C+ L +L LGK VH LV  +         T LI MY KCG + +A +LF  
Sbjct: 421 VTITCILSACAQLGALSLGKWVHDLVRSTDFESSIYVSTALIGMYAKCGSIAEARRLFDL 480

Query: 233 IQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLG 292
           + +K+ VTWN MISGY  HG+G++AL +F +M + G+ P  +TF+ +L AC+HAGLV  G
Sbjct: 481 MTKKNEVTWNTMISGYGLHGQGQEALNIFYEMLNSGITPTPVTFLCVLYACSHAGLVKEG 540

Query: 293 IQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACR 352
            + F+SM++ YG      HY CMVD+LGRAG L  A+  I+ M  +P  +++ TLL ACR
Sbjct: 541 DEIFNSMIHRYGFEPSVKHYACMVDILGRAGHLQRALQFIEAMSIEPGSSVWETLLGACR 600

Query: 353 VHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVVKMPG 412
           +HK  +LA   +  LF L+P N  G +V L+NI++A + +   A +R + K+  + K PG
Sbjct: 601 IHKDTNLARTVSEKLFELDPDN-VGYHVLLSNIHSADRNYPQAATVRQTAKKRKLAKAPG 659

Query: 413 YSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGYVPDLEFALHAVGEEVKEQ 472
           Y+ IE+G   H F SGD+ HP++  I+EKL++LE +M+ AGY P+ E ALH V EE +E 
Sbjct: 660 YTLIEIGETPHVFTSGDQSHPQVKEIYEKLEKLEGKMREAGYQPETELALHDVEEEEREL 719

Query: 473 LLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYISAIEKREIIVRDTTRFH 532
           ++  HSE+LAIAFGLI    GT IR+ KNLRVC DCH  TK IS I +R I+VRD  RFH
Sbjct: 720 MVKVHSERLAIAFGLIATEPGTEIRIIKNLRVCLDCHTVTKLISKITERVIVVRDANRFH 779

Query: 533 HFKDGTCSCGDYW 545
           HFKDG CSCGDYW
Sbjct: 780 HFKDGVCSCGDYW 792

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SHZ8|PP168_ARATH Pentatricopeptide repeat-containing protein At2g22070 OS=Arabidopsis thaliana GN=PCMP-H41 PE=3 SV=1

 Score =  427 bits (1097), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 250/563 (44%), Positives = 330/563 (58%), Gaps = 32/563 (5%)

Query: 1   MNVKTTVNWNSVLAGFAKQRGKLKDAQELF-----DKIPQPDVVSYNIMLS--------C 47
           M  +  V WNS+++GF  QRG    A ++F     D +  PD  +   +LS        C
Sbjct: 238 MAERDIVTWNSMISGF-NQRGYDLRALDIFSKMLRDSLLSPDRFTLASVLSACANLEKLC 296

Query: 48  I--LLNSDDVVAAFDFFQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKN--SVS 103
           I   ++S  V   FD             N +IS + +   +  AR L      K+     
Sbjct: 297 IGKQIHSHIVTTGFDI-------SGIVLNALISMYSRCGGVETARRLIEQRGTKDLKIEG 349

Query: 104 WSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMM 163
           ++A++ GYI+ G +++A  +F     + VVAWTAMI GY + G    S+ E  + L R M
Sbjct: 350 FTALLDGYIKLGDMNQAKNIFVSLKDRDVVAWTAMIVGYEQHG----SYGE-AINLFRSM 404

Query: 164 IGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDL 223
           +G G RPN+ +L+++L   S L+SL  GKQ+H    KS      +    LI+MY K G++
Sbjct: 405 VGGGQRPNSYTLAAMLSVASSLASLSHGKQIHGSAVKSGEIYSVSVSNALITMYAKAGNI 464

Query: 224 EDACKLFLEIQ-RKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLA 282
             A + F  I+  +D V+W +MI   AQHG  E+AL LF+ M  EG++PD IT+V +  A
Sbjct: 465 TSASRAFDLIRCERDTVSWTSMIIALAQHGHAEEALELFETMLMEGLRPDHITYVGVFSA 524

Query: 283 CNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPA 342
           C HAGLV+ G QYFD M +   I     HY CMVDL GRAG L EA + I+KMP +P   
Sbjct: 525 CTHAGLVNQGRQYFDMMKDVDKIIPTLSHYACMVDLFGRAGLLQEAQEFIEKMPIEPDVV 584

Query: 343 IFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSM 402
            +G+LLSACRVHK +DL + AA  L  L P N+ G Y  LAN+Y+A  KW++ A+IR SM
Sbjct: 585 TWGSLLSACRVHKNIDLGKVAAERLLLLEPENS-GAYSALANLYSACGKWEEAAKIRKSM 643

Query: 403 KENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGYVPDLEFAL 462
           K+  V K  G+SWIEV   VH F   D  HPE   I+  +K++   +K  GYVPD    L
Sbjct: 644 KDGRVKKEQGFSWIEVKHKVHVFGVEDGTHPEKNEIYMTMKKIWDEIKKMGYVPDTASVL 703

Query: 463 HAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYISAIEKRE 522
           H + EEVKEQ+L  HSEKLAIAFGLI  P  T +R+ KNLRVC DCH A K+IS +  RE
Sbjct: 704 HDLEEEVKEQILRHHSEKLAIAFGLISTPDKTTLRIMKNLRVCNDCHTAIKFISKLVGRE 763

Query: 523 IIVRDTTRFHHFKDGTCSCGDYW 545
           IIVRDTTRFHHFKDG CSC DYW
Sbjct: 764 IIVRDTTRFHHFKDGFCSCRDYW 786

Arabidopsis thaliana (taxid: 3702)

>sp|Q9S7F4|PP206_ARATH Putative pentatricopeptide repeat-containing protein At2g01510 OS=Arabidopsis thaliana GN=PCMP-H36 PE=3 SV=1

 Score =  425 bits (1093), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 214/544 (39%), Positives = 326/544 (59%), Gaps = 15/544 (2%)

Query: 10  NSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQRLPI-- 67
           N +L  ++K   ++ + + LFD++P+ D VSYN+++S     +D   A+  FF+ +    
Sbjct: 289 NQILDFYSKH-DRVLETRMLFDEMPELDFVSYNVVISS-YSQADQYEASLHFFREMQCMG 346

Query: 68  --KDTASWNTMISGFVQKKNMAKARDL----FLAMPEKNSVSWSAMISGYIECGQLDKAV 121
             +    + TM+S      ++   R L     LA  +      ++++  Y +C   ++A 
Sbjct: 347 FDRRNFPFATMLSIAANLSSLQMGRQLHCQALLATADSILHVGNSLVDMYAKCEMFEEAE 406

Query: 122 ELFKVAPVKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLG 181
            +FK  P ++ V+WTA+ISGY     V+      GLKL   M G  +R + S+ ++VL  
Sbjct: 407 LIFKSLPQRTTVSWTALISGY-----VQKGLHGAGLKLFTKMRGSNLRADQSTFATVLKA 461

Query: 182 CSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTW 241
            +  +SL LGKQ+H  + +S   ++  + + L+ MY KCG ++DA ++F E+  ++ V+W
Sbjct: 462 SASFASLLLGKQLHAFIIRSGNLENVFSGSGLVDMYAKCGSIKDAVQVFEEMPDRNAVSW 521

Query: 242 NAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVN 301
           NA+IS +A +G GE A+  F KM + G++PDS++ + +L AC+H G V+ G +YF +M  
Sbjct: 522 NALISAHADNGDGEAAIGAFAKMIESGLQPDSVSILGVLTACSHCGFVEQGTEYFQAMSP 581

Query: 302 DYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAE 361
            YGI  K  HY CM+DLLGR G+  EA  L+ +MPF+P   ++ ++L+ACR+HK   LAE
Sbjct: 582 IYGITPKKKHYACMLDLLGRNGRFAEAEKLMDEMPFEPDEIMWSSVLNACRIHKNQSLAE 641

Query: 362 FAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVVKMPGYSWIEVGTV 421
            AA  LF++     A  YV ++NIYAA  +W+ V  ++ +M+E  + K+P YSW+EV   
Sbjct: 642 RAAEKLFSMEKLRDAAAYVSMSNIYAAAGEWEKVRDVKKAMRERGIKKVPAYSWVEVNHK 701

Query: 422 VHEFRSGDRVHPELVSIHEKLKELEKRMKLAGYVPDLEFALHAVGEEVKEQLLLFHSEKL 481
           +H F S D+ HP    I  K+ EL   ++  GY PD    +  V E++K + L +HSE+L
Sbjct: 702 IHVFSSNDQTHPNGDEIVRKINELTAEIEREGYKPDTSSVVQDVDEQMKIESLKYHSERL 761

Query: 482 AIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYISAIEKREIIVRDTTRFHHFKDGTCSC 541
           A+AF LI  P G PI V KNLR C DCH A K IS I KREI VRDT+RFHHF +G CSC
Sbjct: 762 AVAFALISTPEGCPIVVMKNLRACRDCHAAIKLISKIVKREITVRDTSRFHHFSEGVCSC 821

Query: 542 GDYW 545
           GDYW
Sbjct: 822 GDYW 825

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FJY7|PP449_ARATH Pentatricopeptide repeat-containing protein At5g66520 OS=Arabidopsis thaliana GN=PCMP-H61 PE=2 SV=1

 Score =  421 bits (1082), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 224/547 (40%), Positives = 328/547 (59%), Gaps = 13/547 (2%)

Query: 6   TVNWNSVLAGFA----KQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNS-DDVVAAFD 60
           T  WN ++ GF+     +R  L   + L    P       +++ +C  L++ ++      
Sbjct: 80  TFLWNLMIRGFSCSDEPERSLLLYQRMLCSSAPHNAYTFPSLLKACSNLSAFEETTQIHA 139

Query: 61  FFQRLPIK-DTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDK 119
              +L  + D  + N++I+ +    N   A  LF  +PE + VSW+++I GY++ G++D 
Sbjct: 140 QITKLGYENDVYAVNSLINSYAVTGNFKLAHLLFDRIPEPDDVSWNSVIKGYVKAGKMDI 199

Query: 120 AVELFKVAPVKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVL 179
           A+ LF+    K+ ++WT MISGY     V+    ++ L+L   M    + P+  SL++ L
Sbjct: 200 ALTLFRKMAEKNAISWTTMISGY-----VQADMNKEALQLFHEMQNSDVEPDNVSLANAL 254

Query: 180 LGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVV 239
             C+ L +L+ GK +H  + K+ +  D+     LI MY KCG++E+A ++F  I++K V 
Sbjct: 255 SACAQLGALEQGKWIHSYLNKTRIRMDSVLGCVLIDMYAKCGEMEEALEVFKNIKKKSVQ 314

Query: 240 TWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSM 299
            W A+ISGYA HG G +A+  F +M+  G+KP+ ITF A+L AC++ GLV+ G   F SM
Sbjct: 315 AWTALISGYAYHGHGREAISKFMEMQKMGIKPNVITFTAVLTACSYTGLVEEGKLIFYSM 374

Query: 300 VNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDL 359
             DY +    +HY C+VDLLGRAG L EA   I++MP KP   I+G LL ACR+HK ++L
Sbjct: 375 ERDYNLKPTIEHYGCIVDLLGRAGLLDEAKRFIQEMPLKPNAVIWGALLKACRIHKNIEL 434

Query: 360 AEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVVKMPGYSWIEVG 419
            E     L  ++P +  G YV  ANI+A  KKWD  A  R  MKE  V K+PG S I + 
Sbjct: 435 GEEIGEILIAIDPYH-GGRYVHKANIHAMDKKWDKAAETRRLMKEQGVAKVPGCSTISLE 493

Query: 420 TVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGYVPDL-EFALHAVGEEVKEQLLLFHS 478
              HEF +GDR HPE+  I  K + + ++++  GYVP+L E  L  V ++ +E ++  HS
Sbjct: 494 GTTHEFLAGDRSHPEIEKIQSKWRIMRRKLEENGYVPELEEMLLDLVDDDEREAIVHQHS 553

Query: 479 EKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYISAIEKREIIVRDTTRFHHFKDGT 538
           EKLAI +GLIK   GT IR+ KNLRVC DCH+ TK IS I KR+I++RD TRFHHF+DG 
Sbjct: 554 EKLAITYGLIKTKPGTIIRIMKNLRVCKDCHKVTKLISKIYKRDIVMRDRTRFHHFRDGK 613

Query: 539 CSCGDYW 545
           CSCGDYW
Sbjct: 614 CSCGDYW 620

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LNU6|PPR53_ARATH Pentatricopeptide repeat-containing protein At1g20230 OS=Arabidopsis thaliana GN=PCMP-H21 PE=2 SV=2

 Score =  421 bits (1082), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 221/551 (40%), Positives = 336/551 (60%), Gaps = 20/551 (3%)

Query: 7   VNWNSVLAGFAKQRGKLKDAQELFDKIPQ----PDVVSYNIMLSCI----LLNSDDVVAA 58
           V+WN +L+GF +  G  K+A  +F KI      PD V+ + +L  +    +LN   ++  
Sbjct: 218 VSWNGILSGFNRS-GYHKEAVVMFQKIHHLGFCPDQVTVSSVLPSVGDSEMLNMGRLIHG 276

Query: 59  FDFFQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLD 118
           +   Q L +KD    + MI  + +  ++     LF       +   +A I+G    G +D
Sbjct: 277 YVIKQGL-LKDKCVISAMIDMYGKSGHVYGIISLFNQFEMMEAGVCNAYITGLSRNGLVD 335

Query: 119 KAVELFKVAPVKS----VVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASS 174
           KA+E+F++   ++    VV+WT++I+G       +N    + L+L R M   G++PN  +
Sbjct: 336 KALEMFELFKEQTMELNVVSWTSIIAGC-----AQNGKDIEALELFREMQVAGVKPNHVT 390

Query: 175 LSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQ 234
           + S+L  C ++++L  G+  H    +  L  +    + LI MY KCG +  +  +F  + 
Sbjct: 391 IPSMLPACGNIAALGHGRSTHGFAVRVHLLDNVHVGSALIDMYAKCGRINLSQIVFNMMP 450

Query: 235 RKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQ 294
            K++V WN++++G++ HGK ++ + +F+ +    +KPD I+F +LL AC   GL D G +
Sbjct: 451 TKNLVCWNSLMNGFSMHGKAKEVMSIFESLMRTRLKPDFISFTSLLSACGQVGLTDEGWK 510

Query: 295 YFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVH 354
           YF  M  +YGI  + +HY+CMV+LLGRAGKL EA DLIK+MPF+P   ++G LL++CR+ 
Sbjct: 511 YFKMMSEEYGIKPRLEHYSCMVNLLGRAGKLQEAYDLIKEMPFEPDSCVWGALLNSCRLQ 570

Query: 355 KRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVVKMPGYS 414
             +DLAE AA  LF+L P N  G YV L+NIYAA   W +V  IR  M+   + K PG S
Sbjct: 571 NNVDLAEIAAEKLFHLEPENP-GTYVLLSNIYAAKGMWTEVDSIRNKMESLGLKKNPGCS 629

Query: 415 WIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGYVPDLEFALHAVGEEVKEQLL 474
           WI+V   V+   +GD+ HP++  I EK+ E+ K M+ +G+ P+L+FALH V E+ +EQ+L
Sbjct: 630 WIQVKNRVYTLLAGDKSHPQIDQITEKMDEISKEMRKSGHRPNLDFALHDVEEQEQEQML 689

Query: 475 LFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYISAIEKREIIVRDTTRFHHF 534
             HSEKLA+ FGL+  P GTP++V KNLR+CGDCH   K+IS+   REI +RDT RFHHF
Sbjct: 690 WGHSEKLAVVFGLLNTPDGTPLQVIKNLRICGDCHAVIKFISSYAGREIFIRDTNRFHHF 749

Query: 535 KDGTCSCGDYW 545
           KDG CSCGD+W
Sbjct: 750 KDGICSCGDFW 760

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LN01|PPR21_ARATH Pentatricopeptide repeat-containing protein At1g08070 OS=Arabidopsis thaliana GN=PCMP-H12 PE=2 SV=1

 Score =  418 bits (1074), Expect = e-116,   Method: Compositional matrix adjust.
 Identities = 228/568 (40%), Positives = 329/568 (57%), Gaps = 48/568 (8%)

Query: 19  QRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQRLPIKDTASWNTMIS 78
           Q G+L+DA ++FDK P  DVVSY  ++     +   +  A   F  +P+KD  SWN MIS
Sbjct: 181 QNGRLEDAHKVFDKSPHRDVVSYTALIKG-YASRGYIENAQKLFDEIPVKDVVSWNAMIS 239

Query: 79  GFVQKKNMAKARDLFLAM------PEKNSVS--------------------W-------- 104
           G+ +  N  +A +LF  M      P+++++                     W        
Sbjct: 240 GYAETGNYKEALELFKDMMKTNVRPDESTMVTVVSACAQSGSIELGRQVHLWIDDHGFGS 299

Query: 105 -----SAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGYVENSWAEDGLKL 159
                +A+I  Y +CG+L+ A  LF+  P K V++W  +I GY      +     + L L
Sbjct: 300 NLKIVNALIDLYSKCGELETACGLFERLPYKDVISWNTLIGGYTHMNLYK-----EALLL 354

Query: 160 LRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFK--SPLCKDTTALTPLISMY 217
            + M+  G  PN  ++ S+L  C+HL ++ +G+ +H  + K    +   ++  T LI MY
Sbjct: 355 FQEMLRSGETPNDVTMLSILPACAHLGAIDIGRWIHVYIDKRLKGVTNASSLRTSLIDMY 414

Query: 218 CKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFV 277
            KCGD+E A ++F  I  K + +WNAMI G+A HG+ + +  LF +M+  G++PD ITFV
Sbjct: 415 AKCGDIEAAHQVFNSILHKSLSSWNAMIFGFAMHGRADASFDLFSRMRKIGIQPDDITFV 474

Query: 278 ALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPF 337
            LL AC+H+G++DLG   F +M  DY +  K +HY CM+DLLG +G   EA ++I  M  
Sbjct: 475 GLLSACSHSGMLDLGRHIFRTMTQDYKMTPKLEHYGCMIDLLGHSGLFKEAEEMINMMEM 534

Query: 338 KPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVAR 397
           +P   I+ +LL AC++H  ++L E  A NL  + P N  G YV L+NIYA+  +W++VA+
Sbjct: 535 EPDGVIWCSLLKACKMHGNVELGESFAENLIKIEPENP-GSYVLLSNIYASAGRWNEVAK 593

Query: 398 IRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGYVPD 457
            R  + +  + K+PG S IE+ +VVHEF  GD+ HP    I+  L+E+E  ++ AG+VPD
Sbjct: 594 TRALLNDKGMKKVPGCSSIEIDSVVHEFIIGDKFHPRNREIYGMLEEMEVLLEKAGFVPD 653

Query: 458 LEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYISA 517
               L  + EE KE  L  HSEKLAIAFGLI    GT + + KNLRVC +CH ATK IS 
Sbjct: 654 TSEVLQEMEEEWKEGALRHHSEKLAIAFGLISTKPGTKLTIVKNLRVCRNCHEATKLISK 713

Query: 518 IEKREIIVRDTTRFHHFKDGTCSCGDYW 545
           I KREII RD TRFHHF+DG CSC DYW
Sbjct: 714 IYKREIIARDRTRFHHFRDGVCSCNDYW 741

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	545
359497567	599	PREDICTED: pentatricopeptide repeat-cont	0.996	0.906	0.709	0.0
224071204	569	predicted protein [Populus trichocarpa]	0.996	0.954	0.707	0.0
356507248	635	PREDICTED: pentatricopeptide repeat-cont	0.996	0.855	0.695	0.0
449458990	667	PREDICTED: pentatricopeptide repeat-cont	0.996	0.814	0.683	0.0
449517557	667	PREDICTED: pentatricopeptide repeat-cont	0.996	0.814	0.683	0.0
334186622	656	tetratricopeptide repeat domain-containi	0.996	0.827	0.650	0.0
297804490	853	hypothetical protein ARALYDRAFT_329829 [	0.913	0.583	0.601	0.0
222641236	662	hypothetical protein OsJ_28705 [Oryza sa	0.990	0.815	0.563	0.0
27817913	613	putative pentatricopeptide (PPR) repeat-	0.990	0.880	0.563	0.0
125547694	613	hypothetical protein OsI_15309 [Oryza sa	0.990	0.880	0.561	0.0

>gi|359497567|ref|XP_002265980.2| PREDICTED: pentatricopeptide repeat-containing protein At4g16835, mitochondrial-like, partial [Vitis vinifera]

 Score =  843 bits (2177), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 405/571 (70%), Positives = 471/571 (82%), Gaps = 28/571 (4%)

Query: 1   MNVKTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFD 60
           M VKTTV WNS+LAG++ +RGK+K A++LFD+IP+PD+ SYNIML+C L N+D V +A  
Sbjct: 31  MTVKTTVTWNSMLAGYSNRRGKIKVARQLFDRIPEPDIFSYNIMLACYLHNAD-VESARL 89

Query: 61  FFQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKA 120
           FF ++P+KDTASWNTMISGF Q   M +AR+LFL MP +NSVSW+AMISGY+E G LD A
Sbjct: 90  FFDQMPVKDTASWNTMISGFSQNGMMDQARELFLVMPVRNSVSWNAMISGYVESGDLDLA 149

Query: 121 VELFKVAPVKSVVAWTAMISGYMKFG--------------------------YVENSWAE 154
            +LF+VAPV+SVVAWTAMI+G+MKFG                          Y+EN  AE
Sbjct: 150 KQLFEVAPVRSVVAWTAMITGFMKFGKIELAEKYFEEMPMKNLVTWNAMIAGYIENCQAE 209

Query: 155 DGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLI 214
           +GLKL + M+  G RPN SSLSSVLLGCS+LS+L+LGKQVHQL+ KSP+  + TA T L+
Sbjct: 210 NGLKLFKRMVESGFRPNPSSLSSVLLGCSNLSALKLGKQVHQLICKSPVSWNITAGTSLL 269

Query: 215 SMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSI 274
           SMYCKCGDLEDA KLFL + +KDVVTWNAMISGYAQHG GEKAL LFDKM+DEGMKPD I
Sbjct: 270 SMYCKCGDLEDAWKLFLVMPQKDVVTWNAMISGYAQHGAGEKALYLFDKMRDEGMKPDWI 329

Query: 275 TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKK 334
           TFVA+L ACNHAG VDLGI+YF+SMV DYG+ AKPDHYTC+VDLLGR GKLVEAVDLIKK
Sbjct: 330 TFVAVLSACNHAGFVDLGIEYFNSMVRDYGVEAKPDHYTCVVDLLGRGGKLVEAVDLIKK 389

Query: 335 MPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDD 394
           MPFKP  AIFGTLL ACR+HK L+LAEFAA NL NL+P +AAG YVQLAN+YAAM +WD 
Sbjct: 390 MPFKPHSAIFGTLLGACRIHKNLELAEFAAKNLLNLDPESAAG-YVQLANVYAAMNRWDH 448

Query: 395 VARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGY 454
           VA +R SMK+N V+K PGYSWIEV +VVHEFRSGDR+HPEL  IHEKL ELE++M+LAGY
Sbjct: 449 VAMVRRSMKDNKVIKTPGYSWIEVKSVVHEFRSGDRIHPELAFIHEKLNELERKMRLAGY 508

Query: 455 VPDLEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKY 514
           VPDLE+ALH VGEE K+Q+LL HSEKLAIA+GLI++PLGTPIRVFKNLRVCGDCH ATKY
Sbjct: 509 VPDLEYALHDVGEEQKKQILLRHSEKLAIAYGLIRMPLGTPIRVFKNLRVCGDCHSATKY 568

Query: 515 ISAIEKREIIVRDTTRFHHFKDGTCSCGDYW 545
           ISAIE R IIVRDTTRFHHF+ G CSCGDYW
Sbjct: 569 ISAIEGRVIIVRDTTRFHHFRQGECSCGDYW 599

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224071204|ref|XP_002303374.1| predicted protein [Populus trichocarpa] gi|222840806|gb|EEE78353.1| predicted protein [Populus trichocarpa]

 Score =  821 bits (2120), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 404/571 (70%), Positives = 465/571 (81%), Gaps = 28/571 (4%)

Query: 1   MNVKTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFD 60
           M +KTTV WNSVLAG +K+RGKLK+AQELF KIP+PD VSYN MLSC + NS+ +  A  
Sbjct: 1   MTLKTTVTWNSVLAGMSKKRGKLKEAQELFVKIPEPDAVSYNTMLSCYVRNSN-MERAQA 59

Query: 61  FFQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKA 120
           FF+ +PIKDT SWNTMI+GF Q + M KARDLFL MP KN V+W+AMISGY+ECG LD A
Sbjct: 60  FFEDMPIKDTPSWNTMITGFAQNQQMDKARDLFLIMPTKNVVTWNAMISGYVECGDLDSA 119

Query: 121 VELFKVAPVKSVVAWTAMISGYMKFG--------------------------YVENSWAE 154
           ++LF+ AP KSVVAWTAMI+GYMK G                          Y+EN  AE
Sbjct: 120 LKLFEKAPFKSVVAWTAMITGYMKLGRIGLAERLFEKMPEKNLVTWNAMIAGYIENHRAE 179

Query: 155 DGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLI 214
           DG+KL R M+G GI+PN+S+LSS LLGCS LS+LQLG+QVHQLV KSPLC DTTA T LI
Sbjct: 180 DGVKLFRTMVGFGIQPNSSTLSSALLGCSELSALQLGRQVHQLVCKSPLCDDTTAGTSLI 239

Query: 215 SMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSI 274
           SMYCKCG LED  KLF+++ R+DVVTWNAMISGYAQHG+G+KAL LFD+M ++GMKPD I
Sbjct: 240 SMYCKCGVLEDGWKLFVQVPRRDVVTWNAMISGYAQHGEGKKALGLFDEMIEKGMKPDWI 299

Query: 275 TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKK 334
           TFVA+L+ACNHAG  DLG++YF SM  DYG+ AKPDHYTCMVDLLGRAGKLVEAVDLI+K
Sbjct: 300 TFVAVLMACNHAGFTDLGVKYFHSMAKDYGLVAKPDHYTCMVDLLGRAGKLVEAVDLIEK 359

Query: 335 MPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDD 394
           MPFKP  A+FGTLL ACR+HK  ++AEFA+  L NL+PA+A G YVQLAN+YAA K+WD 
Sbjct: 360 MPFKPHAAVFGTLLGACRIHKNTEMAEFASQKLLNLDPASATG-YVQLANVYAATKRWDH 418

Query: 395 VARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGY 454
           VAR+R SMK   VVK PGYSWIEV ++ H+FRSGD+ HPEL SIH KLKELEK+MKLAGY
Sbjct: 419 VARVRKSMKSCKVVKTPGYSWIEVKSMAHQFRSGDKFHPELASIHGKLKELEKKMKLAGY 478

Query: 455 VPDLEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKY 514
           VPDLEFALH VGEE KEQLLL+HSEKLAIA+GLIK+P GTPIRVFKNLRVCGDCHRA KY
Sbjct: 479 VPDLEFALHDVGEEQKEQLLLWHSEKLAIAYGLIKLPPGTPIRVFKNLRVCGDCHRAIKY 538

Query: 515 ISAIEKREIIVRDTTRFHHFKDGTCSCGDYW 545
           IS IE+REIIVRDTTRFHHFKDG CSC DYW
Sbjct: 539 ISQIERREIIVRDTTRFHHFKDGHCSCADYW 569

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356507248|ref|XP_003522381.1| PREDICTED: pentatricopeptide repeat-containing protein At4g16835, mitochondrial-like [Glycine max]

 Score =  815 bits (2106), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 397/571 (69%), Positives = 453/571 (79%), Gaps = 28/571 (4%)

Query: 1   MNVKTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFD 60
           M VK+TV WNS+LA FAK+ G  + A++LF+KIPQP+ VSYNIML+C   +   V  A  
Sbjct: 67  MKVKSTVTWNSILAAFAKKPGHFEYARQLFEKIPQPNTVSYNIMLAC-HWHHLGVHDARG 125

Query: 61  FFQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKA 120
           FF  +P+KD ASWNTMIS   Q   M +AR LF AMPEKN VSWSAM+SGY+ CG LD A
Sbjct: 126 FFDSMPLKDVASWNTMISALAQVGLMGEARRLFSAMPEKNCVSWSAMVSGYVACGDLDAA 185

Query: 121 VELFKVAPVKSVVAWTAMISGYMKFG--------------------------YVENSWAE 154
           VE F  AP++SV+ WTAMI+GYMKFG                          YVEN  AE
Sbjct: 186 VECFYAAPMRSVITWTAMITGYMKFGRVELAERLFQEMSMRTLVTWNAMIAGYVENGRAE 245

Query: 155 DGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLI 214
           DGL+L R M+  G++PNA SL+SVLLGCS+LS+LQLGKQVHQLV K PL  DTTA T L+
Sbjct: 246 DGLRLFRTMLETGVKPNALSLTSVLLGCSNLSALQLGKQVHQLVCKCPLSSDTTAGTSLV 305

Query: 215 SMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSI 274
           SMY KCGDL+DA +LF++I RKDVV WNAMISGYAQHG G+KALRLFD+MK EG+KPD I
Sbjct: 306 SMYSKCGDLKDAWELFIQIPRKDVVCWNAMISGYAQHGAGKKALRLFDEMKKEGLKPDWI 365

Query: 275 TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKK 334
           TFVA+LLACNHAGLVDLG+QYF++M  D+GI  KP+HY CMVDLLGRAGKL EAVDLIK 
Sbjct: 366 TFVAVLLACNHAGLVDLGVQYFNTMRRDFGIETKPEHYACMVDLLGRAGKLSEAVDLIKS 425

Query: 335 MPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDD 394
           MPFKP PAI+GTLL ACR+HK L+LAEFAA NL  L+P  A G YVQLAN+YAA  +WD 
Sbjct: 426 MPFKPHPAIYGTLLGACRIHKNLNLAEFAAKNLLELDPTIATG-YVQLANVYAAQNRWDH 484

Query: 395 VARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGY 454
           VA IR SMK+NNVVK+PGYSWIE+ +VVH FRS DR+HPEL SIHEKLK+LEK+MKLAGY
Sbjct: 485 VASIRRSMKDNNVVKIPGYSWIEINSVVHGFRSSDRLHPELASIHEKLKDLEKKMKLAGY 544

Query: 455 VPDLEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKY 514
           VPDLEF LH VGEE+KEQLLL+HSEKLAIAFGL+KVPLG PIRVFKNLRVCGDCH ATKY
Sbjct: 545 VPDLEFVLHDVGEELKEQLLLWHSEKLAIAFGLLKVPLGVPIRVFKNLRVCGDCHSATKY 604

Query: 515 ISAIEKREIIVRDTTRFHHFKDGTCSCGDYW 545
           IS IE REIIVRDTTRFHHFKDG CSC DYW
Sbjct: 605 ISTIEGREIIVRDTTRFHHFKDGFCSCRDYW 635

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449458990|ref|XP_004147229.1| PREDICTED: pentatricopeptide repeat-containing protein At4g16835, mitochondrial-like [Cucumis sativus]

 Score =  798 bits (2062), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 390/571 (68%), Positives = 450/571 (78%), Gaps = 28/571 (4%)

Query: 1   MNVKTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFD 60
           M+V+TTV WN++L+G+ K  GK+K+A ELFDKIP+PD VSYNIML C  L S  V AA  
Sbjct: 99  MSVRTTVTWNTMLSGYTKVAGKVKEAHELFDKIPEPDSVSYNIMLVC-YLRSYGVKAALA 157

Query: 61  FFQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKA 120
           FF ++P+KD ASWNT+ISGF Q   M KA DLF  MPEKN VSWSAMISGY+E G L+ A
Sbjct: 158 FFNKMPVKDIASWNTLISGFAQNGQMQKAFDLFSVMPEKNGVSWSAMISGYVEHGDLEAA 217

Query: 121 VELFKVAPVKSVVAWTAMISGYMKFG--------------------------YVENSWAE 154
            EL+K   +KSVV  TAM++GYMKFG                          YVEN  AE
Sbjct: 218 EELYKNVGMKSVVVETAMLTGYMKFGKVELAERIFQRMAVKNLVTWNSMIAGYVENCRAE 277

Query: 155 DGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLI 214
           DGLK+ + MI   +RPN  SLSSVLLGCS+LS+L LG+Q+HQLV KSPL KDTTA T LI
Sbjct: 278 DGLKVFKTMIESRVRPNPLSLSSVLLGCSNLSALPLGRQMHQLVSKSPLSKDTTACTSLI 337

Query: 215 SMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSI 274
           SMYCKCGDL+ A KLFLE+ RKDV+TWNAMISGYAQHG G KAL LFDKM++  MKPD I
Sbjct: 338 SMYCKCGDLDSAWKLFLEMPRKDVITWNAMISGYAQHGAGRKALHLFDKMRNGTMKPDWI 397

Query: 275 TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKK 334
           TFVA++LACNHAG VDLG+QYF SM  ++GI AKP HYTC++DLLGRAG+L EAV LIK+
Sbjct: 398 TFVAVILACNHAGFVDLGVQYFKSMKKEFGIEAKPVHYTCVIDLLGRAGRLDEAVSLIKE 457

Query: 335 MPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDD 394
           MPF P  AI+GTLL ACR+HK LDLAEFAA NL NL+P +A G YVQLANIYAA  KWD 
Sbjct: 458 MPFTPHAAIYGTLLGACRIHKNLDLAEFAARNLLNLDPTSATG-YVQLANIYAATNKWDQ 516

Query: 395 VARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGY 454
           VA++R  MKE+NVVK+PGYSWIE+ +V HEFRS DR+HPEL SIH+KL EL+ +MKLAGY
Sbjct: 517 VAKVRKMMKEHNVVKIPGYSWIEIKSVTHEFRSSDRLHPELTSIHKKLNELDGKMKLAGY 576

Query: 455 VPDLEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKY 514
           VPDLEFALH V EE KE+LLL+HSEKLAIAFGL+K   GTPIRVFKNLRVCGDCHRA K+
Sbjct: 577 VPDLEFALHDVEEEHKEKLLLWHSEKLAIAFGLMKTAPGTPIRVFKNLRVCGDCHRAIKF 636

Query: 515 ISAIEKREIIVRDTTRFHHFKDGTCSCGDYW 545
           ISAIEKREIIVRDTTRFHHF++G CSCGDYW
Sbjct: 637 ISAIEKREIIVRDTTRFHHFRNGFCSCGDYW 667

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449517557|ref|XP_004165812.1| PREDICTED: pentatricopeptide repeat-containing protein At4g16835, mitochondrial-like [Cucumis sativus]

 Score =  798 bits (2062), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 390/571 (68%), Positives = 451/571 (78%), Gaps = 28/571 (4%)

Query: 1   MNVKTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFD 60
           M+V+TTV WN++L+G+ K  GK+K+A ELFDKIP+PD VSYNIML C  L S  V AA  
Sbjct: 99  MSVRTTVTWNTMLSGYTKVAGKVKEAHELFDKIPEPDSVSYNIMLVC-YLRSYGVEAALA 157

Query: 61  FFQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKA 120
           FF ++P+KD ASWNT+ISGF Q   M KA DLF  MPEKN VSWSAMISGY+E G L+ A
Sbjct: 158 FFNKMPVKDIASWNTLISGFAQNGQMQKAFDLFSVMPEKNGVSWSAMISGYVEHGDLEAA 217

Query: 121 VELFKVAPVKSVVAWTAMISGYMKFG--------------------------YVENSWAE 154
            EL+K   +KSVV  TAM++GYMKFG                          YVEN  AE
Sbjct: 218 EELYKNVGMKSVVVETAMLTGYMKFGKVELAERIFQRMAVKNLVTWNSMIAGYVENCRAE 277

Query: 155 DGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLI 214
           DGLK+ + MI   +RPN  SLSSVLLGCS+LS+L LG+Q+HQLV KSPL KDTTA T LI
Sbjct: 278 DGLKVFKTMIESRVRPNPLSLSSVLLGCSNLSALPLGRQMHQLVSKSPLSKDTTACTSLI 337

Query: 215 SMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSI 274
           SMYCKCGDL+ A KLFLE+ RKDV++WNAMISGYAQHG G KAL LFDKM++  MKPD I
Sbjct: 338 SMYCKCGDLDSAWKLFLEMPRKDVISWNAMISGYAQHGAGRKALHLFDKMRNGTMKPDWI 397

Query: 275 TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKK 334
           TFVA++LACNHAG VDLG+QYF SM  ++GI AKP HYTC++DLLGRAG+L EAV LIK+
Sbjct: 398 TFVAVILACNHAGFVDLGVQYFKSMKKEFGIEAKPVHYTCVIDLLGRAGRLDEAVSLIKE 457

Query: 335 MPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDD 394
           MPFKP  AI+GTLL ACR+HK LDLAEFAA NL NL+P +A G YVQLANIYAA  KWD 
Sbjct: 458 MPFKPHAAIYGTLLGACRIHKNLDLAEFAARNLLNLDPTSATG-YVQLANIYAATNKWDQ 516

Query: 395 VARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGY 454
           VA++R  MKE+NVVK+PGYSWIE+ +V HEFRS DR+HPEL SIH+KL EL+ +MKLAGY
Sbjct: 517 VAKVRKMMKEHNVVKIPGYSWIEIKSVTHEFRSSDRLHPELTSIHKKLNELDGKMKLAGY 576

Query: 455 VPDLEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKY 514
           VPDLEFALH V EE KE+LLL+HSEKLAIAFGL+K   GTPIRVFKNLRVCGDCHRA K+
Sbjct: 577 VPDLEFALHDVEEEHKEKLLLWHSEKLAIAFGLMKTAPGTPIRVFKNLRVCGDCHRAIKF 636

Query: 515 ISAIEKREIIVRDTTRFHHFKDGTCSCGDYW 545
           ISAIEKREIIVRDTTRFHHF++G CSCGDYW
Sbjct: 637 ISAIEKREIIVRDTTRFHHFRNGFCSCGDYW 667

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|334186622|ref|NP_680717.2| tetratricopeptide repeat domain-containing protein [Arabidopsis thaliana] gi|357529479|sp|Q9M4P3.3|PP316_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At4g16835, mitochondrial; AltName: Full=Protein DYW10; Flags: Precursor gi|332658412|gb|AEE83812.1| tetratricopeptide repeat domain-containing protein [Arabidopsis thaliana]

 Score =  750 bits (1936), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 372/572 (65%), Positives = 442/572 (77%), Gaps = 29/572 (5%)

Query: 1   MNVKTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFD 60
           M  K T+ WNS+L G +K   ++ +A +LFD+IP+PD  SYNIMLSC + N +    A  
Sbjct: 87  MRAKNTITWNSLLIGISKDPSRMMEAHQLFDEIPEPDTFSYNIMLSCYVRNVN-FEKAQS 145

Query: 61  FFQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKA 120
           FF R+P KD ASWNTMI+G+ ++  M KAR+LF +M EKN VSW+AMISGYIECG L+KA
Sbjct: 146 FFDRMPFKDAASWNTMITGYARRGEMEKARELFYSMMEKNEVSWNAMISGYIECGDLEKA 205

Query: 121 VELFKVAPVKSVVAWTAMISGYMKF---------------------------GYVENSWA 153
              FKVAPV+ VVAWTAMI+GYMK                            GYVENS  
Sbjct: 206 SHFFKVAPVRGVVAWTAMITGYMKAKKVELAEAMFKDMTVNKNLVTWNAMISGYVENSRP 265

Query: 154 EDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPL 213
           EDGLKL R M+  GIRPN+S LSS LLGCS LS+LQLG+Q+HQ+V KS LC D TALT L
Sbjct: 266 EDGLKLFRAMLEEGIRPNSSGLSSALLGCSELSALQLGRQIHQIVSKSTLCNDVTALTSL 325

Query: 214 ISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDS 273
           ISMYCKCG+L DA KLF  +++KDVV WNAMISGYAQHG  +KAL LF +M D  ++PD 
Sbjct: 326 ISMYCKCGELGDAWKLFEVMKKKDVVAWNAMISGYAQHGNADKALCLFREMIDNKIRPDW 385

Query: 274 ITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIK 333
           ITFVA+LLACNHAGLV++G+ YF+SMV DY +  +PDHYTCMVDLLGRAGKL EA+ LI+
Sbjct: 386 ITFVAVLLACNHAGLVNIGMAYFESMVRDYKVEPQPDHYTCMVDLLGRAGKLEEALKLIR 445

Query: 334 KMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWD 393
            MPF+P  A+FGTLL ACRVHK ++LAEFAA  L  LN  NAAG YVQLANIYA+  +W+
Sbjct: 446 SMPFRPHAAVFGTLLGACRVHKNVELAEFAAEKLLQLNSQNAAG-YVQLANIYASKNRWE 504

Query: 394 DVARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAG 453
           DVAR+R  MKE+NVVK+PGYSWIE+   VH FRS DR+HPEL SIH+KLKELEK+MKLAG
Sbjct: 505 DVARVRKRMKESNVVKVPGYSWIEIRNKVHHFRSSDRIHPELDSIHKKLKELEKKMKLAG 564

Query: 454 YVPDLEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATK 513
           Y P+LEFALH V EE KE+LLL+HSEKLA+AFG IK+P G+ I+VFKNLR+CGDCH+A K
Sbjct: 565 YKPELEFALHNVEEEQKEKLLLWHSEKLAVAFGCIKLPQGSQIQVFKNLRICGDCHKAIK 624

Query: 514 YISAIEKREIIVRDTTRFHHFKDGTCSCGDYW 545
           +IS IEKREIIVRDTTRFHHFKDG+CSCGDYW
Sbjct: 625 FISEIEKREIIVRDTTRFHHFKDGSCSCGDYW 656

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297804490|ref|XP_002870129.1| hypothetical protein ARALYDRAFT_329829 [Arabidopsis lyrata subsp. lyrata] gi|297315965|gb|EFH46388.1| hypothetical protein ARALYDRAFT_329829 [Arabidopsis lyrata subsp. lyrata]

 Score =  666 bits (1719), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 327/544 (60%), Positives = 394/544 (72%), Gaps = 46/544 (8%)

Query: 1   MNVKTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFD 60
           M  K TV+WNS+L G +K   ++ +A +LFD+IP+PD  SYNIMLSC + N +    A  
Sbjct: 87  MRAKNTVSWNSLLVGISKDPSRMMEAHQLFDEIPEPDTFSYNIMLSCYVRNGN-FEKAQS 145

Query: 61  FFQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKA 120
           FF R+P KD ASWNTMI+G+ ++  M KAR LF +M EKN VSW+AMISGYIECG L+KA
Sbjct: 146 FFNRMPFKDAASWNTMITGYARRGEMEKARVLFYSMMEKNEVSWNAMISGYIECGDLEKA 205

Query: 121 VELFKVAPVKSVVAWTAMISGYMKF---------------------------GYVENSWA 153
              FK AP + VVAWTAMI+GYMK                            GYVENS  
Sbjct: 206 AHFFKAAPFRGVVAWTAMITGYMKAKKVELAEAMFKDMTVKKNLVTWNAMISGYVENSRP 265

Query: 154 EDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPL 213
           EDGLKL R M+  GIRPN+S LSS LLGCS LS+L LG+Q+HQ+V               
Sbjct: 266 EDGLKLFRAMLEEGIRPNSSGLSSALLGCSELSALCLGRQIHQIV--------------- 310

Query: 214 ISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDS 273
             MYCKCG+L DA KLF  +++KDVV WNAMISGYAQHG  EKAL LF +M+D   KPD 
Sbjct: 311 --MYCKCGELGDAWKLFEAMKKKDVVAWNAMISGYAQHGNAEKALCLFHEMRDSKTKPDW 368

Query: 274 ITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIK 333
           ITFVA+LLACNHAGLVD+G+ YFDSMV DY +  +PDHYTCMVDLLGRAGK+ EA+ LI+
Sbjct: 369 ITFVAVLLACNHAGLVDIGMTYFDSMVRDYRVEPRPDHYTCMVDLLGRAGKVEEALKLIR 428

Query: 334 KMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWD 393
            MPF+P  A+FGTLL ACRVHK ++LAEFAA  L  L+P NAAG YVQLANIYA+   W+
Sbjct: 429 SMPFRPHAAVFGTLLGACRVHKNVELAEFAAEKLLELDPRNAAG-YVQLANIYASKNLWE 487

Query: 394 DVARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAG 453
           DVAR+R  MKE+NVVK+PGYSWIE+   +H FRS DR+HPEL SIH+KLKELE++MKLAG
Sbjct: 488 DVARVRKRMKESNVVKVPGYSWIEIRNKIHHFRSSDRIHPELDSIHKKLKELERKMKLAG 547

Query: 454 YVPDLEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATK 513
           Y P+LEFALH V EE KE+LLL+HSEKLA+AFG IK+P G+PI+VFKNLR+C    R + 
Sbjct: 548 YKPELEFALHNVEEEQKEKLLLWHSEKLAVAFGCIKLPQGSPIQVFKNLRICASGSRVSD 607

Query: 514 YISA 517
           +  A
Sbjct: 608 HFPA 611

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|222641236|gb|EEE69368.1| hypothetical protein OsJ_28705 [Oryza sativa Japonica Group]

 Score =  658 bits (1697), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 321/570 (56%), Positives = 401/570 (70%), Gaps = 30/570 (5%)

Query: 4   KTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQ 63
           KTT  +N +LAG+A+  G+L DA+ LFD+IP PD VSYN +LSC    S D   A   F 
Sbjct: 95  KTTATYNCLLAGYARALGRLADARHLFDRIPTPDAVSYNTLLSC-HFASGDADGARRLFA 153

Query: 64  RLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVEL 123
            +P++D  SWNTM+SG  +   + +A+ +FLAMP +NSVSW+AM+SG+     +  A E 
Sbjct: 154 SMPVRDVVSWNTMVSGLSKSGAVEEAKAVFLAMPVRNSVSWNAMVSGFACSRDMSAAEEW 213

Query: 124 FKVAPVKS-VVAWTAMISGYMKFG--------------------------YVENSWAEDG 156
           F+ AP K   V WTAM+SGYM  G                          YV+NS A+D 
Sbjct: 214 FRNAPEKGDAVLWTAMVSGYMDIGNVVKAIEYFEAMPVRNLVSWNAVVAGYVKNSHADDA 273

Query: 157 LKLLRMMI-GLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLIS 215
           L+L R M+    ++PNAS+LSSVLLGCS+LS+L  GKQ+HQ   K PL ++ T  T L+S
Sbjct: 274 LRLFRTMVREANVQPNASTLSSVLLGCSNLSALGFGKQIHQWCMKLPLSRNLTVGTSLVS 333

Query: 216 MYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSIT 275
           MYCKCGDL  ACKLF E+  +DVV WNAMISGYAQHG G++A+ LF++MKDEG++P+ IT
Sbjct: 334 MYCKCGDLSSACKLFGEMHTRDVVAWNAMISGYAQHGDGKEAINLFERMKDEGVEPNWIT 393

Query: 276 FVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM 335
           FVA+L AC H GL D GI+ F+ M   YGI  + DHY+CMVDLL RAGKL  AVDLI+ M
Sbjct: 394 FVAVLTACIHTGLCDFGIRCFEGMQELYGIEPRVDHYSCMVDLLCRAGKLERAVDLIRSM 453

Query: 336 PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDV 395
           PF+P P+ +GTLL+ACRV+K L+ AE AA  L   +P  +AG YVQLANIYA   +WDDV
Sbjct: 454 PFEPHPSAYGTLLAACRVYKNLEFAELAAGKLIEKDP-QSAGAYVQLANIYAGANQWDDV 512

Query: 396 ARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGYV 455
           +R+R  MK+N VVK PGYSWIE+  V+HEFRS DR+HP+L  IHEKL +L +RMK  GYV
Sbjct: 513 SRVRRWMKDNAVVKTPGYSWIEIKGVMHEFRSNDRLHPQLYLIHEKLGQLAERMKAMGYV 572

Query: 456 PDLEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYI 515
           PDL+F LH V E +K Q+L+ HSEKLAI+FGLI    G  +R+FKNLRVCGDCH A K I
Sbjct: 573 PDLDFVLHDVDETLKVQMLMRHSEKLAISFGLISTAPGMTLRIFKNLRVCGDCHNAAKVI 632

Query: 516 SAIEKREIIVRDTTRFHHFKDGTCSCGDYW 545
           S IE REII+RDTTRFHHF+ G CSCGDYW
Sbjct: 633 SKIEDREIILRDTTRFHHFRGGHCSCGDYW 662

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|27817913|dbj|BAC55678.1| putative pentatricopeptide (PPR) repeat-containing protein [Oryza sativa Japonica Group] gi|37806252|dbj|BAC99769.1| putative pentatricopeptide (PPR) repeat-containing protein [Oryza sativa Japonica Group]

 Score =  658 bits (1697), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 321/570 (56%), Positives = 401/570 (70%), Gaps = 30/570 (5%)

Query: 4   KTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQ 63
           KTT  +N +LAG+A+  G+L DA+ LFD+IP PD VSYN +LSC    S D   A   F 
Sbjct: 46  KTTATYNCLLAGYARALGRLADARHLFDRIPTPDAVSYNTLLSC-HFASGDADGARRLFA 104

Query: 64  RLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVEL 123
            +P++D  SWNTM+SG  +   + +A+ +FLAMP +NSVSW+AM+SG+     +  A E 
Sbjct: 105 SMPVRDVVSWNTMVSGLSKSGAVEEAKAVFLAMPVRNSVSWNAMVSGFACSRDMSAAEEW 164

Query: 124 FKVAPVKS-VVAWTAMISGYMKFG--------------------------YVENSWAEDG 156
           F+ AP K   V WTAM+SGYM  G                          YV+NS A+D 
Sbjct: 165 FRNAPEKGDAVLWTAMVSGYMDIGNVVKAIEYFEAMPVRNLVSWNAVVAGYVKNSHADDA 224

Query: 157 LKLLRMMI-GLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLIS 215
           L+L R M+    ++PNAS+LSSVLLGCS+LS+L  GKQ+HQ   K PL ++ T  T L+S
Sbjct: 225 LRLFRTMVREANVQPNASTLSSVLLGCSNLSALGFGKQIHQWCMKLPLSRNLTVGTSLVS 284

Query: 216 MYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSIT 275
           MYCKCGDL  ACKLF E+  +DVV WNAMISGYAQHG G++A+ LF++MKDEG++P+ IT
Sbjct: 285 MYCKCGDLSSACKLFGEMHTRDVVAWNAMISGYAQHGDGKEAINLFERMKDEGVEPNWIT 344

Query: 276 FVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM 335
           FVA+L AC H GL D GI+ F+ M   YGI  + DHY+CMVDLL RAGKL  AVDLI+ M
Sbjct: 345 FVAVLTACIHTGLCDFGIRCFEGMQELYGIEPRVDHYSCMVDLLCRAGKLERAVDLIRSM 404

Query: 336 PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDV 395
           PF+P P+ +GTLL+ACRV+K L+ AE AA  L   +P  +AG YVQLANIYA   +WDDV
Sbjct: 405 PFEPHPSAYGTLLAACRVYKNLEFAELAAGKLIEKDP-QSAGAYVQLANIYAGANQWDDV 463

Query: 396 ARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGYV 455
           +R+R  MK+N VVK PGYSWIE+  V+HEFRS DR+HP+L  IHEKL +L +RMK  GYV
Sbjct: 464 SRVRRWMKDNAVVKTPGYSWIEIKGVMHEFRSNDRLHPQLYLIHEKLGQLAERMKAMGYV 523

Query: 456 PDLEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYI 515
           PDL+F LH V E +K Q+L+ HSEKLAI+FGLI    G  +R+FKNLRVCGDCH A K I
Sbjct: 524 PDLDFVLHDVDETLKVQMLMRHSEKLAISFGLISTAPGMTLRIFKNLRVCGDCHNAAKVI 583

Query: 516 SAIEKREIIVRDTTRFHHFKDGTCSCGDYW 545
           S IE REII+RDTTRFHHF+ G CSCGDYW
Sbjct: 584 SKIEDREIILRDTTRFHHFRGGHCSCGDYW 613

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|125547694|gb|EAY93516.1| hypothetical protein OsI_15309 [Oryza sativa Indica Group]

 Score =  650 bits (1678), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 320/570 (56%), Positives = 398/570 (69%), Gaps = 30/570 (5%)

Query: 4   KTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQ 63
           KTT  +N +LAG+A+  G+L DA+ LFD+IP PDVVSYN +L C    S D   A   F 
Sbjct: 46  KTTATYNCLLAGYARAPGRLADARHLFDRIPTPDVVSYNTLLLC-HFASGDADGARRLFA 104

Query: 64  RLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVEL 123
            +P++D ASWNTM+SG  +   + +A+ +FLAMP +NSVSW+AM+SG+   G +  A E 
Sbjct: 105 SMPVRDVASWNTMVSGLSKSGAVEEAKVVFLAMPVRNSVSWNAMVSGFACSGDMSTAEEW 164

Query: 124 FKVAPVKS-VVAWTAMISGYMKFG--------------------------YVENSWAEDG 156
           F+ AP K   V WTAM+SGYM  G                          YV+NS A+D 
Sbjct: 165 FRNAPEKEDAVLWTAMVSGYMDIGNVVKAIKYFEAMPVRNLVSWNAVVAGYVKNSHADDA 224

Query: 157 LKLLRMMI-GLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLIS 215
           L+L R M+    ++PNAS+LSSVLLGCS+LS+L  GKQ+HQ   K  L ++ T  T L+S
Sbjct: 225 LRLFRTMVREANVQPNASTLSSVLLGCSNLSALGFGKQIHQWCMKLLLSRNLTVGTSLVS 284

Query: 216 MYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSIT 275
           MYCKCGDL  AC LF E+  +DVV WNAMISGYAQHG G++A+ LF++MKDEG++P+ IT
Sbjct: 285 MYCKCGDLSSACILFGEMHTRDVVAWNAMISGYAQHGDGKEAINLFERMKDEGVEPNWIT 344

Query: 276 FVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM 335
           FV +L AC H GL D GIQ F+ M   YGI  + DHY+CMVDLL RAGKL  AVD I+ M
Sbjct: 345 FVVVLTACIHTGLCDFGIQCFEGMQELYGIEPRVDHYSCMVDLLCRAGKLERAVDFIRSM 404

Query: 336 PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDV 395
           PF+P P+ +GTLL+ACRV+K L+ AE AA  L   +P  +AG YVQLANIYA   +WDDV
Sbjct: 405 PFEPHPSAYGTLLAACRVYKNLEFAELAAGKLIEKDP-QSAGAYVQLANIYAVANQWDDV 463

Query: 396 ARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGYV 455
           +R+R  MK+N VVK PGYSWIE+  V+HEFRS DR+HP+L  IHEKL +L +RMK  GYV
Sbjct: 464 SRVRRWMKDNTVVKTPGYSWIEIKGVLHEFRSNDRLHPQLYLIHEKLGQLAERMKEMGYV 523

Query: 456 PDLEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYI 515
           PDL+F LH V E +K Q+L+ HSEKLAIAFGLI    G  +R+FKNLRVCGDCH A K I
Sbjct: 524 PDLDFVLHDVDETMKVQMLMRHSEKLAIAFGLISTAHGMTLRIFKNLRVCGDCHNAAKVI 583

Query: 516 SAIEKREIIVRDTTRFHHFKDGTCSCGDYW 545
           S IE REII+RDTTRFHHF+ G CSC DYW
Sbjct: 584 SMIEDREIILRDTTRFHHFRGGHCSCDDYW 613

Source: Oryza sativa Indica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	545
TAIR|locus:2140235	781	AT4G02750 [Arabidopsis thalian	0.985	0.687	0.469	1.6e-134
TAIR|locus:2055919	786	AT2G22070 "AT2G22070" [Arabido	0.987	0.684	0.437	1.8e-116
TAIR|locus:2027554	704	AT1G56690 [Arabidopsis thalian	0.985	0.762	0.417	2.5e-113
TAIR|locus:2012295	705	AT1G09410 [Arabidopsis thalian	0.976	0.754	0.410	2.6e-109
TAIR|locus:2205200	741	OTP82 "AT1G08070" [Arabidopsis	0.981	0.721	0.402	5.7e-107
TAIR|locus:2154855	620	AT5G66520 "AT5G66520" [Arabido	0.979	0.861	0.407	1.2e-106
TAIR|locus:2078653	825	AT3G02010 [Arabidopsis thalian	0.970	0.641	0.389	1.4e-105
TAIR|locus:2131939	792	MEF29 "AT4G30700" [Arabidopsis	0.966	0.665	0.402	1.4e-103
TAIR|locus:2198546	760	AT1G20230 "AT1G20230" [Arabido	0.974	0.698	0.392	4.7e-103
TAIR|locus:2103483	890	OTP84 "ORGANELLE TRANSCRIPT PR	0.827	0.506	0.431	2.5e-102

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

 Score = 1318 (469.0 bits), Expect = 1.6e-134, P = 1.6e-134
 Identities = 256/545 (46%), Positives = 353/545 (64%)

Query:     1 MNVKTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFD 60
             MNV+  V+WN+++ G+A Q GK+ +A++LFD+ P  DV ++  M+S  + N   V  A +
Sbjct:   245 MNVRDVVSWNTIITGYA-QSGKIDEARQLFDESPVQDVFTWTAMVSGYIQNRM-VEEARE 302

Query:    61 FFQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKA 120
              F ++P ++  SWN M++G+VQ + M  A++LF  MP +N  +W+ MI+GY +CG++ +A
Sbjct:   303 LFDKMPERNEVSWNAMLAGYVQGERMEMAKELFDVMPCRNVSTWNTMITGYAQCGKISEA 362

Query:   121 VELFKVAPVKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLL 180
               LF   P +  V+W AMI+GY + G+     + + L+L   M   G R N SS SS L 
Sbjct:   363 KNLFDKMPKRDPVSWAAMIAGYSQSGH-----SFEALRLFVQMEREGGRLNRSSFSSALS 417

Query:   181 GCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVT 240
              C+ + +L+LGKQ+H  + K            L+ MYCKCG +E+A  LF E+  KD+V+
Sbjct:   418 TCADVVALELGKQLHGRLVKGGYETGCFVGNALLLMYCKCGSIEEANDLFKEMAGKDIVS 477

Query:   241 WNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMV 300
             WN MI+GY++HG GE ALR F+ MK EG+KPD  T VA+L AC+H GLVD G QYF +M 
Sbjct:   478 WNTMIAGYSRHGFGEVALRFFESMKREGLKPDDATMVAVLSACSHTGLVDKGRQYFYTMT 537

Query:   301 NDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLA 360
              DYG+     HY CMVDLLGRAG L +A +L+K MPF+P  AI+GTLL A RVH   +LA
Sbjct:   538 QDYGVMPNSQHYACMVDLLGRAGLLEDAHNLMKNMPFEPDAAIWGTLLGASRVHGNTELA 597

Query:   361 EFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVVKMPGYSWIEVGT 420
             E AA  +F + P N+ G YV L+N+YA+  +W DV ++R+ M++  V K+PGYSWIE+  
Sbjct:   598 ETAADKIFAMEPENS-GMYVLLSNLYASSGRWGDVGKLRVRMRDKGVKKVPGYSWIEIQN 656

Query:   421 VVHEFRSGDRVHPELVSIHXXXXXXXXXXXXAGYVPDLEFALHAVGEEVKEQLLLFHSEK 480
               H F  GD  HPE   I             AGYV      LH V EE KE+++ +HSE+
Sbjct:   657 KTHTFSVGDEFHPEKDEIFAFLEELDLRMKKAGYVSKTSVVLHDVEEEEKERMVRYHSER 716

Query:   481 LAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYISAIEKREIIVRDTTRFHHFKDGTCS 540
             LA+A+G+++V  G PIRV KNLRVC DCH A KY++ I  R II+RD  RFHHFKDG+CS
Sbjct:   717 LAVAYGIMRVSSGRPIRVIKNLRVCEDCHNAIKYMARITGRLIILRDNNRFHHFKDGSCS 776

Query:   541 CGDYW 545
             CGDYW
Sbjct:   777 CGDYW 781

GO:0005739 "mitochondrion" evidence=ISM

TAIR|locus:2055919 AT2G22070 "AT2G22070" [Arabidopsis thaliana (taxid:3702)]

 Score = 1072 (382.4 bits), Expect = 1.8e-116, Sum P(2) = 1.8e-116
 Identities = 243/556 (43%), Positives = 325/556 (58%)

Query:     1 MNVKTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYN-IMLSCIL---LNSDDVV 56
             M  +  V WNS+++GF  QRG    A ++F K+ +  ++S +   L+ +L    N + + 
Sbjct:   238 MAERDIVTWNSMISGF-NQRGYDLRALDIFSKMLRDSLLSPDRFTLASVLSACANLEKLC 296

Query:    57 AAFDFFQRLPIK--DTAS--WNTMISGFVQKKNMAKARDLFLAMPEKNSV--SWSAMISG 110
                     +     D +    N +IS + +   +  AR L      K+     ++A++ G
Sbjct:   297 IGKQIHSHIVTTGFDISGIVLNALISMYSRCGGVETARRLIEQRGTKDLKIEGFTALLDG 356

Query:   111 YIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRP 170
             YI+ G +++A  +F     + VVAWTAMI GY + G    S+ E  + L R M+G G RP
Sbjct:   357 YIKLGDMNQAKNIFVSLKDRDVVAWTAMIVGYEQHG----SYGE-AINLFRSMVGGGQRP 411

Query:   171 NASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLF 230
             N+ +L+++L   S L+SL  GKQ+H    KS      +    LI+MY K G++  A + F
Sbjct:   412 NSYTLAAMLSVASSLASLSHGKQIHGSAVKSGEIYSVSVSNALITMYAKAGNITSASRAF 471

Query:   231 LEIQ-RKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLV 289
               I+  +D V+W +MI   AQHG  E+AL LF+ M  EG++PD IT+V +  AC HAGLV
Sbjct:   472 DLIRCERDTVSWTSMIIALAQHGHAEEALELFETMLMEGLRPDHITYVGVFSACTHAGLV 531

Query:   290 DLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLS 349
             + G QYFD M +   I     HY CMVDL GRAG L EA + I+KMP +P    +G+LLS
Sbjct:   532 NQGRQYFDMMKDVDKIIPTLSHYACMVDLFGRAGLLQEAQEFIEKMPIEPDVVTWGSLLS 591

Query:   350 ACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVVK 409
             ACRVHK +DL + AA  L  L P N+ G Y  LAN+Y+A  KW++ A+IR SMK+  V K
Sbjct:   592 ACRVHKNIDLGKVAAERLLLLEPENS-GAYSALANLYSACGKWEEAAKIRKSMKDGRVKK 650

Query:   410 MPGYSWIEVGTVVHEFRSGDRVHPELVSIHXXXXXXXXXXXXAGYVPDLEFALHAVGEEV 469
               G+SWIEV   VH F   D  HPE   I+             GYVPD    LH + EEV
Sbjct:   651 EQGFSWIEVKHKVHVFGVEDGTHPEKNEIYMTMKKIWDEIKKMGYVPDTASVLHDLEEEV 710

Query:   470 KEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYISAIEKREIIVRDTT 529
             KEQ+L  HSEKLAIAFGLI  P  T +R+ KNLRVC DCH A K+IS +  REIIVRDTT
Sbjct:   711 KEQILRHHSEKLAIAFGLISTPDKTTLRIMKNLRVCNDCHTAIKFISKLVGREIIVRDTT 770

Query:   530 RFHHFKDGTCSCGDYW 545
             RFHHFKDG CSC DYW
Sbjct:   771 RFHHFKDGFCSCRDYW 786

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2027554 AT1G56690 [Arabidopsis thaliana (taxid:3702)]

 Score = 1118 (398.6 bits), Expect = 2.5e-113, P = 2.5e-113
 Identities = 228/546 (41%), Positives = 329/546 (60%)

Query:     1 MNVKTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFD 60
             M VK  V   +++ G  ++ G++ +A+ +FD++ + +VV++  M++    N+  V  A  
Sbjct:   167 MPVKDVVASTNMIGGLCRE-GRVDEARLIFDEMRERNVVTWTTMITGYRQNNR-VDVARK 224

Query:    61 FFQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKA 120
              F+ +P K   SW +M+ G+     +  A + F  MP K  ++ +AMI G+ E G++ KA
Sbjct:   225 LFEVMPEKTEVSWTSMLLGYTLSGRIEDAEEFFEVMPMKPVIACNAMIVGFGEVGEISKA 284

Query:   121 VELFKVAPVKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLL 180
               +F +   +    W  MI  Y + G+       + L L   M   G+RP+  SL S+L 
Sbjct:   285 RRVFDLMEDRDNATWRGMIKAYERKGF-----ELEALDLFAQMQKQGVRPSFPSLISILS 339

Query:   181 GCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVT 240
              C+ L+SLQ G+QVH  + +     D    + L++MY KCG+L  A  +F     KD++ 
Sbjct:   340 VCATLASLQYGRQVHAHLVRCQFDDDVYVASVLMTMYVKCGELVKAKLVFDRFSSKDIIM 399

Query:   241 WNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMV 300
             WN++ISGYA HG GE+AL++F +M   G  P+ +T +A+L AC++AG ++ G++ F+SM 
Sbjct:   400 WNSIISGYASHGLGEEALKIFHEMPSSGTMPNKVTLIAILTACSYAGKLEEGLEIFESME 459

Query:   301 NDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLA 360
             + + +    +HY+C VD+LGRAG++ +A++LI+ M  KP   ++G LL AC+ H RLDLA
Sbjct:   460 SKFCVTPTVEHYSCTVDMLGRAGQVDKAMELIESMTIKPDATVWGALLGACKTHSRLDLA 519

Query:   361 EFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVVKMPGYSWIEVGT 420
             E AA  LF   P NA G YV L++I A+  KW DVA +R +M+ NNV K PG SWIEVG 
Sbjct:   520 EVAAKKLFENEPDNA-GTYVLLSSINASRSKWGDVAVVRKNMRTNNVSKFPGCSWIEVGK 578

Query:   421 VVHEF-RSGDRVHPELVSIHXXXXXXXXXXXXAGYVPDLEFALHAVGEEVKEQLLLFHSE 479
              VH F R G + HPE   I             AGY PD    LH V EE K   L  HSE
Sbjct:   579 KVHMFTRGGIKNHPEQAMILMMLEKTDGLLREAGYSPDCSHVLHDVDEEEKVDSLSRHSE 638

Query:   480 KLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYISAIEKREIIVRDTTRFHHFKDGTC 539
             +LA+A+GL+K+P G PIRV KNLRVCGDCH A K IS + +REII+RD  RFHHF +G C
Sbjct:   639 RLAVAYGLLKLPEGVPIRVMKNLRVCGDCHAAIKLISKVTEREIILRDANRFHHFNNGEC 698

Query:   540 SCGDYW 545
             SC DYW
Sbjct:   699 SCRDYW 704

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2012295 AT1G09410 [Arabidopsis thaliana (taxid:3702)]

 Score = 1080 (385.2 bits), Expect = 2.6e-109, P = 2.6e-109
 Identities = 224/546 (41%), Positives = 330/546 (60%)

Query:     4 KTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNS--DDVVAAFDF 61
             K  +   S++ G  K+ G++ +A+E+FD++ +  V+++  M++    N+  DD    FD 
Sbjct:   170 KDNIARTSMIHGLCKE-GRVDEAREIFDEMSERSVITWTTMVTGYGQNNRVDDARKIFDV 228

Query:    62 FQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAV 121
                +P K   SW +M+ G+VQ   +  A +LF  MP K  ++ +AMISG  + G++ KA 
Sbjct:   229 ---MPEKTEVSWTSMLMGYVQNGRIEDAEELFEVMPVKPVIACNAMISGLGQKGEIAKAR 285

Query:   122 ELFKVAPVKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLG 181
              +F     ++  +W  +I  + +     N +  + L L  +M   G+RP   +L S+L  
Sbjct:   286 RVFDSMKERNDASWQTVIKIHER-----NGFELEALDLFILMQKQGVRPTFPTLISILSV 340

Query:   182 CSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTW 241
             C+ L+SL  GKQVH  + +     D    + L++MY KCG+L  +  +F     KD++ W
Sbjct:   341 CASLASLHHGKQVHAQLVRCQFDVDVYVASVLMTMYIKCGELVKSKLIFDRFPSKDIIMW 400

Query:   242 NAMISGYAQHGKGEKALRLFDKMKDEGM-KPDSITFVALLLACNHAGLVDLGIQYFDSMV 300
             N++ISGYA HG GE+AL++F +M   G  KP+ +TFVA L AC++AG+V+ G++ ++SM 
Sbjct:   401 NSIISGYASHGLGEEALKVFCEMPLSGSTKPNEVTFVATLSACSYAGMVEEGLKIYESME 460

Query:   301 NDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLA 360
             + +G+     HY CMVD+LGRAG+  EA+++I  M  +P  A++G+LL ACR H +LD+A
Sbjct:   461 SVFGVKPITAHYACMVDMLGRAGRFNEAMEMIDSMTVEPDAAVWGSLLGACRTHSQLDVA 520

Query:   361 EFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVVKMPGYSWIEVGT 420
             EF A  L  + P N+ G Y+ L+N+YA+  +W DVA +R  MK   V K PG SW EV  
Sbjct:   521 EFCAKKLIEIEPENS-GTYILLSNMYASQGRWADVAELRKLMKTRLVRKSPGCSWTEVEN 579

Query:   421 VVHEF-RSGDRVHPELVSIHXXXXXXXXXXXXAGYVPDLEFALHAVGEEVKEQLLLFHSE 479
              VH F R G   HPE  SI             AGY PD  +ALH V EE K   L +HSE
Sbjct:   580 KVHAFTRGGINSHPEQESILKILDELDGLLREAGYNPDCSYALHDVDEEEKVNSLKYHSE 639

Query:   480 KLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYISAIEKREIIVRDTTRFHHFKDGTC 539
             +LA+A+ L+K+  G PIRV KNLRVC DCH A K IS +++REII+RD  RFHHF++G C
Sbjct:   640 RLAVAYALLKLSEGIPIRVMKNLRVCSDCHTAIKIISKVKEREIILRDANRFHHFRNGEC 699

Query:   540 SCGDYW 545
             SC DYW
Sbjct:   700 SCKDYW 705

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2205200 OTP82 "AT1G08070" [Arabidopsis thaliana (taxid:3702)]

 Score = 1058 (377.5 bits), Expect = 5.7e-107, P = 5.7e-107
 Identities = 222/551 (40%), Positives = 327/551 (59%)

Query:     4 KTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILL--NSDDVVAAFDF 61
             +  V++ +++ G+A  RG +++AQ+LFD+IP  DVVS+N M+S      N  + +  F  
Sbjct:   198 RDVVSYTALIKGYAS-RGYIENAQKLFDEIPVKDVVSWNAMISGYAETGNYKEALELFKD 256

Query:    62 FQRLPIK-DTASWNTMISGFVQKKNMAKARDLFLAMPE----KNSVSWSAMISGYIECGQ 116
               +  ++ D ++  T++S   Q  ++   R + L + +     N    +A+I  Y +CG+
Sbjct:   257 MMKTNVRPDESTMVTVVSACAQSGSIELGRQVHLWIDDHGFGSNLKIVNALIDLYSKCGE 316

Query:   117 LDKAVELFKVAPVKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLS 176
             L+ A  LF+  P K V++W  +I GY       N + E  L L + M+  G  PN  ++ 
Sbjct:   317 LETACGLFERLPYKDVISWNTLIGGYTHM----NLYKE-ALLLFQEMLRSGETPNDVTML 371

Query:   177 SVLLGCSHLSSLQLGKQVHQLVFK--SPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQ 234
             S+L  C+HL ++ +G+ +H  + K    +   ++  T LI MY KCGD+E A ++F  I 
Sbjct:   372 SILPACAHLGAIDIGRWIHVYIDKRLKGVTNASSLRTSLIDMYAKCGDIEAAHQVFNSIL 431

Query:   235 RKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQ 294
              K + +WNAMI G+A HG+ + +  LF +M+  G++PD ITFV LL AC+H+G++DLG  
Sbjct:   432 HKSLSSWNAMIFGFAMHGRADASFDLFSRMRKIGIQPDDITFVGLLSACSHSGMLDLGRH 491

Query:   295 YFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVH 354
              F +M  DY +  K +HY CM+DLLG +G   EA ++I  M  +P   I+ +LL AC++H
Sbjct:   492 IFRTMTQDYKMTPKLEHYGCMIDLLGHSGLFKEAEEMINMMEMEPDGVIWCSLLKACKMH 551

Query:   355 KRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVVKMPGYS 414
               ++L E  A NL  + P N  G YV L+NIYA+  +W++VA+ R  + +  + K+PG S
Sbjct:   552 GNVELGESFAENLIKIEPENP-GSYVLLSNIYASAGRWNEVAKTRALLNDKGMKKVPGCS 610

Query:   415 WIEVGTVVHEFRSGDRVHPELVSIHXXXXXXXXXXXXAGYVPDLEFALHAVGEEVKEQLL 474
              IE+ +VVHEF  GD+ HP    I+            AG+VPD    L  + EE KE  L
Sbjct:   611 SIEIDSVVHEFIIGDKFHPRNREIYGMLEEMEVLLEKAGFVPDTSEVLQEMEEEWKEGAL 670

Query:   475 LFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYISAIEKREIIVRDTTRFHHF 534
               HSEKLAIAFGLI    GT + + KNLRVC +CH ATK IS I KREII RD TRFHHF
Sbjct:   671 RHHSEKLAIAFGLISTKPGTKLTIVKNLRVCRNCHEATKLISKIYKREIIARDRTRFHHF 730

Query:   535 KDGTCSCGDYW 545
             +DG CSC DYW
Sbjct:   731 RDGVCSCNDYW 741

GO:0003674 "molecular_function" evidence=ND

GO:0009507 "chloroplast" evidence=ISM

GO:0031425 "chloroplast RNA processing" evidence=IMP

TAIR|locus:2154855 AT5G66520 "AT5G66520" [Arabidopsis thaliana (taxid:3702)]

 Score = 1055 (376.4 bits), Expect = 1.2e-106, P = 1.2e-106
 Identities = 223/547 (40%), Positives = 321/547 (58%)

Query:     6 TVNWNSVLAGFA----KQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNS-DDVVAAFD 60
             T  WN ++ GF+     +R  L   + L    P       +++ +C  L++ ++      
Sbjct:    80 TFLWNLMIRGFSCSDEPERSLLLYQRMLCSSAPHNAYTFPSLLKACSNLSAFEETTQIHA 139

Query:    61 FFQRLPIK-DTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDK 119
                +L  + D  + N++I+ +    N   A  LF  +PE + VSW+++I GY++ G++D 
Sbjct:   140 QITKLGYENDVYAVNSLINSYAVTGNFKLAHLLFDRIPEPDDVSWNSVIKGYVKAGKMDI 199

Query:   120 AVELFKVAPVKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVL 179
             A+ LF+    K+ ++WT MISGY     V+    ++ L+L   M    + P+  SL++ L
Sbjct:   200 ALTLFRKMAEKNAISWTTMISGY-----VQADMNKEALQLFHEMQNSDVEPDNVSLANAL 254

Query:   180 LGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVV 239
               C+ L +L+ GK +H  + K+ +  D+     LI MY KCG++E+A ++F  I++K V 
Sbjct:   255 SACAQLGALEQGKWIHSYLNKTRIRMDSVLGCVLIDMYAKCGEMEEALEVFKNIKKKSVQ 314

Query:   240 TWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSM 299
              W A+ISGYA HG G +A+  F +M+  G+KP+ ITF A+L AC++ GLV+ G   F SM
Sbjct:   315 AWTALISGYAYHGHGREAISKFMEMQKMGIKPNVITFTAVLTACSYTGLVEEGKLIFYSM 374

Query:   300 VNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDL 359
               DY +    +HY C+VDLLGRAG L EA   I++MP KP   I+G LL ACR+HK ++L
Sbjct:   375 ERDYNLKPTIEHYGCIVDLLGRAGLLDEAKRFIQEMPLKPNAVIWGALLKACRIHKNIEL 434

Query:   360 AEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVVKMPGYSWIEVG 419
              E     L  ++P +  G YV  ANI+A  KKWD  A  R  MKE  V K+PG S I + 
Sbjct:   435 GEEIGEILIAIDPYHG-GRYVHKANIHAMDKKWDKAAETRRLMKEQGVAKVPGCSTISLE 493

Query:   420 TVVHEFRSGDRVHPELVSIHXXXXXXXXXXXXAGYVPDLE-FALHAVGEEVKEQLLLFHS 478
                HEF +GDR HPE+  I              GYVP+LE   L  V ++ +E ++  HS
Sbjct:   494 GTTHEFLAGDRSHPEIEKIQSKWRIMRRKLEENGYVPELEEMLLDLVDDDEREAIVHQHS 553

Query:   479 EKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYISAIEKREIIVRDTTRFHHFKDGT 538
             EKLAI +GLIK   GT IR+ KNLRVC DCH+ TK IS I KR+I++RD TRFHHF+DG 
Sbjct:   554 EKLAITYGLIKTKPGTIIRIMKNLRVCKDCHKVTKLISKIYKRDIVMRDRTRFHHFRDGK 613

Query:   539 CSCGDYW 545
             CSCGDYW
Sbjct:   614 CSCGDYW 620

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0016556 "mRNA modification" evidence=RCA

TAIR|locus:2078653 AT3G02010 [Arabidopsis thaliana (taxid:3702)]

 Score = 1045 (372.9 bits), Expect = 1.4e-105, P = 1.4e-105
 Identities = 212/544 (38%), Positives = 322/544 (59%)

Query:    10 NSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQRLPIKD 69
             N +L  ++K   ++ + + LFD++P+ D VSYN+++S     +D   A+  FF+ +    
Sbjct:   289 NQILDFYSKH-DRVLETRMLFDEMPELDFVSYNVVISSYS-QADQYEASLHFFREMQCMG 346

Query:    70 TASWN----TMISGFVQKKNMAKARDL----FLAMPEKNSVSWSAMISGYIECGQLDKAV 121
                 N    TM+S      ++   R L     LA  +      ++++  Y +C   ++A 
Sbjct:   347 FDRRNFPFATMLSIAANLSSLQMGRQLHCQALLATADSILHVGNSLVDMYAKCEMFEEAE 406

Query:   122 ELFKVAPVKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLG 181
              +FK  P ++ V+WTA+ISGY++ G +  +    GLKL   M G  +R + S+ ++VL  
Sbjct:   407 LIFKSLPQRTTVSWTALISGYVQKG-LHGA----GLKLFTKMRGSNLRADQSTFATVLKA 461

Query:   182 CSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTW 241
              +  +SL LGKQ+H  + +S   ++  + + L+ MY KCG ++DA ++F E+  ++ V+W
Sbjct:   462 SASFASLLLGKQLHAFIIRSGNLENVFSGSGLVDMYAKCGSIKDAVQVFEEMPDRNAVSW 521

Query:   242 NAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVN 301
             NA+IS +A +G GE A+  F KM + G++PDS++ + +L AC+H G V+ G +YF +M  
Sbjct:   522 NALISAHADNGDGEAAIGAFAKMIESGLQPDSVSILGVLTACSHCGFVEQGTEYFQAMSP 581

Query:   302 DYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAE 361
              YGI  K  HY CM+DLLGR G+  EA  L+ +MPF+P   ++ ++L+ACR+HK   LAE
Sbjct:   582 IYGITPKKKHYACMLDLLGRNGRFAEAEKLMDEMPFEPDEIMWSSVLNACRIHKNQSLAE 641

Query:   362 FAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVVKMPGYSWIEVGTV 421
              AA  LF++     A  YV ++NIYAA  +W+ V  ++ +M+E  + K+P YSW+EV   
Sbjct:   642 RAAEKLFSMEKLRDAAAYVSMSNIYAAAGEWEKVRDVKKAMRERGIKKVPAYSWVEVNHK 701

Query:   422 VHEFRSGDRVHPELVSIHXXXXXXXXXXXXAGYVPDLEFALHAVGEEVKEQLLLFHSEKL 481
             +H F S D+ HP    I              GY PD    +  V E++K + L +HSE+L
Sbjct:   702 IHVFSSNDQTHPNGDEIVRKINELTAEIEREGYKPDTSSVVQDVDEQMKIESLKYHSERL 761

Query:   482 AIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYISAIEKREIIVRDTTRFHHFKDGTCSC 541
             A+AF LI  P G PI V KNLR C DCH A K IS I KREI VRDT+RFHHF +G CSC
Sbjct:   762 AVAFALISTPEGCPIVVMKNLRACRDCHAAIKLISKIVKREITVRDTSRFHHFSEGVCSC 821

Query:   542 GDYW 545
             GDYW
Sbjct:   822 GDYW 825

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2131939 MEF29 "AT4G30700" [Arabidopsis thaliana (taxid:3702)]

 Score = 1026 (366.2 bits), Expect = 1.4e-103, P = 1.4e-103
 Identities = 218/542 (40%), Positives = 314/542 (57%)

Query:    12 VLAGFAK---QRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQRLPIK 68
             VL GF     + GK+K    LF +  +PD+V+YN M+     N +  ++    F+ L + 
Sbjct:   258 VLTGFISLYSKCGKIKMGSALFREFRKPDIVAYNAMIHGYTSNGETELS-LSLFKELMLS 316

Query:    69 DTA-SWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWS----AMISGYIECGQLDKAVEL 123
                   +T++S      ++     +     + N +S +    A+ + Y +  +++ A +L
Sbjct:   317 GARLRSSTLVSLVPVSGHLMLIYAIHGYCLKSNFLSHASVSTALTTVYSKLNEIESARKL 376

Query:   124 FKVAPVKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCS 183
             F  +P KS+ +W AMISGY      +N   ED + L R M      PN  +++ +L  C+
Sbjct:   377 FDESPEKSLPSWNAMISGY-----TQNGLTEDAISLFREMQKSEFSPNPVTITCILSACA 431

Query:   184 HLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNA 243
              L +L LGK VH LV  +         T LI MY KCG + +A +LF  + +K+ VTWN 
Sbjct:   432 QLGALSLGKWVHDLVRSTDFESSIYVSTALIGMYAKCGSIAEARRLFDLMTKKNEVTWNT 491

Query:   244 MISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDY 303
             MISGY  HG+G++AL +F +M + G+ P  +TF+ +L AC+HAGLV  G + F+SM++ Y
Sbjct:   492 MISGYGLHGQGQEALNIFYEMLNSGITPTPVTFLCVLYACSHAGLVKEGDEIFNSMIHRY 551

Query:   304 GIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFA 363
             G      HY CMVD+LGRAG L  A+  I+ M  +P  +++ TLL ACR+HK  +LA   
Sbjct:   552 GFEPSVKHYACMVDILGRAGHLQRALQFIEAMSIEPGSSVWETLLGACRIHKDTNLARTV 611

Query:   364 AMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVVKMPGYSWIEVGTVVH 423
             +  LF L+P N  G +V L+NI++A + +   A +R + K+  + K PGY+ IE+G   H
Sbjct:   612 SEKLFELDPDNV-GYHVLLSNIHSADRNYPQAATVRQTAKKRKLAKAPGYTLIEIGETPH 670

Query:   424 EFRSGDRVHPELVSIHXXXXXXXXXXXXAGYVPDLEFALHAVGEEVKEQLLLFHSEKLAI 483
              F SGD+ HP++  I+            AGY P+ E ALH V EE +E ++  HSE+LAI
Sbjct:   671 VFTSGDQSHPQVKEIYEKLEKLEGKMREAGYQPETELALHDVEEEERELMVKVHSERLAI 730

Query:   484 AFGLIKVPLGTPIRVFKNLRVCGDCHRATKYISAIEKREIIVRDTTRFHHFKDGTCSCGD 543
             AFGLI    GT IR+ KNLRVC DCH  TK IS I +R I+VRD  RFHHFKDG CSCGD
Sbjct:   731 AFGLIATEPGTEIRIIKNLRVCLDCHTVTKLISKITERVIVVRDANRFHHFKDGVCSCGD 790

Query:   544 YW 545
             YW
Sbjct:   791 YW 792

GO:0003674 "molecular_function" evidence=ND

GO:0000963 "mitochondrial RNA processing" evidence=IMP

GO:0005739 "mitochondrion" evidence=IDA

GO:0009507 "chloroplast" evidence=IDA

GO:0016554 "cytidine to uridine editing" evidence=IMP

GO:0080156 "mitochondrial mRNA modification" evidence=IMP

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

 Score = 1021 (364.5 bits), Expect = 4.7e-103, P = 4.7e-103
 Identities = 216/551 (39%), Positives = 328/551 (59%)

Query:     7 VNWNSVLAGFAKQRGKLKDAQELFDKIPQ----PDVVSYNIMLSCI----LLNSDDVVAA 58
             V+WN +L+GF +  G  K+A  +F KI      PD V+ + +L  +    +LN   ++  
Sbjct:   218 VSWNGILSGFNRS-GYHKEAVVMFQKIHHLGFCPDQVTVSSVLPSVGDSEMLNMGRLIHG 276

Query:    59 FDFFQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLD 118
             +   Q L +KD    + MI  + +  ++     LF       +   +A I+G    G +D
Sbjct:   277 YVIKQGL-LKDKCVISAMIDMYGKSGHVYGIISLFNQFEMMEAGVCNAYITGLSRNGLVD 335

Query:   119 KAVELFKVAPVKS----VVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASS 174
             KA+E+F++   ++    VV+WT++I+G       +N    + L+L R M   G++PN  +
Sbjct:   336 KALEMFELFKEQTMELNVVSWTSIIAGC-----AQNGKDIEALELFREMQVAGVKPNHVT 390

Query:   175 LSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQ 234
             + S+L  C ++++L  G+  H    +  L  +    + LI MY KCG +  +  +F  + 
Sbjct:   391 IPSMLPACGNIAALGHGRSTHGFAVRVHLLDNVHVGSALIDMYAKCGRINLSQIVFNMMP 450

Query:   235 RKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQ 294
              K++V WN++++G++ HGK ++ + +F+ +    +KPD I+F +LL AC   GL D G +
Sbjct:   451 TKNLVCWNSLMNGFSMHGKAKEVMSIFESLMRTRLKPDFISFTSLLSACGQVGLTDEGWK 510

Query:   295 YFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVH 354
             YF  M  +YGI  + +HY+CMV+LLGRAGKL EA DLIK+MPF+P   ++G LL++CR+ 
Sbjct:   511 YFKMMSEEYGIKPRLEHYSCMVNLLGRAGKLQEAYDLIKEMPFEPDSCVWGALLNSCRLQ 570

Query:   355 KRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVVKMPGYS 414
               +DLAE AA  LF+L P N  G YV L+NIYAA   W +V  IR  M+   + K PG S
Sbjct:   571 NNVDLAEIAAEKLFHLEPENP-GTYVLLSNIYAAKGMWTEVDSIRNKMESLGLKKNPGCS 629

Query:   415 WIEVGTVVHEFRSGDRVHPELVSIHXXXXXXXXXXXXAGYVPDLEFALHAVGEEVKEQLL 474
             WI+V   V+   +GD+ HP++  I             +G+ P+L+FALH V E+ +EQ+L
Sbjct:   630 WIQVKNRVYTLLAGDKSHPQIDQITEKMDEISKEMRKSGHRPNLDFALHDVEEQEQEQML 689

Query:   475 LFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYISAIEKREIIVRDTTRFHHF 534
               HSEKLA+ FGL+  P GTP++V KNLR+CGDCH   K+IS+   REI +RDT RFHHF
Sbjct:   690 WGHSEKLAVVFGLLNTPDGTPLQVIKNLRICGDCHAVIKFISSYAGREIFIRDTNRFHHF 749

Query:   535 KDGTCSCGDYW 545
             KDG CSCGD+W
Sbjct:   750 KDGICSCGDFW 760

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2103483 OTP84 "ORGANELLE TRANSCRIPT PROCESSING 84" [Arabidopsis thaliana (taxid:3702)]

 Score = 965 (344.8 bits), Expect = 2.5e-102, Sum P(2) = 2.5e-102
 Identities = 208/482 (43%), Positives = 285/482 (59%)

Query:    77 ISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAPVKSVVAWT 136
             I GFV K+ +   RD F+    +N+     ++  Y   G++D A+ +F     + +V W 
Sbjct:   427 IHGFVVKRGLD--RDRFV----QNT-----LMDMYSRLGKIDIAMRIFGKMEDRDLVTWN 475

Query:   137 AMISGYMKFGYVENSWAEDGLKLLRMMIGL-----------GIRPNASSLSSVLLGCSHL 185
              MI+GY+   + E+   ED L LL  M  L            ++PN+ +L ++L  C+ L
Sbjct:   476 TMITGYV---FSEHH--EDALLLLHKMQNLERKVSKGASRVSLKPNSITLMTILPSCAAL 530

Query:   186 SSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMI 245
             S+L  GK++H    K+ L  D    + L+ MY KCG L+ + K+F +I +K+V+TWN +I
Sbjct:   531 SALAKGKEIHAYAIKNNLATDVAVGSALVDMYAKCGCLQMSRKVFDQIPQKNVITWNVII 590

Query:   246 SGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGI 305
               Y  HG G++A+ L   M  +G+KP+ +TF+++  AC+H+G+VD G++ F  M  DYG+
Sbjct:   591 MAYGMHGNGQEAIDLLRMMMVQGVKPNEVTFISVFAACSHSGMVDEGLRIFYVMKPDYGV 650

Query:   306 AAKPDHYTCMVDLLGRAGKLVEAVDLIKKMP--FKPQPAIFGTLLSACRVHKRLDLAEFA 363
                 DHY C+VDLLGRAG++ EA  L+  MP  F    A + +LL A R+H  L++ E A
Sbjct:   651 EPSSDHYACVVDLLGRAGRIKEAYQLMNMMPRDFNKAGA-WSSLLGASRIHNNLEIGEIA 709

Query:   364 AMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVVKMPGYSWIEVGTVVH 423
             A NL  L P N A  YV LANIY++   WD    +R +MKE  V K PG SWIE G  VH
Sbjct:   710 AQNLIQLEP-NVASHYVLLANIYSSAGLWDKATEVRRNMKEQGVRKEPGCSWIEHGDEVH 768

Query:   424 EFRSGDRVHPELVSIHXXXXXXXXXXXXAGYVPDLEFALHAVGEEVKEQLLLFHSEKLAI 483
             +F +GD  HP+   +              GYVPD    LH V E+ KE LL  HSEKLAI
Sbjct:   769 KFVAGDSSHPQSEKLSGYLETLWERMRKEGYVPDTSCVLHNVEEDEKEILLCGHSEKLAI 828

Query:   484 AFGLIKVPLGTPIRVFKNLRVCGDCHRATKYISAIEKREIIVRDTTRFHHFKDGTCSCGD 543
             AFG++    GT IRV KNLRVC DCH ATK+IS I  REII+RD  RFH FK+GTCSCGD
Sbjct:   829 AFGILNTSPGTIIRVAKNLRVCNDCHLATKFISKIVDREIILRDVRRFHRFKNGTCSCGD 888

Query:   544 YW 545
             YW
Sbjct:   889 YW 890

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0031425 "chloroplast RNA processing" evidence=IMP

---

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)
Q9M4P3	PP316_ARATH	No assigned EC number	0.6503	0.9963	0.8277	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

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	545
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-143
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-139
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	6e-40
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	2e-34
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	9e-31
pfam14432	116	pfam14432, DYW_deaminase, DYW family of nucleic ac	4e-29
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	6e-26
pfam13041	50	pfam13041, PPR_2, PPR repeat family	6e-15
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	5e-10
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	5e-10
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-09
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-09
pfam01535	31	pfam01535, PPR, PPR repeat	7e-09
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	7e-09
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-07
pfam13041	50	pfam13041, PPR_2, PPR repeat family	6e-07
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-06
pfam12854	34	pfam12854, PPR_1, PPR repeat	3e-06
pfam13041	50	pfam13041, PPR_2, PPR repeat family	5e-06
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-05
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	3e-04
pfam01535	31	pfam01535, PPR, PPR repeat	7e-04
pfam01535	31	pfam01535, PPR, PPR repeat	0.002
pfam01535	31	pfam01535, PPR, PPR repeat	0.004

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

 Score =  428 bits (1101), Expect = e-143
 Identities = 197/546 (36%), Positives = 310/546 (56%), Gaps = 18/546 (3%)

Query: 9   WNSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFF----QR 64
            N VL    K  G L DA+ LFD++P+ ++ S+  ++   L+++ +   AF  F    + 
Sbjct: 161 MNRVLLMHVKC-GMLIDARRLFDEMPERNLASWGTIIGG-LVDAGNYREAFALFREMWED 218

Query: 65  LPIKDTASWNTMI-----SGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDK 119
               +  ++  M+      G  +         L   +     VS  A+I  Y +CG ++ 
Sbjct: 219 GSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVS-CALIDMYSKCGDIED 277

Query: 120 AVELFKVAPVKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVL 179
           A  +F   P K+ VAW +M++GY   GY     +E+ L L   M   G+  +  + S ++
Sbjct: 278 ARCVFDGMPEKTTVAWNSMLAGYALHGY-----SEEALCLYYEMRDSGVSIDQFTFSIMI 332

Query: 180 LGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVV 239
              S L+ L+  KQ H  + ++    D  A T L+ +Y K G +EDA  +F  + RK+++
Sbjct: 333 RIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLI 392

Query: 240 TWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSM 299
           +WNA+I+GY  HG+G KA+ +F++M  EG+ P+ +TF+A+L AC ++GL + G + F SM
Sbjct: 393 SWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSM 452

Query: 300 VNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDL 359
             ++ I  +  HY CM++LLGR G L EA  +I++ PFKP   ++  LL+ACR+HK L+L
Sbjct: 453 SENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLEL 512

Query: 360 AEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVVKMPGYSWIEVG 419
              AA  L+ + P      YV L N+Y +  +  + A++  ++K   +   P  +WIEV 
Sbjct: 513 GRLAAEKLYGMGP-EKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSMHPACTWIEVK 571

Query: 420 TVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGYVPDLEFALHAVGEEVKEQLLLFHSE 479
              H F SGDR+HP+   I++KL EL K +   GYV +    L  V E+ ++    +HSE
Sbjct: 572 KQDHSFFSGDRLHPQSREIYQKLDELMKEISEYGYVAEENELLPDVDEDEEKVSGRYHSE 631

Query: 480 KLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYISAIEKREIIVRDTTRFHHFKDGTC 539
           KLAIAFGLI     TP+++ ++ R+C DCH+  K+I+ + KREI+VRD +RFHHFK G C
Sbjct: 632 KLAIAFGLINTSEWTPLQITQSHRICKDCHKVIKFIALVTKREIVVRDASRFHHFKLGKC 691

Query: 540 SCGDYW 545
           SCGDYW
Sbjct: 692 SCGDYW 697

Length = 697

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

 Score =  422 bits (1087), Expect = e-139
 Identities = 204/522 (39%), Positives = 303/522 (58%), Gaps = 50/522 (9%)

Query: 62  FQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVS------------------ 103
           F R+  KD  SW  MISG+ +     KA + + A+ E+++VS                  
Sbjct: 346 FSRMETKDAVSWTAMISGYEKNGLPDKALETY-ALMEQDNVSPDEITIASVLSACACLGD 404

Query: 104 ----------------------WSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISG 141
                                  +A+I  Y +C  +DKA+E+F   P K V++WT++I+G
Sbjct: 405 LDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAG 464

Query: 142 YMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKS 201
            ++     N+   + L   R M+ L ++PN+ +L + L  C+ + +L  GK++H  V ++
Sbjct: 465 -LRL----NNRCFEALIFFRQML-LTLKPNSVTLIAALSACARIGALMCGKEIHAHVLRT 518

Query: 202 PLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLF 261
            +  D      L+ +Y +CG +  A   F     KDVV+WN +++GY  HGKG  A+ LF
Sbjct: 519 GIGFDGFLPNALLDLYVRCGRMNYAWNQF-NSHEKDVVSWNILLTGYVAHGKGSMAVELF 577

Query: 262 DKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGR 321
           ++M + G+ PD +TF++LL AC+ +G+V  G++YF SM   Y I     HY C+VDLLGR
Sbjct: 578 NRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGR 637

Query: 322 AGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQ 381
           AGKL EA + I KMP  P PA++G LL+ACR+H+ ++L E AA ++F L+P N+ G Y+ 
Sbjct: 638 AGKLTEAYNFINKMPITPDPAVWGALLNACRIHRHVELGELAAQHIFELDP-NSVGYYIL 696

Query: 382 LANIYAAMKKWDDVARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEK 441
           L N+YA   KWD+VAR+R +M+EN +   PG SW+EV   VH F + D  HP++  I+  
Sbjct: 697 LCNLYADAGKWDEVARVRKTMRENGLTVDPGCSWVEVKGKVHAFLTDDESHPQIKEINTV 756

Query: 442 LKELEKRMKLAGYVPDLEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKN 501
           L+   ++MK +G       ++  + E  K+ +   HSE+LAIAFGLI    G PI V KN
Sbjct: 757 LEGFYEKMKASGLAGSESSSMDEI-EVSKDDIFCGHSERLAIAFGLINTVPGMPIWVTKN 815

Query: 502 LRVCGDCHRATKYISAIEKREIIVRDTTRFHHFKDGTCSCGD 543
           L +C +CH   K+IS I +REI VRDT +FHHFKDG CSCGD
Sbjct: 816 LYMCENCHNTVKFISKIVRREISVRDTEQFHHFKDGECSCGD 857

Length = 857

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

 Score =  155 bits (392), Expect = 6e-40
 Identities = 88/340 (25%), Positives = 159/340 (46%), Gaps = 54/340 (15%)

Query: 42  NIMLSCILLNSDDVVAAFDFFQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAM----- 96
           N MLS + +   ++V A+  F ++P +D  SWN ++ G+ +     +A  L+  M     
Sbjct: 125 NAMLS-MFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGV 183

Query: 97  -PEKNSV-----------SW----------------------SAMISGYIECGQLDKAVE 122
            P+  +                                    +A+I+ Y++CG +  A  
Sbjct: 184 RPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARL 243

Query: 123 LFKVAPVKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGC 182
           +F   P +  ++W AMISGY      EN    +GL+L   M  L + P+  +++SV+  C
Sbjct: 244 VFDRMPRRDCISWNAMISGYF-----ENGECLEGLELFFTMRELSVDPDLMTITSVISAC 298

Query: 183 SHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWN 242
             L   +LG+++H  V K+    D +    LI MY   G   +A K+F  ++ KD V+W 
Sbjct: 299 ELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWT 358

Query: 243 AMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVN- 301
           AMISGY ++G  +KAL  +  M+ + + PD IT  ++L AC   G +D+G++  +     
Sbjct: 359 AMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERK 418

Query: 302 ---DYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFK 338
               Y + A       ++++  +   + +A+++   +P K
Sbjct: 419 GLISYVVVA-----NALIEMYSKCKCIDKALEVFHNIPEK 453

Length = 857

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

 Score =  137 bits (347), Expect = 2e-34
 Identities = 90/333 (27%), Positives = 145/333 (43%), Gaps = 59/333 (17%)

Query: 21  GKLKDAQELFD--KIPQP---DVVSYN-IMLSCILLNSDDVVAA---------FDFFQRL 65
           G+ ++A ELF+  +   P      +Y+ ++ +CI L S   V A         F+  Q +
Sbjct: 101 GRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYM 160

Query: 66  PIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFK 125
                   N ++   V+   +  AR LF  MPE+N  SW  +I G ++ G   +A  LF 
Sbjct: 161 -------MNRVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALF- 212

Query: 126 VAPVKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHL 185
                                              R M   G      +   +L   + L
Sbjct: 213 -----------------------------------REMWEDGSDAEPRTFVVMLRASAGL 237

Query: 186 SSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMI 245
            S + G+Q+H  V K+ +  DT     LI MY KCGD+EDA  +F  +  K  V WN+M+
Sbjct: 238 GSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSML 297

Query: 246 SGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGI 305
           +GYA HG  E+AL L+ +M+D G+  D  TF  ++   +   L++   Q    ++   G 
Sbjct: 298 AGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRT-GF 356

Query: 306 AAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFK 338
                  T +VDL  + G++ +A ++  +MP K
Sbjct: 357 PLDIVANTALVDLYSKWGRMEDARNVFDRMPRK 389

Length = 697

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

 Score =  126 bits (319), Expect = 9e-31
 Identities = 91/349 (26%), Positives = 150/349 (42%), Gaps = 53/349 (15%)

Query: 105 SAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMI 164
           +AM+S ++  G+L  A  +F   P + + +W  ++ GY K GY +     + L L   M+
Sbjct: 125 NAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFD-----EALCLYHRML 179

Query: 165 GLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLE 224
             G+RP+  +   VL  C  +  L  G++VH  V +     D   +  LI+MY KCGD+ 
Sbjct: 180 WAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVV 239

Query: 225 DACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACN 284
            A  +F  + R+D ++WNAMISGY ++G+  + L LF  M++  + PD +T  +++ AC 
Sbjct: 240 SARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACE 299

Query: 285 HAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFK------ 338
             G   LG +     V   G A        ++ +    G   EA  +  +M  K      
Sbjct: 300 LLGDERLGRE-MHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWT 358

Query: 339 -----------PQPAI-----------------FGTLLSACRVHKRLDLAEFAAMNLFNL 370
                      P  A+                   ++LSAC     LD+     + L  L
Sbjct: 359 AMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDV----GVKLHEL 414

Query: 371 NPANAAGCYVQLAN----IYAAMKKWDDVARIRLSMKENNVVKMPGYSW 415
                   YV +AN    +Y+  K  D    +  ++ E +V+     SW
Sbjct: 415 AERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVI-----SW 458

Length = 857

>gnl|CDD|222749 pfam14432, DYW_deaminase, DYW family of nucleic acid deaminases

 Score =  110 bits (278), Expect = 4e-29
 Identities = 53/132 (40%), Positives = 71/132 (53%), Gaps = 23/132 (17%)

Query: 411 PGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGYVPDLEFALHAVGEE-- 468
           PG  W E      +  SGD  HP         +EL +R+K+ G VP+ +   H V  E  
Sbjct: 1   PGCVWSEG----KKTLSGDGSHPT------SKEELFQRIKVEGVVPETKEIGHDVDAEEF 50

Query: 469 ----VKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNL-RVCGDCHRATKYISAIEKREI 523
               +K +LL  H+EK A+A+GL+        R+ K L R+CGDCH   +YI+    REI
Sbjct: 51  RDNGIKGKLLASHAEKQALAYGLL------TTRIIKVLKRMCGDCHEFFRYIAKYTGREI 104

Query: 524 IVRDTTRFHHFK 535
           IVRD +RFHHFK
Sbjct: 105 IVRDPSRFHHFK 116

A family of nucleic acid deaminases prototyped by the plant PPR DYW proteins that are implicated in chloroplast and mitochondrial RNA transcript maturation by numerous C to U editing events. The name derives from the DYW motif present at the C-terminus of the classical plant PPR DYW deaminases. Members of this family are present in bacteria, plants, Naegleria, and fungi. Plants and Naegleria show lineage-specific expansions of this family. The classical DYW family contain an additional C-terminal metal-binding cluster composed of 2 histidines and a CxC motif and are often fused to PPR repeats. Ascomycete versions, which are independent lateral transfers, contain a large insert within the domain and are often fused to ankyrin repeats. Bacterial versions are predicted to function as toxins in polymorphic toxin systems. Length = 116

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

 Score =  112 bits (281), Expect = 6e-26
 Identities = 76/317 (23%), Positives = 137/317 (43%), Gaps = 78/317 (24%)

Query: 10  NSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQRL---- 65
           N+++  + K  G +  A+ +FD++P+ D +S+N M+S    N  + +   + F  +    
Sbjct: 226 NALITMYVKC-GDVVSARLVFDRMPRRDCISWNAMISGYFEN-GECLEGLELFFTMRELS 283

Query: 66  ------------------------------PIK-----DTASWNTMISGFVQKKNMAKAR 90
                                          +K     D +  N++I  ++   +  +A 
Sbjct: 284 VDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAE 343

Query: 91  DLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGYVEN 150
            +F  M  K++VSW+AMISGY + G  DKA+E +                          
Sbjct: 344 KVFSRMETKDAVSWTAMISGYEKNGLPDKALETY-------------------------- 377

Query: 151 SWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTAL 210
                      +M    + P+  +++SVL  C+ L  L +G ++H+L  +  L       
Sbjct: 378 ----------ALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVA 427

Query: 211 TPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMK 270
             LI MY KC  ++ A ++F  I  KDV++W ++I+G   + +  +AL  F +M    +K
Sbjct: 428 NALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLLT-LK 486

Query: 271 PDSITFVALLLACNHAG 287
           P+S+T +A L AC   G
Sbjct: 487 PNSVTLIAALSACARIG 503

Length = 857

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

 Score = 68.6 bits (169), Expect = 6e-15
 Identities = 22/48 (45%), Positives = 33/48 (68%)

Query: 236 KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLAC 283
            DVVT+N +I GY + GK E+AL+LF++MK  G+KP+  T+  L+   
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

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

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

 Score = 61.8 bits (150), Expect = 5e-10
 Identities = 74/287 (25%), Positives = 120/287 (41%), Gaps = 51/287 (17%)

Query: 1   MNVKTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVV---- 56
           M  KTTV WNS+LAG+A   G  ++A  L+ ++    V       S ++     +     
Sbjct: 285 MPEKTTVAWNSMLAGYALH-GYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEH 343

Query: 57  ---AAFDFFQR-LPIKDTASWNTMISGFVQK-KNMAKARDLFLAMPEKNSVSWSAMISGY 111
              A     +   P+   A  NT +     K   M  AR++F  MP KN +SW+A+I+GY
Sbjct: 344 AKQAHAGLIRTGFPLDIVA--NTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGY 401

Query: 112 IECGQLDKAVELF------KVAPVKSVVAWTAMISGYMKFGYVENSW------AED-GLK 158
              G+  KAVE+F       VAP  + V + A++S     G  E  W      +E+  +K
Sbjct: 402 GNHGRGTKAVEMFERMIAEGVAP--NHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIK 459

Query: 159 LLRM----MIGL-----------------GIRPNASSLSSVLLGCSHLSSLQLGKQV-HQ 196
              M    MI L                   +P  +  +++L  C    +L+LG+    +
Sbjct: 460 PRAMHYACMIELLGREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEK 519

Query: 197 LVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNA 243
           L    P  +       L+++Y   G   +A K+   ++RK +    A
Sbjct: 520 LYGMGP--EKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSMHPA 564

Length = 697

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

 Score = 62.2 bits (151), Expect = 5e-10
 Identities = 57/264 (21%), Positives = 113/264 (42%), Gaps = 20/264 (7%)

Query: 69  DTASWNTMISGFVQKKNMAKARDLFLAM-----PEK-NSVSWSAMISGYIECGQLDKAVE 122
           D   +N +IS   Q   + +A D+   M     P   + ++  A++      GQ+D+A E
Sbjct: 541 DRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKE 600

Query: 123 LFKV---APVKSVVA-WTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSV 178
           ++++     +K     +T  ++   + G  + +     L +   M   G++P+    S++
Sbjct: 601 VYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFA-----LSIYDDMKKKGVKPDEVFFSAL 655

Query: 179 LLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQ---- 234
           +    H   L    ++ Q   K  +   T + + L+       + + A +L+ +I+    
Sbjct: 656 VDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKL 715

Query: 235 RKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQ 294
           R  V T NA+I+   +  +  KAL +  +MK  G+ P++IT+  LL+A       D+G+ 
Sbjct: 716 RPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLD 775

Query: 295 YFDSMVNDYGIAAKPDHYTCMVDL 318
                  D GI        C+  L
Sbjct: 776 LLSQAKED-GIKPNLVMCRCITGL 798

Length = 1060

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

 Score = 60.7 bits (147), Expect = 1e-09
 Identities = 53/205 (25%), Positives = 93/205 (45%), Gaps = 20/205 (9%)

Query: 170 PNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKL 229
           P  S+ + ++  C+    +    +V +LV ++ L  D    T LIS   K G ++   ++
Sbjct: 435 PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEV 494

Query: 230 FLEIQ----RKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNH 285
           F E+       +V T+ A+I G A+ G+  KA   +  M+ + +KPD + F AL+ AC  
Sbjct: 495 FHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQ 554

Query: 286 AGLVDLGIQYFDSMVNDYGIAA---KPDHYTCMVDLL-------GRAGKLVEAVDLIKKM 335
           +G VD   + FD ++ +         PDH T  V  L       G+  +  E   +I + 
Sbjct: 555 SGAVD---RAFD-VLAEMKAETHPIDPDHIT--VGALMKACANAGQVDRAKEVYQMIHEY 608

Query: 336 PFKPQPAIFGTLLSACRVHKRLDLA 360
             K  P ++   +++C      D A
Sbjct: 609 NIKGTPEVYTIAVNSCSQKGDWDFA 633

Length = 1060

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

 Score = 60.3 bits (146), Expect = 2e-09
 Identities = 74/368 (20%), Positives = 166/368 (45%), Gaps = 36/368 (9%)

Query: 18  KQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQRLPIK----DTASW 73
           K++  +K+A      I  P + ++N+++S +  +S D+  A    + +       D   +
Sbjct: 417 KKQRAVKEAFRFAKLIRNPTLSTFNMLMS-VCASSQDIDGALRVLRLVQEAGLKADCKLY 475

Query: 74  NTMISGFVQKKNMAKARDLFLAMP----EKNSVSWSAMISGYIECGQLDKAVELFKVAPV 129
            T+IS   +   +    ++F  M     E N  ++ A+I G    GQ+ KA   + +   
Sbjct: 476 TTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRS 535

Query: 130 KSV----VAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHL 185
           K+V    V + A+IS   + G V+   A D L  ++      I P+  ++ +++  C++ 
Sbjct: 536 KNVKPDRVVFNALISACGQSGAVDR--AFDVLAEMKAE-THPIDPDHITVGALMKACANA 592

Query: 186 SSLQLGKQVHQLVFKSPLCKDTTAL-TPLISMYCKCGDLEDACKLFLEIQRKDV----VT 240
             +   K+V+Q++ +  + K T  + T  ++   + GD + A  ++ ++++K V    V 
Sbjct: 593 GQVDRAKEVYQMIHEYNI-KGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVF 651

Query: 241 WNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMV 300
           ++A++      G  +KA  +    + +G+K  ++++ +L+ AC++A      ++ ++ + 
Sbjct: 652 FSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDI- 710

Query: 301 NDYGIAAKPDHYT--------CMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACR 352
               I  +P   T        C  + L +A   +E +  +K++   P    +  LL A  
Sbjct: 711 --KSIKLRPTVSTMNALITALCEGNQLPKA---LEVLSEMKRLGLCPNTITYSILLVASE 765

Query: 353 VHKRLDLA 360
                D+ 
Sbjct: 766 RKDDADVG 773

Length = 1060

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

 Score = 50.9 bits (123), Expect = 7e-09
 Identities = 17/31 (54%), Positives = 26/31 (83%)

Query: 239 VTWNAMISGYAQHGKGEKALRLFDKMKDEGM 269
           VT+N++ISGY + GK E+AL LF +MK++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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 50.9 bits (123), Expect = 7e-09
 Identities = 16/35 (45%), Positives = 25/35 (71%)

Query: 239 VTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDS 273
           VT+N +I G  + G+ E+AL LF +MK+ G++PD 
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 = 47.4 bits (114), Expect = 2e-07
 Identities = 14/48 (29%), Positives = 26/48 (54%), Gaps = 4/48 (8%)

Query: 68  KDTASWNTMISGFVQKKNMAKARDLFLAMPEK----NSVSWSAMISGY 111
            D  ++NT+I G+ +K  + +A  LF  M ++    N  ++S +I G 
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

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

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

 Score = 45.9 bits (110), Expect = 6e-07
 Identities = 16/42 (38%), Positives = 27/42 (64%), Gaps = 4/42 (9%)

Query: 213 LISMYCKCGDLEDACKLFLEIQRK----DVVTWNAMISGYAQ 250
           LI  YCK G +E+A KLF E++++    +V T++ +I G  +
Sbjct: 9   LIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 44.7 bits (107), Expect = 2e-06
 Identities = 13/48 (27%), Positives = 32/48 (66%), Gaps = 5/48 (10%)

Query: 4  KTTVNWNSVLAGFAKQRGKLKDAQELFDKIP----QPDVVSYNIMLSC 47
             V +N+++ G+ K+ GK+++A +LF+++     +P+V +Y+I++  
Sbjct: 1  PDVVTYNTLIDGYCKK-GKVEEALKLFNEMKKRGIKPNVYTYSILIDG 47

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

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

 Score = 43.5 bits (104), Expect = 3e-06
 Identities = 12/29 (41%), Positives = 21/29 (72%)

Query: 237 DVVTWNAMISGYAQHGKGEKALRLFDKMK 265
           DVVT+N +I G  + G+ ++A+ L D+M+
Sbjct: 6   DVVTYNTLIDGLCRAGRVDEAVELLDEME 34

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

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

 Score = 43.5 bits (104), Expect = 5e-06
 Identities = 13/52 (25%), Positives = 30/52 (57%), Gaps = 8/52 (15%)

Query: 99  KNSVSWSAMISGYIECGQLDKAVELFK------VAPVKSVVAWTAMISGYMK 144
            + V+++ +I GY + G++++A++LF       + P  +V  ++ +I G  K
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKP--NVYTYSILIDGLCK 50

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

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

 Score = 42.4 bits (101), Expect = 1e-05
 Identities = 19/55 (34%), Positives = 26/55 (47%), Gaps = 5/55 (9%)

Query: 130 KSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSH 184
             VV +  +I GY K G V     E+ LKL   M   GI+PN  + S ++ G   
Sbjct: 1   PDVVTYNTLIDGYCKKGKV-----EEALKLFNEMKKRGIKPNVYTYSILIDGLCK 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|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 37.9 bits (89), Expect = 3e-04
 Identities = 12/34 (35%), Positives = 22/34 (64%)

Query: 238 VVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKP 271
           + T+NA++   A+ G  + AL + ++MK  G+KP
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 = 36.7 bits (86), Expect = 7e-04
 Identities = 12/24 (50%), Positives = 22/24 (91%)

Query: 102 VSWSAMISGYIECGQLDKAVELFK 125
           V+++++ISGY + G+L++A+ELFK
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFK 24

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|144943 pfam01535, PPR, PPR repeat

 Score = 35.5 bits (83), Expect = 0.002
 Identities = 10/29 (34%), Positives = 19/29 (65%)

Query: 72  SWNTMISGFVQKKNMAKARDLFLAMPEKN 100
           ++N++ISG+ +   + +A +LF  M EK 
Sbjct: 2   TYNSLISGYCKAGKLEEALELFKEMKEKG 30

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|144943 pfam01535, PPR, PPR repeat

 Score = 34.7 bits (81), Expect = 0.004
 Identities = 15/26 (57%), Positives = 19/26 (73%)

Query: 213 LISMYCKCGDLEDACKLFLEIQRKDV 238
           LIS YCK G LE+A +LF E++ K V
Sbjct: 6   LISGYCKAGKLEEALELFKEMKEKGV 31

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	545
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.96
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.96
PF14432	116	DYW_deaminase: DYW family of nucleic acid deaminas	99.95
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.88
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.88
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.87
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.87
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.87
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.86
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.84
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.84
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.82
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.82
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.81
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.77
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.77
PRK14574	822	hmsH outer membrane protein; Provisional	99.76
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.75
PRK14574	822	hmsH outer membrane protein; Provisional	99.69
KOG2003	840	consensus TPR repeat-containing protein [General f	99.66
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.63
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.6
KOG2076	895	consensus RNA polymerase III transcription factor	99.58
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.56
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.53
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.52
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.52
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.51
KOG1126	638	consensus DNA-binding cell division cycle control	99.51
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.49
KOG2003	840	consensus TPR repeat-containing protein [General f	99.49
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.48
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.47
KOG1126	638	consensus DNA-binding cell division cycle control	99.45
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.45
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.45
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.45
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.43
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.41
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.39
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.39
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.38
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.37
KOG2076	895	consensus RNA polymerase III transcription factor	99.36
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.34
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.33
PRK12370	553	invasion protein regulator; Provisional	99.33
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.32
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.3
PF13041	50	PPR_2: PPR repeat family	99.3
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.26
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.25
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.24
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.24
PF13041	50	PPR_2: PPR repeat family	99.22
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.2
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.18
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.18
PRK12370	553	invasion protein regulator; Provisional	99.18
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.12
PRK11189	296	lipoprotein NlpI; Provisional	99.12
PRK11189	296	lipoprotein NlpI; Provisional	99.11
KOG1129	478	consensus TPR repeat-containing protein [General f	99.1
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.09
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.08
KOG1129	478	consensus TPR repeat-containing protein [General f	99.06
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.02
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.01
KOG1125	579	consensus TPR repeat-containing protein [General f	98.98
KOG2047	835	consensus mRNA splicing factor [RNA processing and	98.96
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.94
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.86
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	98.85
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.85
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.84
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.81
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	98.8
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.74
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.73
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.73
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.72
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.71
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.7
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.7
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.69
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.67
PRK04841	903	transcriptional regulator MalT; Provisional	98.67
PRK04841	903	transcriptional regulator MalT; Provisional	98.65
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.65
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.62
PF12854	34	PPR_1: PPR repeat	98.59
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.59
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.58
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.57
PLN02789	320	farnesyltranstransferase	98.57
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.54
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.54
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.52
PRK15359	144	type III secretion system chaperone protein SscB;	98.5
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.48
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.47
PF12854	34	PPR_1: PPR repeat	98.46
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.44
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.43
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.42
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.42
PRK15359	144	type III secretion system chaperone protein SscB;	98.41
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.4
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.4
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.39
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.39
KOG1125	579	consensus TPR repeat-containing protein [General f	98.39
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.39
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.39
PLN02789	320	farnesyltranstransferase	98.38
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.37
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.33
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.32
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.31
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.29
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.28
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.27
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.23
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.21
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.19
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.19
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.17
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.17
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.14
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.14
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.13
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.09
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.07
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.07
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.0
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	97.99
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	97.93
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	97.92
PF13812	34	PPR_3: Pentatricopeptide repeat domain	97.87
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.84
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.81
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.76
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.76
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.75
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.73
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.71
KOG3060	289	consensus Uncharacterized conserved protein [Funct	97.68
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.67
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.65
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.61
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.6
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.6
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.59
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.57
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.57
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.57
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.56
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	97.55
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.51
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.51
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.51
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.5
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.46
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.44
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.42
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.41
KOG0553	304	consensus TPR repeat-containing protein [General f	97.41
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.38
KOG0553	304	consensus TPR repeat-containing protein [General f	97.36
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.35
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.32
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.27
PRK15331	165	chaperone protein SicA; Provisional	97.26
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.25
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.25
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.23
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.21
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.2
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.19
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.18
PF12688	120	TPR_5: Tetratrico peptide repeat	97.18
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.15
COG3898	531	Uncharacterized membrane-bound protein [Function u	97.15
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.14
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.1
PF13371	73	TPR_9: Tetratricopeptide repeat	97.08
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.06
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.03
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.01
COG3898	531	Uncharacterized membrane-bound protein [Function u	96.98
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	96.98
KOG1258	577	consensus mRNA processing protein [RNA processing	96.97
COG4700	251	Uncharacterized protein conserved in bacteria cont	96.92
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	96.92
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	96.91
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.89
PF12688	120	TPR_5: Tetratrico peptide repeat	96.88
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	96.87
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	96.87
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.86
PRK10803	263	tol-pal system protein YbgF; Provisional	96.83
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	96.8
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	96.72
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.59
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	96.58
PF13431	34	TPR_17: Tetratricopeptide repeat	96.58
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.56
PF13371	73	TPR_9: Tetratricopeptide repeat	96.54
PRK10803	263	tol-pal system protein YbgF; Provisional	96.45
PF13428	44	TPR_14: Tetratricopeptide repeat	96.43
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	96.26
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.25
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.15
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.15
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	96.11
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.0
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	95.99
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.96
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	95.88
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	95.81
PF13512	142	TPR_18: Tetratricopeptide repeat	95.78
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.78
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	95.59
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	95.57
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	95.53
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	95.39
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	95.27
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	95.2
PF03704	146	BTAD: Bacterial transcriptional activator domain;	95.12
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	94.97
KOG4555	175	consensus TPR repeat-containing protein [Function	94.89
KOG2610	491	consensus Uncharacterized conserved protein [Funct	94.86
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	94.83
KOG1585	308	consensus Protein required for fusion of vesicles	94.81
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	94.73
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	94.7
PF13512	142	TPR_18: Tetratricopeptide repeat	94.5
PRK11906	458	transcriptional regulator; Provisional	94.47
PRK11906	458	transcriptional regulator; Provisional	94.38
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	94.34
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	94.3
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	94.23
KOG3941	406	consensus Intermediate in Toll signal transduction	94.23
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	94.12
smart00299	140	CLH Clathrin heavy chain repeat homology.	93.98
smart00299	140	CLH Clathrin heavy chain repeat homology.	93.94
PRK15331	165	chaperone protein SicA; Provisional	93.77
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	93.74
KOG1941	518	consensus Acetylcholine receptor-associated protei	93.72
KOG2610	491	consensus Uncharacterized conserved protein [Funct	93.59
KOG3941	406	consensus Intermediate in Toll signal transduction	93.55
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	93.53
COG3118	304	Thioredoxin domain-containing protein [Posttransla	93.5
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	93.48
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	93.39
KOG4555	175	consensus TPR repeat-containing protein [Function	93.24
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	93.05
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	92.78
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	92.71
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	92.64
KOG4234	271	consensus TPR repeat-containing protein [General f	92.25
COG4105	254	ComL DNA uptake lipoprotein [General function pred	91.71
COG3118	304	Thioredoxin domain-containing protein [Posttransla	91.45
KOG1941	518	consensus Acetylcholine receptor-associated protei	91.41
PF13428	44	TPR_14: Tetratricopeptide repeat	91.27
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	91.1
PRK09687	280	putative lyase; Provisional	91.0
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	90.85
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	90.82
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	90.77
COG3629	280	DnrI DNA-binding transcriptional activator of the	90.59
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	90.53
COG3629	280	DnrI DNA-binding transcriptional activator of the	90.46
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	90.26
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	90.24
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	90.24
PRK09687	280	putative lyase; Provisional	90.05
KOG1586	288	consensus Protein required for fusion of vesicles	89.92
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	89.82
KOG1585	308	consensus Protein required for fusion of vesicles	89.71
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	89.25
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	89.01
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	88.71
PRK11619	644	lytic murein transglycosylase; Provisional	88.49
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	88.42
KOG4570	418	consensus Uncharacterized conserved protein [Funct	88.36
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	88.22
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	88.1
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	87.76
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	87.71
COG4105	254	ComL DNA uptake lipoprotein [General function pred	87.68
KOG4648	536	consensus Uncharacterized conserved protein, conta	86.66
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	86.58
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	86.47
KOG3364	149	consensus Membrane protein involved in organellar	86.28
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	86.02
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	85.44
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	85.43
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	85.4
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	85.3
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	85.18
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	85.1
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	84.42
PRK13800	897	putative oxidoreductase/HEAT repeat-containing pro	84.15
KOG1550	552	consensus Extracellular protein SEL-1 and related	82.85
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	82.72
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	82.45
PF13431	34	TPR_17: Tetratricopeptide repeat	82.27
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	82.25
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	82.18
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	81.71
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	81.35
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	81.3
KOG1258	577	consensus mRNA processing protein [RNA processing	81.26
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	80.86
KOG4648	536	consensus Uncharacterized conserved protein, conta	80.81
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	80.58
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	80.44
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	80.26
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	80.19
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	80.05

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

Probab=100.00  E-value=5e-112  Score=905.19  Aligned_cols=535  Identities=36%  Similarity=0.641  Sum_probs=516.8

Q ss_pred             CCCccHHHHHHHHHHhCCCChHHHHHHHccCCCCChhhHHHHHHHHHcCCCCHHHHHHHHhcCC----CCCeehHHHHHH
Q 009066            3 VKTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQRLP----IKDTASWNTMIS   78 (545)
Q Consensus         3 ~~~~~~~~~li~~~~~~g~~~~~A~~~f~~~~~~~~~~~~~li~~~~~~~g~~~~A~~~~~~m~----~~d~~~~~~li~   78 (545)
                      .||+++||.|+.+|+++|+ +++|+++|++|++||+++||++|.+|++. |++++|+++|++|.    .||..+|+.++.
T Consensus       155 ~~~~~~~n~Li~~y~k~g~-~~~A~~lf~~m~~~~~~t~n~li~~~~~~-g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~  232 (697)
T PLN03081        155 EPDQYMMNRVLLMHVKCGM-LIDARRLFDEMPERNLASWGTIIGGLVDA-GNYREAFALFREMWEDGSDAEPRTFVVMLR  232 (697)
T ss_pred             CcchHHHHHHHHHHhcCCC-HHHHHHHHhcCCCCCeeeHHHHHHHHHHC-cCHHHHHHHHHHHHHhCCCCChhhHHHHHH
Confidence            4678888888888888888 88888888888888888888888888888 88888888888886    678888888888


Q ss_pred             HHHhCCCHHHHHHHHhhCC----cCCHhHHHHHHHHHHHcCChHHHHHHHhhCCCCCcccHHHHHHHhcchhhhccCChH
Q 009066           79 GFVQKKNMAKARDLFLAMP----EKNSVSWSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGYVENSWAE  154 (545)
Q Consensus        79 ~~~~~g~~~~a~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~g~~~  154 (545)
                      +|++.|+.+.+.+++..+.    .+|..++|+|+++|+++|++++|.++|++|+.+|+++||+||.+|     .+.|+.+
T Consensus       233 a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~~~vt~n~li~~y-----~~~g~~~  307 (697)
T PLN03081        233 ASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGY-----ALHGYSE  307 (697)
T ss_pred             HHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCCCChhHHHHHHHHH-----HhCCCHH
Confidence            8888888888888887766    478899999999999999999999999999999999999999999     9999999


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhcc
Q 009066          155 DGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQ  234 (545)
Q Consensus       155 ~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~  234 (545)
                      +|+++|++|.+.|+.||..||++++.+|++.|++++|+++|..|.+.|++||..++++|+++|+++|++++|.++|++|.
T Consensus       308 eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~  387 (697)
T PLN03081        308 EALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMP  387 (697)
T ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHH
Q 009066          235 RKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTC  314 (545)
Q Consensus       235 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~  314 (545)
                      ++|+++||+||.+|+++|+.++|+++|++|.+.|+.||..||+.++.+|++.|.+++|.++|+.|.+++|+.|+..+|++
T Consensus       388 ~~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~  467 (697)
T PLN03081        388 RKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYAC  467 (697)
T ss_pred             CCCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHh
Confidence            99999999999999999999999999999999999999999999999999999999999999999988899999999999


Q ss_pred             HHHHHhHcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchH
Q 009066          315 MVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDD  394 (545)
Q Consensus       315 li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~  394 (545)
                      |+++|++.|++++|.+++++|++.|+..+|++|+.+|+.+|+++.|+.+++++++++|++.. +|..|+++|++.|+|++
T Consensus       468 li~~l~r~G~~~eA~~~~~~~~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~~p~~~~-~y~~L~~~y~~~G~~~~  546 (697)
T PLN03081        468 MIELLGREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLN-NYVVLLNLYNSSGRQAE  546 (697)
T ss_pred             HHHHHHhcCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhCCCCCCCc-chHHHHHHHHhCCCHHH
Confidence            99999999999999999999999999999999999999999999999999999999999888 99999999999999999


Q ss_pred             HHHHHHHhhhCCCccCCceeEEEECCEEEEEecCCCCCCChHHHHHHHHHHHHHHHHcCcccCCcccccccchhhHhhhh
Q 009066          395 VARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGYVPDLEFALHAVGEEVKEQLL  474 (545)
Q Consensus       395 a~~~~~~m~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~m~~~g~~pd~~~~~~~~~~~~~~~~~  474 (545)
                      |.++++.|+++|+.+.||+||+++++.+|.|.++|.+||+.++||..+.++..+|++.||.||+..++|++++++++..+
T Consensus       547 A~~v~~~m~~~g~~k~~g~s~i~~~~~~~~f~~~d~~h~~~~~i~~~l~~l~~~~~~~gy~~~~~~~~~~~~~~~~~~~~  626 (697)
T PLN03081        547 AAKVVETLKRKGLSMHPACTWIEVKKQDHSFFSGDRLHPQSREIYQKLDELMKEISEYGYVAEENELLPDVDEDEEKVSG  626 (697)
T ss_pred             HHHHHHHHHHcCCccCCCeeEEEECCeEEEEccCCCCCccHHHHHHHHHHHHHHHHHcCCCCCcchhhccccHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhchHHHHHHHHhccCCCCCcEEEeccccccccccchHHHhhhhccceEEEecCCccccccCCcCCCCCCC
Q 009066          475 LFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYISAIEKREIIVRDTTRFHHFKDGTCSCGDYW  545 (545)
Q Consensus       475 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~d~~~~h~~~~g~~~~~~~~  545 (545)
                      ..||||||++|||+++|+|.||||+||||+|+|||+|+|+||++.+|+|||||.+|||||+||+|||+|||
T Consensus       627 ~~hsekla~a~~l~~~~~~~~i~i~knlr~c~dch~~~k~~s~~~~r~i~~rd~~rfh~f~~g~csc~d~w  697 (697)
T PLN03081        627 RYHSEKLAIAFGLINTSEWTPLQITQSHRICKDCHKVIKFIALVTKREIVVRDASRFHHFKLGKCSCGDYW  697 (697)
T ss_pred             HhccHHHHHHhhCccCCCCCeEEEecCCEECCCchhhHHHHhhhcceEEEEecCCccccCCCCcccccccC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=1.5e-106  Score=882.93  Aligned_cols=530  Identities=38%  Similarity=0.690  Sum_probs=517.9

Q ss_pred             CCCccHHHHHHHHHHhCCCChHHHHHHHccCCCCChhhHHHHHHHHHcCCCCHHHHHHHHhcCC----CCCeehHHHHHH
Q 009066            3 VKTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQRLP----IKDTASWNTMIS   78 (545)
Q Consensus         3 ~~~~~~~~~li~~~~~~g~~~~~A~~~f~~~~~~~~~~~~~li~~~~~~~g~~~~A~~~~~~m~----~~d~~~~~~li~   78 (545)
                      .||+.+||+||.+|+++|+ +++|.++|+.|+.||+++||++|.+|.+. |++++|+++|++|.    .||..||+.++.
T Consensus       320 ~~d~~~~n~Li~~y~k~g~-~~~A~~vf~~m~~~d~~s~n~li~~~~~~-g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~  397 (857)
T PLN03077        320 AVDVSVCNSLIQMYLSLGS-WGEAEKVFSRMETKDAVSWTAMISGYEKN-GLPDKALETYALMEQDNVSPDEITIASVLS  397 (857)
T ss_pred             ccchHHHHHHHHHHHhcCC-HHHHHHHHhhCCCCCeeeHHHHHHHHHhC-CCHHHHHHHHHHHHHhCCCCCceeHHHHHH
Confidence            4789999999999999999 99999999999999999999999999999 99999999999996    799999999999


Q ss_pred             HHHhCCCHHHHHHHHhhCC----cCCHhHHHHHHHHHHHcCChHHHHHHHhhCCCCCcccHHHHHHHhcchhhhccCChH
Q 009066           79 GFVQKKNMAKARDLFLAMP----EKNSVSWSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGYVENSWAE  154 (545)
Q Consensus        79 ~~~~~g~~~~a~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~g~~~  154 (545)
                      +|++.|++++|.++|+.|.    .++..++|+|+++|+++|++++|.++|++|.++|+++||+||.+|     .++|+.+
T Consensus       398 a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~~~-----~~~g~~~  472 (857)
T PLN03077        398 ACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGL-----RLNNRCF  472 (857)
T ss_pred             HHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeHHHHHHHH-----HHCCCHH
Confidence            9999999999999999987    468899999999999999999999999999999999999999999     9999999


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhcc
Q 009066          155 DGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQ  234 (545)
Q Consensus       155 ~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~  234 (545)
                      +|+++|++|.. +++||..||+++|.+|++.|+++.++++|..+.+.|+.+|..++++|+++|+++|++++|.++|+++ 
T Consensus       473 eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~-  550 (857)
T PLN03077        473 EALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH-  550 (857)
T ss_pred             HHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhc-
Confidence            99999999986 5999999999999999999999999999999999999999999999999999999999999999999 


Q ss_pred             CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHH
Q 009066          235 RKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTC  314 (545)
Q Consensus       235 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~  314 (545)
                      .+|+++||+||.+|+++|+.++|+++|++|.+.|+.||..||+.++.+|++.|++++|.++|+.|.+++|+.|+..+|++
T Consensus       551 ~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~  630 (857)
T PLN03077        551 EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYAC  630 (857)
T ss_pred             CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHH
Confidence            89999999999999999999999999999999999999999999999999999999999999999977899999999999


Q ss_pred             HHHHHhHcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchH
Q 009066          315 MVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDD  394 (545)
Q Consensus       315 li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~  394 (545)
                      |+++|++.|++++|.+++++|+++||..+|++|+.+|..+|+.+.|+.+.+++++++|++.. .|..|.++|+..|+|++
T Consensus       631 lv~~l~r~G~~~eA~~~~~~m~~~pd~~~~~aLl~ac~~~~~~e~~e~~a~~l~~l~p~~~~-~y~ll~n~ya~~g~~~~  709 (857)
T PLN03077        631 VVDLLGRAGKLTEAYNFINKMPITPDPAVWGALLNACRIHRHVELGELAAQHIFELDPNSVG-YYILLCNLYADAGKWDE  709 (857)
T ss_pred             HHHHHHhCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhhCCCCcc-hHHHHHHHHHHCCChHH
Confidence            99999999999999999999999999999999999999999999999999999999999998 99999999999999999


Q ss_pred             HHHHHHHhhhCCCccCCceeEEEECCEEEEEecCCCCCCChHHHHHHHHHHHHHHHHcCcccCCcccccccchhhHhhhh
Q 009066          395 VARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGYVPDLEFALHAVGEEVKEQLL  474 (545)
Q Consensus       395 a~~~~~~m~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~m~~~g~~pd~~~~~~~~~~~~~~~~~  474 (545)
                      |.++++.|+++|++|+||+||+++++.+|.|..+|.+||+.++||..+.++.++|++.||.||+...+ ++++++++..+
T Consensus       710 a~~vr~~M~~~g~~k~~g~s~ie~~~~~~~f~~~d~~h~~~~~i~~~l~~l~~~~~~~g~~~~~~~~~-~~~~~~k~~~~  788 (857)
T PLN03077        710 VARVRKTMRENGLTVDPGCSWVEVKGKVHAFLTDDESHPQIKEINTVLEGFYEKMKASGLAGSESSSM-DEIEVSKDDIF  788 (857)
T ss_pred             HHHHHHHHHHcCCCCCCCccEEEECCEEEEEecCCCCCcchHHHHHHHHHHHHHHHhCCcCCCcchhc-cccHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999877 44778899999


Q ss_pred             hhchHHHHHHHHhccCCCCCcEEEeccccccccccchHHHhhhhccceEEEecCCccccccCCcCCCCC
Q 009066          475 LFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYISAIEKREIIVRDTTRFHHFKDGTCSCGD  543 (545)
Q Consensus       475 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~d~~~~h~~~~g~~~~~~  543 (545)
                      ..||||||++|||+++|++.||||+||||+|+|||+++|+||++.+|+|||||.+|||||++|+|||+|
T Consensus       789 ~~hse~la~a~~l~~~~~~~~i~i~knlr~c~dch~~~k~~s~~~~r~i~~rd~~rfh~f~~g~csc~d  857 (857)
T PLN03077        789 CGHSERLAIAFGLINTVPGMPIWVTKNLYMCENCHNTVKFISKIVRREISVRDTEQFHHFKDGECSCGD  857 (857)
T ss_pred             HhccHHHHHHHhhhcCCCCCeEEEeCCCEeCccHHHHHHHHHHHhCeEEEEecCCcceeCCCCcccCCC
Confidence            999999999999999999999999999999999999999999999999999999999999999999998

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=1.3e-65  Score=561.03  Aligned_cols=499  Identities=21%  Similarity=0.336  Sum_probs=443.3

Q ss_pred             CCCccHHHHHHHHHHhCCCChHHHHHHHccCCCCChhhHHHHHHHHHcCCCCHHHHHHHHhcCC----CCCeehHHHHHH
Q 009066            3 VKTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQRLP----IKDTASWNTMIS   78 (545)
Q Consensus         3 ~~~~~~~~~li~~~~~~g~~~~~A~~~f~~~~~~~~~~~~~li~~~~~~~g~~~~A~~~~~~m~----~~d~~~~~~li~   78 (545)
                      .+++.++|+||++|+++|+ ++.|+++|++|++||+++||++|.+|.+. |++++|+++|++|.    .||.+||++++.
T Consensus       118 ~~~~~~~n~li~~~~~~g~-~~~A~~~f~~m~~~d~~~~n~li~~~~~~-g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~  195 (857)
T PLN03077        118 SLGVRLGNAMLSMFVRFGE-LVHAWYVFGKMPERDLFSWNVLVGGYAKA-GYFDEALCLYHRMLWAGVRPDVYTFPCVLR  195 (857)
T ss_pred             CCCchHHHHHHHHHHhCCC-hHHHHHHHhcCCCCCeeEHHHHHHHHHhC-CCHHHHHHHHHHHHHcCCCCChhHHHHHHH
Confidence            4678899999999999999 99999999999999999999999999999 99999999999996    799999999999


Q ss_pred             HHHhCCCHHHHHHHHhhCC----cCCHhHHHHHHHHHHHcCChHHHHHHHhhCCCCCcccHHHHHHHhcchhhhccCChH
Q 009066           79 GFVQKKNMAKARDLFLAMP----EKNSVSWSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGYVENSWAE  154 (545)
Q Consensus        79 ~~~~~g~~~~a~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~g~~~  154 (545)
                      +|++.+++..+.+++..|.    .+|..++|+|+++|+++|++++|.++|++|+.+|+++||+||.+|     .+.|+++
T Consensus       196 ~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~d~~s~n~li~~~-----~~~g~~~  270 (857)
T PLN03077        196 TCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGY-----FENGECL  270 (857)
T ss_pred             HhCCccchhhHHHHHHHHHHcCCCcccchHhHHHHHHhcCCCHHHHHHHHhcCCCCCcchhHHHHHHH-----HhCCCHH
Confidence            9999999999999999887    579999999999999999999999999999999999999999999     9999999


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhcc
Q 009066          155 DGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQ  234 (545)
Q Consensus       155 ~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~  234 (545)
                      +|+++|++|...|+.||..||+.++.+|++.|+++.|.++|..+.+.|+.||..+|++|+++|+++|++++|.++|++|.
T Consensus       271 eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~  350 (857)
T PLN03077        271 EGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRME  350 (857)
T ss_pred             HHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHH
Q 009066          235 RKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTC  314 (545)
Q Consensus       235 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~  314 (545)
                      ++|+++||+||.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|++++|.++++.+.+. |+.|+..+|++
T Consensus       351 ~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~-g~~~~~~~~n~  429 (857)
T PLN03077        351 TKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERK-GLISYVVVANA  429 (857)
T ss_pred             CCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHh-CCCcchHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999876 99999999999


Q ss_pred             HHHHHhHcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcC-CCCCCchhHHHHHHHHHHcCCch
Q 009066          315 MVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNL-NPANAAGCYVQLANIYAAMKKWD  393 (545)
Q Consensus       315 li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~~~l~~~~~~~g~~~  393 (545)
                      |+++|+++|++++|.++|++|+ +||..+|+++|.+|.++|+.++|..+|++|.+. .|+. . +|..++.+|++.|..+
T Consensus       430 Li~~y~k~g~~~~A~~vf~~m~-~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~~~~pd~-~-t~~~lL~a~~~~g~l~  506 (857)
T PLN03077        430 LIEMYSKCKCIDKALEVFHNIP-EKDVISWTSIIAGLRLNNRCFEALIFFRQMLLTLKPNS-V-TLIAALSACARIGALM  506 (857)
T ss_pred             HHHHHHHcCCHHHHHHHHHhCC-CCCeeeHHHHHHHHHHCCCHHHHHHHHHHHHhCCCCCH-h-HHHHHHHHHhhhchHH
Confidence            9999999999999999999996 589999999999999999999999999999764 4554 3 8999999988888888


Q ss_pred             HHHHHHHHhhhCCCccCCceeEEEECCEEEE--------------------------EecCCCCCCChHHHHHHHHHHHH
Q 009066          394 DVARIRLSMKENNVVKMPGYSWIEVGTVVHE--------------------------FRSGDRVHPELVSIHEKLKELEK  447 (545)
Q Consensus       394 ~a~~~~~~m~~~~~~~~~~~s~~~~~~~~~~--------------------------~~~~~~~~~~~~~~~~~l~~~~~  447 (545)
                      .+.+++..|.+.|+.++....    +..+..                          .+.+...|+..    ..+.++++
T Consensus       507 ~~~~i~~~~~~~g~~~~~~~~----naLi~~y~k~G~~~~A~~~f~~~~~d~~s~n~lI~~~~~~G~~----~~A~~lf~  578 (857)
T PLN03077        507 CGKEIHAHVLRTGIGFDGFLP----NALLDLYVRCGRMNYAWNQFNSHEKDVVSWNILLTGYVAHGKG----SMAVELFN  578 (857)
T ss_pred             HhHHHHHHHHHhCCCccceec----hHHHHHHHHcCCHHHHHHHHHhcCCChhhHHHHHHHHHHcCCH----HHHHHHHH
Confidence            888888888888876543211    000000                          11122223333    33688999


Q ss_pred             HHHHcCcccCCcccccccchhhHhhhh---hhchHHHHHHHHhccCCCCCcEEEeccccccccccchHHHhhhhccc
Q 009066          448 RMKLAGYVPDLEFALHAVGEEVKEQLL---LFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYISAIEKR  521 (545)
Q Consensus       448 ~m~~~g~~pd~~~~~~~~~~~~~~~~~---~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~  521 (545)
                      +|++.|+.||..++...+..+.+.+.+   ....+.+...+|+.+...+.. ++++.+.++|+.++|.+++.+|+..
T Consensus       579 ~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~-~lv~~l~r~G~~~eA~~~~~~m~~~  654 (857)
T PLN03077        579 RMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYA-CVVDLLGRAGKLTEAYNFINKMPIT  654 (857)
T ss_pred             HHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHH-HHHHHHHhCCCHHHHHHHHHHCCCC
Confidence            999999999999997665555544432   233455555667655544433 6889999999999999999998644

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=1.8e-60  Score=511.57  Aligned_cols=503  Identities=16%  Similarity=0.249  Sum_probs=425.3

Q ss_pred             CCccHHHHHHHHHHhCCCChHHHHHHHccCCCCChh-----hHHHHHHHHHcCCCCHHHHHHHHhcCCCCCeehHHHHHH
Q 009066            4 KTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQPDVV-----SYNIMLSCILLNSDDVVAAFDFFQRLPIKDTASWNTMIS   78 (545)
Q Consensus         4 ~~~~~~~~li~~~~~~g~~~~~A~~~f~~~~~~~~~-----~~~~li~~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~   78 (545)
                      ++...|..++..++++|+ +++|+++|+.|++++.+     .++.++.+|.+. |.+++|+.+|+.|..||..+|+.++.
T Consensus       368 ~~~~~~~~~y~~l~r~G~-l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~-g~~~eAl~lf~~M~~pd~~Tyn~LL~  445 (1060)
T PLN03218        368 RKSPEYIDAYNRLLRDGR-IKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQ-RAVKEAFRFAKLIRNPTLSTFNMLMS  445 (1060)
T ss_pred             CCchHHHHHHHHHHHCcC-HHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHC-CCHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            456778899999999999 99999999999976554     455667778888 99999999999999999999999999


Q ss_pred             HHHhCCCHHHHHHHHhhCC----cCCHhHHHHHHHHHHHcCChHHHHHHHhhCC----CCCcccHHHHHHHhcchhhhcc
Q 009066           79 GFVQKKNMAKARDLFLAMP----EKNSVSWSAMISGYIECGQLDKAVELFKVAP----VKSVVAWTAMISGYMKFGYVEN  150 (545)
Q Consensus        79 ~~~~~g~~~~a~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~----~~~~~~~~~li~~~~~~g~~~~  150 (545)
                      +|++.|++++|.++|+.|.    .||..+|++||.+|+++|++++|.++|++|.    .||.++||+||.+|     .+.
T Consensus       446 a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy-----~k~  520 (1060)
T PLN03218        446 VCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGC-----ARA  520 (1060)
T ss_pred             HHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH-----HHC
Confidence            9999999999999999998    4799999999999999999999999999998    57999999999999     999


Q ss_pred             CChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHh--CCCCCCcccHHHHHHHHHhcCCHHHHHH
Q 009066          151 SWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFK--SPLCKDTTALTPLISMYCKCGDLEDACK  228 (545)
Q Consensus       151 g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~--~g~~~~~~~~~~li~~y~~~g~~~~A~~  228 (545)
                      |++++|+++|++|.+.|+.||..||+.++.+|++.|++++|.++|+.|.+  .|+.||..+|++||.+|+++|++++|.+
T Consensus       521 G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~e  600 (1060)
T PLN03218        521 GQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKE  600 (1060)
T ss_pred             cCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHH
Confidence            99999999999999999999999999999999999999999999999986  6889999999999999999999999999


Q ss_pred             HHHhccC----CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcC
Q 009066          229 LFLEIQR----KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYG  304 (545)
Q Consensus       229 ~f~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~  304 (545)
                      +|+.|.+    ++..+||++|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|++++|.++|+.|.+. |
T Consensus       601 lf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~-G  679 (1060)
T PLN03218        601 VYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQ-G  679 (1060)
T ss_pred             HHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHc-C
Confidence            9999985    5679999999999999999999999999999999999999999999999999999999999999876 9


Q ss_pred             CCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC---CCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcC--CCCCCchhH
Q 009066          305 IAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM---PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNL--NPANAAGCY  379 (545)
Q Consensus       305 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m---~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~  379 (545)
                      +.|+..+|++|+++|+++|++++|.++|++|   ++.||..+|++||.+|++.|++++|.++|++|.+.  .|+..  +|
T Consensus       680 ~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~--Ty  757 (1060)
T PLN03218        680 IKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTI--TY  757 (1060)
T ss_pred             CCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHH--HH
Confidence            9999999999999999999999999999998   67899999999999999999999999999999765  46544  99


Q ss_pred             HHHHHHHHHcCCchHHHHHHHHhhhCCCccCCceeEEEE-------------CCEEEEEecCCCCCCCh-HHHHHHHHHH
Q 009066          380 VQLANIYAAMKKWDDVARIRLSMKENNVVKMPGYSWIEV-------------GTVVHEFRSGDRVHPEL-VSIHEKLKEL  445 (545)
Q Consensus       380 ~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~s~~~~-------------~~~~~~~~~~~~~~~~~-~~~~~~l~~~  445 (545)
                      ..|+.+|.+.|++++|.++++.|.+.|+.++.......+             ...+..|-.+   ++.. ..-...+..+
T Consensus       758 ~sLL~a~~k~G~le~A~~l~~~M~k~Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g---~~~~~n~w~~~Al~l  834 (1060)
T PLN03218        758 SILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSG---RPQIENKWTSWALMV  834 (1060)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhcc---ccccccchHHHHHHH
Confidence            999999999999999999999999999987652211000             0011111111   1111 1112457889


Q ss_pred             HHHHHHcCcccCCcccccccchhhHhhhhhhchHHHHHHHHhccCCCCCcE--EEecccccccc-ccchHHHhhhhccce
Q 009066          446 EKRMKLAGYVPDLEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPI--RVFKNLRVCGD-CHRATKYISAIEKRE  522 (545)
Q Consensus       446 ~~~m~~~g~~pd~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~~~~~-~~~~~~~~s~~~~~~  522 (545)
                      +++|.+.|+.||..++...+....+.+ -......+-..++....+++...  .+++.+   +. -++|..++..|..+.
T Consensus       835 f~eM~~~Gi~Pd~~T~~~vL~cl~~~~-~~~~~~~m~~~m~~~~~~~~~~~y~~Li~g~---~~~~~~A~~l~~em~~~G  910 (1060)
T PLN03218        835 YRETISAGTLPTMEVLSQVLGCLQLPH-DATLRNRLIENLGISADSQKQSNLSTLVDGF---GEYDPRAFSLLEEAASLG  910 (1060)
T ss_pred             HHHHHHCCCCCCHHHHHHHHHHhcccc-cHHHHHHHHHHhccCCCCcchhhhHHHHHhh---ccChHHHHHHHHHHHHcC
Confidence            999999999999998865442111111 11122334444555554444321  234433   22 257888888887764


Q ss_pred             E
Q 009066          523 I  523 (545)
Q Consensus       523 ~  523 (545)
                      |
T Consensus       911 i  911 (1060)
T PLN03218        911 V  911 (1060)
T ss_pred             C
Confidence            4

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

Probab=100.00  E-value=5.5e-59  Score=497.20  Aligned_cols=478  Identities=21%  Similarity=0.323  Sum_probs=408.2

Q ss_pred             CCChhhHHHHHHHHHcCCCCHHHHHHHHhcCC-----CCCeehHHHHHHHHHhCCCHHHHHHHHhhCC----cCCHhHHH
Q 009066           35 QPDVVSYNIMLSCILLNSDDVVAAFDFFQRLP-----IKDTASWNTMISGFVQKKNMAKARDLFLAMP----EKNSVSWS  105 (545)
Q Consensus        35 ~~~~~~~~~li~~~~~~~g~~~~A~~~~~~m~-----~~d~~~~~~li~~~~~~g~~~~a~~~~~~~~----~~~~~~~~  105 (545)
                      .++.++|+++|.++.+. |++++|+++|+.|.     .||..+|+.++.+|++.++++.|.+++..|.    .||..++|
T Consensus        84 ~~~~~~~~~~i~~l~~~-g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n  162 (697)
T PLN03081         84 RKSGVSLCSQIEKLVAC-GRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMN  162 (697)
T ss_pred             CCCceeHHHHHHHHHcC-CCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHH
Confidence            45677999999999999 99999999999996     4688999999999999999999999999987    58999999


Q ss_pred             HHHHHHHHcCChHHHHHHHhhCCCCCcccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcc
Q 009066          106 AMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHL  185 (545)
Q Consensus       106 ~li~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~  185 (545)
                      .|+++|+++|++++|.++|++|++||+++||++|.+|     .+.|++++|+++|++|.+.|+.||..||+.++.+|++.
T Consensus       163 ~Li~~y~k~g~~~~A~~lf~~m~~~~~~t~n~li~~~-----~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~  237 (697)
T PLN03081        163 RVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGL-----VDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGL  237 (697)
T ss_pred             HHHHHHhcCCCHHHHHHHHhcCCCCCeeeHHHHHHHH-----HHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcC
Confidence            9999999999999999999999999999999999999     99999999999999999999999999999999999999


Q ss_pred             CcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccCCChhhHHHHHHHHHHcCChHHHHHHHHHHH
Q 009066          186 SSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMK  265 (545)
Q Consensus       186 ~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  265 (545)
                      |..+.++++|..+.+.|+.+|..++++|+++|+++|++++|.++|++|.++|+++||+||.+|+++|+.++|+++|++|.
T Consensus       238 ~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~  317 (697)
T PLN03081        238 GSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMR  317 (697)
T ss_pred             CcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhCCCCCCHhHHH
Q 009066          266 DEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFG  345 (545)
Q Consensus       266 ~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~  345 (545)
                      +.|+.||..||+.++.+|++.|++++|.+++..|.+. |+.|+..+|++|+++|+++|++++|.++|++|. +||..+|+
T Consensus       318 ~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~-g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~-~~d~~t~n  395 (697)
T PLN03081        318 DSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRT-GFPLDIVANTALVDLYSKWGRMEDARNVFDRMP-RKNLISWN  395 (697)
T ss_pred             HcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHh-CCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCC-CCCeeeHH
Confidence            9999999999999999999999999999999999886 999999999999999999999999999999996 58999999


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHhcCC--CCCCchhHHHHHHHHHHcCCchHHHHHHHHhhh-CCCccCCceeEEEECCEE
Q 009066          346 TLLSACRVHKRLDLAEFAAMNLFNLN--PANAAGCYVQLANIYAAMKKWDDVARIRLSMKE-NNVVKMPGYSWIEVGTVV  422 (545)
Q Consensus       346 ~li~~~~~~g~~~~A~~~~~~~~~~~--p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~-~~~~~~~~~s~~~~~~~~  422 (545)
                      +||.+|+++|+.++|.++|++|.+.+  |+..  +|..++.+|++.|++++|.++|+.|.+ .|+.|+..    .++..+
T Consensus       396 ~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~--T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~----~y~~li  469 (697)
T PLN03081        396 ALIAGYGNHGRGTKAVEMFERMIAEGVAPNHV--TFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAM----HYACMI  469 (697)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHH--HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCcc----chHhHH
Confidence            99999999999999999999998754  5543  999999999999999999999999975 57775431    111111


Q ss_pred             EEEecCCCCCCChHHHHHHHHHHHHHHHHcCcccCCcccccccchhhHhhhhhhchHHHH-HHHHhccCCCCCcEEEecc
Q 009066          423 HEFRSGDRVHPELVSIHEKLKELEKRMKLAGYVPDLEFALHAVGEEVKEQLLLFHSEKLA-IAFGLIKVPLGTPIRVFKN  501 (545)
Q Consensus       423 ~~~~~~~~~~~~~~~~~~~l~~~~~~m~~~g~~pd~~~~~~~~~~~~~~~~~~~~~~~~a-~~~~~~~~~~~~~~~~~~~  501 (545)
                      ..+..    .+       .++++.+.++++++.||..+|...+..+...+.+- ..+..+ ..+++.+...+..+.+.+-
T Consensus       470 ~~l~r----~G-------~~~eA~~~~~~~~~~p~~~~~~~Ll~a~~~~g~~~-~a~~~~~~l~~~~p~~~~~y~~L~~~  537 (697)
T PLN03081        470 ELLGR----EG-------LLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLE-LGRLAAEKLYGMGPEKLNNYVVLLNL  537 (697)
T ss_pred             HHHHh----cC-------CHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcH-HHHHHHHHHhCCCCCCCcchHHHHHH
Confidence            11211    11       24556666778899999998855444333222110 011111 1123323222333445566


Q ss_pred             ccccccccchHHHhhhhccceEEE-------ecCCccccccCCc
Q 009066          502 LRVCGDCHRATKYISAIEKREIIV-------RDTTRFHHFKDGT  538 (545)
Q Consensus       502 ~~~~~~~~~~~~~~s~~~~~~~~~-------~d~~~~h~~~~g~  538 (545)
                      +..+|+..+|.++...|..+.+..       --.+..|.|-.|-
T Consensus       538 y~~~G~~~~A~~v~~~m~~~g~~k~~g~s~i~~~~~~~~f~~~d  581 (697)
T PLN03081        538 YNSSGRQAEAAKVVETLKRKGLSMHPACTWIEVKKQDHSFFSGD  581 (697)
T ss_pred             HHhCCCHHHHHHHHHHHHHcCCccCCCeeEEEECCeEEEEccCC
Confidence            788999999999999998885421       2234566676553

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=3.8e-56  Score=478.24  Aligned_cols=401  Identities=16%  Similarity=0.250  Sum_probs=375.0

Q ss_pred             CCCccHHHHHHHHHHhCCCChHHHHHHHccCCCCChhhHHHHHHHHHcCCCCHHHHHHHHhcCC----CCCeehHHHHHH
Q 009066            3 VKTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQRLP----IKDTASWNTMIS   78 (545)
Q Consensus         3 ~~~~~~~~~li~~~~~~g~~~~~A~~~f~~~~~~~~~~~~~li~~~~~~~g~~~~A~~~~~~m~----~~d~~~~~~li~   78 (545)
                      +++..+++.++..|.+.|. +++|.++|+.|+.||..+||.+|.+|++. |+++.|+++|+.|.    .||..+|++||.
T Consensus       403 ~~~~v~~~~li~~~~~~g~-~~eAl~lf~~M~~pd~~Tyn~LL~a~~k~-g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~  480 (1060)
T PLN03218        403 DMDKIYHAKFFKACKKQRA-VKEAFRFAKLIRNPTLSTFNMLMSVCASS-QDIDGALRVLRLVQEAGLKADCKLYTTLIS  480 (1060)
T ss_pred             CchHHHHHHHHHHHHHCCC-HHHHHHHHHHcCCCCHHHHHHHHHHHHhC-cCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            3567788899999999999 99999999999999999999999999999 99999999999997    689999999999


Q ss_pred             HHHhCCCHHHHHHHHhhCC----cCCHhHHHHHHHHHHHcCChHHHHHHHhhCC----CCCcccHHHHHHHhcchhhhcc
Q 009066           79 GFVQKKNMAKARDLFLAMP----EKNSVSWSAMISGYIECGQLDKAVELFKVAP----VKSVVAWTAMISGYMKFGYVEN  150 (545)
Q Consensus        79 ~~~~~g~~~~a~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~----~~~~~~~~~li~~~~~~g~~~~  150 (545)
                      +|++.|++++|.++|++|.    .||..+|++||.+|++.|++++|.++|++|.    .||.++||.||.+|     .+.
T Consensus       481 ~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~-----~k~  555 (1060)
T PLN03218        481 TCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISAC-----GQS  555 (1060)
T ss_pred             HHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH-----HHC
Confidence            9999999999999999998    5899999999999999999999999999986    57899999999999     999


Q ss_pred             CChHHHHHHHHHHHh--CCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHH
Q 009066          151 SWAEDGLKLLRMMIG--LGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACK  228 (545)
Q Consensus       151 g~~~~A~~~~~~m~~--~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~  228 (545)
                      |++++|.++|.+|..  .|+.||..||++++.+|++.|++++|.++|+.|.+.|+.|+..+|+++|.+|++.|++++|.+
T Consensus       556 G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~  635 (1060)
T PLN03218        556 GAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALS  635 (1060)
T ss_pred             CCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHH
Confidence            999999999999986  679999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhccC----CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcC
Q 009066          229 LFLEIQR----KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYG  304 (545)
Q Consensus       229 ~f~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~  304 (545)
                      +|++|.+    ||..+|+++|.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|++++|.++|+.|.+. |
T Consensus       636 lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~-g  714 (1060)
T PLN03218        636 IYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSI-K  714 (1060)
T ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHc-C
Confidence            9999984    7999999999999999999999999999999999999999999999999999999999999999875 9


Q ss_pred             CCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC---CCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHH
Q 009066          305 IAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM---PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQ  381 (545)
Q Consensus       305 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m---~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~  381 (545)
                      +.|+..+|++||.+|++.|++++|.++|++|   ++.||..+|++++.+|++.|++++|..++.+|.+.+..+...+|..
T Consensus       715 ~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~a~~k~G~le~A~~l~~~M~k~Gi~pd~~tyns  794 (1060)
T PLN03218        715 LRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRC  794 (1060)
T ss_pred             CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHH
Confidence            9999999999999999999999999999998   7889999999999999999999999999999988654333338888


Q ss_pred             HHHHHH----HcC-------------------CchHHHHHHHHhhhCCCccCC
Q 009066          382 LANIYA----AMK-------------------KWDDVARIRLSMKENNVVKMP  411 (545)
Q Consensus       382 l~~~~~----~~g-------------------~~~~a~~~~~~m~~~~~~~~~  411 (545)
                      |+.+|.    +++                   ..++|..+|++|.+.|+.|+.
T Consensus       795 LIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w~~~Al~lf~eM~~~Gi~Pd~  847 (1060)
T PLN03218        795 ITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALMVYRETISAGTLPTM  847 (1060)
T ss_pred             HHHHHHHHHHHHhhhhhhhhhhhccccccccchHHHHHHHHHHHHHCCCCCCH
Confidence            887643    222                   235799999999999998763

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

Probab=99.96  E-value=4e-25  Score=246.11  Aligned_cols=390  Identities=14%  Similarity=0.097  Sum_probs=301.4

Q ss_pred             CCCccHHHHHHHHHHhCCCChHHHHHHHccCC--CC-ChhhHHHHHHHHHcCCCCHHHHHHHHhcCC---CCCeehHHHH
Q 009066            3 VKTTVNWNSVLAGFAKQRGKLKDAQELFDKIP--QP-DVVSYNIMLSCILLNSDDVVAAFDFFQRLP---IKDTASWNTM   76 (545)
Q Consensus         3 ~~~~~~~~~li~~~~~~g~~~~~A~~~f~~~~--~~-~~~~~~~li~~~~~~~g~~~~A~~~~~~m~---~~d~~~~~~l   76 (545)
                      ++++.+++.+...|...|+ +++|.+.|+++.  .| +...+..+...+... |++++|.+.|+++.   +.+..++..+
T Consensus       462 ~~~~~~~~~l~~~~~~~~~-~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~-g~~~~A~~~~~~~~~~~~~~~~~~~~l  539 (899)
T TIGR02917       462 PDNASLHNLLGAIYLGKGD-LAKAREAFEKALSIEPDFFPAAANLARIDIQE-GNPDDAIQRFEKVLTIDPKNLRAILAL  539 (899)
T ss_pred             CCCcHHHHHHHHHHHhCCC-HHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHC-CCHHHHHHHHHHHHHhCcCcHHHHHHH
Confidence            4567788889999999998 999999998875  23 445566777777777 89999999998876   4466788888


Q ss_pred             HHHHHhCCCHHHHHHHHhhCCc---CCHhHHHHHHHHHHHcCChHHHHHHHhhCCC---CCcccHHHHHHHhcchhhhcc
Q 009066           77 ISGFVQKKNMAKARDLFLAMPE---KNSVSWSAMISGYIECGQLDKAVELFKVAPV---KSVVAWTAMISGYMKFGYVEN  150 (545)
Q Consensus        77 i~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~  150 (545)
                      ...+.+.|+.++|...++++..   .+...+..++..|.+.|++++|..+++.+..   .+...|..+...+     ...
T Consensus       540 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~-----~~~  614 (899)
T TIGR02917       540 AGLYLRTGNEEEAVAWLEKAAELNPQEIEPALALAQYYLGKGQLKKALAILNEAADAAPDSPEAWLMLGRAQ-----LAA  614 (899)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHH-----HHc
Confidence            8888889999999999888753   3456777888888888888888888887652   3556788888888     888


Q ss_pred             CChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHH
Q 009066          151 SWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLF  230 (545)
Q Consensus       151 g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f  230 (545)
                      |++++|+..|+++.+.. +.+...+..+..++...|++++|..+++.+.+.. +.+...+..++..+.+.|++++|.+++
T Consensus       615 ~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~  692 (899)
T TIGR02917       615 GDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIA  692 (899)
T ss_pred             CCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            88888888888887653 3456677778888888888888888888888764 445677788888888888888888888


Q ss_pred             HhccC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCC
Q 009066          231 LEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAA  307 (545)
Q Consensus       231 ~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~  307 (545)
                      +.+.+   .+...+..+...+...|++++|+..|+++...+  |+..++..+..++...|+.++|.+.++.+.+  ..+.
T Consensus       693 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~--~~~~  768 (899)
T TIGR02917       693 KSLQKQHPKAALGFELEGDLYLRQKDYPAAIQAYRKALKRA--PSSQNAIKLHRALLASGNTAEAVKTLEAWLK--THPN  768 (899)
T ss_pred             HHHHhhCcCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCC
Confidence            88764   355677777888888888888888888887753  4446666777788888888888888887776  3355


Q ss_pred             CHHHHHHHHHHHhHcCCHHHHHHHHHhC-CC-CCCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHH
Q 009066          308 KPDHYTCMVDLLGRAGKLVEAVDLIKKM-PF-KPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANI  385 (545)
Q Consensus       308 ~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~-~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~  385 (545)
                      +...+..+...|.+.|+.++|.+.|+++ .. .++..+++.+...+...|+ .+|+..++++++..|+++. .+..++.+
T Consensus       769 ~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~~~~~~-~~~~~~~~  846 (899)
T TIGR02917       769 DAVLRTALAELYLAQKDYDKAIKHYRTVVKKAPDNAVVLNNLAWLYLELKD-PRALEYAEKALKLAPNIPA-ILDTLGWL  846 (899)
T ss_pred             CHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhCCCCcH-HHHHHHHH
Confidence            6777888888888888888888888776 22 2356677777777777777 6688888887777777776 77777777


Q ss_pred             HHHcCCchHHHHHHHHhhhCCC
Q 009066          386 YAAMKKWDDVARIRLSMKENNV  407 (545)
Q Consensus       386 ~~~~g~~~~a~~~~~~m~~~~~  407 (545)
                      |...|++++|.++++++.+.+.
T Consensus       847 ~~~~g~~~~A~~~~~~a~~~~~  868 (899)
T TIGR02917       847 LVEKGEADRALPLLRKAVNIAP  868 (899)
T ss_pred             HHHcCCHHHHHHHHHHHHhhCC
Confidence            7778888888888877776553

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=99.96  E-value=4.8e-25  Score=245.47  Aligned_cols=387  Identities=13%  Similarity=0.069  Sum_probs=336.3

Q ss_pred             CCccHHHHHHHHHHhCCCChHHHHHHHccCCC---CChhhHHHHHHHHHcCCCCHHHHHHHHhcCC---CCCeehHHHHH
Q 009066            4 KTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQ---PDVVSYNIMLSCILLNSDDVVAAFDFFQRLP---IKDTASWNTMI   77 (545)
Q Consensus         4 ~~~~~~~~li~~~~~~g~~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~~g~~~~A~~~~~~m~---~~d~~~~~~li   77 (545)
                      ........++..|.+.|+ +++|.++++.+..   ++...|+.+...+... |++++|.+.|+++.   +.+...+..+.
T Consensus       429 ~~~~~~~~l~~~~~~~~~-~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~A~~~~~~a~~~~~~~~~~~~~la  506 (899)
T TIGR02917       429 ELGRADLLLILSYLRSGQ-FDKALAAAKKLEKKQPDNASLHNLLGAIYLGK-GDLAKAREAFEKALSIEPDFFPAAANLA  506 (899)
T ss_pred             cchhhHHHHHHHHHhcCC-HHHHHHHHHHHHHhCCCCcHHHHHHHHHHHhC-CCHHHHHHHHHHHHhhCCCcHHHHHHHH
Confidence            345567778899999999 9999999998872   4566888888888888 99999999999876   44566788889


Q ss_pred             HHHHhCCCHHHHHHHHhhCCc---CCHhHHHHHHHHHHHcCChHHHHHHHhhCCC---CCcccHHHHHHHhcchhhhccC
Q 009066           78 SGFVQKKNMAKARDLFLAMPE---KNSVSWSAMISGYIECGQLDKAVELFKVAPV---KSVVAWTAMISGYMKFGYVENS  151 (545)
Q Consensus        78 ~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~g  151 (545)
                      ..+...|++++|.+.|+++..   .+..++..+...|.+.|+.++|...|+++..   .+...+..++..|     ...|
T Consensus       507 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~-----~~~~  581 (899)
T TIGR02917       507 RIDIQEGNPDDAIQRFEKVLTIDPKNLRAILALAGLYLRTGNEEEAVAWLEKAAELNPQEIEPALALAQYY-----LGKG  581 (899)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchhHHHHHHHHH-----HHCC
Confidence            999999999999999998873   4677899999999999999999999988753   3456788889999     9999


Q ss_pred             ChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHH
Q 009066          152 WAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFL  231 (545)
Q Consensus       152 ~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~  231 (545)
                      ++++|+.+++++.+.. +.+..+|..+..++...|++++|...++.+.+.. +.+...+..+..+|.+.|++++|..+|+
T Consensus       582 ~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~  659 (899)
T TIGR02917       582 QLKKALAILNEAADAA-PDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLK  659 (899)
T ss_pred             CHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            9999999999998753 5577889999999999999999999999998875 4566778889999999999999999999


Q ss_pred             hccC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCC
Q 009066          232 EIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAK  308 (545)
Q Consensus       232 ~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~  308 (545)
                      ++.+   .+..+|..++..+...|++++|..+++.+.... +++...+..+...+...|++++|.+.++.+...   .|+
T Consensus       660 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~---~~~  735 (899)
T TIGR02917       660 RALELKPDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKALKR---APS  735 (899)
T ss_pred             HHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhh---CCC
Confidence            8864   367899999999999999999999999998864 446677888888999999999999999998864   566


Q ss_pred             HHHHHHHHHHHhHcCCHHHHHHHHHhC--CCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHH
Q 009066          309 PDHYTCMVDLLGRAGKLVEAVDLIKKM--PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIY  386 (545)
Q Consensus       309 ~~~~~~li~~~~~~g~~~~A~~~~~~m--~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~  386 (545)
                      ..++..++.++.+.|+.++|.+.++++  ....+...+..+...|...|+.++|...|+++.+..|+++. ++..++.++
T Consensus       736 ~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~-~~~~l~~~~  814 (899)
T TIGR02917       736 SQNAIKLHRALLASGNTAEAVKTLEAWLKTHPNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKAPDNAV-VLNNLAWLY  814 (899)
T ss_pred             chHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCHH-HHHHHHHHH
Confidence            688888999999999999999999887  22346778899999999999999999999999999999887 999999999


Q ss_pred             HHcCCchHHHHHHHHhhhC
Q 009066          387 AAMKKWDDVARIRLSMKEN  405 (545)
Q Consensus       387 ~~~g~~~~a~~~~~~m~~~  405 (545)
                      ...|+ ++|...++++.+.
T Consensus       815 ~~~~~-~~A~~~~~~~~~~  832 (899)
T TIGR02917       815 LELKD-PRALEYAEKALKL  832 (899)
T ss_pred             HhcCc-HHHHHHHHHHHhh
Confidence            99999 8899999988764

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.

>PF14432 DYW_deaminase: DYW family of nucleic acid deaminases

Probab=99.95  E-value=7.6e-29  Score=196.54  Aligned_cols=106  Identities=67%  Similarity=1.053  Sum_probs=95.7

Q ss_pred             ceeEEEECCEEEEEecCCCCCCChHHHHHHHHHHHHHHHHcCcccCCcccccccchhhH--------hhhhhhchHHHHH
Q 009066          412 GYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGYVPDLEFALHAVGEEVK--------EQLLLFHSEKLAI  483 (545)
Q Consensus       412 ~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~m~~~g~~pd~~~~~~~~~~~~~--------~~~~~~~~~~~a~  483 (545)
                      |+||+++    |.|++||.+||+.        ++..++...||.|++....|+++++++        +..+..||||||+
T Consensus         2 ~~~w~~~----h~F~sgd~shp~~--------~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~d~~~~~~~~~~HSEKlAi   69 (116)
T PF14432_consen    2 GCSWIEV----HSFVSGDRSHPQS--------ELINKMKEEGYVPDTKEVGHDVDEEEKHDYDEEEKEESLCYHSEKLAI   69 (116)
T ss_pred             CCCccce----EEEEeCCCcCccH--------HHHHHHHHcCCcchhhhhCCCchhhhhhhcccccchhhhhccHHHHHH
Confidence            6789887    9999999999987        456677889999999999998776554        4578999999999


Q ss_pred             HHHhccCCCCCcEEEeccc-cccccccchHHHhhhhccceEEEecCCcccccc
Q 009066          484 AFGLIKVPLGTPIRVFKNL-RVCGDCHRATKYISAIEKREIIVRDTTRFHHFK  535 (545)
Q Consensus       484 ~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~s~~~~~~~~~~d~~~~h~~~  535 (545)
                      +||++++      +|+||+ |+|+|||+|+|+||++++|+|+|||++|||||+
T Consensus        70 afgli~~------~vvkn~~RvC~DCH~~~K~iS~~~~ReIiVRD~~rfHhFk  116 (116)
T PF14432_consen   70 AFGLINT------RVVKNLKRVCGDCHSFIKFISKITGREIIVRDSNRFHHFK  116 (116)
T ss_pred             Hhcccce------eEEecCCccchHHHHHHHHHHHHHCeEEEEeCCCeeeeCC
Confidence            9999988      889998 999999999999999999999999999999996

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.88  E-value=4.2e-20  Score=185.28  Aligned_cols=294  Identities=11%  Similarity=0.094  Sum_probs=202.3

Q ss_pred             HHHHcCChHHHHHHHhhCCCC---CcccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCC---HHHHHHHHHHHh
Q 009066          110 GYIECGQLDKAVELFKVAPVK---SVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPN---ASSLSSVLLGCS  183 (545)
Q Consensus       110 ~~~~~g~~~~A~~~f~~~~~~---~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd---~~t~~~ll~~~~  183 (545)
                      .+...|++++|...|.++...   +..+|..+...+     ...|++++|+.+++.+...+..++   ..++..+...+.
T Consensus        44 ~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~-----~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~  118 (389)
T PRK11788         44 NFLLNEQPDKAIDLFIEMLKVDPETVELHLALGNLF-----RRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYL  118 (389)
T ss_pred             HHHhcCChHHHHHHHHHHHhcCcccHHHHHHHHHHH-----HHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHH
Confidence            344555556666665555422   223455555555     666666666666666654321111   134555555666


Q ss_pred             ccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccCCC--------hhhHHHHHHHHHHcCChH
Q 009066          184 HLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKD--------VVTWNAMISGYAQHGKGE  255 (545)
Q Consensus       184 ~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~--------~~~~~~li~~~~~~g~~~  255 (545)
                      ..|+++.|..++..+.+.. +.+..+++.++.+|.+.|++++|.+.|+.+.+.+        ...|..+...+.+.|+++
T Consensus       119 ~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~  197 (389)
T PRK11788        119 KAGLLDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLD  197 (389)
T ss_pred             HCCCHHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHH
Confidence            6666666666666666542 3345566666777777777777777776665321        123456677778888888


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC
Q 009066          256 KALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM  335 (545)
Q Consensus       256 ~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  335 (545)
                      +|+..|+++.+.. +.+...+..+...+.+.|++++|.++++++.+. .......++..++.+|.+.|++++|...++++
T Consensus       198 ~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~  275 (389)
T PRK11788        198 AARALLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQ-DPEYLSEVLPKLMECYQALGDEAEGLEFLRRA  275 (389)
T ss_pred             HHHHHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH-ChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            8888888887643 223456667778888888999999888888753 11122456788889999999999999998887


Q ss_pred             -CCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHH---cCCchHHHHHHHHhhhCCCccCC
Q 009066          336 -PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAA---MKKWDDVARIRLSMKENNVVKMP  411 (545)
Q Consensus       336 -~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~---~g~~~~a~~~~~~m~~~~~~~~~  411 (545)
                       ...|+...+..++..+.+.|++++|..+++++++..|++.  .+..++..+..   .|+.+++..++++|.++++.++|
T Consensus       276 ~~~~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~P~~~--~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p  353 (389)
T PRK11788        276 LEEYPGADLLLALAQLLEEQEGPEAAQALLREQLRRHPSLR--GFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKP  353 (389)
T ss_pred             HHhCCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcCHH--HHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCC
Confidence             4457777778888999999999999999999999999876  56666666554   55899999999999999999888


Q ss_pred             ce
Q 009066          412 GY  413 (545)
Q Consensus       412 ~~  413 (545)
                      ..
T Consensus       354 ~~  355 (389)
T PRK11788        354 RY  355 (389)
T ss_pred             CE
Confidence            63

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

Probab=99.88  E-value=3.4e-20  Score=178.33  Aligned_cols=350  Identities=13%  Similarity=0.131  Sum_probs=186.4

Q ss_pred             hHHHHHHHHHcCCCCHHHHHHHHhcCC---CCCeehHHHHHHHHHhCCCHHHHHHHHhhCCcCCH---hHHHHHHHHHHH
Q 009066           40 SYNIMLSCILLNSDDVVAAFDFFQRLP---IKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNS---VSWSAMISGYIE  113 (545)
Q Consensus        40 ~~~~li~~~~~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~---~~~~~li~~~~~  113 (545)
                      +|..+-..+-.. |++++|+.+++.+.   +..+..|..+..++...|+.+.|.+.|...+.-|+   -+.+.+.+....
T Consensus       118 ~ysn~aN~~ker-g~~~~al~~y~~aiel~p~fida~inla~al~~~~~~~~a~~~~~~alqlnP~l~ca~s~lgnLlka  196 (966)
T KOG4626|consen  118 AYSNLANILKER-GQLQDALALYRAAIELKPKFIDAYINLAAALVTQGDLELAVQCFFEALQLNPDLYCARSDLGNLLKA  196 (966)
T ss_pred             HHHHHHHHHHHh-chHHHHHHHHHHHHhcCchhhHHHhhHHHHHHhcCCCcccHHHHHHHHhcCcchhhhhcchhHHHHh
Confidence            454455444444 66666666666554   22345566666666666666666666655553222   223334445555


Q ss_pred             cCChHHHHHHHhhCCC--CC-cccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHhccCcHH
Q 009066          114 CGQLDKAVELFKVAPV--KS-VVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPN-ASSLSSVLLGCSHLSSLQ  189 (545)
Q Consensus       114 ~g~~~~A~~~f~~~~~--~~-~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd-~~t~~~ll~~~~~~~~~~  189 (545)
                      .|++++|...+.+..+  |. .+.|+.|...+     -.+|+...|+..|.+.++.  .|+ ...|..+...|...+.++
T Consensus       197 ~Grl~ea~~cYlkAi~~qp~fAiawsnLg~~f-----~~~Gei~~aiq~y~eAvkl--dP~f~dAYiNLGnV~ke~~~~d  269 (966)
T KOG4626|consen  197 EGRLEEAKACYLKAIETQPCFAIAWSNLGCVF-----NAQGEIWLAIQHYEEAVKL--DPNFLDAYINLGNVYKEARIFD  269 (966)
T ss_pred             hcccchhHHHHHHHHhhCCceeeeehhcchHH-----hhcchHHHHHHHHHHhhcC--CCcchHHHhhHHHHHHHHhcch
Confidence            5666666665554332  22 24566666665     5566666666666665542  333 235555555565566666


Q ss_pred             HHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccC--C-ChhhHHHHHHHHHHcCChHHHHHHHHHHHH
Q 009066          190 LGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR--K-DVVTWNAMISGYAQHGKGEKALRLFDKMKD  266 (545)
Q Consensus       190 ~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  266 (545)
                      .|...|..+.... +....++..|...|...|.++-|+..|++..+  | -...||.|..++-..|+..+|.+.|.+.+.
T Consensus       270 ~Avs~Y~rAl~lr-pn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~  348 (966)
T KOG4626|consen  270 RAVSCYLRALNLR-PNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQPNFPDAYNNLANALKDKGSVTEAVDCYNKALR  348 (966)
T ss_pred             HHHHHHHHHHhcC-CcchhhccceEEEEeccccHHHHHHHHHHHHhcCCCchHHHhHHHHHHHhccchHHHHHHHHHHHH
Confidence            6665555555443 22334444455555555666666655555543  2 234555555555555555566555555554


Q ss_pred             cCCCCC-HHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCCCH-h
Q 009066          267 EGMKPD-SITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAK-PDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQP-A  342 (545)
Q Consensus       267 ~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~-~  342 (545)
                      .  .|+ ....+.|...+...|.+++|..+|.....   +.|. ....+.|...|-..|++++|+..|++. .++|+. .
T Consensus       349 l--~p~hadam~NLgni~~E~~~~e~A~~ly~~al~---v~p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI~P~fAd  423 (966)
T KOG4626|consen  349 L--CPNHADAMNNLGNIYREQGKIEEATRLYLKALE---VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALRIKPTFAD  423 (966)
T ss_pred             h--CCccHHHHHHHHHHHHHhccchHHHHHHHHHHh---hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhcCchHHH
Confidence            2  222 23455555555555555555555555443   1222 344555555555555555555555554 445543 3


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhh
Q 009066          343 IFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       343 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  404 (545)
                      .++.+...|...|+.+.|...+.+++..+|.... ++..|+.+|-.+|+..+|..-++...+
T Consensus       424 a~~NmGnt~ke~g~v~~A~q~y~rAI~~nPt~Ae-AhsNLasi~kDsGni~~AI~sY~~aLk  484 (966)
T KOG4626|consen  424 ALSNMGNTYKEMGDVSAAIQCYTRAIQINPTFAE-AHSNLASIYKDSGNIPEAIQSYRTALK  484 (966)
T ss_pred             HHHhcchHHHHhhhHHHHHHHHHHHHhcCcHHHH-HHhhHHHHhhccCCcHHHHHHHHHHHc
Confidence            5555555555555555555555555555555555 555555555555555555555555443

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

Probab=99.87  E-value=2.2e-20  Score=179.66  Aligned_cols=382  Identities=16%  Similarity=0.198  Sum_probs=321.4

Q ss_pred             CccHHHHHHHHHHhCCCChHHHHHHHccCCC--C-ChhhHHHHHHHHHcCCCCHHHHHHHHhcCC--CCCeehH-HHHHH
Q 009066            5 TTVNWNSVLAGFAKQRGKLKDAQELFDKIPQ--P-DVVSYNIMLSCILLNSDDVVAAFDFFQRLP--IKDTASW-NTMIS   78 (545)
Q Consensus         5 ~~~~~~~li~~~~~~g~~~~~A~~~f~~~~~--~-~~~~~~~li~~~~~~~g~~~~A~~~~~~m~--~~d~~~~-~~li~   78 (545)
                      -..+|..+.+.+-..|+ +.+|...+..+.+  | .+..|-.+-.++... |+.+.|.+.|....  .|+.+.. +.+..
T Consensus       115 ~ae~ysn~aN~~kerg~-~~~al~~y~~aiel~p~fida~inla~al~~~-~~~~~a~~~~~~alqlnP~l~ca~s~lgn  192 (966)
T KOG4626|consen  115 GAEAYSNLANILKERGQ-LQDALALYRAAIELKPKFIDAYINLAAALVTQ-GDLELAVQCFFEALQLNPDLYCARSDLGN  192 (966)
T ss_pred             HHHHHHHHHHHHHHhch-HHHHHHHHHHHHhcCchhhHHHhhHHHHHHhc-CCCcccHHHHHHHHhcCcchhhhhcchhH
Confidence            34578888899999999 9999999999873  4 345788888888888 99999999998877  4554433 33445


Q ss_pred             HHHhCCCHHHHHHHHhhCCcCC---HhHHHHHHHHHHHcCChHHHHHHHhhCCCCCc---ccHHHHHHHhcchhhhccCC
Q 009066           79 GFVQKKNMAKARDLFLAMPEKN---SVSWSAMISGYIECGQLDKAVELFKVAPVKSV---VAWTAMISGYMKFGYVENSW  152 (545)
Q Consensus        79 ~~~~~g~~~~a~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~---~~~~~li~~~~~~g~~~~g~  152 (545)
                      ..-..|++++|...|.+.++.+   ..+|+.|...+-..|++..|..-|++...-|+   ..|-.|...|     ...+.
T Consensus       193 Llka~Grl~ea~~cYlkAi~~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP~f~dAYiNLGnV~-----ke~~~  267 (966)
T KOG4626|consen  193 LLKAEGRLEEAKACYLKAIETQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPNFLDAYINLGNVY-----KEARI  267 (966)
T ss_pred             HHHhhcccchhHHHHHHHHhhCCceeeeehhcchHHhhcchHHHHHHHHHHhhcCCCcchHHHhhHHHHH-----HHHhc
Confidence            5666899999999999887543   46899999999999999999999998876554   5788888888     88999


Q ss_pred             hHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHH
Q 009066          153 AEDGLKLLRMMIGLGIRPN-ASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFL  231 (545)
Q Consensus       153 ~~~A~~~~~~m~~~~~~pd-~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~  231 (545)
                      +++|+..+.+....  .|+ ...+..+...|-..|.++.|...|++.++.. +.-...|+.|.+++-..|++.+|.+.|.
T Consensus       268 ~d~Avs~Y~rAl~l--rpn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~-P~F~~Ay~NlanALkd~G~V~ea~~cYn  344 (966)
T KOG4626|consen  268 FDRAVSCYLRALNL--RPNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQ-PNFPDAYNNLANALKDKGSVTEAVDCYN  344 (966)
T ss_pred             chHHHHHHHHHHhc--CCcchhhccceEEEEeccccHHHHHHHHHHHHhcC-CCchHHHhHHHHHHHhccchHHHHHHHH
Confidence            99999999888764  554 5678888888999999999999999999875 3346789999999999999999999999


Q ss_pred             hccC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCC
Q 009066          232 EIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPD-SITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAA  307 (545)
Q Consensus       232 ~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~  307 (545)
                      +...   ....+.+.|...|...|.+++|..+|....+  +.|. ...++.|...|-++|++++|+..+++..   .+.|
T Consensus       345 kaL~l~p~hadam~NLgni~~E~~~~e~A~~ly~~al~--v~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykeal---rI~P  419 (966)
T KOG4626|consen  345 KALRLCPNHADAMNNLGNIYREQGKIEEATRLYLKALE--VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEAL---RIKP  419 (966)
T ss_pred             HHHHhCCccHHHHHHHHHHHHHhccchHHHHHHHHHHh--hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHH---hcCc
Confidence            8874   3567899999999999999999999999887  4555 4578889999999999999999999887   4577


Q ss_pred             C-HHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCCCH-hHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHH
Q 009066          308 K-PDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQP-AIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLAN  384 (545)
Q Consensus       308 ~-~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~  384 (545)
                      + ...|+.+...|-..|+.++|...+.+. .+.|.- ..++.|.+.|...|+..+|+..++..+++.|+.+. +|-.++.
T Consensus       420 ~fAda~~NmGnt~ke~g~v~~A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkPDfpd-A~cNllh  498 (966)
T KOG4626|consen  420 TFADALSNMGNTYKEMGDVSAAIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKPDFPD-AYCNLLH  498 (966)
T ss_pred             hHHHHHHhcchHHHHhhhHHHHHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCCCCch-hhhHHHH
Confidence            7 688999999999999999999999887 677764 68899999999999999999999999999999998 8999988


Q ss_pred             HHHHcCCchHHHHHHHHh
Q 009066          385 IYAAMKKWDDVARIRLSM  402 (545)
Q Consensus       385 ~~~~~g~~~~a~~~~~~m  402 (545)
                      +..-..+|.+-.+-++++
T Consensus       499 ~lq~vcdw~D~d~~~~kl  516 (966)
T KOG4626|consen  499 CLQIVCDWTDYDKRMKKL  516 (966)
T ss_pred             HHHHHhcccchHHHHHHH
Confidence            887777887744444433

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

Probab=99.87  E-value=1.8e-18  Score=182.79  Aligned_cols=389  Identities=14%  Similarity=0.086  Sum_probs=286.2

Q ss_pred             HHHHHHHHHhCCCChHHHHHHHccCC--CCChhhHHHHHHHHHcCCCCHHHHHHHHhcCC---CCCeehHHHHHHHHHhC
Q 009066            9 WNSVLAGFAKQRGKLKDAQELFDKIP--QPDVVSYNIMLSCILLNSDDVVAAFDFFQRLP---IKDTASWNTMISGFVQK   83 (545)
Q Consensus         9 ~~~li~~~~~~g~~~~~A~~~f~~~~--~~~~~~~~~li~~~~~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~   83 (545)
                      +..+...|.+.|+ +++|.+.|++..  .|+...|..+-.+|.+. |++++|++.++...   +.+...|..+..+|...
T Consensus       130 ~k~~G~~~~~~~~-~~~Ai~~y~~al~~~p~~~~~~n~a~~~~~l-~~~~~Ai~~~~~al~l~p~~~~a~~~~a~a~~~l  207 (615)
T TIGR00990       130 LKEKGNKAYRNKD-FNKAIKLYSKAIECKPDPVYYSNRAACHNAL-GDWEKVVEDTTAALELDPDYSKALNRRANAYDGL  207 (615)
T ss_pred             HHHHHHHHHHcCC-HHHHHHHHHHHHhcCCchHHHHHHHHHHHHh-CCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHc
Confidence            4456778888898 999999998876  57777788888888888 99999999998876   33556888899999999


Q ss_pred             CCHHHHHHHHhhCCcC---CHhHHHHHHHHHHHcCChHHHHHHHhhCCCCCcccHHHHHH--------------------
Q 009066           84 KNMAKARDLFLAMPEK---NSVSWSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMIS--------------------  140 (545)
Q Consensus        84 g~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~--------------------  140 (545)
                      |++++|+.-|......   +......++.-+.+......+...++.-+. +..++..+..                    
T Consensus       208 g~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~~~a~~~~~~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  286 (615)
T TIGR00990       208 GKYADALLDLTASCIIDGFRNEQSAQAVERLLKKFAESKAKEILETKPE-NLPSVTFVGNYLQSFRPKPRPAGLEDSNEL  286 (615)
T ss_pred             CCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHHhcCCC-CCCCHHHHHHHHHHccCCcchhhhhccccc
Confidence            9999998877654321   111111111111111112223333322111 1111111111                    


Q ss_pred             ------Hhcchhh-----hccCChHHHHHHHHHHHhCC-CCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCc
Q 009066          141 ------GYMKFGY-----VENSWAEDGLKLLRMMIGLG-IRP-NASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDT  207 (545)
Q Consensus       141 ------~~~~~g~-----~~~g~~~~A~~~~~~m~~~~-~~p-d~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~  207 (545)
                            ++...|.     ...+++++|++.|++....+ ..| +...+..+...+...|++++|...++..++.. +.+.
T Consensus       287 ~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~-P~~~  365 (615)
T TIGR00990       287 DEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELD-PRVT  365 (615)
T ss_pred             ccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcH
Confidence                  0000000     12367899999999998764 334 44567777788889999999999999999874 3345


Q ss_pred             ccHHHHHHHHHhcCCHHHHHHHHHhccC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 009066          208 TALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACN  284 (545)
Q Consensus       208 ~~~~~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~  284 (545)
                      ..+..+...|...|++++|...|++..+   .+...|..+...+...|++++|+..|++.++.. +.+...+..+..++.
T Consensus       366 ~~~~~la~~~~~~g~~~eA~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~~~  444 (615)
T TIGR00990       366 QSYIKRASMNLELGDPDKAEEDFDKALKLNSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVTQY  444 (615)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHHHH
Confidence            6788899999999999999999998764   367889999999999999999999999998853 224566777788899


Q ss_pred             ccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCCCH-h-------HHHHHHHHHHhcC
Q 009066          285 HAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQP-A-------IFGTLLSACRVHK  355 (545)
Q Consensus       285 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~-~-------~~~~li~~~~~~g  355 (545)
                      +.|++++|...|+...+  ..+.++..+..+..+|...|++++|.+.|++. ...|+. .       .++..+..+...|
T Consensus       445 ~~g~~~eA~~~~~~al~--~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~  522 (615)
T TIGR00990       445 KEGSIASSMATFRRCKK--NFPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQ  522 (615)
T ss_pred             HCCCHHHHHHHHHHHHH--hCCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhh
Confidence            99999999999999886  34556889999999999999999999999886 333421 1       1222223344569


Q ss_pred             CHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhhC
Q 009066          356 RLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKEN  405 (545)
Q Consensus       356 ~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  405 (545)
                      ++++|+.+++++++++|++.. ++..++.++...|++++|.+.+++..+.
T Consensus       523 ~~~eA~~~~~kAl~l~p~~~~-a~~~la~~~~~~g~~~eAi~~~e~A~~l  571 (615)
T TIGR00990       523 DFIEAENLCEKALIIDPECDI-AVATMAQLLLQQGDVDEALKLFERAAEL  571 (615)
T ss_pred             hHHHHHHHHHHHHhcCCCcHH-HHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            999999999999999999887 8999999999999999999999987653

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.87  E-value=3.1e-18  Score=192.77  Aligned_cols=380  Identities=10%  Similarity=0.021  Sum_probs=255.3

Q ss_pred             HHHHHhCCCChHHHHHHHccCC--CC-ChhhHHHHHHHHHcCCCCHHHHHHHHhcCC--CCCe---ehHHH---------
Q 009066           13 LAGFAKQRGKLKDAQELFDKIP--QP-DVVSYNIMLSCILLNSDDVVAAFDFFQRLP--IKDT---ASWNT---------   75 (545)
Q Consensus        13 i~~~~~~g~~~~~A~~~f~~~~--~~-~~~~~~~li~~~~~~~g~~~~A~~~~~~m~--~~d~---~~~~~---------   75 (545)
                      ...+...|+ +++|...|++..  .| +...+..+-..+.+. |++++|+..|++..  .|+.   ..|..         
T Consensus       276 G~~~~~~g~-~~~A~~~l~~aL~~~P~~~~a~~~Lg~~~~~~-g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~  353 (1157)
T PRK11447        276 GLAAVDSGQ-GGKAIPELQQAVRANPKDSEALGALGQAYSQQ-GDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWL  353 (1157)
T ss_pred             HHHHHHCCC-HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHH
Confidence            344445555 666666555544  23 333444444555555 56666666555544  1211   11111         


Q ss_pred             ---HHHHHHhCCCHHHHHHHHhhCCc---CCHhHHHHHHHHHHHcCChHHHHHHHhhCCCC---CcccH-----------
Q 009066           76 ---MISGFVQKKNMAKARDLFLAMPE---KNSVSWSAMISGYIECGQLDKAVELFKVAPVK---SVVAW-----------  135 (545)
Q Consensus        76 ---li~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~---~~~~~-----------  135 (545)
                         ....+.+.|++++|+..|+++..   .+...+..+...|...|++++|++.|++....   +...+           
T Consensus       354 ~~~~g~~~~~~g~~~eA~~~~~~Al~~~P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~~~~a~~~L~~l~~~~~  433 (1157)
T PRK11447        354 LIQQGDAALKANNLAQAERLYQQARQVDNTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPGNTNAVRGLANLYRQQS  433 (1157)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcC
Confidence               12234455556666665555542   23444555555555556666665555544321   11122           


Q ss_pred             -------------------------------HHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhc
Q 009066          136 -------------------------------TAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSH  184 (545)
Q Consensus       136 -------------------------------~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~  184 (545)
                                                     ..+...+     ...|++++|++.|++.++.. +-+...+..+...+.+
T Consensus       434 ~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~-----~~~g~~~eA~~~~~~Al~~~-P~~~~~~~~LA~~~~~  507 (1157)
T PRK11447        434 PEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEAL-----ENQGKWAQAAELQRQRLALD-PGSVWLTYRLAQDLRQ  507 (1157)
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHH-----HHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH
Confidence                                           2223334     56789999999999988753 2245567778888899


Q ss_pred             cCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccCCC----h---------hhHHHHHHHHHHc
Q 009066          185 LSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKD----V---------VTWNAMISGYAQH  251 (545)
Q Consensus       185 ~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~----~---------~~~~~li~~~~~~  251 (545)
                      .|++++|...++.+++.. +.+...+..+...+.+.|+.++|...++.+....    .         ..+..+...+...
T Consensus       508 ~G~~~~A~~~l~~al~~~-P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~  586 (1157)
T PRK11447        508 AGQRSQADALMRRLAQQK-PNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDS  586 (1157)
T ss_pred             cCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHC
Confidence            999999999999988754 3344555556666778899999999998876421    1         1123456678889


Q ss_pred             CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHH
Q 009066          252 GKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDL  331 (545)
Q Consensus       252 g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  331 (545)
                      |+.++|+.+++.     .+++...+..+...+...|+.++|+..|+.+.+.  -+.++..+..++.+|...|++++|++.
T Consensus       587 G~~~eA~~~l~~-----~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~--~P~~~~a~~~la~~~~~~g~~~eA~~~  659 (1157)
T PRK11447        587 GKEAEAEALLRQ-----QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTR--EPGNADARLGLIEVDIAQGDLAAARAQ  659 (1157)
T ss_pred             CCHHHHHHHHHh-----CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            999999999872     2445556677888899999999999999999873  355688899999999999999999999


Q ss_pred             HHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCc-----hhHHHHHHHHHHcCCchHHHHHHHHhh-
Q 009066          332 IKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA-----GCYVQLANIYAAMKKWDDVARIRLSMK-  403 (545)
Q Consensus       332 ~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~-----~~~~~l~~~~~~~g~~~~a~~~~~~m~-  403 (545)
                      ++.. ...| +...+..+..++...|++++|..++++++...|+++.     ..+..++.++...|++++|...++... 
T Consensus       660 l~~ll~~~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al~  739 (1157)
T PRK11447        660 LAKLPATANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDAMV  739 (1157)
T ss_pred             HHHHhccCCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            9987 3344 4566777888899999999999999999987765432     145567899999999999999998875 


Q ss_pred             hCCCc
Q 009066          404 ENNVV  408 (545)
Q Consensus       404 ~~~~~  408 (545)
                      ..|+.
T Consensus       740 ~~~~~  744 (1157)
T PRK11447        740 ASGIT  744 (1157)
T ss_pred             hcCCC
Confidence            34443

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.86  E-value=4.5e-19  Score=177.88  Aligned_cols=280  Identities=15%  Similarity=0.132  Sum_probs=194.6

Q ss_pred             HhCCCHHHHHHHHhhCCc---CCHhHHHHHHHHHHHcCChHHHHHHHhhCCCCC-------cccHHHHHHHhcchhhhcc
Q 009066           81 VQKKNMAKARDLFLAMPE---KNSVSWSAMISGYIECGQLDKAVELFKVAPVKS-------VVAWTAMISGYMKFGYVEN  150 (545)
Q Consensus        81 ~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~-------~~~~~~li~~~~~~g~~~~  150 (545)
                      ...|++++|...|.++.+   .+..++..+...|...|++++|..+++.+....       ...+..+...|     ...
T Consensus        46 ~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~-----~~~  120 (389)
T PRK11788         46 LLNEQPDKAIDLFIEMLKVDPETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDY-----LKA  120 (389)
T ss_pred             HhcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHH-----HHC
Confidence            344555555555555442   123344555555555555555555555443211       12345555566     666


Q ss_pred             CChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCc----ccHHHHHHHHHhcCCHHHH
Q 009066          151 SWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDT----TALTPLISMYCKCGDLEDA  226 (545)
Q Consensus       151 g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~----~~~~~li~~y~~~g~~~~A  226 (545)
                      |++++|+.+|.++.+.. +++..++..++..+...|++++|.+.++.+.+.+..+..    ..+..+...+.+.|++++|
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            66666666666666542 334556666666666666666666666666655422211    1345577778888999999


Q ss_pred             HHHHHhccC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhc
Q 009066          227 CKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDY  303 (545)
Q Consensus       227 ~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~  303 (545)
                      ...|+++.+   .+...+..+...|.+.|++++|+++|+++...+..+...++..+..++...|++++|...++.+.+. 
T Consensus       200 ~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~-  278 (389)
T PRK11788        200 RALLKKALAADPQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEE-  278 (389)
T ss_pred             HHHHHHHHhHCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-
Confidence            999988764   2456788888999999999999999999987543333456788889999999999999999998764 


Q ss_pred             CCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCCCHhHHHHHHHHHHh---cCCHHHHHHHHHHHhc
Q 009066          304 GIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQPAIFGTLLSACRV---HKRLDLAEFAAMNLFN  369 (545)
Q Consensus       304 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~li~~~~~---~g~~~~A~~~~~~~~~  369 (545)
                        .|+...+..++..+.+.|++++|..+++++ ...|+...++.++..+..   +|+.+++..+++++++
T Consensus       279 --~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~  346 (389)
T PRK11788        279 --YPGADLLLALAQLLEEQEGPEAAQALLREQLRRHPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVG  346 (389)
T ss_pred             --CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHH
Confidence              567777789999999999999999999876 556999999988887664   5688899999988875

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.84  E-value=1.5e-17  Score=175.40  Aligned_cols=348  Identities=10%  Similarity=0.040  Sum_probs=273.2

Q ss_pred             HhCCCChHHHHHHHccCCC--C----ChhhHHHHHHHHHcCCCCHHHHHHHHhcCC---CCCeehHHHHHHHHHhCCCHH
Q 009066           17 AKQRGKLKDAQELFDKIPQ--P----DVVSYNIMLSCILLNSDDVVAAFDFFQRLP---IKDTASWNTMISGFVQKKNMA   87 (545)
Q Consensus        17 ~~~g~~~~~A~~~f~~~~~--~----~~~~~~~li~~~~~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~g~~~   87 (545)
                      .|+.+ ++.-.-.|..-++  +    +..-.-..+....+. |++++|+.+++...   +.+...+..++.+....|+++
T Consensus        16 ~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-g~~~~A~~l~~~~l~~~p~~~~~l~~l~~~~l~~g~~~   93 (656)
T PRK15174         16 LKQED-WEGLCLYFSQHPEKVRDSAGNEQNIILFAIACLRK-DETDVGLTLLSDRVLTAKNGRDLLRRWVISPLASSQPD   93 (656)
T ss_pred             hhhhc-hhhHhHHhhcccHhhhhhcccccCHHHHHHHHHhc-CCcchhHHHhHHHHHhCCCchhHHHHHhhhHhhcCCHH
Confidence            34555 7766667766663  1    112233345567778 99999999998876   445667777888888899999


Q ss_pred             HHHHHHhhCCc---CCHhHHHHHHHHHHHcCChHHHHHHHhhCCC---CCcccHHHHHHHhcchhhhccCChHHHHHHHH
Q 009066           88 KARDLFLAMPE---KNSVSWSAMISGYIECGQLDKAVELFKVAPV---KSVVAWTAMISGYMKFGYVENSWAEDGLKLLR  161 (545)
Q Consensus        88 ~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~  161 (545)
                      +|...|+++..   .+..++..+...+...|++++|...|++...   .+...|..+...+     ...|++++|...++
T Consensus        94 ~A~~~l~~~l~~~P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~P~~~~a~~~la~~l-----~~~g~~~eA~~~~~  168 (656)
T PRK15174         94 AVLQVVNKLLAVNVCQPEDVLLVASVLLKSKQYATVADLAEQAWLAFSGNSQIFALHLRTL-----VLMDKELQAISLAR  168 (656)
T ss_pred             HHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHH-----HHCCChHHHHHHHH
Confidence            99999999873   3567888999999999999999999988653   3556888889999     99999999999999


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccC---CCh
Q 009066          162 MMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDV  238 (545)
Q Consensus       162 ~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~---~~~  238 (545)
                      ++...... +...+.. +..+...|++++|...++.+++....++......+...+.+.|++++|...|++...   .+.
T Consensus       169 ~~~~~~P~-~~~a~~~-~~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p~~~  246 (656)
T PRK15174        169 TQAQEVPP-RGDMIAT-CLSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARGLDGA  246 (656)
T ss_pred             HHHHhCCC-CHHHHHH-HHHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCH
Confidence            88765322 2333333 345788899999999999988875444445556667889999999999999998874   366


Q ss_pred             hhHHHHHHHHHHcCChHH----HHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHH
Q 009066          239 VTWNAMISGYAQHGKGEK----ALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTC  314 (545)
Q Consensus       239 ~~~~~li~~~~~~g~~~~----A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~  314 (545)
                      ..+..+...|.+.|++++    |+..|++..+.. +.+...+..+...+...|++++|...++...+.  -+.+...+..
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 ALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFN-SDNVRIVTLYADALIRTGQNEKAIPLLQQSLAT--HPDLPYVRAM  323 (656)
T ss_pred             HHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHH
Confidence            788889999999999986    899999998753 224567788889999999999999999998863  2445677888


Q ss_pred             HHHHHhHcCCHHHHHHHHHhC-CCCCCHhHH-HHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCc
Q 009066          315 MVDLLGRAGKLVEAVDLIKKM-PFKPQPAIF-GTLLSACRVHKRLDLAEFAAMNLFNLNPANAA  376 (545)
Q Consensus       315 li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~-~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~  376 (545)
                      +..+|.+.|++++|...++++ ...|+...+ ..+..++...|+.++|...|+++++..|++..
T Consensus       324 La~~l~~~G~~~eA~~~l~~al~~~P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~~P~~~~  387 (656)
T PRK15174        324 YARALRQVGQYTAASDEFVQLAREKGVTSKWNRYAAAALLQAGKTSEAESVFEHYIQARASHLP  387 (656)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhChhhch
Confidence            999999999999999999988 345665443 44567789999999999999999999988653

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.84  E-value=3.3e-17  Score=184.49  Aligned_cols=315  Identities=15%  Similarity=0.112  Sum_probs=172.1

Q ss_pred             HHHHHhCCCHHHHHHHHhhCCc---CCHhHHHHHHHHHHHcCChHHHHHHHhhCCCCCc-----ccHHHHH---------
Q 009066           77 ISGFVQKKNMAKARDLFLAMPE---KNSVSWSAMISGYIECGQLDKAVELFKVAPVKSV-----VAWTAMI---------  139 (545)
Q Consensus        77 i~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~-----~~~~~li---------  139 (545)
                      ...+...|++++|+..|++.+.   .+..++..|...|.+.|++++|+..|++..+.+.     ..|..++         
T Consensus       276 G~~~~~~g~~~~A~~~l~~aL~~~P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~  355 (1157)
T PRK11447        276 GLAAVDSGQGGKAIPELQQAVRANPKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLI  355 (1157)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHH
Confidence            4456677888888888877663   3566777777888888888888887776543211     1232222         


Q ss_pred             ---HHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHH
Q 009066          140 ---SGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISM  216 (545)
Q Consensus       140 ---~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~  216 (545)
                         ..+     ...|++++|+..|+++.+.. +.+...+..+..++...|++++|.+.|+.+++.. +.+...+..+...
T Consensus       356 ~~g~~~-----~~~g~~~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~-p~~~~a~~~L~~l  428 (1157)
T PRK11447        356 QQGDAA-----LKANNLAQAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMD-PGNTNAVRGLANL  428 (1157)
T ss_pred             HHHHHH-----HHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence               233     56777888888888777653 3345566666777777788888888888777654 2233333334443


Q ss_pred             ------------------------------------------HHhcCCHHHHHHHHHhccC--C-ChhhHHHHHHHHHHc
Q 009066          217 ------------------------------------------YCKCGDLEDACKLFLEIQR--K-DVVTWNAMISGYAQH  251 (545)
Q Consensus       217 ------------------------------------------y~~~g~~~~A~~~f~~~~~--~-~~~~~~~li~~~~~~  251 (545)
                                                                +...|++++|.+.|++..+  | +...+..+...|.+.
T Consensus       429 ~~~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~~~~~~~~LA~~~~~~  508 (1157)
T PRK11447        429 YRQQSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDPGSVWLTYRLAQDLRQA  508 (1157)
T ss_pred             HHhcCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHc
Confidence                                                      3444555555555555442  1 333444555555555


Q ss_pred             CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCH---------HHHHHHHHHHhHc
Q 009066          252 GKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKP---------DHYTCMVDLLGRA  322 (545)
Q Consensus       252 g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~---------~~~~~li~~~~~~  322 (545)
                      |++++|+..|+++.+... .+...+..+...+...++.++|...++.+... ...++.         ..+..+.+.+...
T Consensus       509 G~~~~A~~~l~~al~~~P-~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~-~~~~~~~~l~~~l~~~~~l~~a~~l~~~  586 (1157)
T PRK11447        509 GQRSQADALMRRLAQQKP-NDPEQVYAYGLYLSGSDRDRAALAHLNTLPRA-QWNSNIQELAQRLQSDQVLETANRLRDS  586 (1157)
T ss_pred             CCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHhCCCHHHHHHHHHhCCch-hcChhHHHHHHHHhhhHHHHHHHHHHHC
Confidence            555555555555554211 12222222223344455555555555543211 000000         0011223344445


Q ss_pred             CCHHHHHHHHHhCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHh
Q 009066          323 GKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSM  402 (545)
Q Consensus       323 g~~~~A~~~~~~m~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  402 (545)
                      |+.++|.++++.-|  ++...+..+...+...|++++|+..|+++++.+|++.. ++..++.+|...|++++|.+.++..
T Consensus       587 G~~~eA~~~l~~~p--~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~P~~~~-a~~~la~~~~~~g~~~eA~~~l~~l  663 (1157)
T PRK11447        587 GKEAEAEALLRQQP--PSTRIDLTLADWAQQRGDYAAARAAYQRVLTREPGNAD-ARLGLIEVDIAQGDLAAARAQLAKL  663 (1157)
T ss_pred             CCHHHHHHHHHhCC--CCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            55555555554322  23334455555566666666666666666666666555 5666666666666666666666554


Q ss_pred             h
Q 009066          403 K  403 (545)
Q Consensus       403 ~  403 (545)
                      .
T Consensus       664 l  664 (1157)
T PRK11447        664 P  664 (1157)
T ss_pred             h
Confidence            4

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.82  E-value=2.1e-16  Score=170.32  Aligned_cols=384  Identities=9%  Similarity=0.004  Sum_probs=287.0

Q ss_pred             HHHHHHHHhCCCChHHHHHHHccCCC---CChhhHHHHHHHHHcCCCCHHHHHHHHhcCC---CCCeehHHHHHHHHHhC
Q 009066           10 NSVLAGFAKQRGKLKDAQELFDKIPQ---PDVVSYNIMLSCILLNSDDVVAAFDFFQRLP---IKDTASWNTMISGFVQK   83 (545)
Q Consensus        10 ~~li~~~~~~g~~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~   83 (545)
                      .=.+......|+ .++|.+++.....   .+...+..+...+... |++++|..+|++..   +.+...+..+...+...
T Consensus        19 ~d~~~ia~~~g~-~~~A~~~~~~~~~~~~~~a~~~~~lA~~~~~~-g~~~~A~~~~~~al~~~P~~~~a~~~la~~l~~~   96 (765)
T PRK10049         19 ADWLQIALWAGQ-DAEVITVYNRYRVHMQLPARGYAAVAVAYRNL-KQWQNSLTLWQKALSLEPQNDDYQRGLILTLADA   96 (765)
T ss_pred             HHHHHHHHHcCC-HHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHC
Confidence            335566777888 9999999988763   2333477777777777 99999999999965   44566788888999999


Q ss_pred             CCHHHHHHHHhhCCc---CCHhHHHHHHHHHHHcCChHHHHHHHhhCCCC---CcccHHHHHHHhcchhhhccCChHHHH
Q 009066           84 KNMAKARDLFLAMPE---KNSVSWSAMISGYIECGQLDKAVELFKVAPVK---SVVAWTAMISGYMKFGYVENSWAEDGL  157 (545)
Q Consensus        84 g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~---~~~~~~~li~~~~~~g~~~~g~~~~A~  157 (545)
                      |++++|+..+++...   .+.. +..+..++...|+.++|...++++...   +...+..+...+     ...+..++|+
T Consensus        97 g~~~eA~~~l~~~l~~~P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P~~~~~~~~la~~l-----~~~~~~e~Al  170 (765)
T PRK10049         97 GQYDEALVKAKQLVSGAPDKAN-LLALAYVYKRAGRHWDELRAMTQALPRAPQTQQYPTEYVQAL-----RNNRLSAPAL  170 (765)
T ss_pred             CCHHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH-----HHCCChHHHH
Confidence            999999999998873   3556 888999999999999999999887643   445566777777     7889999999


Q ss_pred             HHHHHHHhCCCCCCHH------HHHHHHHHHh-----ccCcH---HHHHHHHHHHHhC-CCCCCcc-cH-HH---HHHHH
Q 009066          158 KLLRMMIGLGIRPNAS------SLSSVLLGCS-----HLSSL---QLGKQVHQLVFKS-PLCKDTT-AL-TP---LISMY  217 (545)
Q Consensus       158 ~~~~~m~~~~~~pd~~------t~~~ll~~~~-----~~~~~---~~a~~~~~~~~~~-g~~~~~~-~~-~~---li~~y  217 (545)
                      +.+++...   .|+..      ....++....     ..+.+   ++|.+.++.+.+. ...|+.. .+ .+   .+.++
T Consensus       171 ~~l~~~~~---~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~L  247 (765)
T PRK10049        171 GAIDDANL---TPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGAL  247 (765)
T ss_pred             HHHHhCCC---CHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHH
Confidence            98876653   33320      1111222221     12233   6788888888764 2223221 11 11   12344


Q ss_pred             HhcCCHHHHHHHHHhccCCC---hh-hHHHHHHHHHHcCChHHHHHHHHHHHHcCCCC---CHHHHHHHHHHHHccCcHH
Q 009066          218 CKCGDLEDACKLFLEIQRKD---VV-TWNAMISGYAQHGKGEKALRLFDKMKDEGMKP---DSITFVALLLACNHAGLVD  290 (545)
Q Consensus       218 ~~~g~~~~A~~~f~~~~~~~---~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p---~~~t~~~ll~a~~~~g~~~  290 (545)
                      ...|++++|+..|+.+.+.+   +. .-..+...|...|++++|+..|+++.......   .......+..++...|+++
T Consensus       248 l~~g~~~eA~~~~~~ll~~~~~~P~~a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~  327 (765)
T PRK10049        248 LARDRYKDVISEYQRLKAEGQIIPPWAQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYP  327 (765)
T ss_pred             HHhhhHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHH
Confidence            57799999999999998642   11 12225778999999999999999987643211   1244556667889999999


Q ss_pred             HHHHHHHHhHHhcC----------CCCC---HHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcC
Q 009066          291 LGIQYFDSMVNDYG----------IAAK---PDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHK  355 (545)
Q Consensus       291 ~a~~~~~~~~~~~~----------~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g  355 (545)
                      +|.++++.+.....          -.|+   ...+..+..++...|++++|+++++++ ...| +...+..+...+...|
T Consensus       328 eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~P~n~~l~~~lA~l~~~~g  407 (765)
T PRK10049        328 GALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNAPGNQGLRIDYASVLQARG  407 (765)
T ss_pred             HHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcC
Confidence            99999999876310          0122   235567888999999999999999987 3334 5678999999999999


Q ss_pred             CHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhhC
Q 009066          356 RLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKEN  405 (545)
Q Consensus       356 ~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  405 (545)
                      ++++|+..++++++++|++.. .+..++..+...|++++|..+++.+.+.
T Consensus       408 ~~~~A~~~l~~al~l~Pd~~~-l~~~~a~~al~~~~~~~A~~~~~~ll~~  456 (765)
T PRK10049        408 WPRAAENELKKAEVLEPRNIN-LEVEQAWTALDLQEWRQMDVLTDDVVAR  456 (765)
T ss_pred             CHHHHHHHHHHHHhhCCCChH-HHHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence            999999999999999999988 8999999999999999999999998764

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.82  E-value=1.3e-16  Score=168.46  Aligned_cols=341  Identities=11%  Similarity=-0.003  Sum_probs=273.9

Q ss_pred             CCHHHHHHHHhcCCC------CCeehHHHHHHHHHhCCCHHHHHHHHhhCCc---CCHhHHHHHHHHHHHcCChHHHHHH
Q 009066           53 DDVVAAFDFFQRLPI------KDTASWNTMISGFVQKKNMAKARDLFLAMPE---KNSVSWSAMISGYIECGQLDKAVEL  123 (545)
Q Consensus        53 g~~~~A~~~~~~m~~------~d~~~~~~li~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~  123 (545)
                      .+++.-.-.|...++      .+..-..-++..+.+.|++++|..+++....   .+......++......|++++|...
T Consensus        19 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~~~~~l~~l~~~~l~~g~~~~A~~~   98 (656)
T PRK15174         19 EDWEGLCLYFSQHPEKVRDSAGNEQNIILFAIACLRKDETDVGLTLLSDRVLTAKNGRDLLRRWVISPLASSQPDAVLQV   98 (656)
T ss_pred             hchhhHhHHhhcccHhhhhhcccccCHHHHHHHHHhcCCcchhHHHhHHHHHhCCCchhHHHHHhhhHhhcCCHHHHHHH
Confidence            566666666666551      1233455667788899999999999998873   3566777777888889999999999


Q ss_pred             HhhCCC---CCcccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHh
Q 009066          124 FKVAPV---KSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFK  200 (545)
Q Consensus       124 f~~~~~---~~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~  200 (545)
                      |+++..   .+...|..+...+     .+.|++++|+..|+++.+.. +.+...+..+..++...|++++|...++.+..
T Consensus        99 l~~~l~~~P~~~~a~~~la~~l-----~~~g~~~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~  172 (656)
T PRK15174         99 VNKLLAVNVCQPEDVLLVASVL-----LKSKQYATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKELQAISLARTQAQ  172 (656)
T ss_pred             HHHHHHhCCCChHHHHHHHHHH-----HHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChHHHHHHHHHHHH
Confidence            998763   3456788888888     99999999999999998752 33566788888899999999999999998877


Q ss_pred             CCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccCC----ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHH
Q 009066          201 SPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRK----DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITF  276 (545)
Q Consensus       201 ~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~  276 (545)
                      .... +...+..+ ..+...|++++|...++.+.+.    +...+..+...+.+.|++++|+..|+++.... +.+...+
T Consensus       173 ~~P~-~~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~  249 (656)
T PRK15174        173 EVPP-RGDMIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALR  249 (656)
T ss_pred             hCCC-CHHHHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHH
Confidence            6533 33333333 3478899999999999987653    23345556778899999999999999999864 2345667


Q ss_pred             HHHHHHHHccCcHHH----HHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCCC-HhHHHHHHHH
Q 009066          277 VALLLACNHAGLVDL----GIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQ-PAIFGTLLSA  350 (545)
Q Consensus       277 ~~ll~a~~~~g~~~~----a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~li~~  350 (545)
                      ..+..++...|++++    |...+++..+.  .+.+...+..+...+.+.|++++|...+++. ...|+ ...+..+..+
T Consensus       250 ~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l--~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~~~~a~~~La~~  327 (656)
T PRK15174        250 RSLGLAYYQSGRSREAKLQAAEHWRHALQF--NSDNVRIVTLYADALIRTGQNEKAIPLLQQSLATHPDLPYVRAMYARA  327 (656)
T ss_pred             HHHHHHHHHcCCchhhHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            778889999999986    89999988863  3456788999999999999999999999987 44454 5677888899


Q ss_pred             HHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhhC
Q 009066          351 CRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKEN  405 (545)
Q Consensus       351 ~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  405 (545)
                      +...|++++|...++++.+.+|++.. .+..++.++...|++++|...+++..+.
T Consensus       328 l~~~G~~~eA~~~l~~al~~~P~~~~-~~~~~a~al~~~G~~deA~~~l~~al~~  381 (656)
T PRK15174        328 LRQVGQYTAASDEFVQLAREKGVTSK-WNRYAAAALLQAGKTSEAESVFEHYIQA  381 (656)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCccchH-HHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            99999999999999999999999875 6667788999999999999999988764

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.81  E-value=3.9e-16  Score=168.26  Aligned_cols=367  Identities=9%  Similarity=-0.015  Sum_probs=278.6

Q ss_pred             CCCccHHHHHHHHHHhCCCChHHHHHHHccCC--CC-ChhhHHHHHHHHHcCCCCHHHHHHHHhcCC---CCCeehHHHH
Q 009066            3 VKTTVNWNSVLAGFAKQRGKLKDAQELFDKIP--QP-DVVSYNIMLSCILLNSDDVVAAFDFFQRLP---IKDTASWNTM   76 (545)
Q Consensus         3 ~~~~~~~~~li~~~~~~g~~~~~A~~~f~~~~--~~-~~~~~~~li~~~~~~~g~~~~A~~~~~~m~---~~d~~~~~~l   76 (545)
                      +.+...+..+...+.+.|+ +++|.++|++..  .| +...+..+...+... |++++|+..+++..   +.+.. |..+
T Consensus        46 ~~~a~~~~~lA~~~~~~g~-~~~A~~~~~~al~~~P~~~~a~~~la~~l~~~-g~~~eA~~~l~~~l~~~P~~~~-~~~l  122 (765)
T PRK10049         46 QLPARGYAAVAVAYRNLKQ-WQNSLTLWQKALSLEPQNDDYQRGLILTLADA-GQYDEALVKAKQLVSGAPDKAN-LLAL  122 (765)
T ss_pred             CCCHHHHHHHHHHHHHcCC-HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHC-CCHHHHHHHHHHHHHhCCCCHH-HHHH
Confidence            4455568889999999999 999999999964  34 445566777778888 99999999999886   34556 8888


Q ss_pred             HHHHHhCCCHHHHHHHHhhCCc---CCHhHHHHHHHHHHHcCChHHHHHHHhhCCCCCcc--------cHHHHHHHhcch
Q 009066           77 ISGFVQKKNMAKARDLFLAMPE---KNSVSWSAMISGYIECGQLDKAVELFKVAPVKSVV--------AWTAMISGYMKF  145 (545)
Q Consensus        77 i~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~~--------~~~~li~~~~~~  145 (545)
                      ..++...|+.++|+..++++.+   .+..++..+...+...|..+.|.+.++.... ++.        ....++......
T Consensus       123 a~~l~~~g~~~~Al~~l~~al~~~P~~~~~~~~la~~l~~~~~~e~Al~~l~~~~~-~p~~~~~l~~~~~~~~~r~~~~~  201 (765)
T PRK10049        123 AYVYKRAGRHWDELRAMTQALPRAPQTQQYPTEYVQALRNNRLSAPALGAIDDANL-TPAEKRDLEADAAAELVRLSFMP  201 (765)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCChHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHhhccc
Confidence            8999999999999999999884   3566777888899999999999999988775 211        222233322111


Q ss_pred             hhhccCCh---HHHHHHHHHHHhC-CCCCCHH-HHH----HHHHHHhccCcHHHHHHHHHHHHhCCCC-CCcccHHHHHH
Q 009066          146 GYVENSWA---EDGLKLLRMMIGL-GIRPNAS-SLS----SVLLGCSHLSSLQLGKQVHQLVFKSPLC-KDTTALTPLIS  215 (545)
Q Consensus       146 g~~~~g~~---~~A~~~~~~m~~~-~~~pd~~-t~~----~ll~~~~~~~~~~~a~~~~~~~~~~g~~-~~~~~~~~li~  215 (545)
                      +....+++   ++|++.++.+.+. ...|+.. .+.    ..+.++...+++++|...|+.+.+.+.+ |+ .....+..
T Consensus       202 ~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~-~a~~~la~  280 (765)
T PRK10049        202 TRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPP-WAQRWVAS  280 (765)
T ss_pred             ccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCH-HHHHHHHH
Confidence            11223344   7889999998854 2233321 111    1134556779999999999999988632 22 22233678


Q ss_pred             HHHhcCCHHHHHHHHHhccCCC-------hhhHHHHHHHHHHcCChHHHHHHHHHHHHcCC-----------CCCH---H
Q 009066          216 MYCKCGDLEDACKLFLEIQRKD-------VVTWNAMISGYAQHGKGEKALRLFDKMKDEGM-----------KPDS---I  274 (545)
Q Consensus       216 ~y~~~g~~~~A~~~f~~~~~~~-------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-----------~p~~---~  274 (545)
                      .|...|++++|+..|+++.+.+       ...+..+..++.+.|++++|+.+++++.....           .|+.   .
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            9999999999999999986532       23456677788999999999999999987521           2332   2


Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCCC-HhHHHHHHHHHH
Q 009066          275 TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQ-PAIFGTLLSACR  352 (545)
Q Consensus       275 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~li~~~~  352 (545)
                      .+..+...+...|+.++|++.++++..  ..+.+...+..+..++...|++++|++.+++. ...|+ ...+..++..+.
T Consensus       361 a~~~~a~~l~~~g~~~eA~~~l~~al~--~~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~Pd~~~l~~~~a~~al  438 (765)
T PRK10049        361 GQSLLSQVAKYSNDLPQAEMRARELAY--NAPGNQGLRIDYASVLQARGWPRAAENELKKAEVLEPRNINLEVEQAWTAL  438 (765)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHH
Confidence            345566788899999999999999986  34666889999999999999999999999988 55575 567777778899


Q ss_pred             hcCCHHHHHHHHHHHhcCCCCCCc
Q 009066          353 VHKRLDLAEFAAMNLFNLNPANAA  376 (545)
Q Consensus       353 ~~g~~~~A~~~~~~~~~~~p~~~~  376 (545)
                      ..|++++|+.+++++++..|++..
T Consensus       439 ~~~~~~~A~~~~~~ll~~~Pd~~~  462 (765)
T PRK10049        439 DLQEWRQMDVLTDDVVAREPQDPG  462 (765)
T ss_pred             HhCCHHHHHHHHHHHHHhCCCCHH
Confidence            999999999999999999999974

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.77  E-value=1.5e-14  Score=156.50  Aligned_cols=382  Identities=12%  Similarity=0.077  Sum_probs=266.2

Q ss_pred             HHHHHHHHHHhCCCChHHHHHHHccCCC--CChhh-HHHHHHHHHcCCCCHHHHHHHHhcCCCCCeehHHHHHHHHHhCC
Q 009066            8 NWNSVLAGFAKQRGKLKDAQELFDKIPQ--PDVVS-YNIMLSCILLNSDDVVAAFDFFQRLPIKDTASWNTMISGFVQKK   84 (545)
Q Consensus         8 ~~~~li~~~~~~g~~~~~A~~~f~~~~~--~~~~~-~~~li~~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g   84 (545)
                      ..-.+...|.+.++ +++|.+++.++.+  |.... +..+-..|.++.++ ++|..++....+.|...+..+...|.+.|
T Consensus       184 L~L~~~rlY~~l~d-w~~Ai~lL~~L~k~~pl~~~~~~~L~~ay~q~l~~-~~a~al~~~~lk~d~~l~~ala~~yi~~G  261 (987)
T PRK09782        184 LRTDLLQRAIYLKQ-WSQADTLYNEARQQNTLSAAERRQWFDVLLAGQLD-DRLLALQSQGIFTDPQSRITYATALAYRG  261 (987)
T ss_pred             HHHHHHHHHHHHhC-HHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhhCH-HHHHHHhchhcccCHHHHHHHHHHHHHCC
Confidence            33444888888888 9999999888873  33332 44444456652245 77878776544567778888888888888


Q ss_pred             CHHHHHHHHhhCCc------------------------------------------------------------------
Q 009066           85 NMAKARDLFLAMPE------------------------------------------------------------------   98 (545)
Q Consensus        85 ~~~~a~~~~~~~~~------------------------------------------------------------------   98 (545)
                      +.++|.++++++..                                                                  
T Consensus       262 ~~~~A~~~L~~~~~~~~~~~~~~~~~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  341 (987)
T PRK09782        262 EKARLQHYLIENKPLFTTDAQEKSWLYLLSKYSANPVQALANYTVQFADNRQYVVGATLPVLLKEGQYDAAQKLLATLPA  341 (987)
T ss_pred             CHHHHHHHHHhCcccccCCCccHHHHHHHHhccCchhhhccchhhhhHHHHHHHHHHHHHHHHhccHHHHHHHHhcCCCc
Confidence            88888888888760                                                                  


Q ss_pred             -------------------------------C-CHhHHHHHHHHHHHcCChHHHHHHHhhCCC--CCc----ccHHHHHH
Q 009066           99 -------------------------------K-NSVSWSAMISGYIECGQLDKAVELFKVAPV--KSV----VAWTAMIS  140 (545)
Q Consensus        99 -------------------------------~-~~~~~~~li~~~~~~g~~~~A~~~f~~~~~--~~~----~~~~~li~  140 (545)
                                                     | +....--+.-...+.|+.++|.++|+....  ++.    ..-+-++.
T Consensus       342 ~~~~~~r~~~~~~~~~~~~~~~~~~~~y~~~~~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~  421 (987)
T PRK09782        342 NEMLEERYAVSVATRNKAEALRLARLLYQQEPANLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLMARLAS  421 (987)
T ss_pred             chHHHHHHhhccccCchhHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHHHHHHH
Confidence                                           0 111111122223345556666666654432  111    12224455


Q ss_pred             HhcchhhhccCC---hHHHHHH-------------------------HHHHHhCCCCC--CHHHHHHHHHHHhccCcHHH
Q 009066          141 GYMKFGYVENSW---AEDGLKL-------------------------LRMMIGLGIRP--NASSLSSVLLGCSHLSSLQL  190 (545)
Q Consensus       141 ~~~~~g~~~~g~---~~~A~~~-------------------------~~~m~~~~~~p--d~~t~~~ll~~~~~~~~~~~  190 (545)
                      .|     ..++.   ..+++.+                         +...... -++  +...+..+..++.. ++.++
T Consensus       422 ~~-----~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~-~p~~~~~~a~~~LG~~l~~-~~~~e  494 (987)
T PRK09782        422 LL-----ESHPYLATPAKVAILSKPLPLAEQRQWQSQLPGIADNCPAIVRLLGD-MSPSYDAAAWNRLAKCYRD-TLPGV  494 (987)
T ss_pred             HH-----HhCCcccchHHHHHhccccccchhHHHHhhhhhhhhhHHHHHHhccc-CCCCCCHHHHHHHHHHHHh-CCcHH
Confidence            55     22222   2222222                         2222211 123  45566666655555 78888


Q ss_pred             HHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccC--CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcC
Q 009066          191 GKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR--KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEG  268 (545)
Q Consensus       191 a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  268 (545)
                      |...+.......  |+......+...+...|++++|...|+++..  ++...+..+...+.+.|+.++|...+++..+..
T Consensus       495 Ai~a~~~Al~~~--Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~  572 (987)
T PRK09782        495 ALYAWLQAEQRQ--PDAWQHRAVAYQAYQVEDYATALAAWQKISLHDMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRG  572 (987)
T ss_pred             HHHHHHHHHHhC--CchHHHHHHHHHHHHCCCHHHHHHHHHHHhccCCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            988777777654  4443333445555689999999999998764  445567777888999999999999999998754


Q ss_pred             CCCCH-HHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHH
Q 009066          269 MKPDS-ITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFG  345 (545)
Q Consensus       269 ~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~  345 (545)
                        |+. ..+..+.......|++++|...+++..+.   .|+...|..+..++.+.|+.++|...+++. ...| +...++
T Consensus       573 --P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l---~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~Pd~~~a~~  647 (987)
T PRK09782        573 --LGDNALYWWLHAQRYIPGQPELALNDLTRSLNI---APSANAYVARATIYRQRHNVPAAVSDLRAALELEPNNSNYQA  647 (987)
T ss_pred             --CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh---CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHH
Confidence              443 33333444555679999999999998853   677889999999999999999999999988 4556 456788


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhhCC
Q 009066          346 TLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENN  406 (545)
Q Consensus       346 ~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  406 (545)
                      .+..++...|++++|+..++++++.+|++.. .+..++.++...|++++|...+++..+..
T Consensus       648 nLG~aL~~~G~~eeAi~~l~~AL~l~P~~~~-a~~nLA~al~~lGd~~eA~~~l~~Al~l~  707 (987)
T PRK09782        648 ALGYALWDSGDIAQSREMLERAHKGLPDDPA-LIRQLAYVNQRLDDMAATQHYARLVIDDI  707 (987)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            8888999999999999999999999999988 99999999999999999999999987643

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

Probab=99.77  E-value=2.1e-15  Score=159.67  Aligned_cols=349  Identities=11%  Similarity=0.011  Sum_probs=253.9

Q ss_pred             HHHHHHHcCCCCHHHHHHHHhcCC--CCCeehHHHHHHHHHhCCCHHHHHHHHhhCCc---CCHhHHHHHHHHHHHcCCh
Q 009066           43 IMLSCILLNSDDVVAAFDFFQRLP--IKDTASWNTMISGFVQKKNMAKARDLFLAMPE---KNSVSWSAMISGYIECGQL  117 (545)
Q Consensus        43 ~li~~~~~~~g~~~~A~~~~~~m~--~~d~~~~~~li~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~  117 (545)
                      ..-..+.+. |++++|+..|++..  .|+...|..+..+|.+.|++++|++.+...++   .+..++..+..+|...|++
T Consensus       132 ~~G~~~~~~-~~~~~Ai~~y~~al~~~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~a~a~~~lg~~  210 (615)
T TIGR00990       132 EKGNKAYRN-KDFNKAIKLYSKAIECKPDPVYYSNRAACHNALGDWEKVVEDTTAALELDPDYSKALNRRANAYDGLGKY  210 (615)
T ss_pred             HHHHHHHHc-CCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCH
Confidence            445567777 99999999999876  67778899999999999999999999998874   3466888899999999999


Q ss_pred             HHHHHHHhhCCCCCc---ccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCC--CCCHHH------------------
Q 009066          118 DKAVELFKVAPVKSV---VAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGI--RPNASS------------------  174 (545)
Q Consensus       118 ~~A~~~f~~~~~~~~---~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~--~pd~~t------------------  174 (545)
                      ++|..-|......+.   .....++..+     ..    ..+........+...  .|....                  
T Consensus       211 ~eA~~~~~~~~~~~~~~~~~~~~~~~~~-----l~----~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  281 (615)
T TIGR00990       211 ADALLDLTASCIIDGFRNEQSAQAVERL-----LK----KFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPAGLE  281 (615)
T ss_pred             HHHHHHHHHHHHhCCCccHHHHHHHHHH-----HH----HHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchhhhh
Confidence            999987765432111   1111111111     00    111111111111100  000000                  


Q ss_pred             ------------HHHHHHH---HhccCcHHHHHHHHHHHHhCC-C-CCCcccHHHHHHHHHhcCCHHHHHHHHHhccC--
Q 009066          175 ------------LSSVLLG---CSHLSSLQLGKQVHQLVFKSP-L-CKDTTALTPLISMYCKCGDLEDACKLFLEIQR--  235 (545)
Q Consensus       175 ------------~~~ll~~---~~~~~~~~~a~~~~~~~~~~g-~-~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~--  235 (545)
                                  +..+...   ....+.+++|.+.|+.+++.+ . +.....++.+...|...|++++|...|++..+  
T Consensus       282 ~~~~~~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~  361 (615)
T TIGR00990       282 DSNELDEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELD  361 (615)
T ss_pred             cccccccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC
Confidence                        0000000   122367889999999998875 2 33456788889999999999999999998875  


Q ss_pred             C-ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHH
Q 009066          236 K-DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTC  314 (545)
Q Consensus       236 ~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~  314 (545)
                      | +..+|..+...+...|++++|+..|++..+.. +.+...+..+...+...|++++|...|+...+.  .+.+...+..
T Consensus       362 P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l--~P~~~~~~~~  438 (615)
T TIGR00990       362 PRVTQSYIKRASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDL--DPDFIFSHIQ  438 (615)
T ss_pred             CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CccCHHHHHH
Confidence            3 35688889999999999999999999998753 335677888888999999999999999998863  3456788889


Q ss_pred             HHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHH-------HHHH
Q 009066          315 MVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQ-------LANI  385 (545)
Q Consensus       315 li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~-------l~~~  385 (545)
                      +..++.+.|++++|+..|++. ...| +...|+.+...+...|++++|+..|++++++.|.... .+..       .+..
T Consensus       439 la~~~~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~-~~~~~~~l~~~a~~~  517 (615)
T TIGR00990       439 LGVTQYKEGSIASSMATFRRCKKNFPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKP-MYMNVLPLINKALAL  517 (615)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCcccc-ccccHHHHHHHHHHH
Confidence            999999999999999999987 3345 4678899999999999999999999999999987543 3221       1223


Q ss_pred             HHHcCCchHHHHHHHHhhhC
Q 009066          386 YAAMKKWDDVARIRLSMKEN  405 (545)
Q Consensus       386 ~~~~g~~~~a~~~~~~m~~~  405 (545)
                      +...|++++|.+++++..+.
T Consensus       518 ~~~~~~~~eA~~~~~kAl~l  537 (615)
T TIGR00990       518 FQWKQDFIEAENLCEKALII  537 (615)
T ss_pred             HHHhhhHHHHHHHHHHHHhc
Confidence            34469999999999987664

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.76  E-value=2.9e-14  Score=151.13  Aligned_cols=386  Identities=13%  Similarity=0.066  Sum_probs=283.9

Q ss_pred             HHHHHhCCCChHHHHHHHccCCC--CChh-hHHHHHHHHHcCCCCHHHHHHHHhcCCCCCeehH-HHH--HHHHHhCCCH
Q 009066           13 LAGFAKQRGKLKDAQELFDKIPQ--PDVV-SYNIMLSCILLNSDDVVAAFDFFQRLPIKDTASW-NTM--ISGFVQKKNM   86 (545)
Q Consensus        13 i~~~~~~g~~~~~A~~~f~~~~~--~~~~-~~~~li~~~~~~~g~~~~A~~~~~~m~~~d~~~~-~~l--i~~~~~~g~~   86 (545)
                      +-..++.|+ ++.|+..|++..+  |+.. ....++..+... |+.++|+..+++...|+...+ ..+  ...|...|++
T Consensus        41 aii~~r~Gd-~~~Al~~L~qaL~~~P~~~~av~dll~l~~~~-G~~~~A~~~~eka~~p~n~~~~~llalA~ly~~~gdy  118 (822)
T PRK14574         41 LIIRARAGD-TAPVLDYLQEESKAGPLQSGQVDDWLQIAGWA-GRDQEVIDVYERYQSSMNISSRGLASAARAYRNEKRW  118 (822)
T ss_pred             HHHHHhCCC-HHHHHHHHHHHHhhCccchhhHHHHHHHHHHc-CCcHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCH
Confidence            345677898 9999999999874  5431 233777777888 999999999999986644433 333  4578888999


Q ss_pred             HHHHHHHhhCCc---CCHhHHHHHHHHHHHcCChHHHHHHHhhCCCCCcccHHHHHHHhcchhhhccCChHHHHHHHHHH
Q 009066           87 AKARDLFLAMPE---KNSVSWSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMM  163 (545)
Q Consensus        87 ~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m  163 (545)
                      ++|+++|+++.+   .++.++..++..|...++.++|++.++++...+......+..+|..   ...++..+|++.++++
T Consensus       119 d~Aiely~kaL~~dP~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~dp~~~~~l~layL~---~~~~~~~~AL~~~ekl  195 (822)
T PRK14574        119 DQALALWQSSLKKDPTNPDLISGMIMTQADAGRGGVVLKQATELAERDPTVQNYMTLSYLN---RATDRNYDALQASSEA  195 (822)
T ss_pred             HHHHHHHHHHHhhCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHhcccCcchHHHHHHHHHH---HhcchHHHHHHHHHHH
Confidence            999999999984   3567788888999999999999999999886655433335555522   2355666699999999


Q ss_pred             HhCCCCCCHHHHHHHHHHHhccCcHHHHHHHH------------------------------------------------
Q 009066          164 IGLGIRPNASSLSSVLLGCSHLSSLQLGKQVH------------------------------------------------  195 (545)
Q Consensus       164 ~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~------------------------------------------------  195 (545)
                      .+.. +-+...+.....+..+.|....|.++.                                                
T Consensus       196 l~~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~  274 (822)
T PRK14574        196 VRLA-PTSEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKALADY  274 (822)
T ss_pred             HHhC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHH
Confidence            8864 224445555555555555443333322                                                


Q ss_pred             HHHHhC-CC-CCCcccH-HH---HHHHHHhcCCHHHHHHHHHhccCC----ChhhHHHHHHHHHHcCChHHHHHHHHHHH
Q 009066          196 QLVFKS-PL-CKDTTAL-TP---LISMYCKCGDLEDACKLFLEIQRK----DVVTWNAMISGYAQHGKGEKALRLFDKMK  265 (545)
Q Consensus       196 ~~~~~~-g~-~~~~~~~-~~---li~~y~~~g~~~~A~~~f~~~~~~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~  265 (545)
                      +.+... +- ++....+ .+   .+-++.+.|++.++++.|+.+...    ...+--.+..+|...+++++|+.+|+++.
T Consensus       275 ~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~  354 (822)
T PRK14574        275 QNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLY  354 (822)
T ss_pred             HHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHh
Confidence            222221 11 2221221 22   244566789999999999999853    23456678899999999999999999997


Q ss_pred             HcCC-----CCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcC----------CCCC---HHHHHHHHHHHhHcCCHHH
Q 009066          266 DEGM-----KPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYG----------IAAK---PDHYTCMVDLLGRAGKLVE  327 (545)
Q Consensus       266 ~~g~-----~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~----------~~~~---~~~~~~li~~~~~~g~~~~  327 (545)
                      ....     .++......|.-++..++++++|..+++.+.+...          -.|+   ...+..++..+...|++.+
T Consensus       355 ~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~  434 (822)
T PRK14574        355 YSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPT  434 (822)
T ss_pred             hccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHH
Confidence            6431     22333356788899999999999999999976311          0122   2344567888899999999


Q ss_pred             HHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhhC
Q 009066          328 AVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKEN  405 (545)
Q Consensus       328 A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  405 (545)
                      |++.++++ ...| |...+..+...+...|.+.+|+..++.+..++|++.. +...++.++...|+|.+|.++.+...+.
T Consensus       435 Ae~~le~l~~~aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l~P~~~~-~~~~~~~~al~l~e~~~A~~~~~~l~~~  513 (822)
T PRK14574        435 AQKKLEDLSSTAPANQNLRIALASIYLARDLPRKAEQELKAVESLAPRSLI-LERAQAETAMALQEWHQMELLTDDVISR  513 (822)
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhCCccHH-HHHHHHHHHHhhhhHHHHHHHHHHHHhh
Confidence            99999998 2334 7888999999999999999999999999999999988 9999999999999999999988777654

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.75  E-value=2.9e-14  Score=154.19  Aligned_cols=388  Identities=12%  Similarity=0.048  Sum_probs=285.3

Q ss_pred             CCccHHHHHHHHHHhCCCChHHHHHHHccCC-----CCChhhHHHHHHH------------------------------H
Q 009066            4 KTTVNWNSVLAGFAKQRGKLKDAQELFDKIP-----QPDVVSYNIMLSC------------------------------I   48 (545)
Q Consensus         4 ~~~~~~~~li~~~~~~g~~~~~A~~~f~~~~-----~~~~~~~~~li~~------------------------------~   48 (545)
                      .|+.+...+.+.|.+.|+ .++|.+++.+++     +|+..+|--++.-                              +
T Consensus       245 ~d~~l~~ala~~yi~~G~-~~~A~~~L~~~~~~~~~~~~~~~~~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  323 (987)
T PRK09782        245 TDPQSRITYATALAYRGE-KARLQHYLIENKPLFTTDAQEKSWLYLLSKYSANPVQALANYTVQFADNRQYVVGATLPVL  323 (987)
T ss_pred             cCHHHHHHHHHHHHHCCC-HHHHHHHHHhCcccccCCCccHHHHHHHHhccCchhhhccchhhhhHHHHHHHHHHHHHHH
Confidence            356678899999999999 999999999987     2444555444332                              2


Q ss_pred             HcCCCCHHHHHHHHhcCC-----------------------------C--C-CeehHHHHHHHHHhCCCHHHHHHHHhhC
Q 009066           49 LLNSDDVVAAFDFFQRLP-----------------------------I--K-DTASWNTMISGFVQKKNMAKARDLFLAM   96 (545)
Q Consensus        49 ~~~~g~~~~A~~~~~~m~-----------------------------~--~-d~~~~~~li~~~~~~g~~~~a~~~~~~~   96 (545)
                      .++ ++++.|.++...-+                             .  | +.....-+.-...+.|+.++|.++|+..
T Consensus       324 ~~~-~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~y~~~~~~~~~l~q~~~~~~~~~~~~~a~~~~~~~  402 (987)
T PRK09782        324 LKE-GQYDAAQKLLATLPANEMLEERYAVSVATRNKAEALRLARLLYQQEPANLTRLDQLTWQLMQNGQSREAADLLLQR  402 (987)
T ss_pred             Hhc-cHHHHHHHHhcCCCcchHHHHHHhhccccCchhHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcccHHHHHHHHHHh
Confidence            222 44444444422111                             0  1 2222222223355789999999999988


Q ss_pred             Cc-C-----CHhHHHHHHHHHHHcCCh---HHHHHH-------------------------HhhCCC---C--CcccHHH
Q 009066           97 PE-K-----NSVSWSAMISGYIECGQL---DKAVEL-------------------------FKVAPV---K--SVVAWTA  137 (545)
Q Consensus        97 ~~-~-----~~~~~~~li~~~~~~g~~---~~A~~~-------------------------f~~~~~---~--~~~~~~~  137 (545)
                      .+ +     +....+-|+..|.+.+.+   ..|..+                         +.....   .  +...|..
T Consensus       403 ~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~  482 (987)
T PRK09782        403 YPFQGDARLSQTLMARLASLLESHPYLATPAKVAILSKPLPLAEQRQWQSQLPGIADNCPAIVRLLGDMSPSYDAAAWNR  482 (987)
T ss_pred             cCCCcccccCHHHHHHHHHHHHhCCcccchHHHHHhccccccchhHHHHhhhhhhhhhHHHHHHhcccCCCCCCHHHHHH
Confidence            75 1     234556788888888773   333222                         111111   1  4456777


Q ss_pred             HHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHH
Q 009066          138 MISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMY  217 (545)
Q Consensus       138 li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y  217 (545)
                      +..++     .. +++.+|+..|.+....  .|+......+..++...|++++|...++.+...  +|+...+..+...+
T Consensus       483 LG~~l-----~~-~~~~eAi~a~~~Al~~--~Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~al  552 (987)
T PRK09782        483 LAKCY-----RD-TLPGVALYAWLQAEQR--QPDAWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAANTA  552 (987)
T ss_pred             HHHHH-----Hh-CCcHHHHHHHHHHHHh--CCchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHH
Confidence            77776     55 7889999988888765  467655444555567899999999999998665  34445566778889


Q ss_pred             HhcCCHHHHHHHHHhccCCChhhHHHHH---HHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHH
Q 009066          218 CKCGDLEDACKLFLEIQRKDVVTWNAMI---SGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQ  294 (545)
Q Consensus       218 ~~~g~~~~A~~~f~~~~~~~~~~~~~li---~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~  294 (545)
                      .+.|+.++|...|++..+.++..++...   ......|++++|+..|++..+.  .|+...+..+..++.+.|+.++|..
T Consensus       553 l~~Gd~~eA~~~l~qAL~l~P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l--~P~~~a~~~LA~~l~~lG~~deA~~  630 (987)
T PRK09782        553 QAAGNGAARDRWLQQAEQRGLGDNALYWWLHAQRYIPGQPELALNDLTRSLNI--APSANAYVARATIYRQRHNVPAAVS  630 (987)
T ss_pred             HHCCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            9999999999999988765443333333   3334559999999999999874  5678888899999999999999999


Q ss_pred             HHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCC
Q 009066          295 YFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNP  372 (545)
Q Consensus       295 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p  372 (545)
                      .+++....  .+.+...+..+...+...|++++|+..+++. ...| +...+..+..++...|++++|+..++++++++|
T Consensus       631 ~l~~AL~l--~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~P  708 (987)
T PRK09782        631 DLRAALEL--EPNNSNYQAALGYALWDSGDIAQSREMLERAHKGLPDDPALIRQLAYVNQRLDDMAATQHYARLVIDDID  708 (987)
T ss_pred             HHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC
Confidence            99999863  3556788899999999999999999999987 4445 567899999999999999999999999999999


Q ss_pred             CCCchhHHHHHHHHHHcCCchHHHHHHHHhhhCCCc
Q 009066          373 ANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVV  408 (545)
Q Consensus       373 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  408 (545)
                      +... +............+++.+.+.+++.-..+..
T Consensus       709 ~~a~-i~~~~g~~~~~~~~~~~a~~~~~r~~~~~~~  743 (987)
T PRK09782        709 NQAL-ITPLTPEQNQQRFNFRRLHEEVGRRWTFSFD  743 (987)
T ss_pred             CCch-hhhhhhHHHHHHHHHHHHHHHHHHHhhcCcc
Confidence            9987 8888889999999999998888776655443

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.69  E-value=3.7e-13  Score=142.82  Aligned_cols=368  Identities=10%  Similarity=0.008  Sum_probs=272.1

Q ss_pred             HHHHHHHhCCCChHHHHHHHccCCCCChhhHHHHH--H-HHHcCCCCHHHHHHHHhcCC---CCCeehHHHHHHHHHhCC
Q 009066           11 SVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIML--S-CILLNSDDVVAAFDFFQRLP---IKDTASWNTMISGFVQKK   84 (545)
Q Consensus        11 ~li~~~~~~g~~~~~A~~~f~~~~~~~~~~~~~li--~-~~~~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~g   84 (545)
                      .++..+...|+ .++|+..+++...|+...+..++  . .+... |++++|+++|+++.   +.|...+..++..+...+
T Consensus        73 dll~l~~~~G~-~~~A~~~~eka~~p~n~~~~~llalA~ly~~~-gdyd~Aiely~kaL~~dP~n~~~l~gLa~~y~~~~  150 (822)
T PRK14574         73 DWLQIAGWAGR-DQEVIDVYERYQSSMNISSRGLASAARAYRNE-KRWDQALALWQSSLKKDPTNPDLISGMIMTQADAG  150 (822)
T ss_pred             HHHHHHHHcCC-cHHHHHHHHHhccCCCCCHHHHHHHHHHHHHc-CCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHhhcC
Confidence            78888999999 99999999999887766666655  2 44455 99999999999988   335567777888899999


Q ss_pred             CHHHHHHHHhhCCcCCH--hHHHHHHHHHHHcCChHHHHHHHhhCCCC---CcccHHHHHHHhcchh-------------
Q 009066           85 NMAKARDLFLAMPEKNS--VSWSAMISGYIECGQLDKAVELFKVAPVK---SVVAWTAMISGYMKFG-------------  146 (545)
Q Consensus        85 ~~~~a~~~~~~~~~~~~--~~~~~li~~~~~~g~~~~A~~~f~~~~~~---~~~~~~~li~~~~~~g-------------  146 (545)
                      +.++|++.++++...++  ..+-.++..+...++..+|.+.++++...   +...+..+..+..+.|             
T Consensus       151 q~~eAl~~l~~l~~~dp~~~~~l~layL~~~~~~~~~AL~~~ekll~~~P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p  230 (822)
T PRK14574        151 RGGVVLKQATELAERDPTVQNYMTLSYLNRATDRNYDALQASSEAVRLAPTSEEVLKNHLEILQRNRIVEPALRLAKENP  230 (822)
T ss_pred             CHHHHHHHHHHhcccCcchHHHHHHHHHHHhcchHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCcHHHHHHHHhCc
Confidence            99999999999885443  33434444444456665688888877632   2333344444443322             


Q ss_pred             ------------------hh---------ccCC---hHHHHHHHHHHHhC-CCCCC-HHH----HHHHHHHHhccCcHHH
Q 009066          147 ------------------YV---------ENSW---AEDGLKLLRMMIGL-GIRPN-ASS----LSSVLLGCSHLSSLQL  190 (545)
Q Consensus       147 ------------------~~---------~~g~---~~~A~~~~~~m~~~-~~~pd-~~t----~~~ll~~~~~~~~~~~  190 (545)
                                        .+         ...+   .+.|+.-++.+... +-.|. ..-    ..-.+.++...++..+
T Consensus       231 ~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~  310 (822)
T PRK14574        231 NLVSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTAD  310 (822)
T ss_pred             cccCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHH
Confidence                              01         1111   23355555555431 22232 122    2234557788999999


Q ss_pred             HHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccCC---------ChhhHHHHHHHHHHcCChHHHHHHH
Q 009066          191 GKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRK---------DVVTWNAMISGYAQHGKGEKALRLF  261 (545)
Q Consensus       191 a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~---------~~~~~~~li~~~~~~g~~~~A~~~~  261 (545)
                      +...|+.+...|.+....+-.++.++|...++.++|..+|.++...         +......|.-+|...+++++|..++
T Consensus       311 vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l  390 (822)
T PRK14574        311 LIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFA  390 (822)
T ss_pred             HHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHH
Confidence            9999999999887766778899999999999999999999998542         2333577889999999999999999


Q ss_pred             HHHHHcCC-----------CCC--HHH-HHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHH
Q 009066          262 DKMKDEGM-----------KPD--SIT-FVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVE  327 (545)
Q Consensus       262 ~~m~~~g~-----------~p~--~~t-~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  327 (545)
                      +++.+...           .||  -.. +..++..+...|++.+|.+.++.+..  .-+-|......+.+.+...|++.+
T Consensus       391 ~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~--~aP~n~~l~~~~A~v~~~Rg~p~~  468 (822)
T PRK14574        391 VNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSS--TAPANQNLRIALASIYLARDLPRK  468 (822)
T ss_pred             HHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHhcCCHHH
Confidence            99987322           122  223 33456778899999999999999976  457789999999999999999999


Q ss_pred             HHHHHHhC-CCCCC-HhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHH
Q 009066          328 AVDLIKKM-PFKPQ-PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLAN  384 (545)
Q Consensus       328 A~~~~~~m-~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~  384 (545)
                      |.+.++.. ...|+ ..+...++.++...+++++|..+.+.+.+..|++..  ...|-.
T Consensus       469 A~~~~k~a~~l~P~~~~~~~~~~~~al~l~e~~~A~~~~~~l~~~~Pe~~~--~~~l~r  525 (822)
T PRK14574        469 AEQELKAVESLAPRSLILERAQAETAMALQEWHQMELLTDDVISRSPEDIP--SQELDR  525 (822)
T ss_pred             HHHHHHHHhhhCCccHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhCCCchh--HHHHHH
Confidence            99999776 44564 466778888888999999999999999999999974  444444

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

Probab=99.66  E-value=2.1e-14  Score=134.02  Aligned_cols=205  Identities=12%  Similarity=0.121  Sum_probs=161.0

Q ss_pred             ccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhcc---CCChhhHHHHHHHHHHcCChHHHHHH
Q 009066          184 HLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQ---RKDVVTWNAMISGYAQHGKGEKALRL  260 (545)
Q Consensus       184 ~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~  260 (545)
                      ..|++++|.+.|.+.+...-......|| +.-.+-+.|++++|++.|-++.   ..++...-.+.+.|-...+...|+++
T Consensus       502 ~ngd~dka~~~ykeal~ndasc~ealfn-iglt~e~~~~ldeald~f~klh~il~nn~evl~qianiye~led~aqaie~  580 (840)
T KOG2003|consen  502 ANGDLDKAAEFYKEALNNDASCTEALFN-IGLTAEALGNLDEALDCFLKLHAILLNNAEVLVQIANIYELLEDPAQAIEL  580 (840)
T ss_pred             ecCcHHHHHHHHHHHHcCchHHHHHHHH-hcccHHHhcCHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhCHHHHHHH
Confidence            4578888888888887654322223333 4445677888999988887664   35777777788888888888889888


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC
Q 009066          261 FDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP  339 (545)
Q Consensus       261 ~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p  339 (545)
                      +.+.... ++.|...+..|...|-+.|+-.+|.+.+-.-.+  -++.+.++..-|..-|....-.++|+.+|++. -++|
T Consensus       581 ~~q~~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyr--yfp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp  657 (840)
T KOG2003|consen  581 LMQANSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYR--YFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQP  657 (840)
T ss_pred             HHHhccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhccc--ccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCc
Confidence            8776543 445666777888889999999888888755443  45778888888888888888899999999987 5779


Q ss_pred             CHhHHHHHHHHH-HhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCch
Q 009066          340 QPAIFGTLLSAC-RVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWD  393 (545)
Q Consensus       340 ~~~~~~~li~~~-~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~  393 (545)
                      +..-|..++..| ++.|++++|..+++..-...|.+.. +...|++++...|..+
T Consensus       658 ~~~kwqlmiasc~rrsgnyqka~d~yk~~hrkfpedld-clkflvri~~dlgl~d  711 (840)
T KOG2003|consen  658 NQSKWQLMIASCFRRSGNYQKAFDLYKDIHRKFPEDLD-CLKFLVRIAGDLGLKD  711 (840)
T ss_pred             cHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCccchH-HHHHHHHHhccccchh
Confidence            999999998765 6789999999999999999999988 8999999999888543

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

Probab=99.63  E-value=3.3e-13  Score=137.44  Aligned_cols=395  Identities=13%  Similarity=0.115  Sum_probs=261.1

Q ss_pred             CCCCCccHHHHHHHHHHhCCCChHHHHHHHccCCCCC------hhhHHHHHHHHHcCCCCHHHHHHHHhcCC--CCCe--
Q 009066            1 MNVKTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQPD------VVSYNIMLSCILLNSDDVVAAFDFFQRLP--IKDT--   70 (545)
Q Consensus         1 ~~~~~~~~~~~li~~~~~~g~~~~~A~~~f~~~~~~~------~~~~~~li~~~~~~~g~~~~A~~~~~~m~--~~d~--   70 (545)
                      +++.++.+.|.|.+.|.--|+ +..+..+...+..-.      ..+|-.+-++|-.. |++++|...|....  .+|.  
T Consensus       265 ~n~~nP~~l~~LAn~fyfK~d-y~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~-Gd~ekA~~yY~~s~k~~~d~~~  342 (1018)
T KOG2002|consen  265 ENNENPVALNHLANHFYFKKD-YERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQ-GDFEKAFKYYMESLKADNDNFV  342 (1018)
T ss_pred             hcCCCcHHHHHHHHHHhhccc-HHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhh-ccHHHHHHHHHHHHccCCCCcc
Confidence            467788899999999998888 999988887776322      23466778888888 99999999998776  3333  


Q ss_pred             ehHHHHHHHHHhCCCHHHHHHHHhhCCc---CCHhHHHHHHHHHHHcC----ChHHHHHHHhhCCCC---CcccHHHHHH
Q 009066           71 ASWNTMISGFVQKKNMAKARDLFLAMPE---KNSVSWSAMISGYIECG----QLDKAVELFKVAPVK---SVVAWTAMIS  140 (545)
Q Consensus        71 ~~~~~li~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g----~~~~A~~~f~~~~~~---~~~~~~~li~  140 (545)
                      ..+--+...|.+.|+++.+...|+.+.+   .+..+...|...|+..+    ..+.|..+..+...+   |...|-.+..
T Consensus       343 l~~~GlgQm~i~~~dle~s~~~fEkv~k~~p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~~~d~~a~l~laq  422 (1018)
T KOG2002|consen  343 LPLVGLGQMYIKRGDLEESKFCFEKVLKQLPNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQTPVDSEAWLELAQ  422 (1018)
T ss_pred             ccccchhHHHHHhchHHHHHHHHHHHHHhCcchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcccccHHHHHHHHH
Confidence            3455677889999999999999998873   34567777777777765    456666666555433   3334444433


Q ss_pred             HhcchhhhccCChHHHHHHHHHHH----hCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhC---CCCCCcc-----
Q 009066          141 GYMKFGYVENSWAEDGLKLLRMMI----GLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKS---PLCKDTT-----  208 (545)
Q Consensus       141 ~~~~~g~~~~g~~~~A~~~~~~m~----~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~---g~~~~~~-----  208 (545)
                      .+      ..+++..++..|....    ..+-++.....|.+...+...|+++.|...|......   -..+|..     
T Consensus       423 l~------e~~d~~~sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~l  496 (1018)
T KOG2002|consen  423 LL------EQTDPWASLDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNL  496 (1018)
T ss_pred             HH------HhcChHHHHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchh
Confidence            33      2233333344443322    2233344445555555555555555555555554433   1111111     


Q ss_pred             --cHH--------------------------HHHHHHHhc-------CCHHHHHHHHHhccC---CChhhHHHHHHHHHH
Q 009066          209 --ALT--------------------------PLISMYCKC-------GDLEDACKLFLEIQR---KDVVTWNAMISGYAQ  250 (545)
Q Consensus       209 --~~~--------------------------~li~~y~~~-------g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~  250 (545)
                        -||                          ..|++|.+.       +...+|...+.....   .++..|+-+...|..
T Consensus       497 t~~YNlarl~E~l~~~~~A~e~Yk~Ilkehp~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d~~np~arsl~G~~~l~  576 (1018)
T KOG2002|consen  497 TLKYNLARLLEELHDTEVAEEMYKSILKEHPGYIDAYLRLGCMARDKNNLYEASLLLKDALNIDSSNPNARSLLGNLHLK  576 (1018)
T ss_pred             HHHHHHHHHHHhhhhhhHHHHHHHHHHHHCchhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcccCCcHHHHHHHHHHHh
Confidence              111                          123333333       344555555555442   456667766667777


Q ss_pred             cCChHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHc------------cCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHH
Q 009066          251 HGKGEKALRLFDKMKDE-GMKPDSITFVALLLACNH------------AGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVD  317 (545)
Q Consensus       251 ~g~~~~A~~~~~~m~~~-g~~p~~~t~~~ll~a~~~------------~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~  317 (545)
                      ...+..|.+-|+..... ...+|..+...|.+.|..            .+..+.|+++|.++.+  ..+.+...-+.+.-
T Consensus       577 k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~--~dpkN~yAANGIgi  654 (1018)
T KOG2002|consen  577 KSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLR--NDPKNMYAANGIGI  654 (1018)
T ss_pred             hhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHh--cCcchhhhccchhh
Confidence            77777777766665542 233566666666665542            2456788888888876  44667788888999


Q ss_pred             HHhHcCCHHHHHHHHHhC--CCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcC-CCCCCchhHHHHHHHHHHcCCchH
Q 009066          318 LLGRAGKLVEAVDLIKKM--PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNL-NPANAAGCYVQLANIYAAMKKWDD  394 (545)
Q Consensus       318 ~~~~~g~~~~A~~~~~~m--~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~~~l~~~~~~~g~~~~  394 (545)
                      .++..|++.+|..+|.+.  ....+..+|-.+...|...|++..|++.|+...+. .+.+.......|++++...|++.+
T Consensus       655 VLA~kg~~~~A~dIFsqVrEa~~~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~e  734 (1018)
T KOG2002|consen  655 VLAEKGRFSEARDIFSQVREATSDFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQE  734 (1018)
T ss_pred             hhhhccCchHHHHHHHHHHHHHhhCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHH
Confidence            999999999999999988  22235568999999999999999999999988663 455444488899999999999999


Q ss_pred             HHHHHHHhhhC
Q 009066          395 VARIRLSMKEN  405 (545)
Q Consensus       395 a~~~~~~m~~~  405 (545)
                      +.+........
T Consensus       735 ak~~ll~a~~~  745 (1018)
T KOG2002|consen  735 AKEALLKARHL  745 (1018)
T ss_pred             HHHHHHHHHHh
Confidence            99988776654

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

Probab=99.60  E-value=3.3e-15  Score=142.20  Aligned_cols=251  Identities=18%  Similarity=0.169  Sum_probs=112.2

Q ss_pred             hccCChHHHHHHHHHHHhCCCCCCHHHH-HHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHH
Q 009066          148 VENSWAEDGLKLLRMMIGLGIRPNASSL-SSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDA  226 (545)
Q Consensus       148 ~~~g~~~~A~~~~~~m~~~~~~pd~~t~-~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A  226 (545)
                      .+.|++++|++++++......+|+...| ..+...+...++.+.|.+.++.+.+.+. .+...+..++.. ...+++++|
T Consensus        19 ~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~-~~~~~~~~l~~l-~~~~~~~~A   96 (280)
T PF13429_consen   19 YQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDK-ANPQDYERLIQL-LQDGDPEEA   96 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-cccccccccccc-ccccccccc
Confidence            7788888888888665544323444444 3444455678888899999988887763 356667777777 688999999


Q ss_pred             HHHHHhccC--CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhc
Q 009066          227 CKLFLEIQR--KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEG-MKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDY  303 (545)
Q Consensus       227 ~~~f~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~  303 (545)
                      .++++..-+  ++...+..++..+.+.++++++.++++++.... .+++...|..+...+.+.|+.++|.+.+++..+. 
T Consensus        97 ~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~-  175 (280)
T PF13429_consen   97 LKLAEKAYERDGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKALEL-  175 (280)
T ss_dssp             ---------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH-
T ss_pred             ccccccccccccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc-
Confidence            998877643  566778888899999999999999999987543 3456667778888899999999999999999874 


Q ss_pred             CCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC--CCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHH
Q 009066          304 GIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM--PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQ  381 (545)
Q Consensus       304 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m--~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~  381 (545)
                       .+.+......++..+...|+.+++.++++..  ....|...|..+..++...|+.++|...+++..+.+|+++. ....
T Consensus       176 -~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p~d~~-~~~~  253 (280)
T PF13429_consen  176 -DPDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNPDDPL-WLLA  253 (280)
T ss_dssp             --TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHSTT-HH-HHHH
T ss_pred             -CCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHHhccccccccccccccccccccccccc-cccc
Confidence             2445788889999999999999988877766  12356678899999999999999999999999999999998 9999


Q ss_pred             HHHHHHHcCCchHHHHHHHHhh
Q 009066          382 LANIYAAMKKWDDVARIRLSMK  403 (545)
Q Consensus       382 l~~~~~~~g~~~~a~~~~~~m~  403 (545)
                      ++.++...|+.++|.+++++..
T Consensus       254 ~a~~l~~~g~~~~A~~~~~~~~  275 (280)
T PF13429_consen  254 YADALEQAGRKDEALRLRRQAL  275 (280)
T ss_dssp             HHHHHT----------------
T ss_pred             cccccccccccccccccccccc
Confidence            9999999999999999987653

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

Probab=99.58  E-value=4.3e-12  Score=128.67  Aligned_cols=327  Identities=13%  Similarity=0.160  Sum_probs=231.5

Q ss_pred             HHhCCCHHHHHHHHhhCCc---CCHhHHHHHHHHHHHcCChHHHHHHHhh---CCCCCcccHHHHHHHhcchhhhccCCh
Q 009066           80 FVQKKNMAKARDLFLAMPE---KNSVSWSAMISGYIECGQLDKAVELFKV---APVKSVVAWTAMISGYMKFGYVENSWA  153 (545)
Q Consensus        80 ~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~f~~---~~~~~~~~~~~li~~~~~~g~~~~g~~  153 (545)
                      ....|++++|..++.+++.   .+...|.+|...|-..|+.+++...+-.   +...|...|-.+-.-.     .+.|.+
T Consensus       149 lfarg~~eeA~~i~~EvIkqdp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~d~e~W~~ladls-----~~~~~i  223 (895)
T KOG2076|consen  149 LFARGDLEEAEEILMEVIKQDPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPKDYELWKRLADLS-----EQLGNI  223 (895)
T ss_pred             HHHhCCHHHHHHHHHHHHHhCccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCCChHHHHHHHHHH-----HhcccH
Confidence            3344888888888887774   3466788888888888888888766532   3344666777777777     778888


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHH----HHHHHHHhcCCHHHHHHH
Q 009066          154 EDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALT----PLISMYCKCGDLEDACKL  229 (545)
Q Consensus       154 ~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~----~li~~y~~~g~~~~A~~~  229 (545)
                      ++|.-.|.+.++.. +++...+---...|-+.|+...|...|.++.....+.|..-..    ..+..|...++-+.|.+.
T Consensus       224 ~qA~~cy~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~  302 (895)
T KOG2076|consen  224 NQARYCYSRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKA  302 (895)
T ss_pred             HHHHHHHHHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHH
Confidence            88888888887764 4455555555667778888888888888887765433332222    245556667777888888


Q ss_pred             HHhccC--C---ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCC---------------------------CHHHHH
Q 009066          230 FLEIQR--K---DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKP---------------------------DSITFV  277 (545)
Q Consensus       230 f~~~~~--~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p---------------------------~~~t~~  277 (545)
                      ++....  .   +...++.++..|.+...++.|......+......+                           +...+.
T Consensus       303 le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~r  382 (895)
T KOG2076|consen  303 LEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVIR  382 (895)
T ss_pred             HHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhHh
Confidence            877664  2   34567788888888888888888887776621222                           222211


Q ss_pred             HHHHHHHccCcHHHHHHHHHHhHHhcC--CCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC---CCCCCHhHHHHHHHHHH
Q 009066          278 ALLLACNHAGLVDLGIQYFDSMVNDYG--IAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM---PFKPQPAIFGTLLSACR  352 (545)
Q Consensus       278 ~ll~a~~~~g~~~~a~~~~~~~~~~~~--~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m---~~~p~~~~~~~li~~~~  352 (545)
                       +.-+..+....+....+...+.+. .  ..-++..|.-+.++|...|++.+|+.+|..+   +...+...|--+...|.
T Consensus       383 -l~icL~~L~~~e~~e~ll~~l~~~-n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~  460 (895)
T KOG2076|consen  383 -LMICLVHLKERELLEALLHFLVED-NVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYM  460 (895)
T ss_pred             -HhhhhhcccccchHHHHHHHHHHh-cCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHH
Confidence             112233344434443344334332 4  4445788999999999999999999999988   22235679999999999


Q ss_pred             hcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhhCCCccCCceeE
Q 009066          353 VHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVVKMPGYSW  415 (545)
Q Consensus       353 ~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~s~  415 (545)
                      ..|..++|.+.|++++.+.|++.. +-..|..+|...|+.|+|.+++..|..-+-...+++.|
T Consensus       461 ~l~e~e~A~e~y~kvl~~~p~~~D-~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~  522 (895)
T KOG2076|consen  461 ELGEYEEAIEFYEKVLILAPDNLD-ARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAW  522 (895)
T ss_pred             HHhhHHHHHHHHHHHHhcCCCchh-hhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccc
Confidence            999999999999999999999988 99999999999999999999999887333222344444

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

Probab=99.56  E-value=1.4e-11  Score=116.16  Aligned_cols=384  Identities=13%  Similarity=0.146  Sum_probs=294.5

Q ss_pred             CCCChHHHHHHHccCCC---CChhhHHHHHHHHHcCCCCHHHHHHHHhcCC---CCCeehHHHHHHHHHhCCCHHHHHHH
Q 009066           19 QRGKLKDAQELFDKIPQ---PDVVSYNIMLSCILLNSDDVVAAFDFFQRLP---IKDTASWNTMISGFVQKKNMAKARDL   92 (545)
Q Consensus        19 ~g~~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~g~~~~a~~~   92 (545)
                      ++. +..|+.+|+....   ++...|---+..=.++ ..+..|+.+|++..   ++-...|---+-.=-..|++..|.++
T Consensus        86 q~e-~~RARSv~ERALdvd~r~itLWlkYae~Emkn-k~vNhARNv~dRAvt~lPRVdqlWyKY~ymEE~LgNi~gaRqi  163 (677)
T KOG1915|consen   86 QKE-IQRARSVFERALDVDYRNITLWLKYAEFEMKN-KQVNHARNVWDRAVTILPRVDQLWYKYIYMEEMLGNIAGARQI  163 (677)
T ss_pred             HHH-HHHHHHHHHHHHhcccccchHHHHHHHHHHhh-hhHhHHHHHHHHHHHhcchHHHHHHHHHHHHHHhcccHHHHHH
Confidence            345 7889999999874   6677788888888888 99999999999876   33224555556666678999999999


Q ss_pred             HhhCC--cCCHhHHHHHHHHHHHcCChHHHHHHHhhCC--CCCcccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCC
Q 009066           93 FLAMP--EKNSVSWSAMISGYIECGQLDKAVELFKVAP--VKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGI  168 (545)
Q Consensus        93 ~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~--~~~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~  168 (545)
                      |++..  +|+...|++.|++=.+-..++.|+.++++..  .|++.+|--...--     .+.|....|..+|....+.  
T Consensus       164 ferW~~w~P~eqaW~sfI~fElRykeieraR~IYerfV~~HP~v~~wikyarFE-----~k~g~~~~aR~VyerAie~--  236 (677)
T KOG1915|consen  164 FERWMEWEPDEQAWLSFIKFELRYKEIERARSIYERFVLVHPKVSNWIKYARFE-----EKHGNVALARSVYERAIEF--  236 (677)
T ss_pred             HHHHHcCCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHheecccHHHHHHHHHHH-----HhcCcHHHHHHHHHHHHHH--
Confidence            99877  6899999999999999999999999999754  78888888877777     7888999999999888753  


Q ss_pred             CCCHH----HHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCC--cccHHHHHHHHHhcCCHHHHHHH--------HHhcc
Q 009066          169 RPNAS----SLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKD--TTALTPLISMYCKCGDLEDACKL--------FLEIQ  234 (545)
Q Consensus       169 ~pd~~----t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~--~~~~~~li~~y~~~g~~~~A~~~--------f~~~~  234 (545)
                      -.|..    .|++....=.....++.|..+|+.++..= +.+  ...|..+...--+-|+.......        ++.+.
T Consensus       237 ~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~-pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v  315 (677)
T KOG1915|consen  237 LGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHI-PKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEV  315 (677)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc-CcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHH
Confidence            12333    33343333346778899999999988763 222  44566666655566775554443        23333


Q ss_pred             CC---ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHH-------HHHHHHHHH---HccCcHHHHHHHHHHhHH
Q 009066          235 RK---DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSI-------TFVALLLAC---NHAGLVDLGIQYFDSMVN  301 (545)
Q Consensus       235 ~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-------t~~~ll~a~---~~~g~~~~a~~~~~~~~~  301 (545)
                      ..   |-.+|--.+..--..|+.+...++|++.+.. ++|-..       .|.-+=-+|   ....+++.++++++..++
T Consensus       316 ~~np~nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~  394 (677)
T KOG1915|consen  316 SKNPYNYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACLD  394 (677)
T ss_pred             HhCCCCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            32   6678888888888889999999999999875 565321       121111122   356789999999998886


Q ss_pred             hcCCCCCHHHHHHHHHHH----hHcCCHHHHHHHHHhC-CCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCc
Q 009066          302 DYGIAAKPDHYTCMVDLL----GRAGKLVEAVDLIKKM-PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA  376 (545)
Q Consensus       302 ~~~~~~~~~~~~~li~~~----~~~g~~~~A~~~~~~m-~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~  376 (545)
                        -++....|+.-+--+|    .++.++..|.+++... |.-|-..++...|..-.+.++++....++++.++-+|.+..
T Consensus       395 --lIPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~Pe~c~  472 (677)
T KOG1915|consen  395 --LIPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGKCPKDKLFKGYIELELQLREFDRCRKLYEKFLEFSPENCY  472 (677)
T ss_pred             --hcCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcChHhhH
Confidence              5666667776655555    4788999999999876 77799999999999999999999999999999999999988


Q ss_pred             hhHHHHHHHHHHcCCchHHHHHHHHhhhCCCccCCceeEE
Q 009066          377 GCYVQLANIYAAMKKWDDVARIRLSMKENNVVKMPGYSWI  416 (545)
Q Consensus       377 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~s~~  416 (545)
                       ++...+..-...|+++.|..+|....+....-.|...|-
T Consensus       473 -~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwk  511 (677)
T KOG1915|consen  473 -AWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWK  511 (677)
T ss_pred             -HHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHH
Confidence             999999999999999999999999988765555666663

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.53  E-value=1e-11  Score=123.71  Aligned_cols=274  Identities=11%  Similarity=0.068  Sum_probs=176.7

Q ss_pred             cCChHHHHHHHhhCCCCC---cccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHH--HHHHHHhccCcH
Q 009066          114 CGQLDKAVELFKVAPVKS---VVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLS--SVLLGCSHLSSL  188 (545)
Q Consensus       114 ~g~~~~A~~~f~~~~~~~---~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~--~ll~~~~~~~~~  188 (545)
                      .|+++.|++.+...+...   ...|-......     .+.|+++.|.+.|.++.+.  .|+.....  .....+...|++
T Consensus        97 eGd~~~A~k~l~~~~~~~~~p~l~~llaA~aA-----~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~  169 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHAEQPVVNYLLAAEAA-----QQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNEN  169 (398)
T ss_pred             CCCHHHHHHHHHHHHhcccchHHHHHHHHHHH-----HHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCH
Confidence            577777777776654421   12222223333     5677778888888777653  45543322  224456677788


Q ss_pred             HHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccCCCh-----------hhHHHHHHHHHHcCChHHH
Q 009066          189 QLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDV-----------VTWNAMISGYAQHGKGEKA  257 (545)
Q Consensus       189 ~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~-----------~~~~~li~~~~~~g~~~~A  257 (545)
                      +.|.+.++.+.+.. +.+..+...+...|.+.|++++|.+++..+.+...           .+|..++.......+.+..
T Consensus       170 ~~Al~~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l  248 (398)
T PRK10747        170 HAARHGVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGL  248 (398)
T ss_pred             HHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHH
Confidence            88888887777765 45566777777888888888888877777764311           1233333333334444555


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-C
Q 009066          258 LRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-P  336 (545)
Q Consensus       258 ~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~  336 (545)
                      .++++.+-+. .+.+......+..++...|+.++|.+.+++..+.   +|+....  ++......++.+++.+..++. .
T Consensus       249 ~~~w~~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~---~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk  322 (398)
T PRK10747        249 KRWWKNQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR---QYDERLV--LLIPRLKTNNPEQLEKVLRQQIK  322 (398)
T ss_pred             HHHHHhCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc---CCCHHHH--HHHhhccCCChHHHHHHHHHHHh
Confidence            5555554322 2345566667777888888888888888777653   4454322  222223457888888877766 3


Q ss_pred             CCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhh
Q 009066          337 FKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMK  403 (545)
Q Consensus       337 ~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  403 (545)
                      ..| |......+...|...+++++|...|+++.+..|++.  .+..|..++.+.|+.++|.+++++-.
T Consensus       323 ~~P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~~~--~~~~La~~~~~~g~~~~A~~~~~~~l  388 (398)
T PRK10747        323 QHGDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQRPDAY--DYAWLADALDRLHKPEEAAAMRRDGL  388 (398)
T ss_pred             hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCHH--HHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            345 445567777888888888888888888888888875  67788888888888888888887654

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.52  E-value=6.1e-11  Score=110.56  Aligned_cols=391  Identities=16%  Similarity=0.153  Sum_probs=196.3

Q ss_pred             CccHHHHHHHHHHhCCCChHHHHHHHccCCCCChh-h---HHHHH--HHHHcCCCCHHHHHHHHhcCC------------
Q 009066            5 TTVNWNSVLAGFAKQRGKLKDAQELFDKIPQPDVV-S---YNIML--SCILLNSDDVVAAFDFFQRLP------------   66 (545)
Q Consensus         5 ~~~~~~~li~~~~~~g~~~~~A~~~f~~~~~~~~~-~---~~~li--~~~~~~~g~~~~A~~~~~~m~------------   66 (545)
                      .+.+-|.|+.+.+. |. +.++.-+++.|.+.++. +   --.++  -.|..+..-+-.-++.|-.|.            
T Consensus       115 ~V~~E~nL~kmIS~-~E-vKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S~~sWK~  192 (625)
T KOG4422|consen  115 QVETENNLLKMISS-RE-VKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDSTSSWKS  192 (625)
T ss_pred             hhcchhHHHHHHhh-cc-cchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhcccccccccccccc
Confidence            45677888888776 56 89999999999853322 1   11111  123333111111222333333            


Q ss_pred             -----------CCCeehHHHHHHHHHhCCCHHHHHHHHhhCCc----CCHhHHHHHHHHHHHcCChHHHHHHHhhCC---
Q 009066           67 -----------IKDTASWNTMISGFVQKKNMAKARDLFLAMPE----KNSVSWSAMISGYIECGQLDKAVELFKVAP---  128 (545)
Q Consensus        67 -----------~~d~~~~~~li~~~~~~g~~~~a~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~f~~~~---  128 (545)
                                 ++...|+..||.+.++--..+.|.+++++...    -+..++|.+|.+-+-.-.    .++..+|.   
T Consensus       193 G~vAdL~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~----K~Lv~EMisqk  268 (625)
T KOG4422|consen  193 GAVADLLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVG----KKLVAEMISQK  268 (625)
T ss_pred             ccHHHHHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhcc----HHHHHHHHHhh
Confidence                       33445555555555555555555555555442    234444554443322222    22333332   


Q ss_pred             -CCCcccHHHHHHHhcchhhhccCChH----HHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHH-HHHHHHHHHh--
Q 009066          129 -VKSVVAWTAMISGYMKFGYVENSWAE----DGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQL-GKQVHQLVFK--  200 (545)
Q Consensus       129 -~~~~~~~~~li~~~~~~g~~~~g~~~----~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~-a~~~~~~~~~--  200 (545)
                       .||..|+|+++++.     .+.|+++    .|++++.+|++-|+.|.-.+|..+|..+.+.++..+ +..+...+..  
T Consensus       269 m~Pnl~TfNalL~c~-----akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~l  343 (625)
T KOG4422|consen  269 MTPNLFTFNALLSCA-----AKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSL  343 (625)
T ss_pred             cCCchHhHHHHHHHH-----HHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhh
Confidence             45555555555555     4444433    234455555555555555555555555555444422 2222222222  


Q ss_pred             --CCCCC----CcccHHHHHHHHHhcCCHHHHHHHHHhccCC-----------ChhhHHHHHHHHHHcCChHHHHHHHHH
Q 009066          201 --SPLCK----DTTALTPLISMYCKCGDLEDACKLFLEIQRK-----------DVVTWNAMISGYAQHGKGEKALRLFDK  263 (545)
Q Consensus       201 --~g~~~----~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~-----------~~~~~~~li~~~~~~g~~~~A~~~~~~  263 (545)
                        ..+.|    |...+..-++.+....+.+-|.++-.-....           ...-|..+....++....+.-+..|+.
T Consensus       344 tGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~  423 (625)
T KOG4422|consen  344 TGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYED  423 (625)
T ss_pred             ccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence              11111    2223344444555555555555554433321           122344555566666666677777777


Q ss_pred             HHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcC-C--------HHH-----HH
Q 009066          264 MKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAG-K--------LVE-----AV  329 (545)
Q Consensus       264 m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-~--------~~~-----A~  329 (545)
                      |.-.-+-|+..+...+++|....|.++-..+++..++. +|.......-.-+...+++.. .        +..     |.
T Consensus       424 lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~-~ght~r~~l~eeil~~L~~~k~hp~tp~r~Ql~~~~ak~aa  502 (625)
T KOG4422|consen  424 LVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKE-YGHTFRSDLREEILMLLARDKLHPLTPEREQLQVAFAKCAA  502 (625)
T ss_pred             hccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHH-hhhhhhHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHHH
Confidence            76666667777777777777777777777777766654 343333333333333333332 0        110     11


Q ss_pred             HHHH-------hC-CCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCC---CCCCc-hhHHHHHHHHHHcCCchHHHH
Q 009066          330 DLIK-------KM-PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLN---PANAA-GCYVQLANIYAAMKKWDDVAR  397 (545)
Q Consensus       330 ~~~~-------~m-~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~---p~~~~-~~~~~l~~~~~~~g~~~~a~~  397 (545)
                      .+++       ++ ...-.....+...-.+.+.|..++|.+++..+...+   |..+. .+...|.+.-........|..
T Consensus       503 d~~e~~e~~~~R~r~~~~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~~spsqA~~  582 (625)
T KOG4422|consen  503 DIKEAYESQPIRQRAQDWPATSLNCIAILLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSAKVSNSPSQAIE  582 (625)
T ss_pred             HHHHHHHhhHHHHHhccCChhHHHHHHHHHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHHHhcCCHHHHHH
Confidence            1111       11 112233445556666677788888887777765432   33331 122244444555566777777


Q ss_pred             HHHHhhhCCC
Q 009066          398 IRLSMKENNV  407 (545)
Q Consensus       398 ~~~~m~~~~~  407 (545)
                      +++.|...+.
T Consensus       583 ~lQ~a~~~n~  592 (625)
T KOG4422|consen  583 VLQLASAFNL  592 (625)
T ss_pred             HHHHHHHcCc
Confidence            7777765544

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

Probab=99.52  E-value=4.3e-11  Score=122.34  Aligned_cols=355  Identities=12%  Similarity=0.088  Sum_probs=205.5

Q ss_pred             hHHHHHHHHHcCCCCHHHHHHHHhcCCCC------CeehHHHHHHHHHhCCCHHHHHHHHhhCCc--CC--HhHHHHHHH
Q 009066           40 SYNIMLSCILLNSDDVVAAFDFFQRLPIK------DTASWNTMISGFVQKKNMAKARDLFLAMPE--KN--SVSWSAMIS  109 (545)
Q Consensus        40 ~~~~li~~~~~~~g~~~~A~~~~~~m~~~------d~~~~~~li~~~~~~g~~~~a~~~~~~~~~--~~--~~~~~~li~  109 (545)
                      ..+.|-+-|+.. |+++.++.+...+...      -..+|-.+..+|-..|++++|...|.+...  ++  +..+--|..
T Consensus       272 ~l~~LAn~fyfK-~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~~~GlgQ  350 (1018)
T KOG2002|consen  272 ALNHLANHFYFK-KDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNFVLPLVGLGQ  350 (1018)
T ss_pred             HHHHHHHHHhhc-ccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCccccccchhH
Confidence            333444444444 5666666555544411      123455556666666666666666655542  12  223344566


Q ss_pred             HHHHcCChHHHHHHHhhCCCC---CcccHHHHHHHhcchhhhccC----ChHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 009066          110 GYIECGQLDKAVELFKVAPVK---SVVAWTAMISGYMKFGYVENS----WAEDGLKLLRMMIGLGIRPNASSLSSVLLGC  182 (545)
Q Consensus       110 ~~~~~g~~~~A~~~f~~~~~~---~~~~~~~li~~~~~~g~~~~g----~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~  182 (545)
                      +|.+.|+++.|...|+.+...   +..+...+...|     +..+    ..++|..++.+..+.- +.|...|..+...+
T Consensus       351 m~i~~~dle~s~~~fEkv~k~~p~~~etm~iLG~Ly-----a~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~laql~  424 (1018)
T KOG2002|consen  351 MYIKRGDLEESKFCFEKVLKQLPNNYETMKILGCLY-----AHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELAQLL  424 (1018)
T ss_pred             HHHHhchHHHHHHHHHHHHHhCcchHHHHHHHHhHH-----HhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHHHHH
Confidence            666666666666666655422   223333444444     3322    2344555555444332 33444555444444


Q ss_pred             hccCcHHHHHHHHHHH----HhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccCC-------Chh------hHHHHH
Q 009066          183 SHLSSLQLGKQVHQLV----FKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRK-------DVV------TWNAMI  245 (545)
Q Consensus       183 ~~~~~~~~a~~~~~~~----~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~-------~~~------~~~~li  245 (545)
                      .. +++.....++..+    ...+-.+.+.+.|.+...+...|++++|...|++....       |..      +--.+.
T Consensus       425 e~-~d~~~sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNla  503 (1018)
T KOG2002|consen  425 EQ-TDPWASLDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLA  503 (1018)
T ss_pred             Hh-cChHHHHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHH
Confidence            33 2332234444333    23444456667777777777777777777777765431       221      111233


Q ss_pred             HHHHHcCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCC
Q 009066          246 SGYAQHGKGEKALRLFDKMKDEGMKPDSI-TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGK  324 (545)
Q Consensus       246 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  324 (545)
                      ..+-..++.+.|.+.|....+.  .|+-+ .|.-++......+...+|...+.....  ....++..++.+...+.+...
T Consensus       504 rl~E~l~~~~~A~e~Yk~Ilke--hp~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~--~d~~np~arsl~G~~~l~k~~  579 (1018)
T KOG2002|consen  504 RLLEELHDTEVAEEMYKSILKE--HPGYIDAYLRLGCMARDKNNLYEASLLLKDALN--IDSSNPNARSLLGNLHLKKSE  579 (1018)
T ss_pred             HHHHhhhhhhHHHHHHHHHHHH--CchhHHHHHHhhHHHHhccCcHHHHHHHHHHHh--cccCCcHHHHHHHHHHHhhhh
Confidence            4444556677777777777663  34433 233333233344667777777777765  455666666677777777777


Q ss_pred             HHHHHHHH----HhCCCCCCHhHHHHHHHHHH------------hcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHH
Q 009066          325 LVEAVDLI----KKMPFKPQPAIFGTLLSACR------------VHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAA  388 (545)
Q Consensus       325 ~~~A~~~~----~~m~~~p~~~~~~~li~~~~------------~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~  388 (545)
                      +..|.+-|    .+....+|..+.-+|.+.|.            ..+..++|+++|.++++.+|.+.. +-+.++-+++.
T Consensus       580 ~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~dpkN~y-AANGIgiVLA~  658 (1018)
T KOG2002|consen  580 WKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRNDPKNMY-AANGIGIVLAE  658 (1018)
T ss_pred             hcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcCcchhh-hccchhhhhhh
Confidence            76666633    33333467777777777554            234567899999999999999977 78889999999


Q ss_pred             cCCchHHHHHHHHhhhCCC
Q 009066          389 MKKWDDVARIRLSMKENNV  407 (545)
Q Consensus       389 ~g~~~~a~~~~~~m~~~~~  407 (545)
                      .|+|++|..+|.+.++...
T Consensus       659 kg~~~~A~dIFsqVrEa~~  677 (1018)
T KOG2002|consen  659 KGRFSEARDIFSQVREATS  677 (1018)
T ss_pred             ccCchHHHHHHHHHHHHHh
Confidence            9999999999999988655

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

Probab=99.51  E-value=1.1e-10  Score=110.06  Aligned_cols=316  Identities=14%  Similarity=0.095  Sum_probs=206.2

Q ss_pred             HHHhCCCHHHHHHHHhhCCcCCHhHHHHHHHHHHHcCChHHHHHHHhhCCCCCcccHH-HHHHHhcchhhhccCChHHHH
Q 009066           79 GFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAPVKSVVAWT-AMISGYMKFGYVENSWAEDGL  157 (545)
Q Consensus        79 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~~~~~-~li~~~~~~g~~~~g~~~~A~  157 (545)
                      .+.+.|....|...|......-+..|.+.+....-.-+.+.+..+-...+..+...-. -+..++     -...+.++++
T Consensus       173 v~k~~~~~s~A~~sfv~~v~~~P~~W~AWleL~~lit~~e~~~~l~~~l~~~~h~M~~~F~~~a~-----~el~q~~e~~  247 (559)
T KOG1155|consen  173 VLKELGLLSLAIDSFVEVVNRYPWFWSAWLELSELITDIEILSILVVGLPSDMHWMKKFFLKKAY-----QELHQHEEAL  247 (559)
T ss_pred             HHHhhchHHHHHHHHHHHHhcCCcchHHHHHHHHhhchHHHHHHHHhcCcccchHHHHHHHHHHH-----HHHHHHHHHH
Confidence            3444555555555555554444444444444444444444444443333322110000 112223     3334556666


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCC--CCcccHHHHHHHHHhcCCHHH-HHHHHHhcc
Q 009066          158 KLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLC--KDTTALTPLISMYCKCGDLED-ACKLFLEIQ  234 (545)
Q Consensus       158 ~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~--~~~~~~~~li~~y~~~g~~~~-A~~~f~~~~  234 (545)
                      +-.......|.+-+...-+....+.-...++++|+.+|+.+.+...-  .|..+|+.++-.-..+.++.- |..++ .+.
T Consensus       248 ~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skLs~LA~~v~-~id  326 (559)
T KOG1155|consen  248 QKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKLSYLAQNVS-NID  326 (559)
T ss_pred             HHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHHHHHHHHHH-Hhc
Confidence            66666666664444444344444445666777777777777776311  134445444422222222221 22222 222


Q ss_pred             CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHH
Q 009066          235 RKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTC  314 (545)
Q Consensus       235 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~  314 (545)
                      +--+.|...+.+-|.-.++.++|+..|++.++.+.. ....|+.+..-|....+...|.+.++..++  --+.|-..|-.
T Consensus       327 KyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp~-~~~aWTLmGHEyvEmKNt~AAi~sYRrAvd--i~p~DyRAWYG  403 (559)
T KOG1155|consen  327 KYRPETCCIIANYYSLRSEHEKAVMYFKRALKLNPK-YLSAWTLMGHEYVEMKNTHAAIESYRRAVD--INPRDYRAWYG  403 (559)
T ss_pred             cCCccceeeehhHHHHHHhHHHHHHHHHHHHhcCcc-hhHHHHHhhHHHHHhcccHHHHHHHHHHHh--cCchhHHHHhh
Confidence            223455666677788888999999999999885422 345666667888999999999999999886  34667889999


Q ss_pred             HHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCc
Q 009066          315 MVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKW  392 (545)
Q Consensus       315 li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~  392 (545)
                      |.++|.-.+...-|+-+|++. ..+| |...|.+|...|.+.++.++|++.|..++..+-.+.. ++..|++.|.+.++.
T Consensus       404 LGQaYeim~Mh~YaLyYfqkA~~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~-~l~~LakLye~l~d~  482 (559)
T KOG1155|consen  404 LGQAYEIMKMHFYALYYFQKALELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGS-ALVRLAKLYEELKDL  482 (559)
T ss_pred             hhHHHHHhcchHHHHHHHHHHHhcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchH-HHHHHHHHHHHHHhH
Confidence            999999999999999999988 5666 7789999999999999999999999999988766656 899999999999999


Q ss_pred             hHHHHHHHHhhh
Q 009066          393 DDVARIRLSMKE  404 (545)
Q Consensus       393 ~~a~~~~~~m~~  404 (545)
                      ++|...+++-.+
T Consensus       483 ~eAa~~yek~v~  494 (559)
T KOG1155|consen  483 NEAAQYYEKYVE  494 (559)
T ss_pred             HHHHHHHHHHHH
Confidence            999999987655

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

Probab=99.51  E-value=2.9e-12  Score=125.98  Aligned_cols=196  Identities=15%  Similarity=0.074  Sum_probs=126.3

Q ss_pred             CCCcccHHHHHHHHHhcCCHHHHHHHHHhccCC---ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCH-HHHHHH
Q 009066          204 CKDTTALTPLISMYCKCGDLEDACKLFLEIQRK---DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDS-ITFVAL  279 (545)
Q Consensus       204 ~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~t~~~l  279 (545)
                      +..+.+|-++.+.|.-.++.+.|++.|++..+-   ...+|+.+..-+.....++.|...|+..+.  +.|.. ..|..+
T Consensus       418 ~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~--~~~rhYnAwYGl  495 (638)
T KOG1126|consen  418 PNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPRFAYAYTLLGHESIATEEFDKAMKSFRKALG--VDPRHYNAWYGL  495 (638)
T ss_pred             CCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCccchhhhhcCChhhhhHHHHhHHHHHHhhhc--CCchhhHHHHhh
Confidence            344566666677777677777777777666543   345566565566666667777777766653  22222 244455


Q ss_pred             HHHHHccCcHHHHHHHHHHhHHhcCCCC-CHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCC
Q 009066          280 LLACNHAGLVDLGIQYFDSMVNDYGIAA-KPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKR  356 (545)
Q Consensus       280 l~a~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~  356 (545)
                      ...|.+.++++.|.-.|+...+   +.| +.....++...+.+.|+.|+|+.+|++. ...| |+..---.+..+...++
T Consensus       496 G~vy~Kqek~e~Ae~~fqkA~~---INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~~~~il~~~~~  572 (638)
T KOG1126|consen  496 GTVYLKQEKLEFAEFHFQKAVE---INPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYHRASILFSLGR  572 (638)
T ss_pred             hhheeccchhhHHHHHHHhhhc---CCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHHHHHHHHhhcc
Confidence            5666777777777777766653   233 3445556666777777777777777766 2222 44444444555666777


Q ss_pred             HHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhhC
Q 009066          357 LDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKEN  405 (545)
Q Consensus       357 ~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  405 (545)
                      +++|+..++++.++-|++.. .|..++.+|.+.|+.+.|+.-|.-+.+.
T Consensus       573 ~~eal~~LEeLk~~vP~es~-v~~llgki~k~~~~~~~Al~~f~~A~~l  620 (638)
T KOG1126|consen  573 YVEALQELEELKELVPQESS-VFALLGKIYKRLGNTDLALLHFSWALDL  620 (638)
T ss_pred             hHHHHHHHHHHHHhCcchHH-HHHHHHHHHHHHccchHHHHhhHHHhcC
Confidence            78888888888888887777 7888888888888888887777666553

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.49  E-value=7.4e-11  Score=117.65  Aligned_cols=277  Identities=10%  Similarity=0.028  Sum_probs=203.7

Q ss_pred             CCCHHHHHHHHhhCCcC--CHhHHHHH-HHHHHHcCChHHHHHHHhhCCCCCccc--HH--HHHHHhcchhhhccCChHH
Q 009066           83 KKNMAKARDLFLAMPEK--NSVSWSAM-ISGYIECGQLDKAVELFKVAPVKSVVA--WT--AMISGYMKFGYVENSWAED  155 (545)
Q Consensus        83 ~g~~~~a~~~~~~~~~~--~~~~~~~l-i~~~~~~g~~~~A~~~f~~~~~~~~~~--~~--~li~~~~~~g~~~~g~~~~  155 (545)
                      .|+++.|.+.+....+.  ++..+..+ .....+.|+++.|.+.|.++.+.+...  .-  .....+     ...|++++
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 EGDYQQVEKLMTRNADHAEQPVVNYLLAAEAAQQRGDEARANQHLERAAELADNDQLPVEITRVRIQ-----LARNENHA  171 (398)
T ss_pred             CCCHHHHHHHHHHHHhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHH-----HHCCCHHH
Confidence            58888888777765432  23333333 334477888888888888776433221  21  224455     77888888


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcc-------cHHHHHHHHHhcCCHHHHHH
Q 009066          156 GLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTT-------ALTPLISMYCKCGDLEDACK  228 (545)
Q Consensus       156 A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~-------~~~~li~~y~~~g~~~~A~~  228 (545)
                      |+..++++.+.. +-+......+...+.+.|+++++.+++..+.+.+..++..       ++..++.......+.+...+
T Consensus       172 Al~~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~  250 (398)
T PRK10747        172 ARHGVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKR  250 (398)
T ss_pred             HHHHHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHH
Confidence            888888887764 3356677777788888888888888888888876443221       23333444445556677777


Q ss_pred             HHHhccC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCC
Q 009066          229 LFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGI  305 (545)
Q Consensus       229 ~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~  305 (545)
                      +++.+++   .++.....+...+...|+.++|..++++..+.  .||....  ++.+....++.+++.+..+...+.  .
T Consensus       251 ~w~~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~--~  324 (398)
T PRK10747        251 WWKNQSRKTRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERLV--LLIPRLKTNNPEQLEKVLRQQIKQ--H  324 (398)
T ss_pred             HHHhCCHHHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHH--HHHhhccCCChHHHHHHHHHHHhh--C
Confidence            7777764   47788899999999999999999999999874  4454221  233444569999999999998874  4


Q ss_pred             CCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCC
Q 009066          306 AAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLN  371 (545)
Q Consensus       306 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~  371 (545)
                      +-|+..+.++..++.+.|++++|.+.|+.. ...|+...+..|...+...|+.++|..++++.+.+-
T Consensus       325 P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~~~~~~~La~~~~~~g~~~~A~~~~~~~l~~~  391 (398)
T PRK10747        325 GDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQRPDAYDYAWLADALDRLHKPEEAAAMRRDGLMLT  391 (398)
T ss_pred             CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhh
Confidence            666788899999999999999999999988 667999999999999999999999999999887643

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

Probab=99.49  E-value=1e-11  Score=116.26  Aligned_cols=253  Identities=13%  Similarity=0.099  Sum_probs=181.1

Q ss_pred             hhccCChHHHHHHHHHHHhCCCCCCHHHHH--HHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHH
Q 009066          147 YVENSWAEDGLKLLRMMIGLGIRPNASSLS--SVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLE  224 (545)
Q Consensus       147 ~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~--~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~  224 (545)
                      +.++|+++.|+++++-..+..-+.-+..-+  +++.....-.++..|.++-+..+... .-+......-.+.-...|+++
T Consensus       429 ~lk~~d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d-ryn~~a~~nkgn~~f~ngd~d  507 (840)
T KOG2003|consen  429 LLKNGDIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNID-RYNAAALTNKGNIAFANGDLD  507 (840)
T ss_pred             HHhccCHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc-ccCHHHhhcCCceeeecCcHH
Confidence            477888888888888776543222222222  22333333446677777666665432 112222222223334579999


Q ss_pred             HHHHHHHhccCCChhhHHHHH---HHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHH
Q 009066          225 DACKLFLEIQRKDVVTWNAMI---SGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVN  301 (545)
Q Consensus       225 ~A~~~f~~~~~~~~~~~~~li---~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~  301 (545)
                      +|.+.|.+....|...-.+|.   -.+-..|+.++|++.|-++... +..+...+..+.+.|....+..+|++++.+...
T Consensus       508 ka~~~ykeal~ndasc~ealfniglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~q~~s  586 (840)
T KOG2003|consen  508 KAAEFYKEALNNDASCTEALFNIGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLMQANS  586 (840)
T ss_pred             HHHHHHHHHHcCchHHHHHHHHhcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhcc
Confidence            999999999988766544443   3466789999999999988653 344666777888899999999999999977654


Q ss_pred             hcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-C-CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhH
Q 009066          302 DYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-P-FKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCY  379 (545)
Q Consensus       302 ~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~-~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~  379 (545)
                        -++.|+...+-|.+.|-+.|+-..|.+.+-.- . +..+..+..-|..-|....-+++|+..|+++.-+.|+.+  -|
T Consensus       587 --lip~dp~ilskl~dlydqegdksqafq~~ydsyryfp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~~--kw  662 (840)
T KOG2003|consen  587 --LIPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRYFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQS--KW  662 (840)
T ss_pred             --cCCCCHHHHHHHHHHhhcccchhhhhhhhhhcccccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccHH--HH
Confidence              56778999999999999999999999875443 2 224666777777778888888999999999999999987  45


Q ss_pred             HHH-HHHHHHcCCchHHHHHHHHhhhC
Q 009066          380 VQL-ANIYAAMKKWDDVARIRLSMKEN  405 (545)
Q Consensus       380 ~~l-~~~~~~~g~~~~a~~~~~~m~~~  405 (545)
                      ..+ +.++.+.|++..|..+++....+
T Consensus       663 qlmiasc~rrsgnyqka~d~yk~~hrk  689 (840)
T KOG2003|consen  663 QLMIASCFRRSGNYQKAFDLYKDIHRK  689 (840)
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHHh
Confidence            554 55668899999999999988653

>TIGR00540 hemY_coli hemY protein

Probab=99.48  E-value=1.1e-10  Score=117.07  Aligned_cols=277  Identities=10%  Similarity=0.019  Sum_probs=148.8

Q ss_pred             hCCCHHHHHHHHhhCCc--CC-HhHHHHHHHHHHHcCChHHHHHHHhhCCC--CCc--ccHHHHHHHhcchhhhccCChH
Q 009066           82 QKKNMAKARDLFLAMPE--KN-SVSWSAMISGYIECGQLDKAVELFKVAPV--KSV--VAWTAMISGYMKFGYVENSWAE  154 (545)
Q Consensus        82 ~~g~~~~a~~~~~~~~~--~~-~~~~~~li~~~~~~g~~~~A~~~f~~~~~--~~~--~~~~~li~~~~~~g~~~~g~~~  154 (545)
                      ..|+++.|.+.+.+..+  |+ ...+-....++.+.|+.+.|.+.|.+..+  |+.  ...-.....+     .+.|+++
T Consensus        96 ~~g~~~~A~~~l~~~~~~~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~-----l~~~~~~  170 (409)
T TIGR00540        96 AEGDYAKAEKLIAKNADHAAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRIL-----LAQNELH  170 (409)
T ss_pred             hCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHH-----HHCCCHH
Confidence            46777777777666553  22 22233344556666777777777766422  222  1222234445     6677777


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHH---H----hcCCHHHHH
Q 009066          155 DGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMY---C----KCGDLEDAC  227 (545)
Q Consensus       155 ~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y---~----~~g~~~~A~  227 (545)
                      .|++.++.+.+.. +-+...+..+...+...|+++.+.+.+..+.+.+..+.......-...+   .    .....+...
T Consensus       171 ~Al~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~  249 (409)
T TIGR00540       171 AARHGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEGIDGLL  249 (409)
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHH
Confidence            7777777777653 2244566666667777777777777777777765432222111111111   1    112223333


Q ss_pred             HHHHhccC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHH---HHHHHHHHccCcHHHHHHHHHHhHH
Q 009066          228 KLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITF---VALLLACNHAGLVDLGIQYFDSMVN  301 (545)
Q Consensus       228 ~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~---~~ll~a~~~~g~~~~a~~~~~~~~~  301 (545)
                      +..+..++   .+...+..+...+...|+.++|.+++++..+.  .||....   ..........++.+.+.+.++...+
T Consensus       250 ~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~--~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk  327 (409)
T TIGR00540       250 NWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKK--LGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAK  327 (409)
T ss_pred             HHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhh--CCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHH
Confidence            44444443   36666777777777777777777777777664  2333211   1111112234555666666655554


Q ss_pred             hcCCCCCH--HHHHHHHHHHhHcCCHHHHHHHHHh--C-CCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 009066          302 DYGIAAKP--DHYTCMVDLLGRAGKLVEAVDLIKK--M-PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLF  368 (545)
Q Consensus       302 ~~~~~~~~--~~~~~li~~~~~~g~~~~A~~~~~~--m-~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~  368 (545)
                      ..  +-++  ....++...+.+.|++++|.+.|+.  . ...|+...+..+...+.+.|+.++|.+++++.+
T Consensus       328 ~~--p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~l  397 (409)
T TIGR00540       328 NV--DDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQDSL  397 (409)
T ss_pred             hC--CCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            32  2222  4444566666666666666666662  2 344565555566666666666666666665543

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.

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

Probab=99.47  E-value=1.3e-10  Score=110.34  Aligned_cols=215  Identities=15%  Similarity=0.134  Sum_probs=176.3

Q ss_pred             HhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccC---CChhhHHHHHHHHHHcCChHHHH
Q 009066          182 CSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKAL  258 (545)
Q Consensus       182 ~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~  258 (545)
                      +.-.|+.-.+.+-++.+++... .+...|--+..+|....+.++-.+.|+...+   .|..+|..-...+.-.+++++|.
T Consensus       336 ~fL~g~~~~a~~d~~~~I~l~~-~~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~n~dvYyHRgQm~flL~q~e~A~  414 (606)
T KOG0547|consen  336 HFLKGDSLGAQEDFDAAIKLDP-AFNSLYIKRAAAYADENQSEKMWKDFNKAEDLDPENPDVYYHRGQMRFLLQQYEEAI  414 (606)
T ss_pred             hhhcCCchhhhhhHHHHHhcCc-ccchHHHHHHHHHhhhhccHHHHHHHHHHHhcCCCCCchhHhHHHHHHHHHHHHHHH
Confidence            3456888899999999998763 3344477788899999999999999998864   46677887788888888999999


Q ss_pred             HHHHHHHHcCCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-C
Q 009066          259 RLFDKMKDEGMKP-DSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-P  336 (545)
Q Consensus       259 ~~~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~  336 (545)
                      .-|++.+..  .| +...|..+..+..+.+.++++...|++..+  .++..+++|+.....+...++++.|.+.|+.. .
T Consensus       415 aDF~Kai~L--~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kk--kFP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~  490 (606)
T KOG0547|consen  415 ADFQKAISL--DPENAYAYIQLCCALYRQHKIAESMKTFEEAKK--KFPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIE  490 (606)
T ss_pred             HHHHHHhhc--ChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH--hCCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHh
Confidence            999999874  44 455677777777789999999999999987  56888999999999999999999999999876 3


Q ss_pred             CCCC---------HhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhh
Q 009066          337 FKPQ---------PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMK  403 (545)
Q Consensus       337 ~~p~---------~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  403 (545)
                      ++|+         +.+.-+++..-.+ +++..|+.+++++++++|.... +|..|+..-.+.|+.++|.++|++-.
T Consensus       491 LE~~~~~~~v~~~plV~Ka~l~~qwk-~d~~~a~~Ll~KA~e~Dpkce~-A~~tlaq~~lQ~~~i~eAielFEksa  564 (606)
T KOG0547|consen  491 LEPREHLIIVNAAPLVHKALLVLQWK-EDINQAENLLRKAIELDPKCEQ-AYETLAQFELQRGKIDEAIELFEKSA  564 (606)
T ss_pred             hccccccccccchhhhhhhHhhhchh-hhHHHHHHHHHHHHccCchHHH-HHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            3343         2233333333333 8999999999999999999888 99999999999999999999998653

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

Probab=99.45  E-value=7.7e-12  Score=123.11  Aligned_cols=246  Identities=16%  Similarity=0.163  Sum_probs=192.7

Q ss_pred             cCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCC--CCCcccHHHHHHHHHhcCCHHH-H
Q 009066          150 NSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPL--CKDTTALTPLISMYCKCGDLED-A  226 (545)
Q Consensus       150 ~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~--~~~~~~~~~li~~y~~~g~~~~-A  226 (545)
                      .-+..+|+..|...... +.-.......+..+|...+++++++++|+.+.+...  -.+..+|.+.+--+-+.=.+.. |
T Consensus       332 ~y~~~~A~~~~~klp~h-~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~La  410 (638)
T KOG1126|consen  332 QYNCREALNLFEKLPSH-HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLA  410 (638)
T ss_pred             HHHHHHHHHHHHhhHHh-cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHH
Confidence            34568899999885443 344456777788899999999999999999987631  2245667666644432211111 2


Q ss_pred             HHHHHhccCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCC
Q 009066          227 CKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKP-DSITFVALLLACNHAGLVDLGIQYFDSMVNDYGI  305 (545)
Q Consensus       227 ~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~  305 (545)
                      ..+.+ +....+.+|-++..+|.-+++.+.|++.|++..+  +.| ...+|+.+..-+.....+|.|...|+..+     
T Consensus       411 q~Li~-~~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQ--ldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al-----  482 (638)
T KOG1126|consen  411 QDLID-TDPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQ--LDPRFAYAYTLLGHESIATEEFDKAMKSFRKAL-----  482 (638)
T ss_pred             HHHHh-hCCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhc--cCCccchhhhhcCChhhhhHHHHhHHHHHHhhh-----
Confidence            22222 2234678999999999999999999999999987  455 66788888788888899999999998765     


Q ss_pred             CCCHHHHHH---HHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHH
Q 009066          306 AAKPDHYTC---MVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYV  380 (545)
Q Consensus       306 ~~~~~~~~~---li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~  380 (545)
                      ..++.+|++   |.-.|.+.++++.|+-.|++. .+.| +.+....+...+-+.|+.++|+.++++++.++|.++. .-+
T Consensus       483 ~~~~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l-~~~  561 (638)
T KOG1126|consen  483 GVDPRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEINPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPL-CKY  561 (638)
T ss_pred             cCCchhhHHHHhhhhheeccchhhHHHHHHHhhhcCCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCch-hHH
Confidence            456666664   667899999999999999988 7777 4566677777889999999999999999999999998 888


Q ss_pred             HHHHHHHHcCCchHHHHHHHHhhhC
Q 009066          381 QLANIYAAMKKWDDVARIRLSMKEN  405 (545)
Q Consensus       381 ~l~~~~~~~g~~~~a~~~~~~m~~~  405 (545)
                      .-+.++...+++++|.+.++++++-
T Consensus       562 ~~~~il~~~~~~~eal~~LEeLk~~  586 (638)
T KOG1126|consen  562 HRASILFSLGRYVEALQELEELKEL  586 (638)
T ss_pred             HHHHHHHhhcchHHHHHHHHHHHHh
Confidence            8999999999999999999999874

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.45  E-value=4.1e-10  Score=105.14  Aligned_cols=330  Identities=15%  Similarity=0.187  Sum_probs=232.6

Q ss_pred             HHHHccCCCCChhhHHHHHHHHHcCCCCHHHHHHHHhcCC----CCCeehHHHHHHHHHhCCCHHHHHHHHhhCC----c
Q 009066           27 QELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQRLP----IKDTASWNTMISGFVQKKNMAKARDLFLAMP----E   98 (545)
Q Consensus        27 ~~~f~~~~~~~~~~~~~li~~~~~~~g~~~~A~~~~~~m~----~~d~~~~~~li~~~~~~g~~~~a~~~~~~~~----~   98 (545)
                      .-+|+..| +...++..||+++++- ...++|.+++.+-.    +-+..+||.+|.+-.-.    ...++..+|.    .
T Consensus       197 dL~~E~~P-KT~et~s~mI~Gl~K~-~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~----~~K~Lv~EMisqkm~  270 (625)
T KOG4422|consen  197 DLLFETLP-KTDETVSIMIAGLCKF-SSLERARELYKEHRAAKGKVYREAFNGLIGASSYS----VGKKLVAEMISQKMT  270 (625)
T ss_pred             HHHHhhcC-CCchhHHHHHHHHHHH-HhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhh----ccHHHHHHHHHhhcC
Confidence            34555444 3456799999999999 89999999999887    34667888888664322    2356666665    6


Q ss_pred             CCHhHHHHHHHHHHHcCChHHHHHHHh----hCC----CCCcccHHHHHHHhcchhhhccCChHH-HHHHHHHHHhC---
Q 009066           99 KNSVSWSAMISGYIECGQLDKAVELFK----VAP----VKSVVAWTAMISGYMKFGYVENSWAED-GLKLLRMMIGL---  166 (545)
Q Consensus        99 ~~~~~~~~li~~~~~~g~~~~A~~~f~----~~~----~~~~~~~~~li~~~~~~g~~~~g~~~~-A~~~~~~m~~~---  166 (545)
                      ||..|+|+++.+.++.|.++.|++.+-    +|.    +|...+|..+|..+     .+.+++.+ |..+..+++..   
T Consensus       271 Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f-----~re~dp~k~as~~i~dI~N~ltG  345 (625)
T KOG4422|consen  271 PNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNF-----KRESDPQKVASSWINDIQNSLTG  345 (625)
T ss_pred             CchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHh-----cccCCchhhhHHHHHHHHHhhcc
Confidence            999999999999999999999886653    343    67889999999988     66666543 55555555432   


Q ss_pred             -CCC---C-CHHHHHHHHHHHhccCcHHHHHHHHHHHHhCC----CCCC---cccHHHHHHHHHhcCCHHHHHHHHHhcc
Q 009066          167 -GIR---P-NASSLSSVLLGCSHLSSLQLGKQVHQLVFKSP----LCKD---TTALTPLISMYCKCGDLEDACKLFLEIQ  234 (545)
Q Consensus       167 -~~~---p-d~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g----~~~~---~~~~~~li~~y~~~g~~~~A~~~f~~~~  234 (545)
                       .++   | |...|.+.++.|.+..+.+.|.+++.......    +.|+   ...|..+....+.....+.-...|+.|.
T Consensus       346 K~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lV  425 (625)
T KOG4422|consen  346 KTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLV  425 (625)
T ss_pred             CcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence             223   3 56788999999999999999999998775431    2233   2345677888888899999999999987


Q ss_pred             C----CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccC-c---H-----H-----HHHHHH
Q 009066          235 R----KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAG-L---V-----D-----LGIQYF  296 (545)
Q Consensus       235 ~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g-~---~-----~-----~a~~~~  296 (545)
                      .    |+..+...++.+.--.|+++-.-+++..+...|..-+......++...++.. .   .     .     -|..++
T Consensus       426 P~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k~hp~tp~r~Ql~~~~ak~aad~~  505 (625)
T KOG4422|consen  426 PSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDKLHPLTPEREQLQVAFAKCAADIK  505 (625)
T ss_pred             cceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHH
Confidence            5    5666777778888888888888888888877765444444444444333322 0   0     0     011111


Q ss_pred             -------HHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-------CCCCCHhHHHHHHHHHHhcCCHHHHHH
Q 009066          297 -------DSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-------PFKPQPAIFGTLLSACRVHKRLDLAEF  362 (545)
Q Consensus       297 -------~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-------~~~p~~~~~~~li~~~~~~g~~~~A~~  362 (545)
                             .++.   .........++..-.+.|.|+.++|.+++.-.       +..|......-++......++...|..
T Consensus       506 e~~e~~~~R~r---~~~~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~~spsqA~~  582 (625)
T KOG4422|consen  506 EAYESQPIRQR---AQDWPATSLNCIAILLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSAKVSNSPSQAIE  582 (625)
T ss_pred             HHHHhhHHHHH---hccCChhHHHHHHHHHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHHHhcCCHHHHHH
Confidence                   1122   33455667888999999999999999988655       334544445566677778888888888


Q ss_pred             HHHHHhcC
Q 009066          363 AAMNLFNL  370 (545)
Q Consensus       363 ~~~~~~~~  370 (545)
                      +++-+...
T Consensus       583 ~lQ~a~~~  590 (625)
T KOG4422|consen  583 VLQLASAF  590 (625)
T ss_pred             HHHHHHHc
Confidence            88777543

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

Probab=99.45  E-value=4.2e-13  Score=127.74  Aligned_cols=251  Identities=17%  Similarity=0.223  Sum_probs=101.8

Q ss_pred             HHHHHHHHcCChHHHHHHHhhC-C----CCCcccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 009066          106 AMISGYIECGQLDKAVELFKVA-P----VKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLL  180 (545)
Q Consensus       106 ~li~~~~~~g~~~~A~~~f~~~-~----~~~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~  180 (545)
                      .+..++.+.|++++|.+++++. .    ..|...|..+....     ...++.++|++.++++...+.. +...+..++.
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La-----~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~   86 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLA-----WSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQ   86 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccc-----cccccccccccccccccccccc-cccccccccc
Confidence            4566777778888888888432 1    22445555555555     6677888888888888765422 4445555555


Q ss_pred             HHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhcc-----CCChhhHHHHHHHHHHcCChH
Q 009066          181 GCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQ-----RKDVVTWNAMISGYAQHGKGE  255 (545)
Q Consensus       181 ~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~-----~~~~~~~~~li~~~~~~g~~~  255 (545)
                      . ...+++++|.++.....+..  ++...+..++..|.+.|+++++..+++.+.     ..+...|..+...+.+.|+.+
T Consensus        87 l-~~~~~~~~A~~~~~~~~~~~--~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~  163 (280)
T PF13429_consen   87 L-LQDGDPEEALKLAEKAYERD--GDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPD  163 (280)
T ss_dssp             ----------------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHH
T ss_pred             c-cccccccccccccccccccc--cccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHH
Confidence            5 67788888888777665543  455666778888888888888888888754     246677888888888999999


Q ss_pred             HHHHHHHHHHHcCCCCC-HHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHh
Q 009066          256 KALRLFDKMKDEGMKPD-SITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKK  334 (545)
Q Consensus       256 ~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  334 (545)
                      +|+..+++..+.  .|+ ......++..+...|+.+++.+++....+.  .+.++..+..+..+|...|+.++|+..|++
T Consensus       164 ~A~~~~~~al~~--~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~--~~~~~~~~~~la~~~~~lg~~~~Al~~~~~  239 (280)
T PF13429_consen  164 KALRDYRKALEL--DPDDPDARNALAWLLIDMGDYDEAREALKRLLKA--APDDPDLWDALAAAYLQLGRYEEALEYLEK  239 (280)
T ss_dssp             HHHHHHHHHHHH---TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH---HTSCCHCHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHc--CCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHH--CcCHHHHHHHHHHHhccccccccccccccc
Confidence            999999998875  454 556777888888889999888888887764  256667788888999999999999999888


Q ss_pred             C-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhc
Q 009066          335 M-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFN  369 (545)
Q Consensus       335 m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  369 (545)
                      . ...| |+.....+..++...|+.++|..+.+++.+
T Consensus       240 ~~~~~p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  240 ALKLNPDDPLWLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             HHHHSTT-HHHHHHHHHHHT-----------------
T ss_pred             ccccccccccccccccccccccccccccccccccccc
Confidence            7 3234 677778888889999999999888877654

>TIGR00540 hemY_coli hemY protein

Probab=99.45  E-value=7.4e-11  Score=118.29  Aligned_cols=251  Identities=9%  Similarity=-0.069  Sum_probs=154.9

Q ss_pred             hccCChHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHH
Q 009066          148 VENSWAEDGLKLLRMMIGLGIRPNA-SSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDA  226 (545)
Q Consensus       148 ~~~g~~~~A~~~~~~m~~~~~~pd~-~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A  226 (545)
                      ...|+++.|.+.+.+..+.  .|+. ..+.....+....|+.+.+.+.+..+.+....+...+..+....+...|+++.|
T Consensus        95 ~~~g~~~~A~~~l~~~~~~--~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~A  172 (409)
T TIGR00540        95 LAEGDYAKAEKLIAKNADH--AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAA  172 (409)
T ss_pred             HhCCCHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHH
Confidence            4577888888877776554  3443 333344555667788888888887776653222223344457777778888888


Q ss_pred             HHHHHhccC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH---HccCcHHHHHHHHHHhH
Q 009066          227 CKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLAC---NHAGLVDLGIQYFDSMV  300 (545)
Q Consensus       227 ~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~---~~~g~~~~a~~~~~~~~  300 (545)
                      ...++.+.+   .+...+..+...|.+.|++++|.+++..+.+.++.+.......-..+.   ...+..+++.+.+..+.
T Consensus       173 l~~l~~l~~~~P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~  252 (409)
T TIGR00540       173 RHGVDKLLEMAPRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEGIDGLLNWW  252 (409)
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHH
Confidence            888877764   255667777778888888888888888887765432222111111111   22222233333444443


Q ss_pred             Hhc--CCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCCCHhH---HHHHHHHHHhcCCHHHHHHHHHHHhcCCCCC
Q 009066          301 NDY--GIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQPAI---FGTLLSACRVHKRLDLAEFAAMNLFNLNPAN  374 (545)
Q Consensus       301 ~~~--~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~---~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~  374 (545)
                      +..  ..+.++..+..++..+...|+.++|.+++++. ...||...   +..........++.+.+.+.+++..+..|++
T Consensus       253 ~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~p~~  332 (409)
T TIGR00540       253 KNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKLGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKNVDDK  332 (409)
T ss_pred             HHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhCCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHhCCCC
Confidence            320  11236777777888888888888888887776 33354431   1112222233467777888888888888887


Q ss_pred             C--chhHHHHHHHHHHcCCchHHHHHHHH
Q 009066          375 A--AGCYVQLANIYAAMKKWDDVARIRLS  401 (545)
Q Consensus       375 ~--~~~~~~l~~~~~~~g~~~~a~~~~~~  401 (545)
                      +  . ....++.++.+.|+|++|.+.|+.
T Consensus       333 ~~~~-ll~sLg~l~~~~~~~~~A~~~le~  360 (409)
T TIGR00540       333 PKCC-INRALGQLLMKHGEFIEAADAFKN  360 (409)
T ss_pred             hhHH-HHHHHHHHHHHcccHHHHHHHHHH
Confidence            7  5 667788888888888888888874

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=99.43  E-value=8.3e-10  Score=108.30  Aligned_cols=362  Identities=12%  Similarity=0.077  Sum_probs=266.0

Q ss_pred             hHHHHHHHHHcCCCCHHHHHHHHhcCC---CCCeehHHHHHHHHHhCCCHHHHHHHHhhCCc---CCHhHHHHHHHHHHH
Q 009066           40 SYNIMLSCILLNSDDVVAAFDFFQRLP---IKDTASWNTMISGFVQKKNMAKARDLFLAMPE---KNSVSWSAMISGYIE  113 (545)
Q Consensus        40 ~~~~li~~~~~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~  113 (545)
                      +|+.--..|.+. +.++-|+.+|....   +.+...|......--..|..++-..+|++...   .....|-....-+-.
T Consensus       518 tw~~da~~~~k~-~~~~carAVya~alqvfp~k~slWlra~~~ek~hgt~Esl~Allqkav~~~pkae~lwlM~ake~w~  596 (913)
T KOG0495|consen  518 TWLDDAQSCEKR-PAIECARAVYAHALQVFPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQCPKAEILWLMYAKEKWK  596 (913)
T ss_pred             HHhhhHHHHHhc-chHHHHHHHHHHHHhhccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhCCcchhHHHHHHHHHHh
Confidence            344444444444 55666666665554   33455666666665566777777777776653   244556666667777


Q ss_pred             cCChHHHHHHHhhCCC---CCcccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHH
Q 009066          114 CGQLDKAVELFKVAPV---KSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQL  190 (545)
Q Consensus       114 ~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~  190 (545)
                      .|++..|+.++.+..+   .+...|-+-+..-     ..+.++++|..+|.+....  .|+...|.--+..---+++.++
T Consensus       597 agdv~~ar~il~~af~~~pnseeiwlaavKle-----~en~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld~~ee  669 (913)
T KOG0495|consen  597 AGDVPAARVILDQAFEANPNSEEIWLAAVKLE-----FENDELERARDLLAKARSI--SGTERVWMKSANLERYLDNVEE  669 (913)
T ss_pred             cCCcHHHHHHHHHHHHhCCCcHHHHHHHHHHh-----hccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHHH
Confidence            8888888887776543   2446677777777     7888888888888887763  5666666655555566788888


Q ss_pred             HHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccC--C-ChhhHHHHHHHHHHcCChHHHHHHHHHHHHc
Q 009066          191 GKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR--K-DVVTWNAMISGYAQHGKGEKALRLFDKMKDE  267 (545)
Q Consensus       191 a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  267 (545)
                      |.++++..++.- +.-...|-.+...+-+.++++.|.+.|..-.+  | .+..|-.+...=-+.|...+|..++++.+..
T Consensus       670 A~rllEe~lk~f-p~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~cP~~ipLWllLakleEk~~~~~rAR~ildrarlk  748 (913)
T KOG0495|consen  670 ALRLLEEALKSF-PDFHKLWLMLGQIEEQMENIEMAREAYLQGTKKCPNSIPLWLLLAKLEEKDGQLVRARSILDRARLK  748 (913)
T ss_pred             HHHHHHHHHHhC-CchHHHHHHHhHHHHHHHHHHHHHHHHHhccccCCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhc
Confidence            888888887762 44455677788888888888888888877654  2 4567887777777888888888888888776


Q ss_pred             CCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhCCCCCCHhHHHHH
Q 009066          268 GMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTL  347 (545)
Q Consensus       268 g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~l  347 (545)
                      +.+ |...|...+..=.+.|+.++|..+..+..+  ..+.+...|..-|.+..+.++-..+.+.+++..  -|+.+.-++
T Consensus       749 NPk-~~~lwle~Ir~ElR~gn~~~a~~lmakALQ--ecp~sg~LWaEaI~le~~~~rkTks~DALkkce--~dphVllai  823 (913)
T KOG0495|consen  749 NPK-NALLWLESIRMELRAGNKEQAELLMAKALQ--ECPSSGLLWAEAIWLEPRPQRKTKSIDALKKCE--HDPHVLLAI  823 (913)
T ss_pred             CCC-cchhHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCccchhHHHHHHhccCcccchHHHHHHHhcc--CCchhHHHH
Confidence            533 667788888888888888888888888777  446677788888888888888777777777753  566666777


Q ss_pred             HHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhhCCCccCCceeEEEE
Q 009066          348 LSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVVKMPGYSWIEV  418 (545)
Q Consensus       348 i~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~s~~~~  418 (545)
                      ...+-....++.|..-|++.++.+|++-. +|..+...+...|.-++-.+++++....  .|..|..|..+
T Consensus       824 a~lfw~e~k~~kar~Wf~Ravk~d~d~GD-~wa~fykfel~hG~eed~kev~~~c~~~--EP~hG~~W~av  891 (913)
T KOG0495|consen  824 AKLFWSEKKIEKAREWFERAVKKDPDNGD-AWAWFYKFELRHGTEEDQKEVLKKCETA--EPTHGELWQAV  891 (913)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHccCCccch-HHHHHHHHHHHhCCHHHHHHHHHHHhcc--CCCCCcHHHHH
Confidence            77888889999999999999999999988 9999999999999999999998877654  34456677554

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

Probab=99.41  E-value=4.4e-09  Score=99.48  Aligned_cols=337  Identities=13%  Similarity=0.089  Sum_probs=236.4

Q ss_pred             CCHHHHHHHHhcCCCCCeehHHHHHHHHHhCCCHHHHHHHHhhCCcCC-HhHHHHHHHHHHHcCChHHHHHHHhhCCC--
Q 009066           53 DDVVAAFDFFQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKN-SVSWSAMISGYIECGQLDKAVELFKVAPV--  129 (545)
Q Consensus        53 g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~A~~~f~~~~~--  129 (545)
                      |..+.|++.|......-+..|.+-+....-.-+.+.+..+-......+ ...---+..+|-...+.+++..-.+....  
T Consensus       178 ~~~s~A~~sfv~~v~~~P~~W~AWleL~~lit~~e~~~~l~~~l~~~~h~M~~~F~~~a~~el~q~~e~~~k~e~l~~~g  257 (559)
T KOG1155|consen  178 GLLSLAIDSFVEVVNRYPWFWSAWLELSELITDIEILSILVVGLPSDMHWMKKFFLKKAYQELHQHEEALQKKERLSSVG  257 (559)
T ss_pred             chHHHHHHHHHHHHhcCCcchHHHHHHHHhhchHHHHHHHHhcCcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            888999999988774444455554444444444444444333332211 11112344566666677777665544332  


Q ss_pred             -CCcccHHHHH-HHhcchhhhccCChHHHHHHHHHHHhCCC--CCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCC
Q 009066          130 -KSVVAWTAMI-SGYMKFGYVENSWAEDGLKLLRMMIGLGI--RPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCK  205 (545)
Q Consensus       130 -~~~~~~~~li-~~~~~~g~~~~g~~~~A~~~~~~m~~~~~--~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~  205 (545)
                       ++..-+-+.+ .+.     -.+.++++|+.+|+++.+...  --|-.+|+.++-.-.....+.---+....+-    +-
T Consensus       258 f~~~~~i~~~~A~~~-----y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skLs~LA~~v~~id----Ky  328 (559)
T KOG1155|consen  258 FPNSMYIKTQIAAAS-----YNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKLSYLAQNVSNID----KY  328 (559)
T ss_pred             CCccHHHHHHHHHHH-----hhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHHHHHHHHHHHhc----cC
Confidence             2221111222 222     567899999999999998741  1266788888754333222211111111111    22


Q ss_pred             CcccHHHHHHHHHhcCCHHHHHHHHHhccCC---ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 009066          206 DTTALTPLISMYCKCGDLEDACKLFLEIQRK---DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLA  282 (545)
Q Consensus       206 ~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a  282 (545)
                      -+.+...+.+-|+-.++.++|...|++..+-   -...|+.|..-|....+...|++-|+...+-. +-|-..|-.|.++
T Consensus       329 R~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~-p~DyRAWYGLGQa  407 (559)
T KOG1155|consen  329 RPETCCIIANYYSLRSEHEKAVMYFKRALKLNPKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDIN-PRDYRAWYGLGQA  407 (559)
T ss_pred             CccceeeehhHHHHHHhHHHHHHHHHHHHhcCcchhHHHHHhhHHHHHhcccHHHHHHHHHHHhcC-chhHHHHhhhhHH
Confidence            3456677888999999999999999998763   45789999999999999999999999999853 3477899999999


Q ss_pred             HHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC--CCCCCHhHHHHHHHHHHhcCCHHHH
Q 009066          283 CNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM--PFKPQPAIFGTLLSACRVHKRLDLA  360 (545)
Q Consensus       283 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m--~~~p~~~~~~~li~~~~~~g~~~~A  360 (545)
                      |.-.+...-|+-+|++..+  --+.|...|.+|.+.|.+.+++++|++.|...  .-..+...+..|...|-+.++.++|
T Consensus       408 Yeim~Mh~YaLyYfqkA~~--~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~~l~~LakLye~l~d~~eA  485 (559)
T KOG1155|consen  408 YEIMKMHFYALYYFQKALE--LKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGSALVRLAKLYEELKDLNEA  485 (559)
T ss_pred             HHHhcchHHHHHHHHHHHh--cCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHhHHHH
Confidence            9999999999999999875  34667899999999999999999999999987  2123557899999999999999999


Q ss_pred             HHHHHHHhc-------CCCCCCchhHHHHHHHHHHcCCchHHHHHHHHh
Q 009066          361 EFAAMNLFN-------LNPANAAGCYVQLANIYAAMKKWDDVARIRLSM  402 (545)
Q Consensus       361 ~~~~~~~~~-------~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  402 (545)
                      ...|++-++       .+|.... +...|+.-+.+.+++++|...-...
T Consensus       486 a~~yek~v~~~~~eg~~~~~t~k-a~~fLA~~f~k~~~~~~As~Ya~~~  533 (559)
T KOG1155|consen  486 AQYYEKYVEVSELEGEIDDETIK-ARLFLAEYFKKMKDFDEASYYATLV  533 (559)
T ss_pred             HHHHHHHHHHHHhhcccchHHHH-HHHHHHHHHHhhcchHHHHHHHHHH
Confidence            999998876       3444333 5667888899999999998765443

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

Probab=99.39  E-value=3.7e-10  Score=101.90  Aligned_cols=259  Identities=15%  Similarity=0.171  Sum_probs=150.5

Q ss_pred             CCHHHHHHHHhcCCCCCeehH---HHHHHHHHhCCCHHHHHHHHhhCCcC-C------HhHHHHHHHHHHHcCChHHHHH
Q 009066           53 DDVVAAFDFFQRLPIKDTASW---NTMISGFVQKKNMAKARDLFLAMPEK-N------SVSWSAMISGYIECGQLDKAVE  122 (545)
Q Consensus        53 g~~~~A~~~~~~m~~~d~~~~---~~li~~~~~~g~~~~a~~~~~~~~~~-~------~~~~~~li~~~~~~g~~~~A~~  122 (545)
                      .++++|.++|-+|.+.|..|+   -+|.+.|.+.|..+.|+.+++.+.++ |      ..+...|..-|...|-+|.|+.
T Consensus        49 ~Q~dKAvdlF~e~l~~d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRAE~  128 (389)
T COG2956          49 NQPDKAVDLFLEMLQEDPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRAED  128 (389)
T ss_pred             cCcchHHHHHHHHHhcCchhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHHHH
Confidence            588888888888885555444   45677788888888888888877643 2      2233455666777777777777


Q ss_pred             HHhhCCCCCc---ccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHH
Q 009066          123 LFKVAPVKSV---VAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVF  199 (545)
Q Consensus       123 ~f~~~~~~~~---~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~  199 (545)
                      +|..+...+.   .+...|+..|     -...+|++|++.-+++.+.+-++..+-   +...                  
T Consensus       129 ~f~~L~de~efa~~AlqqLl~IY-----Q~treW~KAId~A~~L~k~~~q~~~~e---IAqf------------------  182 (389)
T COG2956         129 IFNQLVDEGEFAEGALQQLLNIY-----QATREWEKAIDVAERLVKLGGQTYRVE---IAQF------------------  182 (389)
T ss_pred             HHHHHhcchhhhHHHHHHHHHHH-----HHhhHHHHHHHHHHHHHHcCCccchhH---HHHH------------------
Confidence            7776655333   3444566666     666667777776666665543332211   1111                  


Q ss_pred             hCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccCC---ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHH
Q 009066          200 KSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRK---DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITF  276 (545)
Q Consensus       200 ~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~  276 (545)
                                |.-|...+.-..+.+.|..++.+..+.   .+..--.+...+...|++..|++.++...+.+..--..+.
T Consensus       183 ----------yCELAq~~~~~~~~d~A~~~l~kAlqa~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl  252 (389)
T COG2956         183 ----------YCELAQQALASSDVDRARELLKKALQADKKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVL  252 (389)
T ss_pred             ----------HHHHHHHHhhhhhHHHHHHHHHHHHhhCccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHH
Confidence                      112333333345555566666555432   2223333445566677777777777777665444344455


Q ss_pred             HHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHH-HHhCCCCCCHhHHHHHHHH
Q 009066          277 VALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDL-IKKMPFKPQPAIFGTLLSA  350 (545)
Q Consensus       277 ~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~-~~~m~~~p~~~~~~~li~~  350 (545)
                      ..|..+|.+.|+.+++...+..+.+.   .+.+..-..|.+......-.++|... .+++..+|+...+..|+..
T Consensus       253 ~~L~~~Y~~lg~~~~~~~fL~~~~~~---~~g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r~Pt~~gf~rl~~~  324 (389)
T COG2956         253 EMLYECYAQLGKPAEGLNFLRRAMET---NTGADAELMLADLIELQEGIDAAQAYLTRQLRRKPTMRGFHRLMDY  324 (389)
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHc---cCCccHHHHHHHHHHHhhChHHHHHHHHHHHhhCCcHHHHHHHHHh
Confidence            66667777777777777777666643   33444444444444433344444443 3444556777666666654

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

Probab=99.39  E-value=7.3e-10  Score=100.03  Aligned_cols=258  Identities=15%  Similarity=0.184  Sum_probs=163.8

Q ss_pred             CCChHHHHHHHccCCCCChhhHHH--HHHHHHcCCCCHHHHHHHHhcCC-CCCe------ehHHHHHHHHHhCCCHHHHH
Q 009066           20 RGKLKDAQELFDKIPQPDVVSYNI--MLSCILLNSDDVVAAFDFFQRLP-IKDT------ASWNTMISGFVQKKNMAKAR   90 (545)
Q Consensus        20 g~~~~~A~~~f~~~~~~~~~~~~~--li~~~~~~~g~~~~A~~~~~~m~-~~d~------~~~~~li~~~~~~g~~~~a~   90 (545)
                      .+ .++|..+|-.|.+-|..|+.+  -+..+.+..|..++|+++-..+. .||.      .+.-.|..-|...|-++.|.
T Consensus        49 ~Q-~dKAvdlF~e~l~~d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRAE  127 (389)
T COG2956          49 NQ-PDKAVDLFLEMLQEDPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRAE  127 (389)
T ss_pred             cC-cchHHHHHHHHHhcCchhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHHH
Confidence            45 899999999999766555443  33444555599999999998877 5553      23445667788999999999


Q ss_pred             HHHhhCCcCC---HhHHHHHHHHHHHcCChHHHHHHHhhCCCCCcccHHHHHHHh-cchh--hhccCChHHHHHHHHHHH
Q 009066           91 DLFLAMPEKN---SVSWSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGY-MKFG--YVENSWAEDGLKLLRMMI  164 (545)
Q Consensus        91 ~~~~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~-~~~g--~~~~g~~~~A~~~~~~m~  164 (545)
                      .+|..+.+..   ......|+..|-+..++++|.++-+++..-+...++.-|.-| |...  .....+.+.|..++.+..
T Consensus       128 ~~f~~L~de~efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kAl  207 (389)
T COG2956         128 DIFNQLVDEGEFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKKAL  207 (389)
T ss_pred             HHHHHHhcchhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHH
Confidence            9999998643   446677999999999999999998877766666666655433 1111  133344444555554444


Q ss_pred             hCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccCCChh----h
Q 009066          165 GLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVV----T  240 (545)
Q Consensus       165 ~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~----~  240 (545)
                      +.                                   . +..+..--.+.+.+...|+++.|.+.++.+.+.|..    +
T Consensus       208 qa-----------------------------------~-~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~ev  251 (389)
T COG2956         208 QA-----------------------------------D-KKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEV  251 (389)
T ss_pred             hh-----------------------------------C-ccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHH
Confidence            43                                   2 222333334556666667777777776666655432    4


Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHH
Q 009066          241 WNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLL  319 (545)
Q Consensus       241 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~  319 (545)
                      ...+..+|.+.|+.++.+..+.++.+....++.  -..+-..-....-.+.|..++.+-.++   .|+...+..|++.-
T Consensus       252 l~~L~~~Y~~lg~~~~~~~fL~~~~~~~~g~~~--~l~l~~lie~~~G~~~Aq~~l~~Ql~r---~Pt~~gf~rl~~~~  325 (389)
T COG2956         252 LEMLYECYAQLGKPAEGLNFLRRAMETNTGADA--ELMLADLIELQEGIDAAQAYLTRQLRR---KPTMRGFHRLMDYH  325 (389)
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHccCCccH--HHHHHHHHHHhhChHHHHHHHHHHHhh---CCcHHHHHHHHHhh
Confidence            556667777777777777777777664333322  222222223333445555555444443   67777777777754

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

Probab=99.38  E-value=6.6e-09  Score=102.16  Aligned_cols=271  Identities=10%  Similarity=0.027  Sum_probs=212.0

Q ss_pred             ccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHH
Q 009066          133 VAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTP  212 (545)
Q Consensus       133 ~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~  212 (545)
                      .+|+.-...|     ...+..+-|..+|...++. .+-+...|......=-..|..+.-..+++.++..- +.....|-.
T Consensus       517 ~tw~~da~~~-----~k~~~~~carAVya~alqv-fp~k~slWlra~~~ek~hgt~Esl~Allqkav~~~-pkae~lwlM  589 (913)
T KOG0495|consen  517 STWLDDAQSC-----EKRPAIECARAVYAHALQV-FPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQC-PKAEILWLM  589 (913)
T ss_pred             hHHhhhHHHH-----HhcchHHHHHHHHHHHHhh-ccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CcchhHHHH
Confidence            4566666666     6677777778888777764 23355566666666667788888888888888764 344556666


Q ss_pred             HHHHHHhcCCHHHHHHHHHhccC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcH
Q 009066          213 LISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLV  289 (545)
Q Consensus       213 li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~  289 (545)
                      ...-+.+.|++..|..++...-+   .+...|-+-+..-..+.+++.|..+|.+...  ..|+...|.--+..---.++.
T Consensus       590 ~ake~w~agdv~~ar~il~~af~~~pnseeiwlaavKle~en~e~eraR~llakar~--~sgTeRv~mKs~~~er~ld~~  667 (913)
T KOG0495|consen  590 YAKEKWKAGDVPAARVILDQAFEANPNSEEIWLAAVKLEFENDELERARDLLAKARS--ISGTERVWMKSANLERYLDNV  667 (913)
T ss_pred             HHHHHHhcCCcHHHHHHHHHHHHhCCCcHHHHHHHHHHhhccccHHHHHHHHHHHhc--cCCcchhhHHHhHHHHHhhhH
Confidence            67777788999999999887764   3566888888889999999999999999876  456776666666666677899


Q ss_pred             HHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHH
Q 009066          290 DLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNL  367 (545)
Q Consensus       290 ~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~  367 (545)
                      ++|++++++..+.  ++.-...|-.+.+.+-+.++++.|.+.|..- ..-| ....|-.|...--+.|.+-.|..++++.
T Consensus       668 eeA~rllEe~lk~--fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~cP~~ipLWllLakleEk~~~~~rAR~ildra  745 (913)
T KOG0495|consen  668 EEALRLLEEALKS--FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKKCPNSIPLWLLLAKLEEKDGQLVRARSILDRA  745 (913)
T ss_pred             HHHHHHHHHHHHh--CCchHHHHHHHhHHHHHHHHHHHHHHHHHhccccCCCCchHHHHHHHHHHHhcchhhHHHHHHHH
Confidence            9999999998874  3555678889999999999999999988766 3335 4578888888888999999999999999


Q ss_pred             hcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhhCCCccCCceeEEE
Q 009066          368 FNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVVKMPGYSWIE  417 (545)
Q Consensus       368 ~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~s~~~  417 (545)
                      .-.+|.+.. .|...+.+-.+.|+.+.|..+..+..+.-  |..|.-|.+
T Consensus       746 rlkNPk~~~-lwle~Ir~ElR~gn~~~a~~lmakALQec--p~sg~LWaE  792 (913)
T KOG0495|consen  746 RLKNPKNAL-LWLESIRMELRAGNKEQAELLMAKALQEC--PSSGLLWAE  792 (913)
T ss_pred             HhcCCCcch-hHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CccchhHHH
Confidence            999999998 99999999999999999998877766532  445666643

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.37  E-value=1.8e-10  Score=106.25  Aligned_cols=196  Identities=16%  Similarity=0.085  Sum_probs=158.3

Q ss_pred             cccHHHHHHHHHhcCCHHHHHHHHHhccC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 009066          207 TTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLAC  283 (545)
Q Consensus       207 ~~~~~~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~  283 (545)
                      ...+..+...|...|++++|.+.|++..+   .+...+..+...|...|++++|.+.+++..+.. +.+...+..+...+
T Consensus        31 ~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~  109 (234)
T TIGR02521        31 AKIRVQLALGYLEQGDLEVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTFL  109 (234)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHH
Confidence            45566788888889999999999887754   346678888888999999999999999988754 23456677777888


Q ss_pred             HccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHH
Q 009066          284 NHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAE  361 (545)
Q Consensus       284 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~  361 (545)
                      ...|++++|.+.++...+....+.....+..+...+...|++++|...+++. ...| +...+..+...+...|++++|.
T Consensus       110 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~  189 (234)
T TIGR02521       110 CQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRPESLLELAELYYLRGQYKDAR  189 (234)
T ss_pred             HHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCChHHHHHHHHHHHHcCCHHHHH
Confidence            8999999999999988764222334567778888999999999999999887 3334 4567888888999999999999


Q ss_pred             HHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhh
Q 009066          362 FAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       362 ~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  404 (545)
                      ..+++..+..|.+.. .+..++.++...|+.++|..+.+.+..
T Consensus       190 ~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       190 AYLERYQQTYNQTAE-SLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHHhCCCCHH-HHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            999999888887766 788888999999999999998887754

Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.

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

Probab=99.36  E-value=3e-09  Score=108.46  Aligned_cols=345  Identities=12%  Similarity=0.109  Sum_probs=184.7

Q ss_pred             CCHHHHHHHHhcCC---CCCeehHHHHHHHHHhCCCHHHHHHHHhhC---CcCCHhHHHHHHHHHHHcCChHHHHHHHhh
Q 009066           53 DDVVAAFDFFQRLP---IKDTASWNTMISGFVQKKNMAKARDLFLAM---PEKNSVSWSAMISGYIECGQLDKAVELFKV  126 (545)
Q Consensus        53 g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~g~~~~a~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~A~~~f~~  126 (545)
                      |++++|.+++.++.   +.+...|-+|...|-+.|+.+++...+-..   .+.|...|-.+.+...+.|.+++|.-.|.+
T Consensus       153 g~~eeA~~i~~EvIkqdp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~d~e~W~~ladls~~~~~i~qA~~cy~r  232 (895)
T KOG2076|consen  153 GDLEEAEEILMEVIKQDPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPKDYELWKRLADLSEQLGNINQARYCYSR  232 (895)
T ss_pred             CCHHHHHHHHHHHHHhCccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcccHHHHHHHHHH
Confidence            66667776666665   334456666666676677666666554322   234556666666666666667777766666


Q ss_pred             CCCCCcccHHHH---HHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHH----HHHHHHHHhccCcHHHHHHHHHHHH
Q 009066          127 APVKSVVAWTAM---ISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASS----LSSVLLGCSHLSSLQLGKQVHQLVF  199 (545)
Q Consensus       127 ~~~~~~~~~~~l---i~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t----~~~ll~~~~~~~~~~~a~~~~~~~~  199 (545)
                      ..+.++..|-.+   ...|     -+.|+...|++-|.++.+...+.|..-    .-.++..+...++-+.|.+.+....
T Consensus       233 AI~~~p~n~~~~~ers~L~-----~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~  307 (895)
T KOG2076|consen  233 AIQANPSNWELIYERSSLY-----QKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGAL  307 (895)
T ss_pred             HHhcCCcchHHHHHHHHHH-----HHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            554433333322   3344     556666667666666665432223332    2233344445555566666665555


Q ss_pred             hC-CCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccC--------------------------CChhhHHH----HHHHH
Q 009066          200 KS-PLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR--------------------------KDVVTWNA----MISGY  248 (545)
Q Consensus       200 ~~-g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~--------------------------~~~~~~~~----li~~~  248 (545)
                      .. +-..+...++.++.+|.+...++.|......+..                          ++..+|+.    +.-++
T Consensus       308 s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~rl~icL  387 (895)
T KOG2076|consen  308 SKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVIRLMICL  387 (895)
T ss_pred             hhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhHhHhhhh
Confidence            42 2233445566666666666666666555444322                          01111111    11122


Q ss_pred             H--HcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHH
Q 009066          249 A--QHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLV  326 (545)
Q Consensus       249 ~--~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  326 (545)
                      .  +.++..+++.-|..-....+.-+...|.-+..++...|.+.+|..+|..+... ....+..+|--+..+|...|..+
T Consensus       388 ~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~-~~~~~~~vw~~~a~c~~~l~e~e  466 (895)
T KOG2076|consen  388 VHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNR-EGYQNAFVWYKLARCYMELGEYE  466 (895)
T ss_pred             hcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcC-ccccchhhhHHHHHHHHHHhhHH
Confidence            2  22233333333332222112223345666666777777777777777666543 22223556666777777777777


Q ss_pred             HHHHHHHhC-CCCCCH-hHHHHHHHHHHhcCCHHHHHHHHHHHhcCCC---------CCCchhHHHHHHHHHHcCCchHH
Q 009066          327 EAVDLIKKM-PFKPQP-AIFGTLLSACRVHKRLDLAEFAAMNLFNLNP---------ANAAGCYVQLANIYAAMKKWDDV  395 (545)
Q Consensus       327 ~A~~~~~~m-~~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p---------~~~~~~~~~l~~~~~~~g~~~~a  395 (545)
                      +|.+.|++. ...|+. ..--+|...+.+.|+.++|.+.++.+..-+|         .... .......++.+.|+.++-
T Consensus       467 ~A~e~y~kvl~~~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~r-i~~~r~d~l~~~gk~E~f  545 (895)
T KOG2076|consen  467 EAIEFYEKVLILAPDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERR-ILAHRCDILFQVGKREEF  545 (895)
T ss_pred             HHHHHHHHHHhcCCCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHH-HHHHHHHHHHHhhhHHHH
Confidence            777777665 333432 3344455566667777777777666553221         1112 445556667777777765


Q ss_pred             HHHHHHhhh
Q 009066          396 ARIRLSMKE  404 (545)
Q Consensus       396 ~~~~~~m~~  404 (545)
                      ..+-..|..
T Consensus       546 i~t~~~Lv~  554 (895)
T KOG2076|consen  546 INTASTLVD  554 (895)
T ss_pred             HHHHHHHHH
Confidence            555555543

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

Probab=99.34  E-value=4.1e-09  Score=102.12  Aligned_cols=251  Identities=13%  Similarity=0.076  Sum_probs=199.6

Q ss_pred             hccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHH
Q 009066          148 VENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDAC  227 (545)
Q Consensus       148 ~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~  227 (545)
                      ...+++.+.++++....+.. ++....+..-|.++...|+..+-..+=..+++. .|....+|-++.--|.-.|+..+|+
T Consensus       255 y~~c~f~~c~kit~~lle~d-pfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~-yP~~a~sW~aVg~YYl~i~k~seAR  332 (611)
T KOG1173|consen  255 YYGCRFKECLKITEELLEKD-PFHLPCLPLHIACLYELGKSNKLFLLSHKLVDL-YPSKALSWFAVGCYYLMIGKYSEAR  332 (611)
T ss_pred             HHcChHHHHHHHhHHHHhhC-CCCcchHHHHHHHHHHhcccchHHHHHHHHHHh-CCCCCcchhhHHHHHHHhcCcHHHH
Confidence            67889999999999988764 455555555566777778777666665666665 3667888999999999999999999


Q ss_pred             HHHHhccCCC---hhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcC
Q 009066          228 KLFLEIQRKD---VVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYG  304 (545)
Q Consensus       228 ~~f~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~  304 (545)
                      +.|.+...-|   ...|-.....|+-.|..++|+..+...-+. ++-...-+.-+.--|.+.++.+.|.++|.+...  -
T Consensus       333 ry~SKat~lD~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl-~~G~hlP~LYlgmey~~t~n~kLAe~Ff~~A~a--i  409 (611)
T KOG1173|consen  333 RYFSKATTLDPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARL-MPGCHLPSLYLGMEYMRTNNLKLAEKFFKQALA--I  409 (611)
T ss_pred             HHHHHHhhcCccccHHHHHHhHHhhhcchHHHHHHHHHHHHHh-ccCCcchHHHHHHHHHHhccHHHHHHHHHHHHh--c
Confidence            9999876533   468999999999999999999999887663 111122233344468889999999999988874  3


Q ss_pred             CCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC--C------CCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCC
Q 009066          305 IAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM--P------FKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANA  375 (545)
Q Consensus       305 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m--~------~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~  375 (545)
                      .+.|+.+.+-+.-.....+.+.+|..+|+..  +      .++ -..+++.|..+|++.+.+++|+..+++.+.+.|.+.
T Consensus       410 ~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~~k~~  489 (611)
T KOG1173|consen  410 APSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLLSPKDA  489 (611)
T ss_pred             CCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHcCCCch
Confidence            3556778888888888899999999999876  1      111 234688999999999999999999999999999999


Q ss_pred             chhHHHHHHHHHHcCCchHHHHHHHHhhh
Q 009066          376 AGCYVQLANIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       376 ~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  404 (545)
                      . +|..++-+|...|+++.|...|.+...
T Consensus       490 ~-~~asig~iy~llgnld~Aid~fhKaL~  517 (611)
T KOG1173|consen  490 S-THASIGYIYHLLGNLDKAIDHFHKALA  517 (611)
T ss_pred             h-HHHHHHHHHHHhcChHHHHHHHHHHHh
Confidence            8 999999999999999999999987643

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

Probab=99.33  E-value=4.1e-09  Score=98.19  Aligned_cols=251  Identities=14%  Similarity=0.118  Sum_probs=154.2

Q ss_pred             ccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHH
Q 009066          149 ENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACK  228 (545)
Q Consensus       149 ~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~  228 (545)
                      ..|++.+|.++..+-.+.+-.| ...|.....+.-+.|+.+.+..+..++.+.--.++..+.-+........|+++.|..
T Consensus        96 ~eG~~~qAEkl~~rnae~~e~p-~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~  174 (400)
T COG3071          96 FEGDFQQAEKLLRRNAEHGEQP-VLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARE  174 (400)
T ss_pred             hcCcHHHHHHHHHHhhhcCcch-HHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHH
Confidence            3566666666665555444222 233444444455566666666666666555334445555555555566666666655


Q ss_pred             HHHhcc---CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCH-------HHHHHHHHHHHccCcHHHHHHHHHH
Q 009066          229 LFLEIQ---RKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDS-------ITFVALLLACNHAGLVDLGIQYFDS  298 (545)
Q Consensus       229 ~f~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-------~t~~~ll~a~~~~g~~~~a~~~~~~  298 (545)
                      -.+++.   .++.........+|.+.|++.+...+..+|.+.|+--|+       .++..++.-+...+..+.-...++.
T Consensus       175 ~v~~ll~~~pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~  254 (400)
T COG3071         175 NVDQLLEMTPRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKN  254 (400)
T ss_pred             HHHHHHHhCcCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHh
Confidence            554433   245555566666666666666666666666665544332       2455555555544444444445554


Q ss_pred             hHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC---------------------------------CCCCCHhHHH
Q 009066          299 MVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM---------------------------------PFKPQPAIFG  345 (545)
Q Consensus       299 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m---------------------------------~~~p~~~~~~  345 (545)
                      ..+  ....++..-.+++.-+.++|+.++|.+++++.                                 ....++..+.
T Consensus       255 ~pr--~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L~~~~~~l~~~d~~~l~k~~e~~l~~h~~~p~L~~  332 (400)
T COG3071         255 QPR--KLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRLCRLIPRLRPGDPEPLIKAAEKWLKQHPEDPLLLS  332 (400)
T ss_pred             ccH--HhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhHHHHHhhcCCCCchHHHHHHHHHHHhCCCChhHHH
Confidence            443  23334444455555555566665555554432                                 0112447788


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhh
Q 009066          346 TLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       346 ~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  404 (545)
                      +|...|.+++.+.+|...|+..++..|...  +|..++.++.+.|+.++|.+++++...
T Consensus       333 tLG~L~~k~~~w~kA~~~leaAl~~~~s~~--~~~~la~~~~~~g~~~~A~~~r~e~L~  389 (400)
T COG3071         333 TLGRLALKNKLWGKASEALEAALKLRPSAS--DYAELADALDQLGEPEEAEQVRREALL  389 (400)
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHHhcCCChh--hHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence            999999999999999999999999999876  899999999999999999999887653

>PRK12370 invasion protein regulator; Provisional

Probab=99.33  E-value=7.6e-10  Score=115.31  Aligned_cols=263  Identities=14%  Similarity=0.049  Sum_probs=187.3

Q ss_pred             CcccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHh---------ccCcHHHHHHHHHHHHh
Q 009066          131 SVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPN-ASSLSSVLLGCS---------HLSSLQLGKQVHQLVFK  200 (545)
Q Consensus       131 ~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd-~~t~~~ll~~~~---------~~~~~~~a~~~~~~~~~  200 (545)
                      +...|...+.+.........+..++|+++|++..+.  .|+ ...+..+..++.         ..+++++|...++.+++
T Consensus       255 ~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~l--dP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~  332 (553)
T PRK12370        255 SIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNM--SPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATE  332 (553)
T ss_pred             ChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHh
Confidence            344555555553111111234567999999999875  454 344554444333         23458999999999998


Q ss_pred             CCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccC--C-ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCH-HHH
Q 009066          201 SPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR--K-DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDS-ITF  276 (545)
Q Consensus       201 ~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~t~  276 (545)
                      .. +.+...+..+..++...|++++|...|++..+  | +...|..+...+...|++++|+..+++..+..  |+. ..+
T Consensus       333 ld-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~--P~~~~~~  409 (553)
T PRK12370        333 LD-HNNPQALGLLGLINTIHSEYIVGSLLFKQANLLSPISADIKYYYGWNLFMAGQLEEALQTINECLKLD--PTRAAAG  409 (553)
T ss_pred             cC-CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCChhhH
Confidence            86 55677888899999999999999999999874  3 46678889999999999999999999999854  432 223


Q ss_pred             HHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCCCH-hHHHHHHHHHHhc
Q 009066          277 VALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQP-AIFGTLLSACRVH  354 (545)
Q Consensus       277 ~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~-~~~~~li~~~~~~  354 (545)
                      ..++..+...|++++|...++++.+. ..+.++..+..+..+|...|++++|...+.++ +..|+. ..++.+...|...
T Consensus       410 ~~~~~~~~~~g~~eeA~~~~~~~l~~-~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~~~~~l~~~~~~~  488 (553)
T PRK12370        410 ITKLWITYYHTGIDDAIRLGDELRSQ-HLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLIAVNLLYAEYCQN  488 (553)
T ss_pred             HHHHHHHHhccCHHHHHHHHHHHHHh-ccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHHHHHHHHHHHhcc
Confidence            33444566689999999999988753 22234666788899999999999999999987 444544 4456666677777


Q ss_pred             CCHHHHHHHHHHHhc---CCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhhCC
Q 009066          355 KRLDLAEFAAMNLFN---LNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENN  406 (545)
Q Consensus       355 g~~~~A~~~~~~~~~---~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  406 (545)
                      |  +.|...++++++   ..|.+..    .+...|.-.|+-+.+..+ +++.+.|
T Consensus       489 g--~~a~~~l~~ll~~~~~~~~~~~----~~~~~~~~~g~~~~~~~~-~~~~~~~  536 (553)
T PRK12370        489 S--ERALPTIREFLESEQRIDNNPG----LLPLVLVAHGEAIAEKMW-NKFKNED  536 (553)
T ss_pred             H--HHHHHHHHHHHHHhhHhhcCch----HHHHHHHHHhhhHHHHHH-HHhhccc
Confidence            7  477777777665   3454442    366677778887777766 7776654

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

Probab=99.32  E-value=2e-08  Score=95.29  Aligned_cols=399  Identities=11%  Similarity=0.098  Sum_probs=289.3

Q ss_pred             CCccHHHHHHHHHHhCCCChHHHHHHHccCCC--CCh-hhHHHHHHHHHcCCCCHHHHHHHHhc-CC-CCCeehHHHHHH
Q 009066            4 KTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQ--PDV-VSYNIMLSCILLNSDDVVAAFDFFQR-LP-IKDTASWNTMIS   78 (545)
Q Consensus         4 ~~~~~~~~li~~~~~~g~~~~~A~~~f~~~~~--~~~-~~~~~li~~~~~~~g~~~~A~~~~~~-m~-~~d~~~~~~li~   78 (545)
                      .+..+|-..+.+=.++.. +..|+.+|+....  |.+ ..|...+-.=-.. |++..|+++|++ |. +||..+|++.|.
T Consensus       105 r~itLWlkYae~Emknk~-vNhARNv~dRAvt~lPRVdqlWyKY~ymEE~L-gNi~gaRqiferW~~w~P~eqaW~sfI~  182 (677)
T KOG1915|consen  105 RNITLWLKYAEFEMKNKQ-VNHARNVWDRAVTILPRVDQLWYKYIYMEEML-GNIAGARQIFERWMEWEPDEQAWLSFIK  182 (677)
T ss_pred             ccchHHHHHHHHHHhhhh-HhHHHHHHHHHHHhcchHHHHHHHHHHHHHHh-cccHHHHHHHHHHHcCCCcHHHHHHHHH
Confidence            456677778888888888 9999999998652  322 2344444322334 999999999986 44 999999999999


Q ss_pred             HHHhCCCHHHHHHHHhhCC--cCCHhHHHHHHHHHHHcCChHHHHHHHhhCCCC--C----cccHHHHHHHhcchhhhcc
Q 009066           79 GFVQKKNMAKARDLFLAMP--EKNSVSWSAMISGYIECGQLDKAVELFKVAPVK--S----VVAWTAMISGYMKFGYVEN  150 (545)
Q Consensus        79 ~~~~~g~~~~a~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~--~----~~~~~~li~~~~~~g~~~~  150 (545)
                      .=.+-..++.|..+|++..  .|++.+|-.....=-++|.+..|+.+|+.....  |    ...+++...--     ..+
T Consensus       183 fElRykeieraR~IYerfV~~HP~v~~wikyarFE~k~g~~~~aR~VyerAie~~~~d~~~e~lfvaFA~fE-----e~q  257 (677)
T KOG1915|consen  183 FELRYKEIERARSIYERFVLVHPKVSNWIKYARFEEKHGNVALARSVYERAIEFLGDDEEAEILFVAFAEFE-----ERQ  257 (677)
T ss_pred             HHHHhhHHHHHHHHHHHHheecccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHH-----HHH
Confidence            9999999999999999876  688999999999999999999999999875421  1    22333333333     556


Q ss_pred             CChHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHhccCcHHHHHH--------HHHHHHhCCCCCCcccHHHHHHHHHhc
Q 009066          151 SWAEDGLKLLRMMIGLGIRPN--ASSLSSVLLGCSHLSSLQLGKQ--------VHQLVFKSPLCKDTTALTPLISMYCKC  220 (545)
Q Consensus       151 g~~~~A~~~~~~m~~~~~~pd--~~t~~~ll~~~~~~~~~~~a~~--------~~~~~~~~g~~~~~~~~~~li~~y~~~  220 (545)
                      ..++.|.-+|+-.+.. ++-+  ...|......=-+.|+......        -|+.+++.+ +.|-.+|--.+..-...
T Consensus       258 kE~ERar~iykyAld~-~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~~n-p~nYDsWfdylrL~e~~  335 (677)
T KOG1915|consen  258 KEYERARFIYKYALDH-IPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEVSKN-PYNYDSWFDYLRLEESV  335 (677)
T ss_pred             HHHHHHHHHHHHHHHh-cCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHHHhC-CCCchHHHHHHHHHHhc
Confidence            6778888888877764 2323  2233333333234454333322        234444443 45666777788888888


Q ss_pred             CCHHHHHHHHHhccCC--C---hhhHHHHHHH--------HHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH---
Q 009066          221 GDLEDACKLFLEIQRK--D---VVTWNAMISG--------YAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACN---  284 (545)
Q Consensus       221 g~~~~A~~~f~~~~~~--~---~~~~~~li~~--------~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~---  284 (545)
                      |+.+...++|++....  .   -..|.-.|-.        =....+.+.+.++|+..++. ++-...||.-+--.|+   
T Consensus       336 g~~~~Ire~yErAIanvpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~l-IPHkkFtFaKiWlmyA~fe  414 (677)
T KOG1915|consen  336 GDKDRIRETYERAIANVPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACLDL-IPHKKFTFAKIWLMYAQFE  414 (677)
T ss_pred             CCHHHHHHHHHHHHccCCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh-cCcccchHHHHHHHHHHHH
Confidence            9999999999998742  1   1233333322        13467889999999999883 4445677776544443   


Q ss_pred             -ccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHH
Q 009066          285 -HAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAE  361 (545)
Q Consensus       285 -~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~  361 (545)
                       ++.++..|++++...+   |.-|...++...|+.=.+.+.++....++++. ...| |..+|......-...|+.+.|.
T Consensus       415 IRq~~l~~ARkiLG~AI---G~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~Pe~c~~W~kyaElE~~LgdtdRaR  491 (677)
T KOG1915|consen  415 IRQLNLTGARKILGNAI---GKCPKDKLFKGYIELELQLREFDRCRKLYEKFLEFSPENCYAWSKYAELETSLGDTDRAR  491 (677)
T ss_pred             HHHcccHHHHHHHHHHh---ccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcChHhhHHHHHHHHHHHHhhhHHHHH
Confidence             6788999999998887   88999999999999999999999999999987 5556 6689999998889999999999


Q ss_pred             HHHHHHhcCCCCC-CchhHHHHHHHHHHcCCchHHHHHHHHhhhCCCccCCceeEEEE
Q 009066          362 FAAMNLFNLNPAN-AAGCYVQLANIYAAMKKWDDVARIRLSMKENNVVKMPGYSWIEV  418 (545)
Q Consensus       362 ~~~~~~~~~~p~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~s~~~~  418 (545)
                      .+|+-++....-+ +...+-..++.-...|.++.|..+++++.++.-.   ..+|+++
T Consensus       492 aifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~rt~h---~kvWisF  546 (677)
T KOG1915|consen  492 AIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDRTQH---VKVWISF  546 (677)
T ss_pred             HHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHhccc---chHHHhH
Confidence            9999887643222 2225556666677899999999999999875422   1267764

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

Probab=99.30  E-value=1.2e-10  Score=117.80  Aligned_cols=263  Identities=14%  Similarity=0.148  Sum_probs=193.1

Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccCCC
Q 009066          158 KLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKD  237 (545)
Q Consensus       158 ~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~  237 (545)
                      .++..+...|+.|+.+||.+++.-|+..|+.+.|- +|..|.-..++....+++.++......++.+.+.       +|.
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-------ep~   82 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-------EPL   82 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-------CCc
Confidence            46778888999999999999999999999999999 9999999989999999999999999999988876       788


Q ss_pred             hhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHH
Q 009066          238 VVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVD  317 (545)
Q Consensus       238 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~  317 (545)
                      ..+|+.+..+|.++|+..- ++..++           -...+...++..|.-..-..++..+.-..+.-||..   ..+.
T Consensus        83 aDtyt~Ll~ayr~hGDli~-fe~veq-----------dLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~---n~il  147 (1088)
T KOG4318|consen   83 ADTYTNLLKAYRIHGDLIL-FEVVEQ-----------DLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAE---NAIL  147 (1088)
T ss_pred             hhHHHHHHHHHHhccchHH-HHHHHH-----------HHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHH---HHHH
Confidence            8999999999999999865 333333           122344556666666666666655432224455544   3555


Q ss_pred             HHhHcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHHhcC-CHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHH
Q 009066          318 LLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHK-RLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVA  396 (545)
Q Consensus       318 ~~~~~g~~~~A~~~~~~m~~~p~~~~~~~li~~~~~~g-~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~  396 (545)
                      ...-.|.++.++++...+|...-.......+.-+.... .+++-....+...+ .|+..  +|..++.+-..+|+.+.|.
T Consensus       148 llv~eglwaqllkll~~~Pvsa~~~p~~vfLrqnv~~ntpvekLl~~cksl~e-~~~s~--~l~a~l~~alaag~~d~Ak  224 (1088)
T KOG4318|consen  148 LLVLEGLWAQLLKLLAKVPVSAWNAPFQVFLRQNVVDNTPVEKLLNMCKSLVE-APTSE--TLHAVLKRALAAGDVDGAK  224 (1088)
T ss_pred             HHHHHHHHHHHHHHHhhCCcccccchHHHHHHHhccCCchHHHHHHHHHHhhc-CCChH--HHHHHHHHHHhcCchhhHH
Confidence            66677888899999988864321112222344333333 33444444444444 66654  8999999999999999999


Q ss_pred             HHHHHhhhCCCccCCceeEEEECCEEEEEecCCCCCCChHHHHHHHHHHHHHHHHcCcccCCccc
Q 009066          397 RIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGYVPDLEFA  461 (545)
Q Consensus       397 ~~~~~m~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~m~~~g~~pd~~~~  461 (545)
                      .+...|+++|++..+.+.|-.+-+        ...       ..-++.+.+-|++.|+.||..+.
T Consensus       225 ~ll~emke~gfpir~HyFwpLl~g--------~~~-------~q~~e~vlrgmqe~gv~p~seT~  274 (1088)
T KOG4318|consen  225 NLLYEMKEKGFPIRAHYFWPLLLG--------INA-------AQVFEFVLRGMQEKGVQPGSETQ  274 (1088)
T ss_pred             HHHHHHHHcCCCcccccchhhhhc--------Ccc-------chHHHHHHHHHHHhcCCCCcchh
Confidence            999999999999888887754322        111       12367788999999999999886

>PF13041 PPR_2: PPR repeat family

Probab=99.30  E-value=8.6e-12  Score=83.80  Aligned_cols=50  Identities=50%  Similarity=0.789  Sum_probs=47.3

Q ss_pred             CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHc
Q 009066          236 KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNH  285 (545)
Q Consensus       236 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~  285 (545)
                      ||+++||++|.+|++.|++++|.++|++|.+.|++||..||+.++++|++
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            68999999999999999999999999999999999999999999999874

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

Probab=99.26  E-value=5.5e-08  Score=95.67  Aligned_cols=393  Identities=13%  Similarity=0.177  Sum_probs=248.6

Q ss_pred             cHHHHHHHHHHhCCCChHHHHHHHccCCC-----CChhhHHHHHHHHHcCCCCHHHHHHHHhcCCCCCeehHHHHHHHHH
Q 009066            7 VNWNSVLAGFAKQRGKLKDAQELFDKIPQ-----PDVVSYNIMLSCILLNSDDVVAAFDFFQRLPIKDTASWNTMISGFV   81 (545)
Q Consensus         7 ~~~~~li~~~~~~g~~~~~A~~~f~~~~~-----~~~~~~~~li~~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~   81 (545)
                      .+|-..++...++|. +..-+.+|+....     .-...|...|...-.. |-++.+.++|++-.+-++..-+--|..++
T Consensus       103 RIwl~Ylq~l~~Q~~-iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~-~lPets~rvyrRYLk~~P~~~eeyie~L~  180 (835)
T KOG2047|consen  103 RIWLDYLQFLIKQGL-ITRTRRTFDRALRALPVTQHDRIWDLYLKFVESH-GLPETSIRVYRRYLKVAPEAREEYIEYLA  180 (835)
T ss_pred             HHHHHHHHHHHhcch-HHHHHHHHHHHHHhCchHhhccchHHHHHHHHhC-CChHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            456666777888888 9999999987652     2223588888765566 88999999999988666667888889999


Q ss_pred             hCCCHHHHHHHHhhCC----------------------------------------------cCC--HhHHHHHHHHHHH
Q 009066           82 QKKNMAKARDLFLAMP----------------------------------------------EKN--SVSWSAMISGYIE  113 (545)
Q Consensus        82 ~~g~~~~a~~~~~~~~----------------------------------------------~~~--~~~~~~li~~~~~  113 (545)
                      +.+++++|.+.+...+                                              -+|  -..|++|.+-|.+
T Consensus       181 ~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~rftDq~g~Lw~SLAdYYIr  260 (835)
T KOG2047|consen  181 KSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRRFTDQLGFLWCSLADYYIR  260 (835)
T ss_pred             hccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhcccCcHHHHHHHHHHHHHHHH
Confidence            9999999999888877                                              012  3468999999999


Q ss_pred             cCChHHHHHHHhhCCCC--CcccHHHHHHHhcchh---------------------------------------------
Q 009066          114 CGQLDKAVELFKVAPVK--SVVAWTAMISGYMKFG---------------------------------------------  146 (545)
Q Consensus       114 ~g~~~~A~~~f~~~~~~--~~~~~~~li~~~~~~g---------------------------------------------  146 (545)
                      .|.++.|+.+|++..+.  .+.-++.+-++|+...                                             
T Consensus       261 ~g~~ekarDvyeeai~~v~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~~~lNsV  340 (835)
T KOG2047|consen  261 SGLFEKARDVYEEAIQTVMTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRRPLLLNSV  340 (835)
T ss_pred             hhhhHHHHHHHHHHHHhheehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhccchHHHHH
Confidence            99999999999764321  1111222222221100                                             


Q ss_pred             ----------------hhccCChHHHHHHHHHHHhCCCCCC------HHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCC
Q 009066          147 ----------------YVENSWAEDGLKLLRMMIGLGIRPN------ASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLC  204 (545)
Q Consensus       147 ----------------~~~~g~~~~A~~~~~~m~~~~~~pd------~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~  204 (545)
                                      ....|+..+-...|.+..+. +.|-      ...|..+...|-..|+++.|+.+|....+..++
T Consensus       341 lLRQn~~nV~eW~kRV~l~e~~~~~~i~tyteAv~~-vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V~y~  419 (835)
T KOG2047|consen  341 LLRQNPHNVEEWHKRVKLYEGNAAEQINTYTEAVKT-VDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATKVPYK  419 (835)
T ss_pred             HHhcCCccHHHHHhhhhhhcCChHHHHHHHHHHHHc-cCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCcc
Confidence                            23345566666666666543 2332      234666777788888888888888888876543


Q ss_pred             CC---cccHHHHHHHHHhcCCHHHHHHHHHhccC---C------------------ChhhHHHHHHHHHHcCChHHHHHH
Q 009066          205 KD---TTALTPLISMYCKCGDLEDACKLFLEIQR---K------------------DVVTWNAMISGYAQHGKGEKALRL  260 (545)
Q Consensus       205 ~~---~~~~~~li~~y~~~g~~~~A~~~f~~~~~---~------------------~~~~~~~li~~~~~~g~~~~A~~~  260 (545)
                      .-   ..+|..-.++-.+..+++.|.++.+....   +                  +...|...+..--..|-++....+
T Consensus       420 ~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtfestk~v  499 (835)
T KOG2047|consen  420 TVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGTFESTKAV  499 (835)
T ss_pred             chHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccHHHHHHH
Confidence            32   34566666666677778888877766531   1                  223444444443334444444444


Q ss_pred             HHHHHHcCC----------------------------------CCCHH-HHHHHHHHH---HccCcHHHHHHHHHHhHHh
Q 009066          261 FDKMKDEGM----------------------------------KPDSI-TFVALLLAC---NHAGLVDLGIQYFDSMVND  302 (545)
Q Consensus       261 ~~~m~~~g~----------------------------------~p~~~-t~~~ll~a~---~~~g~~~~a~~~~~~~~~~  302 (545)
                      |+++.+..+                                  .|+.. .|+..|.-+   .....++.|+.+|++..+ 
T Consensus       500 YdriidLriaTPqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEraRdLFEqaL~-  578 (835)
T KOG2047|consen  500 YDRIIDLRIATPQIIINYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERARDLFEQALD-  578 (835)
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHh-
Confidence            444433221                                  23332 233333222   123467888888888876 


Q ss_pred             cCCCCCHH--HHHHHHHHHhHcCCHHHHHHHHHhC--CCCCC--HhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCc
Q 009066          303 YGIAAKPD--HYTCMVDLLGRAGKLVEAVDLIKKM--PFKPQ--PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA  376 (545)
Q Consensus       303 ~~~~~~~~--~~~~li~~~~~~g~~~~A~~~~~~m--~~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~  376 (545)
                       +.+|...  .|-.....=-+-|....|+.++++.  .+++.  ...||..|.-.+..=-+..-..+|+++++.-|+...
T Consensus       579 -~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat~~v~~a~~l~myni~I~kaae~yGv~~TR~iYekaIe~Lp~~~~  657 (835)
T KOG2047|consen  579 -GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERATSAVKEAQRLDMYNIYIKKAAEIYGVPRTREIYEKAIESLPDSKA  657 (835)
T ss_pred             -cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhCCcccHHHHHHHHHhCChHHH
Confidence             5565422  2222223333467788888888887  33332  257888776555444455667888888888887643


Q ss_pred             h-hHHHHHHHHHHcCCchHHHHHHHHhhh
Q 009066          377 G-CYVQLANIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       377 ~-~~~~l~~~~~~~g~~~~a~~~~~~m~~  404 (545)
                      . .....+..-.+.|..+.|+.++.--.+
T Consensus       658 r~mclrFAdlEtklGEidRARaIya~~sq  686 (835)
T KOG2047|consen  658 REMCLRFADLETKLGEIDRARAIYAHGSQ  686 (835)
T ss_pred             HHHHHHHHHHhhhhhhHHHHHHHHHhhhh
Confidence            1 233556677889999999999875544

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

Probab=99.25  E-value=2.6e-08  Score=92.91  Aligned_cols=275  Identities=12%  Similarity=0.059  Sum_probs=187.2

Q ss_pred             CCCHHHHHHHHhhCCcC---CHhHHHHHHHHHHHcCChHHHHHHHhhCCCC--C--cccHHHHHHHhcchhhhccCChHH
Q 009066           83 KKNMAKARDLFLAMPEK---NSVSWSAMISGYIECGQLDKAVELFKVAPVK--S--VVAWTAMISGYMKFGYVENSWAED  155 (545)
Q Consensus        83 ~g~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~--~--~~~~~~li~~~~~~g~~~~g~~~~  155 (545)
                      .|++.+|+++..+-.+.   ....|..-..+--..|+.+.|-..+.+..++  |  ....-+.....     ...|+.+.
T Consensus        97 eG~~~qAEkl~~rnae~~e~p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarll-----l~~~d~~a  171 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQPVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLL-----LNRRDYPA  171 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcchHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHH-----HhCCCchh
Confidence            46666666666654432   2233444444555666666666666655433  2  22333444444     66666666


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCc-------ccHHHHHHHHHhcCCHHHHHH
Q 009066          156 GLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDT-------TALTPLISMYCKCGDLEDACK  228 (545)
Q Consensus       156 A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~-------~~~~~li~~y~~~g~~~~A~~  228 (545)
                      |..-..++.+.+ +-+.........+|.+.|++.....+...+.+.|.-.+.       .+|+.+++=....+..+.-..
T Consensus       172 A~~~v~~ll~~~-pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~  250 (400)
T COG3071         172 ARENVDQLLEMT-PRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKT  250 (400)
T ss_pred             HHHHHHHHHHhC-cCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHH
Confidence            666666666543 224455566666667777777777777777666654443       244445544444444455455


Q ss_pred             HHHhccC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCC
Q 009066          229 LFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGI  305 (545)
Q Consensus       229 ~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~  305 (545)
                      .++..+.   .++..-.+++.-+.+.|+.++|.++.++..+.+..|+.    ..+-.+.+.++...-.+..+.-.+.++.
T Consensus       251 ~W~~~pr~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L----~~~~~~l~~~d~~~l~k~~e~~l~~h~~  326 (400)
T COG3071         251 WWKNQPRKLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRL----CRLIPRLRPGDPEPLIKAAEKWLKQHPE  326 (400)
T ss_pred             HHHhccHHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhH----HHHHhhcCCCCchHHHHHHHHHHHhCCC
Confidence            6666663   46777788888899999999999999999888777762    2223566778888777877777775444


Q ss_pred             CCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHhc
Q 009066          306 AAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFN  369 (545)
Q Consensus       306 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  369 (545)
                      .  +..+.+|...|.+.+.+.+|.+.|+.. +..|+...|+.+..++.+.|+.++|.+..++.+-
T Consensus       327 ~--p~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~  389 (400)
T COG3071         327 D--PLLLSTLGRLALKNKLWGKASEALEAALKLRPSASDYAELADALDQLGEPEEAEQVRREALL  389 (400)
T ss_pred             C--hhHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCChhhHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence            4  478889999999999999999999976 7789999999999999999999999999988764

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.24  E-value=1.8e-09  Score=107.65  Aligned_cols=231  Identities=17%  Similarity=0.196  Sum_probs=176.5

Q ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHHHhC-----CC-CCCc-ccHHHHHHHHHhcCCHHHHHHHHHhccC-------C-
Q 009066          172 ASSLSSVLLGCSHLSSLQLGKQVHQLVFKS-----PL-CKDT-TALTPLISMYCKCGDLEDACKLFLEIQR-------K-  236 (545)
Q Consensus       172 ~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~-----g~-~~~~-~~~~~li~~y~~~g~~~~A~~~f~~~~~-------~-  236 (545)
                      ..|+..+...|...|+++.|..++++.++.     |. .|.+ ...+.+...|...+++++|..+|+++..       + 
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            346777888999999999999999988764     21 1222 2334577789999999999999998863       1 


Q ss_pred             ---ChhhHHHHHHHHHHcCChHHHHHHHHHHHHc-----CC-CCCHH-HHHHHHHHHHccCcHHHHHHHHHHhHHhcC--
Q 009066          237 ---DVVTWNAMISGYAQHGKGEKALRLFDKMKDE-----GM-KPDSI-TFVALLLACNHAGLVDLGIQYFDSMVNDYG--  304 (545)
Q Consensus       237 ---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-----g~-~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~--  304 (545)
                         -..+++.|..+|.+.|++++|..++++..+-     |. .|... -++.+...|...+.+++|..+++...+.+.  
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               2357888888999999999999888876541     22 22322 355667788999999999999988766443  


Q ss_pred             CCCC----HHHHHHHHHHHhHcCCHHHHHHHHHhC---------CCCCC-HhHHHHHHHHHHhcCCHHHHHHHHHHHhc-
Q 009066          305 IAAK----PDHYTCMVDLLGRAGKLVEAVDLIKKM---------PFKPQ-PAIFGTLLSACRVHKRLDLAEFAAMNLFN-  369 (545)
Q Consensus       305 ~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~m---------~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~-  369 (545)
                      +.++    ..+++.|...|...|++++|.+++++.         +..+. ....+.|...|.+.+++++|.++|.+... 
T Consensus       359 ~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i  438 (508)
T KOG1840|consen  359 PGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDI  438 (508)
T ss_pred             ccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHH
Confidence            2222    467899999999999999999999877         11222 35678888999999999999999987754 


Q ss_pred             ---CCCCC---CchhHHHHHHHHHHcCCchHHHHHHHHhh
Q 009066          370 ---LNPAN---AAGCYVQLANIYAAMKKWDDVARIRLSMK  403 (545)
Q Consensus       370 ---~~p~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  403 (545)
                         .+|+.   .. +|..|+..|...|++|+|.++.+...
T Consensus       439 ~~~~g~~~~~~~~-~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  439 MKLCGPDHPDVTY-TYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             HHHhCCCCCchHH-HHHHHHHHHHHcccHHHHHHHHHHHH
Confidence               34443   34 78899999999999999999988775

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.24  E-value=4e-09  Score=97.18  Aligned_cols=196  Identities=17%  Similarity=0.167  Sum_probs=116.8

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccC---CChhhHHHHHHHHH
Q 009066          173 SSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYA  249 (545)
Q Consensus       173 ~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~  249 (545)
                      ..+..+...+...|++++|...++.+++.. +.+...+..+...|...|++++|.+.|++..+   .+...+..+...+.
T Consensus        32 ~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  110 (234)
T TIGR02521        32 KIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLNPNNGDVLNNYGTFLC  110 (234)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHH
Confidence            344445555555566666666665555443 23344555566666666666666666665542   23445666666666


Q ss_pred             HcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHH
Q 009066          250 QHGKGEKALRLFDKMKDEGMKP-DSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEA  328 (545)
Q Consensus       250 ~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  328 (545)
                      ..|++++|...|++.......| ....+..+..++...|++++|...+.+..+.  .+.+...+..+...+...|++++|
T Consensus       111 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A  188 (234)
T TIGR02521       111 QQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQI--DPQRPESLLELAELYYLRGQYKDA  188 (234)
T ss_pred             HcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCChHHHHHHHHHHHHcCCHHHH
Confidence            6777777777777766532222 2234445556666777777777777776652  233455666777777777777777


Q ss_pred             HHHHHhC-CCC-CCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCC
Q 009066          329 VDLIKKM-PFK-PQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLN  371 (545)
Q Consensus       329 ~~~~~~m-~~~-p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~  371 (545)
                      ...+++. ... .+...+..+...+...|+.+.|....+.+....
T Consensus       189 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~  233 (234)
T TIGR02521       189 RAYLERYQQTYNQTAESLWLGIRIARALGDVAAAQRYGAQLQKLF  233 (234)
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhhC
Confidence            7777665 212 244555566666777777777777766665443

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.

>PF13041 PPR_2: PPR repeat family

Probab=99.22  E-value=2.8e-11  Score=81.29  Aligned_cols=50  Identities=30%  Similarity=0.543  Sum_probs=45.3

Q ss_pred             CCcccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhc
Q 009066          130 KSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSH  184 (545)
Q Consensus       130 ~~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~  184 (545)
                      ||+++||++|.+|     .+.|++++|+++|++|.+.|++||..||++++++|++
T Consensus         1 P~~~~yn~li~~~-----~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    1 PDVVTYNTLISGY-----CKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLCK   50 (50)
T ss_pred             CchHHHHHHHHHH-----HHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcC
Confidence            6888999999999     8999999999999999999999999999999998874

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

Probab=99.20  E-value=6.1e-08  Score=90.55  Aligned_cols=360  Identities=12%  Similarity=0.064  Sum_probs=238.3

Q ss_pred             CccHHHHHHHHHHhCCCChHHHHHHHccCCC-CChhhHHHHHHHHHcCCCCHHHHHHHHh----cCC-------------
Q 009066            5 TTVNWNSVLAGFAKQRGKLKDAQELFDKIPQ-PDVVSYNIMLSCILLNSDDVVAAFDFFQ----RLP-------------   66 (545)
Q Consensus         5 ~~~~~~~li~~~~~~g~~~~~A~~~f~~~~~-~~~~~~~~li~~~~~~~g~~~~A~~~~~----~m~-------------   66 (545)
                      |...-...+..|-..++ -++|.....+.|. ....--|.|+.-+...+++-.++.--+.    +.+             
T Consensus        96 ~~e~~r~~aecy~~~~n-~~~Ai~~l~~~p~t~r~p~inlMla~l~~~g~r~~~~vl~ykevvrecp~aL~~i~~ll~l~  174 (564)
T KOG1174|consen   96 DAEQRRRAAECYRQIGN-TDMAIETLLQVPPTLRSPRINLMLARLQHHGSRHKEAVLAYKEVIRECPMALQVIEALLELG  174 (564)
T ss_pred             cHHHHHHHHHHHHHHcc-chHHHHHHhcCCccccchhHHHHHHHHHhccccccHHHHhhhHHHHhcchHHHHHHHHHHHh
Confidence            34444556778888888 8899999888884 3344455555555444333222211111    111             


Q ss_pred             ----------------CCCeehHHHHHHHHHh--CCCHHHHHHHHhhCC-----cCCHhHHHHHHHHHHHcCChHHHHHH
Q 009066           67 ----------------IKDTASWNTMISGFVQ--KKNMAKARDLFLAMP-----EKNSVSWSAMISGYIECGQLDKAVEL  123 (545)
Q Consensus        67 ----------------~~d~~~~~~li~~~~~--~g~~~~a~~~~~~~~-----~~~~~~~~~li~~~~~~g~~~~A~~~  123 (545)
                                      +|+..+...-+.++++  .++-..|.+++-.+.     ..|+....++.+.|...|+.++|...
T Consensus       175 v~g~e~~S~~m~~~~~~~~~dwls~wika~Aq~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~  254 (564)
T KOG1174|consen  175 VNGNEINSLVMHAATVPDHFDWLSKWIKALAQMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDI  254 (564)
T ss_pred             hcchhhhhhhhhheecCCCccHHHHHHHHHHHHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHH
Confidence                            1222222233444433  344334443332221     45788888999999999999999999


Q ss_pred             HhhCCCCCcccHHHH---HHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHh
Q 009066          124 FKVAPVKSVVAWTAM---ISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFK  200 (545)
Q Consensus       124 f~~~~~~~~~~~~~l---i~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~  200 (545)
                      |++...-|+.+..+|   .-.+     .+.|+.+....+...+.... .-....|..-+...-..++++.|..+-+..++
T Consensus       255 Fe~~~~~dpy~i~~MD~Ya~LL-----~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~  328 (564)
T KOG1174|consen  255 FSSTLCANPDNVEAMDLYAVLL-----GQEGGCEQDSALMDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVEKCID  328 (564)
T ss_pred             HHHHhhCChhhhhhHHHHHHHH-----HhccCHhhHHHHHHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhc
Confidence            988665555433332   1112     56677777777777766432 12233333333444556778888887777776


Q ss_pred             CCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhcc--C-CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHH
Q 009066          201 SPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQ--R-KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFV  277 (545)
Q Consensus       201 ~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~--~-~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~  277 (545)
                      .. +.++..+-.-...+...|+.++|.--|....  . -+..+|..++..|...|++.+|.-+-+...+. +..+..+..
T Consensus       329 ~~-~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~Lap~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~Lt  406 (564)
T KOG1174|consen  329 SE-PRNHEALILKGRLLIALERHTQAVIAFRTAQMLAPYRLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLT  406 (564)
T ss_pred             cC-cccchHHHhccHHHHhccchHHHHHHHHHHHhcchhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhh
Confidence            64 3445555555677778899999999998765  3 37889999999999999999999887776553 334555554


Q ss_pred             HHH-HHHH-ccCcHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCCCHhHHHHHHHHHHh
Q 009066          278 ALL-LACN-HAGLVDLGIQYFDSMVNDYGIAAK-PDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQPAIFGTLLSACRV  353 (545)
Q Consensus       278 ~ll-~a~~-~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~li~~~~~  353 (545)
                      .+. ..|. ....-++|.+++++..+   +.|+ ....+.+...+.+.|+.+++..++++. ...||....+.|...++.
T Consensus       407 L~g~~V~~~dp~~rEKAKkf~ek~L~---~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~~~D~~LH~~Lgd~~~A  483 (564)
T KOG1174|consen  407 LFGTLVLFPDPRMREKAKKFAEKSLK---INPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLIIFPDVNLHNHLGDIMRA  483 (564)
T ss_pred             hhcceeeccCchhHHHHHHHHHhhhc---cCCccHHHHHHHHHHHHhhCccchHHHHHHHHHhhccccHHHHHHHHHHHH
Confidence            442 2332 33345788888887663   4565 455677888999999999999999877 556899999999999999


Q ss_pred             cCCHHHHHHHHHHHhcCCCCCCc
Q 009066          354 HKRLDLAEFAAMNLFNLNPANAA  376 (545)
Q Consensus       354 ~g~~~~A~~~~~~~~~~~p~~~~  376 (545)
                      .+.+++|...|..++.++|++..
T Consensus       484 ~Ne~Q~am~~y~~ALr~dP~~~~  506 (564)
T KOG1174|consen  484 QNEPQKAMEYYYKALRQDPKSKR  506 (564)
T ss_pred             hhhHHHHHHHHHHHHhcCccchH
Confidence            99999999999999999999864

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

Probab=99.18  E-value=2.1e-08  Score=102.04  Aligned_cols=104  Identities=13%  Similarity=0.126  Sum_probs=83.3

Q ss_pred             HHHHHHHHHHhHcCCHHHHHHHHHhCC-----CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHhc---CCCCCCchhHHH
Q 009066          310 DHYTCMVDLLGRAGKLVEAVDLIKKMP-----FKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFN---LNPANAAGCYVQ  381 (545)
Q Consensus       310 ~~~~~li~~~~~~g~~~~A~~~~~~m~-----~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~p~~~~~~~~~  381 (545)
                      ..|..||+.+....+++.|..+.++..     +.-|...+..+.+.+.+++....+..+++.+.+   ..|.... ++..
T Consensus       492 g~ya~Li~l~~~hdkle~Al~~~~e~d~~d~s~~Ld~~~m~~l~dLL~r~~~l~dl~tiL~e~ks~a~n~~~~a~-~~f~  570 (1088)
T KOG4318|consen  492 GLYALLIKLMDLHDKLEYALSFVDEIDTRDESIHLDLPLMTSLQDLLQRLAILYDLSTILYEDKSSAENEPLVAI-ILFP  570 (1088)
T ss_pred             hHHHHHhhhHHHHHHHHHHHhchhhhcccchhhhcccHhHHHHHHHHHHhHHHHHHHHHHhhhhHHhhCCchHHH-HHHH
Confidence            568899999999999999999999882     234556688889999999999999999988865   3344344 6778


Q ss_pred             HHHHHHHcCCchHHHHHHHHhhhCCCccCCceeE
Q 009066          382 LANIYAAMKKWDDVARIRLSMKENNVVKMPGYSW  415 (545)
Q Consensus       382 l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~s~  415 (545)
                      +.+.-+..|+.+...+.++-+...|+.- .+.-|
T Consensus       571 ~lns~a~agqqe~Lkkl~d~lvslgl~e-tgPl~  603 (1088)
T KOG4318|consen  571 LLNSGAPAGQQEKLKKLADILVSLGLSE-TGPLW  603 (1088)
T ss_pred             HHhhhhhccCHHHHHHHHHHHHHhhhhh-cccce
Confidence            8888899999999999999999888865 34444

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

Probab=99.18  E-value=3.8e-08  Score=95.63  Aligned_cols=269  Identities=12%  Similarity=0.044  Sum_probs=207.6

Q ss_pred             CCHhHHHHHHHHHHHcCChHHHHHHHhhCCCCCcc---cHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHH
Q 009066           99 KNSVSWSAMISGYIECGQLDKAVELFKVAPVKSVV---AWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSL  175 (545)
Q Consensus        99 ~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~~---~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~  175 (545)
                      .++.+...-.+-+...+++.+..++++.+.+.|+.   .+..=|.++     ...|+..+-..+=.+|++.- +-...+|
T Consensus       242 ~~~dll~~~ad~~y~~c~f~~c~kit~~lle~dpfh~~~~~~~ia~l-----~el~~~n~Lf~lsh~LV~~y-P~~a~sW  315 (611)
T KOG1173|consen  242 ENLDLLAEKADRLYYGCRFKECLKITEELLEKDPFHLPCLPLHIACL-----YELGKSNKLFLLSHKLVDLY-PSKALSW  315 (611)
T ss_pred             hcHHHHHHHHHHHHHcChHHHHHHHhHHHHhhCCCCcchHHHHHHHH-----HHhcccchHHHHHHHHHHhC-CCCCcch
Confidence            35666667777888899999999999988766553   444556677     78888888777778888753 5567899


Q ss_pred             HHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccC---CChhhHHHHHHHHHHcC
Q 009066          176 SSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHG  252 (545)
Q Consensus       176 ~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g  252 (545)
                      -++.--|-..|...+|++.|....... +.-...|-...+.|+-.|.-|.|...+....+   ..-..+--+.--|.+.+
T Consensus       316 ~aVg~YYl~i~k~seARry~SKat~lD-~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~hlP~LYlgmey~~t~  394 (611)
T KOG1173|consen  316 FAVGCYYLMIGKYSEARRYFSKATTLD-PTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCHLPSLYLGMEYMRTN  394 (611)
T ss_pred             hhHHHHHHHhcCcHHHHHHHHHHhhcC-ccccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCcchHHHHHHHHHHhc
Confidence            999998888999999999999887654 23355788999999999999999988876543   11112223444677889


Q ss_pred             ChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHhHHhc-CCC----CCHHHHHHHHHHHhHcCCHH
Q 009066          253 KGEKALRLFDKMKDEGMKP-DSITFVALLLACNHAGLVDLGIQYFDSMVNDY-GIA----AKPDHYTCMVDLLGRAGKLV  326 (545)
Q Consensus       253 ~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~-~~~----~~~~~~~~li~~~~~~g~~~  326 (545)
                      +.+.|...|.+...  +.| |....+-+.-.....+.+.+|..+|+.....- .+.    .-..+++.|..+|.+.++++
T Consensus       395 n~kLAe~Ff~~A~a--i~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~  472 (611)
T KOG1173|consen  395 NLKLAEKFFKQALA--IAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYE  472 (611)
T ss_pred             cHHHHHHHHHHHHh--cCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHH
Confidence            99999999999876  445 44555555555556789999999998876210 111    13456889999999999999


Q ss_pred             HHHHHHHhC-C-CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCc
Q 009066          327 EAVDLIKKM-P-FKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA  376 (545)
Q Consensus       327 ~A~~~~~~m-~-~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~  376 (545)
                      +|+..+++. . ...|..++.++.-.|...|+++.|...|.+.+.+.|++..
T Consensus       473 eAI~~~q~aL~l~~k~~~~~asig~iy~llgnld~Aid~fhKaL~l~p~n~~  524 (611)
T KOG1173|consen  473 EAIDYYQKALLLSPKDASTHASIGYIYHLLGNLDKAIDHFHKALALKPDNIF  524 (611)
T ss_pred             HHHHHHHHHHHcCCCchhHHHHHHHHHHHhcChHHHHHHHHHHHhcCCccHH
Confidence            999999987 2 2347889999999999999999999999999999999964

>PRK12370 invasion protein regulator; Provisional

Probab=99.18  E-value=3.9e-09  Score=109.99  Aligned_cols=247  Identities=13%  Similarity=0.031  Sum_probs=174.7

Q ss_pred             CChHHHHHHHhhCCCCC---cccHHHHHHHhcchhh----hccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCc
Q 009066          115 GQLDKAVELFKVAPVKS---VVAWTAMISGYMKFGY----VENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSS  187 (545)
Q Consensus       115 g~~~~A~~~f~~~~~~~---~~~~~~li~~~~~~g~----~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~  187 (545)
                      +++++|...|++..+.|   ...|..+..++...+.    ...++.++|...+++..+.+ +-+...+..+..++...|+
T Consensus       275 ~~~~~A~~~~~~Al~ldP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ld-P~~~~a~~~lg~~~~~~g~  353 (553)
T PRK12370        275 YSLQQALKLLTQCVNMSPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELD-HNNPQALGLLGLINTIHSE  353 (553)
T ss_pred             HHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHccC
Confidence            34678899998876543   3455555554422110    23456899999999998864 3366777778788889999


Q ss_pred             HHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccC--CC-hhhHHHHHHHHHHcCChHHHHHHHHHH
Q 009066          188 LQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR--KD-VVTWNAMISGYAQHGKGEKALRLFDKM  264 (545)
Q Consensus       188 ~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~--~~-~~~~~~li~~~~~~g~~~~A~~~~~~m  264 (545)
                      +++|...++++++.+ +.+...+..+...|...|++++|...|++..+  |+ ...+..++..+...|++++|+..+++.
T Consensus       354 ~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~~~~~~~~~~~~~~~~g~~eeA~~~~~~~  432 (553)
T PRK12370        354 YIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINECLKLDPTRAAAGITKLWITYYHTGIDDAIRLGDEL  432 (553)
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCChhhHHHHHHHHHhccCHHHHHHHHHHH
Confidence            999999999999986 45567788899999999999999999999875  33 223344555677789999999999998


Q ss_pred             HHcCCCCC-HHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhHcCCHHHHHHHHHhC----CCC
Q 009066          265 KDEGMKPD-SITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAK-PDHYTCMVDLLGRAGKLVEAVDLIKKM----PFK  338 (545)
Q Consensus       265 ~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~  338 (545)
                      .... .|+ ...+..+..++...|+.++|...+.++...   .|+ ....+.+...|...|  ++|...++++    ...
T Consensus       433 l~~~-~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~---~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~~~~~  506 (553)
T PRK12370        433 RSQH-LQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ---EITGLIAVNLLYAEYCQNS--ERALPTIREFLESEQRI  506 (553)
T ss_pred             HHhc-cccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc---cchhHHHHHHHHHHHhccH--HHHHHHHHHHHHHhhHh
Confidence            7653 344 344566677888999999999999887643   343 444556666777777  4777766665    223


Q ss_pred             CCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCC
Q 009066          339 PQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNP  372 (545)
Q Consensus       339 p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p  372 (545)
                      |...-+  +-..+.-+|+.+.+... +++.+.+.
T Consensus       507 ~~~~~~--~~~~~~~~g~~~~~~~~-~~~~~~~~  537 (553)
T PRK12370        507 DNNPGL--LPLVLVAHGEAIAEKMW-NKFKNEDN  537 (553)
T ss_pred             hcCchH--HHHHHHHHhhhHHHHHH-HHhhccch
Confidence            433334  44456677777777766 77766543

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.12  E-value=8.5e-09  Score=102.80  Aligned_cols=231  Identities=14%  Similarity=0.111  Sum_probs=174.0

Q ss_pred             cHHHHHHHhcchhhhccCChHHHHHHHHHHHhC-----C-CCCCHHHH-HHHHHHHhccCcHHHHHHHHHHHHhC-----
Q 009066          134 AWTAMISGYMKFGYVENSWAEDGLKLLRMMIGL-----G-IRPNASSL-SSVLLGCSHLSSLQLGKQVHQLVFKS-----  201 (545)
Q Consensus       134 ~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~-----~-~~pd~~t~-~~ll~~~~~~~~~~~a~~~~~~~~~~-----  201 (545)
                      +...+...|     ...|++++|+.++++.++.     | ..|...+. +.+...|...+.+++|..+|+.++..     
T Consensus       201 ~~~~La~~y-----~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~  275 (508)
T KOG1840|consen  201 TLRNLAEMY-----AVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVF  275 (508)
T ss_pred             HHHHHHHHH-----HHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhc
Confidence            344477788     8999999999999887653     2 13444433 33667788999999999999998763     


Q ss_pred             CC--CCCcccHHHHHHHHHhcCCHHHHHHHHHhccC----------CCh-hhHHHHHHHHHHcCChHHHHHHHHHHHHc-
Q 009066          202 PL--CKDTTALTPLISMYCKCGDLEDACKLFLEIQR----------KDV-VTWNAMISGYAQHGKGEKALRLFDKMKDE-  267 (545)
Q Consensus       202 g~--~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~----------~~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~-  267 (545)
                      |-  +.-..+++.|...|.+.|++++|...+++..+          +.+ ..++.++..+...+++++|..+++...+. 
T Consensus       276 G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~  355 (508)
T KOG1840|consen  276 GEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIY  355 (508)
T ss_pred             CCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHH
Confidence            31  11234566677789999999999888877642          222 24667778888999999999999886542 


Q ss_pred             --CCCCCH----HHHHHHHHHHHccCcHHHHHHHHHHhHHhc---CC--CC-CHHHHHHHHHHHhHcCCHHHHHHHHHhC
Q 009066          268 --GMKPDS----ITFVALLLACNHAGLVDLGIQYFDSMVNDY---GI--AA-KPDHYTCMVDLLGRAGKLVEAVDLIKKM  335 (545)
Q Consensus       268 --g~~p~~----~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~---~~--~~-~~~~~~~li~~~~~~g~~~~A~~~~~~m  335 (545)
                        -+.++.    .++..+...+.+.|++++|.++|++++...   +.  .+ ...+++.|...|.+.+++++|.++|.+.
T Consensus       356 ~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~  435 (508)
T KOG1840|consen  356 LDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEA  435 (508)
T ss_pred             HhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHH
Confidence              233343    478889999999999999999999887642   11  22 2456788999999999999999888765


Q ss_pred             --------CCCCCH-hHHHHHHHHHHhcCCHHHHHHHHHHHhc
Q 009066          336 --------PFKPQP-AIFGTLLSACRVHKRLDLAEFAAMNLFN  369 (545)
Q Consensus       336 --------~~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~  369 (545)
                              +..|++ .+|..|...|...|+++.|+++.+++..
T Consensus       436 ~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~  478 (508)
T KOG1840|consen  436 KDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVLN  478 (508)
T ss_pred             HHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence                    344555 6899999999999999999999988863

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.12  E-value=1.6e-08  Score=96.60  Aligned_cols=211  Identities=14%  Similarity=0.050  Sum_probs=130.8

Q ss_pred             CcHHHHHHHHHHHHhCC-CCC--CcccHHHHHHHHHhcCCHHHHHHHHHhccC---CChhhHHHHHHHHHHcCChHHHHH
Q 009066          186 SSLQLGKQVHQLVFKSP-LCK--DTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALR  259 (545)
Q Consensus       186 ~~~~~a~~~~~~~~~~g-~~~--~~~~~~~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~  259 (545)
                      +..+.+..-+.+++... ..|  ....+..+...|.+.|+.++|...|++..+   .+...|+.+...|...|++++|+.
T Consensus        40 ~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~~~~~g~~~~A~~  119 (296)
T PRK11189         40 LQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRPDMADAYNYLGIYLTQAGNFDAAYE  119 (296)
T ss_pred             hHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            34555566666666432 112  134566677778888888888888877654   356778888888888888888888


Q ss_pred             HHHHHHHcCCCCC-HHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC--C
Q 009066          260 LFDKMKDEGMKPD-SITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM--P  336 (545)
Q Consensus       260 ~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m--~  336 (545)
                      .|++..+.  .|+ ..++..+..++...|++++|.+.|+...+.   .|+..........+...++.++|...|.+.  .
T Consensus       120 ~~~~Al~l--~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~---~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~  194 (296)
T PRK11189        120 AFDSVLEL--DPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQD---DPNDPYRALWLYLAESKLDPKQAKENLKQRYEK  194 (296)
T ss_pred             HHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHccCCHHHHHHHHHHHHhh
Confidence            88888764  343 456666667777788888888888777653   343322222222334567788888888654  2


Q ss_pred             CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHh-------cCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhhCC
Q 009066          337 FKPQPAIFGTLLSACRVHKRLDLAEFAAMNLF-------NLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENN  406 (545)
Q Consensus       337 ~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~-------~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  406 (545)
                      ..|+...|   .......|+...+ ..++.+.       ++.|+... +|..|+.++.+.|++++|...|++..+.+
T Consensus       195 ~~~~~~~~---~~~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~e-a~~~Lg~~~~~~g~~~~A~~~~~~Al~~~  266 (296)
T PRK11189        195 LDKEQWGW---NIVEFYLGKISEE-TLMERLKAGATDNTELAERLCE-TYFYLAKYYLSLGDLDEAAALFKLALANN  266 (296)
T ss_pred             CCccccHH---HHHHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHH-HHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            22332222   1222234444333 2333332       33445555 78888888888888888888888877654

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.11  E-value=5.2e-08  Score=93.09  Aligned_cols=230  Identities=12%  Similarity=-0.033  Sum_probs=162.8

Q ss_pred             hccCChHHHHHHHHHHHhCC-CCCC--HHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHH
Q 009066          148 VENSWAEDGLKLLRMMIGLG-IRPN--ASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLE  224 (545)
Q Consensus       148 ~~~g~~~~A~~~~~~m~~~~-~~pd--~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~  224 (545)
                      ...+..+.++.-+.+++... ..|+  ...|......+...|+.++|...|...++.. +.+...|+.+...|...|+++
T Consensus        37 ~~~~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~  115 (296)
T PRK11189         37 QPTLQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFD  115 (296)
T ss_pred             CCchHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHH
Confidence            34456678888888888542 2332  3457777778899999999999999999875 456788999999999999999


Q ss_pred             HHHHHHHhccC--C-ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHH
Q 009066          225 DACKLFLEIQR--K-DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVN  301 (545)
Q Consensus       225 ~A~~~f~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~  301 (545)
                      +|...|++..+  | +..+|..+...+...|++++|++.|++..+.  .|+..........+...++.++|...+.....
T Consensus       116 ~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~--~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~  193 (296)
T PRK11189        116 AAYEAFDSVLELDPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQD--DPNDPYRALWLYLAESKLDPKQAKENLKQRYE  193 (296)
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHccCCHHHHHHHHHHHHh
Confidence            99999999864  3 5678888999999999999999999999875  45443222222334567789999999977654


Q ss_pred             hcCCCCCHHHHHHHHHHHhHcCCH--HHHHHHHHhC-CC----CC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCC
Q 009066          302 DYGIAAKPDHYTCMVDLLGRAGKL--VEAVDLIKKM-PF----KP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPA  373 (545)
Q Consensus       302 ~~~~~~~~~~~~~li~~~~~~g~~--~~A~~~~~~m-~~----~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~  373 (545)
                        ...|+... ..++..+  .|++  +++.+.+.+. ..    .| ....|..+...+.+.|++++|+..|+++++.+|.
T Consensus       194 --~~~~~~~~-~~~~~~~--lg~~~~~~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~~  268 (296)
T PRK11189        194 --KLDKEQWG-WNIVEFY--LGKISEETLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNVY  268 (296)
T ss_pred             --hCCccccH-HHHHHHH--ccCCCHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCc
Confidence              22333322 2333333  4444  3333333322 11    12 2357999999999999999999999999999985


Q ss_pred             CCchhHHHHHHH
Q 009066          374 NAAGCYVQLANI  385 (545)
Q Consensus       374 ~~~~~~~~l~~~  385 (545)
                      +....-..++..
T Consensus       269 ~~~e~~~~~~e~  280 (296)
T PRK11189        269 NFVEHRYALLEL  280 (296)
T ss_pred             hHHHHHHHHHHH
Confidence            543133334443

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

Probab=99.10  E-value=6e-09  Score=94.23  Aligned_cols=226  Identities=16%  Similarity=0.134  Sum_probs=140.5

Q ss_pred             HHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHH
Q 009066          137 AMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISM  216 (545)
Q Consensus       137 ~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~  216 (545)
                      -|..+|     .+.|.+.+|.+.|+.-+..  .|-+.||..+-.+|.+..++..|..++.+-++. ++.|+....-+...
T Consensus       228 Q~gkCy-----lrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~-fP~~VT~l~g~ARi  299 (478)
T KOG1129|consen  228 QMGKCY-----LRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS-FPFDVTYLLGQARI  299 (478)
T ss_pred             HHHHHH-----HHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc-CCchhhhhhhhHHH
Confidence            455566     6666666777666666654  344556666666666666666666666665554 23344444445555


Q ss_pred             HHhcCCHHHHHHHHHhccC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHH
Q 009066          217 YCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGI  293 (545)
Q Consensus       217 y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~  293 (545)
                      +-..++.++|.++|+...+   .++.+..++..+|.-.++++-|+.+|++++..|+. +...|..+.-+|...+++|-++
T Consensus       300 ~eam~~~~~a~~lYk~vlk~~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L  378 (478)
T KOG1129|consen  300 HEAMEQQEDALQLYKLVLKLHPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVL  378 (478)
T ss_pred             HHHHHhHHHHHHHHHHHHhcCCccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhH
Confidence            5555666666666665543   24444445555555566666666666666665544 4444555555555555555555


Q ss_pred             HHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhCCCCCC--HhHHHHHHHHHHhcCCHHHHHHHHHHHhcCC
Q 009066          294 QYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQ--PAIFGTLLSACRVHKRLDLAEFAAMNLFNLN  371 (545)
Q Consensus       294 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~  371 (545)
                      ..|++...-                                 -.+|+  ..+|..|.......||+..|.+.|+-.+..+
T Consensus       379 ~sf~RAlst---------------------------------at~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d  425 (478)
T KOG1129|consen  379 PSFQRALST---------------------------------ATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSD  425 (478)
T ss_pred             HHHHHHHhh---------------------------------ccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccC
Confidence            544443321                                 01122  2467777777777888888888888888888


Q ss_pred             CCCCchhHHHHHHHHHHcCCchHHHHHHHHhhhC
Q 009066          372 PANAAGCYVQLANIYAAMKKWDDVARIRLSMKEN  405 (545)
Q Consensus       372 p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  405 (545)
                      |++.. +++.|+-.-.+.|++++|+.++...++.
T Consensus       426 ~~h~e-alnNLavL~~r~G~i~~Arsll~~A~s~  458 (478)
T KOG1129|consen  426 AQHGE-ALNNLAVLAARSGDILGARSLLNAAKSV  458 (478)
T ss_pred             cchHH-HHHhHHHHHhhcCchHHHHHHHHHhhhh
Confidence            88877 8888888888888888888888877654

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

Probab=99.09  E-value=1.4e-07  Score=90.04  Aligned_cols=334  Identities=13%  Similarity=0.044  Sum_probs=214.1

Q ss_pred             HHHHHcCCCCHHHHHHHHhcCC--CCC-eehHHHHHHHHHhCCCHHHHHHHHhhCCcCCHh---HHHHHHHHHHHcCChH
Q 009066           45 LSCILLNSDDVVAAFDFFQRLP--IKD-TASWNTMISGFVQKKNMAKARDLFLAMPEKNSV---SWSAMISGYIECGQLD  118 (545)
Q Consensus        45 i~~~~~~~g~~~~A~~~~~~m~--~~d-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~---~~~~li~~~~~~g~~~  118 (545)
                      -.-|.++ |.+++|++.|.+..  .|| +.-|.....+|...|++++..+--...++-++.   ++.--..++-..|+++
T Consensus       122 GN~~f~~-kkY~eAIkyY~~AI~l~p~epiFYsNraAcY~~lgd~~~Vied~TkALEl~P~Y~KAl~RRA~A~E~lg~~~  200 (606)
T KOG0547|consen  122 GNKFFRN-KKYDEAIKYYTQAIELCPDEPIFYSNRAACYESLGDWEKVIEDCTKALELNPDYVKALLRRASAHEQLGKFD  200 (606)
T ss_pred             hhhhhhc-ccHHHHHHHHHHHHhcCCCCchhhhhHHHHHHHHhhHHHHHHHHHHHhhcCcHHHHHHHHHHHHHHhhccHH
Confidence            3456777 89999999999877  666 778888999999999999998887777765443   4555556777888888


Q ss_pred             HHHHHHhhCCCCCcccHHHHHHHhcchhhhccCChHHHHHHHH--------HHHh-CC--CCCCHHHHHHHHHHHhccCc
Q 009066          119 KAVELFKVAPVKSVVAWTAMISGYMKFGYVENSWAEDGLKLLR--------MMIG-LG--IRPNASSLSSVLLGCSHLSS  187 (545)
Q Consensus       119 ~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~--------~m~~-~~--~~pd~~t~~~ll~~~~~~~~  187 (545)
                      +|..=         +|-.++..++     ..+.-.--+.++++        +-.+ .+  +-|......+....+...-.
T Consensus       201 eal~D---------~tv~ci~~~F-----~n~s~~~~~eR~Lkk~a~~ka~e~~k~nr~p~lPS~~fi~syf~sF~~~~~  266 (606)
T KOG0547|consen  201 EALFD---------VTVLCILEGF-----QNASIEPMAERVLKKQAMKKAKEKLKENRPPVLPSATFIASYFGSFHADPK  266 (606)
T ss_pred             HHHHh---------hhHHHHhhhc-----ccchhHHHHHHHHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHhhcccccc
Confidence            87632         2223333333     22222222222222        2122 11  34555444444443321000


Q ss_pred             HHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhc-CCHHHHHHHHHhcc-------CCC---------hhhHHHHHHHHHH
Q 009066          188 LQLGKQVHQLVFKSPLCKDTTALTPLISMYCKC-GDLEDACKLFLEIQ-------RKD---------VVTWNAMISGYAQ  250 (545)
Q Consensus       188 ~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~-g~~~~A~~~f~~~~-------~~~---------~~~~~~li~~~~~  250 (545)
                              ..+...+...|...-..+=..|... ..+..|...+.+-.       ..+         ..+.+.-..-+.-
T Consensus       267 --------~~~~~~~~ksDa~l~~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~al~~~gtF~fL  338 (606)
T KOG0547|consen  267 --------PLFDNKSDKSDAALAEALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAELEYMAEALLLRGTFHFL  338 (606)
T ss_pred             --------ccccCCCccchhhHHHHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhHHHHHHHHHHhhhhhhh
Confidence                    0000000011111111111111111 12333333332211       111         1122222223445


Q ss_pred             cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHH
Q 009066          251 HGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVD  330 (545)
Q Consensus       251 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  330 (545)
                      .|+.-.|...|+..+.....++.. |.-+..+|....+.++..+.|+...+  --+-++.+|-.-.+++.-.+++++|..
T Consensus       339 ~g~~~~a~~d~~~~I~l~~~~~~l-yI~~a~~y~d~~~~~~~~~~F~~A~~--ldp~n~dvYyHRgQm~flL~q~e~A~a  415 (606)
T KOG0547|consen  339 KGDSLGAQEDFDAAIKLDPAFNSL-YIKRAAAYADENQSEKMWKDFNKAED--LDPENPDVYYHRGQMRFLLQQYEEAIA  415 (606)
T ss_pred             cCCchhhhhhHHHHHhcCcccchH-HHHHHHHHhhhhccHHHHHHHHHHHh--cCCCCCchhHhHHHHHHHHHHHHHHHH
Confidence            788999999999999865554443 66677789999999999999988875  335567888888899999999999999


Q ss_pred             HHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhhC
Q 009066          331 LIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKEN  405 (545)
Q Consensus       331 ~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  405 (545)
                      =|++. .+.| +...|-.+.-+.-+.+.+++++..|++..+.-|+.+. .|+..+.++...+++++|.+.|+...+.
T Consensus       416 DF~Kai~L~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkkFP~~~E-vy~~fAeiLtDqqqFd~A~k~YD~ai~L  491 (606)
T KOG0547|consen  416 DFQKAISLDPENAYAYIQLCCALYRQHKIAESMKTFEEAKKKFPNCPE-VYNLFAEILTDQQQFDKAVKQYDKAIEL  491 (606)
T ss_pred             HHHHHhhcChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCch-HHHHHHHHHhhHHhHHHHHHHHHHHHhh
Confidence            99988 5556 4466777777777888999999999999999999998 9999999999999999999999987653

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.08  E-value=1.2e-06  Score=85.82  Aligned_cols=377  Identities=12%  Similarity=0.129  Sum_probs=226.4

Q ss_pred             HHHHHHhCCCChHHHHHHHccCCC--C-ChhhHHHHHHHHHcCCCCHHHHHHHHhcCCCCCeehHHH--HHHHH--HhCC
Q 009066           12 VLAGFAKQRGKLKDAQELFDKIPQ--P-DVVSYNIMLSCILLNSDDVVAAFDFFQRLPIKDTASWNT--MISGF--VQKK   84 (545)
Q Consensus        12 li~~~~~~g~~~~~A~~~f~~~~~--~-~~~~~~~li~~~~~~~g~~~~A~~~~~~m~~~d~~~~~~--li~~~--~~~g   84 (545)
                      =++.+.+.|. +++|.+...++..  | |...+..=+-+..+. +.+++|+.+.+.-...+  +++.  +=.+|  .+.+
T Consensus        18 ~ln~~~~~~e-~e~a~k~~~Kil~~~pdd~~a~~cKvValIq~-~ky~~ALk~ikk~~~~~--~~~~~~fEKAYc~Yrln   93 (652)
T KOG2376|consen   18 DLNRHGKNGE-YEEAVKTANKILSIVPDDEDAIRCKVVALIQL-DKYEDALKLIKKNGALL--VINSFFFEKAYCEYRLN   93 (652)
T ss_pred             HHHHhccchH-HHHHHHHHHHHHhcCCCcHhhHhhhHhhhhhh-hHHHHHHHHHHhcchhh--hcchhhHHHHHHHHHcc
Confidence            3567777888 9999988887762  3 334455555567788 89999997765543111  1111  23344  3678


Q ss_pred             CHHHHHHHHhhCCcCCHhHHHHHHHHHHHcCChHHHHHHHhhCCCCCc-------------------------------c
Q 009066           85 NMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAPVKSV-------------------------------V  133 (545)
Q Consensus        85 ~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~-------------------------------~  133 (545)
                      ..++|+..+.-....+..+...-...+.+.|++++|.++|+.+...+.                               .
T Consensus        94 k~Dealk~~~~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l~~~~~q~v~~v~e~  173 (652)
T KOG2376|consen   94 KLDEALKTLKGLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAALQVQLLQSVPEVPED  173 (652)
T ss_pred             cHHHHHHHHhcccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhhhHHHHHhccCCCcc
Confidence            888998888855455555666666778888889999888876532211                               1


Q ss_pred             cHHHHHHHhcchhhhccCChHHHHHHHHHHHhCC--------CC-----CCHH-HHHHHHHHHhccCcHHHHHHHHHHHH
Q 009066          134 AWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLG--------IR-----PNAS-SLSSVLLGCSHLSSLQLGKQVHQLVF  199 (545)
Q Consensus       134 ~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~--------~~-----pd~~-t~~~ll~~~~~~~~~~~a~~~~~~~~  199 (545)
                      +|..+-...+.  ++..|++.+|++++....+.+        ..     -+.. .-.-+.-++-..|+.++|.+++...+
T Consensus       174 syel~yN~Ac~--~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy~~~i  251 (652)
T KOG2376|consen  174 SYELLYNTACI--LIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSIYVDII  251 (652)
T ss_pred             hHHHHHHHHHH--HHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHH
Confidence            23222211100  278899999999998882211        01     0001 11122334567899999999999988


Q ss_pred             hCCCCCCcc----cHHHHHHHHHhc---------------------------------------------CCHHHHHHHH
Q 009066          200 KSPLCKDTT----ALTPLISMYCKC---------------------------------------------GDLEDACKLF  230 (545)
Q Consensus       200 ~~g~~~~~~----~~~~li~~y~~~---------------------------------------------g~~~~A~~~f  230 (545)
                      +... +|..    ..|.|+.+-...                                             +..+.+.++-
T Consensus       252 ~~~~-~D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~tnk~~q~r~~~  330 (652)
T KOG2376|consen  252 KRNP-ADEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALFTNKMDQVRELS  330 (652)
T ss_pred             HhcC-CCchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHH
Confidence            8763 3321    112222211110                                             1111111111


Q ss_pred             HhccCCC-hhhHHHHHHHH--HHcCChHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHHccCcHHHHHHHHH--------
Q 009066          231 LEIQRKD-VVTWNAMISGY--AQHGKGEKALRLFDKMKDEGMKPDS--ITFVALLLACNHAGLVDLGIQYFD--------  297 (545)
Q Consensus       231 ~~~~~~~-~~~~~~li~~~--~~~g~~~~A~~~~~~m~~~g~~p~~--~t~~~ll~a~~~~g~~~~a~~~~~--------  297 (545)
                      ...+... ...+.+++...  .+...+.+|.+++...-+.  .|..  ......+......|+++.|.+++.        
T Consensus       331 a~lp~~~p~~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~--~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~~~~s  408 (652)
T KOG2376|consen  331 ASLPGMSPESLFPILLQEATKVREKKHKKAIELLLQFADG--HPEKSKVVLLLRAQLKISQGNPEVALEILSLFLESWKS  408 (652)
T ss_pred             HhCCccCchHHHHHHHHHHHHHHHHHHhhhHHHHHHHhcc--CCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhhh
Confidence            1111111 12233333322  2222466777777766553  3333  344455667778999999999998        


Q ss_pred             HhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC--------CCCCCH-hHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 009066          298 SMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM--------PFKPQP-AIFGTLLSACRVHKRLDLAEFAAMNLF  368 (545)
Q Consensus       298 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m--------~~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~~~  368 (545)
                      .+.+   +.-.+.+..+++.+|.+.++.+.|..++.+.        ...+.. .+|.-+...-.++|+-++|..+++++.
T Consensus       409 s~~~---~~~~P~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~leel~  485 (652)
T KOG2376|consen  409 SILE---AKHLPGTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSLLEELV  485 (652)
T ss_pred             hhhh---hccChhHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHHHHHHH
Confidence            4432   3344566678889999988877777666554        222222 344444455567899999999999999


Q ss_pred             cCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHh
Q 009066          369 NLNPANAAGCYVQLANIYAAMKKWDDVARIRLSM  402 (545)
Q Consensus       369 ~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  402 (545)
                      +.+|++.. +...++.+|++. +.+.|..+-+.+
T Consensus       486 k~n~~d~~-~l~~lV~a~~~~-d~eka~~l~k~L  517 (652)
T KOG2376|consen  486 KFNPNDTD-LLVQLVTAYARL-DPEKAESLSKKL  517 (652)
T ss_pred             HhCCchHH-HHHHHHHHHHhc-CHHHHHHHhhcC
Confidence            99999988 999999999887 466666654433

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

Probab=99.06  E-value=7.4e-09  Score=93.64  Aligned_cols=196  Identities=13%  Similarity=0.116  Sum_probs=164.5

Q ss_pred             CcccHHHHHHHHHhcCCHHHHHHHHHhccC--CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHH-HHHHH
Q 009066          206 DTTALTPLISMYCKCGDLEDACKLFLEIQR--KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFV-ALLLA  282 (545)
Q Consensus       206 ~~~~~~~li~~y~~~g~~~~A~~~f~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~-~ll~a  282 (545)
                      |-.--+.+...|.+.|.+.+|++.|+...+  +-+.+|-.+-..|.+..++..|+.+|.+-++  ..|-.+||. .....
T Consensus       222 dwwWk~Q~gkCylrLgm~r~AekqlqssL~q~~~~dTfllLskvY~ridQP~~AL~~~~~gld--~fP~~VT~l~g~ARi  299 (478)
T KOG1129|consen  222 DWWWKQQMGKCYLRLGMPRRAEKQLQSSLTQFPHPDTFLLLSKVYQRIDQPERALLVIGEGLD--SFPFDVTYLLGQARI  299 (478)
T ss_pred             hHHHHHHHHHHHHHhcChhhhHHHHHHHhhcCCchhHHHHHHHHHHHhccHHHHHHHHhhhhh--cCCchhhhhhhhHHH
Confidence            333346789999999999999999998764  6888999999999999999999999999887  467777775 45577


Q ss_pred             HHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC---CCCCCHhHHHHHHHHHHhcCCHHH
Q 009066          283 CNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM---PFKPQPAIFGTLLSACRVHKRLDL  359 (545)
Q Consensus       283 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m---~~~p~~~~~~~li~~~~~~g~~~~  359 (545)
                      +...++.++|.++++...+  ..+.+++...++...|.-.++.|-|+.+|+++   +. -+...|..+.-.|.-.++++.
T Consensus       300 ~eam~~~~~a~~lYk~vlk--~~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~-~speLf~NigLCC~yaqQ~D~  376 (478)
T KOG1129|consen  300 HEAMEQQEDALQLYKLVLK--LHPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGA-QSPELFCNIGLCCLYAQQIDL  376 (478)
T ss_pred             HHHHHhHHHHHHHHHHHHh--cCCccceeeeeeeeccccCCChHHHHHHHHHHHHhcC-CChHHHhhHHHHHHhhcchhh
Confidence            8888999999999999887  34667888889999999999999999999876   54 477889998888999999999


Q ss_pred             HHHHHHHHhcC--CCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhhCC
Q 009066          360 AEFAAMNLFNL--NPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENN  406 (545)
Q Consensus       360 A~~~~~~~~~~--~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  406 (545)
                      ++..|++++..  +|+.....|..|..+....|++.-|.+.|+.....+
T Consensus       377 ~L~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d  425 (478)
T KOG1129|consen  377 VLPSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSD  425 (478)
T ss_pred             hHHHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccC
Confidence            99999998764  344433389999999999999999999998776543

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.02  E-value=1.7e-06  Score=87.42  Aligned_cols=247  Identities=14%  Similarity=0.075  Sum_probs=162.2

Q ss_pred             HHHHHHHHHHHhCC-CCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHh
Q 009066          154 EDGLKLLRMMIGLG-IRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLE  232 (545)
Q Consensus       154 ~~A~~~~~~m~~~~-~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~  232 (545)
                      .++++.+++.++.+ -.|+...|.++  -|+..++++.|.+..++.++.+-..+...|.-|.-.+.-.+++.+|+.+.+.
T Consensus       461 ~kslqale~av~~d~~dp~~if~lal--q~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~  538 (799)
T KOG4162|consen  461 KKSLQALEEAVQFDPTDPLVIFYLAL--QYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDA  538 (799)
T ss_pred             HHHHHHHHHHHhcCCCCchHHHHHHH--HHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHH
Confidence            45666666666543 23333333332  3556667777777777777775566677777777777777777777777665


Q ss_pred             ccCC--C---------------------hhhHHHHHHHHH-----------------------HcCChHHHHHHHHHHHH
Q 009066          233 IQRK--D---------------------VVTWNAMISGYA-----------------------QHGKGEKALRLFDKMKD  266 (545)
Q Consensus       233 ~~~~--~---------------------~~~~~~li~~~~-----------------------~~g~~~~A~~~~~~m~~  266 (545)
                      ....  +                     ..+...++..+-                       ..++..+|....+.+..
T Consensus       539 al~E~~~N~~l~~~~~~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~  618 (799)
T KOG4162|consen  539 ALEEFGDNHVLMDGKIHIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSS  618 (799)
T ss_pred             HHHHhhhhhhhchhhhhhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHH
Confidence            4321  0                     111111111111                       01112222222222110


Q ss_pred             --------cC---------C--CCCH------HHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhH
Q 009066          267 --------EG---------M--KPDS------ITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGR  321 (545)
Q Consensus       267 --------~g---------~--~p~~------~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~  321 (545)
                              .|         +  .|+.      ..+......+...+..++|...+.+..+  ..+-....|......+..
T Consensus       619 l~a~~~~~~~se~~Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~--~~~l~~~~~~~~G~~~~~  696 (799)
T KOG4162|consen  619 LVASQLKSAGSELKLPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASK--IDPLSASVYYLRGLLLEV  696 (799)
T ss_pred             HHHhhhhhcccccccCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHh--cchhhHHHHHHhhHHHHH
Confidence                    01         0  1221      1233444566777888888877777764  345567778888889999


Q ss_pred             cCCHHHHHHHHHhC-CCCCC-HhHHHHHHHHHHhcCCHHHHHH--HHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHH
Q 009066          322 AGKLVEAVDLIKKM-PFKPQ-PAIFGTLLSACRVHKRLDLAEF--AAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVAR  397 (545)
Q Consensus       322 ~g~~~~A~~~~~~m-~~~p~-~~~~~~li~~~~~~g~~~~A~~--~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~  397 (545)
                      .|..++|.+.|... -+.|+ +.+..++...+...|+...|..  ++..+++++|.+.. .|..|+.++-+.|+.++|..
T Consensus       697 ~~~~~EA~~af~~Al~ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~n~e-aW~~LG~v~k~~Gd~~~Aae  775 (799)
T KOG4162|consen  697 KGQLEEAKEAFLVALALDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPLNHE-AWYYLGEVFKKLGDSKQAAE  775 (799)
T ss_pred             HHhhHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCCCHH-HHHHHHHHHHHccchHHHHH
Confidence            99999999988776 56675 5788999999999999999988  99999999999999 99999999999999999999


Q ss_pred             HHHHhhhC
Q 009066          398 IRLSMKEN  405 (545)
Q Consensus       398 ~~~~m~~~  405 (545)
                      .|....+.
T Consensus       776 cf~aa~qL  783 (799)
T KOG4162|consen  776 CFQAALQL  783 (799)
T ss_pred             HHHHHHhh
Confidence            99987653

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

Probab=99.01  E-value=2.2e-06  Score=80.38  Aligned_cols=261  Identities=8%  Similarity=-0.061  Sum_probs=133.8

Q ss_pred             CcccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHH-HHHHHHHhccCcHHHHHHHHHHHHhCCCCCCccc
Q 009066          131 SVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSL-SSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTA  209 (545)
Q Consensus       131 ~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~-~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~  209 (545)
                      |+.....+...+     ...|+.++|+..|.+.+..  .|+..+- -.-.-.+...|+++....+...+.... ......
T Consensus       231 NvhLl~~lak~~-----~~~Gdn~~a~~~Fe~~~~~--dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~  302 (564)
T KOG1174|consen  231 NEHLMMALGKCL-----YYNGDYFQAEDIFSSTLCA--NPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASH  302 (564)
T ss_pred             cHHHHHHHhhhh-----hhhcCchHHHHHHHHHhhC--ChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhh
Confidence            445555555666     6666666666666665532  2322210 011111234455555555444443321 011111


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhccCC---ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHcc
Q 009066          210 LTPLISMYCKCGDLEDACKLFLEIQRK---DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHA  286 (545)
Q Consensus       210 ~~~li~~y~~~g~~~~A~~~f~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~  286 (545)
                      |-.-........+++.|..+-++..+.   ++..+-.-...+.+.|+.++|.-.|+..+... +-+...|..|+..|...
T Consensus       303 wfV~~~~l~~~K~~~rAL~~~eK~I~~~~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~La-p~rL~~Y~GL~hsYLA~  381 (564)
T KOG1174|consen  303 WFVHAQLLYDEKKFERALNFVEKCIDSEPRNHEALILKGRLLIALERHTQAVIAFRTAQMLA-PYRLEIYRGLFHSYLAQ  381 (564)
T ss_pred             hhhhhhhhhhhhhHHHHHHHHHHHhccCcccchHHHhccHHHHhccchHHHHHHHHHHHhcc-hhhHHHHHHHHHHHHhh
Confidence            111122233345566666665555443   23333333345556666666666666665421 12445666666666666


Q ss_pred             CcHHHHHHHHHHhHHhcCCCCCHHHHHHHH-HHHhH-cCCHHHHHHHHHhC-CCCCCH-hHHHHHHHHHHhcCCHHHHHH
Q 009066          287 GLVDLGIQYFDSMVNDYGIAAKPDHYTCMV-DLLGR-AGKLVEAVDLIKKM-PFKPQP-AIFGTLLSACRVHKRLDLAEF  362 (545)
Q Consensus       287 g~~~~a~~~~~~~~~~~~~~~~~~~~~~li-~~~~~-~g~~~~A~~~~~~m-~~~p~~-~~~~~li~~~~~~g~~~~A~~  362 (545)
                      |.+.+|.-.-+...+  -++.+..+.+.+. ..+.- ..--++|.+++++. .++|+- ...+.+...|...|..+.++.
T Consensus       382 ~~~kEA~~~An~~~~--~~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~  459 (564)
T KOG1174|consen  382 KRFKEANALANWTIR--LFQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKINPIYTPAVNLIAELCQVEGPTKDIIK  459 (564)
T ss_pred             chHHHHHHHHHHHHH--HhhcchhhhhhhcceeeccCchhHHHHHHHHHhhhccCCccHHHHHHHHHHHHhhCccchHHH
Confidence            666666655555444  2334444443331 22211 12235566666654 445543 344555556666677777777


Q ss_pred             HHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhh
Q 009066          363 AAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       363 ~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  404 (545)
                      ++++.+...|+..  .++.|+..+...+.+.+|+..|.....
T Consensus       460 LLe~~L~~~~D~~--LH~~Lgd~~~A~Ne~Q~am~~y~~ALr  499 (564)
T KOG1174|consen  460 LLEKHLIIFPDVN--LHNHLGDIMRAQNEPQKAMEYYYKALR  499 (564)
T ss_pred             HHHHHHhhccccH--HHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            7777777666665  566777777777777777766665543

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

Probab=98.98  E-value=1.1e-08  Score=99.56  Aligned_cols=219  Identities=14%  Similarity=0.102  Sum_probs=175.6

Q ss_pred             HhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccC---CChhhHHHHHHHHHHcCChHHHH
Q 009066          182 CSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKAL  258 (545)
Q Consensus       182 ~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~  258 (545)
                      +.+.|++.+|.-.|+..++.. |.+...|.-|.......++-..|+..+.+..+   .|....-+|.-.|...|.-.+|+
T Consensus       295 lm~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~NleaLmaLAVSytNeg~q~~Al  373 (579)
T KOG1125|consen  295 LMKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELDPTNLEALMALAVSYTNEGLQNQAL  373 (579)
T ss_pred             HHhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhHHHHH
Confidence            356788888988898888876 56788898899999988888888888888775   36677778888899999999999


Q ss_pred             HHHHHHHHcCCC--------CCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHH
Q 009066          259 RLFDKMKDEGMK--------PDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVD  330 (545)
Q Consensus       259 ~~~~~m~~~g~~--------p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  330 (545)
                      ..++.-+...++        ++..+-..  ........+....++|-.+....+..+|+.++.+|.-.|.-.|.+++|.+
T Consensus       374 ~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiD  451 (579)
T KOG1125|consen  374 KMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVD  451 (579)
T ss_pred             HHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHH
Confidence            999988664211        01000000  11222334455667777777665666899999999999999999999999


Q ss_pred             HHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhh
Q 009066          331 LIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       331 ~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  404 (545)
                      .|+.. ..+| |..+||-|...++...+.++|+..|.+++++.|+... +...|+-.|...|.+++|.+.|-....
T Consensus       452 cf~~AL~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR-~RyNlgIS~mNlG~ykEA~~hlL~AL~  526 (579)
T KOG1125|consen  452 CFEAALQVKPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVR-VRYNLGISCMNLGAYKEAVKHLLEALS  526 (579)
T ss_pred             HHHHHHhcCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeee-eehhhhhhhhhhhhHHHHHHHHHHHHH
Confidence            99987 6677 5689999999999999999999999999999999988 999999999999999999998876654

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

Probab=98.96  E-value=3.4e-06  Score=83.45  Aligned_cols=363  Identities=10%  Similarity=0.128  Sum_probs=241.1

Q ss_pred             hHHHHHHHccCCCCChhhHHHHHHHHHcCCCCHHHHHHHHhcCC-----CCCeehHHHHHHHHHhCCCHHHHHHHHhhCC
Q 009066           23 LKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQRLP-----IKDTASWNTMISGFVQKKNMAKARDLFLAMP   97 (545)
Q Consensus        23 ~~~A~~~f~~~~~~~~~~~~~li~~~~~~~g~~~~A~~~~~~m~-----~~d~~~~~~li~~~~~~g~~~~a~~~~~~~~   97 (545)
                      ++.+.....+||    ..|-.-+.....+ |++..-+..|++..     ......|...+......+-.+-+..+|++.+
T Consensus        91 ~er~lv~mHkmp----RIwl~Ylq~l~~Q-~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYL  165 (835)
T KOG2047|consen   91 FERCLVFMHKMP----RIWLDYLQFLIKQ-GLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYL  165 (835)
T ss_pred             HHHHHHHHhcCC----HHHHHHHHHHHhc-chHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHH
Confidence            555555555664    4577777777788 99999999998765     2355789999999999999999999999999


Q ss_pred             cCCHhHHHHHHHHHHHcCChHHHHHHHhhCCCC----------CcccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCC
Q 009066           98 EKNSVSWSAMISGYIECGQLDKAVELFKVAPVK----------SVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLG  167 (545)
Q Consensus        98 ~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~----------~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~  167 (545)
                      .-++..-+..|..+++.+++++|.+.+..+...          +-..|+-+-...+++.  ..+..-....+++.+..  
T Consensus       166 k~~P~~~eeyie~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p--~~~~slnvdaiiR~gi~--  241 (835)
T KOG2047|consen  166 KVAPEAREEYIEYLAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNP--DKVQSLNVDAIIRGGIR--  241 (835)
T ss_pred             hcCHHHHHHHHHHHHhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCc--chhcccCHHHHHHhhcc--
Confidence            888888999999999999999999998776532          3356766665552221  11111222334555443  


Q ss_pred             CCCCH--HHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcC----------------------CH
Q 009066          168 IRPNA--SSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCG----------------------DL  223 (545)
Q Consensus       168 ~~pd~--~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g----------------------~~  223 (545)
                      .-+|.  ..|.+|...|.+.|.++.|+.+|.+.+..-  ..+.-++.+-+.|+.-.                      ++
T Consensus       242 rftDq~g~Lw~SLAdYYIr~g~~ekarDvyeeai~~v--~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl  319 (835)
T KOG2047|consen  242 RFTDQLGFLWCSLADYYIRSGLFEKARDVYEEAIQTV--MTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDL  319 (835)
T ss_pred             cCcHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhh--eehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhH
Confidence            24554  368889999999999999999999887652  22333444444444321                      12


Q ss_pred             HHHHHHHHhccCC---------------ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCC------HHHHHHHHHH
Q 009066          224 EDACKLFLEIQRK---------------DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPD------SITFVALLLA  282 (545)
Q Consensus       224 ~~A~~~f~~~~~~---------------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~------~~t~~~ll~a  282 (545)
                      +-...-|+.+..+               ++..|..-...  ..|+..+-...|.+..+. +.|-      ...|..+...
T Consensus       320 ~~~~a~~e~lm~rr~~~lNsVlLRQn~~nV~eW~kRV~l--~e~~~~~~i~tyteAv~~-vdP~ka~Gs~~~Lw~~fakl  396 (835)
T KOG2047|consen  320 ELHMARFESLMNRRPLLLNSVLLRQNPHNVEEWHKRVKL--YEGNAAEQINTYTEAVKT-VDPKKAVGSPGTLWVEFAKL  396 (835)
T ss_pred             HHHHHHHHHHHhccchHHHHHHHhcCCccHHHHHhhhhh--hcCChHHHHHHHHHHHHc-cCcccCCCChhhHHHHHHHH
Confidence            3333344444321               34455544443  357778888888888764 4443      2357777888


Q ss_pred             HHccCcHHHHHHHHHHhHHhcCCCC---CHHHHHHHHHHHhHcCCHHHHHHHHHhC---CCC-----------------C
Q 009066          283 CNHAGLVDLGIQYFDSMVNDYGIAA---KPDHYTCMVDLLGRAGKLVEAVDLIKKM---PFK-----------------P  339 (545)
Q Consensus       283 ~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m---~~~-----------------p  339 (545)
                      |-..|+++.|+.+|++..+. ..+.   -..+|..-.++=.+..+++.|+++++..   |-.                 .
T Consensus       397 Ye~~~~l~~aRvifeka~~V-~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhr  475 (835)
T KOG2047|consen  397 YENNGDLDDARVIFEKATKV-PYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHR  475 (835)
T ss_pred             HHhcCcHHHHHHHHHHhhcC-CccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHH
Confidence            88999999999999887653 2221   1456777777778888999999988876   211                 1


Q ss_pred             CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHH
Q 009066          340 QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLS  401 (545)
Q Consensus       340 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  401 (545)
                      +..+|...+...-..|-++.-..++++++++.--.+. .....+..+....-++++.+++++
T Consensus       476 SlkiWs~y~DleEs~gtfestk~vYdriidLriaTPq-ii~NyAmfLEeh~yfeesFk~YEr  536 (835)
T KOG2047|consen  476 SLKIWSMYADLEESLGTFESTKAVYDRIIDLRIATPQ-IIINYAMFLEEHKYFEESFKAYER  536 (835)
T ss_pred             hHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhcCCHH-HHHHHHHHHHhhHHHHHHHHHHHc
Confidence            2345666666666777777888888888776543333 333444444455566666666653

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

Probab=98.94  E-value=1.5e-07  Score=81.68  Aligned_cols=163  Identities=14%  Similarity=0.122  Sum_probs=119.6

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHh
Q 009066          241 WNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLG  320 (545)
Q Consensus       241 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~  320 (545)
                      ...+.-+|.+.|+...|..-+++.++.. +-+..++..+...|.+.|..+.|.+.|+...+  --+.+..+.|...--++
T Consensus        38 rlqLal~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAls--l~p~~GdVLNNYG~FLC  114 (250)
T COG3063          38 RLQLALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALS--LAPNNGDVLNNYGAFLC  114 (250)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHh--cCCCccchhhhhhHHHH
Confidence            4445667777777777777777777642 22345666666777777777777777777764  22444567777777777


Q ss_pred             HcCCHHHHHHHHHhCCCCC----CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHH
Q 009066          321 RAGKLVEAVDLIKKMPFKP----QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVA  396 (545)
Q Consensus       321 ~~g~~~~A~~~~~~m~~~p----~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~  396 (545)
                      ..|++++|...|++.-..|    -..+|..+.-...+.|+.+.|+..+++.++.+|+.+. +...+.....+.|++-.|.
T Consensus       115 ~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~~~~-~~l~~a~~~~~~~~y~~Ar  193 (250)
T COG3063         115 AQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQFPP-ALLELARLHYKAGDYAPAR  193 (250)
T ss_pred             hCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcCCCh-HHHHHHHHHHhcccchHHH
Confidence            7888888888877762222    2357777877778888999999999999999998887 8888888888999999998


Q ss_pred             HHHHHhhhCCC
Q 009066          397 RIRLSMKENNV  407 (545)
Q Consensus       397 ~~~~~m~~~~~  407 (545)
                      ..++....++.
T Consensus       194 ~~~~~~~~~~~  204 (250)
T COG3063         194 LYLERYQQRGG  204 (250)
T ss_pred             HHHHHHHhccc
Confidence            88887766554

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

Probab=98.86  E-value=1.1e-06  Score=76.32  Aligned_cols=195  Identities=16%  Similarity=0.076  Sum_probs=103.0

Q ss_pred             HHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccC---CChhhHHHHHHHHHHcCCh
Q 009066          178 VLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKG  254 (545)
Q Consensus       178 ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~  254 (545)
                      +.-.|.+.|+...|+.-++.+++.. +.+..++..+...|.+.|+.+.|.+.|++...   .+....|....-+|.+|++
T Consensus        41 Lal~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~~GdVLNNYG~FLC~qg~~  119 (250)
T COG3063          41 LALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPNNGDVLNNYGAFLCAQGRP  119 (250)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCCccchhhhhhHHHHhCCCh
Confidence            3334455555555555555555543 33344455555555555555555555555432   2444555555555666666


Q ss_pred             HHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHH
Q 009066          255 EKALRLFDKMKDEGMKP-DSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIK  333 (545)
Q Consensus       255 ~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  333 (545)
                      ++|...|++......-| -..||..+.-+..+.|+.+.|...|++..+  -.+..+.....+.+...+.|++..|..+++
T Consensus       120 ~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~--~dp~~~~~~l~~a~~~~~~~~y~~Ar~~~~  197 (250)
T COG3063         120 EEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALE--LDPQFPPALLELARLHYKAGDYAPARLYLE  197 (250)
T ss_pred             HHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHH--hCcCCChHHHHHHHHHHhcccchHHHHHHH
Confidence            66666666655432111 123455555445556666666666665554  223334455556666666666666666655


Q ss_pred             hC--CCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCC
Q 009066          334 KM--PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANA  375 (545)
Q Consensus       334 ~m--~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~  375 (545)
                      ..  ...++..+.--.|..-...||.+.+-+.=.++....|...
T Consensus       198 ~~~~~~~~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~fP~s~  241 (250)
T COG3063         198 RYQQRGGAQAESLLLGIRIAKRLGDRAAAQRYQAQLQRLFPYSE  241 (250)
T ss_pred             HHHhcccccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCcH
Confidence            54  2224554444455555556666666655555555555543

>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala

Probab=98.85  E-value=1.3e-06  Score=88.56  Aligned_cols=95  Identities=14%  Similarity=0.112  Sum_probs=61.3

Q ss_pred             HHHHHHHHhHcCCHHHHHHHHHhC-CCCCC-HhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHc
Q 009066          312 YTCMVDLLGRAGKLVEAVDLIKKM-PFKPQ-PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAM  389 (545)
Q Consensus       312 ~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~  389 (545)
                      +..+...|...|++++|++++++. ...|+ +..|..-...+...|++++|...++.+..+++.+-. .-.-.+..+.++
T Consensus       197 ~~~lAqhyd~~g~~~~Al~~Id~aI~htPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~~DRy-iNsK~aKy~LRa  275 (517)
T PF12569_consen  197 LYFLAQHYDYLGDYEKALEYIDKAIEHTPTLVELYMTKARILKHAGDLKEAAEAMDEARELDLADRY-INSKCAKYLLRA  275 (517)
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCChhhHH-HHHHHHHHHHHC
Confidence            345566666777777777777655 33454 345566666677777777777777777777776654 444555666677


Q ss_pred             CCchHHHHHHHHhhhCCC
Q 009066          390 KKWDDVARIRLSMKENNV  407 (545)
Q Consensus       390 g~~~~a~~~~~~m~~~~~  407 (545)
                      |+.++|.++.....+.+.
T Consensus       276 ~~~e~A~~~~~~Ftr~~~  293 (517)
T PF12569_consen  276 GRIEEAEKTASLFTREDV  293 (517)
T ss_pred             CCHHHHHHHHHhhcCCCC
Confidence            777777777766655544

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 [], [].

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

Probab=98.85  E-value=4.7e-06  Score=76.39  Aligned_cols=304  Identities=12%  Similarity=0.085  Sum_probs=178.2

Q ss_pred             HHHHHHcCCCCHHHHHHHHhcCCCCCeehHHHHH---HHHHhCCCHHHHHHHHhhCCcCCHhHHHH---HHHHHHHcCCh
Q 009066           44 MLSCILLNSDDVVAAFDFFQRLPIKDTASWNTMI---SGFVQKKNMAKARDLFLAMPEKNSVSWSA---MISGYIECGQL  117 (545)
Q Consensus        44 li~~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li---~~~~~~g~~~~a~~~~~~~~~~~~~~~~~---li~~~~~~g~~  117 (545)
                      +-..+..+ |++.+|+.-|....+-|+..|.++.   ..|...|+-..|+.-+.+.++..+..+.+   -...+.+.|.+
T Consensus        44 lGk~lla~-~Q~sDALt~yHaAve~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlelKpDF~~ARiQRg~vllK~Gel  122 (504)
T KOG0624|consen   44 LGKELLAR-GQLSDALTHYHAAVEGDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLELKPDFMAARIQRGVVLLKQGEL  122 (504)
T ss_pred             HHHHHHHh-hhHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhcCCccchhhHHHHHhcCccHHHHHHHhchhhhhcccH
Confidence            44455555 7777777777777766665555554   35666777777777666666432222222   23456677777


Q ss_pred             HHHHHHHhhCCCCCcccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHH
Q 009066          118 DKAVELFKVAPVKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQL  197 (545)
Q Consensus       118 ~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~  197 (545)
                      +.|..=|+.+.+.++                .+|...+|.+-+....+      .......+..+...|+...+.+....
T Consensus       123 e~A~~DF~~vl~~~~----------------s~~~~~eaqskl~~~~e------~~~l~~ql~s~~~~GD~~~ai~~i~~  180 (504)
T KOG0624|consen  123 EQAEADFDQVLQHEP----------------SNGLVLEAQSKLALIQE------HWVLVQQLKSASGSGDCQNAIEMITH  180 (504)
T ss_pred             HHHHHHHHHHHhcCC----------------CcchhHHHHHHHHhHHH------HHHHHHHHHHHhcCCchhhHHHHHHH
Confidence            777777766554332                11111111111110000      11222334445567888888888888


Q ss_pred             HHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhcc---CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHH
Q 009066          198 VFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQ---RKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSI  274 (545)
Q Consensus       198 ~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~  274 (545)
                      +++.. +.|...+..-..+|...|++..|+.=+....   ..+....--+-..+...|+.+.++...++-++  +.||..
T Consensus       181 llEi~-~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLK--ldpdHK  257 (504)
T KOG0624|consen  181 LLEIQ-PWDASLRQARAKCYIAEGEPKKAIHDLKQASKLSQDNTEGHYKISQLLYTVGDAENSLKEIRECLK--LDPDHK  257 (504)
T ss_pred             HHhcC-cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhccccchHHHHHHHHHHHhhhhHHHHHHHHHHHHc--cCcchh
Confidence            88765 5677788888888888888888876665443   45666777777788888888888888888876  456653


Q ss_pred             HH----HHH---H------HHHHccCcHHHHHHHHHHhHHhcCCCCC-----HHHHHHHHHHHhHcCCHHHHHHHHHhC-
Q 009066          275 TF----VAL---L------LACNHAGLVDLGIQYFDSMVNDYGIAAK-----PDHYTCMVDLLGRAGKLVEAVDLIKKM-  335 (545)
Q Consensus       275 t~----~~l---l------~a~~~~g~~~~a~~~~~~~~~~~~~~~~-----~~~~~~li~~~~~~g~~~~A~~~~~~m-  335 (545)
                      ..    ..|   .      ......+.+.++.+-.+...+.   .|.     ...+..+-.+|...|++.+|+..-.+. 
T Consensus       258 ~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~---ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL  334 (504)
T KOG0624|consen  258 LCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKN---EPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVL  334 (504)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhc---CCcccceeeeeeheeeecccccCCHHHHHHHHHHHH
Confidence            21    111   0      1122334455555555554432   332     112334445556667777777665554 


Q ss_pred             CCCCC-HhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCc
Q 009066          336 PFKPQ-PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA  376 (545)
Q Consensus       336 ~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~  376 (545)
                      .+.|| +.++---..+|.....++.|+.-|+++.+.+|++..
T Consensus       335 ~~d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~n~sn~~  376 (504)
T KOG0624|consen  335 DIDPDDVQVLCDRAEAYLGDEMYDDAIHDYEKALELNESNTR  376 (504)
T ss_pred             hcCchHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCcccHH
Confidence            44454 555555566666667777777777777777776653

>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=98.84  E-value=9.9e-08  Score=89.90  Aligned_cols=240  Identities=13%  Similarity=0.065  Sum_probs=144.1

Q ss_pred             ccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHH
Q 009066          149 ENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACK  228 (545)
Q Consensus       149 ~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~  228 (545)
                      -.|.+..++.-.. .....-..+..+...+.+++...|..+.+   ...+.+.. .|.......+...+...++-+.+..
T Consensus        13 y~G~Y~~~i~e~~-~~~~~~~~~~e~~~~~~Rs~iAlg~~~~v---l~ei~~~~-~~~l~av~~la~y~~~~~~~e~~l~   87 (290)
T PF04733_consen   13 YLGNYQQCINEAS-LKSFSPENKLERDFYQYRSYIALGQYDSV---LSEIKKSS-SPELQAVRLLAEYLSSPSDKESALE   87 (290)
T ss_dssp             CTT-HHHHCHHHH-CHTSTCHHHHHHHHHHHHHHHHTT-HHHH---HHHS-TTS-SCCCHHHHHHHHHHCTSTTHHCHHH
T ss_pred             HhhhHHHHHHHhh-ccCCCchhHHHHHHHHHHHHHHcCChhHH---HHHhccCC-ChhHHHHHHHHHHHhCccchHHHHH
Confidence            4566776665444 22211112233444556666666665543   23333332 4444444434333333244555555


Q ss_pred             HHHhccC-C----ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhc
Q 009066          229 LFLEIQR-K----DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDY  303 (545)
Q Consensus       229 ~f~~~~~-~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~  303 (545)
                      -+++... +    +..........+...|++++|++++.+-      .+.......+..+.+.++++.|.+.++.|.+  
T Consensus        88 ~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~--  159 (290)
T PF04733_consen   88 ELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQQ--  159 (290)
T ss_dssp             HHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHC--
T ss_pred             HHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHh--
Confidence            5544432 2    1111122223445568888888887642      2445556667788888899999888888863  


Q ss_pred             CCCCCHHHHHHHHHHH----hHcCCHHHHHHHHHhC--CCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCch
Q 009066          304 GIAAKPDHYTCMVDLL----GRAGKLVEAVDLIKKM--PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAG  377 (545)
Q Consensus       304 ~~~~~~~~~~~li~~~----~~~g~~~~A~~~~~~m--~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~  377 (545)
                       +..|. +...|..++    .-.+.+.+|..+|+++  ...+++.+.+.+..+....|++++|+.+++++++.+|+++. 
T Consensus       160 -~~eD~-~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~~~d-  236 (290)
T PF04733_consen  160 -IDEDS-ILTQLAEAWVNLATGGEKYQDAFYIFEELSDKFGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPNDPD-  236 (290)
T ss_dssp             -CSCCH-HHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCCS--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CCHHH-
T ss_pred             -cCCcH-HHHHHHHHHHHHHhCchhHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccCCHH-
Confidence             33342 333333333    3334689999999988  44467888899999999999999999999999999999988 


Q ss_pred             hHHHHHHHHHHcCCc-hHHHHHHHHhhh
Q 009066          378 CYVQLANIYAAMKKW-DDVARIRLSMKE  404 (545)
Q Consensus       378 ~~~~l~~~~~~~g~~-~~a~~~~~~m~~  404 (545)
                      +...++-+....|+. +.+.+.+.+++.
T Consensus       237 ~LaNliv~~~~~gk~~~~~~~~l~qL~~  264 (290)
T PF04733_consen  237 TLANLIVCSLHLGKPTEAAERYLSQLKQ  264 (290)
T ss_dssp             HHHHHHHHHHHTT-TCHHHHHHHHHCHH
T ss_pred             HHHHHHHHHHHhCCChhHHHHHHHHHHH
Confidence            888999999999988 567788888765

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.

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

Probab=98.81  E-value=9.5e-06  Score=80.25  Aligned_cols=296  Identities=12%  Similarity=-0.024  Sum_probs=162.3

Q ss_pred             HhHHHHHHHHHHHcCChHHHHHHHhhCC---CCCcccH---HHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHH
Q 009066          101 SVSWSAMISGYIECGQLDKAVELFKVAP---VKSVVAW---TAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASS  174 (545)
Q Consensus       101 ~~~~~~li~~~~~~g~~~~A~~~f~~~~---~~~~~~~---~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t  174 (545)
                      ...+..+...|...|+.+.+.+.+....   .++...+   ......+     ...|++++|.+.+++..+.. +.|...
T Consensus         6 ~~a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~-----~~~g~~~~A~~~~~~~l~~~-P~~~~a   79 (355)
T cd05804           6 ALGHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSA-----WIAGDLPKALALLEQLLDDY-PRDLLA   79 (355)
T ss_pred             HHHHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHH-----HHcCCHHHHHHHHHHHHHHC-CCcHHH
Confidence            3455555566666666666555554322   1122111   1112233     56778888888888777652 223333


Q ss_pred             HHHHHHHHh----ccCcHHHHHHHHHHHHhCCCCCC-cccHHHHHHHHHhcCCHHHHHHHHHhccC---CChhhHHHHHH
Q 009066          175 LSSVLLGCS----HLSSLQLGKQVHQLVFKSPLCKD-TTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMIS  246 (545)
Q Consensus       175 ~~~ll~~~~----~~~~~~~a~~~~~~~~~~g~~~~-~~~~~~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~  246 (545)
                      +.. ...+.    ..+..+.+.+.+..  ..+..|+ ......+...+...|++++|...+++..+   .+...+..+..
T Consensus        80 ~~~-~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~p~~~~~~~~la~  156 (355)
T cd05804          80 LKL-HLGAFGLGDFSGMRDHVARVLPL--WAPENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELNPDDAWAVHAVAH  156 (355)
T ss_pred             HHH-hHHHHHhcccccCchhHHHHHhc--cCcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCcHHHHHHHH
Confidence            332 11222    23444444444443  1111222 23334556677788888888888887764   34566777777


Q ss_pred             HHHHcCChHHHHHHHHHHHHcCC-CCCH--HHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHH-H--HHHHHHh
Q 009066          247 GYAQHGKGEKALRLFDKMKDEGM-KPDS--ITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHY-T--CMVDLLG  320 (545)
Q Consensus       247 ~~~~~g~~~~A~~~~~~m~~~g~-~p~~--~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~-~--~li~~~~  320 (545)
                      .|...|++++|+..+++...... .|+.  ..+..+...+...|+.++|..+++.........+..... +  .++..+.
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            88888888888888888776422 1222  234456667778888888888887765321111111111 1  2233333


Q ss_pred             HcCCHHHHHHH---HHhC-CCCC---CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCC-C--------CCCchhHHHHHH
Q 009066          321 RAGKLVEAVDL---IKKM-PFKP---QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLN-P--------ANAAGCYVQLAN  384 (545)
Q Consensus       321 ~~g~~~~A~~~---~~~m-~~~p---~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-p--------~~~~~~~~~l~~  384 (545)
                      ..|....+.+.   .... +..|   ..........++...|+.+.|..+++.+.... .        .... .....+.
T Consensus       237 ~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~~~~~~~~~~~~~~~~-~~~l~A~  315 (355)
T cd05804         237 LAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALKGRASSADDNKQPARDVG-LPLAEAL  315 (355)
T ss_pred             hcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhccCchhhhHHhhh-HHHHHHH
Confidence            44433222222   1111 1101   11222345566778888999988888775421 1        1122 4556677


Q ss_pred             HHHHcCCchHHHHHHHHhhhCC
Q 009066          385 IYAAMKKWDDVARIRLSMKENN  406 (545)
Q Consensus       385 ~~~~~g~~~~a~~~~~~m~~~~  406 (545)
                      ++...|++++|.+.+......+
T Consensus       316 ~~~~~g~~~~A~~~L~~al~~a  337 (355)
T cd05804         316 YAFAEGNYATALELLGPVRDDL  337 (355)
T ss_pred             HHHHcCCHHHHHHHHHHHHHHH
Confidence            7889999999999998877643

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.

>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala

Probab=98.80  E-value=6.9e-06  Score=83.27  Aligned_cols=301  Identities=12%  Similarity=0.077  Sum_probs=136.5

Q ss_pred             HHHHhCCCHHHHHHHHhhCCc---CCHhHHHHHHHHHHHcCChHHHHHHHhhCCCCCc--ccHHHHHHHhc-chhhhccC
Q 009066           78 SGFVQKKNMAKARDLFLAMPE---KNSVSWSAMISGYIECGQLDKAVELFKVAPVKSV--VAWTAMISGYM-KFGYVENS  151 (545)
Q Consensus        78 ~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~--~~~~~li~~~~-~~g~~~~g  151 (545)
                      ..+...|++++|++.+..-..   ....+.......|.+.|+.++|..++..+..+|+  ..|-..+..+. -.......
T Consensus        12 ~il~e~g~~~~AL~~L~~~~~~I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rNPdn~~Yy~~L~~~~g~~~~~~~~   91 (517)
T PF12569_consen   12 SILEEAGDYEEALEHLEKNEKQILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRNPDNYDYYRGLEEALGLQLQLSDE   91 (517)
T ss_pred             HHHHHCCCHHHHHHHHHhhhhhCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHhhhcccccc
Confidence            445666777777777665432   2234555666677777777777777776664333  23322222220 00001112


Q ss_pred             ChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCc-HHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHH
Q 009066          152 WAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSS-LQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLF  230 (545)
Q Consensus       152 ~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~-~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f  230 (545)
                      ..+...++|+++...-  |.......+.-.+..... -..+..+...+++.|+|+   +++.|-..|....+.+-..+++
T Consensus        92 ~~~~~~~~y~~l~~~y--p~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPs---lF~~lk~Ly~d~~K~~~i~~l~  166 (517)
T PF12569_consen   92 DVEKLLELYDELAEKY--PRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVPS---LFSNLKPLYKDPEKAAIIESLV  166 (517)
T ss_pred             cHHHHHHHHHHHHHhC--ccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCch---HHHHHHHHHcChhHHHHHHHHH
Confidence            3455566666665442  333333222222222111 234445555556666543   4455555555433333333333


Q ss_pred             HhccCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCC
Q 009066          231 LEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDS--ITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAK  308 (545)
Q Consensus       231 ~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~  308 (545)
                      ......           +...+.+...-      ....-.|..  .++..+...|...|++++|.++++..+..   .|+
T Consensus       167 ~~~~~~-----------l~~~~~~~~~~------~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~h---tPt  226 (517)
T PF12569_consen  167 EEYVNS-----------LESNGSFSNGD------DEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEH---TPT  226 (517)
T ss_pred             HHHHHh-----------hcccCCCCCcc------ccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc---CCC
Confidence            322100           00000000000      000011222  23333444555556666666666555542   333


Q ss_pred             -HHHHHHHHHHHhHcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCC--CCCCc----h--
Q 009066          309 -PDHYTCMVDLLGRAGKLVEAVDLIKKM-PFK-PQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLN--PANAA----G--  377 (545)
Q Consensus       309 -~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~-p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~--p~~~~----~--  377 (545)
                       ++.|..-...|-+.|++++|.+.++.. ... .|..+-+-....+.+.|++++|+..+......+  |....    .  
T Consensus       227 ~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~W  306 (517)
T PF12569_consen  227 LVELYMTKARILKHAGDLKEAAEAMDEARELDLADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMW  306 (517)
T ss_pred             cHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCChhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHH
Confidence             555555556666666666666555544 111 233344444445555666666666555554332  11110    0  


Q ss_pred             hHHHHHHHHHHcCCchHHHHHHHHhh
Q 009066          378 CYVQLANIYAAMKKWDDVARIRLSMK  403 (545)
Q Consensus       378 ~~~~l~~~~~~~g~~~~a~~~~~~m~  403 (545)
                      .....+.+|.+.|++..|++-|..+.
T Consensus       307 f~~e~a~a~~r~~~~~~ALk~~~~v~  332 (517)
T PF12569_consen  307 FETECAEAYLRQGDYGLALKRFHAVL  332 (517)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            11244566677777777666655544

N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].

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

Probab=98.74  E-value=2.1e-05  Score=77.74  Aligned_cols=191  Identities=12%  Similarity=0.080  Sum_probs=99.8

Q ss_pred             HHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccCC-----Ch--hhHHHHHHHHH
Q 009066          177 SVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRK-----DV--VTWNAMISGYA  249 (545)
Q Consensus       177 ~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~-----~~--~~~~~li~~~~  249 (545)
                      .+...+...|++++|.+.++...+.. +.+...+..+...|...|++++|...+++..+.     +.  ..|..+...+.
T Consensus       119 ~~a~~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~  197 (355)
T cd05804         119 MLAFGLEEAGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYL  197 (355)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHH
Confidence            34445566667777777777666654 334555666677777777777777777665531     11  23445666777


Q ss_pred             HcCChHHHHHHHHHHHHcCC-CCCHHHH-H--HHHHHHHccCcHHHHHHH--HHHhHHhcCCC--CCHHHHHHHHHHHhH
Q 009066          250 QHGKGEKALRLFDKMKDEGM-KPDSITF-V--ALLLACNHAGLVDLGIQY--FDSMVNDYGIA--AKPDHYTCMVDLLGR  321 (545)
Q Consensus       250 ~~g~~~~A~~~~~~m~~~g~-~p~~~t~-~--~ll~a~~~~g~~~~a~~~--~~~~~~~~~~~--~~~~~~~~li~~~~~  321 (545)
                      ..|++++|+.+|++...... .+..... .  .++.-+...|..+.+.++  ....... ..+  .........+.++..
T Consensus       198 ~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~-~~~~~~~~~~~~~~a~~~~~  276 (355)
T cd05804         198 ERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAW-HFPDHGLAFNDLHAALALAG  276 (355)
T ss_pred             HCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHh-hcCcccchHHHHHHHHHHhc
Confidence            77777777777777653221 1111111 1  222222333333322222  1111111 101  111122245566677


Q ss_pred             cCCHHHHHHHHHhCC--CCC---C------HhHHHHHHHHHHhcCCHHHHHHHHHHHhc
Q 009066          322 AGKLVEAVDLIKKMP--FKP---Q------PAIFGTLLSACRVHKRLDLAEFAAMNLFN  369 (545)
Q Consensus       322 ~g~~~~A~~~~~~m~--~~p---~------~~~~~~li~~~~~~g~~~~A~~~~~~~~~  369 (545)
                      .|+.++|..+++.+.  ...   .      +...-...-++...|+.++|...+...+.
T Consensus       277 ~~~~~~a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~  335 (355)
T cd05804         277 AGDKDALDKLLAALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYATALELLGPVRD  335 (355)
T ss_pred             CCCHHHHHHHHHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            788888888877661  111   1      11111222345578888888888877754

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.

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.73  E-value=5.6e-06  Score=76.21  Aligned_cols=77  Identities=13%  Similarity=0.101  Sum_probs=49.9

Q ss_pred             CCCChHHHHHHHccCCCC---ChhhHHHHHH-HHHcCCCCHHHHHHHHhcCC---CCCeehHHHHHHHHHhCCCHHHHHH
Q 009066           19 QRGKLKDAQELFDKIPQP---DVVSYNIMLS-CILLNSDDVVAAFDFFQRLP---IKDTASWNTMISGFVQKKNMAKARD   91 (545)
Q Consensus        19 ~g~~~~~A~~~f~~~~~~---~~~~~~~li~-~~~~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~g~~~~a~~   91 (545)
                      ..+ +..|+.+++.-..-   ...+.+..|. .+.+- |++++|...|..+.   .++...|..|.-.+.-.|.+.+|.+
T Consensus        35 ~rD-ytGAislLefk~~~~~EEE~~~~lWia~C~fhL-gdY~~Al~~Y~~~~~~~~~~~el~vnLAcc~FyLg~Y~eA~~  112 (557)
T KOG3785|consen   35 NRD-YTGAISLLEFKLNLDREEEDSLQLWIAHCYFHL-GDYEEALNVYTFLMNKDDAPAELGVNLACCKFYLGQYIEAKS  112 (557)
T ss_pred             ccc-chhHHHHHHHhhccchhhhHHHHHHHHHHHHhh-ccHHHHHHHHHHHhccCCCCcccchhHHHHHHHHHHHHHHHH
Confidence            345 88888877655421   1123333344 44555 89999998888765   4456667777766667788888888


Q ss_pred             HHhhCC
Q 009066           92 LFLAMP   97 (545)
Q Consensus        92 ~~~~~~   97 (545)
                      +-....
T Consensus       113 ~~~ka~  118 (557)
T KOG3785|consen  113 IAEKAP  118 (557)
T ss_pred             HHhhCC
Confidence            877654

>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=98.73  E-value=5.3e-07  Score=84.98  Aligned_cols=154  Identities=16%  Similarity=0.174  Sum_probs=92.7

Q ss_pred             HHHHhcCCHHHHHHHHHhccCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH----ccCcHH
Q 009066          215 SMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACN----HAGLVD  290 (545)
Q Consensus       215 ~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~----~~g~~~  290 (545)
                      .+|...|++++|.++++..  .+.......+..|.+.++++.|.+.++.|.+.  ..| .+...+..++.    ....+.
T Consensus       110 ~i~~~~~~~~~AL~~l~~~--~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~--~eD-~~l~qLa~awv~l~~g~e~~~  184 (290)
T PF04733_consen  110 TILFHEGDYEEALKLLHKG--GSLELLALAVQILLKMNRPDLAEKELKNMQQI--DED-SILTQLAEAWVNLATGGEKYQ  184 (290)
T ss_dssp             HHHCCCCHHHHHHCCCTTT--TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCC--SCC-HHHHHHHHHHHHHHHTTTCCC
T ss_pred             HHHHHcCCHHHHHHHHHcc--CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCc-HHHHHHHHHHHHHHhCchhHH
Confidence            4455566667666666554  34555555666777777777777777777653  223 33333333332    223567


Q ss_pred             HHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCH-HHHHHHHHHH
Q 009066          291 LGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRL-DLAEFAAMNL  367 (545)
Q Consensus       291 ~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~-~~A~~~~~~~  367 (545)
                      +|..+|+++..  ...+++.+.+.+.-++...|++++|.+++.+. ...| +..+...++......|+. +.+.+...++
T Consensus       185 ~A~y~f~El~~--~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL  262 (290)
T PF04733_consen  185 DAFYIFEELSD--KFGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPNDPDTLANLIVCSLHLGKPTEAAERYLSQL  262 (290)
T ss_dssp             HHHHHHHHHHC--CS--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHC
T ss_pred             HHHHHHHHHHh--ccCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHhCCChhHHHHHHHHH
Confidence            77777777765  34566677777777777777777777777664 3233 445666677766677766 5667777777


Q ss_pred             hcCCCCCC
Q 009066          368 FNLNPANA  375 (545)
Q Consensus       368 ~~~~p~~~  375 (545)
                      ....|+.+
T Consensus       263 ~~~~p~h~  270 (290)
T PF04733_consen  263 KQSNPNHP  270 (290)
T ss_dssp             HHHTTTSH
T ss_pred             HHhCCCCh
Confidence            77777764

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.

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=98.72  E-value=4.2e-05  Score=76.15  Aligned_cols=388  Identities=12%  Similarity=0.101  Sum_probs=223.4

Q ss_pred             CCCccHHHHHHHHHHhCCCChHHHH----HHHccCC-CCChhhHHHHHHHHHcCCCCHHHHHHHHhcCC---CCCeehHH
Q 009066            3 VKTTVNWNSVLAGFAKQRGKLKDAQ----ELFDKIP-QPDVVSYNIMLSCILLNSDDVVAAFDFFQRLP---IKDTASWN   74 (545)
Q Consensus         3 ~~~~~~~~~li~~~~~~g~~~~~A~----~~f~~~~-~~~~~~~~~li~~~~~~~g~~~~A~~~~~~m~---~~d~~~~~   74 (545)
                      +.....+-.++..|-. ++ +....    .++..-+ .++..+.--+.  +..- |+-++|......-.   ..+.+.|.
T Consensus         5 ~KE~~lF~~~lk~yE~-kQ-YkkgLK~~~~iL~k~~eHgeslAmkGL~--L~~l-g~~~ea~~~vr~glr~d~~S~vCwH   79 (700)
T KOG1156|consen    5 PKENALFRRALKCYET-KQ-YKKGLKLIKQILKKFPEHGESLAMKGLT--LNCL-GKKEEAYELVRLGLRNDLKSHVCWH   79 (700)
T ss_pred             hHHHHHHHHHHHHHHH-HH-HHhHHHHHHHHHHhCCccchhHHhccch--hhcc-cchHHHHHHHHHHhccCcccchhHH
Confidence            3444556666666654 23 44444    4444433 34443322111  2333 89999999887766   34568899


Q ss_pred             HHHHHHHhCCCHHHHHHHHhhCC---cCCHhHHHHHHHHHHHcCChHHHHHHHhhCC---CCCcccHHHHHHHhcchhhh
Q 009066           75 TMISGFVQKKNMAKARDLFLAMP---EKNSVSWSAMISGYIECGQLDKAVELFKVAP---VKSVVAWTAMISGYMKFGYV  148 (545)
Q Consensus        75 ~li~~~~~~g~~~~a~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~---~~~~~~~~~li~~~~~~g~~  148 (545)
                      .+.-.+....++++|++.|....   ..|...+.-|.-.-++.|+++.....-.+..   ......|..+..++     .
T Consensus        80 v~gl~~R~dK~Y~eaiKcy~nAl~~~~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~~~~ra~w~~~Avs~-----~  154 (700)
T KOG1156|consen   80 VLGLLQRSDKKYDEAIKCYRNALKIEKDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLRPSQRASWIGFAVAQ-----H  154 (700)
T ss_pred             HHHHHHhhhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhHHHHHHHHHHH-----H
Confidence            99999999999999999999876   3466777777777778888877766555443   33557899998888     8


Q ss_pred             ccCChHHHHHHHHHHHhCC-CCCCHHHHHHHHH------HHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcC
Q 009066          149 ENSWAEDGLKLLRMMIGLG-IRPNASSLSSVLL------GCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCG  221 (545)
Q Consensus       149 ~~g~~~~A~~~~~~m~~~~-~~pd~~t~~~ll~------~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g  221 (545)
                      -.|+...|..++++..+.. -.|+...+.-...      .....|.++.|.+-....... +......-..-.+.+.+.+
T Consensus       155 L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~-i~Dkla~~e~ka~l~~kl~  233 (700)
T KOG1156|consen  155 LLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQ-IVDKLAFEETKADLLMKLG  233 (700)
T ss_pred             HHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH-HHHHHHHhhhHHHHHHHHh
Confidence            8999999999999887654 2456555543332      234567777776665544332 1122233445677888999


Q ss_pred             CHHHHHHHHHhccCC--ChhhHHHH-HHHHHHcCChHHHH-HHHHHHHH-------------------------------
Q 009066          222 DLEDACKLFLEIQRK--DVVTWNAM-ISGYAQHGKGEKAL-RLFDKMKD-------------------------------  266 (545)
Q Consensus       222 ~~~~A~~~f~~~~~~--~~~~~~~l-i~~~~~~g~~~~A~-~~~~~m~~-------------------------------  266 (545)
                      ++++|..++..+..+  |-.-|+-. ..++.+-.+..+++ .+|....+                               
T Consensus       234 ~lEeA~~~y~~Ll~rnPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~r~e~p~Rlplsvl~~eel~~~vdkyL~~  313 (700)
T KOG1156|consen  234 QLEEAVKVYRRLLERNPDNLDYYEGLEKALGKIKDMLEALKALYAILSEKYPRHECPRRLPLSVLNGEELKEIVDKYLRP  313 (700)
T ss_pred             hHHhHHHHHHHHHhhCchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcCcccccchhccHHHhCcchhHHHHHHHHHH
Confidence            999999999988764  44444333 33332222333333 44444332                               


Q ss_pred             ---cCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhc-C------------CCCCHHH--HHHHHHHHhHcCCHHHH
Q 009066          267 ---EGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDY-G------------IAAKPDH--YTCMVDLLGRAGKLVEA  328 (545)
Q Consensus       267 ---~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~-~------------~~~~~~~--~~~li~~~~~~g~~~~A  328 (545)
                         .|++|   +|..+.+.+-.....+--.++...+.... |            -+|....  +-.++..|-+.|+++.|
T Consensus       314 ~l~Kg~p~---vf~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~laqh~D~~g~~~~A  390 (700)
T KOG1156|consen  314 LLSKGVPS---VFKDLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQHYDKLGDYEVA  390 (700)
T ss_pred             HhhcCCCc---hhhhhHHHHhchhHhHHHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHHHHHHHHHcccHHHH
Confidence               23222   12222222221111111111111111000 1            0333333  33566666777777777


Q ss_pred             HHHHHhC-CCCCCH-hHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHH-HHHHHHHHcCCchHHHHHHHHhhhC
Q 009066          329 VDLIKKM-PFKPQP-AIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYV-QLANIYAAMKKWDDVARIRLSMKEN  405 (545)
Q Consensus       329 ~~~~~~m-~~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~-~l~~~~~~~g~~~~a~~~~~~m~~~  405 (545)
                      ...++.. +-.|+. ..|-.-...+...|++++|...++++.+++-.+.  ..+ --+.-..++.+.++|.++.....+.
T Consensus       391 ~~yId~AIdHTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD~aDR--~INsKcAKYmLrAn~i~eA~~~~skFTr~  468 (700)
T KOG1156|consen  391 LEYIDLAIDHTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELDTADR--AINSKCAKYMLRANEIEEAEEVLSKFTRE  468 (700)
T ss_pred             HHHHHHHhccCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhccchhH--HHHHHHHHHHHHccccHHHHHHHHHhhhc
Confidence            7777665 333443 2343444556666777777777777777665543  222 3444445666777777776666555


Q ss_pred             C
Q 009066          406 N  406 (545)
Q Consensus       406 ~  406 (545)
                      |
T Consensus       469 ~  469 (700)
T KOG1156|consen  469 G  469 (700)
T ss_pred             c
Confidence            4

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.71  E-value=2.3e-05  Score=70.62  Aligned_cols=379  Identities=13%  Similarity=0.096  Sum_probs=231.0

Q ss_pred             HHHHHHHHHhCCCChHHHHHHHccCCCC---ChhhHHHHHHHHHcCCCCHHHHHHHHhcCC--CCCeehHHH-HHHHHHh
Q 009066            9 WNSVLAGFAKQRGKLKDAQELFDKIPQP---DVVSYNIMLSCILLNSDDVVAAFDFFQRLP--IKDTASWNT-MISGFVQ   82 (545)
Q Consensus         9 ~~~li~~~~~~g~~~~~A~~~f~~~~~~---~~~~~~~li~~~~~~~g~~~~A~~~~~~m~--~~d~~~~~~-li~~~~~   82 (545)
                      +++.+....+..+ +++|.+++..-.++   +......+--.|... .++..|-..|+++.  .|...-|.. -...+-+
T Consensus        13 ftaviy~lI~d~r-y~DaI~~l~s~~Er~p~~rAgLSlLgyCYY~~-Q~f~~AA~CYeQL~ql~P~~~qYrlY~AQSLY~   90 (459)
T KOG4340|consen   13 FTAVVYRLIRDAR-YADAIQLLGSELERSPRSRAGLSLLGYCYYRL-QEFALAAECYEQLGQLHPELEQYRLYQAQSLYK   90 (459)
T ss_pred             hHHHHHHHHHHhh-HHHHHHHHHHHHhcCccchHHHHHHHHHHHHH-HHHHHHHHHHHHHHhhChHHHHHHHHHHHHHHH
Confidence            3455555667777 99999998776643   344455566677777 89999999999886  343333322 1345667


Q ss_pred             CCCHHHHHHHHhhCCcCC-HhHHHHHHH--HHHHcCChHHHHHHHhhCCC-CCcccHHHHHHHhcchhhhccCChHHHHH
Q 009066           83 KKNMAKARDLFLAMPEKN-SVSWSAMIS--GYIECGQLDKAVELFKVAPV-KSVVAWTAMISGYMKFGYVENSWAEDGLK  158 (545)
Q Consensus        83 ~g~~~~a~~~~~~~~~~~-~~~~~~li~--~~~~~g~~~~A~~~f~~~~~-~~~~~~~~li~~~~~~g~~~~g~~~~A~~  158 (545)
                      .+.+..|+.+...|.+.+ ...-..-+.  .....+++..++.+.++.+. .+..+-+......     .+.|++++|++
T Consensus        91 A~i~ADALrV~~~~~D~~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en~Ad~~in~gCll-----ykegqyEaAvq  165 (459)
T KOG4340|consen   91 ACIYADALRVAFLLLDNPALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSENEADGQINLGCLL-----YKEGQYEAAVQ  165 (459)
T ss_pred             hcccHHHHHHHHHhcCCHHHHHHHHHHHHHHhcccccCcchHHHHHhccCCCccchhccchhee-----eccccHHHHHH
Confidence            889999999999888642 221111122  23357889999999999984 5555555555555     88999999999


Q ss_pred             HHHHHHhC-CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCC-------------CCcc--------cHHHHH--
Q 009066          159 LLRMMIGL-GIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLC-------------KDTT--------ALTPLI--  214 (545)
Q Consensus       159 ~~~~m~~~-~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~-------------~~~~--------~~~~li--  214 (545)
                      -|+...+- |..| ...|+..+ +..+.++.+.|.....+++++|+.             +|+.        .-++++  
T Consensus       166 kFqaAlqvsGyqp-llAYniAL-aHy~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~eA  243 (459)
T KOG4340|consen  166 KFQAALQVSGYQP-LLAYNLAL-AHYSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVEA  243 (459)
T ss_pred             HHHHHHhhcCCCc-hhHHHHHH-HHHhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHHHHHHH
Confidence            99998875 4444 56776665 455678999999999999887753             1211        112233  


Q ss_pred             -----HHHHhcCCHHHHHHHHHhccCC-----ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 009066          215 -----SMYCKCGDLEDACKLFLEIQRK-----DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACN  284 (545)
Q Consensus       215 -----~~y~~~g~~~~A~~~f~~~~~~-----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~  284 (545)
                           ..+.+.|+.+.|.+.+-.|+.+     |++|...+.-.-. .+++.+..+-+.-++..++- ...||..++-.|+
T Consensus       244 fNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n~-~~~p~~g~~KLqFLL~~nPf-P~ETFANlLllyC  321 (459)
T KOG4340|consen  244 FNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMNM-DARPTEGFEKLQFLLQQNPF-PPETFANLLLLYC  321 (459)
T ss_pred             hhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhcc-cCCccccHHHHHHHHhcCCC-ChHHHHHHHHHHh
Confidence                 3456789999999999999854     6777665543322 34555656555556655443 4568888888999


Q ss_pred             ccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHh-HcCCHHHHHHHHHhCCCCC--CHhHHHHHHHHHHhcCCHH---
Q 009066          285 HAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLG-RAGKLVEAVDLIKKMPFKP--QPAIFGTLLSACRVHKRLD---  358 (545)
Q Consensus       285 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~-~~g~~~~A~~~~~~m~~~p--~~~~~~~li~~~~~~g~~~---  358 (545)
                      +..-++.|-.++.+-....-.-.+...|+ |++++. ..-..++|.+-++.+.-.-  .......-+.- .++.+-+   
T Consensus       322 KNeyf~lAADvLAEn~~lTyk~L~~Yly~-LLdaLIt~qT~pEea~KKL~~La~~l~~kLRklAi~vQe-~r~~~dd~a~  399 (459)
T KOG4340|consen  322 KNEYFDLAADVLAENAHLTYKFLTPYLYD-LLDALITCQTAPEEAFKKLDGLAGMLTEKLRKLAIQVQE-ARHNRDDEAI  399 (459)
T ss_pred             hhHHHhHHHHHHhhCcchhHHHhhHHHHH-HHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHhcccHHHH
Confidence            99999988888753221000012233343 344443 3446667766555441000  00000011111 1122212   


Q ss_pred             -HHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhh
Q 009066          359 -LAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       359 -~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  404 (545)
                       .|++-+++.+++--   . ....-+..|.+..++..+.++|..-.+
T Consensus       400 R~ai~~Yd~~LE~YL---P-VlMa~AkiyW~~~Dy~~vEk~Fr~Sve  442 (459)
T KOG4340|consen  400 RKAVNEYDETLEKYL---P-VLMAQAKIYWNLEDYPMVEKIFRKSVE  442 (459)
T ss_pred             HHHHHHHHHHHHHHH---H-HHHHHHHhhccccccHHHHHHHHHHHh
Confidence             22233333333210   1 445556677788888888888876544

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.70  E-value=1.7e-05  Score=79.64  Aligned_cols=189  Identities=17%  Similarity=0.238  Sum_probs=92.2

Q ss_pred             HhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccCCChhhHHHHHHHHHHcCChHHHHHHH
Q 009066          182 CSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLF  261 (545)
Q Consensus       182 ~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~  261 (545)
                      ......+.+|..+++.+..+.  .-...|..+.+-|+..|+++-|+++|-+..     .++-.|..|.++|++++|.++-
T Consensus       742 ai~akew~kai~ildniqdqk--~~s~yy~~iadhyan~~dfe~ae~lf~e~~-----~~~dai~my~k~~kw~da~kla  814 (1636)
T KOG3616|consen  742 AIGAKEWKKAISILDNIQDQK--TASGYYGEIADHYANKGDFEIAEELFTEAD-----LFKDAIDMYGKAGKWEDAFKLA  814 (1636)
T ss_pred             HhhhhhhhhhHhHHHHhhhhc--cccccchHHHHHhccchhHHHHHHHHHhcc-----hhHHHHHHHhccccHHHHHHHH
Confidence            334445555555555554432  122234445556666666666666665432     2344455566666666665554


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhCCCCCCH
Q 009066          262 DKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQP  341 (545)
Q Consensus       262 ~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~  341 (545)
                      ++..  |.......|.+-..-.-..|++.+|.+++-.+    | .|+     .-|.+|-+.|..++.+++.++-.  |+.
T Consensus       815 ~e~~--~~e~t~~~yiakaedldehgkf~eaeqlyiti----~-~p~-----~aiqmydk~~~~ddmirlv~k~h--~d~  880 (1636)
T KOG3616|consen  815 EECH--GPEATISLYIAKAEDLDEHGKFAEAEQLYITI----G-EPD-----KAIQMYDKHGLDDDMIRLVEKHH--GDH  880 (1636)
T ss_pred             HHhc--CchhHHHHHHHhHHhHHhhcchhhhhheeEEc----c-Cch-----HHHHHHHhhCcchHHHHHHHHhC--hhh
Confidence            4432  22333334444444444555555555554322    1 222     13455555566555555555541  222


Q ss_pred             --hHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHH
Q 009066          342 --AIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRL  400 (545)
Q Consensus       342 --~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~  400 (545)
                        .|...+..-+-..|+.+.|+..|-++        . -|..-.++|...+.|++|.++-+
T Consensus       881 l~dt~~~f~~e~e~~g~lkaae~~flea--------~-d~kaavnmyk~s~lw~dayriak  932 (1636)
T KOG3616|consen  881 LHDTHKHFAKELEAEGDLKAAEEHFLEA--------G-DFKAAVNMYKASELWEDAYRIAK  932 (1636)
T ss_pred             hhHHHHHHHHHHHhccChhHHHHHHHhh--------h-hHHHHHHHhhhhhhHHHHHHHHh
Confidence              23344444455555555555555433        1 34445555555555555555443

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.70  E-value=0.0001  Score=76.81  Aligned_cols=246  Identities=15%  Similarity=0.165  Sum_probs=154.4

Q ss_pred             HHHhCCCHHHHHHHHhhCCcCCHhHHHHHHHHHHHcCChHHHHHHHhhCCCCCcccHHHHHHHhcchhhhccCChHHHHH
Q 009066           79 GFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGYVENSWAEDGLK  158 (545)
Q Consensus        79 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~g~~~~A~~  158 (545)
                      .+..++-+++|..+|.+.. -+..+.+.|+.   .-+.++.|.+.-++..+|  ..|+.+..+-     .+.|...+|++
T Consensus      1057 iai~~~LyEEAF~ifkkf~-~n~~A~~VLie---~i~~ldRA~efAe~~n~p--~vWsqlakAQ-----L~~~~v~dAie 1125 (1666)
T KOG0985|consen 1057 IAIENQLYEEAFAIFKKFD-MNVSAIQVLIE---NIGSLDRAYEFAERCNEP--AVWSQLAKAQ-----LQGGLVKDAIE 1125 (1666)
T ss_pred             HHhhhhHHHHHHHHHHHhc-ccHHHHHHHHH---HhhhHHHHHHHHHhhCCh--HHHHHHHHHH-----HhcCchHHHHH
Confidence            3444455566666665542 22222233332   234455555554444433  4577787777     77777777777


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccC---
Q 009066          159 LLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR---  235 (545)
Q Consensus       159 ~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~---  235 (545)
                      -|-+.      .|+..|..++..+.+.|.+++-..++..+.+..-+|.+  -+.||-+|++.+++.+-++++..-..   
T Consensus      1126 Syika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~i--d~eLi~AyAkt~rl~elE~fi~gpN~A~i 1197 (1666)
T KOG0985|consen 1126 SYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYI--DSELIFAYAKTNRLTELEEFIAGPNVANI 1197 (1666)
T ss_pred             HHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccc--hHHHHHHHHHhchHHHHHHHhcCCCchhH
Confidence            66432      25667778888888888888888877777776555543  34677778887777776655432110   


Q ss_pred             --------------------CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHH
Q 009066          236 --------------------KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQY  295 (545)
Q Consensus       236 --------------------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~  295 (545)
                                          .++..|..+...+...|++..|.+.-++.      .+..||..+-.+|...+.+..|   
T Consensus      1198 ~~vGdrcf~~~~y~aAkl~y~~vSN~a~La~TLV~LgeyQ~AVD~aRKA------ns~ktWK~VcfaCvd~~EFrlA--- 1268 (1666)
T KOG0985|consen 1198 QQVGDRCFEEKMYEAAKLLYSNVSNFAKLASTLVYLGEYQGAVDAARKA------NSTKTWKEVCFACVDKEEFRLA--- 1268 (1666)
T ss_pred             HHHhHHHhhhhhhHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhc------cchhHHHHHHHHHhchhhhhHH---
Confidence                                14556777888888888888887766553      2567888888888877666554   


Q ss_pred             HHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcC
Q 009066          296 FDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHK  355 (545)
Q Consensus       296 ~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g  355 (545)
                        +|.-- .+.-...-..-|+..|-..|.+++-+.+++.. |.+. ....|+-|.-.|.+-+
T Consensus      1269 --QiCGL-~iivhadeLeeli~~Yq~rGyFeElIsl~Ea~LGLERAHMgmfTELaiLYskyk 1327 (1666)
T KOG0985|consen 1269 --QICGL-NIIVHADELEELIEYYQDRGYFEELISLLEAGLGLERAHMGMFTELAILYSKYK 1327 (1666)
T ss_pred             --HhcCc-eEEEehHhHHHHHHHHHhcCcHHHHHHHHHhhhchhHHHHHHHHHHHHHHHhcC
Confidence              33211 23345556677888899999999998888866 4432 3355666666666543

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

Probab=98.69  E-value=3.5e-06  Score=90.20  Aligned_cols=200  Identities=12%  Similarity=0.109  Sum_probs=163.9

Q ss_pred             CCCcccHHHHHHHHHhcCCHHHHHHHHHhccCC--------ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHH
Q 009066          204 CKDTTALTPLISMYCKCGDLEDACKLFLEIQRK--------DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSIT  275 (545)
Q Consensus       204 ~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~--------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t  275 (545)
                      |.+...|-..|......+++++|++++++....        -...|.++++.-...|.-+...++|+++.+.  .---..
T Consensus      1455 PNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqy--cd~~~V 1532 (1710)
T KOG1070|consen 1455 PNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQY--CDAYTV 1532 (1710)
T ss_pred             CCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHh--cchHHH
Confidence            445567777888888889999999999887642        3457888888888888888899999998874  212345


Q ss_pred             HHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC---CHhHHHHHHHHH
Q 009066          276 FVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP---QPAIFGTLLSAC  351 (545)
Q Consensus       276 ~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p---~~~~~~~li~~~  351 (545)
                      |..|+..|.+.+..++|.++++.|.++++  .....|...++.+.+..+-++|.+++++. ..-|   ......-.+..-
T Consensus      1533 ~~~L~~iy~k~ek~~~A~ell~~m~KKF~--q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLE 1610 (1710)
T KOG1070|consen 1533 HLKLLGIYEKSEKNDEADELLRLMLKKFG--QTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLE 1610 (1710)
T ss_pred             HHHHHHHHHHhhcchhHHHHHHHHHHHhc--chhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHH
Confidence            77888899999999999999999999765  67788999999999999999999998776 2223   344555666667


Q ss_pred             HhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhhCCCc
Q 009066          352 RVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVV  408 (545)
Q Consensus       352 ~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  408 (545)
                      .++|+.+++..+|+..+...|.-.. .|...++.-.+.|..+.++.+|++....++.
T Consensus      1611 Fk~GDaeRGRtlfEgll~ayPKRtD-lW~VYid~eik~~~~~~vR~lfeRvi~l~l~ 1666 (1710)
T KOG1070|consen 1611 FKYGDAERGRTLFEGLLSAYPKRTD-LWSVYIDMEIKHGDIKYVRDLFERVIELKLS 1666 (1710)
T ss_pred             hhcCCchhhHHHHHHHHhhCccchh-HHHHHHHHHHccCCHHHHHHHHHHHHhcCCC
Confidence            7899999999999999999998888 9999999999999999999999999888765

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.67  E-value=1.5e-05  Score=80.07  Aligned_cols=224  Identities=17%  Similarity=0.141  Sum_probs=125.2

Q ss_pred             HHHHHHhCCCChHHHHHHHccCC--CCChhhHHHHHHHHHcCCCCHHHHHHHHhcCCCCCeehHHHHHHHHHhCCCHHHH
Q 009066           12 VLAGFAKQRGKLKDAQELFDKIP--QPDVVSYNIMLSCILLNSDDVVAAFDFFQRLPIKDTASWNTMISGFVQKKNMAKA   89 (545)
Q Consensus        12 li~~~~~~g~~~~~A~~~f~~~~--~~~~~~~~~li~~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~a   89 (545)
                      -|+.|.|.|. +.+|.+....-.  ..|......+-.++.+. .-+++|-.+|+++..+|     ..+..|-+-.-+-+|
T Consensus       621 aiqlyika~~-p~~a~~~a~n~~~l~~de~il~~ia~alik~-elydkagdlfeki~d~d-----kale~fkkgdaf~ka  693 (1636)
T KOG3616|consen  621 AIQLYIKAGK-PAKAARAALNDEELLADEEILEHIAAALIKG-ELYDKAGDLFEKIHDFD-----KALECFKKGDAFGKA  693 (1636)
T ss_pred             HHHHHHHcCC-chHHHHhhcCHHHhhccHHHHHHHHHHHHhh-HHHHhhhhHHHHhhCHH-----HHHHHHHcccHHHHH
Confidence            4555556555 554444332111  12333333333344444 45555555555554322     222333333334444


Q ss_pred             HHHHhhCCcCCHh-HHHHHHHHHHHcCChHHHHHHHhhCCCCCcccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCC
Q 009066           90 RDLFLAMPEKNSV-SWSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGI  168 (545)
Q Consensus        90 ~~~~~~~~~~~~~-~~~~li~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~  168 (545)
                      .++-+-.-+..++ .-.....-+...|+++.|..-|-+...     .--.|.+.     .....+.+|+.+++.++....
T Consensus       694 ielarfafp~evv~lee~wg~hl~~~~q~daainhfiea~~-----~~kaieaa-----i~akew~kai~ildniqdqk~  763 (1636)
T KOG3616|consen  694 IELARFAFPEEVVKLEEAWGDHLEQIGQLDAAINHFIEANC-----LIKAIEAA-----IGAKEWKKAISILDNIQDQKT  763 (1636)
T ss_pred             HHHHHhhCcHHHhhHHHHHhHHHHHHHhHHHHHHHHHHhhh-----HHHHHHHH-----hhhhhhhhhHhHHHHhhhhcc
Confidence            4444333222221 222344445556666666665543210     11123334     667788899998888876532


Q ss_pred             CCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccCC--ChhhHHHHHH
Q 009066          169 RPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRK--DVVTWNAMIS  246 (545)
Q Consensus       169 ~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~--~~~~~~~li~  246 (545)
                        -.--|..+..-|+..|+++.|+++|-..-         .++-.|+||.+.|++++|.++-++...|  .+..|-+-..
T Consensus       764 --~s~yy~~iadhyan~~dfe~ae~lf~e~~---------~~~dai~my~k~~kw~da~kla~e~~~~e~t~~~yiakae  832 (1636)
T KOG3616|consen  764 --ASGYYGEIADHYANKGDFEIAEELFTEAD---------LFKDAIDMYGKAGKWEDAFKLAEECHGPEATISLYIAKAE  832 (1636)
T ss_pred             --ccccchHHHHHhccchhHHHHHHHHHhcc---------hhHHHHHHHhccccHHHHHHHHHHhcCchhHHHHHHHhHH
Confidence              23346667788899999999998886542         3556789999999999999988887665  3445666666


Q ss_pred             HHHHcCChHHHHHHHHH
Q 009066          247 GYAQHGKGEKALRLFDK  263 (545)
Q Consensus       247 ~~~~~g~~~~A~~~~~~  263 (545)
                      -+-.+|++.+|.++|-.
T Consensus       833 dldehgkf~eaeqlyit  849 (1636)
T KOG3616|consen  833 DLDEHGKFAEAEQLYIT  849 (1636)
T ss_pred             hHHhhcchhhhhheeEE
Confidence            66677777777666543

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.67  E-value=3.8e-05  Score=86.06  Aligned_cols=353  Identities=10%  Similarity=-0.023  Sum_probs=217.9

Q ss_pred             HHcCCCCHHHHHHHHhcCCCCCeeh--HHHHHHHHHhCCCHHHHHHHHhhCCc----CCHhHHHHHHHHHHHcCChHHHH
Q 009066           48 ILLNSDDVVAAFDFFQRLPIKDTAS--WNTMISGFVQKKNMAKARDLFLAMPE----KNSVSWSAMISGYIECGQLDKAV  121 (545)
Q Consensus        48 ~~~~~g~~~~A~~~~~~m~~~d~~~--~~~li~~~~~~g~~~~a~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~A~  121 (545)
                      +... |++.+|..........+...  ...........|+++.+...+..+..    .++.........+...|++++|.
T Consensus       351 ~~~~-g~~~~Al~~a~~a~d~~~~~~ll~~~a~~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~a~  429 (903)
T PRK04841        351 WLAQ-GFPSEAIHHALAAGDAQLLRDILLQHGWSLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSEVN  429 (903)
T ss_pred             HHHC-CCHHHHHHHHHHCCCHHHHHHHHHHhHHHHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHHHH
Confidence            3344 66666666555554222111  11122334556788887777777631    23333444555667889999988


Q ss_pred             HHHhhCC----CCC---c---c--cHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHhcc
Q 009066          122 ELFKVAP----VKS---V---V--AWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNA----SSLSSVLLGCSHL  185 (545)
Q Consensus       122 ~~f~~~~----~~~---~---~--~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~----~t~~~ll~~~~~~  185 (545)
                      ..+....    ..+   .   .  ....+...+     ...|++++|...+++....-...+.    ...+.+...+...
T Consensus       430 ~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~-----~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~  504 (903)
T PRK04841        430 TLLARAEQELKDRNIELDGTLQAEFNALRAQVA-----INDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCK  504 (903)
T ss_pred             HHHHHHHHhccccCcccchhHHHHHHHHHHHHH-----HhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHc
Confidence            8886532    111   1   1  111122233     6789999999999988763111222    2344455566789


Q ss_pred             CcHHHHHHHHHHHHhCCCC---C--CcccHHHHHHHHHhcCCHHHHHHHHHhccC-------CC----hhhHHHHHHHHH
Q 009066          186 SSLQLGKQVHQLVFKSPLC---K--DTTALTPLISMYCKCGDLEDACKLFLEIQR-------KD----VVTWNAMISGYA  249 (545)
Q Consensus       186 ~~~~~a~~~~~~~~~~g~~---~--~~~~~~~li~~y~~~g~~~~A~~~f~~~~~-------~~----~~~~~~li~~~~  249 (545)
                      |+++.|...+.......-.   +  .......+...+...|++++|...+++...       ++    ...+..+...+.
T Consensus       505 G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~  584 (903)
T PRK04841        505 GELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLW  584 (903)
T ss_pred             CCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHH
Confidence            9999999998887653111   1  123445567788889999999998877543       11    223445556677


Q ss_pred             HcCChHHHHHHHHHHHHc--CCCCC--HHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHH-----HHHHHHHh
Q 009066          250 QHGKGEKALRLFDKMKDE--GMKPD--SITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHY-----TCMVDLLG  320 (545)
Q Consensus       250 ~~g~~~~A~~~~~~m~~~--g~~p~--~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~-----~~li~~~~  320 (545)
                      ..|++++|...+++....  ...+.  ...+..+.......|+.++|...+...............+     ...+..+.
T Consensus       585 ~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  664 (903)
T PRK04841        585 EWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQ  664 (903)
T ss_pred             HhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHH
Confidence            789999999999887653  11122  2334445567778999999999888775421111111111     11234456


Q ss_pred             HcCCHHHHHHHHHhCCCC--CCH----hHHHHHHHHHHhcCCHHHHHHHHHHHhcCC-----CCCCchhHHHHHHHHHHc
Q 009066          321 RAGKLVEAVDLIKKMPFK--PQP----AIFGTLLSACRVHKRLDLAEFAAMNLFNLN-----PANAAGCYVQLANIYAAM  389 (545)
Q Consensus       321 ~~g~~~~A~~~~~~m~~~--p~~----~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-----p~~~~~~~~~l~~~~~~~  389 (545)
                      ..|+.+.|...+......  ...    ..+..+..++...|+.++|...++++....     +.....++..++.++...
T Consensus       665 ~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~  744 (903)
T PRK04841        665 MTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQ  744 (903)
T ss_pred             HCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHc
Confidence            689999999998776211  111    123456677888999999999999887642     111112677888899999


Q ss_pred             CCchHHHHHHHHhhhCC
Q 009066          390 KKWDDVARIRLSMKENN  406 (545)
Q Consensus       390 g~~~~a~~~~~~m~~~~  406 (545)
                      |+.++|...+.+..+..
T Consensus       745 G~~~~A~~~L~~Al~la  761 (903)
T PRK04841        745 GRKSEAQRVLLEALKLA  761 (903)
T ss_pred             CCHHHHHHHHHHHHHHh
Confidence            99999999999887643

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.65  E-value=8.5e-05  Score=83.30  Aligned_cols=354  Identities=10%  Similarity=-0.004  Sum_probs=223.8

Q ss_pred             HHHHHHHhCCCChHHHHHHHccCCCCChhh--HHHHHHHHHcCCCCHHHHHHHHhcCC----CCCeehHHHHHHHHHhCC
Q 009066           11 SVLAGFAKQRGKLKDAQELFDKIPQPDVVS--YNIMLSCILLNSDDVVAAFDFFQRLP----IKDTASWNTMISGFVQKK   84 (545)
Q Consensus        11 ~li~~~~~~g~~~~~A~~~f~~~~~~~~~~--~~~li~~~~~~~g~~~~A~~~~~~m~----~~d~~~~~~li~~~~~~g   84 (545)
                      .....|...|. +.+|.........++...  ........... |+++.+..+++.++    ..+..........+...|
T Consensus       346 raa~~~~~~g~-~~~Al~~a~~a~d~~~~~~ll~~~a~~l~~~-g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g  423 (903)
T PRK04841        346 AAAEAWLAQGF-PSEAIHHALAAGDAQLLRDILLQHGWSLFNQ-GELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQH  423 (903)
T ss_pred             HHHHHHHHCCC-HHHHHHHHHHCCCHHHHHHHHHHhHHHHHhc-CChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCC
Confidence            34455666666 777776666655442221  01111234445 88888888888875    223333344455567789


Q ss_pred             CHHHHHHHHhhCCc----C----C----HhHHHHHHHHHHHcCChHHHHHHHhhCCC----CCc----ccHHHHHHHhcc
Q 009066           85 NMAKARDLFLAMPE----K----N----SVSWSAMISGYIECGQLDKAVELFKVAPV----KSV----VAWTAMISGYMK  144 (545)
Q Consensus        85 ~~~~a~~~~~~~~~----~----~----~~~~~~li~~~~~~g~~~~A~~~f~~~~~----~~~----~~~~~li~~~~~  144 (545)
                      +++++...+.....    .    +    ......+...+...|++++|...+++...    .+.    ..++.+...+  
T Consensus       424 ~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~--  501 (903)
T PRK04841        424 RYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVH--  501 (903)
T ss_pred             CHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHH--
Confidence            99999888876531    1    1    11223344566789999999998876432    221    2334455555  


Q ss_pred             hhhhccCChHHHHHHHHHHHhCC--C-CC--CHHHHHHHHHHHhccCcHHHHHHHHHHHHhC----CCCC---CcccHHH
Q 009066          145 FGYVENSWAEDGLKLLRMMIGLG--I-RP--NASSLSSVLLGCSHLSSLQLGKQVHQLVFKS----PLCK---DTTALTP  212 (545)
Q Consensus       145 ~g~~~~g~~~~A~~~~~~m~~~~--~-~p--d~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~----g~~~---~~~~~~~  212 (545)
                         ...|++++|...+.+.....  . .+  ...++..+...+...|+++.|...+++....    +...   ....+..
T Consensus       502 ---~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~  578 (903)
T PRK04841        502 ---HCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRI  578 (903)
T ss_pred             ---HHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHH
Confidence               78999999999998886421  1 11  1234455566778899999999998877552    2211   1223445


Q ss_pred             HHHHHHhcCCHHHHHHHHHhccC------C--ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCC-CCHHHH-----HH
Q 009066          213 LISMYCKCGDLEDACKLFLEIQR------K--DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMK-PDSITF-----VA  278 (545)
Q Consensus       213 li~~y~~~g~~~~A~~~f~~~~~------~--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~~~t~-----~~  278 (545)
                      +...+...|++++|...+++...      +  ....+..+...+...|++++|...+++....... .....+     ..
T Consensus       579 la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~  658 (903)
T PRK04841        579 RAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKV  658 (903)
T ss_pred             HHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHH
Confidence            66777888999999999887642      1  1234555666788899999999999888652111 111111     11


Q ss_pred             HHHHHHccCcHHHHHHHHHHhHHhcCCCCCH----HHHHHHHHHHhHcCCHHHHHHHHHhC-------CCCCC-HhHHHH
Q 009066          279 LLLACNHAGLVDLGIQYFDSMVNDYGIAAKP----DHYTCMVDLLGRAGKLVEAVDLIKKM-------PFKPQ-PAIFGT  346 (545)
Q Consensus       279 ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~----~~~~~li~~~~~~g~~~~A~~~~~~m-------~~~p~-~~~~~~  346 (545)
                      .+..+...|+.+.+..++...... . ....    ..+..+..++...|+.++|...+++.       +..++ ..+...
T Consensus       659 ~~~~~~~~g~~~~A~~~l~~~~~~-~-~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~  736 (903)
T PRK04841        659 RLIYWQMTGDKEAAANWLRQAPKP-E-FANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDLNRNLIL  736 (903)
T ss_pred             HHHHHHHCCCHHHHHHHHHhcCCC-C-CccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHH
Confidence            123445578999999988765431 1 1111    11346777888999999999988876       22222 245666


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhcCCCC
Q 009066          347 LLSACRVHKRLDLAEFAAMNLFNLNPA  373 (545)
Q Consensus       347 li~~~~~~g~~~~A~~~~~~~~~~~p~  373 (545)
                      +..++...|+.++|...+.+++++...
T Consensus       737 la~a~~~~G~~~~A~~~L~~Al~la~~  763 (903)
T PRK04841        737 LNQLYWQQGRKSEAQRVLLEALKLANR  763 (903)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHhCc
Confidence            777889999999999999999886544

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.65  E-value=2.4e-05  Score=76.23  Aligned_cols=370  Identities=14%  Similarity=0.113  Sum_probs=215.0

Q ss_pred             HHhCCCChHHHHHHHccCC---CCChhhHHHHHHHHHcCCCCHHHHHHHHhcCC--CCCe-ehHHHHHHHHHhCCCHHHH
Q 009066           16 FAKQRGKLKDAQELFDKIP---QPDVVSYNIMLSCILLNSDDVVAAFDFFQRLP--IKDT-ASWNTMISGFVQKKNMAKA   89 (545)
Q Consensus        16 ~~~~g~~~~~A~~~f~~~~---~~~~~~~~~li~~~~~~~g~~~~A~~~~~~m~--~~d~-~~~~~li~~~~~~g~~~~a   89 (545)
                      -...|+ ++.|...|....   .+|-+.|..-..+|+.. |++++|++=-.+-.  .|+. ..|.....++.-.|++++|
T Consensus        12 a~s~~d-~~~ai~~~t~ai~l~p~nhvlySnrsaa~a~~-~~~~~al~da~k~~~l~p~w~kgy~r~Gaa~~~lg~~~eA   89 (539)
T KOG0548|consen   12 AFSSGD-FETAIRLFTEAIMLSPTNHVLYSNRSAAYASL-GSYEKALKDATKTRRLNPDWAKGYSRKGAALFGLGDYEEA   89 (539)
T ss_pred             hccccc-HHHHHHHHHHHHccCCCccchhcchHHHHHHH-hhHHHHHHHHHHHHhcCCchhhHHHHhHHHHHhcccHHHH
Confidence            345577 999999997755   46778888888899999 99999987665554  5554 5799999999999999999


Q ss_pred             HHHHhhCCc---CCHhHHHHHHHHHHHcCChHHHHHHHhh------CC-CC------CcccHHHHHHHhcchh-----hh
Q 009066           90 RDLFLAMPE---KNSVSWSAMISGYIECGQLDKAVELFKV------AP-VK------SVVAWTAMISGYMKFG-----YV  148 (545)
Q Consensus        90 ~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~f~~------~~-~~------~~~~~~~li~~~~~~g-----~~  148 (545)
                      +.-|.+-++   .|...++.|.+++....   .+.+.|..      +. .|      ....|..++..+-+..     +.
T Consensus        90 ~~ay~~GL~~d~~n~~L~~gl~~a~~~~~---~~~~~~~~p~~~~~l~~~p~t~~~~~~~~~~~~l~~~~~~p~~l~~~l  166 (539)
T KOG0548|consen   90 ILAYSEGLEKDPSNKQLKTGLAQAYLEDY---AADQLFTKPYFHEKLANLPLTNYSLSDPAYVKILEIIQKNPTSLKLYL  166 (539)
T ss_pred             HHHHHHHhhcCCchHHHHHhHHHhhhHHH---HhhhhccCcHHHHHhhcChhhhhhhccHHHHHHHHHhhcCcHhhhccc
Confidence            999998874   35667777887771111   11222211      00 00      1123344444332111     01


Q ss_pred             ccCChHHHHHHHHHH-----HhCC-------CCC------------C----------HHHHHHHHHHHhccCcHHHHHHH
Q 009066          149 ENSWAEDGLKLLRMM-----IGLG-------IRP------------N----------ASSLSSVLLGCSHLSSLQLGKQV  194 (545)
Q Consensus       149 ~~g~~~~A~~~~~~m-----~~~~-------~~p------------d----------~~t~~~ll~~~~~~~~~~~a~~~  194 (545)
                      +-.+...|...+...     ...|       ..|            |          ..-...+.++.-+..+++.+.+-
T Consensus       167 ~d~r~m~a~~~l~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~d~~ee~~~k~~a~~ek~lgnaaykkk~f~~a~q~  246 (539)
T KOG0548|consen  167 NDPRLMKADGQLKGVDELLFYASGIEILASMAEPCKQEHNGFPIIEDNTEERRVKEKAHKEKELGNAAYKKKDFETAIQH  246 (539)
T ss_pred             ccHHHHHHHHHHhcCccccccccccccCCCCCCcccccCCCCCccchhHHHHHHHHhhhHHHHHHHHHHHhhhHHHHHHH
Confidence            111111111111100     0000       011            0          01133445555556666666666


Q ss_pred             HHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccCCChh---hHH-------HHHHHHHHcCChHHHHHHHHHH
Q 009066          195 HQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVV---TWN-------AMISGYAQHGKGEKALRLFDKM  264 (545)
Q Consensus       195 ~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~---~~~-------~li~~~~~~g~~~~A~~~~~~m  264 (545)
                      |...+...  .+..-++....+|...|.+......-+...+..-.   -|+       .+..+|.+.++++.|+..|.+.
T Consensus       247 y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre~rad~klIak~~~r~g~a~~k~~~~~~ai~~~~ka  324 (539)
T KOG0548|consen  247 YAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRELRADYKLIAKALARLGNAYTKREDYEGAIKYYQKA  324 (539)
T ss_pred             HHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHHHHHHHHHHHHHHHHhhhhhhhHHhHHHHHHHHHHH
Confidence            66666654  45555666666777777766666555554432111   122       2233455556677777777765


Q ss_pred             HHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCH-HHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CH
Q 009066          265 KDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKP-DHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QP  341 (545)
Q Consensus       265 ~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~-~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~  341 (545)
                      +..-..||..+         +....+++........   -+.|.. .-...-...+.+.|++.+|.+.|.++ ...| |.
T Consensus       325 Lte~Rt~~~ls---------~lk~~Ek~~k~~e~~a---~~~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAIkr~P~Da  392 (539)
T KOG0548|consen  325 LTEHRTPDLLS---------KLKEAEKALKEAERKA---YINPEKAEEEREKGNEAFKKGDYPEAVKHYTEAIKRDPEDA  392 (539)
T ss_pred             hhhhcCHHHHH---------HHHHHHHHHHHHHHHH---hhChhHHHHHHHHHHHHHhccCHHHHHHHHHHHHhcCCchh
Confidence            54333333211         1122333333332221   112221 11112255567788888888888877 3334 56


Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhhC
Q 009066          342 AIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKEN  405 (545)
Q Consensus       342 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  405 (545)
                      ..|..-..+|.+.|.+..|+.-.+..++++|+... .|..=+.++....+|++|.+.|.+..+.
T Consensus       393 ~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~~~k-gy~RKg~al~~mk~ydkAleay~eale~  455 (539)
T KOG0548|consen  393 RLYSNRAACYLKLGEYPEALKDAKKCIELDPNFIK-AYLRKGAALRAMKEYDKALEAYQEALEL  455 (539)
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHhcCchHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            77888888888888888888888888888888877 7887788888888888888888776654

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.62  E-value=3.9e-06  Score=77.60  Aligned_cols=181  Identities=10%  Similarity=0.005  Sum_probs=117.8

Q ss_pred             CcccHHHHHHHHHhcCCHHHHHHHHHhccC--CC-h---hhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCH--HHHH
Q 009066          206 DTTALTPLISMYCKCGDLEDACKLFLEIQR--KD-V---VTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDS--ITFV  277 (545)
Q Consensus       206 ~~~~~~~li~~y~~~g~~~~A~~~f~~~~~--~~-~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~t~~  277 (545)
                      ....+..++..|.+.|++++|...|+++..  |+ .   .+|..+..+|.+.|++++|+..++++.+.......  .++.
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            344556677778888888888888887754  22 1   35667777888888888888888888764322111  1333


Q ss_pred             HHHHHHHcc--------CcHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhHcCCHHHHHHHHHhCCCCCCHhHHHHHH
Q 009066          278 ALLLACNHA--------GLVDLGIQYFDSMVNDYGIAAK-PDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLL  348 (545)
Q Consensus       278 ~ll~a~~~~--------g~~~~a~~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~li  348 (545)
                      .+..++...        |+.++|.+.++.+.+.   .|+ ...+..+.....    .....           ......+.
T Consensus       112 ~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~---~p~~~~~~~a~~~~~~----~~~~~-----------~~~~~~~a  173 (235)
T TIGR03302       112 LRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR---YPNSEYAPDAKKRMDY----LRNRL-----------AGKELYVA  173 (235)
T ss_pred             HHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH---CCCChhHHHHHHHHHH----HHHHH-----------HHHHHHHH
Confidence            444444443        6677788888777754   232 222222211100    11000           00112455


Q ss_pred             HHHHhcCCHHHHHHHHHHHhcCCCCCC---chhHHHHHHHHHHcCCchHHHHHHHHhhhC
Q 009066          349 SACRVHKRLDLAEFAAMNLFNLNPANA---AGCYVQLANIYAAMKKWDDVARIRLSMKEN  405 (545)
Q Consensus       349 ~~~~~~g~~~~A~~~~~~~~~~~p~~~---~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  405 (545)
                      ..+...|+++.|...++++++..|+.+   . .+..++.++.+.|++++|..+++.+..+
T Consensus       174 ~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~-a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       174 RFYLKRGAYVAAINRFETVVENYPDTPATEE-ALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHcCChHHHHHHHHHHHHHCCCCcchHH-HHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            678899999999999999999877643   4 7889999999999999999999887654

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).

>PF12854 PPR_1: PPR repeat

Probab=98.59  E-value=7.4e-08  Score=58.04  Aligned_cols=33  Identities=33%  Similarity=0.587  Sum_probs=25.2

Q ss_pred             CCCCCcccHHHHHHHHHhcCCHHHHHHHHHhcc
Q 009066          202 PLCKDTTALTPLISMYCKCGDLEDACKLFLEIQ  234 (545)
Q Consensus       202 g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~  234 (545)
                      |+.||..+|++||++|++.|++++|.++|++|+
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            667777777777777777777777777777764

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=98.59  E-value=0.00017  Score=72.04  Aligned_cols=371  Identities=13%  Similarity=0.089  Sum_probs=211.5

Q ss_pred             CCCChHHHHHHHccCCC---CChhhHHHHHHHHHcCCCCHHHHHHHHhcCC--CC-CeehHHHHHHHHHhCCCHHHHHHH
Q 009066           19 QRGKLKDAQELFDKIPQ---PDVVSYNIMLSCILLNSDDVVAAFDFFQRLP--IK-DTASWNTMISGFVQKKNMAKARDL   92 (545)
Q Consensus        19 ~g~~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~~g~~~~A~~~~~~m~--~~-d~~~~~~li~~~~~~g~~~~a~~~   92 (545)
                      .|+ .++|......-.+   .+.+.|..+-- +.++..++++|++.|....  .| |...|.-+.-.-++.|+++.....
T Consensus        54 lg~-~~ea~~~vr~glr~d~~S~vCwHv~gl-~~R~dK~Y~eaiKcy~nAl~~~~dN~qilrDlslLQ~QmRd~~~~~~t  131 (700)
T KOG1156|consen   54 LGK-KEEAYELVRLGLRNDLKSHVCWHVLGL-LQRSDKKYDEAIKCYRNALKIEKDNLQILRDLSLLQIQMRDYEGYLET  131 (700)
T ss_pred             ccc-hHHHHHHHHHHhccCcccchhHHHHHH-HHhhhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHhhhhHHHH
Confidence            355 6777666655443   45567876554 3444478889998888765  33 445666665556667777666655


Q ss_pred             HhhCCc---CCHhHHHHHHHHHHHcCChHHHHHHHhhCCC-----CCcccHHHHHHHhcc-hhhhccCChHHHHHHHHHH
Q 009066           93 FLAMPE---KNSVSWSAMISGYIECGQLDKAVELFKVAPV-----KSVVAWTAMISGYMK-FGYVENSWAEDGLKLLRMM  163 (545)
Q Consensus        93 ~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~-----~~~~~~~~li~~~~~-~g~~~~g~~~~A~~~~~~m  163 (545)
                      -.+..+   .....|..+.-++.-.|+...|..+.++..+     ++...+.-....+.+ .-....|..++|++.+..-
T Consensus       132 r~~LLql~~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~  211 (700)
T KOG1156|consen  132 RNQLLQLRPSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDN  211 (700)
T ss_pred             HHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhh
Confidence            554442   3445677777777778888888777654331     222222222111100 0015566667776665544


Q ss_pred             HhCCCCCCHHHH-HHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHH-HHHHhccC------
Q 009066          164 IGLGIRPNASSL-SSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDAC-KLFLEIQR------  235 (545)
Q Consensus       164 ~~~~~~pd~~t~-~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~-~~f~~~~~------  235 (545)
                      ...  ..|...+ ..-...+.+.+++++|..++..++... +.+...|-.+..++++--+.-++. .+|....+      
T Consensus       212 e~~--i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~rn-Pdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~r~e  288 (700)
T KOG1156|consen  212 EKQ--IVDKLAFEETKADLLMKLGQLEEAVKVYRRLLERN-PDNLDYYEGLEKALGKIKDMLEALKALYAILSEKYPRHE  288 (700)
T ss_pred             hhH--HHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhhC-chhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcCcccc
Confidence            321  1222222 223344566777777777777777664 223333444444444333333333 44444332      


Q ss_pred             ----------------------------CC-hhhHHHHHHHHHHcCChHHHHHHHHHHHH----cCC----------CCC
Q 009066          236 ----------------------------KD-VVTWNAMISGYAQHGKGEKALRLFDKMKD----EGM----------KPD  272 (545)
Q Consensus       236 ----------------------------~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~----~g~----------~p~  272 (545)
                                                  +. +.++..+.+.|-.-...+-..++.-.+..    .|.          +|.
T Consensus       289 ~p~Rlplsvl~~eel~~~vdkyL~~~l~Kg~p~vf~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~Pt  368 (700)
T KOG1156|consen  289 CPRRLPLSVLNGEELKEIVDKYLRPLLSKGVPSVFKDLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPT  368 (700)
T ss_pred             cchhccHHHhCcchhHHHHHHHHHHHhhcCCCchhhhhHHHHhchhHhHHHHHHHHHHHhhcccccCCCcccccccCCch
Confidence                                        11 12333344333222211111111112211    111          344


Q ss_pred             HH--HHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhHcCCHHHHHHHHHhCC-C-CCCHhHHHHH
Q 009066          273 SI--TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAK-PDHYTCMVDLLGRAGKLVEAVDLIKKMP-F-KPQPAIFGTL  347 (545)
Q Consensus       273 ~~--t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~-~-~p~~~~~~~l  347 (545)
                      ..  |+..+...+-..|+++.|..+++..+.   ..|+ ++.|..=..++...|.+++|..++++.. . .||..+-.--
T Consensus       369 tllWt~y~laqh~D~~g~~~~A~~yId~AId---HTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD~aDR~INsKc  445 (700)
T KOG1156|consen  369 TLLWTLYFLAQHYDKLGDYEVALEYIDLAID---HTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELDTADRAINSKC  445 (700)
T ss_pred             HHHHHHHHHHHHHHHcccHHHHHHHHHHHhc---cCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhccchhHHHHHHH
Confidence            43  455667888899999999999998874   3565 5777777899999999999999998872 1 2555444344


Q ss_pred             HHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHH
Q 009066          348 LSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLS  401 (545)
Q Consensus       348 i~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  401 (545)
                      ..-..+..+.++|.++..+.-+-+-+    +...|..+-+--=..+.|..+++.
T Consensus       446 AKYmLrAn~i~eA~~~~skFTr~~~~----~~~~L~~mqcmWf~~E~g~ay~r~  495 (700)
T KOG1156|consen  446 AKYMLRANEIEEAEEVLSKFTREGFG----AVNNLAEMQCMWFQLEDGEAYLRQ  495 (700)
T ss_pred             HHHHHHccccHHHHHHHHHhhhcccc----hhhhHHHhhhHHHhHhhhHHHHHH
Confidence            55566889999999999887665542    444555554444456666665543

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.58  E-value=1.1e-05  Score=72.59  Aligned_cols=298  Identities=14%  Similarity=0.170  Sum_probs=177.6

Q ss_pred             HHHHHHHHHhCCCHHHHHHHHhhCCcC---CHhHHHHHHHHHHHcCChHHHHHHHhhCCC--CCcccHHHH-HHHhcchh
Q 009066           73 WNTMISGFVQKKNMAKARDLFLAMPEK---NSVSWSAMISGYIECGQLDKAVELFKVAPV--KSVVAWTAM-ISGYMKFG  146 (545)
Q Consensus        73 ~~~li~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~f~~~~~--~~~~~~~~l-i~~~~~~g  146 (545)
                      +++.+..+.+..+++.|++++..-.+.   +....+.|..+|....++..|-..++++..  |...-|... ...+    
T Consensus        13 ftaviy~lI~d~ry~DaI~~l~s~~Er~p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~P~~~qYrlY~AQSL----   88 (459)
T KOG4340|consen   13 FTAVVYRLIRDARYADAIQLLGSELERSPRSRAGLSLLGYCYYRLQEFALAAECYEQLGQLHPELEQYRLYQAQSL----   88 (459)
T ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHHHHHH----
Confidence            666777777888888888887766543   345566777888888888888888888753  222222211 2233    


Q ss_pred             hhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHH--HhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHH
Q 009066          147 YVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLG--CSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLE  224 (545)
Q Consensus       147 ~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~--~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~  224 (545)
                       -+.+.+..|+.+...|...   |+-..-..-+.+  --+.+++..++.+.++....|   +..+.+...-...+.|+++
T Consensus        89 -Y~A~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en---~Ad~~in~gCllykegqyE  161 (459)
T KOG4340|consen   89 -YKACIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSEN---EADGQINLGCLLYKEGQYE  161 (459)
T ss_pred             -HHhcccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCC---ccchhccchheeeccccHH
Confidence             5677788888888777642   222111111111  124455556655555544322   3333333444455667777


Q ss_pred             HHHHHHHhccC----CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHH------
Q 009066          225 DACKLFLEIQR----KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQ------  294 (545)
Q Consensus       225 ~A~~~f~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~------  294 (545)
                      .|.+-|+...+    .....||.-+.-| +.|++..|+++..++.+.|++.... ++        .|...++..      
T Consensus       162 aAvqkFqaAlqvsGyqpllAYniALaHy-~~~qyasALk~iSEIieRG~r~HPE-lg--------IGm~tegiDvrsvgN  231 (459)
T KOG4340|consen  162 AAVQKFQAALQVSGYQPLLAYNLALAHY-SSRQYASALKHISEIIERGIRQHPE-LG--------IGMTTEGIDVRSVGN  231 (459)
T ss_pred             HHHHHHHHHHhhcCCCchhHHHHHHHHH-hhhhHHHHHHHHHHHHHhhhhcCCc-cC--------ccceeccCchhcccc
Confidence            77777766654    2445555444333 4566677777777776666542211 11        011111111      


Q ss_pred             ---HHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhCC----CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHH
Q 009066          295 ---YFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMP----FKPQPAIFGTLLSACRVHKRLDLAEFAAMNL  367 (545)
Q Consensus       295 ---~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~----~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~  367 (545)
                         ++...        -+..+|.-...+.+.|+++.|.+-+-.||    ...|++|...+.-. -..+++..+.+-+.-+
T Consensus       232 t~~lh~Sa--------l~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~-n~~~~p~~g~~KLqFL  302 (459)
T KOG4340|consen  232 TLVLHQSA--------LVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALM-NMDARPTEGFEKLQFL  302 (459)
T ss_pred             hHHHHHHH--------HHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHh-cccCCccccHHHHHHH
Confidence               11100        01223333445678899999999999994    22466666554322 2356677777777888


Q ss_pred             hcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHH
Q 009066          368 FNLNPANAAGCYVQLANIYAAMKKWDDVARIRLS  401 (545)
Q Consensus       368 ~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  401 (545)
                      ++++|-+.. ||..++-.|++..-++-|..++.+
T Consensus       303 L~~nPfP~E-TFANlLllyCKNeyf~lAADvLAE  335 (459)
T KOG4340|consen  303 LQQNPFPPE-TFANLLLLYCKNEYFDLAADVLAE  335 (459)
T ss_pred             HhcCCCChH-HHHHHHHHHhhhHHHhHHHHHHhh
Confidence            899998777 999999999999999988888754

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.57  E-value=0.00022  Score=70.53  Aligned_cols=336  Identities=12%  Similarity=0.073  Sum_probs=200.2

Q ss_pred             HHHHHcCCCCHHHHHHHHhcCC---CCCeehHHHHHHHHHhCCCHHHHHHHHhhCCcCCHhHHHHH----HHHHHHcCCh
Q 009066           45 LSCILLNSDDVVAAFDFFQRLP---IKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAM----ISGYIECGQL  117 (545)
Q Consensus        45 i~~~~~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l----i~~~~~~g~~  117 (545)
                      +.-+..+ |++++|.+...++.   +.|...+..=+-+..+.+.+++|+.+.+.-...  .+++..    ..+..+.+..
T Consensus        19 ln~~~~~-~e~e~a~k~~~Kil~~~pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~--~~~~~~~fEKAYc~Yrlnk~   95 (652)
T KOG2376|consen   19 LNRHGKN-GEYEEAVKTANKILSIVPDDEDAIRCKVVALIQLDKYEDALKLIKKNGAL--LVINSFFFEKAYCEYRLNKL   95 (652)
T ss_pred             HHHhccc-hHHHHHHHHHHHHHhcCCCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchh--hhcchhhHHHHHHHHHcccH
Confidence            4456677 99999999988887   456677888888899999999999776654321  222222    3344578999


Q ss_pred             HHHHHHHhhCCCCCcccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHH
Q 009066          118 DKAVELFKVAPVKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRP-NASSLSSVLLGCSHLSSLQLGKQVHQ  196 (545)
Q Consensus       118 ~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~p-d~~t~~~ll~~~~~~~~~~~a~~~~~  196 (545)
                      |+|...++.....+..+...-...+     -+.|++++|+++|+.+.+.+.+- |...-..++.+-..    -.+.    
T Consensus        96 Dealk~~~~~~~~~~~ll~L~AQvl-----Yrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~----l~~~----  162 (652)
T KOG2376|consen   96 DEALKTLKGLDRLDDKLLELRAQVL-----YRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAA----LQVQ----  162 (652)
T ss_pred             HHHHHHHhcccccchHHHHHHHHHH-----HHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHh----hhHH----
Confidence            9999999965555544555555666     78999999999999998776332 22222222222111    1111    


Q ss_pred             HHHhCCCCCCcccHHH---HHHHHHhcCCHHHHHHHHHhcc--------CCCh----------hhHHHHHHHHHHcCChH
Q 009066          197 LVFKSPLCKDTTALTP---LISMYCKCGDLEDACKLFLEIQ--------RKDV----------VTWNAMISGYAQHGKGE  255 (545)
Q Consensus       197 ~~~~~g~~~~~~~~~~---li~~y~~~g~~~~A~~~f~~~~--------~~~~----------~~~~~li~~~~~~g~~~  255 (545)
                      .+......| ..+|..   ..-.+...|++.+|+++++...        +.|.          ..--.|.-.+...|+..
T Consensus       163 ~~q~v~~v~-e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~  241 (652)
T KOG2376|consen  163 LLQSVPEVP-EDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTA  241 (652)
T ss_pred             HHHhccCCC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchH
Confidence            122222222 223322   3455677899999999999872        1111          12333455677899999


Q ss_pred             HHHHHHHHHHHcCCCCCHHH----HHHHHHHHHccCcH-H-HHHHHHHHhHHhc----------CCCCCHHHHHHHHHHH
Q 009066          256 KALRLFDKMKDEGMKPDSIT----FVALLLACNHAGLV-D-LGIQYFDSMVNDY----------GIAAKPDHYTCMVDLL  319 (545)
Q Consensus       256 ~A~~~~~~m~~~g~~p~~~t----~~~ll~a~~~~g~~-~-~a~~~~~~~~~~~----------~~~~~~~~~~~li~~~  319 (545)
                      +|..++...+... .+|...    -|.|+. ...-.++ + .++..++......          .-.....--++++.+|
T Consensus       242 ea~~iy~~~i~~~-~~D~~~~Av~~NNLva-~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~  319 (652)
T KOG2376|consen  242 EASSIYVDIIKRN-PADEPSLAVAVNNLVA-LSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALF  319 (652)
T ss_pred             HHHHHHHHHHHhc-CCCchHHHHHhcchhh-hccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999998864 445422    222322 2221111 1 1122222111000          0000111122344444


Q ss_pred             hHcCCHHHHHHHHHhCCC-CCCHhHHHHHHHH-HHhc-CCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHH
Q 009066          320 GRAGKLVEAVDLIKKMPF-KPQPAIFGTLLSA-CRVH-KRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVA  396 (545)
Q Consensus       320 ~~~g~~~~A~~~~~~m~~-~p~~~~~~~li~~-~~~~-g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~  396 (545)
                        .+..+.+.++-...|. .|.. .+.+++.. .... .....|..++....+..|..+......++......|+++.|.
T Consensus       320 --tnk~~q~r~~~a~lp~~~p~~-~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~~p~~s~~v~L~~aQl~is~gn~~~A~  396 (652)
T KOG2376|consen  320 --TNKMDQVRELSASLPGMSPES-LFPILLQEATKVREKKHKKAIELLLQFADGHPEKSKVVLLLRAQLKISQGNPEVAL  396 (652)
T ss_pred             --hhhHHHHHHHHHhCCccCchH-HHHHHHHHHHHHHHHHHhhhHHHHHHHhccCCchhHHHHHHHHHHHHhcCCHHHHH
Confidence              4556677777777643 3444 34444443 3222 247788888888889999885435666777789999999999


Q ss_pred             HHHHHh
Q 009066          397 RIRLSM  402 (545)
Q Consensus       397 ~~~~~m  402 (545)
                      +++...
T Consensus       397 ~il~~~  402 (652)
T KOG2376|consen  397 EILSLF  402 (652)
T ss_pred             HHHHHH
Confidence            999843

>PLN02789 farnesyltranstransferase

Probab=98.57  E-value=2.4e-05  Score=74.88  Aligned_cols=176  Identities=10%  Similarity=0.070  Sum_probs=98.5

Q ss_pred             HHHHHHHHHhcC-CHHHHHHHHHhccC---CChhhHHHHHHHHHHcCCh--HHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 009066          210 LTPLISMYCKCG-DLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKG--EKALRLFDKMKDEGMKPDSITFVALLLAC  283 (545)
Q Consensus       210 ~~~li~~y~~~g-~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~--~~A~~~~~~m~~~g~~p~~~t~~~ll~a~  283 (545)
                      |+....++.+.| ++++++..++++.+   ++..+|+.....+.+.|..  ++++.+++++.+...+ |..+|.....++
T Consensus        74 W~~R~~iL~~L~~~l~eeL~~~~~~i~~npknyqaW~~R~~~l~~l~~~~~~~el~~~~kal~~dpk-Ny~AW~~R~w~l  152 (320)
T PLN02789         74 WHFRRLCLEALDADLEEELDFAEDVAEDNPKNYQIWHHRRWLAEKLGPDAANKELEFTRKILSLDAK-NYHAWSHRQWVL  152 (320)
T ss_pred             HHHHHHHHHHcchhHHHHHHHHHHHHHHCCcchHHhHHHHHHHHHcCchhhHHHHHHHHHHHHhCcc-cHHHHHHHHHHH
Confidence            333333333344 34555555555442   2334455444444444432  4555566565554322 444555555555


Q ss_pred             HccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHc---CC----HHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhc
Q 009066          284 NHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRA---GK----LVEAVDLIKKM-PFKP-QPAIFGTLLSACRVH  354 (545)
Q Consensus       284 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~---g~----~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~  354 (545)
                      ...|+++++++.++++++.  -+.+...|+.....+.+.   |.    .++++++..++ ...| |...|+.+...+...
T Consensus       153 ~~l~~~~eeL~~~~~~I~~--d~~N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y~~~aI~~~P~N~SaW~Yl~~ll~~~  230 (320)
T PLN02789        153 RTLGGWEDELEYCHQLLEE--DVRNNSAWNQRYFVITRSPLLGGLEAMRDSELKYTIDAILANPRNESPWRYLRGLFKDD  230 (320)
T ss_pred             HHhhhHHHHHHHHHHHHHH--CCCchhHHHHHHHHHHhccccccccccHHHHHHHHHHHHHhCCCCcCHHHHHHHHHhcC
Confidence            5556666666666666542  233344444444333332   22    24555655443 4445 567888888888774


Q ss_pred             ----CCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHc
Q 009066          355 ----KRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAM  389 (545)
Q Consensus       355 ----g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~  389 (545)
                          ++..+|...+.++.+.+|+.+. +...|+.+|+..
T Consensus       231 ~~~l~~~~~~~~~~~~~~~~~~~s~~-al~~l~d~~~~~  268 (320)
T PLN02789        231 KEALVSDPEVSSVCLEVLSKDSNHVF-ALSDLLDLLCEG  268 (320)
T ss_pred             CcccccchhHHHHHHHhhcccCCcHH-HHHHHHHHHHhh
Confidence                3446688888888888888877 888999999864

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

Probab=98.54  E-value=6.4e-06  Score=73.33  Aligned_cols=118  Identities=6%  Similarity=0.066  Sum_probs=93.4

Q ss_pred             cCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHH-HhcCC--HHHH
Q 009066          286 AGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSAC-RVHKR--LDLA  360 (545)
Q Consensus       286 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~-~~~g~--~~~A  360 (545)
                      .++.+++...++...+  .-+.+...|..|...|...|++++|...|++. ...| +...+..+..++ ...|+  .++|
T Consensus        52 ~~~~~~~i~~l~~~L~--~~P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P~~~~~~~~lA~aL~~~~g~~~~~~A  129 (198)
T PRK10370         52 QQTPEAQLQALQDKIR--ANPQNSEQWALLGEYYLWRNDYDNALLAYRQALQLRGENAELYAALATVLYYQAGQHMTPQT  129 (198)
T ss_pred             chhHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCCCcHHH
Confidence            5566777777776665  33667888888888899999999999888877 4445 556777777764 66676  5899


Q ss_pred             HHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhhCC
Q 009066          361 EFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENN  406 (545)
Q Consensus       361 ~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  406 (545)
                      ..+++++++.+|++.. ++..|+..+...|++++|...++++.+..
T Consensus       130 ~~~l~~al~~dP~~~~-al~~LA~~~~~~g~~~~Ai~~~~~aL~l~  174 (198)
T PRK10370        130 REMIDKALALDANEVT-ALMLLASDAFMQADYAQAIELWQKVLDLN  174 (198)
T ss_pred             HHHHHHHHHhCCCChh-HHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            9999999999999888 89999999999999999999999887643

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

Probab=98.54  E-value=2.3e-05  Score=84.19  Aligned_cols=235  Identities=8%  Similarity=0.079  Sum_probs=177.6

Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhC-CCCC---CcccHHHHHHHHHhcCCHHHHHHHHHhccC
Q 009066          160 LRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKS-PLCK---DTTALTPLISMYCKCGDLEDACKLFLEIQR  235 (545)
Q Consensus       160 ~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~-g~~~---~~~~~~~li~~y~~~g~~~~A~~~f~~~~~  235 (545)
                      |.++.... +-....|..-|....+.++++.|+++.+++++. ++.-   -..+|.+++++-..-|.-+...++|+++.+
T Consensus      1447 ferlvrss-PNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcq 1525 (1710)
T KOG1070|consen 1447 FERLVRSS-PNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQ 1525 (1710)
T ss_pred             HHHHHhcC-CCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHH
Confidence            44444332 334567888888888999999999999998774 2211   245788888888888888999999999886


Q ss_pred             C--ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCC--CHHH
Q 009066          236 K--DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAA--KPDH  311 (545)
Q Consensus       236 ~--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~--~~~~  311 (545)
                      -  ....|..|...|.+.+.+++|.++++.|.+. ..-....|...+..+.+.+.-+.|..++.+..+.  ++.  ....
T Consensus      1526 ycd~~~V~~~L~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~--lPk~eHv~~ 1602 (1710)
T KOG1070|consen 1526 YCDAYTVHLKLLGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKS--LPKQEHVEF 1602 (1710)
T ss_pred             hcchHHHHHHHHHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhh--cchhhhHHH
Confidence            3  3467889999999999999999999999874 3346678888999999999999999999998864  232  4555


Q ss_pred             HHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCC--CCCCchhHHHHHHHHH
Q 009066          312 YTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLN--PANAAGCYVQLANIYA  387 (545)
Q Consensus       312 ~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~--p~~~~~~~~~l~~~~~  387 (545)
                      ..-.+++-.+.|+.+.+..+|+.. .-.| -...|+..+..-.++|+.+.+..+|++++.+.  |...-..|...+..-.
T Consensus      1603 IskfAqLEFk~GDaeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk 1682 (1710)
T KOG1070|consen 1603 ISKFAQLEFKYGDAERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEK 1682 (1710)
T ss_pred             HHHHHHHHhhcCCchhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHH
Confidence            667778888999999999999987 2223 45689999999999999999999999998754  4443324444444444


Q ss_pred             HcCCchHHHHH
Q 009066          388 AMKKWDDVARI  398 (545)
Q Consensus       388 ~~g~~~~a~~~  398 (545)
                      +.|+-+.+..+
T Consensus      1683 ~~Gde~~vE~V 1693 (1710)
T KOG1070|consen 1683 SHGDEKNVEYV 1693 (1710)
T ss_pred             hcCchhhHHHH
Confidence            44555444443

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=98.52  E-value=0.00025  Score=72.27  Aligned_cols=93  Identities=15%  Similarity=0.125  Sum_probs=69.2

Q ss_pred             HHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHc
Q 009066          312 YTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAM  389 (545)
Q Consensus       312 ~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~  389 (545)
                      |....+.+.+.+..++|...+.+. .+.| ....|......+...|..++|...|..++.++|++.. ....++.++...
T Consensus       653 wllaa~~~~~~~~~~~a~~CL~Ea~~~~~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~ldP~hv~-s~~Ala~~lle~  731 (799)
T KOG4162|consen  653 WLLAADLFLLSGNDDEARSCLLEASKIDPLSASVYYLRGLLLEVKGQLEEAKEAFLVALALDPDHVP-SMTALAELLLEL  731 (799)
T ss_pred             HHHHHHHHHhcCCchHHHHHHHHHHhcchhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHhcCCCCcH-HHHHHHHHHHHh
Confidence            345566667777777777666555 3333 4456666666777888999999999999999999988 899999999999


Q ss_pred             CCchHHHH--HHHHhhhC
Q 009066          390 KKWDDVAR--IRLSMKEN  405 (545)
Q Consensus       390 g~~~~a~~--~~~~m~~~  405 (545)
                      |+-.-|..  ++..+.+.
T Consensus       732 G~~~la~~~~~L~dalr~  749 (799)
T KOG4162|consen  732 GSPRLAEKRSLLSDALRL  749 (799)
T ss_pred             CCcchHHHHHHHHHHHhh
Confidence            97766666  66666554

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.50  E-value=4.2e-06  Score=70.43  Aligned_cols=122  Identities=11%  Similarity=0.033  Sum_probs=89.0

Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CC
Q 009066          259 RLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PF  337 (545)
Q Consensus       259 ~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~  337 (545)
                      .+|++..+  +.|+.  +..+..++...|++++|...|+....  --+.+...|..+..++.+.|++++|...|++. ..
T Consensus        14 ~~~~~al~--~~p~~--~~~~g~~~~~~g~~~~A~~~~~~al~--~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l   87 (144)
T PRK15359         14 DILKQLLS--VDPET--VYASGYASWQEGDYSRAVIDFSWLVM--AQPWSWRAHIALAGTWMMLKEYTTAINFYGHALML   87 (144)
T ss_pred             HHHHHHHH--cCHHH--HHHHHHHHHHcCCHHHHHHHHHHHHH--cCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            44555554  34443  44456677788888888888888765  33456777888888888888888888888877 33


Q ss_pred             CC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHH
Q 009066          338 KP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYA  387 (545)
Q Consensus       338 ~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~  387 (545)
                      .| +...|..+..++...|++++|+..|+++++..|+++. .+.....+..
T Consensus        88 ~p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~~p~~~~-~~~~~~~~~~  137 (144)
T PRK15359         88 DASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKMSYADAS-WSEIRQNAQI  137 (144)
T ss_pred             CCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChH-HHHHHHHHHH
Confidence            34 5677888888888889999999999998888888876 6665555543

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.48  E-value=8.2e-05  Score=75.92  Aligned_cols=238  Identities=15%  Similarity=0.145  Sum_probs=122.4

Q ss_pred             CCChhhHHHHHH--HHHcCCCCHHHHHHHHhcCCCCCeehHHHHHHHHHhCCCHHHHHHHHhhCC------------cCC
Q 009066           35 QPDVVSYNIMLS--CILLNSDDVVAAFDFFQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMP------------EKN  100 (545)
Q Consensus        35 ~~~~~~~~~li~--~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~a~~~~~~~~------------~~~  100 (545)
                      +-|.+|-.+|+.  .|+.- |+.+.|.+-..-+.  ....|..|.+.|.+..+++-|.-.+..|.            +.+
T Consensus       723 ~Cd~~TRkaml~FSfyvti-G~MD~AfksI~~Ik--S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~  799 (1416)
T KOG3617|consen  723 NCDESTRKAMLDFSFYVTI-GSMDAAFKSIQFIK--SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNG  799 (1416)
T ss_pred             ccCHHHHHhhhceeEEEEe-ccHHHHHHHHHHHh--hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCC
Confidence            345555555553  34444 66666666555443  33456666666666666666666555554            111


Q ss_pred             HhHHHHHHHHHHHcCChHHHHHHHhhCCCCCcccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 009066          101 SVSWSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLL  180 (545)
Q Consensus       101 ~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~  180 (545)
                      ...-....-.-...|.+++|..+|.+-..-     ..|=..|     -..|.+++|+++-+.=-+  + .=..||..-..
T Consensus       800 ~e~eakvAvLAieLgMlEeA~~lYr~ckR~-----DLlNKly-----Qs~g~w~eA~eiAE~~DR--i-HLr~Tyy~yA~  866 (1416)
T KOG3617|consen  800 EEDEAKVAVLAIELGMLEEALILYRQCKRY-----DLLNKLY-----QSQGMWSEAFEIAETKDR--I-HLRNTYYNYAK  866 (1416)
T ss_pred             cchhhHHHHHHHHHhhHHHHHHHHHHHHHH-----HHHHHHH-----HhcccHHHHHHHHhhccc--e-ehhhhHHHHHH
Confidence            122222333344556666666666554332     2233344     555666666655332111  1 11224444444


Q ss_pred             HHhccCcHHHHHHHHHHHH----------hCC---------CCCCcccHHHHHHHHHhcCCHHHHHHHHHhccCCChhhH
Q 009066          181 GCSHLSSLQLGKQVHQLVF----------KSP---------LCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTW  241 (545)
Q Consensus       181 ~~~~~~~~~~a~~~~~~~~----------~~g---------~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~  241 (545)
                      -+...++.+.|.++|+...          +..         -..|...|.-...-.-..|+++.|+.+|....+     |
T Consensus       867 ~Lear~Di~~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D-----~  941 (1416)
T KOG3617|consen  867 YLEARRDIEAALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD-----Y  941 (1416)
T ss_pred             HHHhhccHHHHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh-----h
Confidence            4444455555555544321          110         012334444444445556777777777776543     4


Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHh
Q 009066          242 NAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSM  299 (545)
Q Consensus       242 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~  299 (545)
                      -+++...|-+|+.++|-.+-++-      -|......|.+.|...|++.+|..+|.+.
T Consensus       942 fs~VrI~C~qGk~~kAa~iA~es------gd~AAcYhlaR~YEn~g~v~~Av~FfTrA  993 (1416)
T KOG3617|consen  942 FSMVRIKCIQGKTDKAARIAEES------GDKAACYHLARMYENDGDVVKAVKFFTRA  993 (1416)
T ss_pred             hhheeeEeeccCchHHHHHHHhc------ccHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            55555556666666666655442      24445555666677777777776666544

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.47  E-value=1.6e-05  Score=73.56  Aligned_cols=181  Identities=16%  Similarity=0.065  Sum_probs=128.0

Q ss_pred             CCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCc---ccHHHHHHHHHhcCCHHHHHHHHHhccC--C-Chh---h
Q 009066          170 PNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDT---TALTPLISMYCKCGDLEDACKLFLEIQR--K-DVV---T  240 (545)
Q Consensus       170 pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~---~~~~~li~~y~~~g~~~~A~~~f~~~~~--~-~~~---~  240 (545)
                      .....+......+...|+++.|...++.+.+... .+.   ..+..+...|.+.|++++|...|+++.+  | +..   +
T Consensus        31 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a  109 (235)
T TIGR03302        31 WPAEELYEEAKEALDSGDYTEAIKYFEALESRYP-FSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYA  109 (235)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHH
Confidence            3556777788889999999999999999988642 222   4567789999999999999999999864  2 222   4


Q ss_pred             HHHHHHHHHHc--------CChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHH
Q 009066          241 WNAMISGYAQH--------GKGEKALRLFDKMKDEGMKPDSI-TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDH  311 (545)
Q Consensus       241 ~~~li~~~~~~--------g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  311 (545)
                      +..+..++.+.        |++++|++.|+++...  .|+.. ....+....    ..      ....         ...
T Consensus       110 ~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~~~----~~------~~~~---------~~~  168 (235)
T TIGR03302       110 YYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR--YPNSEYAPDAKKRMD----YL------RNRL---------AGK  168 (235)
T ss_pred             HHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH--CCCChhHHHHHHHHH----HH------HHHH---------HHH
Confidence            55566666654        7889999999999875  44432 222111110    00      0000         011


Q ss_pred             HHHHHHHHhHcCCHHHHHHHHHhC----CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCC
Q 009066          312 YTCMVDLLGRAGKLVEAVDLIKKM----PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNP  372 (545)
Q Consensus       312 ~~~li~~~~~~g~~~~A~~~~~~m----~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p  372 (545)
                      ...+.+.|.+.|++++|...+++.    |-.| ....|..+..++...|++++|...++.+....|
T Consensus       169 ~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~~  234 (235)
T TIGR03302       169 ELYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANYP  234 (235)
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            235677889999999999988877    2223 346888999999999999999999888876655

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).

>PF12854 PPR_1: PPR repeat

Probab=98.46  E-value=3.2e-07  Score=55.25  Aligned_cols=32  Identities=28%  Similarity=0.484  Sum_probs=23.4

Q ss_pred             CCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC
Q 009066          304 GIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM  335 (545)
Q Consensus       304 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  335 (545)
                      |+.||..+|++||++|++.|++++|.++|++|
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            66777777777777777777777777777766

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.44  E-value=3.1e-05  Score=80.63  Aligned_cols=372  Identities=15%  Similarity=0.116  Sum_probs=187.5

Q ss_pred             HHHHHHHHHHhCCCChHHHHHHHccCCC---CChhhHHHHHHHHHcCCCCHHHHHHHHhcCCCCC-----eehHHHHHHH
Q 009066            8 NWNSVLAGFAKQRGKLKDAQELFDKIPQ---PDVVSYNIMLSCILLNSDDVVAAFDFFQRLPIKD-----TASWNTMISG   79 (545)
Q Consensus         8 ~~~~li~~~~~~g~~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~~g~~~~A~~~~~~m~~~d-----~~~~~~li~~   79 (545)
                      .|..|-..|...-+ ...|.+.|+..-+   .|..+|......|++. .+++.|..+.-...+.+     ...|....-.
T Consensus       494 af~~LG~iYrd~~D-m~RA~kCf~KAFeLDatdaeaaaa~adtyae~-~~we~a~~I~l~~~qka~a~~~k~nW~~rG~y  571 (1238)
T KOG1127|consen  494 AFAFLGQIYRDSDD-MKRAKKCFDKAFELDATDAEAAAASADTYAEE-STWEEAFEICLRAAQKAPAFACKENWVQRGPY  571 (1238)
T ss_pred             HHHHHHHHHHHHHH-HHHHHHHHHHHhcCCchhhhhHHHHHHHhhcc-ccHHHHHHHHHHHhhhchHHHHHhhhhhcccc
Confidence            45555555555554 6666666665542   3444566666666666 66666666633222111     1223333444


Q ss_pred             HHhCCCHHHHHHHHhhCCc---CCHhHHHHHHHHHHHcCChHHHHHHHhhCCCCCcccHHH-HHHHhcchhhhccCChHH
Q 009066           80 FVQKKNMAKARDLFLAMPE---KNSVSWSAMISGYIECGQLDKAVELFKVAPVKSVVAWTA-MISGYMKFGYVENSWAED  155 (545)
Q Consensus        80 ~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~~~~~~-li~~~~~~g~~~~g~~~~  155 (545)
                      |.+.++...|+.-|+....   .|...|..|..+|..+|++..|.++|.+...-++.+|-. .-.+-..   ...|.+.+
T Consensus       572 yLea~n~h~aV~~fQsALR~dPkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~LrP~s~y~~fk~A~~e---cd~GkYke  648 (1238)
T KOG1127|consen  572 YLEAHNLHGAVCEFQSALRTDPKDYNLWLGLGEAYPESGRYSHALKVFTKASLLRPLSKYGRFKEAVME---CDNGKYKE  648 (1238)
T ss_pred             ccCccchhhHHHHHHHHhcCCchhHHHHHHHHHHHHhcCceehHHHhhhhhHhcCcHhHHHHHHHHHHH---HHhhhHHH
Confidence            5566666666666665552   345566667777777777777777776655433322221 1111100   34566666


Q ss_pred             HHHHHHHHHhC------CCCCCHHHHHHHHHHHhccCcHHHHHHHHHH-------HHhCCCCCCcccHHHHHHHHHhcCC
Q 009066          156 GLKLLRMMIGL------GIRPNASSLSSVLLGCSHLSSLQLGKQVHQL-------VFKSPLCKDTTALTPLISMYCKCGD  222 (545)
Q Consensus       156 A~~~~~~m~~~------~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~-------~~~~g~~~~~~~~~~li~~y~~~g~  222 (545)
                      |+..+......      +..--..++..+...+...|-..++..+++.       .+......+...|-.+.        
T Consensus       649 ald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~l~h~~~~~~~~Wi~as--------  720 (1238)
T KOG1127|consen  649 ALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSLIHSLQSDRLQWIVAS--------  720 (1238)
T ss_pred             HHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHhhhhhHHHHHHHh--------
Confidence            66666555432      1011112222222223333332233222222       22222122222222211        


Q ss_pred             HHHHHHHHHhccCCChhh--HHHHHHH-HHHcCCh---H---HHHHHHHHHHHcCCCCCHHHHHHHHHHHHc-------c
Q 009066          223 LEDACKLFLEIQRKDVVT--WNAMISG-YAQHGKG---E---KALRLFDKMKDEGMKPDSITFVALLLACNH-------A  286 (545)
Q Consensus       223 ~~~A~~~f~~~~~~~~~~--~~~li~~-~~~~g~~---~---~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~-------~  286 (545)
                        +|..+|-... ||.+.  +..++.. .-..+..   +   -+.+.+-.-+.  ...+..+|..|...|.+       .
T Consensus       721 --dac~~f~q~e-~~~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~hls--l~~~~~~WyNLGinylr~f~~l~et  795 (1238)
T KOG1127|consen  721 --DACYIFSQEE-PSIVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIAHLS--LAIHMYPWYNLGINYLRYFLLLGET  795 (1238)
T ss_pred             --HHHHHHHHhc-ccchHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhHHHH--HhhccchHHHHhHHHHHHHHHcCCc
Confidence              2223333332 22211  1111111 1111111   1   01111111111  11122333333322221       1


Q ss_pred             -CcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC--CCCCCHhHHHHHHHHHHhcCCHHHHHHH
Q 009066          287 -GLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM--PFKPQPAIFGTLLSACRVHKRLDLAEFA  363 (545)
Q Consensus       287 -g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m--~~~p~~~~~~~li~~~~~~g~~~~A~~~  363 (545)
                       .+...|...+...++.  -..+...|++|.-+ ...|.+.-|...|-+-  ..+.+..+|..+...+.++.|++-|...
T Consensus       796 ~~~~~~Ai~c~KkaV~L--~ann~~~WnaLGVl-sg~gnva~aQHCfIks~~sep~~~~~W~NlgvL~l~n~d~E~A~~a  872 (1238)
T KOG1127|consen  796 MKDACTAIRCCKKAVSL--CANNEGLWNALGVL-SGIGNVACAQHCFIKSRFSEPTCHCQWLNLGVLVLENQDFEHAEPA  872 (1238)
T ss_pred             chhHHHHHHHHHHHHHH--hhccHHHHHHHHHh-hccchhhhhhhhhhhhhhccccchhheeccceeEEecccHHHhhHH
Confidence             1234666666666542  23445556665544 6667888777776554  2234668899999999999999999999


Q ss_pred             HHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHH
Q 009066          364 AMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLS  401 (545)
Q Consensus       364 ~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  401 (545)
                      |.+...++|.+.. .+.....+-...|+.-++..+|.-
T Consensus       873 f~~~qSLdP~nl~-~WlG~Ali~eavG~ii~~~~lfaH  909 (1238)
T KOG1127|consen  873 FSSVQSLDPLNLV-QWLGEALIPEAVGRIIERLILFAH  909 (1238)
T ss_pred             HHhhhhcCchhhH-HHHHHHHhHHHHHHHHHHHHHHHh
Confidence            9999999999988 888888888888888888877765

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.43  E-value=0.0013  Score=64.45  Aligned_cols=395  Identities=11%  Similarity=0.144  Sum_probs=222.3

Q ss_pred             CCCCccHHHHHHHHHHhCCCChHHHHHHHccCCC--CC-hhhHHHHHHHHHcCCCCHHHHHHHHhcCC--CCCeehHHHH
Q 009066            2 NVKTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQ--PD-VVSYNIMLSCILLNSDDVVAAFDFFQRLP--IKDTASWNTM   76 (545)
Q Consensus         2 ~~~~~~~~~~li~~~~~~g~~~~~A~~~f~~~~~--~~-~~~~~~li~~~~~~~g~~~~A~~~~~~m~--~~d~~~~~~l   76 (545)
                      ||-|+.+|+.||.-+... . .++++..++++..  |. ...|..-|..-... .+++....+|.+..  .-+...|..-
T Consensus        16 nP~di~sw~~lire~qt~-~-~~~~R~~YEq~~~~FP~s~r~W~~yi~~El~s-kdfe~VEkLF~RCLvkvLnlDLW~lY   92 (656)
T KOG1914|consen   16 NPYDIDSWSQLIREAQTQ-P-IDKVRETYEQLVNVFPSSPRAWKLYIERELAS-KDFESVEKLFSRCLVKVLNLDLWKLY   92 (656)
T ss_pred             CCccHHHHHHHHHHHccC-C-HHHHHHHHHHHhccCCCCcHHHHHHHHHHHHh-hhHHHHHHHHHHHHHHHhhHhHHHHH
Confidence            678999999999877766 7 9999999999884  43 44688889888888 89999999999877  3466667766


Q ss_pred             HHHHHh-CCCHHHH----HHHHhhCC------cCCHhHHHHHHHH---------HHHcCChHHHHHHHhhCCCC---Cc-
Q 009066           77 ISGFVQ-KKNMAKA----RDLFLAMP------EKNSVSWSAMISG---------YIECGQLDKAVELFKVAPVK---SV-  132 (545)
Q Consensus        77 i~~~~~-~g~~~~a----~~~~~~~~------~~~~~~~~~li~~---------~~~~g~~~~A~~~f~~~~~~---~~-  132 (545)
                      |+--.+ .|+...+    .+.|+-.+      -.+...|+..++.         |....+++..+++++++...   |. 
T Consensus        93 l~YVR~~~~~~~~~r~~m~qAy~f~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqral~tPm~nlE  172 (656)
T KOG1914|consen   93 LSYVRETKGKLFGYREKMVQAYDFALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRALVTPMHNLE  172 (656)
T ss_pred             HHHHHHHccCcchHHHHHHHHHHHHHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHhcCccccHH
Confidence            654332 3333331    22222222      1233445555543         44455677778888776532   11 


Q ss_pred             ccHHHH------HHHhcchh--hhccCChHHHHHHHHHHHh--CCCCCCHHH---------------HHHHHHH------
Q 009066          133 VAWTAM------ISGYMKFG--YVENSWAEDGLKLLRMMIG--LGIRPNASS---------------LSSVLLG------  181 (545)
Q Consensus       133 ~~~~~l------i~~~~~~g--~~~~g~~~~A~~~~~~m~~--~~~~pd~~t---------------~~~ll~~------  181 (545)
                      ..|+..      |.......  .-+...+..|.+++++...  .|+.-+..+               |..+|.-      
T Consensus       173 kLW~DY~~fE~~IN~~tarK~i~e~s~~Ym~AR~~~qel~~lt~GL~r~~~~vp~~~T~~e~~qv~~W~n~I~wEksNpL  252 (656)
T KOG1914|consen  173 KLWKDYEAFEQEINIITARKFIGERSPEYMNARRVYQELQNLTRGLNRNAPAVPPKGTKDEIQQVELWKNWIKWEKSNPL  252 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCChHHHHHHHHHHHHHHHHhcCCc
Confidence            112211      11000000  0112223334444444321  121111000               1111110      


Q ss_pred             -------------------------------------------HhccCc-------HHHHHHHHHHHHhCCCCCCcccHH
Q 009066          182 -------------------------------------------CSHLSS-------LQLGKQVHQLVFKSPLCKDTTALT  211 (545)
Q Consensus       182 -------------------------------------------~~~~~~-------~~~a~~~~~~~~~~g~~~~~~~~~  211 (545)
                                                                 +...|+       .+++..+++..+..-...+..+|.
T Consensus       253 ~t~~~~~~~~Rv~yayeQ~ll~l~~~peiWy~~s~yl~~~s~l~~~~~d~~~a~~~t~e~~~~yEr~I~~l~~~~~~Ly~  332 (656)
T KOG1914|consen  253 RTLDGTMLTRRVMYAYEQCLLYLGYHPEIWYDYSMYLIEISDLLTEKGDVPDAKSLTDEAASIYERAIEGLLKENKLLYF  332 (656)
T ss_pred             ccccccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhhHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                                                       011111       122223333222211111111222


Q ss_pred             HHHHHHHhc---CCHHHHHHHHHhccC----CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHH
Q 009066          212 PLISMYCKC---GDLEDACKLFLEIQR----KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKP-DSITFVALLLAC  283 (545)
Q Consensus       212 ~li~~y~~~---g~~~~A~~~f~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~  283 (545)
                      ++.+---..   ...+.....+++...    .-..+|-..+..-.+..-.+.|..+|.+..+.+..+ +.....+++.-+
T Consensus       333 ~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~  412 (656)
T KOG1914|consen  333 ALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYY  412 (656)
T ss_pred             HHHhhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHH
Confidence            111100000   012222333333322    123467777777777778889999999999888777 555666777655


Q ss_pred             HccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC---CCCCC--HhHHHHHHHHHHhcCCHH
Q 009066          284 NHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM---PFKPQ--PAIFGTLLSACRVHKRLD  358 (545)
Q Consensus       284 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m---~~~p~--~~~~~~li~~~~~~g~~~  358 (545)
                      + +++.+.|.++|+.-.+++|  .++.--...++-+...++-..|..+|++.   .+.|+  ..+|..++.--..-|+..
T Consensus       413 c-skD~~~AfrIFeLGLkkf~--d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~  489 (656)
T KOG1914|consen  413 C-SKDKETAFRIFELGLKKFG--DSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLN  489 (656)
T ss_pred             h-cCChhHHHHHHHHHHHhcC--CChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHH
Confidence            5 4788899999988777543  34455567888888899999999999887   22333  478999999999999999


Q ss_pred             HHHHHHHHHhcCCCCCC---chhHHHHHHHHHHcCCchHHHHHHHHh
Q 009066          359 LAEFAAMNLFNLNPANA---AGCYVQLANIYAAMKKWDDVARIRLSM  402 (545)
Q Consensus       359 ~A~~~~~~~~~~~p~~~---~~~~~~l~~~~~~~g~~~~a~~~~~~m  402 (545)
                      .+.++-++....-|.+.   ...-..+++-|.-.+....-..-++.|
T Consensus       490 si~~lekR~~~af~~~qe~~~~~~~~~v~RY~~~d~~~c~~~elk~l  536 (656)
T KOG1914|consen  490 SILKLEKRRFTAFPADQEYEGNETALFVDRYGILDLYPCSLDELKFL  536 (656)
T ss_pred             HHHHHHHHHHHhcchhhcCCCChHHHHHHHHhhcccccccHHHHHhh
Confidence            99888887766554111   114556677777777766555555444

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.42  E-value=0.00013  Score=76.20  Aligned_cols=157  Identities=15%  Similarity=0.226  Sum_probs=120.2

Q ss_pred             CCHHHHHHHHHhccCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhH
Q 009066          221 GDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMV  300 (545)
Q Consensus       221 g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~  300 (545)
                      +.++.|.+.-++..  ....|+.+..+-.+.|...+|++-|-+.      -|...|..++.++++.|.+++-.+++.-..
T Consensus      1089 ~~ldRA~efAe~~n--~p~vWsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL~MaR 1160 (1666)
T KOG0985|consen 1089 GSLDRAYEFAERCN--EPAVWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMAR 1160 (1666)
T ss_pred             hhHHHHHHHHHhhC--ChHHHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            44444444444443  3457999999999999999999988653      367789999999999999999999996655


Q ss_pred             HhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHH
Q 009066          301 NDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYV  380 (545)
Q Consensus       301 ~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~  380 (545)
                      ++ .-.|..+  +.|+-+|++.+++.+-.+++..    ||..-......-|...|.++.|.-+|...        + .|.
T Consensus      1161 kk-~~E~~id--~eLi~AyAkt~rl~elE~fi~g----pN~A~i~~vGdrcf~~~~y~aAkl~y~~v--------S-N~a 1224 (1666)
T KOG0985|consen 1161 KK-VREPYID--SELIFAYAKTNRLTELEEFIAG----PNVANIQQVGDRCFEEKMYEAAKLLYSNV--------S-NFA 1224 (1666)
T ss_pred             Hh-hcCccch--HHHHHHHHHhchHHHHHHHhcC----CCchhHHHHhHHHhhhhhhHHHHHHHHHh--------h-hHH
Confidence            54 5555554  5799999999999998777653    78877888888888999999888888654        3 677


Q ss_pred             HHHHHHHHcCCchHHHHHHHH
Q 009066          381 QLANIYAAMKKWDDVARIRLS  401 (545)
Q Consensus       381 ~l~~~~~~~g~~~~a~~~~~~  401 (545)
                      .|+..+...|.+..|...-++
T Consensus      1225 ~La~TLV~LgeyQ~AVD~aRK 1245 (1666)
T KOG0985|consen 1225 KLASTLVYLGEYQGAVDAARK 1245 (1666)
T ss_pred             HHHHHHHHHHHHHHHHHHhhh
Confidence            788888888877776654433

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

Probab=98.42  E-value=2.5e-05  Score=69.52  Aligned_cols=152  Identities=11%  Similarity=0.102  Sum_probs=109.4

Q ss_pred             HHHHHhcCCHHHHHHHHHhccCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHH
Q 009066          214 ISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGI  293 (545)
Q Consensus       214 i~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~  293 (545)
                      +-.|...|+++.+....+.+..+.        ..|...++.++++..+++..+.. +.|...|..+...+...|++++|.
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~~~--------~~~~~~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A~   93 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLADPL--------HQFASQQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNAL   93 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhCcc--------ccccCchhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHH
Confidence            456777777776655543332221        01112556677777777777653 446677888888888899999999


Q ss_pred             HHHHHhHHhcCCCCCHHHHHHHHHH-HhHcCC--HHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 009066          294 QYFDSMVNDYGIAAKPDHYTCMVDL-LGRAGK--LVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLF  368 (545)
Q Consensus       294 ~~~~~~~~~~~~~~~~~~~~~li~~-~~~~g~--~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~  368 (545)
                      ..|++..+  -.+.+...+..+..+ |...|+  .++|.+++++. ...| +...+..+...+...|++++|+..+++++
T Consensus        94 ~a~~~Al~--l~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL  171 (198)
T PRK10370         94 LAYRQALQ--LRGENAELYAALATVLYYQAGQHMTPQTREMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQKVL  171 (198)
T ss_pred             HHHHHHHH--hCCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            99988875  234567788888886 467777  58899998887 4445 56788888889999999999999999999


Q ss_pred             cCCCCCCc
Q 009066          369 NLNPANAA  376 (545)
Q Consensus       369 ~~~p~~~~  376 (545)
                      ++.|.+..
T Consensus       172 ~l~~~~~~  179 (198)
T PRK10370        172 DLNSPRVN  179 (198)
T ss_pred             hhCCCCcc
Confidence            98887764

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.41  E-value=9.5e-06  Score=68.28  Aligned_cols=95  Identities=11%  Similarity=-0.123  Sum_probs=85.8

Q ss_pred             HHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHH
Q 009066          311 HYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAA  388 (545)
Q Consensus       311 ~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~  388 (545)
                      .+..+...+...|++++|...|+.. ...| +...|..+..++...|++++|...|+++++++|++.. ++..++.++..
T Consensus        26 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~~~~-a~~~lg~~l~~  104 (144)
T PRK15359         26 TVYASGYASWQEGDYSRAVIDFSWLVMAQPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDASHPE-PVYQTGVCLKM  104 (144)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcH-HHHHHHHHHHH
Confidence            4667888899999999999999987 4445 6788999999999999999999999999999999998 99999999999


Q ss_pred             cCCchHHHHHHHHhhhCC
Q 009066          389 MKKWDDVARIRLSMKENN  406 (545)
Q Consensus       389 ~g~~~~a~~~~~~m~~~~  406 (545)
                      .|+.++|...++...+..
T Consensus       105 ~g~~~eAi~~~~~Al~~~  122 (144)
T PRK15359        105 MGEPGLAREAFQTAIKMS  122 (144)
T ss_pred             cCCHHHHHHHHHHHHHhC
Confidence            999999999999987643

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.40  E-value=0.00046  Score=70.71  Aligned_cols=69  Identities=6%  Similarity=0.047  Sum_probs=33.6

Q ss_pred             CCHHHHHHHHhcCCCCCeehHHHHHHHHHhCCCHHHHHHHHhhCCcC-CHhHHHHHHHHHHHcCChHHHHHHHhh
Q 009066           53 DDVVAAFDFFQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPEK-NSVSWSAMISGYIECGQLDKAVELFKV  126 (545)
Q Consensus        53 g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~A~~~f~~  126 (545)
                      |-+++|..+|.+..+     |..|-..|-..|.+++|+++-+.--.- =..+|.....-+-..++.+.|++.|++
T Consensus       814 gMlEeA~~lYr~ckR-----~DLlNKlyQs~g~w~eA~eiAE~~DRiHLr~Tyy~yA~~Lear~Di~~AleyyEK  883 (1416)
T KOG3617|consen  814 GMLEEALILYRQCKR-----YDLLNKLYQSQGMWSEAFEIAETKDRIHLRNTYYNYAKYLEARRDIEAALEYYEK  883 (1416)
T ss_pred             hhHHHHHHHHHHHHH-----HHHHHHHHHhcccHHHHHHHHhhccceehhhhHHHHHHHHHhhccHHHHHHHHHh
Confidence            555666666555432     333334455556666666554432111 112444444444455566666666554

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.40  E-value=3.2e-05  Score=80.50  Aligned_cols=340  Identities=14%  Similarity=0.101  Sum_probs=191.3

Q ss_pred             CCHHHHHHHHhcCCCCCe---ehHHHHHHHHHhCCCHHHHHHHHhhCCcC---CHhHHHHHHHHHHHcCChHHHHHHHhh
Q 009066           53 DDVVAAFDFFQRLPIKDT---ASWNTMISGFVQKKNMAKARDLFLAMPEK---NSVSWSAMISGYIECGQLDKAVELFKV  126 (545)
Q Consensus        53 g~~~~A~~~~~~m~~~d~---~~~~~li~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~f~~  126 (545)
                      .+...|+..|-+..+.|+   ..|..|...|...-+...|.+.|++..+-   +...+..+.+.|++..+++.|..+.-.
T Consensus       472 K~~~~al~ali~alrld~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLDatdaeaaaa~adtyae~~~we~a~~I~l~  551 (1238)
T KOG1127|consen  472 KNSALALHALIRALRLDVSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELDATDAEAAAASADTYAEESTWEEAFEICLR  551 (1238)
T ss_pred             hhHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCchhhhhHHHHHHHhhccccHHHHHHHHHH
Confidence            346667766665554433   46788888887777888888888877643   456777788888888888888877543


Q ss_pred             CCCCCc-----ccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhC
Q 009066          127 APVKSV-----VAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKS  201 (545)
Q Consensus       127 ~~~~~~-----~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~  201 (545)
                      ..+.+.     ..|--..-.|     .+.++...|+.-|+...+.. +-|...|..+..+|...|.+..|..+|..+...
T Consensus       552 ~~qka~a~~~k~nW~~rG~yy-----Lea~n~h~aV~~fQsALR~d-PkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~L  625 (1238)
T KOG1127|consen  552 AAQKAPAFACKENWVQRGPYY-----LEAHNLHGAVCEFQSALRTD-PKDYNLWLGLGEAYPESGRYSHALKVFTKASLL  625 (1238)
T ss_pred             HhhhchHHHHHhhhhhccccc-----cCccchhhHHHHHHHHhcCC-chhHHHHHHHHHHHHhcCceehHHHhhhhhHhc
Confidence            333322     2233333334     67777777777777776643 336667777778888888888888877776655


Q ss_pred             CCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccCC----------ChhhHHHHHHHHHHcCChHHHHHHHHHHHH-----
Q 009066          202 PLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRK----------DVVTWNAMISGYAQHGKGEKALRLFDKMKD-----  266 (545)
Q Consensus       202 g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~----------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----  266 (545)
                      . |.+...---...+-+..|++.+|...+..+...          -..++-.+...+.-.|-..+|.+.++.-++     
T Consensus       626 r-P~s~y~~fk~A~~ecd~GkYkeald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~  704 (1238)
T KOG1127|consen  626 R-PLSKYGRFKEAVMECDNGKYKEALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVS  704 (1238)
T ss_pred             C-cHhHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHH
Confidence            3 122222222334455667777777776665421          112233333333333433344444333221     


Q ss_pred             --cCCCCCHHHHHHHHHHH-----------------------HccCcH---H---HHHHHHHHhHHhcCCCCCHHHHHHH
Q 009066          267 --EGMKPDSITFVALLLAC-----------------------NHAGLV---D---LGIQYFDSMVNDYGIAAKPDHYTCM  315 (545)
Q Consensus       267 --~g~~p~~~t~~~ll~a~-----------------------~~~g~~---~---~a~~~~~~~~~~~~~~~~~~~~~~l  315 (545)
                        .....|...|..+-.+|                       -..+..   |   -|.+.+-.-.   .+..++.+|..|
T Consensus       705 l~h~~~~~~~~Wi~asdac~~f~q~e~~~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~hl---sl~~~~~~WyNL  781 (1238)
T KOG1127|consen  705 LIHSLQSDRLQWIVASDACYIFSQEEPSIVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIAHL---SLAIHMYPWYNL  781 (1238)
T ss_pred             HHHhhhhhHHHHHHHhHHHHHHHHhcccchHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhHHH---HHhhccchHHHH
Confidence              11111111111111111                       111111   1   1111111111   112223344444


Q ss_pred             HHHHhH----cC----CHHHHHHHHHhC-CC-CCCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHH
Q 009066          316 VDLLGR----AG----KLVEAVDLIKKM-PF-KPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANI  385 (545)
Q Consensus       316 i~~~~~----~g----~~~~A~~~~~~m-~~-~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~  385 (545)
                      +.-|.+    +|    +...|...+.+. .. ..+...|+.|.-. ..-|++.-|...|-+....+|.... +|..+.-.
T Consensus       782 Ginylr~f~~l~et~~~~~~Ai~c~KkaV~L~ann~~~WnaLGVl-sg~gnva~aQHCfIks~~sep~~~~-~W~NlgvL  859 (1238)
T KOG1127|consen  782 GINYLRYFLLLGETMKDACTAIRCCKKAVSLCANNEGLWNALGVL-SGIGNVACAQHCFIKSRFSEPTCHC-QWLNLGVL  859 (1238)
T ss_pred             hHHHHHHHHHcCCcchhHHHHHHHHHHHHHHhhccHHHHHHHHHh-hccchhhhhhhhhhhhhhccccchh-heecccee
Confidence            444433    11    233566666654 22 2455677777665 6667888888888888888888877 88888888


Q ss_pred             HHHcCCchHHHHHHHHhhh
Q 009066          386 YAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       386 ~~~~g~~~~a~~~~~~m~~  404 (545)
                      +.+..+++.|...|.+...
T Consensus       860 ~l~n~d~E~A~~af~~~qS  878 (1238)
T KOG1127|consen  860 VLENQDFEHAEPAFSSVQS  878 (1238)
T ss_pred             EEecccHHHhhHHHHhhhh
Confidence            8888888888888877655

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.39  E-value=0.0003  Score=68.83  Aligned_cols=366  Identities=15%  Similarity=0.091  Sum_probs=226.3

Q ss_pred             CCCCCccHHHHHHHHHHhCCCChHHHHHHHccCC--CCCh-hhHHHHHHHHHcCCCCHHHHHHHHhcCC--CC-CeehHH
Q 009066            1 MNVKTTVNWNSVLAGFAKQRGKLKDAQELFDKIP--QPDV-VSYNIMLSCILLNSDDVVAAFDFFQRLP--IK-DTASWN   74 (545)
Q Consensus         1 ~~~~~~~~~~~li~~~~~~g~~~~~A~~~f~~~~--~~~~-~~~~~li~~~~~~~g~~~~A~~~~~~m~--~~-d~~~~~   74 (545)
                      +.|++.+.|..=..+|++.|+ +++|.+=-.+-.  .|+- ..|+-.-.++... |++++|+.-|.+-.  .| |...++
T Consensus        31 l~p~nhvlySnrsaa~a~~~~-~~~al~da~k~~~l~p~w~kgy~r~Gaa~~~l-g~~~eA~~ay~~GL~~d~~n~~L~~  108 (539)
T KOG0548|consen   31 LSPTNHVLYSNRSAAYASLGS-YEKALKDATKTRRLNPDWAKGYSRKGAALFGL-GDYEEAILAYSEGLEKDPSNKQLKT  108 (539)
T ss_pred             cCCCccchhcchHHHHHHHhh-HHHHHHHHHHHHhcCCchhhHHHHhHHHHHhc-ccHHHHHHHHHHHhhcCCchHHHHH
Confidence            467789999999999999999 999987665554  3543 2467677777777 99999999999877  23 445666


Q ss_pred             HHHHHHHhCCCHHHHHHHHh------hCC-cC------CHhHHHHHHH----------HHHHcCChHHHHHHHhh-----
Q 009066           75 TMISGFVQKKNMAKARDLFL------AMP-EK------NSVSWSAMIS----------GYIECGQLDKAVELFKV-----  126 (545)
Q Consensus        75 ~li~~~~~~g~~~~a~~~~~------~~~-~~------~~~~~~~li~----------~~~~~g~~~~A~~~f~~-----  126 (545)
                      -+..++...  . ++.+.|.      ... .|      ....|..++.          .|..-.++..|.-++..     
T Consensus       109 gl~~a~~~~--~-~~~~~~~~p~~~~~l~~~p~t~~~~~~~~~~~~l~~~~~~p~~l~~~l~d~r~m~a~~~l~~~~~~~  185 (539)
T KOG0548|consen  109 GLAQAYLED--Y-AADQLFTKPYFHEKLANLPLTNYSLSDPAYVKILEIIQKNPTSLKLYLNDPRLMKADGQLKGVDELL  185 (539)
T ss_pred             hHHHhhhHH--H-HhhhhccCcHHHHHhhcChhhhhhhccHHHHHHHHHhhcCcHhhhcccccHHHHHHHHHHhcCcccc
Confidence            666665111  0 1111111      110 00      0011111111          12221222223222210     


Q ss_pred             -----------CCCC------------Cc----------ccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHH
Q 009066          127 -----------APVK------------SV----------VAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNAS  173 (545)
Q Consensus       127 -----------~~~~------------~~----------~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~  173 (545)
                                 +..|            |.          .....+.+..     -+..++..|++-+.......  -+..
T Consensus       186 ~~~~~~~~~~~~~~p~~~~~~~~~~~~d~~ee~~~k~~a~~ek~lgnaa-----ykkk~f~~a~q~y~~a~el~--~~it  258 (539)
T KOG0548|consen  186 FYASGIEILASMAEPCKQEHNGFPIIEDNTEERRVKEKAHKEKELGNAA-----YKKKDFETAIQHYAKALELA--TDIT  258 (539)
T ss_pred             ccccccccCCCCCCcccccCCCCCccchhHHHHHHHHhhhHHHHHHHHH-----HHhhhHHHHHHHHHHHHhHh--hhhH
Confidence                       0011            00          1244566666     67778888998888887654  3444


Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCC------cccHHHHHHHHHhcCCHHHHHHHHHhccCCChhhHHHHHHH
Q 009066          174 SLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKD------TTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISG  247 (545)
Q Consensus       174 t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~------~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~  247 (545)
                      -++....++...|.+.+....-...++.|...-      .....-+..+|.+.++++.|...|++...+...     -..
T Consensus       259 ~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre~rad~klIak~~~r~g~a~~k~~~~~~ai~~~~kaLte~Rt-----~~~  333 (539)
T KOG0548|consen  259 YLNNIAAVYLERGKYAECIELCEKAVEVGRELRADYKLIAKALARLGNAYTKREDYEGAIKYYQKALTEHRT-----PDL  333 (539)
T ss_pred             HHHHHHHHHHhccHHHHhhcchHHHHHHhHHHHHHHHHHHHHHHHhhhhhhhHHhHHHHHHHHHHHhhhhcC-----HHH
Confidence            455555667888887777766666665542210      011222455888889999999999986542111     112


Q ss_pred             HHHcCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHH
Q 009066          248 YAQHGKGEKALRLFDKMKDEGMKPDSI-TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLV  326 (545)
Q Consensus       248 ~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  326 (545)
                      ..+....++++...+...-.  .|... -...-...+.+.|++..|...+.++++.  .+.|...|....-+|.+.|.+.
T Consensus       334 ls~lk~~Ek~~k~~e~~a~~--~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAIkr--~P~Da~lYsNRAac~~kL~~~~  409 (539)
T KOG0548|consen  334 LSKLKEAEKALKEAERKAYI--NPEKAEEEREKGNEAFKKGDYPEAVKHYTEAIKR--DPEDARLYSNRAACYLKLGEYP  409 (539)
T ss_pred             HHHHHHHHHHHHHHHHHHhh--ChhHHHHHHHHHHHHHhccCHHHHHHHHHHHHhc--CCchhHHHHHHHHHHHHHhhHH
Confidence            22334455666555554432  33332 1222355677899999999999999874  3667899999999999999999


Q ss_pred             HHHHHHHhC-CCCCC-HhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHH
Q 009066          327 EAVDLIKKM-PFKPQ-PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAA  388 (545)
Q Consensus       327 ~A~~~~~~m-~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~  388 (545)
                      .|++-.+.. ...|+ ...|..-..++....+++.|...|.+.++.+|++.. ....+.++...
T Consensus       410 ~aL~Da~~~ieL~p~~~kgy~RKg~al~~mk~ydkAleay~eale~dp~~~e-~~~~~~rc~~a  472 (539)
T KOG0548|consen  410 EALKDAKKCIELDPNFIKAYLRKGAALRAMKEYDKALEAYQEALELDPSNAE-AIDGYRRCVEA  472 (539)
T ss_pred             HHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCchhHH-HHHHHHHHHHH
Confidence            998876655 33454 355666667777788999999999999999999875 44455554443

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.39  E-value=0.00066  Score=62.98  Aligned_cols=150  Identities=17%  Similarity=0.078  Sum_probs=79.4

Q ss_pred             HHHHHHHHHhccCC-----ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHH
Q 009066          223 LEDACKLFLEIQRK-----DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFD  297 (545)
Q Consensus       223 ~~~A~~~f~~~~~~-----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~  297 (545)
                      +.-|.+.|+-.-+.     .+.--.+|.+.+.-..++++.+-++......=.. |...-..+..|.+..|++.+|.++|-
T Consensus       339 lKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sYF~N-dD~Fn~N~AQAk~atgny~eaEelf~  417 (557)
T KOG3785|consen  339 LKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESYFTN-DDDFNLNLAQAKLATGNYVEAEELFI  417 (557)
T ss_pred             HHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-cchhhhHHHHHHHHhcChHHHHHHHh
Confidence            44455555544321     2233455555555556666666666665543222 22222245566666677777777665


Q ss_pred             HhHHhcCCCCCHHHH-HHHHHHHhHcCCHHHHHHHHHhCCCCCCHhHHHHHH-HHHHhcCCHHHHHHHHHHHhcCCCCCC
Q 009066          298 SMVNDYGIAAKPDHY-TCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLL-SACRVHKRLDLAEFAAMNLFNLNPANA  375 (545)
Q Consensus       298 ~~~~~~~~~~~~~~~-~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~li-~~~~~~g~~~~A~~~~~~~~~~~p~~~  375 (545)
                      .+... .+ .+..+| ..|..+|.+++..+-|.+++-++.-..+..+.-.+| .-|-+.+.+--|-+.|..+..++|++.
T Consensus       418 ~is~~-~i-kn~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lDP~pE  495 (557)
T KOG3785|consen  418 RISGP-EI-KNKILYKSMLARCYIRNKKPQLAWDMMLKTNTPSERFSLLQLIANDCYKANEFYYAAKAFDELEILDPTPE  495 (557)
T ss_pred             hhcCh-hh-hhhHHHHHHHHHHHHhcCCchHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccCCCcc
Confidence            44321 11 233333 345566667777777777766664323333333333 356666666666666766666666653

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

Probab=98.39  E-value=2e-05  Score=77.47  Aligned_cols=222  Identities=12%  Similarity=0.063  Sum_probs=170.4

Q ss_pred             hccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHH
Q 009066          148 VENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDAC  227 (545)
Q Consensus       148 ~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~  227 (545)
                      .++|+..+|.-.|+..++.+ +-+...|..|....+..++-..|+..+.+.++.. +.+..+.-+|.-.|...|.-..|.
T Consensus       296 m~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~Ld-P~NleaLmaLAVSytNeg~q~~Al  373 (579)
T KOG1125|consen  296 MKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELD-PTNLEALMALAVSYTNEGLQNQAL  373 (579)
T ss_pred             HhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcC-CccHHHHHHHHHHHhhhhhHHHHH
Confidence            78899999999999998875 4467789999999999999999999999999876 556778888889999999999999


Q ss_pred             HHHHhccCCC-hhhHHHHH---------HHHHHcCChHHHHHHHHHHHH-cCCCCCHHHHHHHHHHHHccCcHHHHHHHH
Q 009066          228 KLFLEIQRKD-VVTWNAMI---------SGYAQHGKGEKALRLFDKMKD-EGMKPDSITFVALLLACNHAGLVDLGIQYF  296 (545)
Q Consensus       228 ~~f~~~~~~~-~~~~~~li---------~~~~~~g~~~~A~~~~~~m~~-~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~  296 (545)
                      +.|+.-.... ...|....         ..+..........++|-++.. .+..+|......|--.|--.|.++.|...|
T Consensus       374 ~~L~~Wi~~~p~y~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiDcf  453 (579)
T KOG1125|consen  374 KMLDKWIRNKPKYVHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVDCF  453 (579)
T ss_pred             HHHHHHHHhCccchhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHHHH
Confidence            9998763210 00110000         111222234455666666654 453456666666666678889999999999


Q ss_pred             HHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCCCH-hHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCC
Q 009066          297 DSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQP-AIFGTLLSACRVHKRLDLAEFAAMNLFNLNPA  373 (545)
Q Consensus       297 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~  373 (545)
                      +.....  -+-|...||-|...++...+.++|+..|++. .++|+- .++..|.-.|...|.+++|...|-.++.+.+.
T Consensus       454 ~~AL~v--~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~mq~k  530 (579)
T KOG1125|consen  454 EAALQV--KPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALSMQRK  530 (579)
T ss_pred             HHHHhc--CCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHHhhhc
Confidence            999863  2445788999999999999999999999988 778875 68888999999999999999999888776544

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.39  E-value=3.7e-05  Score=81.05  Aligned_cols=191  Identities=9%  Similarity=0.048  Sum_probs=139.6

Q ss_pred             HHHHHHHHhccCcHHHH-HHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhcc---CCChhhHHHHHHHHHH
Q 009066          175 LSSVLLGCSHLSSLQLG-KQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQ---RKDVVTWNAMISGYAQ  250 (545)
Q Consensus       175 ~~~ll~~~~~~~~~~~a-~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~---~~~~~~~~~li~~~~~  250 (545)
                      ...+=.+.+..|..+++ +++++++.+            ++...+......++..-.....   ..++..+-.|.....+
T Consensus        31 ~~~~~~~~~~~~~~~~~~~~~~~~~~~------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~La~i~~~   98 (694)
T PRK15179         31 LDLLEAALAEPGESEEAGRELLQQARQ------------VLERHAAVHKPAAALPELLDYVRRYPHTELFQVLVARALEA   98 (694)
T ss_pred             HhHHHHHhcCcccchhHHHHHHHHHHH------------HHHHhhhhcchHhhHHHHHHHHHhccccHHHHHHHHHHHHH
Confidence            33333445666665554 677777653            3443333333333222222211   1357888889999999


Q ss_pred             cCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHH
Q 009066          251 HGKGEKALRLFDKMKDEGMKPDSI-TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAV  329 (545)
Q Consensus       251 ~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  329 (545)
                      .|.+++|..+++...+  ..||.. ....+...+.+.+.+++|...+++...  .-+.+......+..++.+.|++++|.
T Consensus        99 ~g~~~ea~~~l~~~~~--~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~--~~p~~~~~~~~~a~~l~~~g~~~~A~  174 (694)
T PRK15179         99 AHRSDEGLAVWRGIHQ--RFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFS--GGSSSAREILLEAKSWDEIGQSEQAD  174 (694)
T ss_pred             cCCcHHHHHHHHHHHh--hCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhh--cCCCCHHHHHHHHHHHHHhcchHHHH
Confidence            9999999999999998  467654 566777899999999999999999886  44556788889999999999999999


Q ss_pred             HHHHhC-CCCCC-HhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHH
Q 009066          330 DLIKKM-PFKPQ-PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQL  382 (545)
Q Consensus       330 ~~~~~m-~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l  382 (545)
                      ++|++. ...|+ ...|.++..++...|+.++|...|+++++...+... .|+.+
T Consensus       175 ~~y~~~~~~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~~~~~-~~~~~  228 (694)
T PRK15179        175 ACFERLSRQHPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAIGDGAR-KLTRR  228 (694)
T ss_pred             HHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhCcchH-HHHHH
Confidence            999998 23344 688999999999999999999999999887655443 44433

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

Probab=98.39  E-value=0.00036  Score=64.45  Aligned_cols=300  Identities=11%  Similarity=0.052  Sum_probs=203.8

Q ss_pred             HHHHHHHhCCCChHHHHHHHccCCCCChhhHHHHHH---HHHcCCCCHHHHHHHHhcCC--CCCeeh-HHHHHHHHHhCC
Q 009066           11 SVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLS---CILLNSDDVVAAFDFFQRLP--IKDTAS-WNTMISGFVQKK   84 (545)
Q Consensus        11 ~li~~~~~~g~~~~~A~~~f~~~~~~~~~~~~~li~---~~~~~~g~~~~A~~~~~~m~--~~d~~~-~~~li~~~~~~g   84 (545)
                      -|-+.+...|+ +.+|+.-|....+-|+-.|-++.+   .|+.. |+-..|+.=|.+..  +||-.. --.-...+.+.|
T Consensus        43 ElGk~lla~~Q-~sDALt~yHaAve~dp~~Y~aifrRaT~yLAm-Gksk~al~Dl~rVlelKpDF~~ARiQRg~vllK~G  120 (504)
T KOG0624|consen   43 ELGKELLARGQ-LSDALTHYHAAVEGDPNNYQAIFRRATVYLAM-GKSKAALQDLSRVLELKPDFMAARIQRGVVLLKQG  120 (504)
T ss_pred             HHHHHHHHhhh-HHHHHHHHHHHHcCCchhHHHHHHHHHHHhhh-cCCccchhhHHHHHhcCccHHHHHHHhchhhhhcc
Confidence            34556666788 999999999888777777776653   56666 77777777777766  555321 122235678999


Q ss_pred             CHHHHHHHHhhCCcCCHhHHHHHHHHHHHcCChHHHHHHHhhCCCCCcccHHHHHHHhcchhhhccCChHHHHHHHHHHH
Q 009066           85 NMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMI  164 (545)
Q Consensus        85 ~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~  164 (545)
                      .+++|..-|+.++..++. -+....++.+.-..++-+.+.            ..+..+     ..+|+...|++....++
T Consensus       121 ele~A~~DF~~vl~~~~s-~~~~~eaqskl~~~~e~~~l~------------~ql~s~-----~~~GD~~~ai~~i~~ll  182 (504)
T KOG0624|consen  121 ELEQAEADFDQVLQHEPS-NGLVLEAQSKLALIQEHWVLV------------QQLKSA-----SGSGDCQNAIEMITHLL  182 (504)
T ss_pred             cHHHHHHHHHHHHhcCCC-cchhHHHHHHHHhHHHHHHHH------------HHHHHH-----hcCCchhhHHHHHHHHH
Confidence            999999999998854331 112223333333333333322            233344     56788888888888887


Q ss_pred             hCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccCCChh-----
Q 009066          165 GLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVV-----  239 (545)
Q Consensus       165 ~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~-----  239 (545)
                      +-. +.|...+..-..+|...|.+..|..=+..+-+.. ..+....-.+-..+...|+.+.++....+..+-|+.     
T Consensus       183 Ei~-~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKldpdHK~Cf  260 (504)
T KOG0624|consen  183 EIQ-PWDASLRQARAKCYIAEGEPKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAENSLKEIRECLKLDPDHKLCF  260 (504)
T ss_pred             hcC-cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHHHHHHHHHHHHccCcchhhHH
Confidence            642 4477777777778888888888877777776654 234444455677778888888888888777653221     


Q ss_pred             -hHHHH---------HHHHHHcCChHHHHHHHHHHHHcCCCCCHHHH---HHHHHHHHccCcHHHHHHHHHHhHHhcCCC
Q 009066          240 -TWNAM---------ISGYAQHGKGEKALRLFDKMKDEGMKPDSITF---VALLLACNHAGLVDLGIQYFDSMVNDYGIA  306 (545)
Q Consensus       240 -~~~~l---------i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~---~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~  306 (545)
                       .|-.+         +......+++.++++..+...+.......+++   ..+-.++...+.+.+|++...++..   +.
T Consensus       261 ~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~---~d  337 (504)
T KOG0624|consen  261 PFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLD---ID  337 (504)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHHHHHh---cC
Confidence             12111         22345678899999999888876444333443   3455667788999999999988874   45


Q ss_pred             CC-HHHHHHHHHHHhHcCCHHHHHHHHHhC
Q 009066          307 AK-PDHYTCMVDLLGRAGKLVEAVDLIKKM  335 (545)
Q Consensus       307 ~~-~~~~~~li~~~~~~g~~~~A~~~~~~m  335 (545)
                      |+ +.++.--.++|.-...+++|+.-|+..
T Consensus       338 ~~dv~~l~dRAeA~l~dE~YD~AI~dye~A  367 (504)
T KOG0624|consen  338 PDDVQVLCDRAEAYLGDEMYDDAIHDYEKA  367 (504)
T ss_pred             chHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            55 889988999999999999999999887

>PLN02789 farnesyltranstransferase

Probab=98.38  E-value=0.00021  Score=68.41  Aligned_cols=200  Identities=13%  Similarity=0.084  Sum_probs=127.8

Q ss_pred             hccCChHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHhccC-cHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCH--
Q 009066          148 VENSWAEDGLKLLRMMIGLGIRPN-ASSLSSVLLGCSHLS-SLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDL--  223 (545)
Q Consensus       148 ~~~g~~~~A~~~~~~m~~~~~~pd-~~t~~~ll~~~~~~~-~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~--  223 (545)
                      ...++.++|+.+..++++.  .|+ ...|+.--.++...+ .++++...+..+++.. +.+..+|+....++.+.|+.  
T Consensus        48 ~~~e~serAL~lt~~aI~l--nP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~n-pknyqaW~~R~~~l~~l~~~~~  124 (320)
T PLN02789         48 ASDERSPRALDLTADVIRL--NPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDN-PKNYQIWHHRRWLAEKLGPDAA  124 (320)
T ss_pred             HcCCCCHHHHHHHHHHHHH--CchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHC-CcchHHhHHHHHHHHHcCchhh
Confidence            5667778888888887764  343 334554444555556 5678888888877765 34455566555555566653  


Q ss_pred             HHHHHHHHhccC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHcc---Cc----HHHHH
Q 009066          224 EDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHA---GL----VDLGI  293 (545)
Q Consensus       224 ~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~---g~----~~~a~  293 (545)
                      +++..+++++.+   +|..+|+.....+...|+++++++.++++++.++. |...|+.....+.+.   |.    .++..
T Consensus       125 ~~el~~~~kal~~dpkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~-N~sAW~~R~~vl~~~~~l~~~~~~~e~el  203 (320)
T PLN02789        125 NKELEFTRKILSLDAKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVR-NNSAWNQRYFVITRSPLLGGLEAMRDSEL  203 (320)
T ss_pred             HHHHHHHHHHHHhCcccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCC-chhHHHHHHHHHHhccccccccccHHHHH
Confidence            567777777664   46778888888888888899999999998886544 444555444444333   22    24566


Q ss_pred             HHHHHhHHhcCCCCCHHHHHHHHHHHhHc----CCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHh
Q 009066          294 QYFDSMVNDYGIAAKPDHYTCMVDLLGRA----GKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRV  353 (545)
Q Consensus       294 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~----g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~  353 (545)
                      ++...++.  ..+-+...|+-+..+|...    ++..+|.+++.+. ...| +......|+..|+.
T Consensus       204 ~y~~~aI~--~~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~~~s~~al~~l~d~~~~  267 (320)
T PLN02789        204 KYTIDAIL--ANPRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKDSNHVFALSDLLDLLCE  267 (320)
T ss_pred             HHHHHHHH--hCCCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhcccCCcHHHHHHHHHHHHh
Confidence            66655554  2355667777777777663    3456677777765 3333 45566777777764

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

Probab=98.37  E-value=7e-05  Score=66.75  Aligned_cols=154  Identities=14%  Similarity=0.137  Sum_probs=85.2

Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhH
Q 009066          242 NAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGR  321 (545)
Q Consensus       242 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~  321 (545)
                      ..+-..+...|+-+.+..+..+.... ..-|............+.|++.+|...+.+...  .-++|...|+.+.-+|.+
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~-~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~--l~p~d~~~~~~lgaaldq  146 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIA-YPKDRELLAAQGKNQIRNGNFGEAVSVLRKAAR--LAPTDWEAWNLLGAALDQ  146 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhcc-CcccHHHHHHHHHHHHHhcchHHHHHHHHHHhc--cCCCChhhhhHHHHHHHH
Confidence            33444455555555555555543321 111222333355555566666666666666554  445556666666666666


Q ss_pred             cCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHH
Q 009066          322 AGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIR  399 (545)
Q Consensus       322 ~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~  399 (545)
                      .|++++|..-|.+. .+.| +....+.|...+...|+.+.|+.++.......+.++. .-..|..+-...|++++|..+-
T Consensus       147 ~Gr~~~Ar~ay~qAl~L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~ad~~-v~~NLAl~~~~~g~~~~A~~i~  225 (257)
T COG5010         147 LGRFDEARRAYRQALELAPNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAADSR-VRQNLALVVGLQGDFREAEDIA  225 (257)
T ss_pred             ccChhHHHHHHHHHHHhccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCCchH-HHHHHHHHHhhcCChHHHHhhc
Confidence            66666666655554 2223 3455566666666666666666666666665555555 5556666666666666665543

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

Probab=98.33  E-value=4.6e-05  Score=67.91  Aligned_cols=134  Identities=16%  Similarity=0.123  Sum_probs=113.5

Q ss_pred             CCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC--CCCCCHhHHHHH
Q 009066          270 KPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM--PFKPQPAIFGTL  347 (545)
Q Consensus       270 ~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m--~~~p~~~~~~~l  347 (545)
                      .|+......+-.++...|+-+....+......  ..+.+......++....+.|++.+|...|++.  +-.+|...|+.+
T Consensus        63 ~p~d~~i~~~a~a~~~~G~a~~~l~~~~~~~~--~~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~p~d~~~~~~l  140 (257)
T COG5010          63 NPEDLSIAKLATALYLRGDADSSLAVLQKSAI--AYPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLAPTDWEAWNLL  140 (257)
T ss_pred             CcchHHHHHHHHHHHhcccccchHHHHhhhhc--cCcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccCCCChhhhhHH
Confidence            45443335566778888888888888877654  34556677778999999999999999999998  444688999999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhhCC
Q 009066          348 LSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENN  406 (545)
Q Consensus       348 i~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  406 (545)
                      ..+|.+.|+++.|...|.+.+++.|+++. .++.|+..|.-.|+.++|..++......+
T Consensus       141 gaaldq~Gr~~~Ar~ay~qAl~L~~~~p~-~~nNlgms~~L~gd~~~A~~lll~a~l~~  198 (257)
T COG5010         141 GAALDQLGRFDEARRAYRQALELAPNEPS-IANNLGMSLLLRGDLEDAETLLLPAYLSP  198 (257)
T ss_pred             HHHHHHccChhHHHHHHHHHHHhccCCch-hhhhHHHHHHHcCCHHHHHHHHHHHHhCC
Confidence            99999999999999999999999999998 99999999999999999999998877654

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.32  E-value=1.4e-05  Score=66.39  Aligned_cols=119  Identities=11%  Similarity=0.049  Sum_probs=97.7

Q ss_pred             HHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHH
Q 009066          309 PDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIY  386 (545)
Q Consensus       309 ~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~  386 (545)
                      ....-.+...+...|++++|.++|+-+ .+.| +..-|-.|...+...|++++|+..|..+..++|+++. ++..++.++
T Consensus        35 l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~ddp~-~~~~ag~c~  113 (157)
T PRK15363         35 LNTLYRYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKIDAPQ-APWAAAECY  113 (157)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCch-HHHHHHHHH
Confidence            344556677778899999999999987 3445 5678899999999999999999999999999999999 999999999


Q ss_pred             HHcCCchHHHHHHHHhhhCCCccCCceeEEEECCEEEEEecCCCCCCChHHHHHHHHHHHHHHHH
Q 009066          387 AAMKKWDDVARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKL  451 (545)
Q Consensus       387 ~~~g~~~~a~~~~~~m~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~m~~  451 (545)
                      ...|+.+.|++.|+......                     +  .+|+-.++..+++..++.+.+
T Consensus       114 L~lG~~~~A~~aF~~Ai~~~---------------------~--~~~~~~~l~~~A~~~L~~l~~  155 (157)
T PRK15363        114 LACDNVCYAIKALKAVVRIC---------------------G--EVSEHQILRQRAEKMLQQLSD  155 (157)
T ss_pred             HHcCCHHHHHHHHHHHHHHh---------------------c--cChhHHHHHHHHHHHHHHhhc
Confidence            99999999999999876532                     1  246667777777776666543

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

Probab=98.31  E-value=4e-05  Score=77.39  Aligned_cols=194  Identities=13%  Similarity=0.082  Sum_probs=98.5

Q ss_pred             CCCCcccHHHHHHHHHhcCCHHHHHHHHHhccCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 009066          203 LCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLA  282 (545)
Q Consensus       203 ~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a  282 (545)
                      ++|--..-..+...+.++|-...|..+|++.     ..|...|.+|+..|+..+|..+..+-.+  -+||..-|..+...
T Consensus       394 lpp~Wq~q~~laell~slGitksAl~I~Erl-----emw~~vi~CY~~lg~~~kaeei~~q~le--k~~d~~lyc~LGDv  466 (777)
T KOG1128|consen  394 LPPIWQLQRLLAELLLSLGITKSALVIFERL-----EMWDPVILCYLLLGQHGKAEEINRQELE--KDPDPRLYCLLGDV  466 (777)
T ss_pred             CCCcchHHHHHHHHHHHcchHHHHHHHHHhH-----HHHHHHHHHHHHhcccchHHHHHHHHhc--CCCcchhHHHhhhh
Confidence            3444444455556666666666666666543     2455556666666666666666555554  24555555555555


Q ss_pred             HHccCcHHHHHHHHHHhHHh--c------------------------CCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-
Q 009066          283 CNHAGLVDLGIQYFDSMVND--Y------------------------GIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-  335 (545)
Q Consensus       283 ~~~~g~~~~a~~~~~~~~~~--~------------------------~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-  335 (545)
                      .....-+++|.++++....+  +                        --+....+|-.+.-+..+.++.+.|.+.|... 
T Consensus       467 ~~d~s~yEkawElsn~~sarA~r~~~~~~~~~~~fs~~~~hle~sl~~nplq~~~wf~~G~~ALqlek~q~av~aF~rcv  546 (777)
T KOG1128|consen  467 LHDPSLYEKAWELSNYISARAQRSLALLILSNKDFSEADKHLERSLEINPLQLGTWFGLGCAALQLEKEQAAVKAFHRCV  546 (777)
T ss_pred             ccChHHHHHHHHHhhhhhHHHHHhhccccccchhHHHHHHHHHHHhhcCccchhHHHhccHHHHHHhhhHHHHHHHHHHh
Confidence            44444455555544433221  0                        11222344444444445555555555555443 


Q ss_pred             CCCCCH-hHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhh
Q 009066          336 PFKPQP-AIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       336 ~~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  404 (545)
                      ...||. ..||.+-.+|.+.|+..+|...+.++++-+-.+.. .+..-.-...+.|.|++|.+.+.++.+
T Consensus       547 tL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~~~w~-iWENymlvsvdvge~eda~~A~~rll~  615 (777)
T KOG1128|consen  547 TLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNYQHWQ-IWENYMLVSVDVGEFEDAIKAYHRLLD  615 (777)
T ss_pred             hcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCCCCCe-eeechhhhhhhcccHHHHHHHHHHHHH
Confidence            333432 45555555555555555555555555554433333 444444444555555555555555543

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.29  E-value=0.00022  Score=75.41  Aligned_cols=142  Identities=11%  Similarity=0.067  Sum_probs=117.6

Q ss_pred             CCCCcccHHHHHHHHHhcCCHHHHHHHHHhccC--C-ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHH-HHH
Q 009066          203 LCKDTTALTPLISMYCKCGDLEDACKLFLEIQR--K-DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSIT-FVA  278 (545)
Q Consensus       203 ~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t-~~~  278 (545)
                      .+.++..+-.|.......|.+++|..+++...+  | +...+..++..+.+.+++++|+..+++....  .|+..+ ...
T Consensus        82 ~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~--~p~~~~~~~~  159 (694)
T PRK15179         82 YPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSG--GSSSAREILL  159 (694)
T ss_pred             ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhc--CCCCHHHHHH
Confidence            456688888899999999999999999999875  4 5667888999999999999999999999985  566554 455


Q ss_pred             HHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC--CCCCCHhHHHHHH
Q 009066          279 LLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM--PFKPQPAIFGTLL  348 (545)
Q Consensus       279 ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m--~~~p~~~~~~~li  348 (545)
                      +..++.+.|++++|..+|+++..  ..+-+...+..+..++...|+.++|...|++.  ...|....|+.++
T Consensus       160 ~a~~l~~~g~~~~A~~~y~~~~~--~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~~~~~~~~~~~  229 (694)
T PRK15179        160 EAKSWDEIGQSEQADACFERLSR--QHPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAIGDGARKLTRRL  229 (694)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHh--cCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhCcchHHHHHHH
Confidence            66788899999999999999986  33455788999999999999999999999988  3335555655554

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.28  E-value=0.0068  Score=63.24  Aligned_cols=380  Identities=13%  Similarity=0.142  Sum_probs=214.1

Q ss_pred             CCChHHHHHHHccCC--CCChhhHHHHHHH--HHcCCCCHHHHHHHHhcCC---CCCeehHHHHHHHHHhCCCHHHHHHH
Q 009066           20 RGKLKDAQELFDKIP--QPDVVSYNIMLSC--ILLNSDDVVAAFDFFQRLP---IKDTASWNTMISGFVQKKNMAKARDL   92 (545)
Q Consensus        20 g~~~~~A~~~f~~~~--~~~~~~~~~li~~--~~~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~g~~~~a~~~   92 (545)
                      ++ +.+|.+..+++.  .||.. |...+.+  ..+. |+.++|..+++...   ..|..|..++-..|...|+.++|..+
T Consensus        23 ~q-fkkal~~~~kllkk~Pn~~-~a~vLkaLsl~r~-gk~~ea~~~Le~~~~~~~~D~~tLq~l~~~y~d~~~~d~~~~~   99 (932)
T KOG2053|consen   23 SQ-FKKALAKLGKLLKKHPNAL-YAKVLKALSLFRL-GKGDEALKLLEALYGLKGTDDLTLQFLQNVYRDLGKLDEAVHL   99 (932)
T ss_pred             HH-HHHHHHHHHHHHHHCCCcH-HHHHHHHHHHHHh-cCchhHHHHHhhhccCCCCchHHHHHHHHHHHHHhhhhHHHHH
Confidence            55 777877777765  46654 3334443  3566 99999999988776   34778999999999999999999999


Q ss_pred             HhhCCc--CCHhHHHHHHHHHHHcCChHH----HHHHHhhCCCCCcccHHHHHHHhcchhhhcc-----CChHHHHHHHH
Q 009066           93 FLAMPE--KNSVSWSAMISGYIECGQLDK----AVELFKVAPVKSVVAWTAMISGYMKFGYVEN-----SWAEDGLKLLR  161 (545)
Q Consensus        93 ~~~~~~--~~~~~~~~li~~~~~~g~~~~----A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~-----g~~~~A~~~~~  161 (545)
                      |++...  |+......+..+|.+-+.+.+    |.+++...+++--..|+.+ +.+...-....     --..-|.+.++
T Consensus       100 Ye~~~~~~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~~pk~~yyfWsV~-Slilqs~~~~~~~~~~i~l~LA~~m~~  178 (932)
T KOG2053|consen  100 YERANQKYPSEELLYHLFMAYVREKSYKKQQKAALQLYKNFPKRAYYFWSVI-SLILQSIFSENELLDPILLALAEKMVQ  178 (932)
T ss_pred             HHHHHhhCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcccchHHHHH-HHHHHhccCCcccccchhHHHHHHHHH
Confidence            999884  556666777788888877654    6777887766655566554 22211000000     01123555666


Q ss_pred             HHHhCC-CCCCHHHHHHHHHHHhccCcHHHHHHHHHH-HHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccCCChh
Q 009066          162 MMIGLG-IRPNASSLSSVLLGCSHLSSLQLGKQVHQL-VFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVV  239 (545)
Q Consensus       162 ~m~~~~-~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~-~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~  239 (545)
                      .+.+.+ -.-+..-...-+......|..++|..++.. ..+.-...+...-+.-++.+.+++++.+-.++-.++..++..
T Consensus       179 ~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll~k~~D  258 (932)
T KOG2053|consen  179 KLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLLEKGND  258 (932)
T ss_pred             HHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHHHhCCc
Confidence            666543 111222222233345677888999888843 333333344555566788888888888877766665543211


Q ss_pred             hHHHHHHHHH----------------HcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH---HccCcHHHHHHHHHHhH
Q 009066          240 TWNAMISGYA----------------QHGKGEKALRLFDKMKDEGMKPDSITFVALLLAC---NHAGLVDLGIQYFDSMV  300 (545)
Q Consensus       240 ~~~~li~~~~----------------~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~---~~~g~~~~a~~~~~~~~  300 (545)
                      -|...+..+.                ..+..+...+..++......   ...|.+-+.+.   -.-|+.+++...|-   
T Consensus       259 dy~~~~~sv~klLe~~~~~~a~~~~s~~~~l~~~~ek~~~~i~~~~---Rgp~LA~lel~kr~~~~gd~ee~~~~y~---  332 (932)
T KOG2053|consen  259 DYKIYTDSVFKLLELLNKEPAEAAHSLSKSLDECIEKAQKNIGSKS---RGPYLARLELDKRYKLIGDSEEMLSYYF---  332 (932)
T ss_pred             chHHHHHHHHHHHHhcccccchhhhhhhhhHHHHHHHHHHhhcccc---cCcHHHHHHHHHHhcccCChHHHHHHHH---
Confidence            1333222211                11122222222222221100   01111111111   12244444322221   


Q ss_pred             HhcCCCC------------------------------CHH-------HHHHHHHHHhHcCCH-----HHHHHHHHhC---
Q 009066          301 NDYGIAA------------------------------KPD-------HYTCMVDLLGRAGKL-----VEAVDLIKKM---  335 (545)
Q Consensus       301 ~~~~~~~------------------------------~~~-------~~~~li~~~~~~g~~-----~~A~~~~~~m---  335 (545)
                      +++|..|                              +..       -+.+.+..-.-.|.+     +.-..++.+.   
T Consensus       333 ~kfg~kpcc~~Dl~~yl~~l~~~q~~~l~~~l~~~~~~~s~~~k~l~~h~c~l~~~rl~G~~~~l~ad~i~a~~~kl~~~  412 (932)
T KOG2053|consen  333 KKFGDKPCCAIDLNHYLGHLNIDQLKSLMSKLVLADDDSSGDEKVLQQHLCVLLLLRLLGLYEKLPADSILAYVRKLKLT  412 (932)
T ss_pred             HHhCCCcHhHhhHHHhhccCCHHHHHHHHHHhhccCCcchhhHHHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHH
Confidence            1112111                              111       022222222233321     1112222111   


Q ss_pred             ---C------CCCCH---------hHHHHHHHHHHhcCCHH---HHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchH
Q 009066          336 ---P------FKPQP---------AIFGTLLSACRVHKRLD---LAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDD  394 (545)
Q Consensus       336 ---~------~~p~~---------~~~~~li~~~~~~g~~~---~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~  394 (545)
                         +      .-|..         .+.+.|+..+.+.++..   +|+-+++..+...|.+.. +-..|+.+|.-.|-+..
T Consensus       413 ye~gls~~K~ll~TE~~~g~~~llLav~~Lid~~rktnd~~~l~eaI~LLE~glt~s~hnf~-~KLlLiriY~~lGa~p~  491 (932)
T KOG2053|consen  413 YEKGLSLSKDLLPTEYSFGDELLLLAVNHLIDLWRKTNDLTDLFEAITLLENGLTKSPHNFQ-TKLLLIRIYSYLGAFPD  491 (932)
T ss_pred             HhccccccccccccccccHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhcCCccHH-HHHHHHHHHHHhcCChh
Confidence               1      11221         24567888898888766   677788888889999887 88899999999999999


Q ss_pred             HHHHHHHhhhCCCccC
Q 009066          395 VARIRLSMKENNVVKM  410 (545)
Q Consensus       395 a~~~~~~m~~~~~~~~  410 (545)
                      |.+.++.+.-+.|..+
T Consensus       492 a~~~y~tLdIK~IQ~D  507 (932)
T KOG2053|consen  492 AYELYKTLDIKNIQTD  507 (932)
T ss_pred             HHHHHHhcchHHhhhc
Confidence            9999999877666543

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

Probab=98.27  E-value=4.1e-05  Score=77.27  Aligned_cols=156  Identities=18%  Similarity=0.170  Sum_probs=124.4

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHH
Q 009066          240 TWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLL  319 (545)
Q Consensus       240 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~  319 (545)
                      .-..+...+...|-...|+.+|++...         +..++.+|...|+..+|..+..+..++   +|++..|..+.|..
T Consensus       400 ~q~~laell~slGitksAl~I~Erlem---------w~~vi~CY~~lg~~~kaeei~~q~lek---~~d~~lyc~LGDv~  467 (777)
T KOG1128|consen  400 LQRLLAELLLSLGITKSALVIFERLEM---------WDPVILCYLLLGQHGKAEEINRQELEK---DPDPRLYCLLGDVL  467 (777)
T ss_pred             HHHHHHHHHHHcchHHHHHHHHHhHHH---------HHHHHHHHHHhcccchHHHHHHHHhcC---CCcchhHHHhhhhc
Confidence            344567788899999999999998754         445677888889999999988777653   88888888888765


Q ss_pred             hHcCCHHHHHHH----------------------------HHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhc
Q 009066          320 GRAGKLVEAVDL----------------------------IKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFN  369 (545)
Q Consensus       320 ~~~g~~~~A~~~----------------------------~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  369 (545)
                      ...--+++|.++                            ++.- .+.| ...+|-.+..+..+.++++.|.+.|.....
T Consensus       468 ~d~s~yEkawElsn~~sarA~r~~~~~~~~~~~fs~~~~hle~sl~~nplq~~~wf~~G~~ALqlek~q~av~aF~rcvt  547 (777)
T KOG1128|consen  468 HDPSLYEKAWELSNYISARAQRSLALLILSNKDFSEADKHLERSLEINPLQLGTWFGLGCAALQLEKEQAAVKAFHRCVT  547 (777)
T ss_pred             cChHHHHHHHHHhhhhhHHHHHhhccccccchhHHHHHHHHHHHhhcCccchhHHHhccHHHHHHhhhHHHHHHHHHHhh
Confidence            544444444444                            4322 2333 346788888888999999999999999999


Q ss_pred             CCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhhCCCc
Q 009066          370 LNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVV  408 (545)
Q Consensus       370 ~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  408 (545)
                      ++|++.. +|+.+..+|.+.|+-.+|.+.+++..+.+..
T Consensus       548 L~Pd~~e-aWnNls~ayi~~~~k~ra~~~l~EAlKcn~~  585 (777)
T KOG1128|consen  548 LEPDNAE-AWNNLSTAYIRLKKKKRAFRKLKEALKCNYQ  585 (777)
T ss_pred             cCCCchh-hhhhhhHHHHHHhhhHHHHHHHHHHhhcCCC
Confidence            9999998 9999999999999999999999999887743

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.23  E-value=0.00026  Score=62.66  Aligned_cols=169  Identities=13%  Similarity=0.158  Sum_probs=118.4

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhccCCChhhHHHH---HHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccC
Q 009066          211 TPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAM---ISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAG  287 (545)
Q Consensus       211 ~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~l---i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g  287 (545)
                      ..+.-+...+|+.+.|..+++.+..+-+.++...   ..-+-..|++++|+++++..++.. +.|.+++.--+...-..|
T Consensus        56 EqV~IAAld~~~~~lAq~C~~~L~~~fp~S~RV~~lkam~lEa~~~~~~A~e~y~~lL~dd-pt~~v~~KRKlAilka~G  134 (289)
T KOG3060|consen   56 EQVFIAALDTGRDDLAQKCINQLRDRFPGSKRVGKLKAMLLEATGNYKEAIEYYESLLEDD-PTDTVIRKRKLAILKAQG  134 (289)
T ss_pred             HHHHHHHHHhcchHHHHHHHHHHHHhCCCChhHHHHHHHHHHHhhchhhHHHHHHHHhccC-cchhHHHHHHHHHHHHcC
Confidence            3344444556777777777776654222221111   112345788999999999998875 446667766665666677


Q ss_pred             cHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHh---cCCHHHHHH
Q 009066          288 LVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRV---HKRLDLAEF  362 (545)
Q Consensus       288 ~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~---~g~~~~A~~  362 (545)
                      ..-+|++-+....+  .+..|.+.|.-|.+.|...|++++|.-.++++ -+.| ++..+..+...+--   ..+.+.|.+
T Consensus       135 K~l~aIk~ln~YL~--~F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll~~P~n~l~f~rlae~~Yt~gg~eN~~~ark  212 (289)
T KOG3060|consen  135 KNLEAIKELNEYLD--KFMNDQEAWHELAEIYLSEGDFEKAAFCLEELLLIQPFNPLYFQRLAEVLYTQGGAENLELARK  212 (289)
T ss_pred             CcHHHHHHHHHHHH--HhcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            77788888888877  56889999999999999999999999999998 3345 45556666655433   346778999


Q ss_pred             HHHHHhcCCCCCCchhHHHHH
Q 009066          363 AAMNLFNLNPANAAGCYVQLA  383 (545)
Q Consensus       363 ~~~~~~~~~p~~~~~~~~~l~  383 (545)
                      .|.+.+++.|.+.. .+..+.
T Consensus       213 yy~~alkl~~~~~r-al~GI~  232 (289)
T KOG3060|consen  213 YYERALKLNPKNLR-ALFGIY  232 (289)
T ss_pred             HHHHHHHhChHhHH-HHHHHH
Confidence            99999999996544 444433

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.21  E-value=0.00027  Score=75.55  Aligned_cols=212  Identities=10%  Similarity=0.148  Sum_probs=136.7

Q ss_pred             ccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHH-HHHHhccCcHHHHHHHHHHHHhCCCCCCcccHH
Q 009066          133 VAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSV-LLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALT  211 (545)
Q Consensus       133 ~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~l-l~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~  211 (545)
                      ..|..|+..|     ...+++++|.++.+...+.  .|+...+..+ ...+.+.++.+.+..+                 
T Consensus        32 ~a~~~Li~~~-----~~~~~~deai~i~~~~l~~--~P~~i~~yy~~G~l~~q~~~~~~~~lv-----------------   87 (906)
T PRK14720         32 KELDDLIDAY-----KSENLTDEAKDICEEHLKE--HKKSISALYISGILSLSRRPLNDSNLL-----------------   87 (906)
T ss_pred             HHHHHHHHHH-----HhcCCHHHHHHHHHHHHHh--CCcceehHHHHHHHHHhhcchhhhhhh-----------------
Confidence            5677888888     8888888888888866654  5555433222 2244555554444333                 


Q ss_pred             HHHHHHHhcCCHHHHHHHHHhccC--CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcH
Q 009066          212 PLISMYCKCGDLEDACKLFLEIQR--KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLV  289 (545)
Q Consensus       212 ~li~~y~~~g~~~~A~~~f~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~  289 (545)
                      .+++......++.-...+.+.|..  .+-.++-.+..+|-+.|+.++|...|+++++.. +-|....+.+...++.. ++
T Consensus        88 ~~l~~~~~~~~~~~ve~~~~~i~~~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL  165 (906)
T PRK14720         88 NLIDSFSQNLKWAIVEHICDKILLYGENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DK  165 (906)
T ss_pred             hhhhhcccccchhHHHHHHHHHHhhhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hH
Confidence            233333333333333333333332  233466677888888888888888888888865 33566777777777777 88


Q ss_pred             HHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC----------------------CCCCCHhHHHHH
Q 009066          290 DLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM----------------------PFKPQPAIFGTL  347 (545)
Q Consensus       290 ~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m----------------------~~~p~~~~~~~l  347 (545)
                      ++|.+++.+.+..                |...+++.++.+++.++                      +...-+.++--+
T Consensus       166 ~KA~~m~~KAV~~----------------~i~~kq~~~~~e~W~k~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l  229 (906)
T PRK14720        166 EKAITYLKKAIYR----------------FIKKKQYVGIEEIWSKLVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDL  229 (906)
T ss_pred             HHHHHHHHHHHHH----------------HHhhhcchHHHHHHHHHHhcCcccchHHHHHHHHHHhhhccchhHHHHHHH
Confidence            8888887776653                22233333333333333                      222334455666


Q ss_pred             HHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHH
Q 009066          348 LSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYA  387 (545)
Q Consensus       348 i~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~  387 (545)
                      -.-|...++++++..+++.+++.+|.+.. +...++.+|.
T Consensus       230 ~~~y~~~~~~~~~i~iLK~iL~~~~~n~~-a~~~l~~~y~  268 (906)
T PRK14720        230 YEPYKALEDWDEVIYILKKILEHDNKNNK-AREELIRFYK  268 (906)
T ss_pred             HHHHhhhhhhhHHHHHHHHHHhcCCcchh-hHHHHHHHHH
Confidence            67888999999999999999999999987 8888888886

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

Probab=98.19  E-value=0.00024  Score=68.87  Aligned_cols=177  Identities=18%  Similarity=0.122  Sum_probs=122.4

Q ss_pred             CHHHHHHHHHhccC------CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHH
Q 009066          222 DLEDACKLFLEIQR------KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQY  295 (545)
Q Consensus       222 ~~~~A~~~f~~~~~------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~  295 (545)
                      ++.++...-+.++.      ++...+...+.+.........+..++-+-.+  ..-...-|..-+ .....|..+.|+..
T Consensus       252 RIa~lr~ra~q~p~~~~~d~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~--~~~~aa~YG~A~-~~~~~~~~d~A~~~  328 (484)
T COG4783         252 RIADLRNRAEQSPPYNKLDSPDFQLARARIRAKYEALPNQQAADLLAKRSK--RGGLAAQYGRAL-QTYLAGQYDEALKL  328 (484)
T ss_pred             HHHHHHHHHHhCCCCCCCCCccHHHHHHHHHHHhccccccchHHHHHHHhC--ccchHHHHHHHH-HHHHhcccchHHHH
Confidence            45555555566653      3444555555544433322233322222221  111223333333 34567888999999


Q ss_pred             HHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCCC-HhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCC
Q 009066          296 FDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQ-PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPA  373 (545)
Q Consensus       296 ~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~  373 (545)
                      ++.+.+  ..+.|+.......+.+.+.++.++|.+.++++ ...|+ ...+-++..++.+.|++.+|+.++......+|+
T Consensus       329 l~~L~~--~~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~P~~~~l~~~~a~all~~g~~~eai~~L~~~~~~~p~  406 (484)
T COG4783         329 LQPLIA--AQPDNPYYLELAGDILLEANKAKEAIERLKKALALDPNSPLLQLNLAQALLKGGKPQEAIRILNRYLFNDPE  406 (484)
T ss_pred             HHHHHH--hCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHhcCChHHHHHHHHHHhhcCCC
Confidence            988886  44566777778889999999999999999888 55566 567788888999999999999999999999999


Q ss_pred             CCchhHHHHHHHHHHcCCchHHHHHHHHhhh
Q 009066          374 NAAGCYVQLANIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       374 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  404 (545)
                      ++. .|..|+.+|...|+..++...+.++..
T Consensus       407 dp~-~w~~LAqay~~~g~~~~a~~A~AE~~~  436 (484)
T COG4783         407 DPN-GWDLLAQAYAELGNRAEALLARAEGYA  436 (484)
T ss_pred             Cch-HHHHHHHHHHHhCchHHHHHHHHHHHH
Confidence            988 899999999999998888888776643

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.19  E-value=3.1e-06  Score=51.67  Aligned_cols=34  Identities=44%  Similarity=0.859  Sum_probs=31.5

Q ss_pred             hhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCC
Q 009066          239 VTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPD  272 (545)
Q Consensus       239 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  272 (545)
                      .+||++|.+|++.|++++|.++|++|.+.|+.||
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            4799999999999999999999999999999997

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=98.17  E-value=0.00011  Score=71.91  Aligned_cols=126  Identities=13%  Similarity=0.130  Sum_probs=96.4

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhccCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHH
Q 009066          211 TPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVD  290 (545)
Q Consensus       211 ~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~  290 (545)
                      .+|+..+...++++.|..+|+++.+.++..+..++..+...++-.+|++++.+..... +-|...+..-...|.+.++.+
T Consensus       173 ~~Ll~~l~~t~~~~~ai~lle~L~~~~pev~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl~k~~~~  251 (395)
T PF09295_consen  173 DTLLKYLSLTQRYDEAIELLEKLRERDPEVAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLLSKKKYE  251 (395)
T ss_pred             HHHHHHHhhcccHHHHHHHHHHHHhcCCcHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHH
Confidence            3456666667889999999999888777777778888888888888999888888642 224455555556678888889


Q ss_pred             HHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhCCCCC
Q 009066          291 LGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKP  339 (545)
Q Consensus       291 ~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p  339 (545)
                      .|..+.+++.+.  .+.+..+|..|+.+|.+.|++++|+..++.+|..|
T Consensus       252 lAL~iAk~av~l--sP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~Pm~~  298 (395)
T PF09295_consen  252 LALEIAKKAVEL--SPSEFETWYQLAECYIQLGDFENALLALNSCPMLT  298 (395)
T ss_pred             HHHHHHHHHHHh--CchhHHHHHHHHHHHHhcCCHHHHHHHHhcCcCCC
Confidence            999988888752  23445688889999999999999998888886544

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.17  E-value=3e-05  Score=64.64  Aligned_cols=96  Identities=18%  Similarity=0.192  Sum_probs=68.2

Q ss_pred             HHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHH
Q 009066          309 PDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIY  386 (545)
Q Consensus       309 ~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~  386 (545)
                      ......+...+...|++++|.+.|+.. ...| +...|..+...+...|+++.|...+++..+.+|.+.. .+..++.+|
T Consensus        17 ~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~-~~~~la~~~   95 (135)
T TIGR02552        17 LEQIYALAYNLYQQGRYDEALKLFQLLAAYDPYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDPDDPR-PYFHAAECL   95 (135)
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCChH-HHHHHHHHH
Confidence            344556666777777777777777665 2233 5566777777777777777777777777777777766 777777778


Q ss_pred             HHcCCchHHHHHHHHhhhC
Q 009066          387 AAMKKWDDVARIRLSMKEN  405 (545)
Q Consensus       387 ~~~g~~~~a~~~~~~m~~~  405 (545)
                      ...|++++|.+.++...+.
T Consensus        96 ~~~g~~~~A~~~~~~al~~  114 (135)
T TIGR02552        96 LALGEPESALKALDLAIEI  114 (135)
T ss_pred             HHcCCHHHHHHHHHHHHHh
Confidence            8888888887777766553

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.14  E-value=0.011  Score=58.42  Aligned_cols=364  Identities=12%  Similarity=0.128  Sum_probs=210.7

Q ss_pred             CChhhHHHHHHHHHcCCCCHHHHHHHHhcCC---CCCeehHHHHHHHHHhCCCHHHHHHHHhhCCc--CCHhHHHHHHHH
Q 009066           36 PDVVSYNIMLSCILLNSDDVVAAFDFFQRLP---IKDTASWNTMISGFVQKKNMAKARDLFLAMPE--KNSVSWSAMISG  110 (545)
Q Consensus        36 ~~~~~~~~li~~~~~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~g~~~~a~~~~~~~~~--~~~~~~~~li~~  110 (545)
                      -|..+|+.||.- ++. ...+++++.++++.   +-....|..-|..-.+..+++....+|.+-+.  -+...|...++-
T Consensus        18 ~di~sw~~lire-~qt-~~~~~~R~~YEq~~~~FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvkvLnlDLW~lYl~Y   95 (656)
T KOG1914|consen   18 YDIDSWSQLIRE-AQT-QPIDKVRETYEQLVNVFPSSPRAWKLYIERELASKDFESVEKLFSRCLVKVLNLDLWKLYLSY   95 (656)
T ss_pred             ccHHHHHHHHHH-Hcc-CCHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhhHhHHHHHHHH
Confidence            378899999985 666 69999999999998   33567899999999999999999999998763  366677766654


Q ss_pred             HHH-cCChHHHHH----HHhh------CCCCCcccHHHHHHHhcch---h-hhccCChHHHHHHHHHHHhCCCCC-----
Q 009066          111 YIE-CGQLDKAVE----LFKV------APVKSVVAWTAMISGYMKF---G-YVENSWAEDGLKLLRMMIGLGIRP-----  170 (545)
Q Consensus       111 ~~~-~g~~~~A~~----~f~~------~~~~~~~~~~~li~~~~~~---g-~~~~g~~~~A~~~~~~m~~~~~~p-----  170 (545)
                      -.+ .|+...++.    .|+-      |.-.+-..|+..+.-+-.-   | ..++.+.+...+++++++..-+.-     
T Consensus        96 VR~~~~~~~~~r~~m~qAy~f~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqral~tPm~nlEkLW  175 (656)
T KOG1914|consen   96 VRETKGKLFGYREKMVQAYDFALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRALVTPMHNLEKLW  175 (656)
T ss_pred             HHHHccCcchHHHHHHHHHHHHHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHhcCccccHHHHH
Confidence            332 334333222    2221      2223445577666543110   0 244456667777888887532110     


Q ss_pred             -CHHHHHHHHHHH-------hccCcHHHHHHHHHHHHh--CCCCCCccc---------------HHHHHHH---------
Q 009066          171 -NASSLSSVLLGC-------SHLSSLQLGKQVHQLVFK--SPLCKDTTA---------------LTPLISM---------  216 (545)
Q Consensus       171 -d~~t~~~ll~~~-------~~~~~~~~a~~~~~~~~~--~g~~~~~~~---------------~~~li~~---------  216 (545)
                       |-.+|-.-++..       -+...+..|+++++++..  .|+.....+               |-.+|.-         
T Consensus       176 ~DY~~fE~~IN~~tarK~i~e~s~~Ym~AR~~~qel~~lt~GL~r~~~~vp~~~T~~e~~qv~~W~n~I~wEksNpL~t~  255 (656)
T KOG1914|consen  176 KDYEAFEQEINIITARKFIGERSPEYMNARRVYQELQNLTRGLNRNAPAVPPKGTKDEIQQVELWKNWIKWEKSNPLRTL  255 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCChHHHHHHHHHHHHHHHHhcCCcccc
Confidence             222232222211       123345566666666543  343222222               2222211         


Q ss_pred             ----------------------------------------HHhcCC-------HHHHHHHHHhccC----CChhhHHHHH
Q 009066          217 ----------------------------------------YCKCGD-------LEDACKLFLEIQR----KDVVTWNAMI  245 (545)
Q Consensus       217 ----------------------------------------y~~~g~-------~~~A~~~f~~~~~----~~~~~~~~li  245 (545)
                                                              +...|+       .+++..+++....    .+...|..+.
T Consensus       256 ~~~~~~~Rv~yayeQ~ll~l~~~peiWy~~s~yl~~~s~l~~~~~d~~~a~~~t~e~~~~yEr~I~~l~~~~~~Ly~~~a  335 (656)
T KOG1914|consen  256 DGTMLTRRVMYAYEQCLLYLGYHPEIWYDYSMYLIEISDLLTEKGDVPDAKSLTDEAASIYERAIEGLLKENKLLYFALA  335 (656)
T ss_pred             cccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhhHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                                                    111111       1122222222111    0111111111


Q ss_pred             HHH---HHcCChHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCC-CHHHHHHHHHHHh
Q 009066          246 SGY---AQHGKGEKALRLFDKMKDE-GMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAA-KPDHYTCMVDLLG  320 (545)
Q Consensus       246 ~~~---~~~g~~~~A~~~~~~m~~~-g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~~li~~~~  320 (545)
                      .--   .+.++.+.....+++++.. ...|+ .+|..+++.-.+..-++.|+.+|.+..+. +..+ ++.++++++.-|+
T Consensus       336 ~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~t-Lv~~~~mn~irR~eGlkaaR~iF~kaR~~-~r~~hhVfVa~A~mEy~c  413 (656)
T KOG1914|consen  336 DYEESRYDDNKEKKVHEIYNKLLKIEDIDLT-LVYCQYMNFIRRAEGLKAARKIFKKARED-KRTRHHVFVAAALMEYYC  413 (656)
T ss_pred             hhHHHhcccchhhhhHHHHHHHHhhhccCCc-eehhHHHHHHHHhhhHHHHHHHHHHHhhc-cCCcchhhHHHHHHHHHh
Confidence            100   0011244445555555542 23332 35666677777777788889999888776 4444 7777888887554


Q ss_pred             HcCCHHHHHHHHHhC--CCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcC--CCCCCchhHHHHHHHHHHcCCchHHH
Q 009066          321 RAGKLVEAVDLIKKM--PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNL--NPANAAGCYVQLANIYAAMKKWDDVA  396 (545)
Q Consensus       321 ~~g~~~~A~~~~~~m--~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~~l~~~~~~~g~~~~a~  396 (545)
                       .++.+-|.++|+--  .+..++.--...+.-+...++-..|..+|++++..  .|+.+...|..++.--+.-|+.+.+.
T Consensus       414 -skD~~~AfrIFeLGLkkf~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~  492 (656)
T KOG1914|consen  414 -SKDKETAFRIFELGLKKFGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSIL  492 (656)
T ss_pred             -cCChhHHHHHHHHHHHhcCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHH
Confidence             56778888888754  22223344456667777778888888999988775  55555457888888888889988888


Q ss_pred             HHHHHhhh
Q 009066          397 RIRLSMKE  404 (545)
Q Consensus       397 ~~~~~m~~  404 (545)
                      ++-+++..
T Consensus       493 ~lekR~~~  500 (656)
T KOG1914|consen  493 KLEKRRFT  500 (656)
T ss_pred             HHHHHHHH
Confidence            88777654

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

Probab=98.14  E-value=0.0007  Score=65.76  Aligned_cols=146  Identities=16%  Similarity=0.123  Sum_probs=117.1

Q ss_pred             hhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHH-HHHHHccCcHHHHHHHHHHhHHhcCCCCC-HHHHHHH
Q 009066          238 VVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVAL-LLACNHAGLVDLGIQYFDSMVNDYGIAAK-PDHYTCM  315 (545)
Q Consensus       238 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~l-l~a~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~l  315 (545)
                      ...+-...-.+...|++++|+..++.+...  .||...|..+ ...+...++.++|.+.++.+...   .|+ ....-.+
T Consensus       306 ~aa~YG~A~~~~~~~~~d~A~~~l~~L~~~--~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l---~P~~~~l~~~~  380 (484)
T COG4783         306 LAAQYGRALQTYLAGQYDEALKLLQPLIAA--QPDNPYYLELAGDILLEANKAKEAIERLKKALAL---DPNSPLLQLNL  380 (484)
T ss_pred             hHHHHHHHHHHHHhcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc---CCCccHHHHHH
Confidence            334444455566789999999999998875  6676666655 46888999999999999999863   555 6677789


Q ss_pred             HHHHhHcCCHHHHHHHHHhC--CCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCch
Q 009066          316 VDLLGRAGKLVEAVDLIKKM--PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWD  393 (545)
Q Consensus       316 i~~~~~~g~~~~A~~~~~~m--~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~  393 (545)
                      .++|.+.|++.+|..+++..  ..+.|+..|..|..+|...|+..++...                  ....|...|+|+
T Consensus       381 a~all~~g~~~eai~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~A------------------~AE~~~~~G~~~  442 (484)
T COG4783         381 AQALLKGGKPQEAIRILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLA------------------RAEGYALAGRLE  442 (484)
T ss_pred             HHHHHhcCChHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHHH------------------HHHHHHhCCCHH
Confidence            99999999999999999887  3335788999999999999998876554                  455677899999


Q ss_pred             HHHHHHHHhhhCC
Q 009066          394 DVARIRLSMKENN  406 (545)
Q Consensus       394 ~a~~~~~~m~~~~  406 (545)
                      +|.......+++.
T Consensus       443 ~A~~~l~~A~~~~  455 (484)
T COG4783         443 QAIIFLMRASQQV  455 (484)
T ss_pred             HHHHHHHHHHHhc
Confidence            9999998887654

>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=98.13  E-value=5.3e-05  Score=74.01  Aligned_cols=122  Identities=16%  Similarity=0.174  Sum_probs=96.7

Q ss_pred             HHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHh
Q 009066          276 FVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRV  353 (545)
Q Consensus       276 ~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~  353 (545)
                      ...|+..+...++++.|..+++++.+.   .|+  ....|+..+...++-.+|.+++++. ...| +...+......|..
T Consensus       172 v~~Ll~~l~~t~~~~~ai~lle~L~~~---~pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~p~d~~LL~~Qa~fLl~  246 (395)
T PF09295_consen  172 VDTLLKYLSLTQRYDEAIELLEKLRER---DPE--VAVLLARVYLLMNEEVEAIRLLNEALKENPQDSELLNLQAEFLLS  246 (395)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHhc---CCc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHh
Confidence            445666677778888888888888754   344  4445777777788888888887776 2233 55666667777889


Q ss_pred             cCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhh
Q 009066          354 HKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMK  403 (545)
Q Consensus       354 ~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  403 (545)
                      .++++.|+.+++++.+..|++.. +|..|+.+|.+.|++++|+-.+..+-
T Consensus       247 k~~~~lAL~iAk~av~lsP~~f~-~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  247 KKKYELALEIAKKAVELSPSEFE-TWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             cCCHHHHHHHHHHHHHhCchhHH-HHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            99999999999999999999988 99999999999999999999988774

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.09  E-value=0.0019  Score=69.25  Aligned_cols=234  Identities=11%  Similarity=0.084  Sum_probs=143.1

Q ss_pred             CCeehHHHHHHHHHhCCCHHHHHHHHhhCCc--C-CHhHHHHHHHHHHHcCChHHHHHHHhhCCCCCcccHHHHHHHhcc
Q 009066           68 KDTASWNTMISGFVQKKNMAKARDLFLAMPE--K-NSVSWSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMK  144 (545)
Q Consensus        68 ~d~~~~~~li~~~~~~g~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~  144 (545)
                      .+...|..|+..+...+++++|.++.+...+  | ....|-.+...|...++.++|..+             .++...  
T Consensus        29 ~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~P~~i~~yy~~G~l~~q~~~~~~~~lv-------------~~l~~~--   93 (906)
T PRK14720         29 SKFKELDDLIDAYKSENLTDEAKDICEEHLKEHKKSISALYISGILSLSRRPLNDSNLL-------------NLIDSF--   93 (906)
T ss_pred             chHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCcceehHHHHHHHHHhhcchhhhhhh-------------hhhhhc--
Confidence            3455677777777777888888877775553  2 233444444466666665555544             233333  


Q ss_pred             hhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHH
Q 009066          145 FGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLE  224 (545)
Q Consensus       145 ~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~  224 (545)
                         ....++.-...+...|...  .-+...+..+..+|.+.|+.+++..+++++++.. +.|+.+.|-+...|+.. +++
T Consensus        94 ---~~~~~~~~ve~~~~~i~~~--~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~  166 (906)
T PRK14720         94 ---SQNLKWAIVEHICDKILLY--GENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKE  166 (906)
T ss_pred             ---ccccchhHHHHHHHHHHhh--hhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHH
Confidence               3333443333333444442  3344577778888888899999999999888887 66788888888888888 888


Q ss_pred             HHHHHHHhccCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHH-HHHHHHHHHccCcHHHHHHHHHHhHHhc
Q 009066          225 DACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSIT-FVALLLACNHAGLVDLGIQYFDSMVNDY  303 (545)
Q Consensus       225 ~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t-~~~ll~a~~~~g~~~~a~~~~~~~~~~~  303 (545)
                      +|.+++.+..           ..|...+++.++.+++.++...  .|+... |..+++                .+....
T Consensus       167 KA~~m~~KAV-----------~~~i~~kq~~~~~e~W~k~~~~--~~~d~d~f~~i~~----------------ki~~~~  217 (906)
T PRK14720        167 KAITYLKKAI-----------YRFIKKKQYVGIEEIWSKLVHY--NSDDFDFFLRIER----------------KVLGHR  217 (906)
T ss_pred             HHHHHHHHHH-----------HHHHhhhcchHHHHHHHHHHhc--CcccchHHHHHHH----------------HHHhhh
Confidence            8888877654           3366777888888888888774  333322 222222                222211


Q ss_pred             CCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHH
Q 009066          304 GIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACR  352 (545)
Q Consensus       304 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~  352 (545)
                      +...-..++--+...|-..++++++..+++.+ ...| |.....-++..|.
T Consensus       218 ~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~~~n~~a~~~l~~~y~  268 (906)
T PRK14720        218 EFTRLVGLLEDLYEPYKALEDWDEVIYILKKILEHDNKNNKAREELIRFYK  268 (906)
T ss_pred             ccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcCCcchhhHHHHHHHHH
Confidence            22233444555556666677777777777766 3333 3444455555544

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.07  E-value=5.9e-06  Score=50.40  Aligned_cols=35  Identities=29%  Similarity=0.635  Sum_probs=30.9

Q ss_pred             ccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCH
Q 009066          133 VAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNA  172 (545)
Q Consensus       133 ~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~  172 (545)
                      ++||++|.+|     .+.|++++|.++|++|.+.|+.||.
T Consensus         1 ~~~n~li~~~-----~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         1 VTYNTLIDGL-----CKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             CcHHHHHHHH-----HHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            4789999999     8999999999999999999998873

This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.07  E-value=0.00016  Score=60.16  Aligned_cols=113  Identities=12%  Similarity=0.069  Sum_probs=86.5

Q ss_pred             HHHHHHHcCCCCCH-HHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CC
Q 009066          260 LFDKMKDEGMKPDS-ITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PF  337 (545)
Q Consensus       260 ~~~~m~~~g~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~  337 (545)
                      .|++...  ..|+. .....+...+...|++++|.+.++.+...  .+.+...+..+...|.+.|++++|...+++. ..
T Consensus         5 ~~~~~l~--~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~   80 (135)
T TIGR02552         5 TLKDLLG--LDSEQLEQIYALAYNLYQQGRYDEALKLFQLLAAY--DPYNSRYWLGLAACCQMLKEYEEAIDAYALAAAL   80 (135)
T ss_pred             hHHHHHc--CChhhHHHHHHHHHHHHHcccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            3445544  34433 34555667777889999999999888763  3557788888899999999999999988877 33


Q ss_pred             CC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCc
Q 009066          338 KP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA  376 (545)
Q Consensus       338 ~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~  376 (545)
                      .| +...+..+...+...|+++.|...+++.++.+|++..
T Consensus        81 ~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~  120 (135)
T TIGR02552        81 DPDDPRPYFHAAECLLALGEPESALKALDLAIEICGENPE  120 (135)
T ss_pred             CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccch
Confidence            34 5677888888899999999999999999999998863

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.00  E-value=1.2e-05  Score=48.62  Aligned_cols=33  Identities=45%  Similarity=0.836  Sum_probs=27.8

Q ss_pred             hhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCC
Q 009066          239 VTWNAMISGYAQHGKGEKALRLFDKMKDEGMKP  271 (545)
Q Consensus       239 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  271 (545)
                      .+||.+|.+|++.|+++.|.++|++|.+.|++|
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            578888888888888888888888888888877

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

Probab=97.99  E-value=0.0072  Score=54.29  Aligned_cols=157  Identities=15%  Similarity=0.126  Sum_probs=87.7

Q ss_pred             HHHHHHHhcCCHHHHHHHHHhccCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH----ccC
Q 009066          212 PLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACN----HAG  287 (545)
Q Consensus       212 ~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~----~~g  287 (545)
                      .-...|...|++++|.+..+....-+....|  ...+.+..+.+-|...+++|.+-   -+..|.+.|..++.    ..+
T Consensus       113 ~aa~i~~~~~~~deAl~~~~~~~~lE~~Al~--VqI~lk~~r~d~A~~~lk~mq~i---ded~tLtQLA~awv~la~gge  187 (299)
T KOG3081|consen  113 LAAIIYMHDGDFDEALKALHLGENLEAAALN--VQILLKMHRFDLAEKELKKMQQI---DEDATLTQLAQAWVKLATGGE  187 (299)
T ss_pred             HhhHHhhcCCChHHHHHHHhccchHHHHHHH--HHHHHHHHHHHHHHHHHHHHHcc---chHHHHHHHHHHHHHHhccch
Confidence            3344566667777777766663222222222  33345555666777777777652   24555555555443    234


Q ss_pred             cHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC--CCCCCHhHHHHHHHHHHhcCCH-HHHHHHH
Q 009066          288 LVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM--PFKPQPAIFGTLLSACRVHKRL-DLAEFAA  364 (545)
Q Consensus       288 ~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m--~~~p~~~~~~~li~~~~~~g~~-~~A~~~~  364 (545)
                      .+..|.-+|++|..  ..+|++.+.+.+..+....|++++|..++++.  ....++.+...++..-...|.. +.-.+..
T Consensus       188 k~qdAfyifeE~s~--k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~dpetL~Nliv~a~~~Gkd~~~~~r~l  265 (299)
T KOG3081|consen  188 KIQDAFYIFEELSE--KTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAKDPETLANLIVLALHLGKDAEVTERNL  265 (299)
T ss_pred             hhhhHHHHHHHHhc--ccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCCChHHHHHHH
Confidence            56666667776654  34666666666666666677777777766665  2223445555555444444443 3345566


Q ss_pred             HHHhcCCCCCC
Q 009066          365 MNLFNLNPANA  375 (545)
Q Consensus       365 ~~~~~~~p~~~  375 (545)
                      .++....|..+
T Consensus       266 ~QLk~~~p~h~  276 (299)
T KOG3081|consen  266 SQLKLSHPEHP  276 (299)
T ss_pred             HHHHhcCCcch
Confidence            66666666654

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

Probab=97.93  E-value=0.0047  Score=55.41  Aligned_cols=167  Identities=13%  Similarity=0.144  Sum_probs=103.4

Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccCC-Ch
Q 009066          160 LRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRK-DV  238 (545)
Q Consensus       160 ~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~-~~  238 (545)
                      .+.+.......+......-...|.+.+++++|.......      .+......=+..+.+..+.+-|.+.+++|.+- +-
T Consensus        96 ~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~------~~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~ided  169 (299)
T KOG3081|consen   96 YELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLG------ENLEAAALNVQILLKMHRFDLAEKELKKMQQIDED  169 (299)
T ss_pred             HHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhcc------chHHHHHHHHHHHHHHHHHHHHHHHHHHHHccchH
Confidence            334443333334333334444567777777777665541      12222333345566777788888888888764 34


Q ss_pred             hhHHHHHHHHHH----cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHH
Q 009066          239 VTWNAMISGYAQ----HGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTC  314 (545)
Q Consensus       239 ~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~  314 (545)
                      .+.+.|..++.+    .+.+.+|.-+|++|-+. ..|+..+.+....++...|++++|..+++....+  -..++++...
T Consensus       170 ~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~k--d~~dpetL~N  246 (299)
T KOG3081|consen  170 ATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDK--DAKDPETLAN  246 (299)
T ss_pred             HHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhc--cCCCHHHHHH
Confidence            456666666554    23677888888888763 6788888888888888888888888888887764  3455666666


Q ss_pred             HHHHHhHcCCHHHH-HHHHHhC
Q 009066          315 MVDLLGRAGKLVEA-VDLIKKM  335 (545)
Q Consensus       315 li~~~~~~g~~~~A-~~~~~~m  335 (545)
                      ++-+-...|...++ .+.+.++
T Consensus       247 liv~a~~~Gkd~~~~~r~l~QL  268 (299)
T KOG3081|consen  247 LIVLALHLGKDAEVTERNLSQL  268 (299)
T ss_pred             HHHHHHHhCCChHHHHHHHHHH
Confidence            66555555554433 3344444

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=97.92  E-value=0.015  Score=56.10  Aligned_cols=134  Identities=13%  Similarity=0.115  Sum_probs=96.4

Q ss_pred             hhHHHHHHHHHHcCChHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHH
Q 009066          239 VTWNAMISGYAQHGKGEKALRLFDKMKDEG-MKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVD  317 (545)
Q Consensus       239 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~  317 (545)
                      .+|-..+..-.+....+.|..+|-+..+.| +.++...+++.+..++ .|+...|..+|+.-...+  +.++.--.-.+.
T Consensus       398 ~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~f--~d~~~y~~kyl~  474 (660)
T COG5107         398 FVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLKF--PDSTLYKEKYLL  474 (660)
T ss_pred             hHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHhC--CCchHHHHHHHH
Confidence            456677777777777888888888888887 5667777777776554 467788888887665532  223333345666


Q ss_pred             HHhHcCCHHHHHHHHHhC--CCCCC--HhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCC
Q 009066          318 LLGRAGKLVEAVDLIKKM--PFKPQ--PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANA  375 (545)
Q Consensus       318 ~~~~~g~~~~A~~~~~~m--~~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~  375 (545)
                      -+.+.++-+.|..+|+..  .+..+  ..+|..+|.--..-|+...+..+-+++.++-|...
T Consensus       475 fLi~inde~naraLFetsv~r~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~~pQen  536 (660)
T COG5107         475 FLIRINDEENARALFETSVERLEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRELVPQEN  536 (660)
T ss_pred             HHHHhCcHHHHHHHHHHhHHHHHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHHcCcHh
Confidence            777888888888888855  22223  46788888888888888888888888888888764

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=97.87  E-value=2.2e-05  Score=47.49  Aligned_cols=33  Identities=18%  Similarity=0.399  Sum_probs=25.5

Q ss_pred             ccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCC
Q 009066          133 VAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRP  170 (545)
Q Consensus       133 ~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~p  170 (545)
                      .+||.+|.+|     .+.|+++.|.++|++|.+.|++|
T Consensus         2 ~ty~~ll~a~-----~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    2 HTYNALLRAC-----AKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             cHHHHHHHHH-----HHCCCHHHHHHHHHHHHHhCCCC
Confidence            5677777777     77777778888888887777776

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=97.84  E-value=0.00067  Score=57.22  Aligned_cols=114  Identities=17%  Similarity=0.095  Sum_probs=53.9

Q ss_pred             cCcHHHHHHHHHHhHHhcCCCC-CHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCCCH----hHHHHHHHHHHhcCCHHH
Q 009066          286 AGLVDLGIQYFDSMVNDYGIAA-KPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQP----AIFGTLLSACRVHKRLDL  359 (545)
Q Consensus       286 ~g~~~~a~~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~----~~~~~li~~~~~~g~~~~  359 (545)
                      .++...+...++.+.+.++-.+ .....-.+...+...|++++|...|+.. ...||.    ...-.|...+...|++++
T Consensus        24 ~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d~  103 (145)
T PF09976_consen   24 AGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYDE  103 (145)
T ss_pred             CCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHH
Confidence            4455555555555554321110 0122223445555556666665555555 111222    123334455555666666


Q ss_pred             HHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHH
Q 009066          360 AEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLS  401 (545)
Q Consensus       360 A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  401 (545)
                      |+..++.... .+-.+. .+..++++|...|++++|...|+.
T Consensus       104 Al~~L~~~~~-~~~~~~-~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen  104 ALATLQQIPD-EAFKAL-AAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHHhccC-cchHHH-HHHHHHHHHHHCCCHHHHHHHHHH
Confidence            6666544221 111222 455666666666666666666653

>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=97.81  E-value=0.00023  Score=54.42  Aligned_cols=92  Identities=20%  Similarity=0.244  Sum_probs=64.8

Q ss_pred             HHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHc
Q 009066          312 YTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAM  389 (545)
Q Consensus       312 ~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~  389 (545)
                      +..+...+...|++++|...+++. ...| +...+..+...+...++++.|...+++.....|.+.. ++..++.++...
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~~~~~~~   81 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAK-AYYNLGLAYYKL   81 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchh-HHHHHHHHHHHH
Confidence            445566666777777777777765 2233 3356666777777778888888888887777777765 777777888888


Q ss_pred             CCchHHHHHHHHhhh
Q 009066          390 KKWDDVARIRLSMKE  404 (545)
Q Consensus       390 g~~~~a~~~~~~m~~  404 (545)
                      |++++|...+....+
T Consensus        82 ~~~~~a~~~~~~~~~   96 (100)
T cd00189          82 GKYEEALEAYEKALE   96 (100)
T ss_pred             HhHHHHHHHHHHHHc
Confidence            888888777776544

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.76  E-value=3.4e-05  Score=45.46  Aligned_cols=31  Identities=48%  Similarity=0.939  Sum_probs=23.0

Q ss_pred             hhHHHHHHHHHHcCChHHHHHHHHHHHHcCC
Q 009066          239 VTWNAMISGYAQHGKGEKALRLFDKMKDEGM  269 (545)
Q Consensus       239 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  269 (545)
                      ++||+||++|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            3677777777777777777777777776653

Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.76  E-value=0.00056  Score=55.32  Aligned_cols=99  Identities=16%  Similarity=0.154  Sum_probs=54.9

Q ss_pred             HHHHHHHHccCcHHHHHHHHHHhHHhcCCCC-CHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCCC----HhHHHHHHHH
Q 009066          277 VALLLACNHAGLVDLGIQYFDSMVNDYGIAA-KPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQ----PAIFGTLLSA  350 (545)
Q Consensus       277 ~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~----~~~~~~li~~  350 (545)
                      ..+...+...|++++|.+.+..+.+.+.-.+ ....+..+..++.+.|++++|...|+.+ ...|+    ..++..+...
T Consensus         6 ~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~   85 (119)
T TIGR02795         6 YDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGMS   85 (119)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHHH
Confidence            3444445555666666666665554311111 1234445666666666666666666655 21222    3445566666


Q ss_pred             HHhcCCHHHHHHHHHHHhcCCCCCC
Q 009066          351 CRVHKRLDLAEFAAMNLFNLNPANA  375 (545)
Q Consensus       351 ~~~~g~~~~A~~~~~~~~~~~p~~~  375 (545)
                      +...|+.+.|...++++++..|++.
T Consensus        86 ~~~~~~~~~A~~~~~~~~~~~p~~~  110 (119)
T TIGR02795        86 LQELGDKEKAKATLQQVIKRYPGSS  110 (119)
T ss_pred             HHHhCChHHHHHHHHHHHHHCcCCh
Confidence            6667777777777777777776654

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.

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=97.75  E-value=0.0023  Score=53.93  Aligned_cols=116  Identities=15%  Similarity=0.106  Sum_probs=65.0

Q ss_pred             cCChHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCC--HHHHHHHHHHHhHcCCHH
Q 009066          251 HGKGEKALRLFDKMKDEGMKPD--SITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAK--PDHYTCMVDLLGRAGKLV  326 (545)
Q Consensus       251 ~g~~~~A~~~~~~m~~~g~~p~--~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~  326 (545)
                      .++...+...++.+......-.  ......+...+...|++++|...|+.+... ...|.  ......|...+...|+++
T Consensus        24 ~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~-~~d~~l~~~a~l~LA~~~~~~~~~d  102 (145)
T PF09976_consen   24 AGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALAN-APDPELKPLARLRLARILLQQGQYD  102 (145)
T ss_pred             CCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh-CCCHHHHHHHHHHHHHHHHHcCCHH
Confidence            5666666666666665421110  122223345566667777777777776654 21121  122334566666777777


Q ss_pred             HHHHHHHhCCCC-CCHhHHHHHHHHHHhcCCHHHHHHHHHHH
Q 009066          327 EAVDLIKKMPFK-PQPAIFGTLLSACRVHKRLDLAEFAAMNL  367 (545)
Q Consensus       327 ~A~~~~~~m~~~-p~~~~~~~li~~~~~~g~~~~A~~~~~~~  367 (545)
                      +|+..++..+.. .....+..+...+...|+.++|...|++.
T Consensus       103 ~Al~~L~~~~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen  103 EALATLQQIPDEAFKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHHHhccCcchHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            777777665211 23344555666677777777777777654

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.73  E-value=0.00043  Score=55.97  Aligned_cols=96  Identities=14%  Similarity=0.125  Sum_probs=80.9

Q ss_pred             HHHHHHHHHHhHcCCHHHHHHHHHhC-CCCCC----HhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCC---CchhHHH
Q 009066          310 DHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQ----PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPAN---AAGCYVQ  381 (545)
Q Consensus       310 ~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~---~~~~~~~  381 (545)
                      .++..++..+.+.|++++|.+.|+++ ...|+    ...+..+...+...|+++.|...++++....|++   .. ++..
T Consensus         3 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~-~~~~   81 (119)
T TIGR02795         3 EAYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPD-ALLK   81 (119)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccH-HHHH
Confidence            45677888899999999999999888 22343    3466778889999999999999999999988875   33 6889


Q ss_pred             HHHHHHHcCCchHHHHHHHHhhhCC
Q 009066          382 LANIYAAMKKWDDVARIRLSMKENN  406 (545)
Q Consensus       382 l~~~~~~~g~~~~a~~~~~~m~~~~  406 (545)
                      ++.++.+.|++++|.+.++.+.+..
T Consensus        82 ~~~~~~~~~~~~~A~~~~~~~~~~~  106 (119)
T TIGR02795        82 LGMSLQELGDKEKAKATLQQVIKRY  106 (119)
T ss_pred             HHHHHHHhCChHHHHHHHHHHHHHC
Confidence            9999999999999999999988753

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.

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.71  E-value=3.5e-05  Score=58.14  Aligned_cols=57  Identities=14%  Similarity=0.132  Sum_probs=29.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHH
Q 009066          343 IFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLS  401 (545)
Q Consensus       343 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  401 (545)
                      .|..+..++.+.|++++|..++++ .+.+|.+.. ....++.+|.+.|++++|.+++++
T Consensus        27 ~~~~la~~~~~~~~y~~A~~~~~~-~~~~~~~~~-~~~l~a~~~~~l~~y~eAi~~l~~   83 (84)
T PF12895_consen   27 YLYNLAQCYFQQGKYEEAIELLQK-LKLDPSNPD-IHYLLARCLLKLGKYEEAIKALEK   83 (84)
T ss_dssp             HHHHHHHHHHHTTHHHHHHHHHHC-HTHHHCHHH-HHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHH-hCCCCCCHH-HHHHHHHHHHHhCCHHHHHHHHhc
Confidence            344455555555555555555555 444444433 444556666666666666665543

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.68  E-value=0.006  Score=54.35  Aligned_cols=161  Identities=16%  Similarity=0.229  Sum_probs=122.5

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHH-HHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHH
Q 009066          241 WNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALL-LACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLL  319 (545)
Q Consensus       241 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll-~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~  319 (545)
                      |..++-+....|+.+.|...++++...-  |.+.-...+= .-+-..|+.++|.++++.+..+  -+.|..+|--=+-+.
T Consensus        55 ~EqV~IAAld~~~~~lAq~C~~~L~~~f--p~S~RV~~lkam~lEa~~~~~~A~e~y~~lL~d--dpt~~v~~KRKlAil  130 (289)
T KOG3060|consen   55 YEQVFIAALDTGRDDLAQKCINQLRDRF--PGSKRVGKLKAMLLEATGNYKEAIEYYESLLED--DPTDTVIRKRKLAIL  130 (289)
T ss_pred             HHHHHHHHHHhcchHHHHHHHHHHHHhC--CCChhHHHHHHHHHHHhhchhhHHHHHHHHhcc--CcchhHHHHHHHHHH
Confidence            4445556667899999999999988752  5543322221 2244678999999999999875  355667777666677


Q ss_pred             hHcCCHHHHHHHHHhC--CCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCc---hH
Q 009066          320 GRAGKLVEAVDLIKKM--PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKW---DD  394 (545)
Q Consensus       320 ~~~g~~~~A~~~~~~m--~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~---~~  394 (545)
                      -..|+.-+|++-+.+.  .+..|...|.-|...|...|+++.|...+++++-..|.++. .+..++..+.-.|..   +-
T Consensus       131 ka~GK~l~aIk~ln~YL~~F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll~~P~n~l-~f~rlae~~Yt~gg~eN~~~  209 (289)
T KOG3060|consen  131 KAQGKNLEAIKELNEYLDKFMNDQEAWHELAEIYLSEGDFEKAAFCLEELLLIQPFNPL-YFQRLAEVLYTQGGAENLEL  209 (289)
T ss_pred             HHcCCcHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHHcCCCcHH-HHHHHHHHHHHHhhHHHHHH
Confidence            7778777888766655  45579999999999999999999999999999999999987 888999987766654   44


Q ss_pred             HHHHHHHhhhCC
Q 009066          395 VARIRLSMKENN  406 (545)
Q Consensus       395 a~~~~~~m~~~~  406 (545)
                      +++++.+..+..
T Consensus       210 arkyy~~alkl~  221 (289)
T KOG3060|consen  210 ARKYYERALKLN  221 (289)
T ss_pred             HHHHHHHHHHhC
Confidence            777777766543

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.67  E-value=0.00063  Score=66.71  Aligned_cols=100  Identities=14%  Similarity=0.114  Sum_probs=66.4

Q ss_pred             HHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCH
Q 009066          280 LLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRL  357 (545)
Q Consensus       280 l~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~  357 (545)
                      ...+...|++++|++.|.++++.  .+.+...|..+..+|.+.|++++|+..+++. .+.| +...|..+..+|...|++
T Consensus         9 a~~a~~~~~~~~Ai~~~~~Al~~--~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~~~a~~~lg~~~~~lg~~   86 (356)
T PLN03088          9 AKEAFVDDDFALAVDLYTQAIDL--DPNNAELYADRAQANIKLGNFTEAVADANKAIELDPSLAKAYLRKGTACMKLEEY   86 (356)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCH
Confidence            34455667777777777777652  2445666677777777777777777777766 3334 445666677777777777


Q ss_pred             HHHHHHHHHHhcCCCCCCchhHHHH
Q 009066          358 DLAEFAAMNLFNLNPANAAGCYVQL  382 (545)
Q Consensus       358 ~~A~~~~~~~~~~~p~~~~~~~~~l  382 (545)
                      ++|+..|+++++++|++.. ....+
T Consensus        87 ~eA~~~~~~al~l~P~~~~-~~~~l  110 (356)
T PLN03088         87 QTAKAALEKGASLAPGDSR-FTKLI  110 (356)
T ss_pred             HHHHHHHHHHHHhCCCCHH-HHHHH
Confidence            7777777777777777764 43333

>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=97.65  E-value=0.00074  Score=51.47  Aligned_cols=59  Identities=14%  Similarity=0.208  Sum_probs=27.2

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhH
Q 009066          241 WNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMV  300 (545)
Q Consensus       241 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~  300 (545)
                      |..+...+...|++++|+..+++..+.. +.+...+..+...+...+++++|.+.++...
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~   61 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKAL   61 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344445555555555555555554431 1122333334444444455555555544443

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.61  E-value=8.2e-05  Score=43.75  Aligned_cols=30  Identities=30%  Similarity=0.517  Sum_probs=20.2

Q ss_pred             ccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCC
Q 009066          133 VAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLG  167 (545)
Q Consensus       133 ~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~  167 (545)
                      ++||+||++|     .+.|++++|.++|++|.+.|
T Consensus         1 v~y~~li~~~-----~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    1 VTYNSLISGY-----CKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             CcHHHHHHHH-----HccchHHHHHHHHHHHhHCc
Confidence            3566777777     66666777777777766655

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.

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.60  E-value=0.0039  Score=63.97  Aligned_cols=138  Identities=18%  Similarity=0.083  Sum_probs=61.2

Q ss_pred             CChhhHHHHHHHHHHcC-----ChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHcc--------CcHHHHHHHHHHhHH
Q 009066          236 KDVVTWNAMISGYAQHG-----KGEKALRLFDKMKDEGMKPDS-ITFVALLLACNHA--------GLVDLGIQYFDSMVN  301 (545)
Q Consensus       236 ~~~~~~~~li~~~~~~g-----~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~a~~~~--------g~~~~a~~~~~~~~~  301 (545)
                      .|...|...+.+.....     ...+|..+|++..+.  .|+- ..+..+..++...        .++..+.+.......
T Consensus       335 ~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~l--dP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~a  412 (517)
T PRK10153        335 HQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKS--EPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIVA  412 (517)
T ss_pred             CCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhhh
Confidence            35566766666643322     255677777777663  4543 2222222211110        011222222222111


Q ss_pred             hcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCC
Q 009066          302 DYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANA  375 (545)
Q Consensus       302 ~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~  375 (545)
                      ....+.++..|.++.-.....|++++|...+++. ...|+...|..+...+...|+.++|...+++++.++|.++
T Consensus       413 l~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P~~p  487 (517)
T PRK10153        413 LPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLEMSWLNYVLLGKVYELKGDNRLAADAYSTAFNLRPGEN  487 (517)
T ss_pred             cccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCc
Confidence            1012223344444444444445555555555544 3334444455555555555555555555555555555544

>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=97.60  E-value=0.00013  Score=52.54  Aligned_cols=64  Identities=14%  Similarity=0.105  Sum_probs=56.0

Q ss_pred             CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcC-CchHHHHHHHHhhh
Q 009066          340 QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMK-KWDDVARIRLSMKE  404 (545)
Q Consensus       340 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g-~~~~a~~~~~~m~~  404 (545)
                      +..+|..+...+...|++++|+..|+++++.+|+++. +|..++.+|...| ++++|.+.+++..+
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~-~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAE-AYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHH-HHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHH-HHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            4667888888999999999999999999999999888 8999999999999 79999998887654

...

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.59  E-value=0.0008  Score=58.67  Aligned_cols=82  Identities=16%  Similarity=0.077  Sum_probs=62.8

Q ss_pred             HHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCCC----HhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHH
Q 009066          309 PDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQ----PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLA  383 (545)
Q Consensus       309 ~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~  383 (545)
                      ...+..+...|...|++++|...|++. ...|+    ...|..+...+...|+++.|...++++++..|++.. .+..++
T Consensus        35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~-~~~~lg  113 (172)
T PRK02603         35 AFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPKQPS-ALNNIA  113 (172)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHH-HHHHHH
Confidence            445667777777788888888877766 22222    357788888888899999999999999998888877 788888


Q ss_pred             HHHHHcCC
Q 009066          384 NIYAAMKK  391 (545)
Q Consensus       384 ~~~~~~g~  391 (545)
                      .+|...|+
T Consensus       114 ~~~~~~g~  121 (172)
T PRK02603        114 VIYHKRGE  121 (172)
T ss_pred             HHHHHcCC
Confidence            88888776

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.57  E-value=0.0013  Score=64.58  Aligned_cols=102  Identities=11%  Similarity=0.015  Sum_probs=82.0

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcC
Q 009066          244 MISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAG  323 (545)
Q Consensus       244 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  323 (545)
                      ....+...|++++|++.|++.++... -+...+..+..++...|++++|...++.+++.  -+.+...|..+..+|...|
T Consensus         8 ~a~~a~~~~~~~~Ai~~~~~Al~~~P-~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l--~P~~~~a~~~lg~~~~~lg   84 (356)
T PLN03088          8 KAKEAFVDDDFALAVDLYTQAIDLDP-NNAELYADRAQANIKLGNFTEAVADANKAIEL--DPSLAKAYLRKGTACMKLE   84 (356)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHhC
Confidence            34567788999999999999998642 35667778888999999999999999999863  3446788999999999999


Q ss_pred             CHHHHHHHHHhC-CCCCCHhHHHHHH
Q 009066          324 KLVEAVDLIKKM-PFKPQPAIFGTLL  348 (545)
Q Consensus       324 ~~~~A~~~~~~m-~~~p~~~~~~~li  348 (545)
                      ++++|...|++. .+.|+......++
T Consensus        85 ~~~eA~~~~~~al~l~P~~~~~~~~l  110 (356)
T PLN03088         85 EYQTAKAALEKGASLAPGDSRFTKLI  110 (356)
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHH
Confidence            999999999987 5556554444444

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.57  E-value=0.0025  Score=60.54  Aligned_cols=153  Identities=12%  Similarity=0.069  Sum_probs=111.0

Q ss_pred             HHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHH--HHHHccCcHHHHHHHHHHhHHhcCCCCCHHH------------
Q 009066          246 SGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALL--LACNHAGLVDLGIQYFDSMVNDYGIAAKPDH------------  311 (545)
Q Consensus       246 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll--~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~------------  311 (545)
                      .++...|++++|...--..++..  ++. .+...+  .++-..++.+.|...|++.++   +.|+-..            
T Consensus       177 ~cl~~~~~~~~a~~ea~~ilkld--~~n-~~al~vrg~~~yy~~~~~ka~~hf~qal~---ldpdh~~sk~~~~~~k~le  250 (486)
T KOG0550|consen  177 ECLAFLGDYDEAQSEAIDILKLD--ATN-AEALYVRGLCLYYNDNADKAINHFQQALR---LDPDHQKSKSASMMPKKLE  250 (486)
T ss_pred             hhhhhcccchhHHHHHHHHHhcc--cch-hHHHHhcccccccccchHHHHHHHhhhhc---cChhhhhHHhHhhhHHHHH
Confidence            45667788888888776666532  211 122222  234456788888888877653   3444221            


Q ss_pred             -HHHHHHHHhHcCCHHHHHHHHHhC-CCC-----CCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHH
Q 009066          312 -YTCMVDLLGRAGKLVEAVDLIKKM-PFK-----PQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLAN  384 (545)
Q Consensus       312 -~~~li~~~~~~g~~~~A~~~~~~m-~~~-----p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~  384 (545)
                       +..-.....+.|++.+|.+.|.+. .+.     |+...|.....+..+.|+.++|+.--+.+++++|.... +|..-++
T Consensus       251 ~~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD~syik-all~ra~  329 (486)
T KOG0550|consen  251 VKKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKIDSSYIK-ALLRRAN  329 (486)
T ss_pred             HHHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcCHHHHH-HHHHHHH
Confidence             112234567889999999999877 443     45566777777788999999999999999999999887 8999999


Q ss_pred             HHHHcCCchHHHHHHHHhhhC
Q 009066          385 IYAAMKKWDDVARIRLSMKEN  405 (545)
Q Consensus       385 ~~~~~g~~~~a~~~~~~m~~~  405 (545)
                      ++...++|++|.+-++...+.
T Consensus       330 c~l~le~~e~AV~d~~~a~q~  350 (486)
T KOG0550|consen  330 CHLALEKWEEAVEDYEKAMQL  350 (486)
T ss_pred             HHHHHHHHHHHHHHHHHHHhh
Confidence            999999999999999887664

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.57  E-value=0.0008  Score=58.43  Aligned_cols=95  Identities=11%  Similarity=-0.080  Sum_probs=75.2

Q ss_pred             CCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCCC----HhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHH
Q 009066          307 AKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQ----PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQ  381 (545)
Q Consensus       307 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~  381 (545)
                      .....|..++..+...|++++|...|++. ...|+    ..+|..+...+...|++++|+..+++++.+.|.... ++..
T Consensus        33 ~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~~~~-~~~~  111 (168)
T CHL00033         33 KEAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPFLPQ-ALNN  111 (168)
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHH-HHHH
Confidence            34566677788888889999999988877 22232    347888999999999999999999999999998877 8888


Q ss_pred             HHHHHH-------HcCCchHHHHHHHHh
Q 009066          382 LANIYA-------AMKKWDDVARIRLSM  402 (545)
Q Consensus       382 l~~~~~-------~~g~~~~a~~~~~~m  402 (545)
                      ++.+|.       ..|++++|...+++.
T Consensus       112 la~i~~~~~~~~~~~g~~~~A~~~~~~a  139 (168)
T CHL00033        112 MAVICHYRGEQAIEQGDSEIAEAWFDQA  139 (168)
T ss_pred             HHHHHHHhhHHHHHcccHHHHHHHHHHH
Confidence            888888       778888776666544

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.56  E-value=0.036  Score=52.63  Aligned_cols=97  Identities=12%  Similarity=0.167  Sum_probs=59.4

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHHcCCC-----CCHH-HHHHHHHHHHccCcHHHHHHHHHHhHHh-cCCCCC--HH
Q 009066          240 TWNAMISGYAQHGKGEKALRLFDKMKDEGMK-----PDSI-TFVALLLACNHAGLVDLGIQYFDSMVND-YGIAAK--PD  310 (545)
Q Consensus       240 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-----p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~-~~~~~~--~~  310 (545)
                      .+..+...+.+.|++++|+++|++....-..     ++.. .|...+-++...|+...|.+.++..... .++..+  ..
T Consensus       157 ~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~  236 (282)
T PF14938_consen  157 CLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYK  236 (282)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHH
Confidence            4556677888889999999999888764322     2221 2233333556678888888888887643 123333  34


Q ss_pred             HHHHHHHHHhH--cCCHHHHHHHHHhCC
Q 009066          311 HYTCMVDLLGR--AGKLVEAVDLIKKMP  336 (545)
Q Consensus       311 ~~~~li~~~~~--~g~~~~A~~~~~~m~  336 (545)
                      ....|++++-.  ...+++|..-|+.+.
T Consensus       237 ~~~~l~~A~~~~D~e~f~~av~~~d~~~  264 (282)
T PF14938_consen  237 FLEDLLEAYEEGDVEAFTEAVAEYDSIS  264 (282)
T ss_dssp             HHHHHHHHHHTT-CCCHHHHCHHHTTSS
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHcccC
Confidence            45566776643  446777777777773

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=97.55  E-value=0.051  Score=57.06  Aligned_cols=215  Identities=14%  Similarity=0.152  Sum_probs=117.7

Q ss_pred             cCChHHHHHHHhhCCCCC-cccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHH
Q 009066          114 CGQLDKAVELFKVAPVKS-VVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGK  192 (545)
Q Consensus       114 ~g~~~~A~~~f~~~~~~~-~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~  192 (545)
                      .+++.+|.....++..+- -..|...+.++..   .+.|+.++|..+++.....+.. |..|...+-..|...+..+++.
T Consensus        22 ~~qfkkal~~~~kllkk~Pn~~~a~vLkaLsl---~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~~~   97 (932)
T KOG2053|consen   22 SSQFKKALAKLGKLLKKHPNALYAKVLKALSL---FRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDEAV   97 (932)
T ss_pred             hHHHHHHHHHHHHHHHHCCCcHHHHHHHHHHH---HHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhHHH
Confidence            455555555555443322 2334444555533   6677777777666666554433 6667777777777777777777


Q ss_pred             HHHHHHHhCCCCCCcccHHHHHHHHHhcCCHH----HHHHHHHhccCCChhhHHHHHHHHHHcCCh---------HHHHH
Q 009066          193 QVHQLVFKSPLCKDTTALTPLISMYCKCGDLE----DACKLFLEIQRKDVVTWNAMISGYAQHGKG---------EKALR  259 (545)
Q Consensus       193 ~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~----~A~~~f~~~~~~~~~~~~~li~~~~~~g~~---------~~A~~  259 (545)
                      .+|+++.+..  |+......+..+|.+.+++.    .|.+++...+++--..|+.+--.+......         .-|..
T Consensus        98 ~~Ye~~~~~~--P~eell~~lFmayvR~~~yk~qQkaa~~LyK~~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA~~  175 (932)
T KOG2053|consen   98 HLYERANQKY--PSEELLYHLFMAYVREKSYKKQQKAALQLYKNFPKRAYYFWSVISLILQSIFSENELLDPILLALAEK  175 (932)
T ss_pred             HHHHHHHhhC--CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcccchHHHHHHHHHHhccCCcccccchhHHHHHH
Confidence            7777776653  44555555666666666543    356666666655555565432222111111         23445


Q ss_pred             HHHHHHHcC-CCCCHHHHHHHHHHHHccCcHHHHHHHHH-HhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC
Q 009066          260 LFDKMKDEG-MKPDSITFVALLLACNHAGLVDLGIQYFD-SMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM  335 (545)
Q Consensus       260 ~~~~m~~~g-~~p~~~t~~~ll~a~~~~g~~~~a~~~~~-~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  335 (545)
                      .++.+.+.+ ..-+..-...-+......|..++|.+++. ..... -..-+...-+--++.+...+++.+-.++-.++
T Consensus       176 m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~-l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~L  252 (932)
T KOG2053|consen  176 MVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEK-LTSANLYLENKKLDLLKLLNRWQELFELSSRL  252 (932)
T ss_pred             HHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHh-ccccchHHHHHHHHHHHHhcChHHHHHHHHHH
Confidence            555555543 22222222222334556777888888873 33322 22333444455677777778777766555444

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.51  E-value=0.0032  Score=59.52  Aligned_cols=143  Identities=14%  Similarity=0.198  Sum_probs=103.4

Q ss_pred             hhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH-HHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHH
Q 009066          239 VTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLA-CNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVD  317 (545)
Q Consensus       239 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a-~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~  317 (545)
                      .+|-.++...-+.+..+.|..+|.+.++.+ ..+...|...... +...++.+.|.++|+...+.  ++.+...|...++
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~--f~~~~~~~~~Y~~   78 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK--FPSDPDFWLEYLD   78 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH--HTT-HHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH--CCCCHHHHHHHHH
Confidence            467888888888888999999999988543 2233334333333 33356777799999999885  4667788889999


Q ss_pred             HHhHcCCHHHHHHHHHhC-CCCCCH----hHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHH
Q 009066          318 LLGRAGKLVEAVDLIKKM-PFKPQP----AIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIY  386 (545)
Q Consensus       318 ~~~~~g~~~~A~~~~~~m-~~~p~~----~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~  386 (545)
                      .+.+.|+.+.|..+|++. ..-|..    ..|...+.--.+.|+.+....+.+++.+.-|.+.  ....+++-|
T Consensus        79 ~l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~~~~~~--~~~~f~~ry  150 (280)
T PF05843_consen   79 FLIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEELFPEDN--SLELFSDRY  150 (280)
T ss_dssp             HHHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHTTTS---HHHHHHCCT
T ss_pred             HHHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhhh--HHHHHHHHh
Confidence            999999999999999987 222333    5899999999999999999999999998888765  445555444

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.

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.51  E-value=0.11  Score=50.58  Aligned_cols=375  Identities=13%  Similarity=0.115  Sum_probs=193.2

Q ss_pred             HhCCCChHHHHHHHccCCC---CC------hhhHHHHHHHHHcCCCCHHHHHHHHhcCC--CCCeehHHHHHHH--HHhC
Q 009066           17 AKQRGKLKDAQELFDKIPQ---PD------VVSYNIMLSCILLNSDDVVAAFDFFQRLP--IKDTASWNTMISG--FVQK   83 (545)
Q Consensus        17 ~~~g~~~~~A~~~f~~~~~---~~------~~~~~~li~~~~~~~g~~~~A~~~~~~m~--~~d~~~~~~li~~--~~~~   83 (545)
                      -++++ +.+|.++|.++.+   .+      .+.-+-+|++|..+  +.+..........  .| ...|-.+..+  +-+.
T Consensus        17 qkq~~-~~esEkifskI~~e~~~~~f~lkeEvl~grilnAffl~--nld~Me~~l~~l~~~~~-~s~~l~LF~~L~~Y~~   92 (549)
T PF07079_consen   17 QKQKK-FQESEKIFSKIYDEKESSPFLLKEEVLGGRILNAFFLN--NLDLMEKQLMELRQQFG-KSAYLPLFKALVAYKQ   92 (549)
T ss_pred             HHHhh-hhHHHHHHHHHHHHhhcchHHHHHHHHhhHHHHHHHHh--hHHHHHHHHHHHHHhcC-CchHHHHHHHHHHHHh
Confidence            35677 9999999988863   12      22355678888876  5555544444443  22 3445555544  3478


Q ss_pred             CCHHHHHHHHhhCCc------------------CCHhHHHHHHHHHHHcCChHHHHHHHhhCCC--------CCcccHHH
Q 009066           84 KNMAKARDLFLAMPE------------------KNSVSWSAMISGYIECGQLDKAVELFKVAPV--------KSVVAWTA  137 (545)
Q Consensus        84 g~~~~a~~~~~~~~~------------------~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~--------~~~~~~~~  137 (545)
                      +.+.+|.+.+....+                  +|...-+..++.+.+.|++.+++.++++|..        -++.+||.
T Consensus        93 k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~  172 (549)
T PF07079_consen   93 KEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDR  172 (549)
T ss_pred             hhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHH
Confidence            889999988876551                  2334446677888999999999998887652        26677777


Q ss_pred             HHHHhcchhhhc---cCC-------hHHHHHHHHHHHhC------CCCCCHHHHHHHHHHHhcc--CcHHHHHHHHHHHH
Q 009066          138 MISGYMKFGYVE---NSW-------AEDGLKLLRMMIGL------GIRPNASSLSSVLLGCSHL--SSLQLGKQVHQLVF  199 (545)
Q Consensus       138 li~~~~~~g~~~---~g~-------~~~A~~~~~~m~~~------~~~pd~~t~~~ll~~~~~~--~~~~~a~~~~~~~~  199 (545)
                      ++-.+.+.-+..   ...       ++-++-..++|...      .+.|-...+..++....-.  ..+.--.+++....
T Consensus       173 ~vlmlsrSYfLEl~e~~s~dl~pdyYemilfY~kki~~~d~~~Y~k~~peeeL~s~imqhlfi~p~e~l~~~mq~l~~We  252 (549)
T PF07079_consen  173 AVLMLSRSYFLELKESMSSDLYPDYYEMILFYLKKIHAFDQRPYEKFIPEEELFSTIMQHLFIVPKERLPPLMQILENWE  252 (549)
T ss_pred             HHHHHhHHHHHHHHHhcccccChHHHHHHHHHHHHHHHHhhchHHhhCcHHHHHHHHHHHHHhCCHhhccHHHHHHHHHH
Confidence            444432222111   111       12222223333221      2334444444444332211  12222333333333


Q ss_pred             hCCCCCCcc-cHHHHHHHHHhcCCHHHHHHHHHhcc--------CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCC-
Q 009066          200 KSPLCKDTT-ALTPLISMYCKCGDLEDACKLFLEIQ--------RKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGM-  269 (545)
Q Consensus       200 ~~g~~~~~~-~~~~li~~y~~~g~~~~A~~~f~~~~--------~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-  269 (545)
                      ..-+.|+-. +...|+.-+.+  +.+++..+-+.+.        +.=+.++..++....+.++..+|-+.+.-+..... 
T Consensus       253 ~~yv~p~~~LVi~~L~~~f~~--~~e~~~~~ce~ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~ldp~  330 (549)
T PF07079_consen  253 NFYVHPNYDLVIEPLKQQFMS--DPEQVGHFCEAIASSKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYLALLKILDPR  330 (549)
T ss_pred             hhccCCchhHHHHHHHHHHhc--ChHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcCCc
Confidence            333333322 22333333333  2233322222211        12233444445555555555554444443322110 


Q ss_pred             -----------------------------------------CCCHHHH-HHHH---HHHHccCc-HHHHHHHHHHhHHhc
Q 009066          270 -----------------------------------------KPDSITF-VALL---LACNHAGL-VDLGIQYFDSMVNDY  303 (545)
Q Consensus       270 -----------------------------------------~p~~~t~-~~ll---~a~~~~g~-~~~a~~~~~~~~~~~  303 (545)
                                                               ..|..-. ..|+   .-+-+.|. -++|..+++.+.+- 
T Consensus       331 ~svs~Kllls~~~lq~Iv~~DD~~~Tklr~yL~lwe~~qs~DiDrqQLvh~L~~~Ak~lW~~g~~dekalnLLk~il~f-  409 (549)
T PF07079_consen  331 ISVSEKLLLSPKVLQDIVCEDDESYTKLRDYLNLWEEIQSYDIDRQQLVHYLVFGAKHLWEIGQCDEKALNLLKLILQF-  409 (549)
T ss_pred             chhhhhhhcCHHHHHHHHhcchHHHHHHHHHHHHHHHHHhhcccHHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHh-
Confidence                                                     0111100 0111   11222333 56777777666542 


Q ss_pred             CCCC-CHHHHHHHH----HHHhHc---CCHH---HHHHHHHhCCCCC----CHhHHHHHHHH--HHhcCCHHHHHHHHHH
Q 009066          304 GIAA-KPDHYTCMV----DLLGRA---GKLV---EAVDLIKKMPFKP----QPAIFGTLLSA--CRVHKRLDLAEFAAMN  366 (545)
Q Consensus       304 ~~~~-~~~~~~~li----~~~~~~---g~~~---~A~~~~~~m~~~p----~~~~~~~li~~--~~~~g~~~~A~~~~~~  366 (545)
                        .| |...-+.+.    ..|..+   ..+.   .-..++++.++.|    +...-|.|..|  +..+|++.++...-.-
T Consensus       410 --t~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~~i~i~e~eian~LaDAEyLysqgey~kc~~ys~W  487 (549)
T PF07079_consen  410 --TNYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLTPITISEEEIANFLADAEYLYSQGEYHKCYLYSSW  487 (549)
T ss_pred             --ccccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCcccccHHHHHHHHHHHHHHHhcccHHHHHHHHHH
Confidence              22 222222211    112111   1111   2223344555554    33455666665  5689999999999999


Q ss_pred             HhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHh
Q 009066          367 LFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSM  402 (545)
Q Consensus       367 ~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  402 (545)
                      +.+..|. +. +|..++-+.....++++|..++..+
T Consensus       488 L~~iaPS-~~-~~RLlGl~l~e~k~Y~eA~~~l~~L  521 (549)
T PF07079_consen  488 LTKIAPS-PQ-AYRLLGLCLMENKRYQEAWEYLQKL  521 (549)
T ss_pred             HHHhCCc-HH-HHHHHHHHHHHHhhHHHHHHHHHhC
Confidence            9999994 44 9999999999999999999999865

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.51  E-value=0.00028  Score=50.06  Aligned_cols=57  Identities=19%  Similarity=0.152  Sum_probs=43.7

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhh
Q 009066          347 LLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       347 li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  404 (545)
                      +...+...|++++|+..|+++++..|++.. .+..++.++...|++++|...++++.+
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~-a~~~lg~~~~~~g~~~~A~~~~~~a~~   59 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPDNPE-AWYLLGRILYQQGRYDEALAYYERALE   59 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTTHHH-HHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHH-HHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            445667778888888888888888888777 788888888888888888888877754

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.50  E-value=0.032  Score=56.77  Aligned_cols=211  Identities=15%  Similarity=0.192  Sum_probs=98.2

Q ss_pred             CcccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccH
Q 009066          131 SVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTAL  210 (545)
Q Consensus       131 ~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~  210 (545)
                      |....-.|...+     .+.|.-++|.+.|-+--    .|.     ..+..|...+++.+|.++-+...-    |.+.+.
T Consensus       851 ~s~llp~~a~mf-----~svGMC~qAV~a~Lr~s----~pk-----aAv~tCv~LnQW~~avelaq~~~l----~qv~tl  912 (1189)
T KOG2041|consen  851 DSELLPVMADMF-----TSVGMCDQAVEAYLRRS----LPK-----AAVHTCVELNQWGEAVELAQRFQL----PQVQTL  912 (1189)
T ss_pred             ccchHHHHHHHH-----HhhchHHHHHHHHHhcc----CcH-----HHHHHHHHHHHHHHHHHHHHhccc----hhHHHH
Confidence            344555677777     77788888877664322    221     345567777777777665443211    111110


Q ss_pred             --------------HHHHHHHHhcCCHHHHHHHHHhccCCCh---hhHHHHHHHHH----HcCChHHHHHHHHHHHHcCC
Q 009066          211 --------------TPLISMYCKCGDLEDACKLFLEIQRKDV---VTWNAMISGYA----QHGKGEKALRLFDKMKDEGM  269 (545)
Q Consensus       211 --------------~~li~~y~~~g~~~~A~~~f~~~~~~~~---~~~~~li~~~~----~~g~~~~A~~~~~~m~~~g~  269 (545)
                                    ---|..+-+.|+.=+|-+++.+|.++..   +.+..+=..|.    -..++.++++-.+.....|.
T Consensus       913 iak~aaqll~~~~~~eaIe~~Rka~~~~daarll~qmae~e~~K~~p~lr~KklYVL~AlLvE~h~~~ik~~~~~~~~g~  992 (1189)
T KOG2041|consen  913 IAKQAAQLLADANHMEAIEKDRKAGRHLDAARLLSQMAEREQEKYVPYLRLKKLYVLGALLVENHRQTIKELRKIDKHGF  992 (1189)
T ss_pred             HHHHHHHHHhhcchHHHHHHhhhcccchhHHHHHHHHhHHHhhccCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCc
Confidence                          0134555666665555555555543211   11111111111    11123333444444333333


Q ss_pred             CCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC----CCCCCHhHHH
Q 009066          270 KPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM----PFKPQPAIFG  345 (545)
Q Consensus       270 ~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~p~~~~~~  345 (545)
                      ..|...       +...|...++-++.+..-+    -....++..|.+--...|.++.|+..--.+    .+-|...+|.
T Consensus       993 ~~dat~-------lles~~l~~~~ri~~n~Wr----gAEAyHFmilAQrql~eg~v~~Al~Tal~L~DYEd~lpP~eiyS 1061 (1189)
T KOG2041|consen  993 LEDATD-------LLESGLLAEQSRILENTWR----GAEAYHFMILAQRQLFEGRVKDALQTALILSDYEDFLPPAEIYS 1061 (1189)
T ss_pred             chhhhh-------hhhhhhhhhHHHHHHhhhh----hHHHHHHHHHHHHHHHhchHHHHHHHHhhhccHhhcCCHHHHHH
Confidence            322211       1122222333333322211    123455566666667778888877653332    2335556666


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHhcC
Q 009066          346 TLLSACRVHKRLDLAEFAAMNLFNL  370 (545)
Q Consensus       346 ~li~~~~~~g~~~~A~~~~~~~~~~  370 (545)
                      .|.-+.+....+...-+.|.++...
T Consensus      1062 llALaaca~raFGtCSKAfmkLe~~ 1086 (1189)
T KOG2041|consen 1062 LLALAACAVRAFGTCSKAFMKLEAF 1086 (1189)
T ss_pred             HHHHHHhhhhhhhhhHHHHHHHHhh
Confidence            5555555555555555555555443

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.46  E-value=0.009  Score=51.79  Aligned_cols=81  Identities=14%  Similarity=0.115  Sum_probs=51.7

Q ss_pred             hhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHH
Q 009066          238 VVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPD--SITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCM  315 (545)
Q Consensus       238 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~--~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l  315 (545)
                      ...|..+...+...|++++|+..|++.......|.  ..++..+...+...|+.++|...++...+.  .+.....+..+
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~--~~~~~~~~~~l  112 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALER--NPFLPQALNNM  112 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCcHHHHHHH
Confidence            34566677777777888888888888766432221  235666667777778888888887776642  23334455555


Q ss_pred             HHHHh
Q 009066          316 VDLLG  320 (545)
Q Consensus       316 i~~~~  320 (545)
                      ...|.
T Consensus       113 a~i~~  117 (168)
T CHL00033        113 AVICH  117 (168)
T ss_pred             HHHHH
Confidence            55555

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.44  E-value=0.12  Score=49.52  Aligned_cols=108  Identities=19%  Similarity=0.178  Sum_probs=71.8

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhccCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHH
Q 009066          211 TPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVD  290 (545)
Q Consensus       211 ~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~  290 (545)
                      +.-|.-+...|+...|.++-.+..-||-..|-..+.+|+..+++++-..+...    .-  .++-|-.++.+|...|...
T Consensus       181 ~~Ti~~li~~~~~k~A~kl~k~Fkv~dkrfw~lki~aLa~~~~w~eL~~fa~s----kK--sPIGyepFv~~~~~~~~~~  254 (319)
T PF04840_consen  181 NDTIRKLIEMGQEKQAEKLKKEFKVPDKRFWWLKIKALAENKDWDELEKFAKS----KK--SPIGYEPFVEACLKYGNKK  254 (319)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCCHHHHHHHHhC----CC--CCCChHHHHHHHHHCCCHH
Confidence            33455556677778888887777777777888888888888887766654332    11  2355666777777777777


Q ss_pred             HHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC
Q 009066          291 LGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM  335 (545)
Q Consensus       291 ~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  335 (545)
                      +|..+...+.           +..-+.+|.++|++.+|.+.--+.
T Consensus       255 eA~~yI~k~~-----------~~~rv~~y~~~~~~~~A~~~A~~~  288 (319)
T PF04840_consen  255 EASKYIPKIP-----------DEERVEMYLKCGDYKEAAQEAFKE  288 (319)
T ss_pred             HHHHHHHhCC-----------hHHHHHHHHHCCCHHHHHHHHHHc
Confidence            7777765421           144567777788877776654443

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

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.42  E-value=0.0073  Score=52.59  Aligned_cols=131  Identities=14%  Similarity=0.186  Sum_probs=87.3

Q ss_pred             ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHH
Q 009066          237 DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPD--SITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTC  314 (545)
Q Consensus       237 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~--~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~  314 (545)
                      ....+..+...+...|++++|+..|++.......++  ...+..+...+.+.|++++|...+.+..+.  .+.+...+..
T Consensus        34 ~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~  111 (172)
T PRK02603         34 EAFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALEL--NPKQPSALNN  111 (172)
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHH
Confidence            445667777778888888888888888876443332  346667777888888888888888887753  2334566667


Q ss_pred             HHHHHhHcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCC
Q 009066          315 MVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKK  391 (545)
Q Consensus       315 li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~  391 (545)
                      +..+|...|+...+..-++..                  ...+++|...++++.+.+|++    |..++..+...|+
T Consensus       112 lg~~~~~~g~~~~a~~~~~~A------------------~~~~~~A~~~~~~a~~~~p~~----~~~~~~~~~~~~~  166 (172)
T PRK02603        112 IAVIYHKRGEKAEEAGDQDEA------------------EALFDKAAEYWKQAIRLAPNN----YIEAQNWLKTTGR  166 (172)
T ss_pred             HHHHHHHcCChHhHhhCHHHH------------------HHHHHHHHHHHHHHHhhCchh----HHHHHHHHHhcCc
Confidence            777777777766554332221                  123677888888888888875    4455555554443

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.41  E-value=0.00074  Score=50.81  Aligned_cols=81  Identities=21%  Similarity=0.329  Sum_probs=43.0

Q ss_pred             cCChHHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHH
Q 009066          251 HGKGEKALRLFDKMKDEGM-KPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAV  329 (545)
Q Consensus       251 ~g~~~~A~~~~~~m~~~g~-~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  329 (545)
                      +|+++.|+.+|+++.+... .|+...+..+..++.+.|++++|..+++. .+. + +.+....-.+..+|.+.|++++|+
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~-~-~~~~~~~~l~a~~~~~l~~y~eAi   78 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKL-D-PSNPDIHYLLARCLLKLGKYEEAI   78 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTH-H-HCHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCC-C-CCCHHHHHHHHHHHHHhCCHHHHH
Confidence            4666667777776666432 12333444456666666777777666655 211 1 112233334466666666666666


Q ss_pred             HHHHh
Q 009066          330 DLIKK  334 (545)
Q Consensus       330 ~~~~~  334 (545)
                      +++++
T Consensus        79 ~~l~~   83 (84)
T PF12895_consen   79 KALEK   83 (84)
T ss_dssp             HHHHH
T ss_pred             HHHhc
Confidence            66653

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.41  E-value=0.0019  Score=59.02  Aligned_cols=92  Identities=14%  Similarity=0.122  Sum_probs=67.4

Q ss_pred             HHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCCCH-hHHHHHHHHHHhcCCHHHH
Q 009066          283 CNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQP-AIFGTLLSACRVHKRLDLA  360 (545)
Q Consensus       283 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~-~~~~~li~~~~~~g~~~~A  360 (545)
                      ..+.+++++|+..|...++  -.+.|+..|..-..+|.+.|.++.|.+-.+.. .+.|.. ..|..|..+|...|++++|
T Consensus        91 ~m~~~~Y~eAv~kY~~AI~--l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk~~~A  168 (304)
T KOG0553|consen   91 LMKNKDYQEAVDKYTEAIE--LDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGKYEEA  168 (304)
T ss_pred             HHHhhhHHHHHHHHHHHHh--cCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCcHHHH
Confidence            3456777777777777764  23445666666777777888777777766554 555543 6788888888888999999


Q ss_pred             HHHHHHHhcCCCCCCc
Q 009066          361 EFAAMNLFNLNPANAA  376 (545)
Q Consensus       361 ~~~~~~~~~~~p~~~~  376 (545)
                      ++.|++.++++|++..
T Consensus       169 ~~aykKaLeldP~Ne~  184 (304)
T KOG0553|consen  169 IEAYKKALELDPDNES  184 (304)
T ss_pred             HHHHHhhhccCCCcHH
Confidence            9999999999998874

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.38  E-value=0.14  Score=49.03  Aligned_cols=112  Identities=10%  Similarity=0.104  Sum_probs=86.0

Q ss_pred             HHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHH
Q 009066          273 SITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACR  352 (545)
Q Consensus       273 ~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~li~~~~  352 (545)
                      ..+.+..+.-|...|....|.++-.    ++.+ |+...|-..+.+|+..+++++-.++...   +.++.-|..++.+|.
T Consensus       177 ~~Sl~~Ti~~li~~~~~k~A~kl~k----~Fkv-~dkrfw~lki~aLa~~~~w~eL~~fa~s---kKsPIGyepFv~~~~  248 (319)
T PF04840_consen  177 GLSLNDTIRKLIEMGQEKQAEKLKK----EFKV-PDKRFWWLKIKALAENKDWDELEKFAKS---KKSPIGYEPFVEACL  248 (319)
T ss_pred             cCCHHHHHHHHHHCCCHHHHHHHHH----HcCC-cHHHHHHHHHHHHHhcCCHHHHHHHHhC---CCCCCChHHHHHHHH
Confidence            3455556666777888877776653    3444 7888899999999999999988876654   345678999999999


Q ss_pred             hcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHh
Q 009066          353 VHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSM  402 (545)
Q Consensus       353 ~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  402 (545)
                      ..|+..+|..+..++          .+..-+..|.+.|+|.+|.+.-.+.
T Consensus       249 ~~~~~~eA~~yI~k~----------~~~~rv~~y~~~~~~~~A~~~A~~~  288 (319)
T PF04840_consen  249 KYGNKKEASKYIPKI----------PDEERVEMYLKCGDYKEAAQEAFKE  288 (319)
T ss_pred             HCCCHHHHHHHHHhC----------ChHHHHHHHHHCCCHHHHHHHHHHc
Confidence            999999999888772          3467778899999999998765443

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

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.36  E-value=0.00057  Score=62.34  Aligned_cols=87  Identities=17%  Similarity=0.216  Sum_probs=76.7

Q ss_pred             HHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchH
Q 009066          317 DLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDD  394 (545)
Q Consensus       317 ~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~  394 (545)
                      .-+.+.+++++|+..|.+. .+.| |.+-|-.=..+|.+.|.++.|++-.+..+.++|.... +|..|..+|...|++++
T Consensus        89 N~~m~~~~Y~eAv~kY~~AI~l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~ysk-ay~RLG~A~~~~gk~~~  167 (304)
T KOG0553|consen   89 NKLMKNKDYQEAVDKYTEAIELDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYSK-AYGRLGLAYLALGKYEE  167 (304)
T ss_pred             HHHHHhhhHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHHH-HHHHHHHHHHccCcHHH
Confidence            4456789999999999887 5666 5566677788999999999999999999999999988 99999999999999999


Q ss_pred             HHHHHHHhhh
Q 009066          395 VARIRLSMKE  404 (545)
Q Consensus       395 a~~~~~~m~~  404 (545)
                      |.+.|++..+
T Consensus       168 A~~aykKaLe  177 (304)
T KOG0553|consen  168 AIEAYKKALE  177 (304)
T ss_pred             HHHHHHhhhc
Confidence            9999887654

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.35  E-value=0.0042  Score=57.12  Aligned_cols=101  Identities=14%  Similarity=0.086  Sum_probs=85.6

Q ss_pred             CCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHHHHhc---CCHHHHHHHHHHHhcCCCCCCchhHH
Q 009066          306 AAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFK-PQPAIFGTLLSACRVH---KRLDLAEFAAMNLFNLNPANAAGCYV  380 (545)
Q Consensus       306 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~-p~~~~~~~li~~~~~~---g~~~~A~~~~~~~~~~~p~~~~~~~~  380 (545)
                      +-|.+.|-.|...|.+.|+.+.|..-|.+. .+. ++...+..+..++...   ....++..++++++.++|++.. +..
T Consensus       153 P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~ir-al~  231 (287)
T COG4235         153 PGDAEGWDLLGRAYMALGRASDALLAYRNALRLAGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIR-ALS  231 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHH-HHH
Confidence            778899999999999999999999999887 333 4566777777665433   3455899999999999999998 999


Q ss_pred             HHHHHHHHcCCchHHHHHHHHhhhCCC
Q 009066          381 QLANIYAAMKKWDDVARIRLSMKENNV  407 (545)
Q Consensus       381 ~l~~~~~~~g~~~~a~~~~~~m~~~~~  407 (545)
                      .|+..+...|++.+|...|+.|.+..-
T Consensus       232 lLA~~afe~g~~~~A~~~Wq~lL~~lp  258 (287)
T COG4235         232 LLAFAAFEQGDYAEAAAAWQMLLDLLP  258 (287)
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHhcCC
Confidence            999999999999999999999988654

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.32  E-value=0.0028  Score=52.81  Aligned_cols=98  Identities=12%  Similarity=0.083  Sum_probs=60.9

Q ss_pred             HHHccCC-CCChhhHHHHHHHHHcCCCCHHHHHHHHhcCC---CCCeehHHHHHHHHHhCCCHHHHHHHHhhCC---cCC
Q 009066           28 ELFDKIP-QPDVVSYNIMLSCILLNSDDVVAAFDFFQRLP---IKDTASWNTMISGFVQKKNMAKARDLFLAMP---EKN  100 (545)
Q Consensus        28 ~~f~~~~-~~~~~~~~~li~~~~~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~g~~~~a~~~~~~~~---~~~  100 (545)
                      ..+..+. +.+....-.+-..+... |++++|.++|+...   +-+..-|-.|...+-..|++++|+..|....   ..|
T Consensus        24 ~~l~~~~~~~~l~~lY~~A~~ly~~-G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~dd  102 (157)
T PRK15363         24 RMLLDDDVTQPLNTLYRYAMQLMEV-KEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKIDA  102 (157)
T ss_pred             HHHHCCChHHHHHHHHHHHHHHHHC-CCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCC
Confidence            3333444 33333333334444555 77777777777655   3344566677777777777777777777654   345


Q ss_pred             HhHHHHHHHHHHHcCChHHHHHHHhh
Q 009066          101 SVSWSAMISGYIECGQLDKAVELFKV  126 (545)
Q Consensus       101 ~~~~~~li~~~~~~g~~~~A~~~f~~  126 (545)
                      +..+-.+..+|.+.|+.+.|++.|+.
T Consensus       103 p~~~~~ag~c~L~lG~~~~A~~aF~~  128 (157)
T PRK15363        103 PQAPWAAAECYLACDNVCYAIKALKA  128 (157)
T ss_pred             chHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            66777777777777777777777764

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.27  E-value=0.005  Score=47.65  Aligned_cols=81  Identities=11%  Similarity=0.185  Sum_probs=63.4

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHccC--------cHHHHHHHHHHhHHhcCCCCCHH
Q 009066          240 TWNAMISGYAQHGKGEKALRLFDKMKDEGM-KPDSITFVALLLACNHAG--------LVDLGIQYFDSMVNDYGIAAKPD  310 (545)
Q Consensus       240 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~~t~~~ll~a~~~~g--------~~~~a~~~~~~~~~~~~~~~~~~  310 (545)
                      +-...|..+...+++.....+|+.+++.|+ .|+..+|+.++.+..+..        ++-+.+.+++.|... +++|+.+
T Consensus        27 t~i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~-~lKP~~e  105 (120)
T PF08579_consen   27 TQIDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSN-KLKPNDE  105 (120)
T ss_pred             HHHHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHh-ccCCcHH
Confidence            334456666677999999999999999999 899999999998776543        345667778888775 7888888


Q ss_pred             HHHHHHHHHhH
Q 009066          311 HYTCMVDLLGR  321 (545)
Q Consensus       311 ~~~~li~~~~~  321 (545)
                      +|+.++..+.+
T Consensus       106 tYnivl~~Llk  116 (120)
T PF08579_consen  106 TYNIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHHHH
Confidence            88888877654

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 [, , ].

>PRK15331 chaperone protein SicA; Provisional

Probab=97.26  E-value=0.0047  Score=51.77  Aligned_cols=90  Identities=16%  Similarity=0.090  Sum_probs=76.2

Q ss_pred             HHHHHHhHcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCC
Q 009066          314 CMVDLLGRAGKLVEAVDLIKKM-PFK-PQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKK  391 (545)
Q Consensus       314 ~li~~~~~~g~~~~A~~~~~~m-~~~-p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~  391 (545)
                      ...--+...|++++|..+|.-+ -.. -|..-|..|...+...++++.|...|.....++++++. .+...+.+|...|+
T Consensus        42 ~~Ay~~y~~Gk~~eA~~~F~~L~~~d~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~dp~-p~f~agqC~l~l~~  120 (165)
T PRK15331         42 AHAYEFYNQGRLDEAETFFRFLCIYDFYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKNDYR-PVFFTGQCQLLMRK  120 (165)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCC-ccchHHHHHHHhCC
Confidence            3444456789999999999876 112 35667888999999999999999999999999999988 89999999999999


Q ss_pred             chHHHHHHHHhhh
Q 009066          392 WDDVARIRLSMKE  404 (545)
Q Consensus       392 ~~~a~~~~~~m~~  404 (545)
                      .+.|+..|+...+
T Consensus       121 ~~~A~~~f~~a~~  133 (165)
T PRK15331        121 AAKARQCFELVNE  133 (165)
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999998765

>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=97.25  E-value=0.00034  Score=50.18  Aligned_cols=52  Identities=17%  Similarity=0.172  Sum_probs=40.7

Q ss_pred             HhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhh
Q 009066          352 RVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       352 ~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  404 (545)
                      ...|++++|+..|+++++.+|++.. ....++.+|.+.|++++|.++++.+..
T Consensus         2 l~~~~~~~A~~~~~~~l~~~p~~~~-~~~~la~~~~~~g~~~~A~~~l~~~~~   53 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRNPDNPE-ARLLLAQCYLKQGQYDEAEELLERLLK   53 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHTTTSHH-HHHHHHHHHHHTT-HHHHHHHHHCCHG
T ss_pred             hhccCHHHHHHHHHHHHHHCCCCHH-HHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            4567888888888888888888777 777888888888888888888877654

...

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.25  E-value=0.0009  Score=47.44  Aligned_cols=60  Identities=22%  Similarity=0.218  Sum_probs=44.8

Q ss_pred             HHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCC
Q 009066          315 MVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPAN  374 (545)
Q Consensus       315 li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~  374 (545)
                      +...+.+.|++++|.+.|++. ...| +...|..+...+...|++++|...|+++++..|++
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~P~~   64 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALELDPDN   64 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCC
Confidence            456677788888888888877 3345 45677888888888888888888888888888875

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.23  E-value=0.048  Score=55.05  Aligned_cols=97  Identities=19%  Similarity=0.227  Sum_probs=56.0

Q ss_pred             HHHHHHhcCCHHHHHHHHHhccCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHH
Q 009066          213 LISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLG  292 (545)
Q Consensus       213 li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a  292 (545)
                      ...++...|+.++|..+.                  ..+|=.+-++++-+++-.    .+..+...+..-+-+...+..|
T Consensus       709 AAEmLiSaGe~~KAi~i~------------------~d~gW~d~lidI~rkld~----~ere~l~~~a~ylk~l~~~gLA  766 (1081)
T KOG1538|consen  709 AAEMLISAGEHVKAIEIC------------------GDHGWVDMLIDIARKLDK----AEREPLLLCATYLKKLDSPGLA  766 (1081)
T ss_pred             HHHHhhcccchhhhhhhh------------------hcccHHHHHHHHHhhcch----hhhhHHHHHHHHHhhccccchH
Confidence            344555566666665442                  233444444444444322    2333444444445556667777


Q ss_pred             HHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhCC-CCCCH
Q 009066          293 IQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMP-FKPQP  341 (545)
Q Consensus       293 ~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~  341 (545)
                      -++|.+|-.          ...++++....+++++|..+-++.| ..||+
T Consensus       767 aeIF~k~gD----------~ksiVqlHve~~~W~eAFalAe~hPe~~~dV  806 (1081)
T KOG1538|consen  767 AEIFLKMGD----------LKSLVQLHVETQRWDEAFALAEKHPEFKDDV  806 (1081)
T ss_pred             HHHHHHhcc----------HHHHhhheeecccchHhHhhhhhCccccccc
Confidence            777777642          2457778888888888888888773 34444

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.21  E-value=0.076  Score=48.94  Aligned_cols=56  Identities=14%  Similarity=0.080  Sum_probs=31.6

Q ss_pred             HHHHHHccCcHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhHcCCHHHHHHHHHh
Q 009066          279 LLLACNHAGLVDLGIQYFDSMVNDYGIAAK-PDHYTCMVDLLGRAGKLVEAVDLIKK  334 (545)
Q Consensus       279 ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~  334 (545)
                      +..-|.+.|.+..|..-++.+++++.-.|. .+....++.+|...|..++|.++...
T Consensus       181 ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~  237 (243)
T PRK10866        181 VAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKI  237 (243)
T ss_pred             HHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHH
Confidence            344555666666666666666655432222 34445566666666666666665443

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.20  E-value=0.005  Score=58.21  Aligned_cols=130  Identities=8%  Similarity=0.081  Sum_probs=100.9

Q ss_pred             HHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhH-cCCHHHHHHHHHhC--CCCCCHhHHHHHHHH
Q 009066          274 ITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGR-AGKLVEAVDLIKKM--PFKPQPAIFGTLLSA  350 (545)
Q Consensus       274 ~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~-~g~~~~A~~~~~~m--~~~p~~~~~~~li~~  350 (545)
                      .+|..++....+.+..+.|+.+|.+..+.  ...+..+|.....+-.+ .++.+.|.++|+..  .+..+...|...+.-
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~--~~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~f~~~~~~~~~Y~~~   79 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKD--KRCTYHVYVAYALMEYYCNKDPKRARKIFERGLKKFPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCC--CCS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcC--CCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHH
Confidence            46788888899999999999999999753  23345666666666455 56666699999987  344577889999999


Q ss_pred             HHhcCCHHHHHHHHHHHhcCCCCCC--chhHHHHHHHHHHcCCchHHHHHHHHhhhC
Q 009066          351 CRVHKRLDLAEFAAMNLFNLNPANA--AGCYVQLANIYAAMKKWDDVARIRLSMKEN  405 (545)
Q Consensus       351 ~~~~g~~~~A~~~~~~~~~~~p~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  405 (545)
                      +...++.+.|..+|++.+..-|...  ...|...+..-.+.|+++.+.++.+++.+.
T Consensus        80 l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~  136 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL  136 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            9999999999999999988765543  237889999999999999999999888763

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.

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.19  E-value=0.35  Score=49.57  Aligned_cols=192  Identities=15%  Similarity=0.134  Sum_probs=92.0

Q ss_pred             hHHHHHHHccCCCCChhhHHHHHHHHHcCCCCHHHHHHHHhcCC-CCCee------------hHHHHHHHHHhCCCHHHH
Q 009066           23 LKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQRLP-IKDTA------------SWNTMISGFVQKKNMAKA   89 (545)
Q Consensus        23 ~~~A~~~f~~~~~~~~~~~~~li~~~~~~~g~~~~A~~~~~~m~-~~d~~------------~~~~li~~~~~~g~~~~a   89 (545)
                      +++|.+..+.-|.|  ..|..+....++. -.++.|...|-+.. -+...            .-.+=+.+|  -|++++|
T Consensus       679 ledA~qfiEdnPHp--rLWrllAe~Al~K-l~l~tAE~AFVrc~dY~Gik~vkrl~~i~s~~~q~aei~~~--~g~feea  753 (1189)
T KOG2041|consen  679 LEDAIQFIEDNPHP--RLWRLLAEYALFK-LALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRAEISAF--YGEFEEA  753 (1189)
T ss_pred             hHHHHHHHhcCCch--HHHHHHHHHHHHH-HhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhHhHhhh--hcchhHh
Confidence            56666666654443  4466665555555 56667776666654 11110            011112222  3667777


Q ss_pred             HHHHhhCCcCCHhHHHHHHHHHHHcCChHHHHHHHhhCCCC-----CcccHHHHHHHhcchhhhccCChHHHHHHHHHH-
Q 009066           90 RDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAPVK-----SVVAWTAMISGYMKFGYVENSWAEDGLKLLRMM-  163 (545)
Q Consensus        90 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~-----~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m-  163 (545)
                      .++|-.|-.+|.     .|.++.+.|++-...++++.-...     -..+|+.+...+     +....+++|.+.|..- 
T Consensus       754 ek~yld~drrDL-----Aielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~f-----a~~~~We~A~~yY~~~~  823 (1189)
T KOG2041|consen  754 EKLYLDADRRDL-----AIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETF-----AEMMEWEEAAKYYSYCG  823 (1189)
T ss_pred             hhhhhccchhhh-----hHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHhcc
Confidence            777766654443     344555555555555555432211     113444444444     3333344444333221 


Q ss_pred             ------------------H--hCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCH
Q 009066          164 ------------------I--GLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDL  223 (545)
Q Consensus       164 ------------------~--~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~  223 (545)
                                        .  ...++-|....-.+..++.+.|.-++|.+.|-+   .+.+      .+.++.+...+++
T Consensus       824 ~~e~~~ecly~le~f~~LE~la~~Lpe~s~llp~~a~mf~svGMC~qAV~a~Lr---~s~p------kaAv~tCv~LnQW  894 (1189)
T KOG2041|consen  824 DTENQIECLYRLELFGELEVLARTLPEDSELLPVMADMFTSVGMCDQAVEAYLR---RSLP------KAAVHTCVELNQW  894 (1189)
T ss_pred             chHhHHHHHHHHHhhhhHHHHHHhcCcccchHHHHHHHHHhhchHHHHHHHHHh---ccCc------HHHHHHHHHHHHH
Confidence                              1  111233444455555566666666666554422   2211      2345555556666


Q ss_pred             HHHHHHHHhccCCCh
Q 009066          224 EDACKLFLEIQRKDV  238 (545)
Q Consensus       224 ~~A~~~f~~~~~~~~  238 (545)
                      .+|.++-+...-|.+
T Consensus       895 ~~avelaq~~~l~qv  909 (1189)
T KOG2041|consen  895 GEAVELAQRFQLPQV  909 (1189)
T ss_pred             HHHHHHHHhccchhH
Confidence            666666655544433

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.18  E-value=0.02  Score=54.28  Aligned_cols=116  Identities=17%  Similarity=0.228  Sum_probs=71.7

Q ss_pred             HHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHcc-CcHHHHHHHHHHhHHhcCCCCC----HHHHHHHHHHH
Q 009066          245 ISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHA-GLVDLGIQYFDSMVNDYGIAAK----PDHYTCMVDLL  319 (545)
Q Consensus       245 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~-g~~~~a~~~~~~~~~~~~~~~~----~~~~~~li~~~  319 (545)
                      +..|...|++..|-..+.+               +...|... |++++|.+.|++...-+.....    ...+..+...+
T Consensus       101 ~~~y~~~G~~~~aA~~~~~---------------lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~  165 (282)
T PF14938_consen  101 IEIYREAGRFSQAAKCLKE---------------LAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLY  165 (282)
T ss_dssp             HHHHHHCT-HHHHHHHHHH---------------HHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCcHHHHHHHHHH---------------HHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHH
Confidence            4455555555555444443               44566666 8888888888877654322222    34566788889


Q ss_pred             hHcCCHHHHHHHHHhCC---CC-----CCHh-HHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCC
Q 009066          320 GRAGKLVEAVDLIKKMP---FK-----PQPA-IFGTLLSACRVHKRLDLAEFAAMNLFNLNPANA  375 (545)
Q Consensus       320 ~~~g~~~~A~~~~~~m~---~~-----p~~~-~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~  375 (545)
                      .+.|++++|.++|++..   ..     .+.. .+-..+-.+...||+..|...+++....+|.-.
T Consensus       166 ~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~  230 (282)
T PF14938_consen  166 ARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFA  230 (282)
T ss_dssp             HHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTST
T ss_pred             HHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCC
Confidence            99999999999998761   11     1121 222233355677999999999999999988654

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.18  E-value=0.015  Score=46.72  Aligned_cols=93  Identities=13%  Similarity=0.213  Sum_probs=66.6

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCC-CHHHHHHHHHHH
Q 009066          243 AMISGYAQHGKGEKALRLFDKMKDEGMKPDS--ITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAA-KPDHYTCMVDLL  319 (545)
Q Consensus       243 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~~li~~~  319 (545)
                      ....++-..|+.++|+.+|++....|.....  ..+..+.+++...|++++|..+++.....+.-.+ +......+..++
T Consensus         6 ~~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L   85 (120)
T PF12688_consen    6 ELAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALAL   85 (120)
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHH
Confidence            3456677889999999999999988766542  3566677888899999999999988876531111 223333455677


Q ss_pred             hHcCCHHHHHHHHHhC
Q 009066          320 GRAGKLVEAVDLIKKM  335 (545)
Q Consensus       320 ~~~g~~~~A~~~~~~m  335 (545)
                      ...|+.++|++.+-..
T Consensus        86 ~~~gr~~eAl~~~l~~  101 (120)
T PF12688_consen   86 YNLGRPKEALEWLLEA  101 (120)
T ss_pred             HHCCCHHHHHHHHHHH
Confidence            8889999988876543

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.15  E-value=0.0054  Score=60.51  Aligned_cols=119  Identities=13%  Similarity=0.094  Sum_probs=69.6

Q ss_pred             CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhC--CCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccC----CChhh
Q 009066          167 GIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKS--PLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR----KDVVT  240 (545)
Q Consensus       167 ~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~--g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~----~~~~~  240 (545)
                      +.+.+...+..+++.+....+++.+..++-.....  ....-..+..++|..|.+.|..+++..++..=..    +|..+
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            34456666666777777666677776666665554  2222233444666666666666666666654332    56666


Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHc
Q 009066          241 WNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNH  285 (545)
Q Consensus       241 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~  285 (545)
                      +|.++..+.+.|++..|.++..+|...+...+..|+..-+.+|.+
T Consensus       141 ~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~  185 (429)
T PF10037_consen  141 FNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYK  185 (429)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHH
Confidence            666666666666666666666666655555555555555544444

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 [].

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=97.15  E-value=0.25  Score=47.17  Aligned_cols=283  Identities=17%  Similarity=0.172  Sum_probs=181.1

Q ss_pred             HHHHHHHHH--HcCChHHHHHHHhhCC---CCCcccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHH--HHH
Q 009066          104 WSAMISGYI--ECGQLDKAVELFKVAP---VKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNAS--SLS  176 (545)
Q Consensus       104 ~~~li~~~~--~~g~~~~A~~~f~~~~---~~~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~--t~~  176 (545)
                      |.+|-.++.  -.|+-..|+++-.+-.   ..|....-.++.+-..   .-.|+++.|.+-|+.|..   .|...  -+.
T Consensus        85 yqALStGliAagAGda~lARkmt~~~~~llssDqepLIhlLeAQaa---l~eG~~~~Ar~kfeAMl~---dPEtRllGLR  158 (531)
T COG3898          85 YQALSTGLIAAGAGDASLARKMTARASKLLSSDQEPLIHLLEAQAA---LLEGDYEDARKKFEAMLD---DPETRLLGLR  158 (531)
T ss_pred             HHHHhhhhhhhccCchHHHHHHHHHHHhhhhccchHHHHHHHHHHH---HhcCchHHHHHHHHHHhc---ChHHHHHhHH
Confidence            444444433  3566667776654422   3344444444433211   457888999999998875   22211  233


Q ss_pred             HHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccC-----CChh--hHHHHHHHHH
Q 009066          177 SVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR-----KDVV--TWNAMISGYA  249 (545)
Q Consensus       177 ~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~-----~~~~--~~~~li~~~~  249 (545)
                      .+.-...+.|+.+.|+++-+..-..- +.-...+.+.+...+..|+++.|+++.+.-..     +++.  .--.|+.+-+
T Consensus       159 gLyleAqr~GareaAr~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA  237 (531)
T COG3898         159 GLYLEAQRLGAREAARHYAERAAEKA-PQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKA  237 (531)
T ss_pred             HHHHHHHhcccHHHHHHHHHHHHhhc-cCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHH
Confidence            33334457788888888877776543 23345678889999999999999999987653     4432  2222333222


Q ss_pred             H---cCChHHHHHHHHHHHHcCCCCCHHHHH-HHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCH
Q 009066          250 Q---HGKGEKALRLFDKMKDEGMKPDSITFV-ALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKL  325 (545)
Q Consensus       250 ~---~g~~~~A~~~~~~m~~~g~~p~~~t~~-~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  325 (545)
                      .   .-+...|.+.-.+..+  +.||.+--. .-..++.+.|++.++-.+++.+-+.   .|.+..+...+  +.+.|+.
T Consensus       238 ~s~ldadp~~Ar~~A~~a~K--L~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~---ePHP~ia~lY~--~ar~gdt  310 (531)
T COG3898         238 MSLLDADPASARDDALEANK--LAPDLVPAAVVAARALFRDGNLRKGSKILETAWKA---EPHPDIALLYV--RARSGDT  310 (531)
T ss_pred             HHHhcCChHHHHHHHHHHhh--cCCccchHHHHHHHHHHhccchhhhhhHHHHHHhc---CCChHHHHHHH--HhcCCCc
Confidence            1   2345566665555444  567755333 3447888999999999999998764   67766554333  3455543


Q ss_pred             HH--HHH--HHHhCCCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHc-CCchHHHHHH
Q 009066          326 VE--AVD--LIKKMPFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAM-KKWDDVARIR  399 (545)
Q Consensus       326 ~~--A~~--~~~~m~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~-g~~~~a~~~~  399 (545)
                      ..  ..+  -+..|  +| +..+--.+..+....|++..|..-.+.+....|...  .|..|.++-... |+-.++...+
T Consensus       311 a~dRlkRa~~L~sl--k~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r~~pres--~~lLlAdIeeAetGDqg~vR~wl  386 (531)
T COG3898         311 ALDRLKRAKKLESL--KPNNAESSLAVAEAALDAGEFSAARAKAEAAAREAPRES--AYLLLADIEEAETGDQGKVRQWL  386 (531)
T ss_pred             HHHHHHHHHHHHhc--CccchHHHHHHHHHHHhccchHHHHHHHHHHhhhCchhh--HHHHHHHHHhhccCchHHHHHHH
Confidence            22  111  23333  45 446667777888899999999999999999999986  799999987544 9999888887


Q ss_pred             HHhhh
Q 009066          400 LSMKE  404 (545)
Q Consensus       400 ~~m~~  404 (545)
                      .+..+
T Consensus       387 Aqav~  391 (531)
T COG3898         387 AQAVK  391 (531)
T ss_pred             HHHhc
Confidence            76654

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.14  E-value=0.013  Score=57.88  Aligned_cols=97  Identities=11%  Similarity=0.092  Sum_probs=55.1

Q ss_pred             ccHHHHHHHhcchhhhccCChHHHHHHHHHHHhC--CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccH
Q 009066          133 VAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGL--GIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTAL  210 (545)
Q Consensus       133 ~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~--~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~  210 (545)
                      +....++..+     .+..+.+++..++.+.+..  ....-..|..++++.|...|..+.+..++..=...|+=||..++
T Consensus        67 ~dld~fvn~~-----~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~  141 (429)
T PF10037_consen   67 LDLDIFVNNV-----ESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSF  141 (429)
T ss_pred             HHHHHHHhhc-----CCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhH
Confidence            3444455555     4445555566665555543  11122234446666666666666666666666666666666666


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhcc
Q 009066          211 TPLISMYCKCGDLEDACKLFLEIQ  234 (545)
Q Consensus       211 ~~li~~y~~~g~~~~A~~~f~~~~  234 (545)
                      |.|++.+.+.|++..|.++...|.
T Consensus       142 n~Lmd~fl~~~~~~~A~~V~~~~~  165 (429)
T PF10037_consen  142 NLLMDHFLKKGNYKSAAKVATEMM  165 (429)
T ss_pred             HHHHHHHhhcccHHHHHHHHHHHH
Confidence            666666666666666666665554

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 [].

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.10  E-value=0.1  Score=44.46  Aligned_cols=133  Identities=11%  Similarity=0.091  Sum_probs=99.4

Q ss_pred             CCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC---CHhHH
Q 009066          269 MKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP---QPAIF  344 (545)
Q Consensus       269 ~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p---~~~~~  344 (545)
                      ..|+...-..|..+....|+..+|...|++...- -+..|....-.+..+....++..+|...++++ ...|   ++...
T Consensus        85 ~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG-~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~  163 (251)
T COG4700          85 IAPTVQNRYRLANALAELGRYHEAVPHYQQALSG-IFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGH  163 (251)
T ss_pred             hchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhcc-ccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCch
Confidence            4567777777888888889999999988887762 35567777788888888889999998888877 1112   23344


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhh
Q 009066          345 GTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       345 ~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  404 (545)
                      -.+...+...|.+..|+..|+.++.--|+..  .-......+.+.|+.+++..-+..+.+
T Consensus       164 Ll~aR~laa~g~~a~Aesafe~a~~~ypg~~--ar~~Y~e~La~qgr~~ea~aq~~~v~d  221 (251)
T COG4700         164 LLFARTLAAQGKYADAESAFEVAISYYPGPQ--ARIYYAEMLAKQGRLREANAQYVAVVD  221 (251)
T ss_pred             HHHHHHHHhcCCchhHHHHHHHHHHhCCCHH--HHHHHHHHHHHhcchhHHHHHHHHHHH
Confidence            5567788899999999999999999888775  444556677888988887665554443

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.08  E-value=0.0016  Score=47.34  Aligned_cols=56  Identities=11%  Similarity=0.084  Sum_probs=45.7

Q ss_pred             HHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhhC
Q 009066          349 SACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKEN  405 (545)
Q Consensus       349 ~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  405 (545)
                      ..|.+.++++.|..+++.++.++|+++. .+...+.++.+.|++++|.+.++...+.
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~p~~~~-~~~~~a~~~~~~g~~~~A~~~l~~~l~~   58 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELDPDDPE-LWLQRARCLFQLGRYEEALEDLERALEL   58 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCcccch-hhHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            4567788888888888888888888877 8888888888888888888888877654

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.06  E-value=0.14  Score=46.20  Aligned_cols=127  Identities=16%  Similarity=0.062  Sum_probs=77.3

Q ss_pred             HHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHH---
Q 009066          136 TAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTP---  212 (545)
Q Consensus       136 ~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~---  212 (545)
                      +.++..+     ...|.+.-.+.++++..+...+.++.....+.+...+.|+.+.|...++...+..-..|....+.   
T Consensus       181 y~~~~~l-----lG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~  255 (366)
T KOG2796|consen  181 YSMANCL-----LGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVL  255 (366)
T ss_pred             HHHHHHH-----hcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHH
Confidence            4455555     55566666677777777665555666666777777777777777777776655432333333332   


Q ss_pred             --HHHHHHhcCCHHHHHHHHHhccC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHc
Q 009066          213 --LISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDE  267 (545)
Q Consensus       213 --li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  267 (545)
                        ....|.-.+++..|...|++++.   +|++.-|.-.-+..-.|+..+|++.++.|...
T Consensus       256 ~n~a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~  315 (366)
T KOG2796|consen  256 MNSAFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQ  315 (366)
T ss_pred             hhhhhheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhcc
Confidence              33344556677777777776664   34455555444455567777777777777764

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.03  E-value=0.027  Score=57.97  Aligned_cols=134  Identities=13%  Similarity=0.080  Sum_probs=97.8

Q ss_pred             CCCCCHHHHHHHHHHHHcc-----CcHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhHc--------CCHHHHHHHHH
Q 009066          268 GMKPDSITFVALLLACNHA-----GLVDLGIQYFDSMVNDYGIAAK-PDHYTCMVDLLGRA--------GKLVEAVDLIK  333 (545)
Q Consensus       268 g~~p~~~t~~~ll~a~~~~-----g~~~~a~~~~~~~~~~~~~~~~-~~~~~~li~~~~~~--------g~~~~A~~~~~  333 (545)
                      +...|...|...+.+....     +..+.|..+|++..+.   .|+ ...|..+..+|...        ++++.+.+...
T Consensus       332 ~~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~l---dP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~  408 (517)
T PRK10153        332 GLPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKS---EPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELD  408 (517)
T ss_pred             cCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHh---CCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHH
Confidence            4566778888888775432     3477999999998863   565 45566555444322        22445555555


Q ss_pred             hC---C-CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhhCC
Q 009066          334 KM---P-FKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENN  406 (545)
Q Consensus       334 ~m---~-~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  406 (545)
                      +.   + ...+...|.++.-.....|++++|...++++++++|+ .. +|..++.+|...|+.++|...+++....+
T Consensus       409 ~a~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~ps-~~-a~~~lG~~~~~~G~~~eA~~~~~~A~~L~  483 (517)
T PRK10153        409 NIVALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLEMS-WL-NYVLLGKVYELKGDNRLAADAYSTAFNLR  483 (517)
T ss_pred             HhhhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-HH-HHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            42   1 2235577888877777889999999999999999995 45 89999999999999999999999886643

>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=97.01  E-value=0.0015  Score=46.97  Aligned_cols=65  Identities=15%  Similarity=0.185  Sum_probs=48.8

Q ss_pred             CHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcC-CHHHHHHHHHHHhcCCC
Q 009066          308 KPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHK-RLDLAEFAAMNLFNLNP  372 (545)
Q Consensus       308 ~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g-~~~~A~~~~~~~~~~~p  372 (545)
                      ++..|..+...+...|++++|+..|++. ...| +...|..+..++...| ++++|+..++++++++|
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l~P   69 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKLDP   69 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHcCc
Confidence            3566777777788888888888877766 3334 4567778888888888 68888888888888776

...

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=96.98  E-value=0.36  Score=46.13  Aligned_cols=256  Identities=16%  Similarity=0.089  Sum_probs=167.4

Q ss_pred             cHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHh--ccCcHHHHHHHHHHHHhCCCCCCccc--
Q 009066          134 AWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCS--HLSSLQLGKQVHQLVFKSPLCKDTTA--  209 (545)
Q Consensus       134 ~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~--~~~~~~~a~~~~~~~~~~g~~~~~~~--  209 (545)
                      .|.+|-.+++.   +-.|+-..|.++-.+-.+. +..|...+..++.+-.  -.|+.+.|++-|+.|...   |....  
T Consensus        84 gyqALStGliA---agAGda~lARkmt~~~~~l-lssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~d---PEtRllG  156 (531)
T COG3898          84 GYQALSTGLIA---AGAGDASLARKMTARASKL-LSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDD---PETRLLG  156 (531)
T ss_pred             HHHHHhhhhhh---hccCchHHHHHHHHHHHhh-hhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcC---hHHHHHh
Confidence            34455555533   4467777787766655432 4556666667776643  469999999999999863   22111  


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhccCC---ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcC-CCCCHHH--HHHHHHHH
Q 009066          210 LTPLISMYCKCGDLEDACKLFLEIQRK---DVVTWNAMISGYAQHGKGEKALRLFDKMKDEG-MKPDSIT--FVALLLAC  283 (545)
Q Consensus       210 ~~~li~~y~~~g~~~~A~~~f~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~t--~~~ll~a~  283 (545)
                      ...|.----+.|+.+.|.+.-+..-..   -.-.|.+.+...+..|+++.|+++++.-+... +.+|..-  -..|+.+-
T Consensus       157 LRgLyleAqr~GareaAr~yAe~Aa~~Ap~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAk  236 (531)
T COG3898         157 LRGLYLEAQRLGAREAARHYAERAAEKAPQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAK  236 (531)
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHhhccCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHH
Confidence            122333334679999998888877542   34578899999999999999999999877633 5555532  22344332


Q ss_pred             Hc---cCcHHHHHHHHHHhHHhcCCCCCHHHH-HHHHHHHhHcCCHHHHHHHHHhC-CCCCCHhHHHHHHHHHHhcCCHH
Q 009066          284 NH---AGLVDLGIQYFDSMVNDYGIAAKPDHY-TCMVDLLGRAGKLVEAVDLIKKM-PFKPQPAIFGTLLSACRVHKRLD  358 (545)
Q Consensus       284 ~~---~g~~~~a~~~~~~~~~~~~~~~~~~~~-~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~li~~~~~~g~~~  358 (545)
                      ..   ..+...|+..-.+..   .+.|+..-- ..-..+|.+.|++.++-.+++.+ ...|.+.+|...+  ..+.|+.-
T Consensus       237 A~s~ldadp~~Ar~~A~~a~---KL~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~ePHP~ia~lY~--~ar~gdta  311 (531)
T COG3898         237 AMSLLDADPASARDDALEAN---KLAPDLVPAAVVAARALFRDGNLRKGSKILETAWKAEPHPDIALLYV--RARSGDTA  311 (531)
T ss_pred             HHHHhcCChHHHHHHHHHHh---hcCCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCCChHHHHHHH--HhcCCCcH
Confidence            21   124555555544433   456664332 23457889999999999999998 5567776665433  34555544


Q ss_pred             HH-HHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHh
Q 009066          359 LA-EFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSM  402 (545)
Q Consensus       359 ~A-~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  402 (545)
                      .. .+-.+++..+.|++.. ....+..+-...|++..|..--+..
T Consensus       312 ~dRlkRa~~L~slk~nnae-s~~~va~aAlda~e~~~ARa~Aeaa  355 (531)
T COG3898         312 LDRLKRAKKLESLKPNNAE-SSLAVAEAALDAGEFSAARAKAEAA  355 (531)
T ss_pred             HHHHHHHHHHHhcCccchH-HHHHHHHHHHhccchHHHHHHHHHH
Confidence            32 3445566778999988 8889999999999998876654443

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=96.98  E-value=0.0071  Score=57.52  Aligned_cols=255  Identities=11%  Similarity=0.066  Sum_probs=156.9

Q ss_pred             hccCChHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHhccCcHHHHHHHHHHHH--h--CCCC-CCcccHHHHHHHHH
Q 009066          148 VENSWAEDGLKLLRMMIGLGIRPNA----SSLSSVLLGCSHLSSLQLGKQVHQLVF--K--SPLC-KDTTALTPLISMYC  218 (545)
Q Consensus       148 ~~~g~~~~A~~~~~~m~~~~~~pd~----~t~~~ll~~~~~~~~~~~a~~~~~~~~--~--~g~~-~~~~~~~~li~~y~  218 (545)
                      .+.|+....+.+|+..++.| .-|-    ..|..+.++|.-.+++++|.++|..=+  .  .|-. -.......|.+.+-
T Consensus        28 ck~gdcraGv~ff~aA~qvG-TeDl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdklGEAKssgNLGNtlK  106 (639)
T KOG1130|consen   28 CKMGDCRAGVDFFKAALQVG-TEDLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKLGEAKSSGNLGNTLK  106 (639)
T ss_pred             HhccchhhhHHHHHHHHHhc-chHHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchhccccccccccchhh
Confidence            67778888888888888876 2233    345666677778888899988875421  1  1111 11122233555566


Q ss_pred             hcCCHHHHHHHHHhccC-------C--ChhhHHHHHHHHHHcCC--------------------hHHHHHHHHHHHH---
Q 009066          219 KCGDLEDACKLFLEIQR-------K--DVVTWNAMISGYAQHGK--------------------GEKALRLFDKMKD---  266 (545)
Q Consensus       219 ~~g~~~~A~~~f~~~~~-------~--~~~~~~~li~~~~~~g~--------------------~~~A~~~~~~m~~---  266 (545)
                      -.|.+++|.-.-.+-..       +  ....+-.+...|...|+                    ++.|.++|.+=++   
T Consensus       107 v~G~fdeA~~cc~rhLd~areLgDrv~e~RAlYNlgnvYhakGk~~g~~~pee~g~f~~ev~~al~~Av~fy~eNL~l~~  186 (639)
T KOG1130|consen  107 VKGAFDEALTCCFRHLDFARELGDRVLESRALYNLGNVYHAKGKCTGLEAPEEKGAFNAEVTSALENAVKFYMENLELSE  186 (639)
T ss_pred             hhcccchHHHHHHHHhHHHHHHhHHHhhhHHHhhhhhhhhhcccccCCCChhhcccccHHHHHHHHHHHHHHHHHHHHHH
Confidence            66777777655433221       1  12233345555544332                    1234444443221   


Q ss_pred             -cCCC-CCHHHHHHHHHHHHccCcHHHHHHHHHH---hHHhcCCCCC-HHHHHHHHHHHhHcCCHHHHHHHHHhC-----
Q 009066          267 -EGMK-PDSITFVALLLACNHAGLVDLGIQYFDS---MVNDYGIAAK-PDHYTCMVDLLGRAGKLVEAVDLIKKM-----  335 (545)
Q Consensus       267 -~g~~-p~~~t~~~ll~a~~~~g~~~~a~~~~~~---~~~~~~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~m-----  335 (545)
                       .|-. .-...|..|-+.|.-.|++++|+..++.   +.+++|-... ...+..|..++.-.|+++.|.+.|+..     
T Consensus       187 ~lgDr~aqGRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAi  266 (639)
T KOG1130|consen  187 KLGDRLAQGRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAI  266 (639)
T ss_pred             HhhhHHhhcchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHH
Confidence             1100 0112344555555567889999888764   3344554332 457888999999999999999988754     


Q ss_pred             --CC-CCCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcC----C--CCCCchhHHHHHHHHHHcCCchHHHHHHHHhhh
Q 009066          336 --PF-KPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNL----N--PANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       336 --~~-~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~----~--p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  404 (545)
                        +- .....+..+|.+.|....++++|+.++.+-+.+    +  ..... ++..|+++|...|..++|+.+.+.-.+
T Consensus       267 elg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~R-acwSLgna~~alg~h~kAl~fae~hl~  343 (639)
T KOG1130|consen  267 ELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELR-ACWSLGNAFNALGEHRKALYFAELHLR  343 (639)
T ss_pred             HhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHH-HHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence              21 123456778999999999999999888765432    1  12223 788999999999999999988766543

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=96.97  E-value=0.52  Score=47.74  Aligned_cols=182  Identities=14%  Similarity=0.133  Sum_probs=126.3

Q ss_pred             CcccHHHHHHHHHhcCCHHHHHHHHHhccCCC---hhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 009066          206 DTTALTPLISMYCKCGDLEDACKLFLEIQRKD---VVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLA  282 (545)
Q Consensus       206 ~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a  282 (545)
                      +..+|..-++.-.+.|+.+.+.-+|++..-|-   ...|--.+.-....|+.+-|..++....+--++-...+-..-...
T Consensus       296 ql~nw~~yLdf~i~~g~~~~~~~l~ercli~cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~~~~i~L~~a~f  375 (577)
T KOG1258|consen  296 QLKNWRYYLDFEITLGDFSRVFILFERCLIPCALYDEFWIKYARWMESSGDVSLANNVLARACKIHVKKTPIIHLLEARF  375 (577)
T ss_pred             HHHHHHHHhhhhhhcccHHHHHHHHHHHHhHHhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCCCCcHHHHHHHHH
Confidence            45678888888889999999999999987652   235655665555668888888888776654333222222222233


Q ss_pred             HHccCcHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhHcCCHHHHH---HHHHhC-CCCCCHhHHHHHHHH-----HH
Q 009066          283 CNHAGLVDLGIQYFDSMVNDYGIAAK-PDHYTCMVDLLGRAGKLVEAV---DLIKKM-PFKPQPAIFGTLLSA-----CR  352 (545)
Q Consensus       283 ~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~A~---~~~~~m-~~~p~~~~~~~li~~-----~~  352 (545)
                      +-..|+++.|..+++.+..++   |+ ...-..-+....+.|..+.+.   +++... +.+.+..+...+..-     +.
T Consensus       376 ~e~~~n~~~A~~~lq~i~~e~---pg~v~~~l~~~~~e~r~~~~~~~~~~~~l~s~~~~~~~~~~i~~~l~~~~~r~~~~  452 (577)
T KOG1258|consen  376 EESNGNFDDAKVILQRIESEY---PGLVEVVLRKINWERRKGNLEDANYKNELYSSIYEGKENNGILEKLYVKFARLRYK  452 (577)
T ss_pred             HHhhccHHHHHHHHHHHHhhC---CchhhhHHHHHhHHHHhcchhhhhHHHHHHHHhcccccCcchhHHHHHHHHHHHHH
Confidence            556789999999999998753   44 344444566778889999888   555444 223333333333322     34


Q ss_pred             hcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCC
Q 009066          353 VHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKK  391 (545)
Q Consensus       353 ~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~  391 (545)
                      ..++.+.|..++.++.+..|++.. .|..+++.....+.
T Consensus       453 i~~d~~~a~~~l~~~~~~~~~~k~-~~~~~~~~~~~~~~  490 (577)
T KOG1258|consen  453 IREDADLARIILLEANDILPDCKV-LYLELIRFELIQPS  490 (577)
T ss_pred             HhcCHHHHHHHHHHhhhcCCccHH-HHHHHHHHHHhCCc
Confidence            578999999999999999999987 88888888776653

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=96.92  E-value=0.14  Score=43.70  Aligned_cols=114  Identities=13%  Similarity=0.162  Sum_probs=49.8

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhccC----CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcC---CCCCHHHHHHHHHHH
Q 009066          211 TPLISMYCKCGDLEDACKLFLEIQR----KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEG---MKPDSITFVALLLAC  283 (545)
Q Consensus       211 ~~li~~y~~~g~~~~A~~~f~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g---~~p~~~t~~~ll~a~  283 (545)
                      -.|.+.....|+..+|...|++...    .|....-.+..+....+++..|...++++.+.+   -.||.  -..+...+
T Consensus        93 ~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~--~Ll~aR~l  170 (251)
T COG4700          93 YRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDG--HLLFARTL  170 (251)
T ss_pred             HHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCc--hHHHHHHH
Confidence            3344444444455555444444432    244444444444444455555555555544421   12221  22233444


Q ss_pred             HccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHH
Q 009066          284 NHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAV  329 (545)
Q Consensus       284 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  329 (545)
                      ...|..++|...|+.....   -|+...-.-...++.+.|+.++|.
T Consensus       171 aa~g~~a~Aesafe~a~~~---ypg~~ar~~Y~e~La~qgr~~ea~  213 (251)
T COG4700         171 AAQGKYADAESAFEVAISY---YPGPQARIYYAEMLAKQGRLREAN  213 (251)
T ss_pred             HhcCCchhHHHHHHHHHHh---CCCHHHHHHHHHHHHHhcchhHHH
Confidence            4455555555555444432   333333333344444555444443

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.92  E-value=0.67  Score=48.13  Aligned_cols=304  Identities=13%  Similarity=0.042  Sum_probs=159.8

Q ss_pred             HHHHHHHHHhCCCHHHHHHHHhhCCcCC---HhHHHHHHHHHHHcCC---hHHHHHHHhhCCC--CCcccHHHHHHHhcc
Q 009066           73 WNTMISGFVQKKNMAKARDLFLAMPEKN---SVSWSAMISGYIECGQ---LDKAVELFKVAPV--KSVVAWTAMISGYMK  144 (545)
Q Consensus        73 ~~~li~~~~~~g~~~~a~~~~~~~~~~~---~~~~~~li~~~~~~g~---~~~A~~~f~~~~~--~~~~~~~~li~~~~~  144 (545)
                      -..+|+-+...+.+..|+++-..+..|.   ..++.....-+.+..+   -+-+..+=+++..  ...++|..+..-.  
T Consensus       440 ~~~vi~Rl~~r~~Y~vaIQva~~l~~p~~~~~~Vl~~Wa~~kI~~~d~~d~~vld~I~~kls~~~~~~iSy~~iA~~A--  517 (829)
T KOG2280|consen  440 EEVVIDRLVDRHLYSVAIQVAKLLNLPESQGDRVLLEWARRKIKQSDKMDEEVLDKIDEKLSAKLTPGISYAAIARRA--  517 (829)
T ss_pred             hhhhhHHHHhcchhHHHHHHHHHhCCccccccHHHHHHHHHHHhccCccchHHHHHHHHHhcccCCCceeHHHHHHHH--
Confidence            4456777888899999999988888665   6778888888877643   2334444455554  4567788777766  


Q ss_pred             hhhhccCChHHHHHHHHHHHhCCCC----CCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCC-----------CCCCccc
Q 009066          145 FGYVENSWAEDGLKLLRMMIGLGIR----PNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSP-----------LCKDTTA  209 (545)
Q Consensus       145 ~g~~~~g~~~~A~~~~~~m~~~~~~----pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g-----------~~~~~~~  209 (545)
                         .+.|+.+-|..+++.=...+-.    .+-.-+...+.-+.+.|+.+...++.-.+.+.-           .+....+
T Consensus       518 ---y~~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllhlk~~~~~s~l~~~l~~~p~a~~l  594 (829)
T KOG2280|consen  518 ---YQEGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHLKNKLNRSSLFMTLRNQPLALSL  594 (829)
T ss_pred             ---HhcCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHHHHHhchhhhHH
Confidence               7888888888776532221100    012234445556667777777666655554321           1111111


Q ss_pred             HHHHHH---------HHHhcCCHHHHHHHHH--hcc-----CCChhhHHHHHHHHHHcCC---hH-------HHHHHHHH
Q 009066          210 LTPLIS---------MYCKCGDLEDACKLFL--EIQ-----RKDVVTWNAMISGYAQHGK---GE-------KALRLFDK  263 (545)
Q Consensus       210 ~~~li~---------~y~~~g~~~~A~~~f~--~~~-----~~~~~~~~~li~~~~~~g~---~~-------~A~~~~~~  263 (545)
                      |.-++.         .|- .++-..+...|.  ...     ++-..........+++...   -.       +-+.+.+.
T Consensus       595 Y~~~~r~~~~~~l~d~y~-q~dn~~~~a~~~~q~~~~~~~~~~r~~~lk~~a~~~a~sk~~s~e~ka~ed~~kLl~lQ~~  673 (829)
T KOG2280|consen  595 YRQFMRHQDRATLYDFYN-QDDNHQALASFHLQASYAAETIEGRIPALKTAANAFAKSKEKSFEAKALEDQMKLLKLQRT  673 (829)
T ss_pred             HHHHHHhhchhhhhhhhh-cccchhhhhhhhhhhhhhhhhhcccchhHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHH
Confidence            111111         111 111111111111  000     0011112222233333222   11       11222222


Q ss_pred             HHH-cCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhCCCCCCHh
Q 009066          264 MKD-EGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPA  342 (545)
Q Consensus       264 m~~-~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~  342 (545)
                      +.. .|......|.+--+.-+...|+..+|.++-.+..     -||-..|-.=+.+++..+++++-+++-+.+.   .+.
T Consensus       674 Le~q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk-----ipdKr~~wLk~~aLa~~~kweeLekfAkskk---sPI  745 (829)
T KOG2280|consen  674 LEDQFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFK-----IPDKRLWWLKLTALADIKKWEELEKFAKSKK---SPI  745 (829)
T ss_pred             HHHHhccccccCcHHHHHHHHHHccchHHHHHHHHhcC-----CcchhhHHHHHHHHHhhhhHHHHHHHHhccC---CCC
Confidence            221 2333344445555555666666666666554432     4666666666677777777777666666552   244


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHH
Q 009066          343 IFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIR  399 (545)
Q Consensus       343 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~  399 (545)
                      -|.-...+|.+.|+.++|.+++-+.-         -+.-...+|.+.|++.+|.+.-
T Consensus       746 Gy~PFVe~c~~~~n~~EA~KYiprv~---------~l~ekv~ay~~~~~~~eAad~A  793 (829)
T KOG2280|consen  746 GYLPFVEACLKQGNKDEAKKYIPRVG---------GLQEKVKAYLRVGDVKEAADLA  793 (829)
T ss_pred             CchhHHHHHHhcccHHHHhhhhhccC---------ChHHHHHHHHHhccHHHHHHHH
Confidence            56666677777777777777665441         1224556677777777766554

>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=96.91  E-value=0.0055  Score=53.59  Aligned_cols=100  Identities=12%  Similarity=0.115  Sum_probs=63.9

Q ss_pred             HHHhhC--CCCCcccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcc--------------
Q 009066          122 ELFKVA--PVKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHL--------------  185 (545)
Q Consensus       122 ~~f~~~--~~~~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~--------------  185 (545)
                      ..|++.  ..++-.++..++..|.+....+.|..+=....++.|.+-|+.-|..+|+.||..+=+.              
T Consensus        35 ~~f~~~~~~~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~h  114 (228)
T PF06239_consen   35 ELFERAPGQAKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMH  114 (228)
T ss_pred             HHHHHHhhccccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhcc
Confidence            444444  3456666666676665544455666666666777777777777777777777765431              


Q ss_pred             --CcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcC
Q 009066          186 --SSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCG  221 (545)
Q Consensus       186 --~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g  221 (545)
                        .+-+-|..++++|...|+-||..++..|++.+++.+
T Consensus       115 yp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s  152 (228)
T PF06239_consen  115 YPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKS  152 (228)
T ss_pred             CcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhcccc
Confidence              234556667777777777777777777766665543

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.89  E-value=0.099  Score=47.07  Aligned_cols=138  Identities=9%  Similarity=-0.022  Sum_probs=98.0

Q ss_pred             hhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcC----CCCCHHHHHH
Q 009066          239 VTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYG----IAAKPDHYTC  314 (545)
Q Consensus       239 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~----~~~~~~~~~~  314 (545)
                      ...+.++..+.-.|.+.-.+.++.+.++...+.+......|.+.-.+.|+.+.|...|+...+..+    +....-+...
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            455677777777888888999999998876666777788888888899999999999987765422    2223333334


Q ss_pred             HHHHHhHcCCHHHHHHHHHhCCCC-C-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCc
Q 009066          315 MVDLLGRAGKLVEAVDLIKKMPFK-P-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA  376 (545)
Q Consensus       315 li~~~~~~g~~~~A~~~~~~m~~~-p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~  376 (545)
                      ....|.-++++.+|...+.+.+.. | |+...|.-.-...-.|+...|.+..+.+.+..|....
T Consensus       258 ~a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~~P~~~l  321 (366)
T KOG2796|consen  258 SAFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQDPRHYL  321 (366)
T ss_pred             hhhheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhccCCccch
Confidence            445566677888888888887432 2 3334444443445568888999999999998887653

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=96.88  E-value=0.025  Score=45.43  Aligned_cols=101  Identities=13%  Similarity=0.112  Sum_probs=52.8

Q ss_pred             hccCChHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCC--CcccHHHHHHHHHhcCCH
Q 009066          148 VENSWAEDGLKLLRMMIGLGIRPN--ASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCK--DTTALTPLISMYCKCGDL  223 (545)
Q Consensus       148 ~~~g~~~~A~~~~~~m~~~~~~pd--~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~--~~~~~~~li~~y~~~g~~  223 (545)
                      -..|+.++|+.+|++....|+..+  ...+..+.+.+...|++++|..+++........+  +..+...+..++...|+.
T Consensus        12 d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L~~~gr~   91 (120)
T PF12688_consen   12 DSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALALYNLGRP   91 (120)
T ss_pred             HhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHHCCCH
Confidence            556777777777777777665543  2244455556666677777776666665542110  111222223344455666


Q ss_pred             HHHHHHHHhccCCChhhHHHHHHHH
Q 009066          224 EDACKLFLEIQRKDVVTWNAMISGY  248 (545)
Q Consensus       224 ~~A~~~f~~~~~~~~~~~~~li~~~  248 (545)
                      ++|...+-....++...|.--|..|
T Consensus        92 ~eAl~~~l~~la~~~~~y~ra~~~y  116 (120)
T PF12688_consen   92 KEALEWLLEALAETLPRYRRAIRFY  116 (120)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6665555444433333333333333

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=96.87  E-value=0.0054  Score=43.77  Aligned_cols=48  Identities=17%  Similarity=0.310  Sum_probs=22.8

Q ss_pred             cCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC
Q 009066          286 AGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM  335 (545)
Q Consensus       286 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  335 (545)
                      .|++++|.+.|+.+...  .+.+...+..++.+|.+.|++++|.++++++
T Consensus         4 ~~~~~~A~~~~~~~l~~--~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~   51 (68)
T PF14559_consen    4 QGDYDEAIELLEKALQR--NPDNPEARLLLAQCYLKQGQYDEAEELLERL   51 (68)
T ss_dssp             TTHHHHHHHHHHHHHHH--TTTSHHHHHHHHHHHHHTT-HHHHHHHHHCC
T ss_pred             ccCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            44555555555555442  1224444445555555555555555555554

...

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=96.87  E-value=0.014  Score=45.19  Aligned_cols=80  Identities=18%  Similarity=0.069  Sum_probs=64.6

Q ss_pred             HHHHHHHhcchhhhccCChHHHHHHHHHHHhCCC-CCCHHHHHHHHHHHhccC--------cHHHHHHHHHHHHhCCCCC
Q 009066          135 WTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGI-RPNASSLSSVLLGCSHLS--------SLQLGKQVHQLVFKSPLCK  205 (545)
Q Consensus       135 ~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~-~pd~~t~~~ll~~~~~~~--------~~~~a~~~~~~~~~~g~~~  205 (545)
                      -...|..+     ...+++.....+|+.+++.|+ .|+..+|+.++.+.++..        .+-....+|+.|+..+++|
T Consensus        28 ~i~~I~~~-----~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP  102 (120)
T PF08579_consen   28 QIDNINSC-----FENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKP  102 (120)
T ss_pred             HHHHHHHH-----HhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCC
Confidence            34556666     677999999999999999999 899999999999876543        2445667888899889999


Q ss_pred             CcccHHHHHHHHHh
Q 009066          206 DTTALTPLISMYCK  219 (545)
Q Consensus       206 ~~~~~~~li~~y~~  219 (545)
                      +..+|+.++..+.+
T Consensus       103 ~~etYnivl~~Llk  116 (120)
T PF08579_consen  103 NDETYNIVLGSLLK  116 (120)
T ss_pred             cHHHHHHHHHHHHH
Confidence            99999988877664

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 [, , ].

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.86  E-value=0.14  Score=49.68  Aligned_cols=159  Identities=20%  Similarity=0.133  Sum_probs=89.1

Q ss_pred             HHHHHHHhcCCHHHHHHHHHhccCC-------ChhhHHHHHHHHHH---cCChHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 009066          212 PLISMYCKCGDLEDACKLFLEIQRK-------DVVTWNAMISGYAQ---HGKGEKALRLFDKMKDEGMKPDSITFVALLL  281 (545)
Q Consensus       212 ~li~~y~~~g~~~~A~~~f~~~~~~-------~~~~~~~li~~~~~---~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~  281 (545)
                      .|+-.|-...+++...++.+.+...       ....--...-++-+   .|+.++|++++..+......++..||..+..
T Consensus       146 ~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~GR  225 (374)
T PF13281_consen  146 NLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLLGR  225 (374)
T ss_pred             HHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHHHH
Confidence            3455677777888888888877653       11222233445555   6788888888888666556667777766655


Q ss_pred             HHHc---------cCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHH----HHHHH---HhC----C---CC
Q 009066          282 ACNH---------AGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVE----AVDLI---KKM----P---FK  338 (545)
Q Consensus       282 a~~~---------~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~----A~~~~---~~m----~---~~  338 (545)
                      .|-.         ....++|...|.+.-   .+.|+..+--.++-.+...|...+    ..++-   ..+    +   -.
T Consensus       226 IyKD~~~~s~~~d~~~ldkAi~~Y~kgF---e~~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~~~  302 (374)
T PF13281_consen  226 IYKDLFLESNFTDRESLDKAIEWYRKGF---EIEPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLEKM  302 (374)
T ss_pred             HHHHHHHHcCccchHHHHHHHHHHHHHH---cCCccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhcccccc
Confidence            5421         223566666665443   344554443344444444443221    11111   110    1   11


Q ss_pred             CCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCC
Q 009066          339 PQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPA  373 (545)
Q Consensus       339 p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~  373 (545)
                      .|-..+.+++.++.-.|+.+.|.+.+++++++.|.
T Consensus       303 ~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~~~  337 (374)
T PF13281_consen  303 QDYWDVATLLEASVLAGDYEKAIQAAEKAFKLKPP  337 (374)
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCc
Confidence            23344566777777777777777777777776654

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.83  E-value=0.0089  Score=55.56  Aligned_cols=95  Identities=9%  Similarity=0.062  Sum_probs=60.4

Q ss_pred             HHHHHHHHHHhHcCCHHHHHHHHHhC-CCCCCH----hHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCc--hhHHHH
Q 009066          310 DHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQP----AIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA--GCYVQL  382 (545)
Q Consensus       310 ~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~----~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~--~~~~~l  382 (545)
                      ..|..-+..+.+.|++++|...|+.+ ...|+.    ..+.-+...|...|+++.|...|+++++..|+++.  .++..+
T Consensus       144 ~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~kl  223 (263)
T PRK10803        144 TDYNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKV  223 (263)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHH
Confidence            34555555555667777777777666 222332    35556666777777777777777777776665432  145556


Q ss_pred             HHHHHHcCCchHHHHHHHHhhh
Q 009066          383 ANIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       383 ~~~~~~~g~~~~a~~~~~~m~~  404 (545)
                      +.+|...|++++|.++++...+
T Consensus       224 g~~~~~~g~~~~A~~~~~~vi~  245 (263)
T PRK10803        224 GVIMQDKGDTAKAKAVYQQVIK  245 (263)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHH
Confidence            6677777777777777777655

>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=96.80  E-value=0.018  Score=50.45  Aligned_cols=97  Identities=23%  Similarity=0.333  Sum_probs=71.2

Q ss_pred             HHHHHhc--cCCChhhHHHHHHHHHHc-----CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHcc-------------
Q 009066          227 CKLFLEI--QRKDVVTWNAMISGYAQH-----GKGEKALRLFDKMKDEGMKPDSITFVALLLACNHA-------------  286 (545)
Q Consensus       227 ~~~f~~~--~~~~~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~-------------  286 (545)
                      ...|+..  ..+|-.+|..++..|.+.     |..+=....++.|.+.|+.-|..+|+.||..+=+.             
T Consensus        34 ~~~f~~~~~~~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~  113 (228)
T PF06239_consen   34 EELFERAPGQAKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFM  113 (228)
T ss_pred             HHHHHHHhhccccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhc
Confidence            4566665  457788888888888754     56676777788888899999999999999876542             


Q ss_pred             ---CcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCC
Q 009066          287 ---GLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGK  324 (545)
Q Consensus       287 ---g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  324 (545)
                         .+.+-|++++++|.. +|+-||.+++..|++.+++.+.
T Consensus       114 hyp~Qq~c~i~lL~qME~-~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  114 HYPRQQECAIDLLEQMEN-NGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             cCcHHHHHHHHHHHHHHH-cCCCCcHHHHHHHHHHhccccH
Confidence               234667777777755 4777888887777777766654

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=96.72  E-value=0.24  Score=47.70  Aligned_cols=87  Identities=15%  Similarity=0.074  Sum_probs=49.4

Q ss_pred             HHHHHcCChHHHHHHHHHHHHc---CCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhH
Q 009066          246 SGYAQHGKGEKALRLFDKMKDE---GMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAK-PDHYTCMVDLLGR  321 (545)
Q Consensus       246 ~~~~~~g~~~~A~~~~~~m~~~---g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~li~~~~~  321 (545)
                      .-..++|++.+|.+.|.+.+..   +++|+...|.....+..+.|+.++|+.-.+...+   +.+. ...|..-..++.-
T Consensus       257 N~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~---iD~syikall~ra~c~l~  333 (486)
T KOG0550|consen  257 NDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALK---IDSSYIKALLRRANCHLA  333 (486)
T ss_pred             hhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhh---cCHHHHHHHHHHHHHHHH
Confidence            3345667777777777776652   2344455555555666677777777766655542   2222 1222233344455


Q ss_pred             cCCHHHHHHHHHhC
Q 009066          322 AGKLVEAVDLIKKM  335 (545)
Q Consensus       322 ~g~~~~A~~~~~~m  335 (545)
                      .+++++|.+-|++.
T Consensus       334 le~~e~AV~d~~~a  347 (486)
T KOG0550|consen  334 LEKWEEAVEDYEKA  347 (486)
T ss_pred             HHHHHHHHHHHHHH
Confidence            56677777666654

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.59  E-value=0.0091  Score=58.44  Aligned_cols=99  Identities=9%  Similarity=0.061  Sum_probs=62.9

Q ss_pred             CCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCCCH----hHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHH
Q 009066          306 AAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQP----AIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYV  380 (545)
Q Consensus       306 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~----~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~  380 (545)
                      +.+...++.+..+|.+.|++++|+..|++. .+.|+.    ..|..+..+|...|+.++|+..+++++++.+.    .|.
T Consensus        72 P~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALelsn~----~f~  147 (453)
T PLN03098         72 VKTAEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRDYNL----KFS  147 (453)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcch----hHH
Confidence            334667777788888888888888888774 555654    34777888888888888888888888776311    222


Q ss_pred             HHHH--HHHHcCCchHHHHHHHHhhhCCCc
Q 009066          381 QLAN--IYAAMKKWDDVARIRLSMKENNVV  408 (545)
Q Consensus       381 ~l~~--~~~~~g~~~~a~~~~~~m~~~~~~  408 (545)
                      .+..  .+....+.++..++++.+.+-|..
T Consensus       148 ~i~~DpdL~plR~~pef~eLlee~rk~G~~  177 (453)
T PLN03098        148 TILNDPDLAPFRASPEFKELQEEARKGGED  177 (453)
T ss_pred             HHHhCcchhhhcccHHHHHHHHHHHHhCCc
Confidence            1111  122333445666677777666653

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=96.58  E-value=0.61  Score=43.02  Aligned_cols=54  Identities=17%  Similarity=0.188  Sum_probs=38.8

Q ss_pred             HHHHHHhHcCCHHHHHHHHHhC----CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHH
Q 009066          314 CMVDLLGRAGKLVEAVDLIKKM----PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNL  367 (545)
Q Consensus       314 ~li~~~~~~g~~~~A~~~~~~m----~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~  367 (545)
                      .+...|.+.|.+..|..-++.+    |-.| .......++.+|...|..++|......+
T Consensus       180 ~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l  238 (243)
T PRK10866        180 SVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKII  238 (243)
T ss_pred             HHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHH
Confidence            5667788888888877776666    3223 3356667778888889988888776654

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=96.58  E-value=0.0013  Score=39.40  Aligned_cols=32  Identities=31%  Similarity=0.548  Sum_probs=29.8

Q ss_pred             HHHHhcCCCCCCchhHHHHHHHHHHcCCchHHH
Q 009066          364 AMNLFNLNPANAAGCYVQLANIYAAMKKWDDVA  396 (545)
Q Consensus       364 ~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~  396 (545)
                      |+++++++|+++. +|..|+.+|...|++++|+
T Consensus         2 y~kAie~~P~n~~-a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    2 YKKAIELNPNNAE-AYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             hHHHHHHCCCCHH-HHHHHHHHHHHCcCHHhhc
Confidence            6788999999998 9999999999999999986

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.56  E-value=0.23  Score=50.37  Aligned_cols=225  Identities=14%  Similarity=0.086  Sum_probs=126.8

Q ss_pred             hccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHH
Q 009066          148 VENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDAC  227 (545)
Q Consensus       148 ~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~  227 (545)
                      ++.-.+-+-+.-+++|++.|-.|+....   ...|+-.|.+.+|-++|.+   .|.      -|-.+.+|.....++.|.
T Consensus       611 VRdl~~L~li~EL~~~k~rge~P~~iLl---A~~~Ay~gKF~EAAklFk~---~G~------enRAlEmyTDlRMFD~aQ  678 (1081)
T KOG1538|consen  611 VRDLRYLELISELEERKKRGETPNDLLL---ADVFAYQGKFHEAAKLFKR---SGH------ENRALEMYTDLRMFDYAQ  678 (1081)
T ss_pred             HhccHHHHHHHHHHHHHhcCCCchHHHH---HHHHHhhhhHHHHHHHHHH---cCc------hhhHHHHHHHHHHHHHHH
Confidence            4444555566667788888877876543   3346667788888777643   232      123456666666666665


Q ss_pred             HHHHhccCCChhhHHHHHHH---HH-HcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhc
Q 009066          228 KLFLEIQRKDVVTWNAMISG---YA-QHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDY  303 (545)
Q Consensus       228 ~~f~~~~~~~~~~~~~li~~---~~-~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~  303 (545)
                      ++......   ..-..++.-   .+ ..+++..|-+++-   ..|-      ....+..+...|-.+-+.++-.++-   
T Consensus       679 E~~~~g~~---~eKKmL~RKRA~WAr~~kePkaAAEmLi---SaGe------~~KAi~i~~d~gW~d~lidI~rkld---  743 (1081)
T KOG1538|consen  679 EFLGSGDP---KEKKMLIRKRADWARNIKEPKAAAEMLI---SAGE------HVKAIEICGDHGWVDMLIDIARKLD---  743 (1081)
T ss_pred             HHhhcCCh---HHHHHHHHHHHHHhhhcCCcHHHHHHhh---cccc------hhhhhhhhhcccHHHHHHHHHhhcc---
Confidence            55443221   111111110   00 0111222211110   1110      0011223344444444444443332   


Q ss_pred             CCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCc-------
Q 009066          304 GIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA-------  376 (545)
Q Consensus       304 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~-------  376 (545)
                        ..+.++...+..-+-+...+.-|-++|.+|+-      ..+++......+++.+|..+.++.-+.-|+-..       
T Consensus       744 --~~ere~l~~~a~ylk~l~~~gLAaeIF~k~gD------~ksiVqlHve~~~W~eAFalAe~hPe~~~dVy~pyaqwLA  815 (1081)
T KOG1538|consen  744 --KAEREPLLLCATYLKKLDSPGLAAEIFLKMGD------LKSLVQLHVETQRWDEAFALAEKHPEFKDDVYMPYAQWLA  815 (1081)
T ss_pred             --hhhhhHHHHHHHHHhhccccchHHHHHHHhcc------HHHHhhheeecccchHhHhhhhhCccccccccchHHHHhh
Confidence              23455566666666777888899999999952      235566677889999999999988776665322       


Q ss_pred             --hhHHHHHHHHHHcCCchHHHHHHHHhhhCCC
Q 009066          377 --GCYVQLANIYAAMKKWDDVARIRLSMKENNV  407 (545)
Q Consensus       377 --~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  407 (545)
                        .-|..--.+|.++|+-.+|.++++++....+
T Consensus       816 E~DrFeEAqkAfhkAGr~~EA~~vLeQLtnnav  848 (1081)
T KOG1538|consen  816 ENDRFEEAQKAFHKAGRQREAVQVLEQLTNNAV  848 (1081)
T ss_pred             hhhhHHHHHHHHHHhcchHHHHHHHHHhhhhhh
Confidence              0233445678999999999999998876544

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.54  E-value=0.0079  Score=43.62  Aligned_cols=61  Identities=13%  Similarity=0.199  Sum_probs=48.1

Q ss_pred             HHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCc
Q 009066          316 VDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA  376 (545)
Q Consensus       316 i~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~  376 (545)
                      -..|.+.+++++|.++++.+ ...| +...|......+...|++++|...+++.++..|++..
T Consensus         2 ~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p~~~~   64 (73)
T PF13371_consen    2 KQIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELSPDDPD   64 (73)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCCCcHH
Confidence            35677888888888888877 3444 5567777888888999999999999999999887764

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.45  E-value=0.059  Score=50.16  Aligned_cols=101  Identities=15%  Similarity=0.131  Sum_probs=68.4

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCC-CHHHHHHHHHHHhHcCCHHHHHHHHHhC----CCCC-CHhHHHHHH
Q 009066          275 TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAA-KPDHYTCMVDLLGRAGKLVEAVDLIKKM----PFKP-QPAIFGTLL  348 (545)
Q Consensus       275 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~p-~~~~~~~li  348 (545)
                      .|...+......|++++|...|+.+.+.+.-.+ .+..+..+...|...|++++|...|+.+    |..| ....+-.+.
T Consensus       145 ~Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg  224 (263)
T PRK10803        145 DYNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVG  224 (263)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHH
Confidence            344444444556788888888888776532111 1345667788888888888888888777    2212 234455566


Q ss_pred             HHHHhcCCHHHHHHHHHHHhcCCCCCC
Q 009066          349 SACRVHKRLDLAEFAAMNLFNLNPANA  375 (545)
Q Consensus       349 ~~~~~~g~~~~A~~~~~~~~~~~p~~~  375 (545)
                      ..+...|+.+.|...++++++..|+..
T Consensus       225 ~~~~~~g~~~~A~~~~~~vi~~yP~s~  251 (263)
T PRK10803        225 VIMQDKGDTAKAKAVYQQVIKKYPGTD  251 (263)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCcCCH
Confidence            677788999999999999999888864

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=96.43  E-value=0.005  Score=39.53  Aligned_cols=42  Identities=26%  Similarity=0.253  Sum_probs=35.6

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHH
Q 009066          342 AIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLAN  384 (545)
Q Consensus       342 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~  384 (545)
                      .+|..+..+|...|++++|+++++++++.+|++.. .+..|+.
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~~~~-a~~~La~   43 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRALALDPDDPE-AWRALAQ   43 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCHH-HHHHhhh
Confidence            36788889999999999999999999999999987 6666653

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.26  E-value=1.8  Score=45.08  Aligned_cols=301  Identities=12%  Similarity=0.071  Sum_probs=174.2

Q ss_pred             HHHHHHHcCCCCHHHHHHHHhcCCCCC---eehHHHHHHHHHhCC---CHHHHHHHHhhCCc--CCHhHHHHHHHHHHHc
Q 009066           43 IMLSCILLNSDDVVAAFDFFQRLPIKD---TASWNTMISGFVQKK---NMAKARDLFLAMPE--KNSVSWSAMISGYIEC  114 (545)
Q Consensus        43 ~li~~~~~~~g~~~~A~~~~~~m~~~d---~~~~~~li~~~~~~g---~~~~a~~~~~~~~~--~~~~~~~~li~~~~~~  114 (545)
                      .+|.-++.. +.+..|+++-..+..|.   ...|.....-+.+..   +-+.+..+=+++..  ..-.+|..+..--..+
T Consensus       442 ~vi~Rl~~r-~~Y~vaIQva~~l~~p~~~~~~Vl~~Wa~~kI~~~d~~d~~vld~I~~kls~~~~~~iSy~~iA~~Ay~~  520 (829)
T KOG2280|consen  442 VVIDRLVDR-HLYSVAIQVAKLLNLPESQGDRVLLEWARRKIKQSDKMDEEVLDKIDEKLSAKLTPGISYAAIARRAYQE  520 (829)
T ss_pred             hhhHHHHhc-chhHHHHHHHHHhCCccccccHHHHHHHHHHHhccCccchHHHHHHHHHhcccCCCceeHHHHHHHHHhc
Confidence            455566666 88888888888877554   344444455555442   23333444444444  3456777788878889


Q ss_pred             CChHHHHHHHhhCCCC--------CcccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCC----------CCCC-HHHH
Q 009066          115 GQLDKAVELFKVAPVK--------SVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLG----------IRPN-ASSL  175 (545)
Q Consensus       115 g~~~~A~~~f~~~~~~--------~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~----------~~pd-~~t~  175 (545)
                      |+.+-|..+.+.=+..        +..-+..-+.-.     .+.|+.+-...++..|.+.-          ..|. ...|
T Consensus       521 GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~ka-----ies~d~~Li~~Vllhlk~~~~~s~l~~~l~~~p~a~~lY  595 (829)
T KOG2280|consen  521 GRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKA-----IESGDTDLIIQVLLHLKNKLNRSSLFMTLRNQPLALSLY  595 (829)
T ss_pred             CcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHH-----HhcCCchhHHHHHHHHHHHHHHHHHHHHHHhchhhhHHH
Confidence            9999999888654321        223344455555     67777777777666654321          0111 1111


Q ss_pred             HHHHH---------HHhccCcHHHHHHHHHHH-Hh-CCCCCCcccHHHHHHHHHhcCCHHHHHHH----------HHhcc
Q 009066          176 SSVLL---------GCSHLSSLQLGKQVHQLV-FK-SPLCKDTTALTPLISMYCKCGDLEDACKL----------FLEIQ  234 (545)
Q Consensus       176 ~~ll~---------~~~~~~~~~~a~~~~~~~-~~-~g~~~~~~~~~~li~~y~~~g~~~~A~~~----------f~~~~  234 (545)
                      .-+++         .|-...+......++-+- .+ .-+.+-........+.+++.....-..+.          ++.+.
T Consensus       596 ~~~~r~~~~~~l~d~y~q~dn~~~~a~~~~q~~~~~~~~~~r~~~lk~~a~~~a~sk~~s~e~ka~ed~~kLl~lQ~~Le  675 (829)
T KOG2280|consen  596 RQFMRHQDRATLYDFYNQDDNHQALASFHLQASYAAETIEGRIPALKTAANAFAKSKEKSFEAKALEDQMKLLKLQRTLE  675 (829)
T ss_pred             HHHHHhhchhhhhhhhhcccchhhhhhhhhhhhhhhhhhcccchhHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHH
Confidence            11111         111112222222221111 00 00111122233344555554442222222          22222


Q ss_pred             CC-----ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCH
Q 009066          235 RK-----DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKP  309 (545)
Q Consensus       235 ~~-----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~  309 (545)
                      .+     .-.+.+--+.-+...|+..+|.++-.+.+    -||...|-.-+.+++..+++++-.++-++..       .+
T Consensus       676 ~q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekfAkskk-------sP  744 (829)
T KOG2280|consen  676 DQFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKFAKSKK-------SP  744 (829)
T ss_pred             HHhccccccCcHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHHHhccC-------CC
Confidence            11     22345566777788899999999888764    6788888888899999999998777665442       24


Q ss_pred             HHHHHHHHHHhHcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHH
Q 009066          310 DHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMN  366 (545)
Q Consensus       310 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~  366 (545)
                      .-|.-.+..+.+.|+.+||.+++.+.+-.+      -...+|...|++.+|.+..-+
T Consensus       745 IGy~PFVe~c~~~~n~~EA~KYiprv~~l~------ekv~ay~~~~~~~eAad~A~~  795 (829)
T KOG2280|consen  745 IGYLPFVEACLKQGNKDEAKKYIPRVGGLQ------EKVKAYLRVGDVKEAADLAAE  795 (829)
T ss_pred             CCchhHHHHHHhcccHHHHhhhhhccCChH------HHHHHHHHhccHHHHHHHHHH
Confidence            456667889999999999999999984222      466778888888888776543

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=96.25  E-value=0.056  Score=45.50  Aligned_cols=61  Identities=16%  Similarity=0.132  Sum_probs=52.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhh
Q 009066          343 IFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       343 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  404 (545)
                      ....++..+...|+++.|....++++..+|.+.. .|..++.+|...|+..+|.++|+.+.+
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~~E~-~~~~lm~~~~~~g~~~~A~~~Y~~~~~  124 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALDPYDEE-AYRLLMRALAAQGRRAEALRVYERYRR  124 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-HH-HHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcCCCCHH-HHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence            4566777788999999999999999999999988 999999999999999999999988753

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=96.15  E-value=0.081  Score=42.94  Aligned_cols=49  Identities=14%  Similarity=0.291  Sum_probs=30.6

Q ss_pred             CCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHH
Q 009066          269 MKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVD  317 (545)
Q Consensus       269 ~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~  317 (545)
                      ..|+..+..+++.+++..|++..|.++.+...+.|+++-+..+|..|+.
T Consensus        48 l~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~   96 (126)
T PF12921_consen   48 LYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLE   96 (126)
T ss_pred             CCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            4566666666666666666666666666666666666555555555554

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>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=96.15  E-value=0.0072  Score=44.55  Aligned_cols=22  Identities=23%  Similarity=0.433  Sum_probs=9.4

Q ss_pred             HHHHHHHHhHcCCHHHHHHHHH
Q 009066          312 YTCMVDLLGRAGKLVEAVDLIK  333 (545)
Q Consensus       312 ~~~li~~~~~~g~~~~A~~~~~  333 (545)
                      |+.+...|.+.|++++|++.|+
T Consensus         8 ~~~la~~~~~~~~~~~A~~~~~   29 (78)
T PF13424_consen    8 YNNLARVYRELGRYDEALDYYE   29 (78)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHH
Confidence            3444444444444444444443

...

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=96.11  E-value=0.33  Score=44.96  Aligned_cols=109  Identities=17%  Similarity=0.105  Sum_probs=70.5

Q ss_pred             CHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcC---CHHHHHHHHHhC-CCCC-CHhHHHH
Q 009066          272 DSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAG---KLVEAVDLIKKM-PFKP-QPAIFGT  346 (545)
Q Consensus       272 ~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g---~~~~A~~~~~~m-~~~p-~~~~~~~  346 (545)
                      |...|..|..+|...|+.+.|...|....+  -..+++..+..+..++....   ...++..+|+++ ...| |+....-
T Consensus       155 d~egW~~Lg~~ym~~~~~~~A~~AY~~A~r--L~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~iral~l  232 (287)
T COG4235         155 DAEGWDLLGRAYMALGRASDALLAYRNALR--LAGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRALSL  232 (287)
T ss_pred             CchhHHHHHHHHHHhcchhHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHHHHH
Confidence            556676777777777777777777776665  23445555556665554322   345667777776 3344 4455555


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHH
Q 009066          347 LLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLAN  384 (545)
Q Consensus       347 li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~  384 (545)
                      |...+...|++.+|...++.|++..|.+.  ....++.
T Consensus       233 LA~~afe~g~~~~A~~~Wq~lL~~lp~~~--~rr~~ie  268 (287)
T COG4235         233 LAFAAFEQGDYAEAAAAWQMLLDLLPADD--PRRSLIE  268 (287)
T ss_pred             HHHHHHHcccHHHHHHHHHHHHhcCCCCC--chHHHHH
Confidence            66678888888888888888888877765  4554443

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=96.00  E-value=0.076  Score=43.09  Aligned_cols=77  Identities=17%  Similarity=0.274  Sum_probs=40.3

Q ss_pred             HHHHHHHHHHHHccCcHHHHHHHHHHhH--------------HhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC---
Q 009066          273 SITFVALLLACNHAGLVDLGIQYFDSMV--------------NDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM---  335 (545)
Q Consensus       273 ~~t~~~ll~a~~~~g~~~~a~~~~~~~~--------------~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m---  335 (545)
                      +.++..++.++++.|+++....+.+..-              ......|+..+..+++.+|+..|++..|+++++..   
T Consensus         2 e~~~~~ii~al~r~g~~~~i~~~i~~~WgI~~~~~~~~~~~~~~spl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~   81 (126)
T PF12921_consen    2 EELLCNIIYALGRSGQLDSIKSYIKSVWGIDVNGKKKEGDYPPSSPLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRK   81 (126)
T ss_pred             hHHHHHHHHHHhhcCCHHHHHHHHHHhcCCCCCCccccCccCCCCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            4455555556666666655555554321              11234455555566666666666666666555444   


Q ss_pred             -CCCCCHhHHHHHHH
Q 009066          336 -PFKPQPAIFGTLLS  349 (545)
Q Consensus       336 -~~~p~~~~~~~li~  349 (545)
                       +++-+...|..|+.
T Consensus        82 Y~I~i~~~~W~~Ll~   96 (126)
T PF12921_consen   82 YPIPIPKEFWRRLLE   96 (126)
T ss_pred             cCCCCCHHHHHHHHH
Confidence             33334455555554

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=95.99  E-value=1.1  Score=40.08  Aligned_cols=54  Identities=9%  Similarity=0.014  Sum_probs=27.6

Q ss_pred             hccCChHHHHHHHHHHHhCCCC--CCHHHHHHHHHHHhccCcHHHHHHHHHHHHhC
Q 009066          148 VENSWAEDGLKLLRMMIGLGIR--PNASSLSSVLLGCSHLSSLQLGKQVHQLVFKS  201 (545)
Q Consensus       148 ~~~g~~~~A~~~~~~m~~~~~~--pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~  201 (545)
                      .+.|++.+|++.|+++......  --......+..++-+.|+++.|...++..++.
T Consensus        16 ~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~   71 (203)
T PF13525_consen   16 LQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKL   71 (203)
T ss_dssp             HHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            5666677777777766653211  11123334455555666666666666665553

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=95.96  E-value=1.1  Score=40.06  Aligned_cols=199  Identities=18%  Similarity=0.129  Sum_probs=94.4

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHHHhC-CCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccCC--C-hhhHHHHHH-H
Q 009066          173 SSLSSVLLGCSHLSSLQLGKQVHQLVFKS-PLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRK--D-VVTWNAMIS-G  247 (545)
Q Consensus       173 ~t~~~ll~~~~~~~~~~~a~~~~~~~~~~-g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~--~-~~~~~~li~-~  247 (545)
                      ..+......+...+.+..+...+...... ........+..+...+...+++..+.+.+......  + ......... .
T Consensus        60 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  139 (291)
T COG0457          60 GLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDPDLAEALLALGA  139 (291)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCcchHHHHHHHHH
Confidence            44444444555555555555555554432 12233334444555555555556666665555431  1 112222222 4


Q ss_pred             HHHcCChHHHHHHHHHHHHcCC--CCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCC-CHHHHHHHHHHHhHcCC
Q 009066          248 YAQHGKGEKALRLFDKMKDEGM--KPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAA-KPDHYTCMVDLLGRAGK  324 (545)
Q Consensus       248 ~~~~g~~~~A~~~~~~m~~~g~--~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~  324 (545)
                      +...|++++|...|.+......  ......+......+...++.+.+...+....+.  .+. ....+..+...+...++
T Consensus       140 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~  217 (291)
T COG0457         140 LYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKL--NPDDDAEALLNLGLLYLKLGK  217 (291)
T ss_pred             HHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhh--CcccchHHHHHhhHHHHHccc
Confidence            5566666666666666643111  012222223333344555666666666555542  122 24555555555555566


Q ss_pred             HHHHHHHHHhC-CCCCC-HhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCC
Q 009066          325 LVEAVDLIKKM-PFKPQ-PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPA  373 (545)
Q Consensus       325 ~~~A~~~~~~m-~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~  373 (545)
                      +++|...+... ...|+ ...+..+...+...+..+.+...+.+.....|.
T Consensus       218 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  268 (291)
T COG0457         218 YEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALELDPD  268 (291)
T ss_pred             HHHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHhCcc
Confidence            66666555554 22232 233333333333444555666555555555554

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=95.88  E-value=0.078  Score=50.94  Aligned_cols=62  Identities=15%  Similarity=0.064  Sum_probs=54.2

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhh
Q 009066          342 AIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       342 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  404 (545)
                      .++..|...+.+.+++..|+....+.++++|++.- +...-+.+|...|.++.|+..|+++.+
T Consensus       258 ~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~K-ALyRrG~A~l~~~e~~~A~~df~ka~k  319 (397)
T KOG0543|consen  258 ACHLNLAACYLKLKEYKEAIESCNKVLELDPNNVK-ALYRRGQALLALGEYDLARDDFQKALK  319 (397)
T ss_pred             HHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchh-HHHHHHHHHHhhccHHHHHHHHHHHHH
Confidence            45677778888999999999999999999999887 888889999999999999999998876

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=95.81  E-value=0.059  Score=52.96  Aligned_cols=61  Identities=16%  Similarity=0.118  Sum_probs=45.5

Q ss_pred             CHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCH----HHHHHHHHHHhHcCCHHHHHHHHHhC
Q 009066          272 DSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKP----DHYTCMVDLLGRAGKLVEAVDLIKKM  335 (545)
Q Consensus       272 ~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~----~~~~~li~~~~~~g~~~~A~~~~~~m  335 (545)
                      +...++.+..+|...|++++|...|++.++.   .|+.    ..|..+..+|...|++++|++.+++.
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL---~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrA  138 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALEL---NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTA  138 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh---CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            4566777778888888888888888877643   5553    34778888888888888888887776

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=95.78  E-value=0.19  Score=41.27  Aligned_cols=72  Identities=17%  Similarity=0.110  Sum_probs=45.4

Q ss_pred             HHHhHcCCHHHHHHHHHhC----CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHH
Q 009066          317 DLLGRAGKLVEAVDLIKKM----PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAA  388 (545)
Q Consensus       317 ~~~~~~g~~~~A~~~~~~m----~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~  388 (545)
                      ....+.|++++|.+.|+.+    |..| ....--.|+.+|.+.+++++|...+++.++++|+++...|.....+++.
T Consensus        18 ~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~~   94 (142)
T PF13512_consen   18 QEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLSY   94 (142)
T ss_pred             HHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHHH
Confidence            3344566777777777666    3222 2234455677777788888888888888888777665455555555443

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=95.78  E-value=1.4  Score=39.53  Aligned_cols=218  Identities=18%  Similarity=0.153  Sum_probs=158.5

Q ss_pred             cCcHHHHHHHHHHHHhCCCC-CCcccHHHHHHHHHhcCCHHHHHHHHHhccC-----CChhhHHHHHHHHHHcCChHHHH
Q 009066          185 LSSLQLGKQVHQLVFKSPLC-KDTTALTPLISMYCKCGDLEDACKLFLEIQR-----KDVVTWNAMISGYAQHGKGEKAL  258 (545)
Q Consensus       185 ~~~~~~a~~~~~~~~~~g~~-~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~-----~~~~~~~~li~~~~~~g~~~~A~  258 (545)
                      .+....+...+......... ............+...+++..+...+.....     .....+......+...+.+.++.
T Consensus        36 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  115 (291)
T COG0457          36 LGELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEAL  115 (291)
T ss_pred             HhhHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHH
Confidence            34455555555555554322 1356677788889999999999998887652     35566777777888888999999


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHH-HHHccCcHHHHHHHHHHhHHhcCC--CCCHHHHHHHHHHHhHcCCHHHHHHHHHhC
Q 009066          259 RLFDKMKDEGMKPDSITFVALLL-ACNHAGLVDLGIQYFDSMVNDYGI--AAKPDHYTCMVDLLGRAGKLVEAVDLIKKM  335 (545)
Q Consensus       259 ~~~~~m~~~g~~p~~~t~~~ll~-a~~~~g~~~~a~~~~~~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  335 (545)
                      ..+.........+. ........ ++...|+++.+...+...... ..  ......+......+...++.++|...+.+.
T Consensus       116 ~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~  193 (291)
T COG0457         116 ELLEKALALDPDPD-LAEALLALGALYELGDYEEALELYEKALEL-DPELNELAEALLALGALLEALGRYEEALELLEKA  193 (291)
T ss_pred             HHHHHHHcCCCCcc-hHHHHHHHHHHHHcCCHHHHHHHHHHHHhc-CCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHH
Confidence            99999887544432 22222222 788999999999999988541 11  123445555556677889999999999887


Q ss_pred             -CCCCC--HhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhhC
Q 009066          336 -PFKPQ--PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKEN  405 (545)
Q Consensus       336 -~~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  405 (545)
                       ...++  ...+..+...+...++++.|...+.......|.... .+..+...+...|.++++...+......
T Consensus       194 ~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~  265 (291)
T COG0457         194 LKLNPDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDPDNAE-ALYNLALLLLELGRYEEALEALEKALEL  265 (291)
T ss_pred             HhhCcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhCcccHH-HHhhHHHHHHHcCCHHHHHHHHHHHHHh
Confidence             33344  577888888999999999999999999999998444 6677777777778899999888877653

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=95.59  E-value=0.15  Score=49.06  Aligned_cols=137  Identities=14%  Similarity=0.062  Sum_probs=96.4

Q ss_pred             HHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCC
Q 009066          245 ISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGK  324 (545)
Q Consensus       245 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  324 (545)
                      ...|.+.|++..|...|++....            |. +...-+.++.....         ..-..++..|.-.|.+.++
T Consensus       215 Gn~~fK~gk~~~A~~~Yerav~~------------l~-~~~~~~~ee~~~~~---------~~k~~~~lNlA~c~lKl~~  272 (397)
T KOG0543|consen  215 GNVLFKEGKFKLAKKRYERAVSF------------LE-YRRSFDEEEQKKAE---------ALKLACHLNLAACYLKLKE  272 (397)
T ss_pred             hhHHHhhchHHHHHHHHHHHHHH------------hh-ccccCCHHHHHHHH---------HHHHHHhhHHHHHHHhhhh
Confidence            45677778888888887776542            11 11111112222211         1123457788888999999


Q ss_pred             HHHHHHHHHhC-CC-CCCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHH-HHHHHH
Q 009066          325 LVEAVDLIKKM-PF-KPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDV-ARIRLS  401 (545)
Q Consensus       325 ~~~A~~~~~~m-~~-~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a-~~~~~~  401 (545)
                      +.+|+..-++. .. .+|+...-.=..++...|+++.|+..|+++++++|++-. +-..|+.+-.+....++. .++|..
T Consensus       273 ~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~P~Nka-~~~el~~l~~k~~~~~~kekk~y~~  351 (397)
T KOG0543|consen  273 YKEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALKLEPSNKA-ARAELIKLKQKIREYEEKEKKMYAN  351 (397)
T ss_pred             HHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhCCCcHH-HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999887766 33 356777777788999999999999999999999999977 777888777777666554 778888


Q ss_pred             hhh
Q 009066          402 MKE  404 (545)
Q Consensus       402 m~~  404 (545)
                      |-.
T Consensus       352 mF~  354 (397)
T KOG0543|consen  352 MFA  354 (397)
T ss_pred             Hhh
Confidence            864

>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=95.57  E-value=0.015  Score=42.81  Aligned_cols=62  Identities=13%  Similarity=0.133  Sum_probs=50.4

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHHhcC----CCCC--CchhHHHHHHHHHHcCCchHHHHHHHHhh
Q 009066          342 AIFGTLLSACRVHKRLDLAEFAAMNLFNL----NPAN--AAGCYVQLANIYAAMKKWDDVARIRLSMK  403 (545)
Q Consensus       342 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~----~p~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  403 (545)
                      .+++.+...|...|++++|+..+++++++    +++.  ...++..++.+|...|++++|.+.+++..
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al   73 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKAL   73 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            57888999999999999999999998753    3322  12378899999999999999999998764

...

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=95.53  E-value=1.5  Score=43.00  Aligned_cols=35  Identities=11%  Similarity=0.369  Sum_probs=29.3

Q ss_pred             CCCCccHHHHHHHHHHhCCCChHHHHHHHccCCCCC
Q 009066            2 NVKTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQPD   37 (545)
Q Consensus         2 ~~~~~~~~~~li~~~~~~g~~~~~A~~~f~~~~~~~   37 (545)
                      ||.|..+|-.||+-|...|. .++.++++++|..|-
T Consensus        38 NPtnI~S~fqLiq~~~tq~s-~~~~re~yeq~~~pf   72 (660)
T COG5107          38 NPTNILSYFQLIQYLETQES-MDAEREMYEQLSSPF   72 (660)
T ss_pred             CchhHHHHHHHHHHHhhhhh-HHHHHHHHHHhcCCC
Confidence            57788889999999999988 999999998887543

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=95.39  E-value=1.1  Score=35.98  Aligned_cols=139  Identities=14%  Similarity=0.157  Sum_probs=79.0

Q ss_pred             HcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHH
Q 009066          250 QHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAV  329 (545)
Q Consensus       250 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  329 (545)
                      -.|..++..++..+.....   +..-++-++.-....-+-+...+.++.+-+-+.+              ..+|++....
T Consensus        14 ldG~V~qGveii~k~v~Ss---ni~E~NWvICNiiDaa~C~yvv~~LdsIGkiFDi--------------s~C~NlKrVi   76 (161)
T PF09205_consen   14 LDGDVKQGVEIIEKTVNSS---NIKEYNWVICNIIDAADCDYVVETLDSIGKIFDI--------------SKCGNLKRVI   76 (161)
T ss_dssp             HTT-HHHHHHHHHHHHHHS----HHHHTHHHHHHHHH--HHHHHHHHHHHGGGS-G--------------GG-S-THHHH
T ss_pred             HhchHHHHHHHHHHHcCcC---CccccceeeeecchhhchhHHHHHHHHHhhhcCc--------------hhhcchHHHH
Confidence            3566667777777665532   3333333333222223334444455444332222              2355555555


Q ss_pred             HHHHhCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhhCCCc
Q 009066          330 DLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVV  408 (545)
Q Consensus       330 ~~~~~m~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  408 (545)
                      ..+-.++  .+..-...-+..+...|+-+.-.+++..+.+.+..++. ....++.+|.+.|+..++-.++++.-++|++
T Consensus        77 ~C~~~~n--~~se~vD~ALd~lv~~~kkDqLdki~~~l~kn~~~~p~-~L~kia~Ay~klg~~r~~~ell~~ACekG~k  152 (161)
T PF09205_consen   77 ECYAKRN--KLSEYVDLALDILVKQGKKDQLDKIYNELKKNEEINPE-FLVKIANAYKKLGNTREANELLKEACEKGLK  152 (161)
T ss_dssp             HHHHHTT-----HHHHHHHHHHHHTT-HHHHHHHHHHH-----S-HH-HHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred             HHHHHhc--chHHHHHHHHHHHHHhccHHHHHHHHHHHhhccCCCHH-HHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence            5555553  34455667778888999999999999988754433444 7889999999999999999999999998875

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=95.27  E-value=0.92  Score=40.58  Aligned_cols=56  Identities=16%  Similarity=0.172  Sum_probs=32.2

Q ss_pred             HHHHHHHHcCChHHHHHHHhhCCC--CC----cccHHHHHHHhcchhhhccCChHHHHHHHHHHHhC
Q 009066          106 AMISGYIECGQLDKAVELFKVAPV--KS----VVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGL  166 (545)
Q Consensus       106 ~li~~~~~~g~~~~A~~~f~~~~~--~~----~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~  166 (545)
                      .....+...|++++|.+.|+.+..  |+    ..+.-.++.++     ...|++++|...|++..+.
T Consensus        10 ~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~-----y~~~~y~~A~~~~~~fi~~   71 (203)
T PF13525_consen   10 QKALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAY-----YKQGDYEEAIAAYERFIKL   71 (203)
T ss_dssp             HHHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHH-----HHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHH-----HHcCCHHHHHHHHHHHHHH
Confidence            344455566777777777765542  11    12334455666     6777777777777777654

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=95.20  E-value=2.3  Score=41.48  Aligned_cols=162  Identities=9%  Similarity=0.043  Sum_probs=103.9

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHcCC--CCCH-HHHHHHHHHHHc---cCcHHHHHHHHHHhHHhcCCCCCHHHHHHHH
Q 009066          243 AMISGYAQHGKGEKALRLFDKMKDEGM--KPDS-ITFVALLLACNH---AGLVDLGIQYFDSMVNDYGIAAKPDHYTCMV  316 (545)
Q Consensus       243 ~li~~~~~~g~~~~A~~~~~~m~~~g~--~p~~-~t~~~ll~a~~~---~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li  316 (545)
                      .++-+|....+++..+++++.+.....  .++. ..--....|+.+   .|+.++|++++..+... .-.+++++|..+.
T Consensus       146 ~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~-~~~~~~d~~gL~G  224 (374)
T PF13281_consen  146 NLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLES-DENPDPDTLGLLG  224 (374)
T ss_pred             HHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhc-cCCCChHHHHHHH
Confidence            455568899999999999999986421  1111 111123345666   89999999999885554 5678888888887


Q ss_pred             HHHh----H-----cCCHHHHHHHHHhC-CCCCCHhHHHHHHHHHHhcCCHH----HHHHHH---HHHh-c---CCC-CC
Q 009066          317 DLLG----R-----AGKLVEAVDLIKKM-PFKPQPAIFGTLLSACRVHKRLD----LAEFAA---MNLF-N---LNP-AN  374 (545)
Q Consensus       317 ~~~~----~-----~g~~~~A~~~~~~m-~~~p~~~~~~~li~~~~~~g~~~----~A~~~~---~~~~-~---~~p-~~  374 (545)
                      ..|-    .     ...+++|...|.+. .++||...=-.+...+...|...    +..++.   ..+. +   .++ .+
T Consensus       225 RIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~~~~d  304 (374)
T PF13281_consen  225 RIYKDLFLESNFTDRESLDKAIEWYRKGFEIEPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLEKMQD  304 (374)
T ss_pred             HHHHHHHHHcCccchHHHHHHHHHHHHHHcCCccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhcccccccc
Confidence            7663    2     22478899988877 55666543333333333444322    222222   1111 1   222 22


Q ss_pred             CchhHHHHHHHHHHcCCchHHHHHHHHhhhCC
Q 009066          375 AAGCYVQLANIYAAMKKWDDVARIRLSMKENN  406 (545)
Q Consensus       375 ~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  406 (545)
                      .. .+..++.++.-.|+.++|.+..+.|.+..
T Consensus       305 YW-d~ATl~Ea~vL~~d~~ka~~a~e~~~~l~  335 (374)
T PF13281_consen  305 YW-DVATLLEASVLAGDYEKAIQAAEKAFKLK  335 (374)
T ss_pred             HH-HHHHHHHHHHHcCCHHHHHHHHHHHhhcC
Confidence            33 56789999999999999999999998763

>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=95.12  E-value=0.29  Score=41.13  Aligned_cols=71  Identities=18%  Similarity=0.297  Sum_probs=42.3

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHH----hcCCCCCHHH
Q 009066          240 TWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVN----DYGIAAKPDH  311 (545)
Q Consensus       240 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~----~~~~~~~~~~  311 (545)
                      ....++..+...|++++|+.+.+.+.... +.|...+..++.++...|+..+|.+.|+.+.+    +.|+.|++.+
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~  138 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPET  138 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHH
Confidence            34455666667777777777777777653 33566777777777777777777777766532    3466776655

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>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=94.97  E-value=0.54  Score=47.37  Aligned_cols=132  Identities=15%  Similarity=0.179  Sum_probs=81.1

Q ss_pred             HHHcCChHHHHHHHHHHH-HcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHH
Q 009066          248 YAQHGKGEKALRLFDKMK-DEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLV  326 (545)
Q Consensus       248 ~~~~g~~~~A~~~~~~m~-~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  326 (545)
                      ....|+++++.++.+.-. -..++  ..-...++.-+.+.|..+.|+++-..-.             .-.++..++|+++
T Consensus       271 av~~~d~~~v~~~i~~~~ll~~i~--~~~~~~i~~fL~~~G~~e~AL~~~~D~~-------------~rFeLAl~lg~L~  335 (443)
T PF04053_consen  271 AVLRGDFEEVLRMIAASNLLPNIP--KDQGQSIARFLEKKGYPELALQFVTDPD-------------HRFELALQLGNLD  335 (443)
T ss_dssp             HHHTT-HHH-----HHHHTGGG----HHHHHHHHHHHHHTT-HHHHHHHSS-HH-------------HHHHHHHHCT-HH
T ss_pred             HHHcCChhhhhhhhhhhhhcccCC--hhHHHHHHHHHHHCCCHHHHHhhcCChH-------------HHhHHHHhcCCHH
Confidence            344677777666664211 11111  3346667777777888888776643221             2345566788888


Q ss_pred             HHHHHHHhCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhhCC
Q 009066          327 EAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENN  406 (545)
Q Consensus       327 ~A~~~~~~m~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  406 (545)
                      .|.++.++.   ++...|..|.......|+++.|++.|.+..         -+..|+-.|...|+.+.-.++-+....+|
T Consensus       336 ~A~~~a~~~---~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~---------d~~~L~lLy~~~g~~~~L~kl~~~a~~~~  403 (443)
T PF04053_consen  336 IALEIAKEL---DDPEKWKQLGDEALRQGNIELAEECYQKAK---------DFSGLLLLYSSTGDREKLSKLAKIAEERG  403 (443)
T ss_dssp             HHHHHCCCC---STHHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHTT
T ss_pred             HHHHHHHhc---CcHHHHHHHHHHHHHcCCHHHHHHHHHhhc---------CccccHHHHHHhCCHHHHHHHHHHHHHcc
Confidence            888887776   477788888888888888888888888762         57777788888888777777666665554

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.

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=94.89  E-value=0.27  Score=39.26  Aligned_cols=91  Identities=15%  Similarity=0.103  Sum_probs=66.7

Q ss_pred             HHHhHcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCc---hhHHHHHHHHHHcCC
Q 009066          317 DLLGRAGKLVEAVDLIKKM-PFK-PQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA---GCYVQLANIYAAMKK  391 (545)
Q Consensus       317 ~~~~~~g~~~~A~~~~~~m-~~~-p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~---~~~~~l~~~~~~~g~  391 (545)
                      -++...|+++.|++.|.+. .+- .....||.-..++...|+.++|+.-+++++++.-+...   .+|+.-+..|...|+
T Consensus        51 valaE~g~Ld~AlE~F~qal~l~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~  130 (175)
T KOG4555|consen   51 IALAEAGDLDGALELFGQALCLAPERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGN  130 (175)
T ss_pred             HHHHhccchHHHHHHHHHHHHhcccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCc
Confidence            3566778888888888776 222 35677888888888888888888888888875422211   256677778888899


Q ss_pred             chHHHHHHHHhhhCCC
Q 009066          392 WDDVARIRLSMKENNV  407 (545)
Q Consensus       392 ~~~a~~~~~~m~~~~~  407 (545)
                      -+.|+.=|+..-+.|-
T Consensus       131 dd~AR~DFe~AA~LGS  146 (175)
T KOG4555|consen  131 DDAARADFEAAAQLGS  146 (175)
T ss_pred             hHHHHHhHHHHHHhCC
Confidence            8888888888777664

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.86  E-value=0.81  Score=42.93  Aligned_cols=156  Identities=13%  Similarity=-0.014  Sum_probs=90.0

Q ss_pred             cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHH----HHHHHHhHcCCHH
Q 009066          251 HGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYT----CMVDLLGRAGKLV  326 (545)
Q Consensus       251 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~----~li~~~~~~g~~~  326 (545)
                      .|+..+|-..++++++. .+.|...+.-.=.+|...|+.+.-...++++...  ..++...|.    .+.-++..+|-++
T Consensus       116 ~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~--wn~dlp~~sYv~GmyaFgL~E~g~y~  192 (491)
T KOG2610|consen  116 RGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK--WNADLPCYSYVHGMYAFGLEECGIYD  192 (491)
T ss_pred             cccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccc--cCCCCcHHHHHHHHHHhhHHHhccch
Confidence            56666777777777664 4445556666666777777777777777766642  234433332    3333445677777


Q ss_pred             HHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCC---CchhHHHHHHHHHHcCCchHHHHHHHH
Q 009066          327 EAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPAN---AAGCYVQLANIYAAMKKWDDVARIRLS  401 (545)
Q Consensus       327 ~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~  401 (545)
                      +|.+.-++. .+.| |...-.++...+-..|++.++.+...+-...-...   ..+.|-..+-.+...+.++.|+++|+.
T Consensus       193 dAEk~A~ralqiN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD~  272 (491)
T KOG2610|consen  193 DAEKQADRALQINRFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYDR  272 (491)
T ss_pred             hHHHHHHhhccCCCcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHHH
Confidence            777777665 4444 44555666666777777777777665543322111   001333444555566777777777765


Q ss_pred             hhhCCCcc
Q 009066          402 MKENNVVK  409 (545)
Q Consensus       402 m~~~~~~~  409 (545)
                      -.-....+
T Consensus       273 ei~k~l~k  280 (491)
T KOG2610|consen  273 EIWKRLEK  280 (491)
T ss_pred             HHHHHhhc
Confidence            44333333

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=94.83  E-value=1.3  Score=44.10  Aligned_cols=58  Identities=17%  Similarity=0.130  Sum_probs=29.4

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHhcCCCC-CCchhHHHHHHHHHHcCCchHHHHHHHHh
Q 009066          345 GTLLSACRVHKRLDLAEFAAMNLFNLNPA-NAAGCYVQLANIYAAMKKWDDVARIRLSM  402 (545)
Q Consensus       345 ~~li~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  402 (545)
                      ..|...+.+.|+.++|++.++.+.+..|. +.......|+.++...+.+.++..++.+-
T Consensus       263 rRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kY  321 (539)
T PF04184_consen  263 RRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKY  321 (539)
T ss_pred             HHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHh
Confidence            33444455555555555555555554443 12224445555555555555555555543

The molecular function of this protein is uncertain.

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.81  E-value=2.8  Score=37.72  Aligned_cols=197  Identities=14%  Similarity=0.126  Sum_probs=105.6

Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccCC--ChhhHHHHHHHHHHcC
Q 009066          175 LSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRK--DVVTWNAMISGYAQHG  252 (545)
Q Consensus       175 ~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~--~~~~~~~li~~~~~~g  252 (545)
                      |.-...+|...+++++|...+....+. .+.+...|.+       ...++.|.-+.+++.+-  -+..|+--...|..+|
T Consensus        34 yekAAvafRnAk~feKakdcLlkA~~~-yEnnrslfhA-------AKayEqaamLake~~klsEvvdl~eKAs~lY~E~G  105 (308)
T KOG1585|consen   34 YEKAAVAFRNAKKFEKAKDCLLKASKG-YENNRSLFHA-------AKAYEQAAMLAKELSKLSEVVDLYEKASELYVECG  105 (308)
T ss_pred             HHHHHHHHHhhccHHHHHHHHHHHHHH-HHhcccHHHH-------HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhC
Confidence            444445566667777777655555431 1222222211       12234444444444432  1234555667777777


Q ss_pred             ChHHHHHHHHHHHH--cCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhc----CCCCCHHHHHHHHHHHhHcCCHH
Q 009066          253 KGEKALRLFDKMKD--EGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDY----GIAAKPDHYTCMVDLLGRAGKLV  326 (545)
Q Consensus       253 ~~~~A~~~~~~m~~--~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~----~~~~~~~~~~~li~~~~~~g~~~  326 (545)
                      .++.|-..+++.-+  .++.|+                  +|++++++...-.    ....-.+.|..+...|.+..+++
T Consensus       106 spdtAAmaleKAak~lenv~Pd------------------~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl~kf~  167 (308)
T KOG1585|consen  106 SPDTAAMALEKAAKALENVKPD------------------DALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRLEKFT  167 (308)
T ss_pred             CcchHHHHHHHHHHHhhcCCHH------------------HHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhhHHhh
Confidence            77776666665433  234444                  3333333322110    01112334555666777777888


Q ss_pred             HHHHHHHhCC-------CCCCH-hHHHHHHHHHHhcCCHHHHHHHHHHHhc----CCCCCCchhHHHHHHHHHHcCCchH
Q 009066          327 EAVDLIKKMP-------FKPQP-AIFGTLLSACRVHKRLDLAEFAAMNLFN----LNPANAAGCYVQLANIYAAMKKWDD  394 (545)
Q Consensus       327 ~A~~~~~~m~-------~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~----~~p~~~~~~~~~l~~~~~~~g~~~~  394 (545)
                      +|-..|.+-+       --|+. ..+-+.|-.+.-..++..|++.++.-.+    ..|.+.. +...|+.+| ..|+.|+
T Consensus       168 Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r-~lenLL~ay-d~gD~E~  245 (308)
T KOG1585|consen  168 EAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSR-SLENLLTAY-DEGDIEE  245 (308)
T ss_pred             HHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHH-HHHHHHHHh-ccCCHHH
Confidence            7776665441       11222 2344555556666788888888887554    3455555 777888877 4677777


Q ss_pred             HHHHH
Q 009066          395 VARIR  399 (545)
Q Consensus       395 a~~~~  399 (545)
                      +.++.
T Consensus       246 ~~kvl  250 (308)
T KOG1585|consen  246 IKKVL  250 (308)
T ss_pred             HHHHH
Confidence            66654

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=94.73  E-value=0.2  Score=48.02  Aligned_cols=127  Identities=12%  Similarity=0.027  Sum_probs=86.0

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHHh----CCCCC-CcccHHHHHHHHHhcCCHHHHHHHHHhcc-------CC--Chh
Q 009066          174 SLSSVLLGCSHLSSLQLGKQVHQLVFK----SPLCK-DTTALTPLISMYCKCGDLEDACKLFLEIQ-------RK--DVV  239 (545)
Q Consensus       174 t~~~ll~~~~~~~~~~~a~~~~~~~~~----~g~~~-~~~~~~~li~~y~~~g~~~~A~~~f~~~~-------~~--~~~  239 (545)
                      .|..+.+.|.-.|+++.|...|+.-+.    .|-.. ....+..|.+.|.-.|+++.|.+.|+...       .+  ...
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            455566666677889999888876433    33221 23456668888888899999998887643       22  234


Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHHc----C-CCCCHHHHHHHHHHHHccCcHHHHHHHHHHhH
Q 009066          240 TWNAMISGYAQHGKGEKALRLFDKMKDE----G-MKPDSITFVALLLACNHAGLVDLGIQYFDSMV  300 (545)
Q Consensus       240 ~~~~li~~~~~~g~~~~A~~~~~~m~~~----g-~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~  300 (545)
                      +.-++..+|.-...+++|+.++.+-+..    + ..-....+-+|..++...|..++|..+.+...
T Consensus       277 scYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl  342 (639)
T KOG1130|consen  277 SCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHL  342 (639)
T ss_pred             HHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence            5666778888778888999888764331    1 12234567788888888888888887765443

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.70  E-value=6.8  Score=41.32  Aligned_cols=99  Identities=7%  Similarity=0.150  Sum_probs=63.2

Q ss_pred             HHHHHhCCCChHHHHHHHccCCC--C---ChhhHHHHHHHHHcCCCCHHHHHHHHhcCCCCCeehHHHHHHHHHhCCCHH
Q 009066           13 LAGFAKQRGKLKDAQELFDKIPQ--P---DVVSYNIMLSCILLNSDDVVAAFDFFQRLPIKDTASWNTMISGFVQKKNMA   87 (545)
Q Consensus        13 i~~~~~~g~~~~~A~~~f~~~~~--~---~~~~~~~li~~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~   87 (545)
                      |+-+.+.+. +++|...-+..+.  |   -...|...|..+... |++++|-.+.-.|...+..-|.--+..++..++..
T Consensus       363 i~Wll~~k~-yeeAl~~~k~~~~~~~~~~i~kv~~~yI~HLl~~-~~y~~Aas~~p~m~gn~~~eWe~~V~~f~e~~~l~  440 (846)
T KOG2066|consen  363 IDWLLEKKK-YEEALDAAKASIGNEERFVIKKVGKTYIDHLLFE-GKYDEAASLCPKMLGNNAAEWELWVFKFAELDQLT  440 (846)
T ss_pred             HHHHHHhhH-HHHHHHHHHhccCCccccchHHHHHHHHHHHHhc-chHHHHHhhhHHHhcchHHHHHHHHHHhccccccc
Confidence            345566667 8888877776652  2   123577788888777 88888888888887777777777777777776655


Q ss_pred             HHHHHHhhCCc-CCHhHHHHHHHHHHH
Q 009066           88 KARDLFLAMPE-KNSVSWSAMISGYIE  113 (545)
Q Consensus        88 ~a~~~~~~~~~-~~~~~~~~li~~~~~  113 (545)
                      ....+.=.-.. -++.+|..++..+..
T Consensus       441 ~Ia~~lPt~~~rL~p~vYemvLve~L~  467 (846)
T KOG2066|consen  441 DIAPYLPTGPPRLKPLVYEMVLVEFLA  467 (846)
T ss_pred             hhhccCCCCCcccCchHHHHHHHHHHH
Confidence            43333211111 245566666666555

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=94.50  E-value=1.4  Score=36.26  Aligned_cols=19  Identities=16%  Similarity=-0.045  Sum_probs=13.6

Q ss_pred             HHHHHHHHHHHhcCCCCCC
Q 009066          357 LDLAEFAAMNLFNLNPANA  375 (545)
Q Consensus       357 ~~~A~~~~~~~~~~~p~~~  375 (545)
                      ...|...|+++++.-|++.
T Consensus       115 ~~~A~~~f~~lv~~yP~S~  133 (142)
T PF13512_consen  115 ARQAFRDFEQLVRRYPNSE  133 (142)
T ss_pred             HHHHHHHHHHHHHHCcCCh
Confidence            4567777777777777763

>PRK11906 transcriptional regulator; Provisional

Probab=94.47  E-value=0.76  Score=45.53  Aligned_cols=77  Identities=9%  Similarity=-0.014  Sum_probs=48.7

Q ss_pred             HHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhh
Q 009066          326 VEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMK  403 (545)
Q Consensus       326 ~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  403 (545)
                      .+|.++.++. ...| |......+..+....++++.|...|+++..++|+... +|...+......|+.++|.+.+++..
T Consensus       321 ~~a~~~A~rAveld~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~Pn~A~-~~~~~~~~~~~~G~~~~a~~~i~~al  399 (458)
T PRK11906        321 QKALELLDYVSDITTVDGKILAIMGLITGLSGQAKVSHILFEQAKIHSTDIAS-LYYYRALVHFHNEKIEEARICIDKSL  399 (458)
T ss_pred             HHHHHHHHHHHhcCCCCHHHHHHHHHHHHhhcchhhHHHHHHHHhhcCCccHH-HHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            3444444433 2223 5555555666666666677777777777777777766 77777777777777777777666643

>PRK11906 transcriptional regulator; Provisional

Probab=94.38  E-value=2.4  Score=42.10  Aligned_cols=159  Identities=9%  Similarity=0.141  Sum_probs=105.7

Q ss_pred             hhH--HHHHHHHHHcC-----ChHHHHHHHHHHHH-cCCCCCHHH-HHHHHHHHH---------ccCcHHHHHHHHHHhH
Q 009066          239 VTW--NAMISGYAQHG-----KGEKALRLFDKMKD-EGMKPDSIT-FVALLLACN---------HAGLVDLGIQYFDSMV  300 (545)
Q Consensus       239 ~~~--~~li~~~~~~g-----~~~~A~~~~~~m~~-~g~~p~~~t-~~~ll~a~~---------~~g~~~~a~~~~~~~~  300 (545)
                      ..|  ..++.+.....     ..+.|+.+|.+... +...|+-.. |..+..++.         ......+|.++-....
T Consensus       252 ~a~~~d~ylrg~~~~~~~t~~~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAv  331 (458)
T PRK11906        252 NHYLSDEMLAGKKELYDFTPESIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVS  331 (458)
T ss_pred             cchhhHHHHHHHHHhhccCHHHHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHH
Confidence            556  55555554421     34578888888872 235665432 322222111         1234566777776666


Q ss_pred             HhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCCCH-hHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchh
Q 009066          301 NDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQP-AIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGC  378 (545)
Q Consensus       301 ~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~  378 (545)
                      +  --+.|+.....+..++.-.|+++.|...|++. ...||. .+|......+.-.|+.++|.+.+++.++++|......
T Consensus       332 e--ld~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~~~~  409 (458)
T PRK11906        332 D--ITTVDGKILAIMGLITGLSGQAKVSHILFEQAKIHSTDIASLYYYRALVHFHNEKIEEARICIDKSLQLEPRRRKAV  409 (458)
T ss_pred             h--cCCCCHHHHHHHHHHHHhhcchhhHHHHHHHHhhcCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchhhHHH
Confidence            5  33556777888888888889999999999988 566765 5677777778889999999999999999999875422


Q ss_pred             HH-HHHHHHHHcCCchHHHHHHH
Q 009066          379 YV-QLANIYAAMKKWDDVARIRL  400 (545)
Q Consensus       379 ~~-~l~~~~~~~g~~~~a~~~~~  400 (545)
                      .. ..++.|...+ .++|.+++-
T Consensus       410 ~~~~~~~~~~~~~-~~~~~~~~~  431 (458)
T PRK11906        410 VIKECVDMYVPNP-LKNNIKLYY  431 (458)
T ss_pred             HHHHHHHHHcCCc-hhhhHHHHh
Confidence            22 3333666654 566776664

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.34  E-value=0.31  Score=44.57  Aligned_cols=57  Identities=9%  Similarity=0.077  Sum_probs=34.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhcCCCCC---CchhHHHHHHHHHHcCCchHHHHHHHHhhh
Q 009066          347 LLSACRVHKRLDLAEFAAMNLFNLNPAN---AAGCYVQLANIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       347 li~~~~~~g~~~~A~~~~~~~~~~~p~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  404 (545)
                      |..++...|+++.|...|..+.+-.|+.   +. ++.-|+.+..+.|+.++|..++++..+
T Consensus       184 LGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApd-allKlg~~~~~l~~~d~A~atl~qv~k  243 (262)
T COG1729         184 LGESLYAQGDYEDAAYIFARVVKDYPKSPKAPD-ALLKLGVSLGRLGNTDEACATLQQVIK  243 (262)
T ss_pred             HHHHHHhcccchHHHHHHHHHHHhCCCCCCChH-HHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            5555666666666666666665544332   33 566666666666666666666666654

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=94.30  E-value=0.062  Score=31.97  Aligned_cols=32  Identities=16%  Similarity=0.012  Sum_probs=25.2

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCC
Q 009066          342 AIFGTLLSACRVHKRLDLAEFAAMNLFNLNPA  373 (545)
Q Consensus       342 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~  373 (545)
                      .+|..+...+...|++++|+..++++++++|+
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~   33 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALELDPD   33 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHCcC
Confidence            46777888888888888888888888888876

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 ....

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=94.23  E-value=2.3  Score=43.52  Aligned_cols=158  Identities=11%  Similarity=0.080  Sum_probs=94.4

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHcC-CCCCH-----HHHHHHHHHHH----ccCcHHHHHHHHHHhHHhcCCCCCHHHH
Q 009066          243 AMISGYAQHGKGEKALRLFDKMKDEG-MKPDS-----ITFVALLLACN----HAGLVDLGIQYFDSMVNDYGIAAKPDHY  312 (545)
Q Consensus       243 ~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~-----~t~~~ll~a~~----~~g~~~~a~~~~~~~~~~~~~~~~~~~~  312 (545)
                      .+++...-.|+-+.+++++.+..+.+ +.-..     .+|..++..+.    .....+.+.++++.+.++   -|+...|
T Consensus       193 kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~---yP~s~lf  269 (468)
T PF10300_consen  193 KLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR---YPNSALF  269 (468)
T ss_pred             HHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh---CCCcHHH
Confidence            34444444556666666665544321 22111     12333332222    245677888888888764   3444443


Q ss_pred             -HHHHHHHhHcCCHHHHHHHHHhCCC-C-----CCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHH-HHHH
Q 009066          313 -TCMVDLLGRAGKLVEAVDLIKKMPF-K-----PQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYV-QLAN  384 (545)
Q Consensus       313 -~~li~~~~~~g~~~~A~~~~~~m~~-~-----p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~-~l~~  384 (545)
                       -.-...+...|++++|++.|++.-. +     -....+--+...+....++++|...|.++.+...-... .|. ..+-
T Consensus       270 l~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s~WSka-~Y~Y~~a~  348 (468)
T PF10300_consen  270 LFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKESKWSKA-FYAYLAAA  348 (468)
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhccccHHH-HHHHHHHH
Confidence             3445666778888888888886510 0     12234445566677889999999999999887665544 444 4444


Q ss_pred             HHHHcCCc-------hHHHHHHHHhhh
Q 009066          385 IYAAMKKW-------DDVARIRLSMKE  404 (545)
Q Consensus       385 ~~~~~g~~-------~~a~~~~~~m~~  404 (545)
                      ++...|+.       ++|.+++++...
T Consensus       349 c~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  349 CLLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHHhhccchhhhhhHHHHHHHHHHHHH
Confidence            56778888       778888877654

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.

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=94.23  E-value=0.46  Score=43.42  Aligned_cols=110  Identities=16%  Similarity=0.201  Sum_probs=83.1

Q ss_pred             HHHHHHHhcc--CCChhhHHHHHHHHHHc-----CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccC----------
Q 009066          225 DACKLFLEIQ--RKDVVTWNAMISGYAQH-----GKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAG----------  287 (545)
Q Consensus       225 ~A~~~f~~~~--~~~~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g----------  287 (545)
                      ..++.|....  ++|-.+|-+++..+...     +..+=....++.|.+.|+.-|..+|+.||+.+-+..          
T Consensus        52 ~~e~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~  131 (406)
T KOG3941|consen   52 HVEKQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKV  131 (406)
T ss_pred             chhhhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHH
Confidence            3456777776  67888999999888764     456666677888999999999999999998865432          


Q ss_pred             ------cHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHH-HHHHHHHhC
Q 009066          288 ------LVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLV-EAVDLIKKM  335 (545)
Q Consensus       288 ------~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~-~A~~~~~~m  335 (545)
                            .-+=++.++++|.. +|+.||-++-..|+.++++.|..- +..++.--|
T Consensus       132 F~HYP~QQ~C~I~vLeqME~-hGVmPdkE~e~~lvn~FGr~~~p~~K~~Rm~yWm  185 (406)
T KOG3941|consen  132 FLHYPQQQNCAIKVLEQMEW-HGVMPDKEIEDILVNAFGRWNFPTKKVKRMLYWM  185 (406)
T ss_pred             HhhCchhhhHHHHHHHHHHH-cCCCCchHHHHHHHHHhccccccHHHHHHHHHhh
Confidence                  23457888988865 599999999999999999988643 333443333

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=94.12  E-value=0.099  Score=30.94  Aligned_cols=33  Identities=18%  Similarity=0.019  Sum_probs=24.8

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCC
Q 009066          342 AIFGTLLSACRVHKRLDLAEFAAMNLFNLNPAN  374 (545)
Q Consensus       342 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~  374 (545)
                      ..|..+...+...|++++|+..++++++++|++
T Consensus         2 ~~~~~lg~~~~~~~~~~~A~~~~~~al~l~p~~   34 (34)
T PF07719_consen    2 EAWYYLGQAYYQLGNYEEAIEYFEKALELDPNN   34 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTTS
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHHCcCC
Confidence            356677778888888888888888888888764

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 ....

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=93.98  E-value=3.1  Score=34.50  Aligned_cols=42  Identities=19%  Similarity=0.121  Sum_probs=22.4

Q ss_pred             HHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhc
Q 009066          178 VLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKC  220 (545)
Q Consensus       178 ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~  220 (545)
                      ++..+...+.......+++.+.+.+ ..+....+.++..|++.
T Consensus        13 vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~   54 (140)
T smart00299       13 VVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKY   54 (140)
T ss_pred             HHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHH
Confidence            4444444455555555555555554 24455555666666543

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=93.94  E-value=3.1  Score=34.45  Aligned_cols=122  Identities=16%  Similarity=0.252  Sum_probs=63.9

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhccCC---ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccC
Q 009066          211 TPLISMYCKCGDLEDACKLFLEIQRK---DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAG  287 (545)
Q Consensus       211 ~~li~~y~~~g~~~~A~~~f~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g  287 (545)
                      ..++..+.+.+.......+++.+...   +....|.++..|++.+ ..+.++.++.      .++......++..|.+.+
T Consensus        11 ~~vv~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~li~ly~~~~-~~~ll~~l~~------~~~~yd~~~~~~~c~~~~   83 (140)
T smart00299       11 SEVVELFEKRNLLEELIPYLESALKLNSENPALQTKLIELYAKYD-PQKEIERLDN------KSNHYDIEKVGKLCEKAK   83 (140)
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHccCccchhHHHHHHHHHHHHC-HHHHHHHHHh------ccccCCHHHHHHHHHHcC
Confidence            34666666666677777766665432   3456677777776653 3344444442      122333444566666666


Q ss_pred             cHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHc-CCHHHHHHHHHhCCCCCCHhHHHHHHHHHH
Q 009066          288 LVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRA-GKLVEAVDLIKKMPFKPQPAIFGTLLSACR  352 (545)
Q Consensus       288 ~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~-g~~~~A~~~~~~m~~~p~~~~~~~li~~~~  352 (545)
                      .++++..++..+..          +...++.+... ++++.|.+++.+-   .+...|..++..+.
T Consensus        84 l~~~~~~l~~k~~~----------~~~Al~~~l~~~~d~~~a~~~~~~~---~~~~lw~~~~~~~l  136 (140)
T smart00299       84 LYEEAVELYKKDGN----------FKDAIVTLIEHLGNYEKAIEYFVKQ---NNPELWAEVLKALL  136 (140)
T ss_pred             cHHHHHHHHHhhcC----------HHHHHHHHHHcccCHHHHHHHHHhC---CCHHHHHHHHHHHH
Confidence            66666666654421          12222333333 5666666666653   24455655555443

>PRK15331 chaperone protein SicA; Provisional

Probab=93.77  E-value=1.4  Score=37.19  Aligned_cols=21  Identities=10%  Similarity=-0.149  Sum_probs=9.5

Q ss_pred             HHHHHhHcCCHHHHHHHHHhC
Q 009066          315 MVDLLGRAGKLVEAVDLIKKM  335 (545)
Q Consensus       315 li~~~~~~g~~~~A~~~~~~m  335 (545)
                      ....|...|+.+.|...|+..
T Consensus       111 agqC~l~l~~~~~A~~~f~~a  131 (165)
T PRK15331        111 TGQCQLLMRKAAKARQCFELV  131 (165)
T ss_pred             HHHHHHHhCCHHHHHHHHHHH
Confidence            344444444444444444433

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=93.74  E-value=11  Score=41.93  Aligned_cols=126  Identities=17%  Similarity=0.144  Sum_probs=60.8

Q ss_pred             CCHHHHHHHHHhccCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH----HccCcHHHHHHHH
Q 009066          221 GDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLAC----NHAGLVDLGIQYF  296 (545)
Q Consensus       221 g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~----~~~g~~~~a~~~~  296 (545)
                      +++++|..-+.++.   ...|.-.+..--++|.+.+|+.++        +|+...+..+..+|    ...+.+++|--.|
T Consensus       894 ~ry~~AL~hLs~~~---~~~~~e~~n~I~kh~Ly~~aL~ly--------~~~~e~~k~i~~~ya~hL~~~~~~~~Aal~Y  962 (1265)
T KOG1920|consen  894 KRYEDALSHLSECG---ETYFPECKNYIKKHGLYDEALALY--------KPDSEKQKVIYEAYADHLREELMSDEAALMY  962 (1265)
T ss_pred             HHHHHHHHHHHHcC---ccccHHHHHHHHhcccchhhhhee--------ccCHHHHHHHHHHHHHHHHHhccccHHHHHH
Confidence            45566655555543   223444444444555566655553        44554444443333    3344444554444


Q ss_pred             HHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhCCCCCCHhH--HHHHHHHHHhcCCHHHHHHHHHHH
Q 009066          297 DSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAI--FGTLLSACRVHKRLDLAEFAAMNL  367 (545)
Q Consensus       297 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~--~~~li~~~~~~g~~~~A~~~~~~~  367 (545)
                      +..-+          ..--+.+|..+|++.+|+.+-.++....|...  -..|.+-+...+++-+|-++..+.
T Consensus       963 e~~Gk----------lekAl~a~~~~~dWr~~l~~a~ql~~~~de~~~~a~~L~s~L~e~~kh~eAa~il~e~ 1025 (1265)
T KOG1920|consen  963 ERCGK----------LEKALKAYKECGDWREALSLAAQLSEGKDELVILAEELVSRLVEQRKHYEAAKILLEY 1025 (1265)
T ss_pred             HHhcc----------HHHHHHHHHHhccHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHcccchhHHHHHHHH
Confidence            33211          01234455556666666666666532223222  245555666666666655555444

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=93.72  E-value=1.5  Score=41.77  Aligned_cols=122  Identities=16%  Similarity=0.106  Sum_probs=56.8

Q ss_pred             HHHHHHccCcHHHHHHHHHHhHHhcCCC--C--CHHHHHHHHHHHhHcCCHHHHHHHHHhC-------CCCCCHhHH---
Q 009066          279 LLLACNHAGLVDLGIQYFDSMVNDYGIA--A--KPDHYTCMVDLLGRAGKLVEAVDLIKKM-------PFKPQPAIF---  344 (545)
Q Consensus       279 ll~a~~~~g~~~~a~~~~~~~~~~~~~~--~--~~~~~~~li~~~~~~g~~~~A~~~~~~m-------~~~p~~~~~---  344 (545)
                      +-.|....+.++++.+.|+...+--.-.  |  ...+|..|...|.+..++++|.-+..+.       ++..-..-|   
T Consensus       128 ~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~  207 (518)
T KOG1941|consen  128 MGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLKYRAM  207 (518)
T ss_pred             HHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHHHHH
Confidence            3345555555666666665544321111  1  1234556666666666666555443322       221111112   


Q ss_pred             --HHHHHHHHhcCCHHHHHHHHHHHhcC--CCC----CCchhHHHHHHHHHHcCCchHHHHHHHH
Q 009066          345 --GTLLSACRVHKRLDLAEFAAMNLFNL--NPA----NAAGCYVQLANIYAAMKKWDDVARIRLS  401 (545)
Q Consensus       345 --~~li~~~~~~g~~~~A~~~~~~~~~~--~p~----~~~~~~~~l~~~~~~~g~~~~a~~~~~~  401 (545)
                        .-|..+++..|....|.+.-++..++  ...    ... ....++++|...|+.|.|.+-++.
T Consensus       208 ~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~ar-c~~~~aDIyR~~gd~e~af~rYe~  271 (518)
T KOG1941|consen  208 SLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQAR-CLLCFADIYRSRGDLERAFRRYEQ  271 (518)
T ss_pred             HHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHH-HHHHHHHHHHhcccHhHHHHHHHH
Confidence              22334555666666666555555332  111    111 333556666666666665555443

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.59  E-value=0.81  Score=42.91  Aligned_cols=116  Identities=13%  Similarity=0.067  Sum_probs=93.2

Q ss_pred             ccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CC-CCCHhHH----HHHHHHHHhcCCHH
Q 009066          285 HAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PF-KPQPAIF----GTLLSACRVHKRLD  358 (545)
Q Consensus       285 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~-~p~~~~~----~~li~~~~~~g~~~  358 (545)
                      ..|+.-+|...++++.++  .+.|...+.-.=+++.-.|+.+.-...++++ |. .||...|    ..+.-++...|-++
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--YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIYD  192 (491)
T ss_pred             ccccccHHHHHHHHHHHh--CchhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccch
Confidence            457778888888888884  4777777787888899999999888888888 33 5665333    33444566889999


Q ss_pred             HHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhh
Q 009066          359 LAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMK  403 (545)
Q Consensus       359 ~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  403 (545)
                      +|++..++.++++|.+.- +...+..++.-.|+..++.++...-.
T Consensus       193 dAEk~A~ralqiN~~D~W-a~Ha~aHVlem~~r~Keg~eFM~~te  236 (491)
T KOG2610|consen  193 DAEKQADRALQINRFDCW-ASHAKAHVLEMNGRHKEGKEFMYKTE  236 (491)
T ss_pred             hHHHHHHhhccCCCcchH-HHHHHHHHHHhcchhhhHHHHHHhcc
Confidence            999999999999999988 88899999999999999998876543

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=93.55  E-value=0.45  Score=43.44  Aligned_cols=102  Identities=11%  Similarity=0.060  Sum_probs=66.3

Q ss_pred             HHHHhhCC--CCCcccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccC------------
Q 009066          121 VELFKVAP--VKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLS------------  186 (545)
Q Consensus       121 ~~~f~~~~--~~~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~------------  186 (545)
                      ++.|...+  ++|-.+|-+++..+.....-..+..+-....++.|.+-|+.-|..+|..||+.+-+..            
T Consensus        54 e~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~  133 (406)
T KOG3941|consen   54 EKQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFL  133 (406)
T ss_pred             hhhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHh
Confidence            34455554  5566667777766633322334455555566777888888888888888887654422            


Q ss_pred             ----cHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCC
Q 009066          187 ----SLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGD  222 (545)
Q Consensus       187 ----~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~  222 (545)
                          +-+-+..++++|...|+-||..+-..|++++++.+-
T Consensus       134 HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  134 HYPQQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNF  173 (406)
T ss_pred             hCchhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhccccc
Confidence                223456777777777877777777777777776654

>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=93.53  E-value=2.4  Score=42.86  Aligned_cols=150  Identities=14%  Similarity=0.106  Sum_probs=82.8

Q ss_pred             CCHHHHHHHHh--cCC-CCCeehHHHHHHHHHhCCCHHHHHHHHhhCCcCCHhHHHHHHHHHHHcCChHHHHHHHhhCCC
Q 009066           53 DDVVAAFDFFQ--RLP-IKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAPV  129 (545)
Q Consensus        53 g~~~~A~~~~~--~m~-~~d~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~  129 (545)
                      ++++++.++..  .+. .-+..-.+.++.-+-+.|..+.|+++-..     +   ..-.+...++|+++.|.++-++.. 
T Consensus       275 ~d~~~v~~~i~~~~ll~~i~~~~~~~i~~fL~~~G~~e~AL~~~~D-----~---~~rFeLAl~lg~L~~A~~~a~~~~-  345 (443)
T PF04053_consen  275 GDFEEVLRMIAASNLLPNIPKDQGQSIARFLEKKGYPELALQFVTD-----P---DHRFELALQLGNLDIALEIAKELD-  345 (443)
T ss_dssp             T-HHH-----HHHHTGGG--HHHHHHHHHHHHHTT-HHHHHHHSS------H---HHHHHHHHHCT-HHHHHHHCCCCS-
T ss_pred             CChhhhhhhhhhhhhcccCChhHHHHHHHHHHHCCCHHHHHhhcCC-----h---HHHhHHHHhcCCHHHHHHHHHhcC-
Confidence            67777544443  111 01123366677777777777777776432     2   234556667788888777766654 


Q ss_pred             CCcccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCccc
Q 009066          130 KSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTA  209 (545)
Q Consensus       130 ~~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~  209 (545)
                       +...|..|....     ..+|+.+-|.+.|.+..         -|..++-.|...|+.+.-.++-......|      -
T Consensus       346 -~~~~W~~Lg~~A-----L~~g~~~lAe~c~~k~~---------d~~~L~lLy~~~g~~~~L~kl~~~a~~~~------~  404 (443)
T PF04053_consen  346 -DPEKWKQLGDEA-----LRQGNIELAEECYQKAK---------DFSGLLLLYSSTGDREKLSKLAKIAEERG------D  404 (443)
T ss_dssp             -THHHHHHHHHHH-----HHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHTT-------
T ss_pred             -cHHHHHHHHHHH-----HHcCCHHHHHHHHHhhc---------CccccHHHHHHhCCHHHHHHHHHHHHHcc------C
Confidence             455777777777     77777777777776543         23444445566666666666666666555      2


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHh
Q 009066          210 LTPLISMYCKCGDLEDACKLFLE  232 (545)
Q Consensus       210 ~~~li~~y~~~g~~~~A~~~f~~  232 (545)
                      ++....++...|++++..+++.+
T Consensus       405 ~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  405 INIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHH
Confidence            34444445555666666555543

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.

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=93.50  E-value=6.5  Score=36.64  Aligned_cols=164  Identities=14%  Similarity=0.088  Sum_probs=81.6

Q ss_pred             HHHHHHhccCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCC
Q 009066          226 ACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGI  305 (545)
Q Consensus       226 A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~  305 (545)
                      ..+++++...+....--.........|++.+|..+|......... +......+..++...|+.+.|..++..+-.+  .
T Consensus       122 lr~~ld~~~~~~~e~~~~~~~~~~~~e~~~~a~~~~~~al~~~~~-~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~--~  198 (304)
T COG3118         122 LRQFLDKVLPAEEEEALAEAKELIEAEDFGEAAPLLKQALQAAPE-NSEAKLLLAECLLAAGDVEAAQAILAALPLQ--A  198 (304)
T ss_pred             HHHHHHHhcChHHHHHHHHhhhhhhccchhhHHHHHHHHHHhCcc-cchHHHHHHHHHHHcCChHHHHHHHHhCccc--c
Confidence            344444444332222222333455667777777777776664322 2334445566667777777777777655331  1


Q ss_pred             CCC-HHHHHHHHHHHhHcCCHHHHHHHHHhCCCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCC--CCCCchhHHH
Q 009066          306 AAK-PDHYTCMVDLLGRAGKLVEAVDLIKKMPFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLN--PANAAGCYVQ  381 (545)
Q Consensus       306 ~~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~--p~~~~~~~~~  381 (545)
                      ..+ .....+-+..+.+.....+...+-.+..-.| |...-..+...+...|+.+.|...+-.+++.+  -++.. .-..
T Consensus       199 ~~~~~~~l~a~i~ll~qaa~~~~~~~l~~~~aadPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~-~Rk~  277 (304)
T COG3118         199 QDKAAHGLQAQIELLEQAAATPEIQDLQRRLAADPDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGE-ARKT  277 (304)
T ss_pred             hhhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcH-HHHH
Confidence            111 1111223344444444444444444432234 44455556666666677777666655554432  23333 5556


Q ss_pred             HHHHHHHcCCch
Q 009066          382 LANIYAAMKKWD  393 (545)
Q Consensus       382 l~~~~~~~g~~~  393 (545)
                      |+..+.-.|.-+
T Consensus       278 lle~f~~~g~~D  289 (304)
T COG3118         278 LLELFEAFGPAD  289 (304)
T ss_pred             HHHHHHhcCCCC
Confidence            666665555433

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=93.48  E-value=3.9  Score=37.34  Aligned_cols=236  Identities=16%  Similarity=0.210  Sum_probs=138.1

Q ss_pred             CChHHHHHHHhhCCC----CC---cccHHHHHHHhcchhhhccCChHHHHHHHHHHHhC---CC--CCCHHHHHHHHHHH
Q 009066          115 GQLDKAVELFKVAPV----KS---VVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGL---GI--RPNASSLSSVLLGC  182 (545)
Q Consensus       115 g~~~~A~~~f~~~~~----~~---~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~---~~--~pd~~t~~~ll~~~  182 (545)
                      ..+++|+.-|++..+    +.   -.+...||..+     .+.+++++.++.+++|+.-   .+  .-+....++++..-
T Consensus        41 ~~p~~Al~sF~kVlelEgEKgeWGFKALKQmiKI~-----f~l~~~~eMm~~Y~qlLTYIkSAVTrNySEKsIN~IlDyi  115 (440)
T KOG1464|consen   41 DEPKEALSSFQKVLELEGEKGEWGFKALKQMIKIN-----FRLGNYKEMMERYKQLLTYIKSAVTRNYSEKSINSILDYI  115 (440)
T ss_pred             cCHHHHHHHHHHHHhcccccchhHHHHHHHHHHHH-----hccccHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHH
Confidence            456666666655431    11   12344567777     7788888888888777531   11  22445677788777


Q ss_pred             hccCcHHHHHHHHHHHHhC-----CCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccCC---------------ChhhHH
Q 009066          183 SHLSSLQLGKQVHQLVFKS-----PLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRK---------------DVVTWN  242 (545)
Q Consensus       183 ~~~~~~~~a~~~~~~~~~~-----g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~---------------~~~~~~  242 (545)
                      +...+.+.-.++|+.-++.     +-..=-.+-+.|...|...|++.+-.+++.++.+.               -...|.
T Consensus       116 StS~~m~LLQ~FYeTTL~ALkdAKNeRLWFKTNtKLgkl~fd~~e~~kl~KIlkqLh~SCq~edGedD~kKGtQLLEiYA  195 (440)
T KOG1464|consen  116 STSKNMDLLQEFYETTLDALKDAKNERLWFKTNTKLGKLYFDRGEYTKLQKILKQLHQSCQTEDGEDDQKKGTQLLEIYA  195 (440)
T ss_pred             hhhhhhHHHHHHHHHHHHHHHhhhcceeeeeccchHhhhheeHHHHHHHHHHHHHHHHHhccccCchhhhccchhhhhHh
Confidence            7777777766666654331     10111123356888888888888888888877531               134677


Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHH-----ccCcHHHHHHHHHHhHHhcCCCCCH-----HH
Q 009066          243 AMISGYAQHGKGEKALRLFDKMKDE-GMKPDSITFVALLLACN-----HAGLVDLGIQYFDSMVNDYGIAAKP-----DH  311 (545)
Q Consensus       243 ~li~~~~~~g~~~~A~~~~~~m~~~-g~~p~~~t~~~ll~a~~-----~~g~~~~a~~~~~~~~~~~~~~~~~-----~~  311 (545)
                      .=|..|..+.+-.+...+|++.+.. .--|.... ..+++-|.     +.|.+++|..-|-+..+.|.-..++     --
T Consensus       196 lEIQmYT~qKnNKkLK~lYeqalhiKSAIPHPlI-mGvIRECGGKMHlreg~fe~AhTDFFEAFKNYDEsGspRRttCLK  274 (440)
T KOG1464|consen  196 LEIQMYTEQKNNKKLKALYEQALHIKSAIPHPLI-MGVIRECGGKMHLREGEFEKAHTDFFEAFKNYDESGSPRRTTCLK  274 (440)
T ss_pred             hHhhhhhhhcccHHHHHHHHHHHHhhccCCchHH-HhHHHHcCCccccccchHHHHHhHHHHHHhcccccCCcchhHHHH
Confidence            7788888888888888888877652 23344433 34555554     5678887765544444544322222     23


Q ss_pred             HHHHHHHHhHcCC----HHHHHHHHHhCCCC--CCHhHHHHHHHHHHhcCCHHHHHHH
Q 009066          312 YTCMVDLLGRAGK----LVEAVDLIKKMPFK--PQPAIFGTLLSACRVHKRLDLAEFA  363 (545)
Q Consensus       312 ~~~li~~~~~~g~----~~~A~~~~~~m~~~--p~~~~~~~li~~~~~~g~~~~A~~~  363 (545)
                      |-.|..++.+.|-    -.+|.      |.+  |.....+.|+.+|..+ +..+-+++
T Consensus       275 YLVLANMLmkS~iNPFDsQEAK------PyKNdPEIlAMTnlv~aYQ~N-dI~eFE~I  325 (440)
T KOG1464|consen  275 YLVLANMLMKSGINPFDSQEAK------PYKNDPEILAMTNLVAAYQNN-DIIEFERI  325 (440)
T ss_pred             HHHHHHHHHHcCCCCCcccccC------CCCCCHHHHHHHHHHHHHhcc-cHHHHHHH
Confidence            5566777777662    11111      333  4446677788887654 34433333

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=93.39  E-value=8.4  Score=38.65  Aligned_cols=98  Identities=14%  Similarity=0.174  Sum_probs=64.1

Q ss_pred             HHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhCC-C-CCCH--hHHHHHHHHHHh
Q 009066          278 ALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMP-F-KPQP--AIFGTLLSACRV  353 (545)
Q Consensus       278 ~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~-~p~~--~~~~~li~~~~~  353 (545)
                      .+..++-+.|+.++|.+.+.++.+.+...........|+..|...+.+.++..++.+-. + -|..  ..|+..+-.++.
T Consensus       264 RLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~YTaALLkaRa  343 (539)
T PF04184_consen  264 RLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATICYTAALLKARA  343 (539)
T ss_pred             HHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHHHHHHHHHHHh
Confidence            45556668899999999999988754332345567788999999999999998888762 1 1333  345554433332


Q ss_pred             cCC---------------HHHHHHHHHHHhcCCCCCC
Q 009066          354 HKR---------------LDLAEFAAMNLFNLNPANA  375 (545)
Q Consensus       354 ~g~---------------~~~A~~~~~~~~~~~p~~~  375 (545)
                      .++               -..|.++..++.+.+|.-+
T Consensus       344 v~d~fs~e~a~rRGls~ae~~aveAi~RAvefNPHVp  380 (539)
T PF04184_consen  344 VGDKFSPEAASRRGLSPAEMNAVEAIHRAVEFNPHVP  380 (539)
T ss_pred             hccccCchhhhhcCCChhHHHHHHHHHHHHHhCCCCc
Confidence            332               1235577778877777654

The molecular function of this protein is uncertain.

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=93.24  E-value=0.64  Score=37.24  Aligned_cols=87  Identities=18%  Similarity=0.093  Sum_probs=47.5

Q ss_pred             HHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC----CCCCCH---hHHHHHHHHHHhcC
Q 009066          283 CNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM----PFKPQP---AIFGTLLSACRVHK  355 (545)
Q Consensus       283 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~p~~---~~~~~li~~~~~~g  355 (545)
                      .+..|+++.|++.|.+...  -.+..+..||.-..+|.-.|+.++|++=+++.    +-+ ..   ..|-.-...|...|
T Consensus        53 laE~g~Ld~AlE~F~qal~--l~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~-trtacqa~vQRg~lyRl~g  129 (175)
T KOG4555|consen   53 LAEAGDLDGALELFGQALC--LAPERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQ-TRTACQAFVQRGLLYRLLG  129 (175)
T ss_pred             HHhccchHHHHHHHHHHHH--hcccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHHHHhC
Confidence            4455666666666665553  23344566666666666666666666655544    111 11   12222233466667


Q ss_pred             CHHHHHHHHHHHhcCCC
Q 009066          356 RLDLAEFAAMNLFNLNP  372 (545)
Q Consensus       356 ~~~~A~~~~~~~~~~~p  372 (545)
                      +.+.|..-|+.+-+++.
T Consensus       130 ~dd~AR~DFe~AA~LGS  146 (175)
T KOG4555|consen  130 NDDAARADFEAAAQLGS  146 (175)
T ss_pred             chHHHHHhHHHHHHhCC
Confidence            77777777766655543

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=93.05  E-value=0.99  Score=41.35  Aligned_cols=91  Identities=18%  Similarity=0.218  Sum_probs=47.4

Q ss_pred             ccCcHHHHHHHHHHhHHhcCC-CCCHHHHHHHHHHHhHcCCHHHHHHHHHhC----CCCCC-HhHHHHHHHHHHhcCCHH
Q 009066          285 HAGLVDLGIQYFDSMVNDYGI-AAKPDHYTCMVDLLGRAGKLVEAVDLIKKM----PFKPQ-PAIFGTLLSACRVHKRLD  358 (545)
Q Consensus       285 ~~g~~~~a~~~~~~~~~~~~~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~p~-~~~~~~li~~~~~~g~~~  358 (545)
                      ..|++..|...|...++.|.- .-.+..+--|...+...|++++|..+|..+    |-.|- +...--|.......|+.+
T Consensus       153 ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~~d  232 (262)
T COG1729         153 KSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGNTD  232 (262)
T ss_pred             HcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcCHH
Confidence            344556666666555553210 011233344566666666666666655554    22221 234444555556666666


Q ss_pred             HHHHHHHHHhcCCCCCC
Q 009066          359 LAEFAAMNLFNLNPANA  375 (545)
Q Consensus       359 ~A~~~~~~~~~~~p~~~  375 (545)
                      +|...++++.+.-|+.+
T Consensus       233 ~A~atl~qv~k~YP~t~  249 (262)
T COG1729         233 EACATLQQVIKRYPGTD  249 (262)
T ss_pred             HHHHHHHHHHHHCCCCH
Confidence            66666666666666654

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=92.78  E-value=9.2  Score=39.20  Aligned_cols=174  Identities=16%  Similarity=0.198  Sum_probs=107.9

Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCc------ccHHHHHHHHHh----cCCHHHH
Q 009066          157 LKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDT------TALTPLISMYCK----CGDLEDA  226 (545)
Q Consensus       157 ~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~------~~~~~li~~y~~----~g~~~~A  226 (545)
                      ..+|.-+... +||   .+..++....=.|+-+.+.+.+....+.+--..+      -.|...+..++.    ....+.|
T Consensus       177 ~G~f~L~lSl-LPp---~~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a  252 (468)
T PF10300_consen  177 FGLFNLVLSL-LPP---KVLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEA  252 (468)
T ss_pred             HHHHHHHHHh-CCH---HHHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHH
Confidence            4455555543 344   3445566666678888888888877664311111      122222222222    4568889


Q ss_pred             HHHHHhccC--CChhhHHHHH-HHHHHcCChHHHHHHHHHHHHcC---CCCCHHHHHHHHHHHHccCcHHHHHHHHHHhH
Q 009066          227 CKLFLEIQR--KDVVTWNAMI-SGYAQHGKGEKALRLFDKMKDEG---MKPDSITFVALLLACNHAGLVDLGIQYFDSMV  300 (545)
Q Consensus       227 ~~~f~~~~~--~~~~~~~~li-~~~~~~g~~~~A~~~~~~m~~~g---~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~  300 (545)
                      .++++.+.+  |+...|.-.- ..+...|+.++|++.|++.....   .+.....+--+.-.+....++++|.+.|..+.
T Consensus       253 ~~lL~~~~~~yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~  332 (468)
T PF10300_consen  253 EELLEEMLKRYPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLL  332 (468)
T ss_pred             HHHHHHHHHhCCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHH
Confidence            999998886  6766665543 34566889999999998765311   12233445556666777889999999999988


Q ss_pred             HhcCCCCCHHHHHHH-HHHHhHcCCH-------HHHHHHHHhCC
Q 009066          301 NDYGIAAKPDHYTCM-VDLLGRAGKL-------VEAVDLIKKMP  336 (545)
Q Consensus       301 ~~~~~~~~~~~~~~l-i~~~~~~g~~-------~~A~~~~~~m~  336 (545)
                      +....  +...|.-+ ..+|...|+.       ++|.++|.+.|
T Consensus       333 ~~s~W--Ska~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp  374 (468)
T PF10300_consen  333 KESKW--SKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVP  374 (468)
T ss_pred             hcccc--HHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHH
Confidence            75333  34444433 3345566766       88999998873

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.

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=92.71  E-value=1.7  Score=36.87  Aligned_cols=123  Identities=11%  Similarity=0.000  Sum_probs=53.3

Q ss_pred             HHcCChHHHHHHHhhCCCCCcccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHH-HHHHHHH--HHhccCcH
Q 009066          112 IECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNAS-SLSSVLL--GCSHLSSL  188 (545)
Q Consensus       112 ~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~-t~~~ll~--~~~~~~~~  188 (545)
                      +..+..++|+.-|..+...+--.|-.|...-.-.-..+.|+...|...|.+.-.....|-.. -..-+=.  .+...|.+
T Consensus        69 A~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlraa~lLvD~gsy  148 (221)
T COG4649          69 AQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRAAYLLVDNGSY  148 (221)
T ss_pred             HHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHHHHHHhccccH
Confidence            34555666666666655544444443332111111155666666666666665443333222 1111111  12334444


Q ss_pred             HHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhcc
Q 009066          189 QLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQ  234 (545)
Q Consensus       189 ~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~  234 (545)
                      +....-.+.+-..+-+.-...-.+|.-+-.|.|++.+|.+.|..+.
T Consensus       149 ~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia  194 (221)
T COG4649         149 DDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIA  194 (221)
T ss_pred             HHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHH
Confidence            4444443333333322223333444444444555555555554443

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=92.64  E-value=9.3  Score=36.10  Aligned_cols=16  Identities=19%  Similarity=-0.313  Sum_probs=9.8

Q ss_pred             HHhcCCHHHHHHHHHH
Q 009066          351 CRVHKRLDLAEFAAMN  366 (545)
Q Consensus       351 ~~~~g~~~~A~~~~~~  366 (545)
                      +.+.++++.|...|+-
T Consensus       256 ~~~~k~y~~A~~w~~~  271 (278)
T PF08631_consen  256 HYKAKNYDEAIEWYEL  271 (278)
T ss_pred             HHhhcCHHHHHHHHHH
Confidence            4456667776666653

It is also involved in sporulation [].

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=92.25  E-value=0.46  Score=41.13  Aligned_cols=87  Identities=16%  Similarity=0.183  Sum_probs=67.6

Q ss_pred             HHhHcCCHHHHHHHHHhC--CCCC-----CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcC
Q 009066          318 LLGRAGKLVEAVDLIKKM--PFKP-----QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMK  390 (545)
Q Consensus       318 ~~~~~g~~~~A~~~~~~m--~~~p-----~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g  390 (545)
                      -+.+.|++++|..-|...  .+.+     -...|..-..++.+.+.++.|+.-..++++++|.... +...-+.+|.+..
T Consensus       104 ~~F~ngdyeeA~skY~~Ale~cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pty~k-Al~RRAeayek~e  182 (271)
T KOG4234|consen  104 ELFKNGDYEEANSKYQEALESCPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPTYEK-ALERRAEAYEKME  182 (271)
T ss_pred             HhhhcccHHHHHHHHHHHHHhCccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCchhHH-HHHHHHHHHHhhh
Confidence            455678888887777655  1111     2234555566778899999999999999999998877 7778888999999


Q ss_pred             CchHHHHHHHHhhhC
Q 009066          391 KWDDVARIRLSMKEN  405 (545)
Q Consensus       391 ~~~~a~~~~~~m~~~  405 (545)
                      ++++|+.=++.+.+.
T Consensus       183 k~eealeDyKki~E~  197 (271)
T KOG4234|consen  183 KYEEALEDYKKILES  197 (271)
T ss_pred             hHHHHHHHHHHHHHh
Confidence            999999999998774

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=91.71  E-value=10  Score=34.61  Aligned_cols=168  Identities=15%  Similarity=0.157  Sum_probs=97.1

Q ss_pred             HHhcCCHHHHHHHHHhccCCC------hhhHHHHHHHHHHcCChHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHH---cc
Q 009066          217 YCKCGDLEDACKLFLEIQRKD------VVTWNAMISGYAQHGKGEKALRLFDKMKDE-GMKPDSITFVALLLACN---HA  286 (545)
Q Consensus       217 y~~~g~~~~A~~~f~~~~~~~------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-g~~p~~~t~~~ll~a~~---~~  286 (545)
                      -.+.|++++|.+.|+.+..+.      ..+--.++-++-+.+++++|+..+++.... +-.||. -|..-|.+.+   ..
T Consensus        44 ~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~-dY~~YlkgLs~~~~i  122 (254)
T COG4105          44 ELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNA-DYAYYLKGLSYFFQI  122 (254)
T ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCCh-hHHHHHHHHHHhccC
Confidence            345788888888888887532      234445566777888888888888887764 333433 3333333332   11


Q ss_pred             ----Cc---HHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhCCCCCCHhH-H-HHHHHHHHhcCCH
Q 009066          287 ----GL---VDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAI-F-GTLLSACRVHKRL  357 (545)
Q Consensus       287 ----g~---~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~-~-~~li~~~~~~g~~  357 (545)
                          .+   ..+|..-|+.++.++  +.+..+              ..|..-+..+   .|... + ..+..-|.+.|.+
T Consensus       123 ~~~~rDq~~~~~A~~~f~~~i~ry--PnS~Ya--------------~dA~~~i~~~---~d~LA~~Em~IaryY~kr~~~  183 (254)
T COG4105         123 DDVTRDQSAARAAFAAFKELVQRY--PNSRYA--------------PDAKARIVKL---NDALAGHEMAIARYYLKRGAY  183 (254)
T ss_pred             CccccCHHHHHHHHHHHHHHHHHC--CCCcch--------------hhHHHHHHHH---HHHHHHHHHHHHHHHHHhcCh
Confidence                12   233444444444432  111111              1111111111   01111 1 2345668899999


Q ss_pred             HHHHHHHHHHhcCCCCCCc--hhHHHHHHHHHHcCCchHHHHHHHHhhh
Q 009066          358 DLAEFAAMNLFNLNPANAA--GCYVQLANIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       358 ~~A~~~~~~~~~~~p~~~~--~~~~~l~~~~~~~g~~~~a~~~~~~m~~  404 (545)
                      ..|..-++.+++.-|+.+.  .++..|..+|...|..++|.+.-+-+..
T Consensus       184 ~AA~nR~~~v~e~y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~  232 (254)
T COG4105         184 VAAINRFEEVLENYPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGA  232 (254)
T ss_pred             HHHHHHHHHHHhccccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHh
Confidence            9999999999887665433  1566778889999999999887766544

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=91.45  E-value=12  Score=34.91  Aligned_cols=136  Identities=12%  Similarity=0.103  Sum_probs=79.5

Q ss_pred             HHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccCCC----hhhHHHHHHHHHHcCChHH
Q 009066          181 GCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKD----VVTWNAMISGYAQHGKGEK  256 (545)
Q Consensus       181 ~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~----~~~~~~li~~~~~~g~~~~  256 (545)
                      .....+++..+..++....... +.+....-.|...|...|+.+.|..++..++...    .....+-|..+.+.....+
T Consensus       143 ~~~~~e~~~~a~~~~~~al~~~-~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~~  221 (304)
T COG3118         143 ELIEAEDFGEAAPLLKQALQAA-PENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATPE  221 (304)
T ss_pred             hhhhccchhhHHHHHHHHHHhC-cccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCCC
Confidence            4567788889999888888765 2335566678889999999999999999887532    1122223444444444444


Q ss_pred             HHHHHHHHHHcCCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHh
Q 009066          257 ALRLFDKMKDEGMKP-DSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLG  320 (545)
Q Consensus       257 A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~  320 (545)
                      ...+-++.-.   .| |...-..+...+...|+.++|.+.+-.+.++..---|...-..|++.+.
T Consensus       222 ~~~l~~~~aa---dPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~lle~f~  283 (304)
T COG3118         222 IQDLQRRLAA---DPDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKTLLELFE  283 (304)
T ss_pred             HHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHHHHHHHH
Confidence            4444444432   34 3444445556666777777776665555443222223333344444333

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=91.41  E-value=5.1  Score=38.28  Aligned_cols=56  Identities=16%  Similarity=0.045  Sum_probs=34.2

Q ss_pred             HHHHHHHhccCcHHHHHHHHHHHHhCCC-----CCCcccHHHHHHHHHhcCCHHHHHHHHH
Q 009066          176 SSVLLGCSHLSSLQLGKQVHQLVFKSPL-----CKDTTALTPLISMYCKCGDLEDACKLFL  231 (545)
Q Consensus       176 ~~ll~~~~~~~~~~~a~~~~~~~~~~g~-----~~~~~~~~~li~~y~~~g~~~~A~~~f~  231 (545)
                      .++..++...+.++++.+.|+.+.+.-.     -....++-+|...|.+..|+++|.-+..
T Consensus       126 l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~~Kal~f~~  186 (518)
T KOG1941|consen  126 LSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDYEKALFFPC  186 (518)
T ss_pred             hhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhhhHHhhhhH
Confidence            3455666667777777777776655311     1134566677777777777777655443

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=91.27  E-value=0.43  Score=30.37  Aligned_cols=25  Identities=20%  Similarity=0.329  Sum_probs=13.8

Q ss_pred             HHHHHHHHHhHcCCHHHHHHHHHhC
Q 009066          311 HYTCMVDLLGRAGKLVEAVDLIKKM  335 (545)
Q Consensus       311 ~~~~li~~~~~~g~~~~A~~~~~~m  335 (545)
                      ++..+...|.+.|++++|.++|++.
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~   27 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRA   27 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3445555555555555555555555

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.10  E-value=15  Score=39.18  Aligned_cols=47  Identities=11%  Similarity=0.130  Sum_probs=19.9

Q ss_pred             HHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHH
Q 009066          248 YAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQY  295 (545)
Q Consensus       248 ~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~  295 (545)
                      |....+..+-..+++.+.+.|+. +...-..|+.+|.+.++.+.-.++
T Consensus       407 fLdaq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~ef  453 (933)
T KOG2114|consen  407 FLDAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEF  453 (933)
T ss_pred             hcCHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHH
Confidence            33333444444444444444433 222223344455555554444433

>PRK09687 putative lyase; Provisional

Probab=91.00  E-value=14  Score=34.85  Aligned_cols=26  Identities=8%  Similarity=-0.188  Sum_probs=12.9

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHhcCCC
Q 009066          346 TLLSACRVHKRLDLAEFAAMNLFNLNP  372 (545)
Q Consensus       346 ~li~~~~~~g~~~~A~~~~~~~~~~~p  372 (545)
                      ..+.++...|+. +|...+.++.+.+|
T Consensus       240 ~a~~ALg~ig~~-~a~p~L~~l~~~~~  265 (280)
T PRK09687        240 LIIEAAGELGDK-TLLPVLDTLLYKFD  265 (280)
T ss_pred             HHHHHHHhcCCH-hHHHHHHHHHhhCC
Confidence            344445555553 45555555555444

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=90.85  E-value=8.8  Score=36.51  Aligned_cols=127  Identities=13%  Similarity=0.209  Sum_probs=65.1

Q ss_pred             HHHHHHHHHHHhCCCCCCcccHHHHHHHHHh--c----CCHHHHHHHHHhccCC-------ChhhHHHHHHHHHHcCC--
Q 009066          189 QLGKQVHQLVFKSPLCKDTTALTPLISMYCK--C----GDLEDACKLFLEIQRK-------DVVTWNAMISGYAQHGK--  253 (545)
Q Consensus       189 ~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~--~----g~~~~A~~~f~~~~~~-------~~~~~~~li~~~~~~g~--  253 (545)
                      ++...+++.+.+.|+..+..++-+..-....  .    -....|..+|+.|.+.       +-..+..|+..  ..++  
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            3444555555555555555444432222222  1    1244566666666542       33344444433  2222  


Q ss_pred             --hHHHHHHHHHHHHcCCCCCHH--HHHHHHHHHHccCc--HHHHHHHHHHhHHhcCCCCCHHHHHHHHHH
Q 009066          254 --GEKALRLFDKMKDEGMKPDSI--TFVALLLACNHAGL--VDLGIQYFDSMVNDYGIAAKPDHYTCMVDL  318 (545)
Q Consensus       254 --~~~A~~~~~~m~~~g~~p~~~--t~~~ll~a~~~~g~--~~~a~~~~~~~~~~~~~~~~~~~~~~li~~  318 (545)
                        .+.+..+|+.+.+.|...+..  ....++..+.....  +..+.++++.+.+. ++++...+|..+.-+
T Consensus       157 ~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~-~~kik~~~yp~lGlL  226 (297)
T PF13170_consen  157 ELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKN-GVKIKYMHYPTLGLL  226 (297)
T ss_pred             HHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHc-CCccccccccHHHHH
Confidence              345667777777767655433  33334433332222  34667777777665 888877777655443

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=90.82  E-value=18  Score=35.84  Aligned_cols=40  Identities=5%  Similarity=0.052  Sum_probs=26.9

Q ss_pred             CccHHHHHHHHHHhCCCChHHHHHHHccCCC--------CChhhHHHHH
Q 009066            5 TTVNWNSVLAGFAKQRGKLKDAQELFDKIPQ--------PDVVSYNIML   45 (545)
Q Consensus         5 ~~~~~~~li~~~~~~g~~~~~A~~~f~~~~~--------~~~~~~~~li   45 (545)
                      |-+.-+..+....+.|+ +.+++.++++|.+        -++.+||-++
T Consensus       127 df~l~~i~a~sLIe~g~-f~EgR~iLn~i~~~llkrE~~w~~d~yd~~v  174 (549)
T PF07079_consen  127 DFFLDEIEAHSLIETGR-FSEGRAILNRIIERLLKRECEWNSDMYDRAV  174 (549)
T ss_pred             HHHHHHHHHHHHHhcCC-cchHHHHHHHHHHHHhhhhhcccHHHHHHHH
Confidence            33445666777777888 8888888877752        4566666643

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=90.77  E-value=26  Score=37.46  Aligned_cols=189  Identities=14%  Similarity=0.148  Sum_probs=101.9

Q ss_pred             CCCccHHHHHHHHHHhCCCChHHHHHHHccCCCCChhhHHHHHHHHHcCCCCHHHHHHHHhcCC---CCCee------hH
Q 009066            3 VKTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQRLP---IKDTA------SW   73 (545)
Q Consensus         3 ~~~~~~~~~li~~~~~~g~~~~~A~~~f~~~~~~~~~~~~~li~~~~~~~g~~~~A~~~~~~m~---~~d~~------~~   73 (545)
                      +.++.-|..||.+-.+|   ++-+.+-+.--|+.+..+.--+...+.....+++.|...+++..   +++..      .-
T Consensus        27 ~~~l~~Y~kLI~~ai~C---L~~~~~~~~l~p~~ea~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~~~~~~~d~k~~~~  103 (608)
T PF10345_consen   27 EEQLKQYYKLIATAIKC---LEAVLKQFKLSPRQEARVRLRLASILLEETENLDLAETYLEKAILLCERHRLTDLKFRCQ  103 (608)
T ss_pred             hhhHHHHHHHHHHHHHH---HHHHhccCCCCHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHHHHHHHH
Confidence            34556677777777776   55444422222233455666666777766688999998888764   22211      12


Q ss_pred             HHHHHHHHhCCCHHHHHHHHhhCCcC------CH--hHHHHH-HHHHHHcCChHHHHHHHhhCCC-----CC--cccHHH
Q 009066           74 NTMISGFVQKKNMAKARDLFLAMPEK------NS--VSWSAM-ISGYIECGQLDKAVELFKVAPV-----KS--VVAWTA  137 (545)
Q Consensus        74 ~~li~~~~~~g~~~~a~~~~~~~~~~------~~--~~~~~l-i~~~~~~g~~~~A~~~f~~~~~-----~~--~~~~~~  137 (545)
                      ..++..+.+.+... |+...++.++.      +.  ..+.-+ +..+...++...|.+.++.+..     .|  +...-.
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            23455565555554 77777765521      11  122222 2233334788888888876541     12  223333


Q ss_pred             HHHHhcchhhhccCChHHHHHHHHHHHhCC---------CCCCHHHHHHHHHHHh--ccCcHHHHHHHHHHH
Q 009066          138 MISGYMKFGYVENSWAEDGLKLLRMMIGLG---------IRPNASSLSSVLLGCS--HLSSLQLGKQVHQLV  198 (545)
Q Consensus       138 li~~~~~~g~~~~g~~~~A~~~~~~m~~~~---------~~pd~~t~~~ll~~~~--~~~~~~~a~~~~~~~  198 (545)
                      ++.+...   ...+.++++++.++++....         -.|--.+|..++..++  ..|+++.+.+..+.+
T Consensus       183 l~~~~l~---l~~~~~~d~~~~l~~~~~~~~~~q~~~~~~~~qL~~~~lll~l~~~l~~~~~~~~~~~L~~l  251 (608)
T PF10345_consen  183 LSEALLH---LRRGSPDDVLELLQRAIAQARSLQLDPSVHIPQLKALFLLLDLCCSLQQGDVKNSKQKLKQL  251 (608)
T ss_pred             HHHHHHH---hcCCCchhHHHHHHHHHHHHhhcccCCCCCcHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3333321   44566677777777663321         1234456666666654  456666666655544

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 [].

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=90.59  E-value=1.3  Score=41.28  Aligned_cols=61  Identities=20%  Similarity=0.228  Sum_probs=47.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhh
Q 009066          343 IFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       343 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  404 (545)
                      ++..++..+...|+.+.+...+++++..+|-+.. .|..|+.+|...|+...|...++.+.+
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~-~~~~lm~~y~~~g~~~~ai~~y~~l~~  215 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIELDPYDEP-AYLRLMEAYLVNGRQSAAIRAYRQLKK  215 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcCccchH-HHHHHHHHHHHcCCchHHHHHHHHHHH
Confidence            4555666777777788888888888888887776 788888888888888888888877765

>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=90.53  E-value=0.35  Score=28.55  Aligned_cols=31  Identities=16%  Similarity=0.019  Sum_probs=22.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhcCCCC
Q 009066          343 IFGTLLSACRVHKRLDLAEFAAMNLFNLNPA  373 (545)
Q Consensus       343 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~  373 (545)
                      +|..+...|...|++++|...|++.++++|+
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~~~~~   33 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKALELNPD   33 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            4666667777777777777777777777663

...

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=90.46  E-value=2.1  Score=39.93  Aligned_cols=75  Identities=19%  Similarity=0.310  Sum_probs=60.0

Q ss_pred             ccHHHHHHHHHhcCCHHHHHHHHHhccCC---ChhhHHHHHHHHHHcCChHHHHHHHHHHHH-----cCCCCCHHHHHHH
Q 009066          208 TALTPLISMYCKCGDLEDACKLFLEIQRK---DVVTWNAMISGYAQHGKGEKALRLFDKMKD-----EGMKPDSITFVAL  279 (545)
Q Consensus       208 ~~~~~li~~y~~~g~~~~A~~~f~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~g~~p~~~t~~~l  279 (545)
                      .++..++..+..+|+.+.+...++++...   |...|..++.+|.+.|+...|+..|+++..     .|+.|-..+....
T Consensus       154 ~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~y  233 (280)
T COG3629         154 KALTKLAEALIACGRADAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRALY  233 (280)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHHH
Confidence            35667888899999999999999888753   667899999999999999999999998765     4677776665555


Q ss_pred             HHH
Q 009066          280 LLA  282 (545)
Q Consensus       280 l~a  282 (545)
                      ..+
T Consensus       234 ~~~  236 (280)
T COG3629         234 EEI  236 (280)
T ss_pred             HHH
Confidence            444

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=90.26  E-value=13  Score=33.08  Aligned_cols=162  Identities=15%  Similarity=0.080  Sum_probs=76.2

Q ss_pred             hhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHH
Q 009066          239 VTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDL  318 (545)
Q Consensus       239 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~  318 (545)
                      ..||-+.--+...|+++.|.+.|+...+....-+-...|. .-++.-.|++..|.+-+...-+.-.-.|-...|--++. 
T Consensus       100 ~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNR-gi~~YY~gR~~LAq~d~~~fYQ~D~~DPfR~LWLYl~E-  177 (297)
T COG4785         100 EVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNR-GIALYYGGRYKLAQDDLLAFYQDDPNDPFRSLWLYLNE-  177 (297)
T ss_pred             HHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhcc-ceeeeecCchHhhHHHHHHHHhcCCCChHHHHHHHHHH-
Confidence            4566666666666666666666666665432211111111 11233446666665555444332111111122222211 


Q ss_pred             HhHcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCC-------CchhHHHHHHHHHHcCC
Q 009066          319 LGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPAN-------AAGCYVQLANIYAAMKK  391 (545)
Q Consensus       319 ~~~~g~~~~A~~~~~~m~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~-------~~~~~~~l~~~~~~~g~  391 (545)
                        +.-+..+|..-+.+--..-|..-|..-|..+---.=.+  +.+++++..-..++       +. +|.-|+.-|...|+
T Consensus       178 --~k~dP~~A~tnL~qR~~~~d~e~WG~~iV~~yLgkiS~--e~l~~~~~a~a~~n~~~Ae~LTE-tyFYL~K~~l~~G~  252 (297)
T COG4785         178 --QKLDPKQAKTNLKQRAEKSDKEQWGWNIVEFYLGKISE--ETLMERLKADATDNTSLAEHLTE-TYFYLGKYYLSLGD  252 (297)
T ss_pred             --hhCCHHHHHHHHHHHHHhccHhhhhHHHHHHHHhhccH--HHHHHHHHhhccchHHHHHHHHH-HHHHHHHHHhcccc
Confidence              22344444433222111234444554444332211111  11222222111111       23 88999999999999


Q ss_pred             chHHHHHHHHhhhCCC
Q 009066          392 WDDVARIRLSMKENNV  407 (545)
Q Consensus       392 ~~~a~~~~~~m~~~~~  407 (545)
                      .++|..+|+.....++
T Consensus       253 ~~~A~~LfKLaiannV  268 (297)
T COG4785         253 LDEATALFKLAVANNV  268 (297)
T ss_pred             HHHHHHHHHHHHHHhH
Confidence            9999999998776543

>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=90.24  E-value=4.6  Score=35.10  Aligned_cols=58  Identities=26%  Similarity=0.323  Sum_probs=39.4

Q ss_pred             cHHHHHHHHHhcCCHHHHHHHHHhccCCC------hhhHHHHHHHHHHcCChHHHHHHHHHHHH
Q 009066          209 ALTPLISMYCKCGDLEDACKLFLEIQRKD------VVTWNAMISGYAQHGKGEKALRLFDKMKD  266 (545)
Q Consensus       209 ~~~~li~~y~~~g~~~~A~~~f~~~~~~~------~~~~~~li~~~~~~g~~~~A~~~~~~m~~  266 (545)
                      .+..+.+.|.+.|+.+.|.+.|.++.+..      +..+-.+|......|++..+...+.+...
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            44567777788888888888887776532      23456666666777777777777666654

This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=90.24  E-value=0.72  Score=27.81  Aligned_cols=26  Identities=27%  Similarity=0.387  Sum_probs=16.7

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHH
Q 009066          240 TWNAMISGYAQHGKGEKALRLFDKMK  265 (545)
Q Consensus       240 ~~~~li~~~~~~g~~~~A~~~~~~m~  265 (545)
                      +|+.|...|.+.|++++|+++|++.+
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            35666677777777777777777644

>PRK09687 putative lyase; Provisional

Probab=90.05  E-value=17  Score=34.29  Aligned_cols=82  Identities=9%  Similarity=0.045  Sum_probs=35.0

Q ss_pred             ccCCCCChhhHHHHHHHHHcCCCCHHHHHHHHhcC-CCCCeehHHHHHHHHHhCCCH----HHHHHHHhhC--CcCCHhH
Q 009066           31 DKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQRL-PIKDTASWNTMISGFVQKKNM----AKARDLFLAM--PEKNSVS  103 (545)
Q Consensus        31 ~~~~~~~~~~~~~li~~~~~~~g~~~~A~~~~~~m-~~~d~~~~~~li~~~~~~g~~----~~a~~~~~~~--~~~~~~~  103 (545)
                      +.+..+|.......+.++... |.. ++...+..+ ..+|...-...+.++++.|+.    +++...+..+  .+++..+
T Consensus        30 ~~L~d~d~~vR~~A~~aL~~~-~~~-~~~~~l~~ll~~~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~D~d~~V  107 (280)
T PRK09687         30 RLLDDHNSLKRISSIRVLQLR-GGQ-DVFRLAIELCSSKNPIERDIGADILSQLGMAKRCQDNVFNILNNLALEDKSACV  107 (280)
T ss_pred             HHHhCCCHHHHHHHHHHHHhc-Ccc-hHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhcCCCHHH
Confidence            333445554444444444444 332 222222222 234444444444555555542    3444444443  2344555


Q ss_pred             HHHHHHHHHHc
Q 009066          104 WSAMISGYIEC  114 (545)
Q Consensus       104 ~~~li~~~~~~  114 (545)
                      -...+.+++..
T Consensus       108 R~~A~~aLG~~  118 (280)
T PRK09687        108 RASAINATGHR  118 (280)
T ss_pred             HHHHHHHHhcc
Confidence            54445444443

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=89.92  E-value=14  Score=33.18  Aligned_cols=62  Identities=8%  Similarity=-0.031  Sum_probs=33.7

Q ss_pred             HHHHHHhHc-CCHHHHHHHHHhC-----CCCCCHhHHHHHHH---HHHhcCCHHHHHHHHHHHhcCCCCCC
Q 009066          314 CMVDLLGRA-GKLVEAVDLIKKM-----PFKPQPAIFGTLLS---ACRVHKRLDLAEFAAMNLFNLNPANA  375 (545)
Q Consensus       314 ~li~~~~~~-g~~~~A~~~~~~m-----~~~p~~~~~~~li~---~~~~~g~~~~A~~~~~~~~~~~p~~~  375 (545)
                      .+.+.|-.. .++++|+..|++.     +.+.+...--.++.   --+..+++.+|+.+|+++.....+++
T Consensus       118 ~iaEiyEsdl~d~ekaI~~YE~Aae~yk~ees~ssANKC~lKvA~yaa~leqY~~Ai~iyeqva~~s~~n~  188 (288)
T KOG1586|consen  118 EIAEIYESDLQDFEKAIAHYEQAAEYYKGEESVSSANKCLLKVAQYAAQLEQYSKAIDIYEQVARSSLDNN  188 (288)
T ss_pred             hHHHHHhhhHHHHHHHHHHHHHHHHHHcchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccch
Confidence            344444333 4556666665554     11222222223332   33567889999999999876554443

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=89.82  E-value=0.42  Score=28.85  Aligned_cols=23  Identities=13%  Similarity=-0.074  Sum_probs=10.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHH
Q 009066          344 FGTLLSACRVHKRLDLAEFAAMN  366 (545)
Q Consensus       344 ~~~li~~~~~~g~~~~A~~~~~~  366 (545)
                      |..|...|...|++++|+.++++
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~   24 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQ   24 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHH
Confidence            34444444444444444444444

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=89.71  E-value=2.7  Score=37.81  Aligned_cols=20  Identities=15%  Similarity=0.160  Sum_probs=9.2

Q ss_pred             HHHHHHHcCChHHHHHHHhh
Q 009066          107 MISGYIECGQLDKAVELFKV  126 (545)
Q Consensus       107 li~~~~~~g~~~~A~~~f~~  126 (545)
                      .|-.|.-..++..|.+.|+.
T Consensus       196 ~ilv~L~~~Dyv~aekc~r~  215 (308)
T KOG1585|consen  196 AILVYLYAHDYVQAEKCYRD  215 (308)
T ss_pred             HHHHHhhHHHHHHHHHHhcc
Confidence            33334444455555555543

>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=89.25  E-value=11  Score=30.69  Aligned_cols=139  Identities=11%  Similarity=0.189  Sum_probs=69.6

Q ss_pred             hccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHH
Q 009066          148 VENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDAC  227 (545)
Q Consensus       148 ~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~  227 (545)
                      .-.|..++..++..+.....   +..-++.++--....-+-+-..++++.+   |--.|..          .||++....
T Consensus        13 ildG~V~qGveii~k~v~Ss---ni~E~NWvICNiiDaa~C~yvv~~LdsI---GkiFDis----------~C~NlKrVi   76 (161)
T PF09205_consen   13 ILDGDVKQGVEIIEKTVNSS---NIKEYNWVICNIIDAADCDYVVETLDSI---GKIFDIS----------KCGNLKRVI   76 (161)
T ss_dssp             HHTT-HHHHHHHHHHHHHHS----HHHHTHHHHHHHHH--HHHHHHHHHHH---GGGS-GG----------G-S-THHHH
T ss_pred             HHhchHHHHHHHHHHHcCcC---CccccceeeeecchhhchhHHHHHHHHH---hhhcCch----------hhcchHHHH
Confidence            34555666677777666432   3333444433322223333333333333   2222322          244444444


Q ss_pred             HHHHhccCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCC
Q 009066          228 KLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGI  305 (545)
Q Consensus       228 ~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~  305 (545)
                      ..+-.+.. +.......+..+...|+-+.-.+++.++.+ +-+|+......+..||.+.|+..++.+++.+..++ |+
T Consensus        77 ~C~~~~n~-~se~vD~ALd~lv~~~kkDqLdki~~~l~k-n~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACek-G~  151 (161)
T PF09205_consen   77 ECYAKRNK-LSEYVDLALDILVKQGKKDQLDKIYNELKK-NEEINPEFLVKIANAYKKLGNTREANELLKEACEK-GL  151 (161)
T ss_dssp             HHHHHTT----HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHT-T-
T ss_pred             HHHHHhcc-hHHHHHHHHHHHHHhccHHHHHHHHHHHhh-ccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHh-ch
Confidence            44333321 233344556777788888888888888765 34667777778888888888888888888887765 54

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=89.01  E-value=9.4  Score=32.56  Aligned_cols=50  Identities=12%  Similarity=0.012  Sum_probs=23.9

Q ss_pred             hHcCCHHHHHHHHHhCCCCCCH---hHHHHHHHHHHhcCCHHHHHHHHHHHhc
Q 009066          320 GRAGKLVEAVDLIKKMPFKPQP---AIFGTLLSACRVHKRLDLAEFAAMNLFN  369 (545)
Q Consensus       320 ~~~g~~~~A~~~~~~m~~~p~~---~~~~~li~~~~~~g~~~~A~~~~~~~~~  369 (545)
                      ...|.+++...-.+.+....++   ..-..|.-+-.+.|++..|...|.++..
T Consensus       143 vD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~  195 (221)
T COG4649         143 VDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAN  195 (221)
T ss_pred             hccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHc
Confidence            3455555555555554111111   2223344444556666666666665544

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=88.71  E-value=46  Score=37.37  Aligned_cols=139  Identities=15%  Similarity=0.080  Sum_probs=78.6

Q ss_pred             HHHHHHhcCCHHHHHHHHHhccCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHH
Q 009066          213 LISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLG  292 (545)
Q Consensus       213 li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a  292 (545)
                      .++.--+.|.+.+|..++.--.+.--..|.+...-+.+.+.+++|.-.|+..-+.         .-.+.+|...|++.++
T Consensus       914 ~~n~I~kh~Ly~~aL~ly~~~~e~~k~i~~~ya~hL~~~~~~~~Aal~Ye~~Gkl---------ekAl~a~~~~~dWr~~  984 (1265)
T KOG1920|consen  914 CKNYIKKHGLYDEALALYKPDSEKQKVIYEAYADHLREELMSDEAALMYERCGKL---------EKALKAYKECGDWREA  984 (1265)
T ss_pred             HHHHHHhcccchhhhheeccCHHHHHHHHHHHHHHHHHhccccHHHHHHHHhccH---------HHHHHHHHHhccHHHH
Confidence            3333344455555555443222222334445555555677888888777765321         2346677888888888


Q ss_pred             HHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHH
Q 009066          293 IQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNL  367 (545)
Q Consensus       293 ~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~  367 (545)
                      ..+..++..  +-..-..+-..|+.-+...++.-+|-++..+....|.     -.+..+++...+++|.++....
T Consensus       985 l~~a~ql~~--~~de~~~~a~~L~s~L~e~~kh~eAa~il~e~~sd~~-----~av~ll~ka~~~~eAlrva~~~ 1052 (1265)
T KOG1920|consen  985 LSLAAQLSE--GKDELVILAEELVSRLVEQRKHYEAAKILLEYLSDPE-----EAVALLCKAKEWEEALRVASKA 1052 (1265)
T ss_pred             HHHHHhhcC--CHHHHHHHHHHHHHHHHHcccchhHHHHHHHHhcCHH-----HHHHHHhhHhHHHHHHHHHHhc
Confidence            888876642  1111222335677778888888888887777632222     2233444555566666555444

>PRK11619 lytic murein transglycosylase; Provisional

Probab=88.49  E-value=39  Score=36.24  Aligned_cols=136  Identities=7%  Similarity=0.031  Sum_probs=69.3

Q ss_pred             HHHHHHHHHcCCCCHHHHHHHHhcCCCCCe---ehHHHHHHHHHhCCCHHHHHHHHhhCCc-C-CHhHHHHHHHHHHHcC
Q 009066           41 YNIMLSCILLNSDDVVAAFDFFQRLPIKDT---ASWNTMISGFVQKKNMAKARDLFLAMPE-K-NSVSWSAMISGYIECG  115 (545)
Q Consensus        41 ~~~li~~~~~~~g~~~~A~~~~~~m~~~d~---~~~~~li~~~~~~g~~~~a~~~~~~~~~-~-~~~~~~~li~~~~~~g  115 (545)
                      |.....+ ++. |+...+.++-..+.....   ..|..+..... ....++....+++-.. | ....-...+..+.+.+
T Consensus        37 f~~A~~a-~~~-g~~~~~~~~~~~l~d~pL~~yl~y~~L~~~l~-~~~~~ev~~Fl~~~~~~P~~~~Lr~~~l~~La~~~  113 (644)
T PRK11619         37 YQQIKQA-WDN-RQMDVVEQLMPTLKDYPLYPYLEYRQLTQDLM-NQPAVQVTNFIRANPTLPPARSLQSRFVNELARRE  113 (644)
T ss_pred             HHHHHHH-HHC-CCHHHHHHHHHhccCCCcHhHHHHHHHHhccc-cCCHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcc
Confidence            3344443 455 677777777776652212   22333322221 2245556665555432 1 1223344555566677


Q ss_pred             ChHHHHHHHhhCCCCCcccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccC
Q 009066          116 QLDKAVELFKVAPVKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLS  186 (545)
Q Consensus       116 ~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~  186 (545)
                      +++.-.+.+..- ..+...-.....+.     ...|+.++|....+.+-..| ...+.....++..+.+.|
T Consensus       114 ~w~~~~~~~~~~-p~~~~~~c~~~~A~-----~~~G~~~~A~~~a~~lW~~g-~~~p~~cd~l~~~~~~~g  177 (644)
T PRK11619        114 DWRGLLAFSPEK-PKPVEARCNYYYAK-----WATGQQQEAWQGAKELWLTG-KSLPNACDKLFSVWQQSG  177 (644)
T ss_pred             CHHHHHHhcCCC-CCCHHHHHHHHHHH-----HHcCCHHHHHHHHHHHhccC-CCCChHHHHHHHHHHHcC
Confidence            777777633222 23443334445555     66777777776666665554 223445555555555433

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=88.42  E-value=6.4  Score=30.04  Aligned_cols=62  Identities=15%  Similarity=0.189  Sum_probs=45.6

Q ss_pred             HHHHHHcCChHHHHHHHhhCCCCCcccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHH
Q 009066          108 ISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSS  177 (545)
Q Consensus       108 i~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~  177 (545)
                      +..+...|++++|..+.+.+..||...|-+|-..       +.|..+++..-+.+|...| .|...+|..
T Consensus        46 lsSLmNrG~Yq~Al~l~~~~~~pdlepw~ALce~-------rlGl~s~l~~rl~rla~sg-~p~lq~Faa  107 (115)
T TIGR02508        46 LSSLMNRGDYQSALQLGNKLCYPDLEPWLALCEW-------RLGLGSALESRLNRLAASG-DPRLQTFVA  107 (115)
T ss_pred             HHHHHccchHHHHHHhcCCCCCchHHHHHHHHHH-------hhccHHHHHHHHHHHHhCC-CHHHHHHHH
Confidence            3456678999999999999989999999887664       3566666777777777776 555555543

YscG is a molecular chaperone for YscE, where both are part of the type III secretion system that in Yersinia is designated Ysc (Yersinia secretion). The secretion system delivers effector proteins, designate Yops (Yersinia outer proteins) in Yersinia. This family consists of YscG of Yersinia, and functionally equivalent type III secretion machinery protein in other species: AscG in Aeromonas, LscG in Photorhabdus luminescens, etc.

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=88.36  E-value=5.4  Score=37.34  Aligned_cols=98  Identities=14%  Similarity=0.200  Sum_probs=74.2

Q ss_pred             CCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccCC---------ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCC
Q 009066          201 SPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRK---------DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKP  271 (545)
Q Consensus       201 ~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~---------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  271 (545)
                      .|.+....+...++..-....+++++...+-++...         ...+|-.++.    .-++++++.++..=+..|+-|
T Consensus        58 ~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~irlll----ky~pq~~i~~l~npIqYGiF~  133 (418)
T KOG4570|consen   58 RGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHTWIRLLL----KYDPQKAIYTLVNPIQYGIFP  133 (418)
T ss_pred             cCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHHHHHHHH----ccChHHHHHHHhCcchhcccc
Confidence            455666667777777777778899998888777642         2233333332    336779999998888999999


Q ss_pred             CHHHHHHHHHHHHccCcHHHHHHHHHHhHHh
Q 009066          272 DSITFVALLLACNHAGLVDLGIQYFDSMVND  302 (545)
Q Consensus       272 ~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~  302 (545)
                      |..|+..++..+.+.+++.+|.++...|+..
T Consensus       134 dqf~~c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  134 DQFTFCLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             chhhHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            9999999999999999999998887776653

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=88.22  E-value=27  Score=34.09  Aligned_cols=150  Identities=12%  Similarity=-0.002  Sum_probs=74.8

Q ss_pred             CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCC---CHHHHHHHHHHHHccCcHHHHHHHHHHhHHh-cCCCCCHHH
Q 009066          236 KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKP---DSITFVALLLACNHAGLVDLGIQYFDSMVND-YGIAAKPDH  311 (545)
Q Consensus       236 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p---~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~-~~~~~~~~~  311 (545)
                      ....+|..++..+.+.|+++.|...+.++...+..+   +......-....-..|+..+|...++...+. ..-..+...
T Consensus       144 ~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~~~~~~~~~~~  223 (352)
T PF02259_consen  144 ELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKCRLSKNIDSIS  223 (352)
T ss_pred             HHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcccccc
Confidence            345577888888888888888888888877643211   2223333344455667778888777766652 111101111


Q ss_pred             HHHHHHHHhHcCCHHHHHHH-HHhCCCCCCHhHHHHHHHHHH------hcCCHHHHHHHHHHHhcCCCCCCchhHHHHHH
Q 009066          312 YTCMVDLLGRAGKLVEAVDL-IKKMPFKPQPAIFGTLLSACR------VHKRLDLAEFAAMNLFNLNPANAAGCYVQLAN  384 (545)
Q Consensus       312 ~~~li~~~~~~g~~~~A~~~-~~~m~~~p~~~~~~~li~~~~------~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~  384 (545)
                      ...+...+..  ..+..... ........-...+..+..-+.      ..+..+.+...|.++.++.|+... +|..++.
T Consensus       224 ~~~~~~~~~~--~~~~~~~~~~~~~~~~~~a~~~l~~a~w~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~k-~~~~~a~  300 (352)
T PF02259_consen  224 NAELKSGLLE--SLEVISSTNLDKESKELKAKAFLLLAKWLDELYSKLSSESSDEILKYYKEATKLDPSWEK-AWHSWAL  300 (352)
T ss_pred             HHHHhhcccc--ccccccccchhhhhHHHHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHHHhChhHHH-HHHHHHH
Confidence            1111111000  00000000 000000000112222222222      237788889999999999888766 6776666


Q ss_pred             HHHH
Q 009066          385 IYAA  388 (545)
Q Consensus       385 ~~~~  388 (545)
                      .+.+
T Consensus       301 ~~~~  304 (352)
T PF02259_consen  301 FNDK  304 (352)
T ss_pred             HHHH
Confidence            5543

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=88.10  E-value=25  Score=33.52  Aligned_cols=149  Identities=15%  Similarity=0.204  Sum_probs=87.3

Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHhc--c----CcHHHHHHHHHHHHhCCC---CCCcccHHHHHHHHHhcCC--
Q 009066          154 EDGLKLLRMMIGLGIRPNASSLSSVLLGCSH--L----SSLQLGKQVHQLVFKSPL---CKDTTALTPLISMYCKCGD--  222 (545)
Q Consensus       154 ~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~--~----~~~~~a~~~~~~~~~~g~---~~~~~~~~~li~~y~~~g~--  222 (545)
                      ++.+.+++.|.+.|..-+..+|.+.+.....  .    .....+..+|+.|.+.-.   .++-..+.+|+.+  ..++  
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            4456688889999988888888775544433  2    245778999999988642   2344455555443  3333  


Q ss_pred             --HHHHHHHHHhccC-----CChhhHHHHHHHHHHc-C--ChHHHHHHHHHHHHcCCCCCHHHHHHHHH-HHHccCc---
Q 009066          223 --LEDACKLFLEIQR-----KDVVTWNAMISGYAQH-G--KGEKALRLFDKMKDEGMKPDSITFVALLL-ACNHAGL---  288 (545)
Q Consensus       223 --~~~A~~~f~~~~~-----~~~~~~~~li~~~~~~-g--~~~~A~~~~~~m~~~g~~p~~~t~~~ll~-a~~~~g~---  288 (545)
                        .+.++.+|+.+.+     .|..-+.+-+-++... .  ...++.++++.+.+.|+++....|..+.- ++...+.   
T Consensus       157 ~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lGlLall~~~~~~~  236 (297)
T PF13170_consen  157 ELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLGLLALLEDPEEKI  236 (297)
T ss_pred             HHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHHHHHhcCCchHHH
Confidence              3455666666654     2333333333333321 1  24578999999999999988877765543 2222222   


Q ss_pred             HHHHHHHHHHhHHhcC
Q 009066          289 VDLGIQYFDSMVNDYG  304 (545)
Q Consensus       289 ~~~a~~~~~~~~~~~~  304 (545)
                      ++.-.++.+.+.+..+
T Consensus       237 ~~~i~ev~~~L~~~k~  252 (297)
T PF13170_consen  237 VEEIKEVIDELKEQKG  252 (297)
T ss_pred             HHHHHHHHHHHhhCcc
Confidence            3344444555544434

>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=87.76  E-value=17  Score=31.15  Aligned_cols=131  Identities=15%  Similarity=0.112  Sum_probs=71.6

Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccCC
Q 009066          157 LKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRK  236 (545)
Q Consensus       157 ~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~  236 (545)
                      ++.++.+.+.+++|+...+..++..+.+.|.+..-.++    +..++-+|.......+-.+.  +....+.++=-+|.++
T Consensus        14 lEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~ql----lq~~Vi~DSk~lA~~LLs~~--~~~~~~~Ql~lDMLkR   87 (167)
T PF07035_consen   14 LEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLHQL----LQYHVIPDSKPLACQLLSLG--NQYPPAYQLGLDMLKR   87 (167)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHH----HhhcccCCcHHHHHHHHHhH--ccChHHHHHHHHHHHH
Confidence            55667777788888888888888888888876654443    33343344333222221111  2223333333333333


Q ss_pred             ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHH
Q 009066          237 DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFD  297 (545)
Q Consensus       237 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~  297 (545)
                      =...+..++..+...|++-+|+.+.+.....    +......++.+-.+.++...=..+++
T Consensus        88 L~~~~~~iievLL~~g~vl~ALr~ar~~~~~----~~~~~~~fLeAA~~~~D~~lf~~V~~  144 (167)
T PF07035_consen   88 LGTAYEEIIEVLLSKGQVLEALRYARQYHKV----DSVPARKFLEAAANSNDDQLFYAVFR  144 (167)
T ss_pred             hhhhHHHHHHHHHhCCCHHHHHHHHHHcCCc----ccCCHHHHHHHHHHcCCHHHHHHHHH
Confidence            2234566677778888888888887765322    11122334555555555444444433

>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=87.71  E-value=16  Score=30.89  Aligned_cols=91  Identities=14%  Similarity=0.037  Sum_probs=54.2

Q ss_pred             HHHHccCcHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhHcCCHHHHHHHHHhCC-CCCCHhHHHHHHHHHHhcCCHH
Q 009066          281 LACNHAGLVDLGIQYFDSMVNDYGIAAK-PDHYTCMVDLLGRAGKLVEAVDLIKKMP-FKPQPAIFGTLLSACRVHKRLD  358 (545)
Q Consensus       281 ~a~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~li~~~~~~g~~~  358 (545)
                      ..-...++.+++..++..+.-   +.|. +..-..-...+.+.|++.+|..+|+++. ..|....-.+|+..|....+-.
T Consensus        18 ~~al~~~~~~D~e~lL~ALrv---LRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~~~~p~~kALlA~CL~~~~D~   94 (160)
T PF09613_consen   18 SVALRLGDPDDAEALLDALRV---LRPEFPELDLFDGWLHIVRGDWDDALRLLRELEERAPGFPYAKALLALCLYALGDP   94 (160)
T ss_pred             HHHHccCChHHHHHHHHHHHH---hCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccCCCChHHHHHHHHHHHHcCCh
Confidence            334466778888888877653   3444 3333344555678888888888888882 2244444556666555544433


Q ss_pred             HHHHHHHHHhcCCCCC
Q 009066          359 LAEFAAMNLFNLNPAN  374 (545)
Q Consensus       359 ~A~~~~~~~~~~~p~~  374 (545)
                      .=.....++++.+++.
T Consensus        95 ~Wr~~A~evle~~~d~  110 (160)
T PF09613_consen   95 SWRRYADEVLESGADP  110 (160)
T ss_pred             HHHHHHHHHHhcCCCh
Confidence            3444455566666554

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=87.68  E-value=22  Score=32.53  Aligned_cols=69  Identities=19%  Similarity=0.225  Sum_probs=48.6

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHcCC--CCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCH
Q 009066          241 WNAMISGYAQHGKGEKALRLFDKMKDEGM--KPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKP  309 (545)
Q Consensus       241 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~--~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~  309 (545)
                      |-.-+..-.+.|++++|.+.|+.+...-+  +-...+...++.++-+.++.++|+...++..+.++-.|+.
T Consensus        37 LY~~g~~~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~  107 (254)
T COG4105          37 LYNEGLTELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNA  107 (254)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCCh
Confidence            33344455678899999999998876421  1124556667777888888999988888888877666665

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=86.66  E-value=1.2  Score=41.82  Aligned_cols=110  Identities=10%  Similarity=0.049  Sum_probs=77.3

Q ss_pred             HHHHccCcHHHHHHHHHHhHHhcCCCC-CHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHHHHhcCCH
Q 009066          281 LACNHAGLVDLGIQYFDSMVNDYGIAA-KPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFK-PQPAIFGTLLSACRVHKRL  357 (545)
Q Consensus       281 ~a~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~-p~~~~~~~li~~~~~~g~~  357 (545)
                      +-|.++|.+++|+..|...+.   ..| ++.++..-..+|.+..++..|..-.... .+. .-...|..-+.+-...|+.
T Consensus       105 N~yFKQgKy~EAIDCYs~~ia---~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd~~Y~KAYSRR~~AR~~Lg~~  181 (536)
T KOG4648|consen  105 NTYFKQGKYEEAIDCYSTAIA---VYPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALDKLYVKAYSRRMQARESLGNN  181 (536)
T ss_pred             hhhhhccchhHHHHHhhhhhc---cCCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHHhhH
Confidence            458899999999999987763   455 8889999999999999998777554443 110 1123444445555567899


Q ss_pred             HHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHH
Q 009066          358 DLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARI  398 (545)
Q Consensus       358 ~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~  398 (545)
                      .+|.+-++.+++++|++..     |-..|.......++.-+
T Consensus       182 ~EAKkD~E~vL~LEP~~~E-----LkK~~a~i~Sl~E~~I~  217 (536)
T KOG4648|consen  182 MEAKKDCETVLALEPKNIE-----LKKSLARINSLRERKIA  217 (536)
T ss_pred             HHHHHhHHHHHhhCcccHH-----HHHHHHHhcchHhhhHH
Confidence            9999999999999998653     44455555554444433

>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=86.58  E-value=19  Score=31.22  Aligned_cols=95  Identities=14%  Similarity=0.156  Sum_probs=65.9

Q ss_pred             hhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHH--HHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHH------
Q 009066          239 VTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSI--TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPD------  310 (545)
Q Consensus       239 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~--t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~------  310 (545)
                      ..+..+..-|++.|+.++|++.|.++.+....|...  .+..++..+...+++..+.....+...-.....+..      
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk  116 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLK  116 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHH
Confidence            467788999999999999999999998875555543  456777888888999988888776654211111122      


Q ss_pred             HHHHHHHHHhHcCCHHHHHHHHHhC
Q 009066          311 HYTCMVDLLGRAGKLVEAVDLIKKM  335 (545)
Q Consensus       311 ~~~~li~~~~~~g~~~~A~~~~~~m  335 (545)
                      +|..|.  +...+++.+|-+.|-+.
T Consensus       117 ~~~gL~--~l~~r~f~~AA~~fl~~  139 (177)
T PF10602_consen  117 VYEGLA--NLAQRDFKEAAELFLDS  139 (177)
T ss_pred             HHHHHH--HHHhchHHHHHHHHHcc
Confidence            222222  23467888888888776

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.

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=86.47  E-value=1.6  Score=25.56  Aligned_cols=28  Identities=21%  Similarity=0.363  Sum_probs=18.8

Q ss_pred             hhHHHHHHHHHHcCChHHHHHHHHHHHH
Q 009066          239 VTWNAMISGYAQHGKGEKALRLFDKMKD  266 (545)
Q Consensus       239 ~~~~~li~~~~~~g~~~~A~~~~~~m~~  266 (545)
                      .+|..+...|...|++++|+..|++.++
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALE   29 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHH
Confidence            3566677777777777777777777665

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 ....

>KOG3364 consensus Membrane protein involved in organellar division [Cell wall/membrane/envelope biogenesis]

Probab=86.28  E-value=11  Score=30.67  Aligned_cols=62  Identities=16%  Similarity=0.083  Sum_probs=36.4

Q ss_pred             HHHHHHHHHHhcC---CHHHHHHHHHHHhc-CCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhh
Q 009066          343 IFGTLLSACRVHK---RLDLAEFAAMNLFN-LNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       343 ~~~~li~~~~~~g---~~~~A~~~~~~~~~-~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  404 (545)
                      +--.+..++....   +..+++.+++.+.+ -.|.........|+-++.+.|+++.++++.+...+
T Consensus        34 s~f~lAwaLV~S~~~~dv~~GI~iLe~l~~~~~~~~rRe~lyYLAvg~yRlkeY~~s~~yvd~ll~   99 (149)
T KOG3364|consen   34 SQFNLAWALVRSRDTEDVQEGIVILEDLLKSAHPERRRECLYYLAVGHYRLKEYSKSLRYVDALLE   99 (149)
T ss_pred             HHHHHHHHHHcccchHHHHHhHHHHHHHhhhcCcccchhhhhhhHHHHHHHhhHHHHHHHHHHHHh
Confidence            3333444444333   44566677777765 44444333455666677777777777777776655

>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=86.02  E-value=3.3  Score=34.90  Aligned_cols=66  Identities=17%  Similarity=0.104  Sum_probs=36.6

Q ss_pred             HHHHHHHHHH---hHcCCHHHHHHHHHhC-CCCCCHhHHHHH-HHHHHhcCCHHHHHHHHHHHhcCCCCCC
Q 009066          310 DHYTCMVDLL---GRAGKLVEAVDLIKKM-PFKPQPAIFGTL-LSACRVHKRLDLAEFAAMNLFNLNPANA  375 (545)
Q Consensus       310 ~~~~~li~~~---~~~g~~~~A~~~~~~m-~~~p~~~~~~~l-i~~~~~~g~~~~A~~~~~~~~~~~p~~~  375 (545)
                      .+.+.|++.+   .+.++.+++..++..+ -.+|.......+ ...+...|++.+|..+++.+.+..|..+
T Consensus         8 ~iv~gLie~~~~al~~~~~~D~e~lL~ALrvLRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~~~~p   78 (160)
T PF09613_consen    8 EIVGGLIEVLSVALRLGDPDDAEALLDALRVLRPEFPELDLFDGWLHIVRGDWDDALRLLRELEERAPGFP   78 (160)
T ss_pred             HHHHHHHHHHHHHHccCChHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccCCCCh
Confidence            3344454443   3456777777777666 233433222221 2235567777777777777766666654

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=85.44  E-value=14  Score=37.91  Aligned_cols=26  Identities=23%  Similarity=0.211  Sum_probs=12.9

Q ss_pred             ccHHHHHHHHHhcCCHHHHHHHHHhc
Q 009066          208 TALTPLISMYCKCGDLEDACKLFLEI  233 (545)
Q Consensus       208 ~~~~~li~~y~~~g~~~~A~~~f~~~  233 (545)
                      .-|..|.++..+.|++..|.+.|...
T Consensus       667 ~Kw~~Lg~~al~~~~l~lA~EC~~~a  692 (794)
T KOG0276|consen  667 VKWRQLGDAALSAGELPLASECFLRA  692 (794)
T ss_pred             HHHHHHHHHHhhcccchhHHHHHHhh
Confidence            34445555555555555555555433

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=85.43  E-value=38  Score=33.01  Aligned_cols=68  Identities=16%  Similarity=0.190  Sum_probs=54.6

Q ss_pred             CCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCC----CCchhHHHHHHHHHHcCCchHHHHHHHHhhhCCC
Q 009066          339 PQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPA----NAAGCYVQLANIYAAMKKWDDVARIRLSMKENNV  407 (545)
Q Consensus       339 p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~----~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  407 (545)
                      ....+|..++..+++.|+++.|...+.++...++.    .+. ....-+......|+.++|...++...+..+
T Consensus       144 ~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~-v~~e~akllw~~g~~~~Ai~~L~~~~~~~~  215 (352)
T PF02259_consen  144 ELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPR-VFLEYAKLLWAQGEQEEAIQKLRELLKCRL  215 (352)
T ss_pred             HHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcc-hHHHHHHHHHHcCCHHHHHHHHHHHHHHHh
Confidence            34578999999999999999999999999876521    233 666778889999999999999988876333

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=85.40  E-value=6.4  Score=30.17  Aligned_cols=60  Identities=15%  Similarity=0.306  Sum_probs=42.3

Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHH
Q 009066          256 KALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVD  317 (545)
Q Consensus       256 ~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~  317 (545)
                      +...-+..+....+.|+.....+.|.||.+.+++..|.++|+.+..+.+..  ...|..+++
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~~~--~~~Y~~~lq   87 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCGNK--KEIYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTTT---TTHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccCh--HHHHHHHHH
Confidence            555666666667788999999999999999999999999998887754433  336666655

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 ....

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=85.30  E-value=11  Score=38.63  Aligned_cols=44  Identities=20%  Similarity=0.174  Sum_probs=20.6

Q ss_pred             HcCChHHHHHHHhhCCCCCcccHHHHHHHhcchhhhccCChHHHHHHHHHH
Q 009066          113 ECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMM  163 (545)
Q Consensus       113 ~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m  163 (545)
                      +.|+++.|.++..+.  .+..-|..|..+.     .+.+++..|.+.|.+.
T Consensus       649 ~lgrl~iA~~la~e~--~s~~Kw~~Lg~~a-----l~~~~l~lA~EC~~~a  692 (794)
T KOG0276|consen  649 KLGRLDIAFDLAVEA--NSEVKWRQLGDAA-----LSAGELPLASECFLRA  692 (794)
T ss_pred             hcCcHHHHHHHHHhh--cchHHHHHHHHHH-----hhcccchhHHHHHHhh
Confidence            445555554443321  2334455555555     5555555555554443

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=85.18  E-value=7.7  Score=29.43  Aligned_cols=63  Identities=16%  Similarity=0.329  Sum_probs=48.0

Q ss_pred             ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHH
Q 009066          253 KGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVD  317 (545)
Q Consensus       253 ~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~  317 (545)
                      +.-++.+-+..+....+.|+.....+.++||.+.+++..|.++++.+..+.+.  +...|..+++
T Consensus        22 D~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~~~--~~~~y~~~lq   84 (103)
T cd00923          22 DGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKCGA--HKEIYPYILQ   84 (103)
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccC--chhhHHHHHH
Confidence            34466666777777788999999999999999999999999999887654332  4456666654

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.

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=85.10  E-value=18  Score=36.11  Aligned_cols=136  Identities=12%  Similarity=0.044  Sum_probs=72.3

Q ss_pred             ccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-C-CCCCHhHHHHHHHHHHhcCCHHHHHH
Q 009066          285 HAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-P-FKPQPAIFGTLLSACRVHKRLDLAEF  362 (545)
Q Consensus       285 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~-~~p~~~~~~~li~~~~~~g~~~~A~~  362 (545)
                      ..|++-.|-+-.....+.+  +.++.+...........|+++.+...+... + +.....+...++......|++++|..
T Consensus       301 ~~gd~~aas~~~~~~lr~~--~~~p~~i~l~~~i~~~lg~ye~~~~~~s~~~~~~~s~~~~~~~~~r~~~~l~r~~~a~s  378 (831)
T PRK15180        301 ADGDIIAASQQLFAALRNQ--QQDPVLIQLRSVIFSHLGYYEQAYQDISDVEKIIGTTDSTLRCRLRSLHGLARWREALS  378 (831)
T ss_pred             hccCHHHHHHHHHHHHHhC--CCCchhhHHHHHHHHHhhhHHHHHHHhhchhhhhcCCchHHHHHHHhhhchhhHHHHHH
Confidence            3455554443333333322  333333333344455667777777776655 1 22344566677777777777777777


Q ss_pred             HHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhhCCCccCCceeEEEECCEEEEE
Q 009066          363 AAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVVKMPGYSWIEVGTVVHEF  425 (545)
Q Consensus       363 ~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~s~~~~~~~~~~~  425 (545)
                      ..+.|+..+-.++. ....-+-.....|-++++...|++...-+-+  ....|+.+-.....|
T Consensus       379 ~a~~~l~~eie~~e-i~~iaa~sa~~l~~~d~~~~~wk~~~~~~~~--~~~g~v~~~~~~~~~  438 (831)
T PRK15180        379 TAEMMLSNEIEDEE-VLTVAAGSADALQLFDKSYHYWKRVLLLNPE--TQSGWVNFLSSTQYF  438 (831)
T ss_pred             HHHHHhccccCChh-heeeecccHHHHhHHHHHHHHHHHHhccCCh--hcccceeeeccceec
Confidence            77777765544443 2333333344556777777777776554332  223455443333334

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=84.42  E-value=4  Score=33.81  Aligned_cols=50  Identities=18%  Similarity=0.021  Sum_probs=23.0

Q ss_pred             cCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhh
Q 009066          354 HKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       354 ~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  404 (545)
                      .+++++++.++..+.-+.|+... .-..-+..+...|+|++|.++++...+
T Consensus        23 ~~d~~D~e~lLdALrvLrP~~~e-~d~~dg~l~i~rg~w~eA~rvlr~l~~   72 (153)
T TIGR02561        23 SADPYDAQAMLDALRVLRPNLKE-LDMFDGWLLIARGNYDEAARILRELLS   72 (153)
T ss_pred             cCCHHHHHHHHHHHHHhCCCccc-cchhHHHHHHHcCCHHHHHHHHHhhhc
Confidence            44444444444444444444443 333444444444444444444444443

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PRK13800 putative oxidoreductase/HEAT repeat-containing protein; Provisional

Probab=84.15  E-value=79  Score=35.65  Aligned_cols=266  Identities=11%  Similarity=-0.031  Sum_probs=153.6

Q ss_pred             HHHHccCCCCChhhHHHHHHHHHcCCCCHHHHHHH-HhcCCCCCeehHHHHHHHHHhCCCH-HHHHHHHhhCCcCCHhHH
Q 009066           27 QELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDF-FQRLPIKDTASWNTMISGFVQKKNM-AKARDLFLAMPEKNSVSW  104 (545)
Q Consensus        27 ~~~f~~~~~~~~~~~~~li~~~~~~~g~~~~A~~~-~~~m~~~d~~~~~~li~~~~~~g~~-~~a~~~~~~~~~~~~~~~  104 (545)
                      ..+...+..+|...=-.-+..+.+. +..+ +... ...+..+|...-...+.++.+.+.. .....+...+..+|..+-
T Consensus       624 ~~L~~~L~D~d~~VR~~Av~~L~~~-~~~~-~~~~L~~aL~D~d~~VR~~Aa~aL~~l~~~~~~~~~L~~~L~~~d~~VR  701 (897)
T PRK13800        624 AELAPYLADPDPGVRRTAVAVLTET-TPPG-FGPALVAALGDGAAAVRRAAAEGLRELVEVLPPAPALRDHLGSPDPVVR  701 (897)
T ss_pred             HHHHHHhcCCCHHHHHHHHHHHhhh-cchh-HHHHHHHHHcCCCHHHHHHHHHHHHHHHhccCchHHHHHHhcCCCHHHH
Confidence            3555555677776655666666665 5544 4444 4444455554444555555544321 111222233345677777


Q ss_pred             HHHHHHHHHcCChHHHHHHHhhCCCCCcccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhc
Q 009066          105 SAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSH  184 (545)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~  184 (545)
                      .+.+..+...+.- ....+...+..+|...-...+.++     .+.+..+.    +.....   .+|...-.....++..
T Consensus       702 ~~A~~aL~~~~~~-~~~~l~~~L~D~d~~VR~~Av~aL-----~~~~~~~~----l~~~l~---D~~~~VR~~aa~aL~~  768 (897)
T PRK13800        702 AAALDVLRALRAG-DAALFAAALGDPDHRVRIEAVRAL-----VSVDDVES----VAGAAT---DENREVRIAVAKGLAT  768 (897)
T ss_pred             HHHHHHHHhhccC-CHHHHHHHhcCCCHHHHHHHHHHH-----hcccCcHH----HHHHhc---CCCHHHHHHHHHHHHH
Confidence            7778877765422 123455566667766556666666     44443321    222332   4566666666667666


Q ss_pred             cCcHHH-HHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHH-HHHHhccCCChhhHHHHHHHHHHcCChHHHHHHHH
Q 009066          185 LSSLQL-GKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDAC-KLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFD  262 (545)
Q Consensus       185 ~~~~~~-a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~-~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  262 (545)
                      .+..+. +...+..+.+   .+|..+-.+.+..+.+.|..+.+. .+...+.++|...-...+.++...+. .++...+.
T Consensus       769 ~~~~~~~~~~~L~~ll~---D~d~~VR~aA~~aLg~~g~~~~~~~~l~~aL~d~d~~VR~~Aa~aL~~l~~-~~a~~~L~  844 (897)
T PRK13800        769 LGAGGAPAGDAVRALTG---DPDPLVRAAALAALAELGCPPDDVAAATAALRASAWQVRQGAARALAGAAA-DVAVPALV  844 (897)
T ss_pred             hccccchhHHHHHHHhc---CCCHHHHHHHHHHHHhcCCcchhHHHHHHHhcCCChHHHHHHHHHHHhccc-cchHHHHH
Confidence            665433 3344444443   456778888999999999876553 34455556776677777778877765 46777777


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHH
Q 009066          263 KMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDL  318 (545)
Q Consensus       263 ~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~  318 (545)
                      .+..   .|+...-...+.++........+...+....+    .++..+-..-..+
T Consensus       845 ~~L~---D~~~~VR~~A~~aL~~~~~~~~a~~~L~~al~----D~d~~Vr~~A~~a  893 (897)
T PRK13800        845 EALT---DPHLDVRKAAVLALTRWPGDPAARDALTTALT----DSDADVRAYARRA  893 (897)
T ss_pred             HHhc---CCCHHHHHHHHHHHhccCCCHHHHHHHHHHHh----CCCHHHHHHHHHH
Confidence            7764   56777777777788776434566667766655    3455444444433

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=82.85  E-value=67  Score=33.83  Aligned_cols=175  Identities=13%  Similarity=0.093  Sum_probs=84.9

Q ss_pred             hHHHHHHHhhCCCC-CcccHHHHHHHhcchhhhccCChHHHHHHHHHHHh-------CCCCCCHHHHHHHHHHHhccC--
Q 009066          117 LDKAVELFKVAPVK-SVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIG-------LGIRPNASSLSSVLLGCSHLS--  186 (545)
Q Consensus       117 ~~~A~~~f~~~~~~-~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~-------~~~~pd~~t~~~ll~~~~~~~--  186 (545)
                      ...|.+.++..... ++..-..+...|..-+.....+.+.|+..|+.+.+       .|   +.....-+..+|.+..  
T Consensus       228 ~~~a~~~~~~~a~~g~~~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g~~~  304 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLGHSEAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQGLGV  304 (552)
T ss_pred             hhHHHHHHHHHHhhcchHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcCCCC
Confidence            44566666655433 33333333333322223566677888888877765       34   2223344444444422  


Q ss_pred             ---cHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHh-cCCHHHHHHHHHhccCC-ChhhHHHHHHHHH----HcCChHHH
Q 009066          187 ---SLQLGKQVHQLVFKSPLCKDTTALTPLISMYCK-CGDLEDACKLFLEIQRK-DVVTWNAMISGYA----QHGKGEKA  257 (545)
Q Consensus       187 ---~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~-~g~~~~A~~~f~~~~~~-~~~~~~~li~~~~----~~g~~~~A  257 (545)
                         +.+.|..++....+.|. |+....-..+..... ..+...|.++|....+. .+.+.-.+...|.    ...+...|
T Consensus       305 ~~~d~~~A~~~~~~aA~~g~-~~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~~~A~~~la~~y~~G~gv~r~~~~A  383 (552)
T KOG1550|consen  305 EKIDYEKALKLYTKAAELGN-PDAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGHILAIYRLALCYELGLGVERNLELA  383 (552)
T ss_pred             ccccHHHHHHHHHHHHhcCC-chHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCcCCCHHHH
Confidence               55667777777777763 333332222222222 23466777777766543 2222222222222    12256677


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHH
Q 009066          258 LRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFD  297 (545)
Q Consensus       258 ~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~  297 (545)
                      ..++.+.-+.| .|-..--...+..+.. +..+.+.-.+.
T Consensus       384 ~~~~k~aA~~g-~~~A~~~~~~~~~~g~-~~~~~~~~~~~  421 (552)
T KOG1550|consen  384 FAYYKKAAEKG-NPSAAYLLGAFYEYGV-GRYDTALALYL  421 (552)
T ss_pred             HHHHHHHHHcc-ChhhHHHHHHHHHHcc-ccccHHHHHHH
Confidence            77777776665 3332222233333333 44444444443

>smart00028 TPR Tetratricopeptide repeats

Probab=82.72  E-value=2.6  Score=23.44  Aligned_cols=29  Identities=21%  Similarity=0.016  Sum_probs=16.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhcCCC
Q 009066          344 FGTLLSACRVHKRLDLAEFAAMNLFNLNP  372 (545)
Q Consensus       344 ~~~li~~~~~~g~~~~A~~~~~~~~~~~p  372 (545)
                      |..+...+...++++.|...+++.++..|
T Consensus         4 ~~~~a~~~~~~~~~~~a~~~~~~~~~~~~   32 (34)
T smart00028        4 LYNLGNAYLKLGDYDEALEYYEKALELDP   32 (34)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHccCC
Confidence            44445555555556666665555555554

Repeats present in 4 or more copies in proteins. Contain a minimum of 34 amino acids each and self-associate via a "knobs and holes" mechanism.

>PF14853 Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repeat; PDB: 1IYG_A 1PC2_A 1NZN_A 3UUX_C 1Y8M_A 2PQR_A 2PQN_A 3O48_A

Probab=82.45  E-value=9.3  Score=25.48  Aligned_cols=51  Identities=16%  Similarity=0.208  Sum_probs=36.3

Q ss_pred             hHHHHHHHHHHcCCchHHHHHHHHhhhCCCccCCceeEEEECCEEEEEecCCCCCCChHHHHHHHHHHHHHHHHcCc
Q 009066          378 CYVQLANIYAAMKKWDDVARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGY  454 (545)
Q Consensus       378 ~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~m~~~g~  454 (545)
                      ....|+-++.+.|++++|.+..+.+.+.                          .|...+....-..+.++|++.|.
T Consensus         3 ~lY~lAig~ykl~~Y~~A~~~~~~lL~~--------------------------eP~N~Qa~~L~~~i~~~i~kdgl   53 (53)
T PF14853_consen    3 CLYYLAIGHYKLGEYEKARRYCDALLEI--------------------------EPDNRQAQSLKELIEDKIQKDGL   53 (53)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHH--------------------------TTS-HHHHHHHHHHHHHHHHTTT
T ss_pred             hHHHHHHHHHHhhhHHHHHHHHHHHHhh--------------------------CCCcHHHHHHHHHHHHHHhccCC
Confidence            4567888999999999999999988763                          35555555555666777777663

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=82.27  E-value=1.2  Score=26.54  Aligned_cols=25  Identities=16%  Similarity=0.232  Sum_probs=17.5

Q ss_pred             CCCCccHHHHHHHHHHhCCCChHHHH
Q 009066            2 NVKTTVNWNSVLAGFAKQRGKLKDAQ   27 (545)
Q Consensus         2 ~~~~~~~~~~li~~~~~~g~~~~~A~   27 (545)
                      +|.++.+|+.|...|...|+ +++|+
T Consensus         9 ~P~n~~a~~nla~~~~~~g~-~~~A~   33 (34)
T PF13431_consen    9 NPNNAEAYNNLANLYLNQGD-YEEAI   33 (34)
T ss_pred             CCCCHHHHHHHHHHHHHCcC-HHhhc
Confidence            46667777777777777777 77665

>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=82.25  E-value=9.5  Score=33.52  Aligned_cols=73  Identities=18%  Similarity=0.103  Sum_probs=44.2

Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhC---CCCCCcccHHHHHHHHHhcCCHHHHH
Q 009066          154 EDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKS---PLCKDTTALTPLISMYCKCGDLEDAC  227 (545)
Q Consensus       154 ~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~---g~~~~~~~~~~li~~y~~~g~~~~A~  227 (545)
                      +.|++.|-++...+.--++ .....+..|-...+.+++++++-.+++.   +-.+|+.++.+|+..|.+.|+++.|.
T Consensus       123 ~~A~~~fL~~E~~~~l~t~-elq~aLAtyY~krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~AY  198 (203)
T PF11207_consen  123 QEALRRFLQLEGTPELETA-ELQYALATYYTKRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQAY  198 (203)
T ss_pred             HHHHHHHHHHcCCCCCCCH-HHHHHHHHHHHccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhhh
Confidence            5677777777666533333 3333333444456777777777766653   22456667777777777777777664

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=82.18  E-value=20  Score=29.83  Aligned_cols=48  Identities=13%  Similarity=0.050  Sum_probs=21.5

Q ss_pred             ccCcHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhHcCCHHHHHHHHHhC
Q 009066          285 HAGLVDLGIQYFDSMVNDYGIAAK-PDHYTCMVDLLGRAGKLVEAVDLIKKM  335 (545)
Q Consensus       285 ~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~m  335 (545)
                      ..++.+++..+++.|.-   +.|+ ...-..-.-.+...|++++|.++|++.
T Consensus        22 ~~~d~~D~e~lLdALrv---LrP~~~e~d~~dg~l~i~rg~w~eA~rvlr~l   70 (153)
T TIGR02561        22 RSADPYDAQAMLDALRV---LRPNLKELDMFDGWLLIARGNYDEAARILREL   70 (153)
T ss_pred             hcCCHHHHHHHHHHHHH---hCCCccccchhHHHHHHHcCCHHHHHHHHHhh
Confidence            34555555555555432   2332 122222233344555555555555555

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=81.71  E-value=3.5  Score=25.29  Aligned_cols=28  Identities=25%  Similarity=0.485  Sum_probs=17.8

Q ss_pred             hhHHHHHHHHHHcCChHHHHHHHHHHHH
Q 009066          239 VTWNAMISGYAQHGKGEKALRLFDKMKD  266 (545)
Q Consensus       239 ~~~~~li~~~~~~g~~~~A~~~~~~m~~  266 (545)
                      .+++.+...|...|++++|+.++++...
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            3566666777777777777777766543

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=81.35  E-value=3.6  Score=23.88  Aligned_cols=27  Identities=30%  Similarity=0.534  Sum_probs=16.3

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHH
Q 009066          240 TWNAMISGYAQHGKGEKALRLFDKMKD  266 (545)
Q Consensus       240 ~~~~li~~~~~~g~~~~A~~~~~~m~~  266 (545)
                      .|..+...|.+.|++++|++.|++..+
T Consensus         3 ~~~~lg~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF07719_consen    3 AWYYLGQAYYQLGNYEEAIEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            355556666666666666666666655

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 ....

>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=81.30  E-value=1.4e+02  Score=36.54  Aligned_cols=309  Identities=11%  Similarity=0.046  Sum_probs=167.1

Q ss_pred             HHHHHHHhCCCHHHHHHHHhhC----CcCC--HhHHHHHHHHHHHcCChHHHHHHHhh-CCCCCcccHHHHHHHhcchhh
Q 009066           75 TMISGFVQKKNMAKARDLFLAM----PEKN--SVSWSAMISGYIECGQLDKAVELFKV-APVKSVVAWTAMISGYMKFGY  147 (545)
Q Consensus        75 ~li~~~~~~g~~~~a~~~~~~~----~~~~--~~~~~~li~~~~~~g~~~~A~~~f~~-~~~~~~~~~~~li~~~~~~g~  147 (545)
                      ++..+=.+.+.+.+|...+++-    .+.+  ...+-.+...|+.-+++|...-+... ...++.  ++ -|--.     
T Consensus      1388 tLa~aSfrc~~y~RalmylEs~~~~ek~~~~~e~l~fllq~lY~~i~dpDgV~Gv~~~r~a~~sl--~~-qil~~----- 1459 (2382)
T KOG0890|consen 1388 TLARASFRCKAYARALMYLESHRSTEKEKETEEALYFLLQNLYGSIHDPDGVEGVSARRFADPSL--YQ-QILEH----- 1459 (2382)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHHhcCCcchhhhHHHHhhcCccH--HH-HHHHH-----
Confidence            3444555778888888888873    2222  23444555588888888887776663 333322  22 22233     


Q ss_pred             hccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccH-HHHHHHHHhcCCHHHH
Q 009066          148 VENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTAL-TPLISMYCKCGDLEDA  226 (545)
Q Consensus       148 ~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~-~~li~~y~~~g~~~~A  226 (545)
                      -..|++..|...|+++.+.+ ++...+++-++......+.++...-..+-..... .+....+ +.=+.+-.+.++++..
T Consensus      1460 e~~g~~~da~~Cye~~~q~~-p~~~~~~~g~l~sml~~~~l~t~i~~~dg~~~~~-se~~~~~~s~~~eaaW~l~qwD~~ 1537 (2382)
T KOG0890|consen 1460 EASGNWADAAACYERLIQKD-PDKEKHHSGVLKSMLAIQHLSTEILHLDGLIINR-SEEVDELNSLGVEAAWRLSQWDLL 1537 (2382)
T ss_pred             HhhccHHHHHHHHHHhhcCC-CccccchhhHHHhhhcccchhHHHhhhcchhhcc-CHHHHHHHHHHHHHHhhhcchhhh
Confidence            45788999999999998764 3336677777766666666666555333333221 2222222 2234444677777777


Q ss_pred             HHHHHhccCCChhhHHHH-H-HHHHHcC--ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHH----
Q 009066          227 CKLFLEIQRKDVVTWNAM-I-SGYAQHG--KGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDS----  298 (545)
Q Consensus       227 ~~~f~~~~~~~~~~~~~l-i-~~~~~~g--~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~----  298 (545)
                      .....   ..+..+|.+. + ....+..  +.-.-.++.+.+++.-+.|        +.+|+..|.+..+.++.-+    
T Consensus      1538 e~~l~---~~n~e~w~~~~~g~~ll~~~~kD~~~~~~~i~~~r~~~i~~--------lsa~s~~~Sy~~~Y~~~~kLH~l 1606 (2382)
T KOG0890|consen 1538 ESYLS---DRNIEYWSVESIGKLLLRNKKKDEIATLDLIENSRELVIEN--------LSACSIEGSYVRSYEILMKLHLL 1606 (2382)
T ss_pred             hhhhh---cccccchhHHHHHHHHHhhcccchhhHHHHHHHHHHHhhhh--------HHHhhccchHHHHHHHHHHHHHH
Confidence            76665   5566666665 2 2222221  1111222333333221111        2223332222222211111    


Q ss_pred             ------hHHhcCCCCCHH------HHHHHH---HHHhHcCCHHHHHH-HHHhCCCCC-----CHhHHHHHHHHHHhcCCH
Q 009066          299 ------MVNDYGIAAKPD------HYTCMV---DLLGRAGKLVEAVD-LIKKMPFKP-----QPAIFGTLLSACRVHKRL  357 (545)
Q Consensus       299 ------~~~~~~~~~~~~------~~~~li---~~~~~~g~~~~A~~-~~~~m~~~p-----~~~~~~~li~~~~~~g~~  357 (545)
                            .....+..++..      -|..-+   +-+.+....=-|.+ .+.....+|     -..+|-......++.|++
T Consensus      1607 ~el~~~~~~l~~~s~~~~s~~~sd~W~~Rl~~tq~s~~~~epILa~RRs~l~~~~~~~~~~~~ge~wLqsAriaR~aG~~ 1686 (2382)
T KOG0890|consen 1607 LELENSIEELKKVSYDEDSANNSDNWKNRLERTQPSFRIKEPILAFRRSMLDLRMRSNLKSRLGECWLQSARIARLAGHL 1686 (2382)
T ss_pred             HHHHHHHHHhhccCccccccccchhHHHHHHHhchhHHHHhHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHhcccH
Confidence                  111112233221      122222   22222111111111 111111122     236899999999999999


Q ss_pred             HHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhhCCC
Q 009066          358 DLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNV  407 (545)
Q Consensus       358 ~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  407 (545)
                      +.|....-++.+..+.  . .+...+....+.|+...|+.+++...+...
T Consensus      1687 q~A~nall~A~e~r~~--~-i~~E~AK~lW~~gd~~~Al~~Lq~~l~~~~ 1733 (2382)
T KOG0890|consen 1687 QRAQNALLNAKESRLP--E-IVLERAKLLWQTGDELNALSVLQEILSKNF 1733 (2382)
T ss_pred             HHHHHHHHhhhhcccc--h-HHHHHHHHHHhhccHHHHHHHHHHHHHhhc
Confidence            9999998888777643  3 789999999999999999999998886554

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=81.26  E-value=71  Score=33.05  Aligned_cols=124  Identities=12%  Similarity=0.075  Sum_probs=84.0

Q ss_pred             CChhhHHHHHHHHHcCCCCHHHHHHHHhcCC--CCCee-hHHHHHHHHHhCCCHHHHHHHHhhCCc---CCHhHHHHHHH
Q 009066           36 PDVVSYNIMLSCILLNSDDVVAAFDFFQRLP--IKDTA-SWNTMISGFVQKKNMAKARDLFLAMPE---KNSVSWSAMIS  109 (545)
Q Consensus        36 ~~~~~~~~li~~~~~~~g~~~~A~~~~~~m~--~~d~~-~~~~li~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~  109 (545)
                      -+-..|+++|..--.. .+++.++.+++.+.  -|-.. -|.....-=.+.|..+.+.++|++-+.   -+...|...+.
T Consensus        43 ~~f~~wt~li~~~~~~-~~~~~~r~~y~~fL~kyPl~~gyW~kfA~~E~klg~~~~s~~Vfergv~aip~SvdlW~~Y~~  121 (577)
T KOG1258|consen   43 LDFDAWTTLIQENDSI-EDVDALREVYDIFLSKYPLCYGYWKKFADYEYKLGNAENSVKVFERGVQAIPLSVDLWLSYLA  121 (577)
T ss_pred             hcccchHHHHhccCch-hHHHHHHHHHHHHHhhCccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhhhHHHHHHHHHH
Confidence            3445688888754444 56677777777776  34333 455566666778999999999998774   34556666555


Q ss_pred             HHH-HcCChHHHHHHHhhCCC------CCcccHHHHHHHhcchhhhccCChHHHHHHHHHHHh
Q 009066          110 GYI-ECGQLDKAVELFKVAPV------KSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIG  165 (545)
Q Consensus       110 ~~~-~~g~~~~A~~~f~~~~~------~~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~  165 (545)
                      .+. ..|+.+.-++.|+....      .....|-..|.--     ..++++.....++++.++
T Consensus       122 f~~n~~~d~~~lr~~fe~A~~~vG~dF~S~~lWdkyie~e-----n~qks~k~v~~iyeRile  179 (577)
T KOG1258|consen  122 FLKNNNGDPETLRDLFERAKSYVGLDFLSDPLWDKYIEFE-----NGQKSWKRVANIYERILE  179 (577)
T ss_pred             HHhccCCCHHHHHHHHHHHHHhcccchhccHHHHHHHHHH-----hccccHHHHHHHHHHHHh
Confidence            443 35677777777776442      2456677778777     778888888888888875

>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=80.86  E-value=35  Score=29.22  Aligned_cols=133  Identities=10%  Similarity=0.073  Sum_probs=58.9

Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcC--CHHHHHHHHHhCC
Q 009066          259 RLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAG--KLVEAVDLIKKMP  336 (545)
Q Consensus       259 ~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g--~~~~A~~~~~~m~  336 (545)
                      ++++.+.+.++.|+...+..++..+.+.|....-.++++     +++-+|.....+.+-.+....  -..-|++++.+++
T Consensus        15 EYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~qllq-----~~Vi~DSk~lA~~LLs~~~~~~~~~Ql~lDMLkRL~   89 (167)
T PF07035_consen   15 EYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLHQLLQ-----YHVIPDSKPLACQLLSLGNQYPPAYQLGLDMLKRLG   89 (167)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHh-----hcccCCcHHHHHHHHHhHccChHHHHHHHHHHHHhh
Confidence            344444455566666666666666666665554444332     133344333333222221111  1223334444432


Q ss_pred             CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhhC
Q 009066          337 FKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKEN  405 (545)
Q Consensus       337 ~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  405 (545)
                      .     .+..++..+...|++-+|.++.++....+.-    ....++.+-.+.++-.--..+++-..++
T Consensus        90 ~-----~~~~iievLL~~g~vl~ALr~ar~~~~~~~~----~~~~fLeAA~~~~D~~lf~~V~~ff~~~  149 (167)
T PF07035_consen   90 T-----AYEEIIEVLLSKGQVLEALRYARQYHKVDSV----PARKFLEAAANSNDDQLFYAVFRFFEER  149 (167)
T ss_pred             h-----hHHHHHHHHHhCCCHHHHHHHHHHcCCcccC----CHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            1     1333444555666666666666554332211    2233444444455444444444444443

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=80.81  E-value=7.3  Score=36.93  Aligned_cols=93  Identities=14%  Similarity=0.143  Sum_probs=62.3

Q ss_pred             HHHHHHcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcC
Q 009066          245 ISGYAQHGKGEKALRLFDKMKDEGMKP-DSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAG  323 (545)
Q Consensus       245 i~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  323 (545)
                      ..-|.++|.+++|++.|.....  +.| |.+++..-..||.+...+..|..-....+.-  -..-...|+.-+.+-...|
T Consensus       104 GN~yFKQgKy~EAIDCYs~~ia--~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaL--d~~Y~KAYSRR~~AR~~Lg  179 (536)
T KOG4648|consen  104 GNTYFKQGKYEEAIDCYSTAIA--VYPHNPVYHINRALAYLKQKSFAQAEEDCEAAIAL--DKLYVKAYSRRMQARESLG  179 (536)
T ss_pred             hhhhhhccchhHHHHHhhhhhc--cCCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHh--hHHHHHHHHHHHHHHHHHh
Confidence            4679999999999999998776  466 8899998899999999988887766555421  0111223333333333445


Q ss_pred             CHHHHHHHHHhC-CCCCCH
Q 009066          324 KLVEAVDLIKKM-PFKPQP  341 (545)
Q Consensus       324 ~~~~A~~~~~~m-~~~p~~  341 (545)
                      .+.+|.+-++.. .++|+.
T Consensus       180 ~~~EAKkD~E~vL~LEP~~  198 (536)
T KOG4648|consen  180 NNMEAKKDCETVLALEPKN  198 (536)
T ss_pred             hHHHHHHhHHHHHhhCccc
Confidence            666666655544 556764

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=80.58  E-value=2.2  Score=24.59  Aligned_cols=26  Identities=15%  Similarity=-0.077  Sum_probs=12.9

Q ss_pred             HHHHHhcCCHHHHHHHHHHHhcCCCC
Q 009066          348 LSACRVHKRLDLAEFAAMNLFNLNPA  373 (545)
Q Consensus       348 i~~~~~~g~~~~A~~~~~~~~~~~p~  373 (545)
                      ..++.+.|++++|...|+++++..|+
T Consensus         7 a~~~~~~g~~~~A~~~~~~~~~~~P~   32 (33)
T PF13174_consen    7 ARCYYKLGDYDEAIEYFQRLIKRYPD   32 (33)
T ss_dssp             HHHHHHHCHHHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHccCHHHHHHHHHHHHHHCcC
Confidence            33444455555555555555554443

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=80.44  E-value=12  Score=28.52  Aligned_cols=46  Identities=13%  Similarity=0.296  Sum_probs=37.2

Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHH
Q 009066          154 EDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVF  199 (545)
Q Consensus       154 ~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~  199 (545)
                      -++.+-++.+....+.|++....+.|.||.+.+++..|.++++-+.
T Consensus        24 we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK   69 (103)
T cd00923          24 WELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIK   69 (103)
T ss_pred             HHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            3455556666677788999999999999999999999999988776

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.

>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=80.26  E-value=2.9  Score=34.80  Aligned_cols=85  Identities=15%  Similarity=0.163  Sum_probs=47.8

Q ss_pred             HHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHH
Q 009066          137 AMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISM  216 (545)
Q Consensus       137 ~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~  216 (545)
                      .+|..+     .+.+.+.....+++.+...+...+....+.++..|++.+..+....+++.       .+..-...++..
T Consensus        12 ~vi~~~-----~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~-------~~~yd~~~~~~~   79 (143)
T PF00637_consen   12 EVISAF-----EERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKT-------SNNYDLDKALRL   79 (143)
T ss_dssp             CCHHHC-----TTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTS-------SSSS-CTHHHHH
T ss_pred             HHHHHH-----HhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHccc-------ccccCHHHHHHH
Confidence            345555     66667777777777777665455566677777777777665665555541       111222335555


Q ss_pred             HHhcCCHHHHHHHHHhc
Q 009066          217 YCKCGDLEDACKLFLEI  233 (545)
Q Consensus       217 y~~~g~~~~A~~~f~~~  233 (545)
                      +-+.|.+++|.-++.++
T Consensus        80 c~~~~l~~~a~~Ly~~~   96 (143)
T PF00637_consen   80 CEKHGLYEEAVYLYSKL   96 (143)
T ss_dssp             HHTTTSHHHHHHHHHCC
T ss_pred             HHhcchHHHHHHHHHHc
Confidence            55555555555555544

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.

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=80.19  E-value=43  Score=29.89  Aligned_cols=103  Identities=12%  Similarity=0.039  Sum_probs=66.1

Q ss_pred             CCHHHHHHHHhcCCCCCeehHHHHHHHHHhCCCHHHHHHHHhhCCcCCHhHHHHHHHHHHHcCChHHHHHHHhhCCCCCc
Q 009066           53 DDVVAAFDFFQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAPVKSV  132 (545)
Q Consensus        53 g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~  132 (545)
                      .+-++|.-+|++-     +-|.++.---....|+..++.+.-    .-+.++|-|.--+...|+++.|.+.|+...+-|+
T Consensus        60 ~~eeRA~l~fERG-----vlYDSlGL~~LAR~DftQaLai~P----~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp  130 (297)
T COG4785          60 TDEERAQLLFERG-----VLYDSLGLRALARNDFSQALAIRP----DMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDP  130 (297)
T ss_pred             ChHHHHHHHHHhc-----chhhhhhHHHHHhhhhhhhhhcCC----CcHHHHHHHHHHHHhcccchHHHHHhhhHhccCC
Confidence            3556777777765     334444432233446666665542    2367888888888999999999999998887665


Q ss_pred             -ccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCC
Q 009066          133 -VAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLG  167 (545)
Q Consensus       133 -~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~  167 (545)
                       .-|..+=.+..-   --.|++.-|.+-|.+.-+.+
T Consensus       131 ~y~Ya~lNRgi~~---YY~gR~~LAq~d~~~fYQ~D  163 (297)
T COG4785         131 TYNYAHLNRGIAL---YYGGRYKLAQDDLLAFYQDD  163 (297)
T ss_pred             cchHHHhccceee---eecCchHhhHHHHHHHHhcC
Confidence             233333222200   34688888888777776654

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=80.05  E-value=3.2  Score=25.51  Aligned_cols=27  Identities=22%  Similarity=0.325  Sum_probs=21.4

Q ss_pred             hHHHHHHHHHHcCCchHHHHHHHHhhh
Q 009066          378 CYVQLANIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       378 ~~~~l~~~~~~~g~~~~a~~~~~~m~~  404 (545)
                      ++..|+.+|...|++++|..++++..+
T Consensus         4 ~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    4 ALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            677888888888888888888887754

---

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	545
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	8e-16
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	8e-08
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-04
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	7e-09
1qzv_F	154	Plant photosystem I: subunit PSAF; photosynthesis,	1e-06
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	4e-06
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	4e-04
3tax_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	8e-04

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 79.9 bits (195), Expect = 8e-16
 Identities = 29/180 (16%), Positives = 60/180 (33%), Gaps = 7/180 (3%)

Query: 169 RPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACK 228
            P    L+ +L       SL + +       ++ L      L            L  A  
Sbjct: 89  SPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHH 148

Query: 229 LFLEIQRK-------DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLL 281
           L +    +        +  +NA++ G+A+ G  ++ + +   +KD G+ PD +++ A L 
Sbjct: 149 LLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQ 208

Query: 282 ACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQP 341
                      I+     ++  G+  +      ++    RA  L     +       PQ 
Sbjct: 209 CMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQL 268

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 54.4 bits (129), Expect = 8e-08
 Identities = 27/283 (9%), Positives = 81/283 (28%), Gaps = 19/283 (6%)

Query: 135 WTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQV 194
           W   ++  ++    + S   +            +      L +    C     L L   +
Sbjct: 91  WEEQLARLLQEAPGKLSLDVEQ-APSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHL 149

Query: 195 ---HQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRK----DVVTWNAMISG 247
              H    +            ++  + + G  ++   +   ++      D++++ A +  
Sbjct: 150 LVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQC 209

Query: 248 YAQHGKGEKAL-RLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIA 306
             +  +    + R  ++M  EG+K  ++    LL   + A ++   +       +     
Sbjct: 210 MGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKA-VHKVKPTFSLPPQL 268

Query: 307 AKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMN 366
             P + + +         L +      ++ +        TL         ++LA    + 
Sbjct: 269 PPPVNTSKL---------LRDVYAKDGRVSYPKLHLPLKTLQCLFEKQLHMELASRVCVV 319

Query: 367 LFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVVK 409
                   +         +     +W+      L   +N + +
Sbjct: 320 SVEKPTLPSKEVKHARKTLKTLRDQWEKALCRALRETKNRLER 362

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 44.0 bits (102), Expect = 1e-04
 Identities = 14/92 (15%), Positives = 31/92 (33%), Gaps = 12/92 (13%)

Query: 100 NSVSWSAMISGYIECGQLDKAVELF-------KVAPVKSVVAWTAMISGYMKFGYVENSW 152
                 A     +   QL  A  L        +   + ++  + A++ G+ + G  +   
Sbjct: 126 QQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELV 185

Query: 153 AEDGLKLLRMMIGLGIRPNASSLSSVLLGCSH 184
                 +L M+   G+ P+  S ++ L     
Sbjct: 186 -----YVLFMVKDAGLTPDLLSYAAALQCMGR 212

>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 = 57.9 bits (139), Expect = 7e-09
 Identities = 94/609 (15%), Positives = 171/609 (28%), Gaps = 197/609 (32%)

Query: 20  RGKLKDAQELFDKI---PQPDVVSYNIMLSCILLNSDDVVAAF---------DFF----- 62
           +  L   +   D I         +   +   +L   +++V  F          F      
Sbjct: 43  KSILSKEE--IDHIIMSKDAVSGTL-RLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIK 99

Query: 63  --QRLPIKDTAS--------WNT---MISGFVQ-KKNMAKARDLFLAM-PEKNSVSWSAM 107
             QR P   T          +N         V   +   K R   L + P KN +     
Sbjct: 100 TEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVL----- 154

Query: 108 ISGYIECGQLDK---AVELFKVAPVKSV----VAWTAMISGYMKFGYVENSWAEDGLKLL 160
           I G +  G   K   A+++     V+      + W       +      +   E    +L
Sbjct: 155 IDGVLGSG---KTWVALDVCLSYKVQCKMDFKIFW-------LNLKNCNS--PET---VL 199

Query: 161 RMMIGL--GIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLIS--M 216
            M+  L   I PN +S         H S+++L  ++H +            L  L+    
Sbjct: 200 EMLQKLLYQIDPNWTSR------SDHSSNIKL--RIHSI---------QAELRRLLKSKP 242

Query: 217 YCKC----GDLEDA---------CKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDK 263
           Y  C     ++++A         CK+ L  + K V   + + +    H   +        
Sbjct: 243 YENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVT--DFLSAATTTHISLDHHSMTLTP 300

Query: 264 MKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAG 323
             DE          +LLL         L  +  D           P       +      
Sbjct: 301 --DEVK--------SLLLKY-------LDCRPQDL----------P-REVLTTNPR---- 328

Query: 324 KLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLD-LAEFAAMNLFNLNPANAAGCYVQL 382
                + +I +   +   A +         H   D L      +L  L PA     + +L
Sbjct: 329 ----RLSIIAES-IRDGLATWDNWK-----HVNCDKLTTIIESSLNVLEPAEYRKMFDRL 378

Query: 383 ANIYAAMKKWDDVARI---RLSMKENNVVKMPGYSWIEVGTVVHEFRS----GDRVHPEL 435
           + ++           I    LS+   +V+K       +V  VV++         +     
Sbjct: 379 S-VFP-----PSA-HIPTILLSLIWFDVIK------SDVMVVVNKLHKYSLVEKQPKEST 425

Query: 436 VSIH----------EKLKELEKRMKLAGY-----------VPDLE-------FALHAVGE 467
           +SI           E    L + + +  Y           +P             H    
Sbjct: 426 ISIPSIYLELKVKLENEYALHRSI-VDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNI 484

Query: 468 EVKEQLLLFHSEKLAIAFGLIKVPL---GTPIRVFKNLR-VCGDCHRATKYISAIE-KRE 522
           E  E++ LF    + + F  ++  +    T      ++            YI   + K E
Sbjct: 485 EHPERMTLF--RMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYE 542

Query: 523 IIVRDTTRF 531
            +V     F
Sbjct: 543 RLVNAILDF 551

>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant photosynthetic reaction center, peripheral antenna; HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1 Length = 154

 Score = 47.3 bits (111), Expect = 1e-06
 Identities = 12/33 (36%), Positives = 18/33 (54%), Gaps = 5/33 (15%)

Query: 440 EK--LKELEKRMKLAGYVPDLEFALHAVGEEVK 470
           EK  LK+L+  +KL  Y  D   AL A+   ++
Sbjct: 18  EKQALKKLQASLKL--YADDSAPAL-AIKATME 47

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe} Length = 597

 Score = 48.7 bits (116), Expect = 4e-06
 Identities = 46/330 (13%), Positives = 96/330 (29%), Gaps = 32/330 (9%)

Query: 82  QKKNMAKARDLFLAMPEKNSVSWSAMISG--YIECGQLDKAVELFKVA----PVKSVVAW 135
            +K+   A  L +        +    + G  Y      D+A E +K A      K   A+
Sbjct: 179 FRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVDA-KCYEAF 237

Query: 136 TAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVH 195
             ++S ++     E  W                    S     L   SH   L+  +   
Sbjct: 238 DQLVSNHLLTADEE--WDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYL 295

Query: 196 QLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLF---LEIQRKDVVTWNAMISGYAQHG 252
             +      K +  L              D   +    LEI   ++  +   ++   + G
Sbjct: 296 SSINGLE--KSSDLLLCKADTLFVRSRFIDVLAITTKILEIDPYNLDVYPLHLASLHESG 353

Query: 253 KGEKALRLFDKMKDEGMKPDS-ITFVALLLACNHAGLVDLGIQYFD--SMVN-DYGIAAK 308
           +  K   + + + D    P+  +T++A+ +       +    +YF   S ++  +G A  
Sbjct: 354 EKNKLYLISNDLVD--RHPEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMDPQFGPA-- 409

Query: 309 PDHYTCMVDLLGRAGKLVEAVDL----IKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAA 364
              +          G+  +A+       +       P +F  L         + LA    
Sbjct: 410 ---WIGFAHSFAIEGEHDQAISAYTTAARLFQGTHLPYLF--LGMQHMQLGNILLANEYL 464

Query: 365 MNLFNLNPANAAGCYVQLANIYAAMKKWDD 394
            + + L   +      +L  +         
Sbjct: 465 QSSYALFQYDPL-LLNELGVVAFNKSDMQT 493

>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 Length = 388

 Score = 42.1 bits (100), Expect = 4e-04
 Identities = 33/197 (16%), Positives = 58/197 (29%), Gaps = 37/197 (18%)

Query: 217 YCKCGDLEDACKLF---LEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDS 273
             + GD E A +        +  +      + S + Q  + +++                
Sbjct: 9   EYQAGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTL---------- 58

Query: 274 ITFVALLLACNHA-GLVDLGIQY-----FDSMVNDYG--IAAKPDH---YTCMVDLLGRA 322
               A+      A    +LG  Y         +  Y   +  KPD    Y  +   L  A
Sbjct: 59  ----AIKQNPLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLAAALVAA 114

Query: 323 GKLVEAVDLIKK-MPFKPQPAIF----GTLLSACRVHKRLDLAEFAAMNLFNLNPANAAG 377
           G +  AV      + + P         G LL A     RL+ A+   +      P  A  
Sbjct: 115 GDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKAL---GRLEEAKACYLKAIETQPNFAV- 170

Query: 378 CYVQLANIYAAMKKWDD 394
            +  L  ++ A  +   
Sbjct: 171 AWSNLGCVFNAQGEIWL 187

>3tax_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; thiocarbamate crosslink, covalent inhibitor, gylcosyltransfe inhibitor, O-GLCNAC transferase; HET: UDP; 1.88A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* Length = 723

 Score = 41.3 bits (96), Expect = 8e-04
 Identities = 20/96 (20%), Positives = 35/96 (36%), Gaps = 6/96 (6%)

Query: 304 GIAAKPDH---YTCMVDLLGRAGKLVEAVDLIKK-MPFKPQPAIFGTLL-SACRVHKRLD 358
           G  + P H      + ++    G + EAV L +K +   P+ A   + L S  +   +L 
Sbjct: 1   GPGSCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQ 60

Query: 359 LAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDD 394
            A         ++P  A   Y  + N    M+    
Sbjct: 61  EALMHYKEAIRISPTFAD-AYSNMGNTLKEMQDVQG 95

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	545
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.96
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.96
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.96
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.95
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.92
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.92
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.91
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.89
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.87
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.85
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.85
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.83
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.83
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.83
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.81
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.8
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.79
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.79
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.79
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.77
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.76
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.76
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.76
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.75
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.74
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.73
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.71
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.71
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.7
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.7
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.7
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.69
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.68
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.66
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.64
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.63
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.61
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.6
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.59
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.54
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.53
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.53
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.53
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.53
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.52
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.52
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.51
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.51
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.51
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.51
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.5
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.5
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.49
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.48
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.48
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.45
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.44
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.44
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.44
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.44
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.44
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.4
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.39
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.38
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.37
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.37
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.37
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.34
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.33
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.32
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.29
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.28
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.28
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.27
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.27
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.26
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.25
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.23
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.22
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.19
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.17
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.15
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.12
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.09
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.05
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.04
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.02
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.99
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.98
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.98
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.96
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.95
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.95
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.94
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.94
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.92
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.89
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.89
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.86
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.86
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.83
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.83
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.81
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.79
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.78
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.77
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.76
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.74
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.73
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.73
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.72
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.72
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.72
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.71
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.69
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.68
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.68
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.66
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.65
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.61
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.61
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.6
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.59
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.58
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.57
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.57
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.56
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.56
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.55
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.51
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.47
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.47
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.45
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.45
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.45
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.43
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.41
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.4
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.38
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.37
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.37
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.36
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.35
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.34
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.34
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.32
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.32
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.32
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.31
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.29
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.29
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.28
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.28
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.27
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.26
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.26
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.26
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.26
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.24
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.23
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.22
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.22
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.21
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.18
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.16
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.16
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.14
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.13
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.13
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.11
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.11
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.1
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.1
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.1
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.09
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.09
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.06
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.03
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.02
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.01
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.01
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.0
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.99
3k9i_A	117	BH0479 protein; putative protein binding protein,	97.98
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.94
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	97.93
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.92
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.91
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.91
3k9i_A	117	BH0479 protein; putative protein binding protein,	97.89
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.84
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.82
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.76
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.69
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.61
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.59
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.54
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.45
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.43
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.4
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.31
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.29
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.25
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.24
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.2
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.18
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.11
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.03
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.0
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.97
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.96
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.93
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	96.92
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.78
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.76
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.57
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	96.44
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.27
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.24
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	96.2
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	96.02
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	95.8
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	95.49
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	95.48
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	95.43
1pc2_A	152	Mitochondria fission protein; unknown function; NM	95.42
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	95.09
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	94.58
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	94.56
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	93.86
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	93.41
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	93.29
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	92.62
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	92.44
3ltj_A	201	Alpharep-4; protein engineering, heat-like repeat,	92.05
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	91.49
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	91.21
3ltm_A	211	Alpha-REP4; protein engineering, heat-like repeat,	90.95
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	90.94
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	90.44
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	89.25
2p58_C	116	Putative type III secretion protein YSCG; type III	88.57
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	88.39
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	87.66
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	87.36
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	87.21
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	87.03
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	86.39
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	86.38
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	84.94
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	84.73
2p58_C	116	Putative type III secretion protein YSCG; type III	84.35
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	83.85
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	83.7
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	83.3
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	83.14
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	82.99
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	82.62
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	80.3
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	80.23

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=3.7e-37  Score=325.47  Aligned_cols=284  Identities=13%  Similarity=0.045  Sum_probs=238.8

Q ss_pred             HHHcCChHHHHHHHhhCCC--CCcccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcH
Q 009066          111 YIECGQLDKAVELFKVAPV--KSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSL  188 (545)
Q Consensus       111 ~~~~g~~~~A~~~f~~~~~--~~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~  188 (545)
                      |.+.|++++|.++|+++..  ++..+|+.++.+|     .+.|++++|+++|+++.+.+ +.+..++..++.++.+.|++
T Consensus       282 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~-----~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~  355 (597)
T 2xpi_A          282 TSHEDELRRAEDYLSSINGLEKSSDLLLCKADTL-----FVRSRFIDVLAITTKILEID-PYNLDVYPLHLASLHESGEK  355 (597)
T ss_dssp             TTTHHHHHHHHHHHHTSTTGGGCHHHHHHHHHHH-----HHTTCHHHHHHHHHHHHHHC-TTCCTTHHHHHHHHHHHTCH
T ss_pred             HcCcchHHHHHHHHHHhhcCCchHHHHHHHHHHH-----HHhcCHHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHhCCH
Confidence            3344444445555544443  4566677777777     77888888888888887654 33666777888888888888


Q ss_pred             HHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccC---CChhhHHHHHHHHHHcCChHHHHHHHHHHH
Q 009066          189 QLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMK  265 (545)
Q Consensus       189 ~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  265 (545)
                      ++|..+++.+.+.. +.+..+++.++.+|.++|++++|.++|+++.+   .+..+|+.++.+|.+.|++++|+++|+++.
T Consensus       356 ~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  434 (597)
T 2xpi_A          356 NKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMDPQFGPAWIGFAHSFAIEGEHDQAISAYTTAA  434 (597)
T ss_dssp             HHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            88888888887553 55678899999999999999999999998863   468899999999999999999999999999


Q ss_pred             HcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-------CCC
Q 009066          266 DEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-------PFK  338 (545)
Q Consensus       266 ~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-------~~~  338 (545)
                      +.+ +++..++..++.+|.+.|++++|.++|+++.+.  .+.++.+|..++.+|.+.|++++|.++|+++       +..
T Consensus       435 ~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  511 (597)
T 2xpi_A          435 RLF-QGTHLPYLFLGMQHMQLGNILLANEYLQSSYAL--FQYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSN  511 (597)
T ss_dssp             HTT-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCC
T ss_pred             HhC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccc
Confidence            864 347789999999999999999999999999874  3557899999999999999999999999988       446


Q ss_pred             CC--HhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhhC
Q 009066          339 PQ--PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKEN  405 (545)
Q Consensus       339 p~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  405 (545)
                      |+  ..+|..++.+|.+.|++++|+..++++++.+|++.. +|..++.+|.+.|++++|.+.++++.+.
T Consensus       512 p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~l~~  579 (597)
T 2xpi_A          512 EKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLSTNDAN-VHTAIALVYLHKKIPGLAITHLHESLAI  579 (597)
T ss_dssp             SGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSCCHH-HHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChH-HHHHHHHHHHHhCCHHHHHHHHHHHHhc
Confidence            77  689999999999999999999999999999999887 9999999999999999999999998764

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=3e-35  Score=310.91  Aligned_cols=396  Identities=13%  Similarity=0.038  Sum_probs=341.1

Q ss_pred             CCCccHHHHHHHHHHhCCCChHHHHHHHccCC--CCChhhHHHHHHHHHcCCCCHHHHHHHHhcCC--CCCeehHHHHHH
Q 009066            3 VKTTVNWNSVLAGFAKQRGKLKDAQELFDKIP--QPDVVSYNIMLSCILLNSDDVVAAFDFFQRLP--IKDTASWNTMIS   78 (545)
Q Consensus         3 ~~~~~~~~~li~~~~~~g~~~~~A~~~f~~~~--~~~~~~~~~li~~~~~~~g~~~~A~~~~~~m~--~~d~~~~~~li~   78 (545)
                      .+++..++.++..|.+.|+ +++|..+|++|.  .||..+|+.++..|.+. |++++|+.+|+++.  +++..+|+.++.
T Consensus        81 ~~~~~~~~~~~~~~~~~g~-~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~~~~~~~~~~l~~  158 (597)
T 2xpi_A           81 LSREDYLRLWRHDALMQQQ-YKCAAFVGEKVLDITGNPNDAFWLAQVYCCT-GDYARAKCLLTKEDLYNRSSACRYLAAF  158 (597)
T ss_dssp             -CHHHHHHHHHHHHHHTTC-HHHHHHHHHHHHHHHCCHHHHHHHHHHHHHT-TCHHHHHHHHHHTCGGGTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHccC-chHHHHHHHHHHhhCCCchHHHHHHHHHHHc-CcHHHHHHHHHHHhccccchhHHHHHHH
Confidence            3577889999999999999 999999999986  58889999999999999 99999999999995  778899999999


Q ss_pred             HHHhCCCHHHHHHHHhhCCcC-------------------CHhHHHHHHHHHHHcCChHHHHHHHhhCCCCCc---ccHH
Q 009066           79 GFVQKKNMAKARDLFLAMPEK-------------------NSVSWSAMISGYIECGQLDKAVELFKVAPVKSV---VAWT  136 (545)
Q Consensus        79 ~~~~~g~~~~a~~~~~~~~~~-------------------~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~---~~~~  136 (545)
                      +|.+.|++++|.++|+++...                   +..+|+.++.+|.+.|++++|.++|+++...++   ..|.
T Consensus       159 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~  238 (597)
T 2xpi_A          159 CLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVDAKCYEAFD  238 (597)
T ss_dssp             HHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             HHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCchhhHHHH
Confidence            999999999999999966544                   378999999999999999999999998864332   3333


Q ss_pred             HHHHHhc---------------------------------chhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHh
Q 009066          137 AMISGYM---------------------------------KFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCS  183 (545)
Q Consensus       137 ~li~~~~---------------------------------~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~  183 (545)
                      .+...+.                                 -..+.+.|++++|+++|+++.+.  +++..++..++.++.
T Consensus       239 ~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~  316 (597)
T 2xpi_A          239 QLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGL--EKSSDLLLCKADTLF  316 (597)
T ss_dssp             HHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTG--GGCHHHHHHHHHHHH
T ss_pred             HHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHHHhhcC--CchHHHHHHHHHHHH
Confidence            3322111                                 01126788999999999998865  689999999999999


Q ss_pred             ccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccC---CChhhHHHHHHHHHHcCChHHHHHH
Q 009066          184 HLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRL  260 (545)
Q Consensus       184 ~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~  260 (545)
                      +.|++++|.++|+.+.+.+ +.+..+++.++.+|.+.|++++|.++|+++.+   .+..+|+.++..|.+.|++++|.++
T Consensus       317 ~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  395 (597)
T 2xpi_A          317 VRSRFIDVLAITTKILEID-PYNLDVYPLHLASLHESGEKNKLYLISNDLVDRHPEKAVTWLAVGIYYLCVNKISEARRY  395 (597)
T ss_dssp             HTTCHHHHHHHHHHHHHHC-TTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHhccHHHHHHH
Confidence            9999999999999999876 45788999999999999999999999998863   4788999999999999999999999


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CC-C
Q 009066          261 FDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PF-K  338 (545)
Q Consensus       261 ~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~-~  338 (545)
                      |+++.+.. +.+..++..++.++.+.|++++|.++|+++.+  ..+.+..+|..++.+|.+.|++++|.++|+++ .. .
T Consensus       396 ~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  472 (597)
T 2xpi_A          396 FSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAAR--LFQGTHLPYLFLGMQHMQLGNILLANEYLQSSYALFQ  472 (597)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--TTTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            99998753 33677999999999999999999999999986  34568899999999999999999999999998 22 2


Q ss_pred             CCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcC------CCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhhCC
Q 009066          339 PQPAIFGTLLSACRVHKRLDLAEFAAMNLFNL------NPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENN  406 (545)
Q Consensus       339 p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~------~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  406 (545)
                      .+..+|+.++..|.+.|++++|+..|+++.+.      +|+....+|..++.+|.+.|++++|.++++++.+.+
T Consensus       473 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  546 (597)
T 2xpi_A          473 YDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLS  546 (597)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             CChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC
Confidence            46889999999999999999999999999876      565422289999999999999999999999988754

>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=99.96  E-value=3e-27  Score=235.69  Aligned_cols=367  Identities=12%  Similarity=0.093  Sum_probs=309.1

Q ss_pred             HHHHHHhCCCChHHHHHHHccCC--CCChh-hHHHHHHHHHcCCCCHHHHHHHHhcCC---CCCeehHHHHHHHHHhCCC
Q 009066           12 VLAGFAKQRGKLKDAQELFDKIP--QPDVV-SYNIMLSCILLNSDDVVAAFDFFQRLP---IKDTASWNTMISGFVQKKN   85 (545)
Q Consensus        12 li~~~~~~g~~~~~A~~~f~~~~--~~~~~-~~~~li~~~~~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~g~   85 (545)
                      +...+.+.|+ +++|.+.|+.+.  .|+.. .+..+...+.+. |++++|...++...   +.+..+|..+...|.+.|+
T Consensus         5 ~a~~~~~~g~-~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~-~~~~~a~~~~~~a~~~~p~~~~~~~~lg~~~~~~g~   82 (388)
T 1w3b_A            5 LAHREYQAGD-FEAAERHCMQLWRQEPDNTGVLLLLSSIHFQC-RRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQ   82 (388)
T ss_dssp             HHHHHHHHTC-HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHCCC-HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHc-CCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCC
Confidence            4556777898 999999998875  46544 445555566667 99999999998766   5567889999999999999


Q ss_pred             HHHHHHHHhhCCc---CCHhHHHHHHHHHHHcCChHHHHHHHhhCC--CC-CcccHHHHHHHhcchhhhccCChHHHHHH
Q 009066           86 MAKARDLFLAMPE---KNSVSWSAMISGYIECGQLDKAVELFKVAP--VK-SVVAWTAMISGYMKFGYVENSWAEDGLKL  159 (545)
Q Consensus        86 ~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~f~~~~--~~-~~~~~~~li~~~~~~g~~~~g~~~~A~~~  159 (545)
                      +++|...|+++..   .+..++..+...|.+.|++++|.+.|+++.  .| +...+..+...+     ...|++++|++.
T Consensus        83 ~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~-----~~~g~~~~A~~~  157 (388)
T 1w3b_A           83 LQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLL-----KALGRLEEAKAC  157 (388)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHH-----HTTSCHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHH-----HHccCHHHHHHH
Confidence            9999999998873   356689999999999999999999998765  23 445677788888     889999999999


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccC---C
Q 009066          160 LRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR---K  236 (545)
Q Consensus       160 ~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~---~  236 (545)
                      |+++.+.. +.+..++..+...+...|++++|...++.+++.+ +.+...+..+...+...|++++|...|++..+   .
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            99998753 3357788999999999999999999999998875 44567888899999999999999999987753   3


Q ss_pred             ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHH
Q 009066          237 DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMV  316 (545)
Q Consensus       237 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li  316 (545)
                      +..+|..+...|.+.|++++|+..|+++.+.. +.+..++..+..++...|++++|.+.++++.+.  .+.+..++..+.
T Consensus       236 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~  312 (388)
T 1w3b_A          236 HAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRL--CPTHADSLNNLA  312 (388)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CcccHHHHHHHH
Confidence            67889999999999999999999999998853 224678888899999999999999999999874  466788999999


Q ss_pred             HHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCC
Q 009066          317 DLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKK  391 (545)
Q Consensus       317 ~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~  391 (545)
                      ..|.+.|++++|.+.++++ ...| +..+|..+...+.+.|++++|...+++++++.|+... +|..++.++...|+
T Consensus       313 ~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~p~~~~-a~~~lg~~~~~~~~  388 (388)
T 1w3b_A          313 NIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFAD-AYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCTTCHH-HHHHHHHHHHHTCC
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHH-HHHhHHHHHHHccC
Confidence            9999999999999999987 4445 4678999999999999999999999999999999887 89999888877663

>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=99.96  E-value=5.1e-26  Score=226.82  Aligned_cols=348  Identities=15%  Similarity=0.082  Sum_probs=302.7

Q ss_pred             HHHHcCCCCHHHHHHHHhcCC--CC-CeehHHHHHHHHHhCCCHHHHHHHHhhCC---cCCHhHHHHHHHHHHHcCChHH
Q 009066           46 SCILLNSDDVVAAFDFFQRLP--IK-DTASWNTMISGFVQKKNMAKARDLFLAMP---EKNSVSWSAMISGYIECGQLDK  119 (545)
Q Consensus        46 ~~~~~~~g~~~~A~~~~~~m~--~~-d~~~~~~li~~~~~~g~~~~a~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~  119 (545)
                      ..+.+. |++++|.+.|+.+.  .| +...+..+...+.+.|++++|...++...   +.+..++..+...|.+.|++++
T Consensus         7 ~~~~~~-g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~p~~~~~~~~lg~~~~~~g~~~~   85 (388)
T 1w3b_A            7 HREYQA-GDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQLQE   85 (388)
T ss_dssp             HHHHHH-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHC-CCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCHHH
Confidence            345667 99999999998876  34 55677778888999999999999998776   3467899999999999999999


Q ss_pred             HHHHHhhCC--CC-CcccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHH
Q 009066          120 AVELFKVAP--VK-SVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQ  196 (545)
Q Consensus       120 A~~~f~~~~--~~-~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~  196 (545)
                      |.+.|+++.  .| +..+|..+..++     ...|++++|++.|+++.+.. +.+...+..+...+...|++++|.+.+.
T Consensus        86 A~~~~~~al~~~p~~~~~~~~l~~~~-----~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~  159 (388)
T 1w3b_A           86 AIEHYRHALRLKPDFIDGYINLAAAL-----VAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYL  159 (388)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHH-----HHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHH
T ss_pred             HHHHHHHHHHcCcchHHHHHHHHHHH-----HHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHH
Confidence            999999865  23 456799999999     99999999999999998753 2345567777888899999999999999


Q ss_pred             HHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCH
Q 009066          197 LVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDS  273 (545)
Q Consensus       197 ~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  273 (545)
                      .+++.. +.+..++..+...|.+.|++++|...|+++.+   .+...|..+...+...|++++|+..|++..... +.+.
T Consensus       160 ~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~  237 (388)
T 1w3b_A          160 KAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHA  237 (388)
T ss_dssp             HHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCH
T ss_pred             HHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCCH
Confidence            998874 45678899999999999999999999999864   356789999999999999999999999998753 2257


Q ss_pred             HHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-C-CCCCHhHHHHHHHHH
Q 009066          274 ITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-P-FKPQPAIFGTLLSAC  351 (545)
Q Consensus       274 ~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~-~~p~~~~~~~li~~~  351 (545)
                      .++..+..++...|++++|.+.|+++.+.  .+.++..|..+...|.+.|++++|.+.|+++ . .+++..+|..+...+
T Consensus       238 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~  315 (388)
T 1w3b_A          238 VVHGNLACVYYEQGLIDLAIDTYRRAIEL--QPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIK  315 (388)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHT--CSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHH
Confidence            78889999999999999999999999863  3456789999999999999999999999988 2 235778999999999


Q ss_pred             HhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhhC
Q 009066          352 RVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKEN  405 (545)
Q Consensus       352 ~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  405 (545)
                      ...|++++|...++++++..|++.. ++..++.+|.+.|++++|.+.++++.+.
T Consensus       316 ~~~g~~~~A~~~~~~al~~~p~~~~-~~~~l~~~~~~~g~~~~A~~~~~~a~~~  368 (388)
T 1w3b_A          316 REQGNIEEAVRLYRKALEVFPEFAA-AHSNLASVLQQQGKLQEALMHYKEAIRI  368 (388)
T ss_dssp             HTTTCHHHHHHHHHHHTTSCTTCHH-HHHHHHHHHHTTTCCHHHHHHHHHHHTT
T ss_pred             HHcCCHHHHHHHHHHHHhcCCCcHH-HHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            9999999999999999999999888 9999999999999999999999998763

>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=99.96  E-value=5.2e-28  Score=246.44  Aligned_cols=184  Identities=12%  Similarity=0.161  Sum_probs=169.8

Q ss_pred             ccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccC---------cHHHHHHHHHHHHhCCC
Q 009066          133 VAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLS---------SLQLGKQVHQLVFKSPL  203 (545)
Q Consensus       133 ~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~---------~~~~a~~~~~~~~~~g~  203 (545)
                      ..++.+|.+|     .+.|+.++|+++|++|.+.|++||..||+++|.+|+..+         .++.|.++|++|.+.|+
T Consensus        27 ~~l~~~id~c-----~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~  101 (501)
T 4g26_A           27 ALLKQKLDMC-----SKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKV  101 (501)
T ss_dssp             HHHHHHHHHT-----TTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHH-----HhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCC
Confidence            4578889999     999999999999999999999999999999999998654         47889999999999999


Q ss_pred             CCCcccHHHHHHHHHhcCCHHHHHHHHHhccC----CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHH
Q 009066          204 CKDTTALTPLISMYCKCGDLEDACKLFLEIQR----KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVAL  279 (545)
Q Consensus       204 ~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~l  279 (545)
                      .||..+|++||.+|++.|++++|.++|++|.+    ||..+||++|.+|++.|+.++|.++|++|.+.|+.||..||++|
T Consensus       102 ~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~L  181 (501)
T 4g26_A          102 VPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAAL  181 (501)
T ss_dssp             CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHH
Confidence            99999999999999999999999999999974    79999999999999999999999999999999999999999999


Q ss_pred             HHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHc
Q 009066          280 LLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRA  322 (545)
Q Consensus       280 l~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~  322 (545)
                      |.+|++.|++++|.+++++|.+. +..|+..||+.+++.|...
T Consensus       182 i~~~~~~g~~d~A~~ll~~Mr~~-g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          182 LKVSMDTKNADKVYKTLQRLRDL-VRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH-TSSBCHHHHHHHHHHHHSH
T ss_pred             HHHHhhCCCHHHHHHHHHHHHHh-CCCcCHHHHHHHHHHHhcC
Confidence            99999999999999999999876 9999999999999988753

>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=99.95  E-value=1.3e-27  Score=243.45  Aligned_cols=200  Identities=12%  Similarity=0.114  Sum_probs=172.4

Q ss_pred             HHHHHHHHHHHhCCCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCC---------H
Q 009066          154 EDGLKLLRMMIGLGIRPNA-SSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGD---------L  223 (545)
Q Consensus       154 ~~A~~~~~~m~~~~~~pd~-~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~---------~  223 (545)
                      ..+..+.+++.+.++.+.+ ..++.+|.+|++.|++++|.++|++|.+.|+.||..+||+||.+|++.+.         +
T Consensus         7 s~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l   86 (501)
T 4g26_A            7 SPSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGL   86 (501)
T ss_dssp             -----------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHH
T ss_pred             chHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchH
Confidence            3456677788777766544 46888999999999999999999999999999999999999999998765         7


Q ss_pred             HHHHHHHHhcc----CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHh
Q 009066          224 EDACKLFLEIQ----RKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSM  299 (545)
Q Consensus       224 ~~A~~~f~~~~----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~  299 (545)
                      +.|.++|++|.    .||..+||+||.+|++.|++++|.++|++|.+.|+.||..||+.+|.+|++.|++++|.++|++|
T Consensus        87 ~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M  166 (501)
T 4g26_A           87 SRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHM  166 (501)
T ss_dssp             HHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHH
Confidence            88999999997    47999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC---CCCCCHhHHHHHHHHHHhc
Q 009066          300 VNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM---PFKPQPAIFGTLLSACRVH  354 (545)
Q Consensus       300 ~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m---~~~p~~~~~~~li~~~~~~  354 (545)
                      .+. |+.||..+|++|+++|++.|++++|.+++++|   +..|+..||+.++..|+..
T Consensus       167 ~~~-G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          167 VES-EVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HHT-TCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             Hhc-CCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            876 99999999999999999999999999999999   7889999999999988764

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.92  E-value=3.1e-23  Score=214.35  Aligned_cols=390  Identities=11%  Similarity=-0.006  Sum_probs=310.3

Q ss_pred             ccHHHHHHHHHHhCCCChHHHHHHHccCC--CCChhhHHHHHHHHHcCCCCHHHHHHHHhcCC---CCCeehHHHHHHHH
Q 009066            6 TVNWNSVLAGFAKQRGKLKDAQELFDKIP--QPDVVSYNIMLSCILLNSDDVVAAFDFFQRLP---IKDTASWNTMISGF   80 (545)
Q Consensus         6 ~~~~~~li~~~~~~g~~~~~A~~~f~~~~--~~~~~~~~~li~~~~~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~   80 (545)
                      ...+..+...|.+.|+ +++|...|+++.  .||...|..+...+.+. |++++|+..|+++.   +.+..+|..+..+|
T Consensus         6 a~~~~~~g~~~~~~g~-~~~A~~~~~~al~~~p~~~~~~~la~~~~~~-g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~   83 (514)
T 2gw1_A            6 ALALKDKGNQFFRNKK-YDDAIKYYNWALELKEDPVFYSNLSACYVSV-GDLKKVVEMSTKALELKPDYSKVLLRRASAN   83 (514)
T ss_dssp             HHHHHHHHHHHHHTSC-HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH-TCHHHHHHHHHHHHHHCSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcc-HHHHHHHHHHHHhcCccHHHHHhHHHHHHHH-hhHHHHHHHHHHHhccChHHHHHHHHHHHHH
Confidence            3456677888999999 999999999987  58988999999999999 99999999999877   44567899999999


Q ss_pred             HhCCCHHHHHHHHhhCCc---CCHhHHHHHHHHHHHcCChHHHHHHHh--------------------------------
Q 009066           81 VQKKNMAKARDLFLAMPE---KNSVSWSAMISGYIECGQLDKAVELFK--------------------------------  125 (545)
Q Consensus        81 ~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~f~--------------------------------  125 (545)
                      .+.|++++|...|+++..   .+......++..+.+......+.+.+.                                
T Consensus        84 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  163 (514)
T 2gw1_A           84 EGLGKFADAMFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTS  163 (514)
T ss_dssp             HHTTCHHHHHHHHHHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHHH
T ss_pred             HHHhhHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHH
Confidence            999999999999998763   233333444444433222222222221                                


Q ss_pred             ------hCC---------CC-CcccHHHHHHHhcchhhhccCChHHHHHHHHHHHh-----CCCCC--------CHHHHH
Q 009066          126 ------VAP---------VK-SVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIG-----LGIRP--------NASSLS  176 (545)
Q Consensus       126 ------~~~---------~~-~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~-----~~~~p--------d~~t~~  176 (545)
                            ...         .+ +...|......+  ....+.|++++|+..|+++.+     ..-.|        +..++.
T Consensus       164 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  241 (514)
T 2gw1_A          164 MASFFGIFKPELTFANYDESNEADKELMNGLSN--LYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLE  241 (514)
T ss_dssp             HHHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHH--HSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHH
T ss_pred             HHHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHH--HHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHH
Confidence                  100         00 122233333333  000248999999999999987     32122        345777


Q ss_pred             HHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccC---CChhhHHHHHHHHHHcCC
Q 009066          177 SVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGK  253 (545)
Q Consensus       177 ~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~  253 (545)
                      .+...+...|++++|...++.+.+....  ..++..+...|...|++++|...|+++.+   .+...|..+...|...|+
T Consensus       242 ~~~~~~~~~~~~~~A~~~~~~~l~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  319 (514)
T 2gw1_A          242 HTGIFKFLKNDPLGAHEDIKKAIELFPR--VNSYIYMALIMADRNDSTEYYNYFDKALKLDSNNSSVYYHRGQMNFILQN  319 (514)
T ss_dssp             HHHHHHHHSSCHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCTTCTHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhhCcc--HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCcCCHHHHHHHHHHHHHhCC
Confidence            8888899999999999999999987643  78888999999999999999999998865   367789999999999999


Q ss_pred             hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHH
Q 009066          254 GEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIK  333 (545)
Q Consensus       254 ~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  333 (545)
                      +++|+..|+++..... .+..++..+...+...|++++|...++.+.+.  .+.+...+..+...|.+.|++++|...++
T Consensus       320 ~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~  396 (514)
T 2gw1_A          320 YDQAGKDFDKAKELDP-ENIFPYIQLACLAYRENKFDDCETLFSEAKRK--FPEAPEVPNFFAEILTDKNDFDKALKQYD  396 (514)
T ss_dssp             TTHHHHHHHHHHHTCS-SCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHH--STTCSHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCh-hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--cccCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            9999999999998643 35667888889999999999999999999874  34567889999999999999999999998


Q ss_pred             hC----CCCCC----HhHHHHHHHHHHh---cCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHh
Q 009066          334 KM----PFKPQ----PAIFGTLLSACRV---HKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSM  402 (545)
Q Consensus       334 ~m----~~~p~----~~~~~~li~~~~~---~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  402 (545)
                      ++    +..++    ...|..+...+..   .|++++|...++++++..|++.. ++..++.+|...|++++|...+++.
T Consensus       397 ~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~-~~~~la~~~~~~g~~~~A~~~~~~a  475 (514)
T 2gw1_A          397 LAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLDPRSEQ-AKIGLAQMKLQQEDIDEAITLFEES  475 (514)
T ss_dssp             HHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhCcccHH-HHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            87    22233    3489999999999   99999999999999999999887 9999999999999999999999998


Q ss_pred             hhC
Q 009066          403 KEN  405 (545)
Q Consensus       403 ~~~  405 (545)
                      .+.
T Consensus       476 ~~~  478 (514)
T 2gw1_A          476 ADL  478 (514)
T ss_dssp             HHH
T ss_pred             HHh
Confidence            764

>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=99.92  E-value=1.2e-22  Score=206.37  Aligned_cols=302  Identities=11%  Similarity=0.076  Sum_probs=228.0

Q ss_pred             eehHHHHHHHHHhCCCHHHHHHHHhhCCc---CCHhHHHHHHHHHHHcCChHHHHHHHhhCC---CCCcccHHHHHHHhc
Q 009066           70 TASWNTMISGFVQKKNMAKARDLFLAMPE---KNSVSWSAMISGYIECGQLDKAVELFKVAP---VKSVVAWTAMISGYM  143 (545)
Q Consensus        70 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~f~~~~---~~~~~~~~~li~~~~  143 (545)
                      ..+|..+...+.+.|++++|+.+|+++..   .+..++..+...|...|++++|...|+++.   ..+..+|..+...| 
T Consensus        26 ~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~-  104 (450)
T 2y4t_A           26 VEKHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKMDFTAARLQRGHLL-  104 (450)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH-
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHH-
Confidence            34555555566666666666666655542   345556666666666666666666665543   22345566666666 


Q ss_pred             chhhhccCChHHHHHHHHHHHhCCCCCCH----HHHHHH------------HHHHhccCcHHHHHHHHHHHHhCCCCCCc
Q 009066          144 KFGYVENSWAEDGLKLLRMMIGLGIRPNA----SSLSSV------------LLGCSHLSSLQLGKQVHQLVFKSPLCKDT  207 (545)
Q Consensus       144 ~~g~~~~g~~~~A~~~~~~m~~~~~~pd~----~t~~~l------------l~~~~~~~~~~~a~~~~~~~~~~g~~~~~  207 (545)
                          ...|++++|++.|+++.+.  .|+.    ..+..+            ...+...|++++|...++.+.+.. +.+.
T Consensus       105 ----~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~  177 (450)
T 2y4t_A          105 ----LKQGKLDEAEDDFKKVLKS--NPSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVC-VWDA  177 (450)
T ss_dssp             ----HHTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCH
T ss_pred             ----HHcCCHHHHHHHHHHHHhc--CCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCh
Confidence                6666666666666666653  2332    333333            344778899999999999998764 4577


Q ss_pred             ccHHHHHHHHHhcCCHHHHHHHHHhccC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCH-HHHHHH----
Q 009066          208 TALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDS-ITFVAL----  279 (545)
Q Consensus       208 ~~~~~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~t~~~l----  279 (545)
                      .++..++.+|.+.|++++|.+.|+++.+   .+..+|..+...|...|++++|+..|+++...  .|+. ..+..+    
T Consensus       178 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~~~~~~  255 (450)
T 2y4t_A          178 ELRELRAECFIKEGEPRKAISDLKAASKLKNDNTEAFYKISTLYYQLGDHELSLSEVRECLKL--DQDHKRCFAHYKQVK  255 (450)
T ss_dssp             HHHHHHHHHHHHTTCGGGGHHHHHHHHHHHCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCChHHHHHHHHHHH
Confidence            8889999999999999999999998864   57889999999999999999999999999875  3443 333333    


Q ss_pred             --------HHHHHccCcHHHHHHHHHHhHHhcCCCCC-----HHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHH
Q 009066          280 --------LLACNHAGLVDLGIQYFDSMVNDYGIAAK-----PDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIF  344 (545)
Q Consensus       280 --------l~a~~~~g~~~~a~~~~~~~~~~~~~~~~-----~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~  344 (545)
                              ..+|...|++++|...|+.+.+.   .|+     ..++..++.+|.+.|++++|...++++ ...| +...|
T Consensus       256 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~---~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~  332 (450)
T 2y4t_A          256 KLNKLIESAEELIRDGRYTDATSKYESVMKT---EPSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQMEPDNVNAL  332 (450)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CCSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc---CCcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHH
Confidence                    78899999999999999999874   344     457899999999999999999999987 3345 67899


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHH
Q 009066          345 GTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANI  385 (545)
Q Consensus       345 ~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~  385 (545)
                      ..+..+|...|++++|...++++++++|++.. ++..+..+
T Consensus       333 ~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~-~~~~l~~~  372 (450)
T 2y4t_A          333 KDRAEAYLIEEMYDEAIQDYETAQEHNENDQQ-IREGLEKA  372 (450)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHH-HHHHHHHH
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHhCcchHH-HHHHHHHH
Confidence            99999999999999999999999999999987 88888744

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.91  E-value=3.9e-22  Score=202.61  Aligned_cols=346  Identities=11%  Similarity=0.029  Sum_probs=265.9

Q ss_pred             ChhhHHHHHHHHHcCCCCHHHHHHHHhcCC---CCCeehHHHHHHHHHhCCCHHHHHHHHhhCCc---CCHhHHHHHHHH
Q 009066           37 DVVSYNIMLSCILLNSDDVVAAFDFFQRLP---IKDTASWNTMISGFVQKKNMAKARDLFLAMPE---KNSVSWSAMISG  110 (545)
Q Consensus        37 ~~~~~~~li~~~~~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~  110 (545)
                      +...|..+...+.+. |++++|+.+|+++.   +.+..+|..+...|.+.|++++|...|+++.+   .+..++..+..+
T Consensus        25 ~~~~~~~~~~~~~~~-g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~  103 (450)
T 2y4t_A           25 DVEKHLELGKKLLAA-GQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKMDFTAARLQRGHL  103 (450)
T ss_dssp             HHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHC-CCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHHHH
Confidence            445677777788888 88888888888776   44667888888888888888888888888763   356788888888


Q ss_pred             HHHcCChHHHHHHHhhCCCCC---c---ccHHHHHHH------------hcchhhhccCChHHHHHHHHHHHhCCCCCCH
Q 009066          111 YIECGQLDKAVELFKVAPVKS---V---VAWTAMISG------------YMKFGYVENSWAEDGLKLLRMMIGLGIRPNA  172 (545)
Q Consensus       111 ~~~~g~~~~A~~~f~~~~~~~---~---~~~~~li~~------------~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~  172 (545)
                      |.+.|++++|.+.|+++...+   .   ..|..++..            +     ...|++++|+..|+++.+.. +.+.
T Consensus       104 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~-----~~~~~~~~A~~~~~~~~~~~-~~~~  177 (450)
T 2y4t_A          104 LLKQGKLDEAEDDFKKVLKSNPSENEEKEAQSQLIKSDEMQRLRSQALNA-----FGSGDYTAAIAFLDKILEVC-VWDA  177 (450)
T ss_dssp             HHHTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHTCHHHHHHHHHHHHHHC-TTCH
T ss_pred             HHHcCCHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHHHHHHHHHHH-----HHcCCHHHHHHHHHHHHHhC-CCCh
Confidence            888888888888888765432   2   555555443            6     78899999999999998753 4477


Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccC--C-ChhhHHHH-----
Q 009066          173 SSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR--K-DVVTWNAM-----  244 (545)
Q Consensus       173 ~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~--~-~~~~~~~l-----  244 (545)
                      ..+..+..++...|++++|...+..+.+.. +.+..++..++.+|.+.|++++|...|+++.+  | +...+..+     
T Consensus       178 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~  256 (450)
T 2y4t_A          178 ELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQDHKRCFAHYKQVKK  256 (450)
T ss_dssp             HHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCChHHHHHHHHHHHH
Confidence            788888999999999999999999988764 45678889999999999999999999998863  3 44455554     


Q ss_pred             -------HHHHHHcCChHHHHHHHHHHHHcCCCCC-----HHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHH
Q 009066          245 -------ISGYAQHGKGEKALRLFDKMKDEGMKPD-----SITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHY  312 (545)
Q Consensus       245 -------i~~~~~~g~~~~A~~~~~~m~~~g~~p~-----~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  312 (545)
                             ...+...|++++|+..|+++...  .|+     ...+..+..++.+.|++++|...++.+.+.  .+.+...|
T Consensus       257 ~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~--~p~~~~~~  332 (450)
T 2y4t_A          257 LNKLIESAEELIRDGRYTDATSKYESVMKT--EPSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQM--EPDNVNAL  332 (450)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CCSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH--CTTCHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CcccHHHH
Confidence                   78899999999999999999884  344     346778888999999999999999998764  24568899


Q ss_pred             HHHHHHHhHcCCHHHHHHHHHhC-CCCCC-HhHHHHHHHH------------HHhcC-----CHHHHHHHHHH-HhcCCC
Q 009066          313 TCMVDLLGRAGKLVEAVDLIKKM-PFKPQ-PAIFGTLLSA------------CRVHK-----RLDLAEFAAMN-LFNLNP  372 (545)
Q Consensus       313 ~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~li~~------------~~~~g-----~~~~A~~~~~~-~~~~~p  372 (545)
                      ..+..+|...|++++|...|+++ ...|+ ...+..+..+            |...|     +.+++.+.+++ .++..|
T Consensus       333 ~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~~~y~~lg~~~~~~~~~~~~~y~~~~l~~~p  412 (450)
T 2y4t_A          333 KDRAEAYLIEEMYDEAIQDYETAQEHNENDQQIREGLEKAQRLLKQSQKRDYYKILGVKRNAKKQEIIKAYRKLALQWHP  412 (450)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHHHHHHSCCSGGGSCSSTTCCTTHHHHHHHHHHHHSCG
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHhCcchHHHHHHHHHHHHHhhcccchhHHHHhCCCccCCHHHHHHHHHHHHHHhCC
Confidence            99999999999999999999987 55564 4556665533            33334     56777888886 677777


Q ss_pred             CCCc---------hhHHHHHHHHHHcCCchH
Q 009066          373 ANAA---------GCYVQLANIYAAMKKWDD  394 (545)
Q Consensus       373 ~~~~---------~~~~~l~~~~~~~g~~~~  394 (545)
                      +...         ..+..+..+|...|+.+.
T Consensus       413 d~~~~~~~~~~a~~~~~~i~~ay~~L~d~~~  443 (450)
T 2y4t_A          413 DNFQNEEEKKKAEKKFIDIAAAKEVLSDPEM  443 (450)
T ss_dssp             GGCCSHHHHHHHHHHHHHHHHHHHHSSGGGG
T ss_pred             CCCCCchHHHHHHHHHHHHHHHHHHhCCHHH
Confidence            6532         134455555555555443

>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=99.89  E-value=1.4e-21  Score=203.24  Aligned_cols=389  Identities=13%  Similarity=0.074  Sum_probs=297.9

Q ss_pred             ccHHHHHHHHHHhCCCChHHHHHHHccCC--C-CChhhHHHHHHHHHcCCCCHHHHHHHHhcCC---CCCeehHHHHHHH
Q 009066            6 TVNWNSVLAGFAKQRGKLKDAQELFDKIP--Q-PDVVSYNIMLSCILLNSDDVVAAFDFFQRLP---IKDTASWNTMISG   79 (545)
Q Consensus         6 ~~~~~~li~~~~~~g~~~~~A~~~f~~~~--~-~~~~~~~~li~~~~~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~   79 (545)
                      ...+..+...|.+.|+ +++|.+.|+++.  . .+...|..+...+.+. |++++|++.|+++.   +.+..+|..+...
T Consensus        25 a~~~~~~g~~~~~~g~-~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~-g~~~~A~~~~~~al~~~p~~~~~~~~la~~  102 (537)
T 3fp2_A           25 AVQLKNRGNHFFTAKN-FNEAIKYYQYAIELDPNEPVFYSNISACYIST-GDLEKVIEFTTKALEIKPDHSKALLRRASA  102 (537)
T ss_dssp             HHHHHHHHHHHHHTTC-CC-CHHHHHHHHHHCTTCHHHHHHHHHHHHHH-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcc-HHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHc-CCHHHHHHHHHHHHhcCCchHHHHHHHHHH
Confidence            3456778889999999 999999999876  3 4567788888888888 99999999999887   4567789999999


Q ss_pred             HHhCCCHHHHHHHHhhCCcCCHhHHHHHHHHHHHcCChHHHHHHHhhCCCC-----------------------------
Q 009066           80 FVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAPVK-----------------------------  130 (545)
Q Consensus        80 ~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~-----------------------------  130 (545)
                      +...|++++|...|+.+ ..++......+..+...+...+|...++.+...                             
T Consensus       103 ~~~~g~~~~A~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  181 (537)
T 3fp2_A          103 NESLGNFTDAMFDLSVL-SLNGDFDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVS  181 (537)
T ss_dssp             HHHHTCHHHHHHHHHHH-C-----------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHH-hcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHH
Confidence            99999999999999744 333333333444555555556666666554321                             


Q ss_pred             --------Ccc---cHHHHHHHhcchh---hhccCChHHHHHHHHHHHhCCCCCC--------HHHHHHHHHHHhccCcH
Q 009066          131 --------SVV---AWTAMISGYMKFG---YVENSWAEDGLKLLRMMIGLGIRPN--------ASSLSSVLLGCSHLSSL  188 (545)
Q Consensus       131 --------~~~---~~~~li~~~~~~g---~~~~g~~~~A~~~~~~m~~~~~~pd--------~~t~~~ll~~~~~~~~~  188 (545)
                              +..   .+..+...+...+   ....|++++|+.+|+++.+.  .|+        ..++..+...+...|++
T Consensus       182 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~--~p~~~~~~~~~~~~~~~~g~~~~~~~~~  259 (537)
T 3fp2_A          182 SVNTSSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSA--NTVDDPLRENAALALCYTGIFHFLKNNL  259 (537)
T ss_dssp             TSCCCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC----CCCHHHHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHhhccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHH--CCCcchhhHHHHHHHHHHHHHHHhcccH
Confidence                    111   2222222220000   01124788999999999875  344        22466666778889999


Q ss_pred             HHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccC---CChhhHHHHHHHHHHcCChHHHHHHHHHHH
Q 009066          189 QLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMK  265 (545)
Q Consensus       189 ~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  265 (545)
                      ++|...+..+.+..  |+..++..+...|...|++++|...|+++.+   .+..+|..+...|...|++++|+..|+++.
T Consensus       260 ~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~  337 (537)
T 3fp2_A          260 LDAQVLLQESINLH--PTPNSYIFLALTLADKENSQEFFKFFQKAVDLNPEYPPTYYHRGQMYFILQDYKNAKEDFQKAQ  337 (537)
T ss_dssp             HHHHHHHHHHHHHC--CCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcC--CCchHHHHHHHHHHHhcCHHHHHHHHHHHhccCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            99999999999875  4477888899999999999999999998864   467889999999999999999999999999


Q ss_pred             HcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC----CCCC--
Q 009066          266 DEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM----PFKP--  339 (545)
Q Consensus       266 ~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~p--  339 (545)
                      .... .+...+..+..++...|++++|...++.+.+.  .+.+...+..+...|...|++++|.+.|+++    +..+  
T Consensus       338 ~~~~-~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~  414 (537)
T 3fp2_A          338 SLNP-ENVYPYIQLACLLYKQGKFTESEAFFNETKLK--FPTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKI  414 (537)
T ss_dssp             HHCT-TCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSC
T ss_pred             HhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhh
Confidence            8642 24567888889999999999999999999874  3556788999999999999999999999886    1111  


Q ss_pred             --CHhHHHHHHHHHHhc----------CCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhhC
Q 009066          340 --QPAIFGTLLSACRVH----------KRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKEN  405 (545)
Q Consensus       340 --~~~~~~~li~~~~~~----------g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  405 (545)
                        ....+..+...+...          |++++|...++++++.+|++.. ++..++.+|...|++++|.+.+++..+.
T Consensus       415 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~-~~~~l~~~~~~~g~~~~A~~~~~~al~~  491 (537)
T 3fp2_A          415 HVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELDPRSEQ-AKIGLAQLKLQMEKIDEAIELFEDSAIL  491 (537)
T ss_dssp             SSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence              223345556677777          9999999999999999999987 9999999999999999999999998764

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.87  E-value=9.6e-21  Score=195.57  Aligned_cols=367  Identities=14%  Similarity=0.024  Sum_probs=290.3

Q ss_pred             CCccHHHHHHHHHHhCCCChHHHHHHHccCC--CC-ChhhHHHHHHHHHcCCCCHHHHHHHHhcCC---CCCeehHHHHH
Q 009066            4 KTTVNWNSVLAGFAKQRGKLKDAQELFDKIP--QP-DVVSYNIMLSCILLNSDDVVAAFDFFQRLP---IKDTASWNTMI   77 (545)
Q Consensus         4 ~~~~~~~~li~~~~~~g~~~~~A~~~f~~~~--~~-~~~~~~~li~~~~~~~g~~~~A~~~~~~m~---~~d~~~~~~li   77 (545)
                      ||+.++..+..+|.+.|+ +++|...|+.+.  .| +...|..+...+... |++++|+..|+++.   +++......++
T Consensus        37 p~~~~~~~la~~~~~~g~-~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~~~~~~~~~~~~~  114 (514)
T 2gw1_A           37 EDPVFYSNLSACYVSVGD-LKKVVEMSTKALELKPDYSKVLLRRASANEGL-GKFADAMFDLSVLSLNGDFNDASIEPML  114 (514)
T ss_dssp             CCHHHHHHHHHHHHHHTC-HHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHSSSCCGGGTHHHH
T ss_pred             ccHHHHHhHHHHHHHHhh-HHHHHHHHHHHhccChHHHHHHHHHHHHHHHH-hhHHHHHHHHHHHHhcCCCccchHHHHH
Confidence            578899999999999999 999999999876  34 456788888899999 99999999999876   33444444555


Q ss_pred             HHHHhCCCHHHHHHHHh--------------------------------------hCC----------cCCHhHHHHHHH
Q 009066           78 SGFVQKKNMAKARDLFL--------------------------------------AMP----------EKNSVSWSAMIS  109 (545)
Q Consensus        78 ~~~~~~g~~~~a~~~~~--------------------------------------~~~----------~~~~~~~~~li~  109 (545)
                      ..+........+.+.+.                                      ...          ..+...+..+..
T Consensus       115 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  194 (514)
T 2gw1_A          115 ERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSMASFFGIFKPELTFANYDESNEADKELMNGL  194 (514)
T ss_dssp             HHHHHHHHHHHHTTC---------------------------CCCCHHHHHHHHTTSCCCCCCSSCCSSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHHHHHHhhcCHHHHHHHhcCCcHHHHHHHHHH
Confidence            44443222222222221                                      110          112444555555


Q ss_pred             HHHH---cCChHHHHHHHhhCCC----------------C-CcccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCC
Q 009066          110 GYIE---CGQLDKAVELFKVAPV----------------K-SVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIR  169 (545)
Q Consensus       110 ~~~~---~g~~~~A~~~f~~~~~----------------~-~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~  169 (545)
                      .+..   .|++++|...|+++..                + +..+|..+...+     ...|++++|+..|+++.+..  
T Consensus       195 ~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~A~~~~~~~l~~~--  267 (514)
T 2gw1_A          195 SNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFK-----FLKNDPLGAHEDIKKAIELF--  267 (514)
T ss_dssp             HHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHH-----HHSSCHHHHHHHHHHHHHHC--
T ss_pred             HHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHH-----HHCCCHHHHHHHHHHHHhhC--
Confidence            5554   8999999999987543                1 245777888888     99999999999999998864  


Q ss_pred             CCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccC---CChhhHHHHHH
Q 009066          170 PNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMIS  246 (545)
Q Consensus       170 pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~  246 (545)
                      |+...+..+..++...|++++|...++.+.+.. +.+..++..+...|...|++++|...|+++.+   .+...|..+..
T Consensus       268 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~  346 (514)
T 2gw1_A          268 PRVNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQMNFILQNYDQAGKDFDKAKELDPENIFPYIQLAC  346 (514)
T ss_dssp             CCHHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTCSSCSHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhChhhHHHHHHHHH
Confidence            447788889999999999999999999999875 45677889999999999999999999998753   46788999999


Q ss_pred             HHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCC----HHHHHHHHHHHhH-
Q 009066          247 GYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAK----PDHYTCMVDLLGR-  321 (545)
Q Consensus       247 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~~li~~~~~-  321 (545)
                      .|...|++++|+..|+++.+.. +.+..++..+...+...|++++|...++.+.+...-.++    ...+..+...|.+ 
T Consensus       347 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~  425 (514)
T 2gw1_A          347 LAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRN  425 (514)
T ss_dssp             HTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTS
T ss_pred             HHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhh
Confidence            9999999999999999998753 235677888889999999999999999998764322232    4488999999999 


Q ss_pred             --cCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHH
Q 009066          322 --AGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQL  382 (545)
Q Consensus       322 --~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l  382 (545)
                        .|++++|...++++ ...| +..+|..+...+...|++++|...++++++++|++.. .+..+
T Consensus       426 ~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~-~~~~~  489 (514)
T 2gw1_A          426 PTVENFIEATNLLEKASKLDPRSEQAKIGLAQMKLQQEDIDEAITLFEESADLARTMEE-KLQAI  489 (514)
T ss_dssp             CCTTHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSHHH-HHHHH
T ss_pred             hhcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhccccHH-HHHHH
Confidence              99999999999987 2234 5678899999999999999999999999999998865 44444

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.85  E-value=1.2e-18  Score=170.80  Aligned_cols=301  Identities=11%  Similarity=0.083  Sum_probs=183.2

Q ss_pred             ehHHHHHHHHHhCCCHHHHHHHHhhCCc---CCHhHHHHHHHHHHHcCChHHHHHHHhhCC---CCCcccHHHHHHHhcc
Q 009066           71 ASWNTMISGFVQKKNMAKARDLFLAMPE---KNSVSWSAMISGYIECGQLDKAVELFKVAP---VKSVVAWTAMISGYMK  144 (545)
Q Consensus        71 ~~~~~li~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~f~~~~---~~~~~~~~~li~~~~~  144 (545)
                      ..|..+...+.+.|++++|...|+++..   .+..++..+...|...|++++|...|++..   ..+...|..+...+  
T Consensus         4 ~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~--   81 (359)
T 3ieg_A            4 EKHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIALKMDFTAARLQRGHLL--   81 (359)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH--
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCcchHHHHHHHHH--
Confidence            3455566666666666666666666552   345566666666666666666666665543   22345566666666  


Q ss_pred             hhhhccCChHHHHHHHHHHHhCCCCC----CHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhc
Q 009066          145 FGYVENSWAEDGLKLLRMMIGLGIRP----NASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKC  220 (545)
Q Consensus       145 ~g~~~~g~~~~A~~~~~~m~~~~~~p----d~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~  220 (545)
                         ...|++++|+..|+++.+.  .|    +...+..+....       ..                ..+..+...+...
T Consensus        82 ---~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~-------~~----------------~~~~~~a~~~~~~  133 (359)
T 3ieg_A           82 ---LKQGKLDEAEDDFKKVLKS--NPSEQEEKEAESQLVKAD-------EM----------------QRLRSQALDAFDG  133 (359)
T ss_dssp             ---HHHTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHH-------HH----------------HHHHHHHHHHHHT
T ss_pred             ---HHcCChHHHHHHHHHHHhc--CCcccChHHHHHHHHHHH-------HH----------------HHHHHHHHHHHHc
Confidence               6666666666666666653  23    222222221000       00                0011224566666


Q ss_pred             CCHHHHHHHHHhccC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHH
Q 009066          221 GDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFD  297 (545)
Q Consensus       221 g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~  297 (545)
                      |++++|.+.|+++.+   .+...|..+...+...|++++|+..++++.... +.+..++..+...+...|++++|...++
T Consensus       134 ~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~  212 (359)
T 3ieg_A          134 ADYTAAITFLDKILEVCVWDAELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVR  212 (359)
T ss_dssp             TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            777777776666542   355566666666777777777777777766542 2345566666666667777777777776


Q ss_pred             HhHHhcCCCCCHHHHH------------HHHHHHhHcCCHHHHHHHHHhC-CCCCC-H----hHHHHHHHHHHhcCCHHH
Q 009066          298 SMVNDYGIAAKPDHYT------------CMVDLLGRAGKLVEAVDLIKKM-PFKPQ-P----AIFGTLLSACRVHKRLDL  359 (545)
Q Consensus       298 ~~~~~~~~~~~~~~~~------------~li~~~~~~g~~~~A~~~~~~m-~~~p~-~----~~~~~li~~~~~~g~~~~  359 (545)
                      ...+..  +.+...+.            .+...+.+.|++++|...+++. ...|+ .    ..+..+...+...|++++
T Consensus       213 ~a~~~~--~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~  290 (359)
T 3ieg_A          213 ECLKLD--QDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPSVAEYTVRSKERICHCFSKDEKPVE  290 (359)
T ss_dssp             HHHHHC--TTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHhhC--ccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHccCHHH
Confidence            666531  22222222            2356677788888888887766 22233 2    234456677778888888


Q ss_pred             HHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhhC
Q 009066          360 AEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKEN  405 (545)
Q Consensus       360 A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  405 (545)
                      |...++++++.+|++.. ++..++.+|...|++++|.+.+++..+.
T Consensus       291 A~~~~~~~~~~~~~~~~-~~~~~~~~~~~~g~~~~A~~~~~~a~~~  335 (359)
T 3ieg_A          291 AIRICSEVLQMEPDNVN-ALKDRAEAYLIEEMYDEAIQDYEAAQEH  335 (359)
T ss_dssp             HHHHHHHHHHHCTTCHH-HHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhCcccHH-HHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            88888888888887776 7888888888888888888888877653

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.85  E-value=7.5e-19  Score=172.14  Aligned_cols=319  Identities=12%  Similarity=0.057  Sum_probs=229.3

Q ss_pred             ChhhHHHHHHHHHcCCCCHHHHHHHHhcCC---CCCeehHHHHHHHHHhCCCHHHHHHHHhhCCc---CCHhHHHHHHHH
Q 009066           37 DVVSYNIMLSCILLNSDDVVAAFDFFQRLP---IKDTASWNTMISGFVQKKNMAKARDLFLAMPE---KNSVSWSAMISG  110 (545)
Q Consensus        37 ~~~~~~~li~~~~~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~  110 (545)
                      |+..|..+...+... |++++|+..|+++.   +.+..+|..+...+...|++++|...|+++..   .+..++..+...
T Consensus         2 ~~~~~~~~~~~~~~~-g~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~   80 (359)
T 3ieg_A            2 DVEKHLELGKKLLAA-GQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIALKMDFTAARLQRGHL   80 (359)
T ss_dssp             HHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHc-CCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCcchHHHHHHHH
Confidence            345677777888888 99999999999886   45677899999999999999999999998873   467889999999


Q ss_pred             HHHcCChHHHHHHHhhCCCCCc------ccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhc
Q 009066          111 YIECGQLDKAVELFKVAPVKSV------VAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSH  184 (545)
Q Consensus       111 ~~~~g~~~~A~~~f~~~~~~~~------~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~  184 (545)
                      |.+.|++++|...|++....++      ..|..+...+            .                ...+..+...+..
T Consensus        81 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~------------~----------------~~~~~~~a~~~~~  132 (359)
T 3ieg_A           81 LLKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKAD------------E----------------MQRLRSQALDAFD  132 (359)
T ss_dssp             HHHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHH------------H----------------HHHHHHHHHHHHH
T ss_pred             HHHcCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHH------------H----------------HHHHHHHHHHHHH
Confidence            9999999999999998754333      2333332111            0                0112223344555


Q ss_pred             cCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccC---CChhhHHHHHHHHHHcCChHHHHHHH
Q 009066          185 LSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLF  261 (545)
Q Consensus       185 ~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~  261 (545)
                      .|++++|...+..+.+.. +.+..++..+...|.+.|++++|...|+++.+   .+..+|..+...|...|++++|+..|
T Consensus       133 ~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~  211 (359)
T 3ieg_A          133 GADYTAAITFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLKSDNTEAFYKISTLYYQLGDHELSLSEV  211 (359)
T ss_dssp             TTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCSCCHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            566666666666655543 33445566666666667777777777666553   35566777777777777777777777


Q ss_pred             HHHHHcCCCCCHHHHH------------HHHHHHHccCcHHHHHHHHHHhHHhcCCCCCH----HHHHHHHHHHhHcCCH
Q 009066          262 DKMKDEGMKPDSITFV------------ALLLACNHAGLVDLGIQYFDSMVNDYGIAAKP----DHYTCMVDLLGRAGKL  325 (545)
Q Consensus       262 ~~m~~~g~~p~~~t~~------------~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~----~~~~~li~~~~~~g~~  325 (545)
                      ++..+.... +...+.            .+...+...|++++|...++.+.+..  +.+.    ..+..+...|...|++
T Consensus       212 ~~a~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~la~~~~~~~~~  288 (359)
T 3ieg_A          212 RECLKLDQD-HKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTE--PSVAEYTVRSKERICHCFSKDEKP  288 (359)
T ss_dssp             HHHHHHCTT-CHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CSSHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHhhCcc-chHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHHHHHHccCH
Confidence            777664211 222221            23556788899999999998887642  2223    3355688899999999


Q ss_pred             HHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHc
Q 009066          326 VEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAM  389 (545)
Q Consensus       326 ~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~  389 (545)
                      ++|.+.+++. ...| +..+|..+...+...|++++|...++++++++|++.. .+..|..++...
T Consensus       289 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~p~~~~-~~~~l~~~~~~~  353 (359)
T 3ieg_A          289 VEAIRICSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEHNENDQQ-IREGLEKAQRLL  353 (359)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHH-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCChH-HHHHHHHHHHHH
Confidence            9999999887 3234 6788999999999999999999999999999999877 777777666543

>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=99.83  E-value=2.9e-18  Score=178.05  Aligned_cols=362  Identities=15%  Similarity=0.038  Sum_probs=275.9

Q ss_pred             CCCCccHHHHHHHHHHhCCCChHHHHHHHccCC--CC-ChhhHHHHHHHHHcCCCCHHHHHHHHhcCC-CCCeehHHHHH
Q 009066            2 NVKTTVNWNSVLAGFAKQRGKLKDAQELFDKIP--QP-DVVSYNIMLSCILLNSDDVVAAFDFFQRLP-IKDTASWNTMI   77 (545)
Q Consensus         2 ~~~~~~~~~~li~~~~~~g~~~~~A~~~f~~~~--~~-~~~~~~~li~~~~~~~g~~~~A~~~~~~m~-~~d~~~~~~li   77 (545)
                      +|.++.++..+...|.+.|+ +++|.+.|+++.  .| +...|..+...+... |++++|+..|+.+. .|+  ..+..+
T Consensus        55 ~p~~~~~~~~la~~~~~~g~-~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~-g~~~~A~~~~~~~~~~~~--~~~~~~  130 (537)
T 3fp2_A           55 DPNEPVFYSNISACYISTGD-LEKVIEFTTKALEIKPDHSKALLRRASANESL-GNFTDAMFDLSVLSLNGD--FDGASI  130 (537)
T ss_dssp             CTTCHHHHHHHHHHHHHHTC-HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH-TCHHHHHHHHHHHC------------
T ss_pred             CCCCcHHHHHHHHHHHHcCC-HHHHHHHHHHHHhcCCchHHHHHHHHHHHHHc-CCHHHHHHHHHHHhcCCC--CChHHH
Confidence            46678899999999999999 999999999876  34 456788888888888 99999999997553 222  222223


Q ss_pred             HHHHhCCCHHHHHHHHhhCCc-------------------------------------CCHh---HHHHHHHHHHH----
Q 009066           78 SGFVQKKNMAKARDLFLAMPE-------------------------------------KNSV---SWSAMISGYIE----  113 (545)
Q Consensus        78 ~~~~~~g~~~~a~~~~~~~~~-------------------------------------~~~~---~~~~li~~~~~----  113 (545)
                      ..+...+...+|...++.+..                                     .+..   ....+...+..    
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            334444445556666655542                                     1111   33333333332    


Q ss_pred             ----cCChHHHHHHHhhCCCCCc---c-------cHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 009066          114 ----CGQLDKAVELFKVAPVKSV---V-------AWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVL  179 (545)
Q Consensus       114 ----~g~~~~A~~~f~~~~~~~~---~-------~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll  179 (545)
                          .|++++|..+|+++...++   .       +|..+...+     ...|++++|+..|+++.+.  .|+...+..+.
T Consensus       211 ~~~a~~~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~g~~~-----~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~  283 (537)
T 3fp2_A          211 YLVANDLLTKSTDMYHSLLSANTVDDPLRENAALALCYTGIFH-----FLKNNLLDAQVLLQESINL--HPTPNSYIFLA  283 (537)
T ss_dssp             HHHHHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHH-----HHTTCHHHHHHHHHHHHHH--CCCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHCCCcchhhHHHHHHHHHHHHHH-----HhcccHHHHHHHHHHHHhc--CCCchHHHHHH
Confidence                2588999999988764332   2       355555666     8899999999999999985  56678888999


Q ss_pred             HHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccC---CChhhHHHHHHHHHHcCChHH
Q 009066          180 LGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEK  256 (545)
Q Consensus       180 ~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~  256 (545)
                      ..+...|++++|...+..+.+.. +.+..++..+...|...|++++|...|+++.+   .+...|..+...|...|++++
T Consensus       284 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~  362 (537)
T 3fp2_A          284 LTLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLNPENVYPYIQLACLLYKQGKFTE  362 (537)
T ss_dssp             HHTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCSHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHH
Confidence            99999999999999999998875 45678899999999999999999999998863   467889999999999999999


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcC----CCCCHHHHHHHHHHHhHc----------
Q 009066          257 ALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYG----IAAKPDHYTCMVDLLGRA----------  322 (545)
Q Consensus       257 A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~----~~~~~~~~~~li~~~~~~----------  322 (545)
                      |+..|+++.+.. +.+...+..+...+...|++++|...++.+.+...    .......+..+...|.+.          
T Consensus       363 A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  441 (537)
T 3fp2_A          363 SEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDE  441 (537)
T ss_dssp             HHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCH
T ss_pred             HHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhH
Confidence            999999999863 33566788888999999999999999999876421    111223345566778888          


Q ss_pred             CCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCc
Q 009066          323 GKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA  376 (545)
Q Consensus       323 g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~  376 (545)
                      |++++|...|++. ...| +...|..+...+...|++++|...+++++++.|+...
T Consensus       442 ~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~  497 (537)
T 3fp2_A          442 EKFNAAIKLLTKACELDPRSEQAKIGLAQLKLQMEKIDEAIELFEDSAILARTMDE  497 (537)
T ss_dssp             HHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CHH
T ss_pred             hHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCcHH
Confidence            9999999999987 2234 5688999999999999999999999999999998764

>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=99.83  E-value=2.6e-19  Score=174.23  Aligned_cols=308  Identities=13%  Similarity=0.105  Sum_probs=142.2

Q ss_pred             hCCCChHHHHHHHccCCCCChhhHHHHHHHHHcCCCCHHHHHHHHhcCCCCCeehHHHHHHHHHhCCCHHHHHHHHhhCC
Q 009066           18 KQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMP   97 (545)
Q Consensus        18 ~~g~~~~~A~~~f~~~~~~~~~~~~~li~~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~a~~~~~~~~   97 (545)
                      +.|+ +++|.+.++++++|+  +|..+..++.+. |++++|++.|.+.  +|..+|..++.++...|++++|+..++..+
T Consensus        15 ~~~~-ld~A~~fae~~~~~~--vWs~La~A~l~~-g~~~eAIdsfika--~D~~~y~~V~~~ae~~g~~EeAi~yl~~ar   88 (449)
T 1b89_A           15 HIGN-LDRAYEFAERCNEPA--VWSQLAKAQLQK-GMVKEAIDSYIKA--DDPSSYMEVVQAANTSGNWEELVKYLQMAR   88 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccC-HHHHHHHHHhCCChH--HHHHHHHHHHHc-CCHHHHHHHHHcC--CCHHHHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence            5677 999999999997775  799999999999 9999999999764  577799999999999999999999877766


Q ss_pred             c--CCHhHHHHHHHHHHHcCChHHHHHHHhhCCCCCcccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHH
Q 009066           98 E--KNSVSWSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSL  175 (545)
Q Consensus        98 ~--~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~  175 (545)
                      +  +++.+.+.|+.+|.++|+++++.++|+.   |+..+|+.+...|     ...|++++|...|.++         ..|
T Consensus        89 k~~~~~~i~~~Li~~Y~Klg~l~e~e~f~~~---pn~~a~~~IGd~~-----~~~g~yeeA~~~Y~~a---------~n~  151 (449)
T 1b89_A           89 KKARESYVETELIFALAKTNRLAELEEFING---PNNAHIQQVGDRC-----YDEKMYDAAKLLYNNV---------SNF  151 (449)
T ss_dssp             --------------------CHHHHTTTTTC---C---------------------CTTTHHHHHHHT---------TCH
T ss_pred             HhCccchhHHHHHHHHHHhCCHHHHHHHHcC---CcHHHHHHHHHHH-----HHcCCHHHHHHHHHHh---------hhH
Confidence            3  4567889999999999999999888864   6777999999999     9999999999999976         368


Q ss_pred             HHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccCCChhhHHHHHHHHHHcCChH
Q 009066          176 SSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGE  255 (545)
Q Consensus       176 ~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~  255 (545)
                      ..+..++.+.|++++|.+.+..+      .++.+|..++.+|...|+++.|......+. .++.....++..|.+.|+++
T Consensus       152 ~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~-~~ad~l~~lv~~Yek~G~~e  224 (449)
T 1b89_A          152 GRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV-VHADELEELINYYQDRGYFE  224 (449)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT-TCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHHH-hCHhhHHHHHHHHHHCCCHH
Confidence            88899999999999999999888      367889999999999999999987777654 44444556888899999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHH--ccCcHHHHHHHHHHhHHhcCCCC------CHHHHHHHHHHHhHcCCHHH
Q 009066          256 KALRLFDKMKDEGMKPDSITFVALLLACN--HAGLVDLGIQYFDSMVNDYGIAA------KPDHYTCMVDLLGRAGKLVE  327 (545)
Q Consensus       256 ~A~~~~~~m~~~g~~p~~~t~~~ll~a~~--~~g~~~~a~~~~~~~~~~~~~~~------~~~~~~~li~~~~~~g~~~~  327 (545)
                      +|+.+++..+... +-....|+.+.-+++  +.+++.+..+.|..-   -+++|      +...|..++-.|..-++++.
T Consensus       225 Eai~lLe~aL~le-~ah~~~ftel~il~~ky~p~k~~ehl~~~~~~---ini~k~~~~~~~~~~w~e~~~ly~~~~e~d~  300 (449)
T 1b89_A          225 ELITMLEAALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFWSR---VNIPKVLRAAEQAHLWAELVFLYDKYEEYDN  300 (449)
T ss_dssp             HHHHHHHHHTTST-TCCHHHHHHHHHHHHTTCHHHHHHHHHHHSTT---SCHHHHHHHHHTTTCHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHhCCc-HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH---hcCcHHHHHHHHHHHHHHHHHHHHhhchHHH
Confidence            9999999887543 334445555544444  445555666555422   24455      45678888999999999998


Q ss_pred             HHHHHHhCCCCCCHhHHHHHHHHHHhcCCHHHHH
Q 009066          328 AVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAE  361 (545)
Q Consensus       328 A~~~~~~m~~~p~~~~~~~li~~~~~~g~~~~A~  361 (545)
                      |...+-+-+  |+..--..+.....+-.+.+.--
T Consensus       301 A~~tm~~h~--~~a~~~~~f~~~~~kv~n~elyY  332 (449)
T 1b89_A          301 AIITMMNHP--TDAWKEGQFKDIITKVANVELYY  332 (449)
T ss_dssp             HHHHHHHST--TTTCCHHHHHHHHHHCSSTHHHH
T ss_pred             HHHHHHhCC--hhhhhhHHHHHHHhchhHHHHHH
Confidence            887665543  33333333334444444444333

>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=99.83  E-value=5.7e-18  Score=163.94  Aligned_cols=285  Identities=10%  Similarity=0.018  Sum_probs=215.6

Q ss_pred             CCHhHHHHHHHHHHHcCChHHHHHHHhhCC---CCCcccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHH
Q 009066           99 KNSVSWSAMISGYIECGQLDKAVELFKVAP---VKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSL  175 (545)
Q Consensus        99 ~~~~~~~~li~~~~~~g~~~~A~~~f~~~~---~~~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~  175 (545)
                      .++.++..+...+...|++++|.++|+++.   ..+...+..++..+     ...|++++|+.+++++.+.. +.+...+
T Consensus        20 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~-----~~~~~~~~A~~~~~~~~~~~-~~~~~~~   93 (330)
T 3hym_B           20 ENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKDPFHASCLPVHIGTL-----VELNKANELFYLSHKLVDLY-PSNPVSW   93 (330)
T ss_dssp             CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTTHHHHHHHH-----HHHTCHHHHHHHHHHHHHHC-TTSTHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCChhhHHHHHHHH-----HHhhhHHHHHHHHHHHHHhC-cCCHHHH
Confidence            345556666666777777777777776654   22445666667777     77788888888888877643 3356677


Q ss_pred             HHHHHHHhccC-cHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccC---CChhhHHHHHHHHHHc
Q 009066          176 SSVLLGCSHLS-SLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQH  251 (545)
Q Consensus       176 ~~ll~~~~~~~-~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~  251 (545)
                      ..+...+...| ++++|...++.+.+.. +.+...+..+...|...|++++|...|+++.+   .+...|..+...|...
T Consensus        94 ~~l~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~  172 (330)
T 3hym_B           94 FAVGCYYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKGCHLPMLYIGLEYGLT  172 (330)
T ss_dssp             HHHHHHHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCSHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccccHHHHHHHHHHHHHH
Confidence            77777777788 7888888888887765 44566777888888888888888888887763   3456777788888888


Q ss_pred             CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcC-------CCCCHHHHHHHHHHHhHcCC
Q 009066          252 GKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYG-------IAAKPDHYTCMVDLLGRAGK  324 (545)
Q Consensus       252 g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~-------~~~~~~~~~~li~~~~~~g~  324 (545)
                      |++++|+..|++..+.. +.+...+..+...+...|++++|...++...+...       .+.....+..+...|.+.|+
T Consensus       173 ~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~  251 (330)
T 3hym_B          173 NNSKLAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKK  251 (330)
T ss_dssp             TCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTC
T ss_pred             hhHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcC
Confidence            89999999888888753 33567777888888888999999988888776321       13446788899999999999


Q ss_pred             HHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHH-HHcCCc
Q 009066          325 LVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIY-AAMKKW  392 (545)
Q Consensus       325 ~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~-~~~g~~  392 (545)
                      +++|...+++. ...| +...|..+...+...|++++|...++++++++|++.. ++..++.++ ...|+.
T Consensus       252 ~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~-~~~~l~~~~~~~~g~~  321 (330)
T 3hym_B          252 YAEALDYHRQALVLIPQNASTYSAIGYIHSLMGNFENAVDYFHTALGLRRDDTF-SVTMLGHCIEMYIGDS  321 (330)
T ss_dssp             HHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTCSCCHH-HHHHHHHHHHTTTTC-
T ss_pred             HHHHHHHHHHHHhhCccchHHHHHHHHHHHHhccHHHHHHHHHHHHccCCCchH-HHHHHHHHHHHHhCch
Confidence            99999999877 2223 5678899999999999999999999999999999887 888888887 445543

>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=99.81  E-value=2.9e-18  Score=168.99  Aligned_cols=279  Identities=10%  Similarity=0.012  Sum_probs=202.7

Q ss_pred             HcCChHHHHH-HHhhCCC-------CCcccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhc
Q 009066          113 ECGQLDKAVE-LFKVAPV-------KSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSH  184 (545)
Q Consensus       113 ~~g~~~~A~~-~f~~~~~-------~~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~  184 (545)
                      ..|++++|.+ .|++...       .+...|..+...+     ...|++++|+..|+++.+.. +.+..++..+..++..
T Consensus        37 ~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~-----~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~  110 (368)
T 1fch_A           37 WLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRR-----LQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAE  110 (368)
T ss_dssp             ---------CHHHHCCCCCCSSCTTTTCSSHHHHHHHH-----HHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHH-----HHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH
Confidence            3456666666 5554321       1245566666677     77777777777777777653 3355666667777777


Q ss_pred             cCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccCC---ChhhHHH---------------HHH
Q 009066          185 LSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRK---DVVTWNA---------------MIS  246 (545)
Q Consensus       185 ~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~---~~~~~~~---------------li~  246 (545)
                      .|++++|...++.+++.. +.+..++..+...|...|++++|...|+++.+.   +...+..               .+.
T Consensus       111 ~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  189 (368)
T 1fch_A          111 NEQELLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILG  189 (368)
T ss_dssp             TTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTH
T ss_pred             CcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHhhhhcccHHHHHHH
Confidence            777777777777776654 345666677777777777777777777766531   2222211               233


Q ss_pred             HHHHcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCH
Q 009066          247 GYAQHGKGEKALRLFDKMKDEGMKP-DSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKL  325 (545)
Q Consensus       247 ~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  325 (545)
                      .+...|++++|+..|+++.+..... +..++..+...+...|++++|...++.+.+.  .+.+...+..+...|.+.|++
T Consensus       190 ~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~g~~  267 (368)
T 1fch_A          190 SLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV--RPNDYLLWNKLGATLANGNQS  267 (368)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHcCCH
Confidence            3448899999999999998853221 5788888999999999999999999998864  355678999999999999999


Q ss_pred             HHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCC-----------CchhHHHHHHHHHHcCCc
Q 009066          326 VEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPAN-----------AAGCYVQLANIYAAMKKW  392 (545)
Q Consensus       326 ~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~-----------~~~~~~~l~~~~~~~g~~  392 (545)
                      ++|...|+++ ...| +...|..+...+...|++++|...+++++++.|++           .. +|..++.+|...|++
T Consensus       268 ~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~  346 (368)
T 1fch_A          268 EEAVAAYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSEN-IWSTLRLALSMLGQS  346 (368)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHH-HHHHHHHHHHHHTCG
T ss_pred             HHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhH-HHHHHHHHHHHhCCh
Confidence            9999999987 3334 56889999999999999999999999999988876           45 899999999999999


Q ss_pred             hHHHHHHHH
Q 009066          393 DDVARIRLS  401 (545)
Q Consensus       393 ~~a~~~~~~  401 (545)
                      ++|..++++
T Consensus       347 ~~A~~~~~~  355 (368)
T 1fch_A          347 DAYGAADAR  355 (368)
T ss_dssp             GGHHHHHTT
T ss_pred             HhHHHhHHH
Confidence            999998763

>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=99.80  E-value=2e-17  Score=160.14  Aligned_cols=265  Identities=12%  Similarity=0.056  Sum_probs=229.1

Q ss_pred             CCcccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCccc
Q 009066          130 KSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTA  209 (545)
Q Consensus       130 ~~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~  209 (545)
                      .+...+..+...+     ...|++++|+++|+++.+.. +.+...+..++.++...|++++|..++..+.+.. +.+..+
T Consensus        20 ~~~~~~~~~a~~~-----~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~   92 (330)
T 3hym_B           20 ENLDVVVSLAERH-----YYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVS   92 (330)
T ss_dssp             CCCTTHHHHHHHH-----HHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHH
T ss_pred             hhHHHHHHHHHHH-----HHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHH
Confidence            4667778888888     88999999999999998764 3355566677788899999999999999999865 456788


Q ss_pred             HHHHHHHHHhcC-CHHHHHHHHHhccC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHc
Q 009066          210 LTPLISMYCKCG-DLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNH  285 (545)
Q Consensus       210 ~~~li~~y~~~g-~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~  285 (545)
                      +..+...|...| ++++|...|++..+   .+...|..+...|...|++++|+..|+++.+.... +...+..+...+..
T Consensus        93 ~~~l~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~  171 (330)
T 3hym_B           93 WFAVGCYYLMVGHKNEHARRYLSKATTLEKTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKG-CHLPMLYIGLEYGL  171 (330)
T ss_dssp             HHHHHHHHHHSCSCHHHHHHHHHHHHTTCTTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTT-CSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccc-cHHHHHHHHHHHHH
Confidence            889999999999 99999999998875   35778999999999999999999999999986432 45666678889999


Q ss_pred             cCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC----C-------CCCCHhHHHHHHHHHHhc
Q 009066          286 AGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM----P-------FKPQPAIFGTLLSACRVH  354 (545)
Q Consensus       286 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~-------~~p~~~~~~~li~~~~~~  354 (545)
                      .|++++|...++...+  ..+.+...+..+...|.+.|++++|...+++.    +       ...+..+|..+...+...
T Consensus       172 ~~~~~~A~~~~~~al~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~  249 (330)
T 3hym_B          172 TNNSKLAERFFSQALS--IAPEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKL  249 (330)
T ss_dssp             TTCHHHHHHHHHHHHT--TCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHT
T ss_pred             HhhHHHHHHHHHHHHH--hCCCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHh
Confidence            9999999999999986  33556889999999999999999999999876    1       023457899999999999


Q ss_pred             CCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhhC
Q 009066          355 KRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKEN  405 (545)
Q Consensus       355 g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  405 (545)
                      |++++|...++++++..|++.. ++..++.+|...|++++|.+.+++..+.
T Consensus       250 g~~~~A~~~~~~a~~~~~~~~~-~~~~la~~~~~~g~~~~A~~~~~~al~~  299 (330)
T 3hym_B          250 KKYAEALDYHRQALVLIPQNAS-TYSAIGYIHSLMGNFENAVDYFHTALGL  299 (330)
T ss_dssp             TCHHHHHHHHHHHHHHSTTCSH-HHHHHHHHHHHHTCHHHHHHHHHTTTTT
T ss_pred             cCHHHHHHHHHHHHhhCccchH-HHHHHHHHHHHhccHHHHHHHHHHHHcc
Confidence            9999999999999999999988 9999999999999999999999987653

>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=99.79  E-value=8.8e-19  Score=170.59  Aligned_cols=304  Identities=16%  Similarity=0.184  Sum_probs=152.9

Q ss_pred             HcCCCCHHHHHHHHhcCCCCCeehHHHHHHHHHhCCCHHHHHHHHhhCCcCCHhHHHHHHHHHHHcCChHHHHHHHhhCC
Q 009066           49 LLNSDDVVAAFDFFQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAP  128 (545)
Q Consensus        49 ~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~  128 (545)
                      ....|++++|.++++++..|  .+|..|+.++.+.|++++|++.|.+.  +|..+|..++..+...|++++|.+.++...
T Consensus        13 l~~~~~ld~A~~fae~~~~~--~vWs~La~A~l~~g~~~eAIdsfika--~D~~~y~~V~~~ae~~g~~EeAi~yl~~ar   88 (449)
T 1b89_A           13 IEHIGNLDRAYEFAERCNEP--AVWSQLAKAQLQKGMVKEAIDSYIKA--DDPSSYMEVVQAANTSGNWEELVKYLQMAR   88 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHccCHHHHHHHHHhCCCh--HHHHHHHHHHHHcCCHHHHHHHHHcC--CCHHHHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence            33438899999999999655  49999999999999999999999764  677799999999999999999999777655


Q ss_pred             C--CCcccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCC
Q 009066          129 V--KSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKD  206 (545)
Q Consensus       129 ~--~~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~  206 (545)
                      +  +++.+.+.++.+|     .+.|++.++.++++       .|+..+|..+...|...|.+++|+.+|..+        
T Consensus        89 k~~~~~~i~~~Li~~Y-----~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a--------  148 (449)
T 1b89_A           89 KKARESYVETELIFAL-----AKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV--------  148 (449)
T ss_dssp             -------------------------CHHHHTTTTT-------CC----------------CTTTHHHHHHHT--------
T ss_pred             HhCccchhHHHHHHHH-----HHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh--------
Confidence            3  3557899999999     99999999988874       478889999999999999999999999977        


Q ss_pred             cccHHHHHHHHHhcCCHHHHHHHHHhccCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHcc
Q 009066          207 TTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHA  286 (545)
Q Consensus       207 ~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~  286 (545)
                       ..|..|++++.+.|++++|.+.+.++  .++.+|..++.+|...|+++.|......+.   +.|+.  ...++..|.+.
T Consensus       149 -~n~~~LA~~L~~Lg~yq~AVea~~KA--~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~---~~ad~--l~~lv~~Yek~  220 (449)
T 1b89_A          149 -SNFGRLASTLVHLGEYQAAVDGARKA--NSTRTWKEVCFACVDGKEFRLAQMCGLHIV---VHADE--LEELINYYQDR  220 (449)
T ss_dssp             -TCHHHHHHHHHTTTCHHHHHHHHHHH--TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT---TCHHH--HHHHHHHHHHT
T ss_pred             -hhHHHHHHHHHHhccHHHHHHHHHHc--CCchhHHHHHHHHHHcCcHHHHHHHHHHHH---hCHhh--HHHHHHHHHHC
Confidence             47999999999999999999999999  389999999999999999999976655422   44544  44688899999


Q ss_pred             CcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhH--cCCHHHHHHHHHhC-CCCC------CHhHHHHHHHHHHhcCCH
Q 009066          287 GLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGR--AGKLVEAVDLIKKM-PFKP------QPAIFGTLLSACRVHKRL  357 (545)
Q Consensus       287 g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~--~g~~~~A~~~~~~m-~~~p------~~~~~~~li~~~~~~g~~  357 (545)
                      |.++++..+++.....  -+.....|+-|.-+|++  -+++.+.++.|..- .+.|      +...|..+...|...+++
T Consensus       221 G~~eEai~lLe~aL~l--e~ah~~~ftel~il~~ky~p~k~~ehl~~~~~~ini~k~~~~~~~~~~w~e~~~ly~~~~e~  298 (449)
T 1b89_A          221 GYFEELITMLEAALGL--ERAHMGMFTELAILYSKFKPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEY  298 (449)
T ss_dssp             TCHHHHHHHHHHHTTS--TTCCHHHHHHHHHHHHTTCHHHHHHHHHHHSTTSCHHHHHHHHHTTTCHHHHHHHHHHTTCH
T ss_pred             CCHHHHHHHHHHHhCC--cHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHHHhhchH
Confidence            9999999999888742  24457778888777775  56788888887643 4333      567899999999999999


Q ss_pred             HHHHHHHHHHhcC------------CCCCCchhHHHHHHHHH
Q 009066          358 DLAEFAAMNLFNL------------NPANAAGCYVQLANIYA  387 (545)
Q Consensus       358 ~~A~~~~~~~~~~------------~p~~~~~~~~~l~~~~~  387 (545)
                      +.|.....+-...            .|.+.. .|...+..|.
T Consensus       299 d~A~~tm~~h~~~a~~~~~f~~~~~kv~n~e-lyYkai~fyl  339 (449)
T 1b89_A          299 DNAIITMMNHPTDAWKEGQFKDIITKVANVE-LYYRAIQFYL  339 (449)
T ss_dssp             HHHHHHHHHSTTTTCCHHHHHHHHHHCSSTH-HHHHHHHHHH
T ss_pred             HHHHHHHHhCChhhhhhHHHHHHHhchhHHH-HHHHHHHHHH
Confidence            9998765443322            455555 6666666665

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.79  E-value=2.6e-16  Score=163.23  Aligned_cols=395  Identities=8%  Similarity=0.066  Sum_probs=286.2

Q ss_pred             CCCCccHHHHHHHHHHhCCCChHHHHHHHccCCC--C-ChhhHHHHHHHHHcCCCCHHHHHHHHhcCC--CCCeehHHHH
Q 009066            2 NVKTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQ--P-DVVSYNIMLSCILLNSDDVVAAFDFFQRLP--IKDTASWNTM   76 (545)
Q Consensus         2 ~~~~~~~~~~li~~~~~~g~~~~~A~~~f~~~~~--~-~~~~~~~li~~~~~~~g~~~~A~~~~~~m~--~~d~~~~~~l   76 (545)
                      +|.|..+|..++. +.+.|+ +++|+.+|+++.+  | +...|...+..+.+. |++++|..+|++..  .|++..|...
T Consensus         9 ~P~~~~~w~~l~~-~~~~~~-~~~a~~~~e~al~~~P~~~~~w~~~~~~~~~~-~~~~~a~~~~~ral~~~p~~~lw~~~   85 (530)
T 2ooe_A            9 NPYDLDAWSILIR-EAQNQP-IDKARKTYERLVAQFPSSGRFWKLYIEAEIKA-KNYDKVEKLFQRCLMKVLHIDLWKCY   85 (530)
T ss_dssp             CTTCHHHHHHHHH-HHHSSC-HHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHT-TCHHHHHHHHHHHTTTCCCHHHHHHH
T ss_pred             CCCCHHHHHHHHH-HHHhCC-HHHHHHHHHHHHHHCCCCHHHHHHHHHHHHhc-CCHHHHHHHHHHHHhcCCChHHHHHH
Confidence            4678889999998 477888 9999999999873  4 445799999998888 99999999999987  4676777777


Q ss_pred             HHH-HHhCCCHHHHHH----HHhhCC------cCCHhHHHHHHHHHHH---------cCChHHHHHHHhhCCC-CCc---
Q 009066           77 ISG-FVQKKNMAKARD----LFLAMP------EKNSVSWSAMISGYIE---------CGQLDKAVELFKVAPV-KSV---  132 (545)
Q Consensus        77 i~~-~~~~g~~~~a~~----~~~~~~------~~~~~~~~~li~~~~~---------~g~~~~A~~~f~~~~~-~~~---  132 (545)
                      +.. ....|+.++|.+    +|++..      ..+...|...+....+         .|+++.|+.+|++... |..   
T Consensus        86 ~~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~P~~~~~  165 (530)
T 2ooe_A           86 LSYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVNPMINIE  165 (530)
T ss_dssp             HHHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTSCCTTHH
T ss_pred             HHHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhchhhhHH
Confidence            753 345677776665    666543      2356788888887765         7899999999988654 221   


Q ss_pred             ccHHHHHHHhcchh--------hhccCChHHHHHHHHHHH------hCC---CCCCH--------HHHHHHHHHHhc---
Q 009066          133 VAWTAMISGYMKFG--------YVENSWAEDGLKLLRMMI------GLG---IRPNA--------SSLSSVLLGCSH---  184 (545)
Q Consensus       133 ~~~~~li~~~~~~g--------~~~~g~~~~A~~~~~~m~------~~~---~~pd~--------~t~~~ll~~~~~---  184 (545)
                      ..|..........+        ....+++.+|..++.++.      +..   ++|+.        ..|...+.....   
T Consensus       166 ~~~~~~~~~e~~~~~~~~~~~l~~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w~~~~~~e~~~~~  245 (530)
T 2ooe_A          166 QLWRDYNKYEEGINIHLAKKMIEDRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVDMWKKYIQWEKSNPL  245 (530)
T ss_dssp             HHHHHHHHHHHHHCHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHHHHHHHHHHHHHCSS
T ss_pred             HHHHHHHHHHHhhchhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHHHHHHHHHHHHHHcCCc
Confidence            23332222100000        012455677777776632      221   34442        344444433222   


Q ss_pred             -cCcH----HHHHHHHHHHHhCCCCCCcccHHHHHHHHHh-------cCCHH-------HHHHHHHhccC---C-ChhhH
Q 009066          185 -LSSL----QLGKQVHQLVFKSPLCKDTTALTPLISMYCK-------CGDLE-------DACKLFLEIQR---K-DVVTW  241 (545)
Q Consensus       185 -~~~~----~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~-------~g~~~-------~A~~~f~~~~~---~-~~~~~  241 (545)
                       .++.    +.+..+|+++++.. +.+..+|..++..+.+       .|+++       +|..+|++..+   | +...|
T Consensus       246 ~~~~~~~~~~~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~  324 (530)
T 2ooe_A          246 RTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLY  324 (530)
T ss_dssp             CCSCSHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHH
T ss_pred             cCCcchhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHH
Confidence             1222    46778898888763 5567888888888876       69987       89999998874   3 57789


Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHH-
Q 009066          242 NAMISGYAQHGKGEKALRLFDKMKDEGMKPDS--ITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDL-  318 (545)
Q Consensus       242 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~-  318 (545)
                      ..++..+.+.|++++|..+|+++.+.  .|+.  ..|...+..+.+.|++++|+++|+...+.  .+.+...|...+.+ 
T Consensus       325 ~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~--~~~~~~~~~~~a~~~  400 (530)
T 2ooe_A          325 FAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED--ARTRHHVYVTAALME  400 (530)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC--TTCCTHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--cCCchHHHHHHHHHH
Confidence            99999999999999999999999984  5542  47888888888899999999999998863  22234444433333 


Q ss_pred             HhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCC---chhHHHHHHHHHHcCCch
Q 009066          319 LGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANA---AGCYVQLANIYAAMKKWD  393 (545)
Q Consensus       319 ~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~---~~~~~~l~~~~~~~g~~~  393 (545)
                      +...|+.++|..+|++. ...| +...|..++..+...|+.++|..+|++++...|.++   ...|...+......|+.+
T Consensus       401 ~~~~~~~~~A~~~~e~al~~~p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~  480 (530)
T 2ooe_A          401 YYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLA  480 (530)
T ss_dssp             HHHTCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHH
T ss_pred             HHHcCChhHHHHHHHHHHHHCCCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHH
Confidence            34689999999999977 2234 578999999999999999999999999998766543   225666788888899999


Q ss_pred             HHHHHHHHhhh
Q 009066          394 DVARIRLSMKE  404 (545)
Q Consensus       394 ~a~~~~~~m~~  404 (545)
                      .+.++.+++.+
T Consensus       481 ~~~~~~~r~~~  491 (530)
T 2ooe_A          481 SILKVEKRRFT  491 (530)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999988865

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.79  E-value=5.1e-16  Score=159.41  Aligned_cols=348  Identities=11%  Similarity=0.014  Sum_probs=181.4

Q ss_pred             CccHHHHHHHHHHh----CCCChHHHHHHHccCCC-CChhhHHHHHHHHHc----CCCCHHHHHHHHhcCC-CCCeehHH
Q 009066            5 TTVNWNSVLAGFAK----QRGKLKDAQELFDKIPQ-PDVVSYNIMLSCILL----NSDDVVAAFDFFQRLP-IKDTASWN   74 (545)
Q Consensus         5 ~~~~~~~li~~~~~----~g~~~~~A~~~f~~~~~-~~~~~~~~li~~~~~----~~g~~~~A~~~~~~m~-~~d~~~~~   74 (545)
                      ++..+..|-..|..    .++ +++|...|++..+ .+...+..+-..|..    . +++++|+..|++.. ..+..++.
T Consensus        38 ~~~a~~~lg~~y~~g~~~~~~-~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~-~~~~~A~~~~~~a~~~~~~~a~~  115 (490)
T 2xm6_A           38 EAKAQLELGYRYFQGNETTKD-LTQAMDWFRRAAEQGYTPAEYVLGLRYMNGEGVP-QDYAQAVIWYKKAALKGLPQAQQ  115 (490)
T ss_dssp             CHHHHHHHHHHHHHTSSSCCC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSC-CCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             CHHHHHHHHHHHHcCCCCCcC-HHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCC-CCHHHHHHHHHHHHHCCCHHHHH
Confidence            33444445555555    455 6666665554432 233344444444444    4 56666666665544 23444555


Q ss_pred             HHHHHHHh----CCCHHHHHHHHhhCCcC-CHhHHHHHHHHHHH----cCChHHHHHHHhhCCC-CCcccHHHHHHHhcc
Q 009066           75 TMISGFVQ----KKNMAKARDLFLAMPEK-NSVSWSAMISGYIE----CGQLDKAVELFKVAPV-KSVVAWTAMISGYMK  144 (545)
Q Consensus        75 ~li~~~~~----~g~~~~a~~~~~~~~~~-~~~~~~~li~~~~~----~g~~~~A~~~f~~~~~-~~~~~~~~li~~~~~  144 (545)
                      .|...|..    .+++++|...|++..+. ++..+..|..+|..    .++.++|.+.|++..+ .+..++..+...|  
T Consensus       116 ~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~~~~a~~~Lg~~y--  193 (490)
T 2xm6_A          116 NLGVMYHEGNGVKVDKAESVKWFRLAAEQGRDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQGNVWSCNQLGYMY--  193 (490)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHH--
T ss_pred             HHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHH--
Confidence            55555555    55666666666555432 34455555555555    5556666666654332 2344455555544  


Q ss_pred             hhhhc----cCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhc----cCcHHHHHHHHHHHHhCCCCCCcccHHHHHHH
Q 009066          145 FGYVE----NSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSH----LSSLQLGKQVHQLVFKSPLCKDTTALTPLISM  216 (545)
Q Consensus       145 ~g~~~----~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~----~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~  216 (545)
                         ..    .++.++|++.|++..+.|   +...+..+...+..    .+++++|...++...+.|   +...+..|..+
T Consensus       194 ---~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~  264 (490)
T 2xm6_A          194 ---SRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQFRLGYI  264 (490)
T ss_dssp             ---HHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHHHHHHH
T ss_pred             ---hcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHH
Confidence               33    555666666666555543   33444444444443    455666666666655543   23344445555


Q ss_pred             HHh----cCCHHHHHHHHHhccC-CChhhHHHHHHHHHHc-----CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHcc
Q 009066          217 YCK----CGDLEDACKLFLEIQR-KDVVTWNAMISGYAQH-----GKGEKALRLFDKMKDEGMKPDSITFVALLLACNHA  286 (545)
Q Consensus       217 y~~----~g~~~~A~~~f~~~~~-~~~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~  286 (545)
                      |..    .++.++|...|++..+ .+...+..+...|...     +++++|+..|++..+.|   +...+..+...+...
T Consensus       265 y~~g~~~~~d~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~~  341 (490)
T 2xm6_A          265 LEQGLAGAKEPLKALEWYRKSAEQGNSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG---DATAQANLGAIYFRL  341 (490)
T ss_dssp             HHHTTTSSCCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHS
T ss_pred             HHCCCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhC
Confidence            555    5566666666655543 2444555555555554     56666666666655543   233344444444443


Q ss_pred             C---cHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhH----cCCHHHHHHHHHhCCCCCCHhHHHHHHHHHHh----cC
Q 009066          287 G---LVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGR----AGKLVEAVDLIKKMPFKPQPAIFGTLLSACRV----HK  355 (545)
Q Consensus       287 g---~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~p~~~~~~~li~~~~~----~g  355 (545)
                      |   +.++|.++|++..+.    .++..+..|..+|..    .+++++|.+.|++.-...+...+..|...|..    .+
T Consensus       342 g~~~~~~~A~~~~~~a~~~----~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~~~~a~~~Lg~~y~~g~g~~~  417 (490)
T 2xm6_A          342 GSEEEHKKAVEWFRKAAAK----GEKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQGLSAAQVQLGEIYYYGLGVER  417 (490)
T ss_dssp             CCHHHHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCC
T ss_pred             CCcccHHHHHHHHHHHHHC----CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHcCCCCCC
Confidence            3   555666666555542    344555555555555    55666666666554111244555555555555    55


Q ss_pred             CHHHHHHHHHHHhcCCC
Q 009066          356 RLDLAEFAAMNLFNLNP  372 (545)
Q Consensus       356 ~~~~A~~~~~~~~~~~p  372 (545)
                      +.++|...|+++.+.+|
T Consensus       418 d~~~A~~~~~~A~~~~~  434 (490)
T 2xm6_A          418 DYVQAWAWFDTASTNDM  434 (490)
T ss_dssp             CHHHHHHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHHCCC
Confidence            66666666666655553

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.77  E-value=1.4e-17  Score=164.07  Aligned_cols=261  Identities=12%  Similarity=0.028  Sum_probs=206.9

Q ss_pred             CcccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccH
Q 009066          131 SVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTAL  210 (545)
Q Consensus       131 ~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~  210 (545)
                      +...|..+...+     .+.|++++|++.|+++.+.. +.+..++..+..++...|++++|...++.+++.. +.+..++
T Consensus        64 ~~~~~~~~~~~~-----~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~  136 (365)
T 4eqf_A           64 DWPGAFEEGLKR-----LKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKAL  136 (365)
T ss_dssp             TCTTHHHHHHHH-----HHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             chhHHHHHHHHH-----HHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHH
Confidence            455688888888     88888888888888888754 4467788888888888888888888888888764 4457778


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhccCCC-------------hhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCC-CCHHHH
Q 009066          211 TPLISMYCKCGDLEDACKLFLEIQRKD-------------VVTWNAMISGYAQHGKGEKALRLFDKMKDEGMK-PDSITF  276 (545)
Q Consensus       211 ~~li~~y~~~g~~~~A~~~f~~~~~~~-------------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~~~t~  276 (545)
                      ..+...|.+.|++++|...|+++.+.+             ...+..+...+...|++++|+..|+++.+.... ++..++
T Consensus       137 ~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~  216 (365)
T 4eqf_A          137 MALAVSYTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQ  216 (365)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHH
T ss_pred             HHHHHHHHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHH
Confidence            888888999999999999888876421             223344578888999999999999999886422 257888


Q ss_pred             HHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhc
Q 009066          277 VALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVH  354 (545)
Q Consensus       277 ~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~  354 (545)
                      ..+...+...|++++|...++++.+.  .+.+..+|..+..+|.+.|++++|...|+++ ...| +..+|..+...|...
T Consensus       217 ~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~  294 (365)
T 4eqf_A          217 TGLGVLFHLSGEFNRAIDAFNAALTV--RPEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPGFIRSRYNLGISCINL  294 (365)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHC
Confidence            88999999999999999999998874  3556889999999999999999999999987 3335 578899999999999


Q ss_pred             CCHHHHHHHHHHHhcCCCCC------------CchhHHHHHHHHHHcCCchHHHHHHHH
Q 009066          355 KRLDLAEFAAMNLFNLNPAN------------AAGCYVQLANIYAAMKKWDDVARIRLS  401 (545)
Q Consensus       355 g~~~~A~~~~~~~~~~~p~~------------~~~~~~~l~~~~~~~g~~~~a~~~~~~  401 (545)
                      |++++|...+++++++.|+.            .. .+..|..++...|+.+.+.++.++
T Consensus       295 g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          295 GAYREAVSNFLTALSLQRKSRNQQQVPHPAISGN-IWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             TCCHHHHHHHHHHHHHHHCC------------CH-HHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             CCHHHHHHHHHHHHHhCcccCCCcccchhhhHHH-HHHHHHHHHHHcCcHHHHHHHHHh
Confidence            99999999999999887762            34 789999999999999988877654

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.76  E-value=2.8e-15  Score=153.82  Aligned_cols=350  Identities=16%  Similarity=0.074  Sum_probs=292.9

Q ss_pred             CCChhhHHHHHHHHHc----CCCCHHHHHHHHhcCC-CCCeehHHHHHHHHHh----CCCHHHHHHHHhhCCcC-CHhHH
Q 009066           35 QPDVVSYNIMLSCILL----NSDDVVAAFDFFQRLP-IKDTASWNTMISGFVQ----KKNMAKARDLFLAMPEK-NSVSW  104 (545)
Q Consensus        35 ~~~~~~~~~li~~~~~----~~g~~~~A~~~~~~m~-~~d~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~-~~~~~  104 (545)
                      ..+...+..+-..|..    . +++++|+..|++.. ..+..++..|...|..    .+++++|.+.|++..+. ++..+
T Consensus        36 ~g~~~a~~~lg~~y~~g~~~~-~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~  114 (490)
T 2xm6_A           36 SGEAKAQLELGYRYFQGNETT-KDLTQAMDWFRRAAEQGYTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKGLPQAQ  114 (490)
T ss_dssp             TTCHHHHHHHHHHHHHTSSSC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             CCCHHHHHHHHHHHHcCCCCC-cCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHH
Confidence            3466667777667776    6 89999999999876 4567788899999998    99999999999988754 67888


Q ss_pred             HHHHHHHHH----cCChHHHHHHHhhCCCC-CcccHHHHHHHhcchhhhc----cCChHHHHHHHHHHHhCCCCCCHHHH
Q 009066          105 SAMISGYIE----CGQLDKAVELFKVAPVK-SVVAWTAMISGYMKFGYVE----NSWAEDGLKLLRMMIGLGIRPNASSL  175 (545)
Q Consensus       105 ~~li~~~~~----~g~~~~A~~~f~~~~~~-~~~~~~~li~~~~~~g~~~----~g~~~~A~~~~~~m~~~~~~pd~~t~  175 (545)
                      ..|..+|..    .+++++|.+.|++.... +..++..+...|     ..    .++.++|++.|++..+.|   +...+
T Consensus       115 ~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y-----~~g~g~~~d~~~A~~~~~~a~~~~---~~~a~  186 (490)
T 2xm6_A          115 QNLGVMYHEGNGVKVDKAESVKWFRLAAEQGRDSGQQSMGDAY-----FEGDGVTRDYVMAREWYSKAAEQG---NVWSC  186 (490)
T ss_dssp             HHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHH-----HHTSSSCCCHHHHHHHHHHHHHTT---CHHHH
T ss_pred             HHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHH-----HcCCCCCCCHHHHHHHHHHHHHCC---CHHHH
Confidence            899999998    89999999999876543 566777777777     55    789999999999999875   67778


Q ss_pred             HHHHHHHhc----cCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHh----cCCHHHHHHHHHhccC-CChhhHHHHHH
Q 009066          176 SSVLLGCSH----LSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCK----CGDLEDACKLFLEIQR-KDVVTWNAMIS  246 (545)
Q Consensus       176 ~~ll~~~~~----~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~----~g~~~~A~~~f~~~~~-~~~~~~~~li~  246 (545)
                      ..+...+..    .++.++|...++...+.|   +...+..|..+|..    .+++++|...|++..+ .+..++..+..
T Consensus       187 ~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~lg~  263 (490)
T 2xm6_A          187 NQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQGNSIAQFRLGY  263 (490)
T ss_dssp             HHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTTCHHHHHHHHH
T ss_pred             HHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            888888877    899999999999999876   45677788888987    8999999999998765 46778888888


Q ss_pred             HHHH----cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHcc-----CcHHHHHHHHHHhHHhcCCCCCHHHHHHHHH
Q 009066          247 GYAQ----HGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHA-----GLVDLGIQYFDSMVNDYGIAAKPDHYTCMVD  317 (545)
Q Consensus       247 ~~~~----~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~-----g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~  317 (545)
                      .|..    .++.++|+..|++..+.|   +...+..+...+...     ++.++|..+++...+.    .+...+..|..
T Consensus       264 ~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~----~~~~a~~~lg~  336 (490)
T 2xm6_A          264 ILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQ----GDATAQANLGA  336 (490)
T ss_dssp             HHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHT----TCHHHHHHHHH
T ss_pred             HHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhc----CCHHHHHHHHH
Confidence            8888    899999999999998764   455666677777776     8999999999998763    35677888899


Q ss_pred             HHhHcC---CHHHHHHHHHhCCCCCCHhHHHHHHHHHHh----cCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHH--
Q 009066          318 LLGRAG---KLVEAVDLIKKMPFKPQPAIFGTLLSACRV----HKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAA--  388 (545)
Q Consensus       318 ~~~~~g---~~~~A~~~~~~m~~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~--  388 (545)
                      +|...|   ++++|.+.|++.-...+...+..|...|..    .+++++|...++++.+.++  +. ++..|+.+|..  
T Consensus       337 ~y~~~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~~--~~-a~~~Lg~~y~~g~  413 (490)
T 2xm6_A          337 IYFRLGSEEEHKKAVEWFRKAAAKGEKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQGL--SA-AQVQLGEIYYYGL  413 (490)
T ss_dssp             HHHHSCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC--HH-HHHHHHHHHHHTS
T ss_pred             HHHhCCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCCC--HH-HHHHHHHHHHcCC
Confidence            988877   889999999987223578889999999998    8999999999999988653  44 89999999999  


Q ss_pred             --cCCchHHHHHHHHhhhCC
Q 009066          389 --MKKWDDVARIRLSMKENN  406 (545)
Q Consensus       389 --~g~~~~a~~~~~~m~~~~  406 (545)
                        .++.++|.+.+++..+.+
T Consensus       414 g~~~d~~~A~~~~~~A~~~~  433 (490)
T 2xm6_A          414 GVERDYVQAWAWFDTASTND  433 (490)
T ss_dssp             SSCCCHHHHHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHCC
Confidence              899999999999998765

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.76  E-value=5e-17  Score=160.07  Aligned_cols=285  Identities=14%  Similarity=0.030  Sum_probs=164.5

Q ss_pred             CCHHHHHH-HHhcCC--CC-----CeehHHHHHHHHHhCCCHHHHHHHHhhCCc---CCHhHHHHHHHHHHHcCChHHHH
Q 009066           53 DDVVAAFD-FFQRLP--IK-----DTASWNTMISGFVQKKNMAKARDLFLAMPE---KNSVSWSAMISGYIECGQLDKAV  121 (545)
Q Consensus        53 g~~~~A~~-~~~~m~--~~-----d~~~~~~li~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~  121 (545)
                      |++++|.. .|++..  .|     +..++..+...+.+.|++++|...|+++.+   .+..++..+...|.+.|++++|.
T Consensus        39 ~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~  118 (368)
T 1fch_A           39 SDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAI  118 (368)
T ss_dssp             -------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCcCHHHHH
Confidence            67777777 776544  11     345677777777777788777777777653   34566777777777777777777


Q ss_pred             HHHhhCC---CCCcccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHhccCcHHHHHHHHHH
Q 009066          122 ELFKVAP---VKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNAS-SLSSVLLGCSHLSSLQLGKQVHQL  197 (545)
Q Consensus       122 ~~f~~~~---~~~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~-t~~~ll~~~~~~~~~~~a~~~~~~  197 (545)
                      +.|+++.   ..+..+|..+...|     ...|++++|++.|+++....  |+.. .+..+..       ...       
T Consensus       119 ~~~~~al~~~~~~~~~~~~l~~~~-----~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~~~~-------~~~-------  177 (368)
T 1fch_A          119 SALRRCLELKPDNQTALMALAVSF-----TNESLQRQACEILRDWLRYT--PAYAHLVTPAEE-------GAG-------  177 (368)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHH-----HHTTCHHHHHHHHHHHHHTS--TTTGGGCC---------------------
T ss_pred             HHHHHHHhcCCCCHHHHHHHHHHH-----HHcCCHHHHHHHHHHHHHhC--cCcHHHHHHHHH-------Hhh-------
Confidence            7776543   23456666677777     67777777777777776543  2211 1110000       000       


Q ss_pred             HHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccC--C---ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCC
Q 009066          198 VFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR--K---DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPD  272 (545)
Q Consensus       198 ~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~--~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  272 (545)
                      ..    .+ ...+..+...+ ..|++++|...|+++.+  |   +..+|..+...|...|++++|+..|+++.... +.+
T Consensus       178 ~~----~~-~~~~~~~~~~~-~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~  250 (368)
T 1fch_A          178 GA----GL-GPSKRILGSLL-SDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PND  250 (368)
T ss_dssp             -------------CTTHHHH-HHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTC
T ss_pred             hh----cc-cHHHHHHHHHh-hcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCC
Confidence            00    00 00001122222 56666666666666542  2   35566666677777777777777777766542 224


Q ss_pred             HHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC------------
Q 009066          273 SITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP------------  339 (545)
Q Consensus       273 ~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p------------  339 (545)
                      ..++..+...+...|++++|...++.+.+.  .+.+...+..+..+|.+.|++++|...|+++ ...|            
T Consensus       251 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~  328 (368)
T 1fch_A          251 YLLWNKLGATLANGNQSEEAVAAYRRALEL--QPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAM  328 (368)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCC
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccch
Confidence            556666666677777777777777766653  2344666677777777777777777776655 1111            


Q ss_pred             CHhHHHHHHHHHHhcCCHHHHHHHHHHH
Q 009066          340 QPAIFGTLLSACRVHKRLDLAEFAAMNL  367 (545)
Q Consensus       340 ~~~~~~~li~~~~~~g~~~~A~~~~~~~  367 (545)
                      ...+|..+..++...|++++|..++++.
T Consensus       329 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~  356 (368)
T 1fch_A          329 SENIWSTLRLALSMLGQSDAYGAADARD  356 (368)
T ss_dssp             CHHHHHHHHHHHHHHTCGGGHHHHHTTC
T ss_pred             hhHHHHHHHHHHHHhCChHhHHHhHHHH
Confidence            1467777777777777777777766543

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.76  E-value=5.2e-16  Score=147.42  Aligned_cols=267  Identities=10%  Similarity=0.021  Sum_probs=190.4

Q ss_pred             HcCChHHHHHHHhhCCCCCc----ccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcH
Q 009066          113 ECGQLDKAVELFKVAPVKSV----VAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSL  188 (545)
Q Consensus       113 ~~g~~~~A~~~f~~~~~~~~----~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~  188 (545)
                      ..|++..|...++.....++    .....+..+|     ...|++++|+..++.   . -+|+..++..+...+...++.
T Consensus        11 ~~g~y~~ai~~~~~~~~~~p~~~~e~~~~l~r~y-----i~~g~~~~al~~~~~---~-~~~~~~a~~~la~~~~~~~~~   81 (291)
T 3mkr_A           11 YIGSYQQCINEAQRVKPSSPERDVERDVFLYRAY-----LAQRKYGVVLDEIKP---S-SAPELQAVRMFAEYLASHSRR   81 (291)
T ss_dssp             HTTCHHHHHHHHHHSCCCSHHHHHHHHHHHHHHH-----HHTTCHHHHHHHSCT---T-SCHHHHHHHHHHHHHHCSTTH
T ss_pred             HHHHHHHHHHHHHhcccCCchhhHHHHHHHHHHH-----HHCCCHHHHHHHhcc---c-CChhHHHHHHHHHHHcCCCcH
Confidence            34555555555555443322    1223344555     566666666654433   1 244555566666666666666


Q ss_pred             HHHHHHHHHHHhCCC-CCCcccHHHHHHHHHhcCCHHHHHHHHHhccCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHc
Q 009066          189 QLGKQVHQLVFKSPL-CKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDE  267 (545)
Q Consensus       189 ~~a~~~~~~~~~~g~-~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  267 (545)
                      ++|.+.++.++..+. +.+..++..+..+|...|++++|.+.|++  ..+...+..++..|.+.|++++|...|+++.+.
T Consensus        82 ~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~--~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~  159 (291)
T 3mkr_A           82 DAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ--GDSLECMAMTVQILLKLDRLDLARKELKKMQDQ  159 (291)
T ss_dssp             HHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT--CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh
Confidence            666666666666553 33445566677888899999999999988  567888999999999999999999999999886


Q ss_pred             CCCCCHHHH---HHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHh
Q 009066          268 GMKPDSITF---VALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPA  342 (545)
Q Consensus       268 g~~p~~~t~---~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~  342 (545)
                      .  |+....   ...+..+...|++++|..+|+++.+.  .+.++..++.+..+|.+.|++++|.+.|++. ...| +..
T Consensus       160 ~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~--~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~p~~~~  235 (291)
T 3mkr_A          160 D--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK--CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDSGHPE  235 (291)
T ss_dssp             C--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH--SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH
T ss_pred             C--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHH
Confidence            3  554321   12334445669999999999999885  4678899999999999999999999999987 3345 677


Q ss_pred             HHHHHHHHHHhcCCHHH-HHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHH
Q 009066          343 IFGTLLSACRVHKRLDL-AEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIR  399 (545)
Q Consensus       343 ~~~~li~~~~~~g~~~~-A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~  399 (545)
                      +|..++..+...|+.++ +..+++++++++|+++.     +.+...+.+.++++..-|
T Consensus       236 ~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~P~~~~-----~~d~~~~~~~fd~~~~~~  288 (291)
T 3mkr_A          236 TLINLVVLSQHLGKPPEVTNRYLSQLKDAHRSHPF-----IKEYRAKENDFDRLVLQY  288 (291)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHH-----HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHHhCCCChH-----HHHHHHHHHHHHHHHHHc
Confidence            89999999999999876 67899999999999863     344566666666655433

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.75  E-value=3.5e-17  Score=161.21  Aligned_cols=263  Identities=13%  Similarity=0.050  Sum_probs=146.2

Q ss_pred             CeehHHHHHHHHHhCCCHHHHHHHHhhCCc---CCHhHHHHHHHHHHHcCChHHHHHHHhhCC---CCCcccHHHHHHHh
Q 009066           69 DTASWNTMISGFVQKKNMAKARDLFLAMPE---KNSVSWSAMISGYIECGQLDKAVELFKVAP---VKSVVAWTAMISGY  142 (545)
Q Consensus        69 d~~~~~~li~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~f~~~~---~~~~~~~~~li~~~  142 (545)
                      +...|..+...+.+.|++++|...|+++..   .+..++..+...|.+.|++++|.+.|++..   ..+..+|..+...|
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~  143 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQDPGDAEAWQFLGITQAENENEQAAIVALQRCLELQPNNLKALMALAVSY  143 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHH
Confidence            455677788888888888888888887762   356677777777777777777777777654   23456677777777


Q ss_pred             cchhhhccCChHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcC
Q 009066          143 MKFGYVENSWAEDGLKLLRMMIGLGIRPNAS-SLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCG  221 (545)
Q Consensus       143 ~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~-t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g  221 (545)
                           ...|++++|++.|+++.+..  |+.. .+..+                         .....++..+...|.+.|
T Consensus       144 -----~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~-------------------------~~~~~~~~~l~~~~~~~g  191 (365)
T 4eqf_A          144 -----TNTSHQQDACEALKNWIKQN--PKYKYLVKNK-------------------------KGSPGLTRRMSKSPVDSS  191 (365)
T ss_dssp             -----HHTTCHHHHHHHHHHHHHHC--HHHHCC--------------------------------------------CCH
T ss_pred             -----HccccHHHHHHHHHHHHHhC--ccchHHHhhh-------------------------ccchHHHHHHHHHHhhhh
Confidence                 77777777777777776532  2211 11100                         001112223344444555


Q ss_pred             CHHHHHHHHHhccC--C---ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHH
Q 009066          222 DLEDACKLFLEIQR--K---DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYF  296 (545)
Q Consensus       222 ~~~~A~~~f~~~~~--~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~  296 (545)
                      ++++|...|+++.+  |   +..+|..+...|...|++++|+..|+++.+.. +.+..++..+..++...|++++|...|
T Consensus       192 ~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~  270 (365)
T 4eqf_A          192 VLEGVKELYLEAAHQNGDMIDPDLQTGLGVLFHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAY  270 (365)
T ss_dssp             HHHHHHHHHHHHHHHSCSSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhCcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            55555555554432  1   34455555555555555555555555555432 223445555555555555666666555


Q ss_pred             HHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-------------CHhHHHHHHHHHHhcCCHHHHHH
Q 009066          297 DSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-------------QPAIFGTLLSACRVHKRLDLAEF  362 (545)
Q Consensus       297 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-------------~~~~~~~li~~~~~~g~~~~A~~  362 (545)
                      +++.+.  .+.+...+..+..+|.+.|++++|...|+++ ...|             +..+|..+..++...|+.+.+..
T Consensus       271 ~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  348 (365)
T 4eqf_A          271 TRALEI--QPGFIRSRYNLGISCINLGAYREAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQA  348 (365)
T ss_dssp             HHHHHH--CTTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHhc--CCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHH
Confidence            555542  1233555555666666666666666655554 0001             24566777777777777776666


Q ss_pred             HHHH
Q 009066          363 AAMN  366 (545)
Q Consensus       363 ~~~~  366 (545)
                      +.++
T Consensus       349 ~~~~  352 (365)
T 4eqf_A          349 ANLG  352 (365)
T ss_dssp             HHTT
T ss_pred             HHHh
Confidence            5544

>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=99.74  E-value=8.1e-17  Score=155.54  Aligned_cols=259  Identities=10%  Similarity=-0.030  Sum_probs=191.8

Q ss_pred             ccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHH
Q 009066          133 VAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTP  212 (545)
Q Consensus       133 ~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~  212 (545)
                      ..|..+...+     ...|++++|+.+|+++.+.. +.+..++..+..++...|++++|...++.+.+.. +.+..++..
T Consensus        22 ~~~~~~a~~~-----~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~   94 (327)
T 3cv0_A           22 ENPMEEGLSM-----LKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAA   94 (327)
T ss_dssp             SCHHHHHHHH-----HHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             HHHHHHHHHH-----HHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHH
Confidence            4455555666     66666777777776666543 2355566666666666777777777777666653 334556666


Q ss_pred             HHHHHHhcCCHHHHHHHHHhccCC---ChhhHHHH--------------HH-HHHHcCChHHHHHHHHHHHHcCCCCCHH
Q 009066          213 LISMYCKCGDLEDACKLFLEIQRK---DVVTWNAM--------------IS-GYAQHGKGEKALRLFDKMKDEGMKPDSI  274 (545)
Q Consensus       213 li~~y~~~g~~~~A~~~f~~~~~~---~~~~~~~l--------------i~-~~~~~g~~~~A~~~~~~m~~~g~~p~~~  274 (545)
                      +...|...|++++|.+.|+++.+.   +...+..+              .. .+...|++++|+..++++.+.. +.+..
T Consensus        95 la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~  173 (327)
T 3cv0_A           95 LAVSHTNEHNANAALASLRAWLLSQPQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN-PNDAQ  173 (327)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTSTTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHS-TTCHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC-CCCHH
Confidence            677777777777777777666531   22223222              22 3667788999999999998764 33677


Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHH
Q 009066          275 TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACR  352 (545)
Q Consensus       275 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~  352 (545)
                      .+..+...+...|++++|...++.+.+.  .+.+...+..+...|.+.|++++|...++++ ...| +...|..+...+.
T Consensus       174 ~~~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~  251 (327)
T 3cv0_A          174 LHASLGVLYNLSNNYDSAAANLRRAVEL--RPDDAQLWNKLGATLANGNRPQEALDAYNRALDINPGYVRVMYNMAVSYS  251 (327)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHH
Confidence            8888888999999999999999998864  3456788999999999999999999999887 2234 5788999999999


Q ss_pred             hcCCHHHHHHHHHHHhcCCCC------------CCchhHHHHHHHHHHcCCchHHHHHHHHh
Q 009066          353 VHKRLDLAEFAAMNLFNLNPA------------NAAGCYVQLANIYAAMKKWDDVARIRLSM  402 (545)
Q Consensus       353 ~~g~~~~A~~~~~~~~~~~p~------------~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  402 (545)
                      ..|++++|...++++++..|+            ... ++..++.+|...|++++|..++++.
T Consensus       252 ~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~  312 (327)
T 3cv0_A          252 NMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRS-MWDFFRMLLNVMNRPDLVELTYAQN  312 (327)
T ss_dssp             HTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHH-HHHHHHHHHHHTTCHHHHHHHTTCC
T ss_pred             HhccHHHHHHHHHHHHHhCCccccccccchhhcCHH-HHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            999999999999999999888            555 8999999999999999999988654

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.73  E-value=4.8e-16  Score=158.67  Aligned_cols=359  Identities=12%  Similarity=0.054  Sum_probs=238.9

Q ss_pred             hhhHHHHHHHHHcCCCCHHHHHHHHhcCC------------CCCeehHHHHHHHHHhCCCHHHHHHHHhhCCc-------
Q 009066           38 VVSYNIMLSCILLNSDDVVAAFDFFQRLP------------IKDTASWNTMISGFVQKKNMAKARDLFLAMPE-------   98 (545)
Q Consensus        38 ~~~~~~li~~~~~~~g~~~~A~~~~~~m~------------~~d~~~~~~li~~~~~~g~~~~a~~~~~~~~~-------   98 (545)
                      ...||.+-..+... |+.++|++.|++..            +....+|+.+...|...|++++|...+++...       
T Consensus        51 a~~yn~Lg~~~~~~-G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~  129 (472)
T 4g1t_A           51 ATMCNLLAYLKHLK-GQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSS  129 (472)
T ss_dssp             CHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHHHHC-CCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhccc
Confidence            44678777778888 99999999987653            22346899999999999999999998887651       


Q ss_pred             ----CCHhHHHHHHHHHHHcC--ChHHHHHHHhhCC--CC-CcccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCC
Q 009066           99 ----KNSVSWSAMISGYIECG--QLDKAVELFKVAP--VK-SVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIR  169 (545)
Q Consensus        99 ----~~~~~~~~li~~~~~~g--~~~~A~~~f~~~~--~~-~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~  169 (545)
                          ....++..+..++.+.|  ++++|.+.|++..  .| +...+..+...+.+.  ...++.++|++.|++..+.. +
T Consensus       130 ~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~~~~~~~~~~~~~~~l--~~~~~~~~al~~~~~al~l~-p  206 (472)
T 4g1t_A          130 PYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPKNPEFTSGLAIASYRL--DNWPPSQNAIDPLRQAIRLN-P  206 (472)
T ss_dssp             SSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHH--HHSCCCCCTHHHHHHHHHHC-S
T ss_pred             ccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHh--cCchHHHHHHHHHHHHhhcC-C
Confidence                13456666666666654  6899999998764  23 445555555443211  34577788999999888753 3


Q ss_pred             CCHHHHHHHHHHHh----ccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccC---CChhhHH
Q 009066          170 PNASSLSSVLLGCS----HLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWN  242 (545)
Q Consensus       170 pd~~t~~~ll~~~~----~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~  242 (545)
                      .+..++..+...+.    ..++.++|.+.++...+.. +.+..++..+...|.+.|++++|...|++..+   .+..+|.
T Consensus       207 ~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~  285 (472)
T 4g1t_A          207 DNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYIPNNAYLHC  285 (472)
T ss_dssp             SCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHH
T ss_pred             cchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCCChHHHHH
Confidence            35556655554444    3467889999999988765 45677888899999999999999999998764   3556677


Q ss_pred             HHHHHHHHc-------------------CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhc
Q 009066          243 AMISGYAQH-------------------GKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDY  303 (545)
Q Consensus       243 ~li~~~~~~-------------------g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~  303 (545)
                      .+...|...                   +..++|+..|++..... +.+..++..+...+...|++++|...|++..+. 
T Consensus       286 ~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~-  363 (472)
T 4g1t_A          286 QIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEAN-DNLFRVCSILASLHALADQYEEAEYYFQKEFSK-  363 (472)
T ss_dssp             HHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHC-TTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHS-
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcC-CchhhhhhhHHHHHHHhccHHHHHHHHHHHHhc-
Confidence            776665432                   23567888888877653 223456777888899999999999999988764 


Q ss_pred             CCCCCHH----HHHHHHHH-HhHcCCHHHHHHHHHhC-CCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCch
Q 009066          304 GIAAKPD----HYTCMVDL-LGRAGKLVEAVDLIKKM-PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAG  377 (545)
Q Consensus       304 ~~~~~~~----~~~~li~~-~~~~g~~~~A~~~~~~m-~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~  377 (545)
                        .|+..    .+..+... +...|+.++|+..|++. .+.|+...+...         .+.+..++++.++.+|+++. 
T Consensus       364 --~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~~~~~~~~~~---------~~~l~~~~~~~l~~~p~~~~-  431 (472)
T 4g1t_A          364 --ELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKINQKSREKEKM---------KDKLQKIAKMRLSKNGADSE-  431 (472)
T ss_dssp             --CCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSCCCCHHHHHH---------HHHHHHHHHHHHHHCC-CTT-
T ss_pred             --CCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcccHHHHHH---------HHHHHHHHHHHHHhCCCCHH-
Confidence              33322    23333332 34678999999999876 555665443332         34556778888889999988 


Q ss_pred             hHHHHHHHHHHcCCchHHHHHHHHhhhCCCccCCceeE
Q 009066          378 CYVQLANIYAAMKKWDDVARIRLSMKENNVVKMPGYSW  415 (545)
Q Consensus       378 ~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~s~  415 (545)
                      +|..|+.+|...|++++|.+.|++..+.+-..+...+|
T Consensus       432 ~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a~~~  469 (472)
T 4g1t_A          432 ALHVLAFLQELNEKMQQADEDSERGLESGSLIPSASSW  469 (472)
T ss_dssp             HHHHHHHHHHHHHHCC----------------------
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcHhhc
Confidence            99999999999999999999999998866443334444

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.71  E-value=3.6e-15  Score=154.66  Aligned_cols=367  Identities=10%  Similarity=0.062  Sum_probs=265.1

Q ss_pred             CCCCccHHHHHHHHHHhCCCChHHHHHHHccCC--CCChhhHHHHHHHHHcCCCCHHHHHH----HHhcCC------CCC
Q 009066            2 NVKTTVNWNSVLAGFAKQRGKLKDAQELFDKIP--QPDVVSYNIMLSCILLNSDDVVAAFD----FFQRLP------IKD   69 (545)
Q Consensus         2 ~~~~~~~~~~li~~~~~~g~~~~~A~~~f~~~~--~~~~~~~~~li~~~~~~~g~~~~A~~----~~~~m~------~~d   69 (545)
                      .|.+...|..++..+.+.|+ +++|+.+|++..  .|++..|...+.......|+.+.|++    +|++..      +++
T Consensus        42 ~P~~~~~w~~~~~~~~~~~~-~~~a~~~~~ral~~~p~~~lw~~~~~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~  120 (530)
T 2ooe_A           42 FPSSGRFWKLYIEAEIKAKN-YDKVEKLFQRCLMKVLHIDLWKCYLSYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMS  120 (530)
T ss_dssp             CTTCHHHHHHHHHHHHHTTC-HHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTC
T ss_pred             CCCCHHHHHHHHHHHHhcCC-HHHHHHHHHHHHhcCCChHHHHHHHHHHHHHccchhhHHHHHHHHHHHHHHHCCCCccc
Confidence            35677789999999999999 999999999987  47877888877643322266666554    676542      235


Q ss_pred             eehHHHHHHHHHh---------CCCHHHHHHHHhhCCc-CC---HhHHHHHHHHH-------------HHcCChHHHHHH
Q 009066           70 TASWNTMISGFVQ---------KKNMAKARDLFLAMPE-KN---SVSWSAMISGY-------------IECGQLDKAVEL  123 (545)
Q Consensus        70 ~~~~~~li~~~~~---------~g~~~~a~~~~~~~~~-~~---~~~~~~li~~~-------------~~~g~~~~A~~~  123 (545)
                      ...|...+....+         .|++++|..+|++.+. |+   ...|.......             .+.++++.|..+
T Consensus       121 ~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~P~~~~~~~~~~~~~~e~~~~~~~~~~~l~~~~~~~~~A~~~  200 (530)
T 2ooe_A          121 YQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVNPMINIEQLWRDYNKYEEGINIHLAKKMIEDRSRDYMNARRV  200 (530)
T ss_dssp             HHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTSCCTTHHHHHHHHHHHHHHHCHHHHHHHHHTTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHhhchhHHHHHHHHhhHHHHHHHHH
Confidence            5678887776654         6899999999999874 22   12333322211             124567777766


Q ss_pred             Hhh-------CC------CCC--------cccHHHHHHHhcchhhhccCCh----HHHHHHHHHHHhCCCCCCHHHHHHH
Q 009066          124 FKV-------AP------VKS--------VVAWTAMISGYMKFGYVENSWA----EDGLKLLRMMIGLGIRPNASSLSSV  178 (545)
Q Consensus       124 f~~-------~~------~~~--------~~~~~~li~~~~~~g~~~~g~~----~~A~~~~~~m~~~~~~pd~~t~~~l  178 (545)
                      +..       +.      .|+        ...|...+......+ ...++.    .+|+.+|++.+... +-+...|...
T Consensus       201 ~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w~~~~~~e~~~~-~~~~~~~~~~~~a~~~y~~al~~~-p~~~~~w~~~  278 (530)
T 2ooe_A          201 AKEYETVMKGLDRNAPSVPPQNTPQEAQQVDMWKKYIQWEKSNP-LRTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEA  278 (530)
T ss_dssp             HHHHHHHHHHCCSSSCCCCCC--CCHHHHHHHHHHHHHHHHHCS-SCCSCSHHHHHHHHHHHHHHHHHH-TTCHHHHHHH
T ss_pred             HHHHHHHHHHhccccccCCCCCChhHHHHHHHHHHHHHHHHcCC-ccCCcchhHHHHHHHHHHHHHHhC-CCCHHHHHHH
Confidence            654       11      111        235555553330000 011232    47888999988752 3467778777


Q ss_pred             HHHHhc-------cCcHH-------HHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccC--C-Ch-hh
Q 009066          179 LLGCSH-------LSSLQ-------LGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR--K-DV-VT  240 (545)
Q Consensus       179 l~~~~~-------~~~~~-------~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~--~-~~-~~  240 (545)
                      ...+.+       .|+++       +|..+++..++.-.+.+..++..++..+.+.|++++|..+|+++.+  | +. ..
T Consensus       279 ~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~  358 (530)
T 2ooe_A          279 AQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLV  358 (530)
T ss_dssp             HHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSSSSCHHHH
T ss_pred             HHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCccccCchHH
Confidence            777764       68877       8999999999743355688999999999999999999999998864  3 33 58


Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHH-HHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHH
Q 009066          241 WNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLL-ACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLL  319 (545)
Q Consensus       241 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~-a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~  319 (545)
                      |...+..+.+.|+.++|..+|++..+... .+...+..... .+...|+.++|..+|+...+..  +.++..|..+++.+
T Consensus       359 ~~~~~~~~~~~~~~~~A~~~~~~Al~~~~-~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~--p~~~~~~~~~~~~~  435 (530)
T 2ooe_A          359 YIQYMKFARRAEGIKSGRMIFKKAREDAR-TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY--GDIPEYVLAYIDYL  435 (530)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHTCTT-CCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHH--TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHhccC-CchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHC--CCCHHHHHHHHHHH
Confidence            99999999999999999999999987532 22233332222 2336899999999999988753  45688999999999


Q ss_pred             hHcCCHHHHHHHHHhC----CCCCC--HhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCC
Q 009066          320 GRAGKLVEAVDLIKKM----PFKPQ--PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPAN  374 (545)
Q Consensus       320 ~~~g~~~~A~~~~~~m----~~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~  374 (545)
                      .+.|+.++|..+|++.    +..|+  ...|...+.....+|+.+.+..++.++.+..|++
T Consensus       436 ~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~~~p~~  496 (530)
T 2ooe_A          436 SHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFREE  496 (530)
T ss_dssp             TTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHTHHH
T ss_pred             HhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCchh
Confidence            9999999999999987    22332  3489999999999999999999999999888853

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.71  E-value=1.2e-15  Score=144.85  Aligned_cols=242  Identities=10%  Similarity=0.036  Sum_probs=199.0

Q ss_pred             hccCChHHHHHHHHHHHhCCCCCCH--HHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHH
Q 009066          148 VENSWAEDGLKLLRMMIGLGIRPNA--SSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLED  225 (545)
Q Consensus       148 ~~~g~~~~A~~~~~~m~~~~~~pd~--~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~  225 (545)
                      ...|++..|+..+++...  ..|+.  .....+..++...|+++.|...++.    .-+|+...+..+...|...|+.++
T Consensus        10 ~~~g~y~~ai~~~~~~~~--~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~----~~~~~~~a~~~la~~~~~~~~~~~   83 (291)
T 3mkr_A           10 FYIGSYQQCINEAQRVKP--SSPERDVERDVFLYRAYLAQRKYGVVLDEIKP----SSAPELQAVRMFAEYLASHSRRDA   83 (291)
T ss_dssp             HHTTCHHHHHHHHHHSCC--CSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT----TSCHHHHHHHHHHHHHHCSTTHHH
T ss_pred             HHHHHHHHHHHHHHhccc--CCchhhHHHHHHHHHHHHHCCCHHHHHHHhcc----cCChhHHHHHHHHHHHcCCCcHHH
Confidence            568999999998887654  34543  3556678899999999999876543    235677788889999999999999


Q ss_pred             HHHHHHhccC----C-ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhH
Q 009066          226 ACKLFLEIQR----K-DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMV  300 (545)
Q Consensus       226 A~~~f~~~~~----~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~  300 (545)
                      |.+.|+++..    | +...+..+...|.+.|++++|+..+++      +.+...+..+...+.+.|++++|.+.++.+.
T Consensus        84 A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~  157 (291)
T 3mkr_A           84 IVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKELKKMQ  157 (291)
T ss_dssp             HHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            9999998742    3 566788888999999999999999987      4577788889999999999999999999998


Q ss_pred             HhcCCCCCHHH---HHHHHHHHhHcCCHHHHHHHHHhC--CCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCC
Q 009066          301 NDYGIAAKPDH---YTCMVDLLGRAGKLVEAVDLIKKM--PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANA  375 (545)
Q Consensus       301 ~~~~~~~~~~~---~~~li~~~~~~g~~~~A~~~~~~m--~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~  375 (545)
                      +.   .|+...   ..+++..+...|++++|..+|+++  ....+...|+.+..++...|++++|+..++++++.+|+++
T Consensus       158 ~~---~p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~p~~~  234 (291)
T 3mkr_A          158 DQ---DEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKCSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDSGHP  234 (291)
T ss_dssp             HH---CTTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCH
T ss_pred             hh---CcCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCH
Confidence            75   354321   223445555669999999999998  2235778999999999999999999999999999999999


Q ss_pred             chhHHHHHHHHHHcCCchH-HHHHHHHhhhC
Q 009066          376 AGCYVQLANIYAAMKKWDD-VARIRLSMKEN  405 (545)
Q Consensus       376 ~~~~~~l~~~~~~~g~~~~-a~~~~~~m~~~  405 (545)
                      . ++..++.++...|+.++ +.++++++.+.
T Consensus       235 ~-~l~~l~~~~~~~g~~~eaa~~~~~~~~~~  264 (291)
T 3mkr_A          235 E-TLINLVVLSQHLGKPPEVTNRYLSQLKDA  264 (291)
T ss_dssp             H-HHHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             H-HHHHHHHHHHHcCCCHHHHHHHHHHHHHh
Confidence            8 99999999999999986 56888887763

>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=99.70  E-value=8.5e-14  Score=150.70  Aligned_cols=344  Identities=13%  Similarity=0.119  Sum_probs=254.3

Q ss_pred             HHHHHHHHhCCCChHHHHHHHccCC-CCC-----hhhHHHHHHHHHcCCCCHHHHHHHHhcCCCCCeehHHHHHHHHHhC
Q 009066           10 NSVLAGFAKQRGKLKDAQELFDKIP-QPD-----VVSYNIMLSCILLNSDDVVAAFDFFQRLPIKDTASWNTMISGFVQK   83 (545)
Q Consensus        10 ~~li~~~~~~g~~~~~A~~~f~~~~-~~~-----~~~~~~li~~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~   83 (545)
                      ...+..|+..|. +.+|.++++++. +|+     ...-|.++....+.  +..+..+..++...   ....-+...+...
T Consensus       989 s~~vKaf~~agl-p~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka--D~~Rv~eyI~kLd~---~d~~eIA~Iai~l 1062 (1630)
T 1xi4_A          989 SVTVKAFMTADL-PNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA--DRTRVMEYINRLDN---YDAPDIANIAISN 1062 (1630)
T ss_pred             HHHHHHHHhCCC-HHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh--ChhhHHHHHHHhhh---ccHHHHHHHHHhC
Confidence            456677777887 888888888776 333     23344455544444  34444444444431   2244567788889


Q ss_pred             CCHHHHHHHHhhCCcCCHhHHHHHHHHHHHcCChHHHHHHHhhCCCCCcccHHHHHHHhcchhhhccCChHHHHHHHHHH
Q 009066           84 KNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMM  163 (545)
Q Consensus        84 g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m  163 (545)
                      |.+++|..+|++.. ......+.++   -..+++++|.++.++..  +..+|..+..++     ...|++++|++.|.+.
T Consensus      1063 glyEEAf~IYkKa~-~~~~A~~VLi---e~i~nldrAiE~Aervn--~p~vWsqLAKAq-----l~~G~~kEAIdsYiKA 1131 (1630)
T 1xi4_A         1063 ELFEEAFAIFRKFD-VNTSAVQVLI---EHIGNLDRAYEFAERCN--EPAVWSQLAKAQ-----LQKGMVKEAIDSYIKA 1131 (1630)
T ss_pred             CCHHHHHHHHHHcC-CHHHHHHHHH---HHHhhHHHHHHHHHhcC--CHHHHHHHHHHH-----HhCCCHHHHHHHHHhc
Confidence            99999999999874 2222223333   27788999999988763  466788999999     8999999999998653


Q ss_pred             HhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccCCChhhHHH
Q 009066          164 IGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNA  243 (545)
Q Consensus       164 ~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~  243 (545)
                            -|...|..++.+|.+.|+++++.+++....+..  ++..+.+.++.+|++.+++++...+.   ..++...|..
T Consensus      1132 ------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI---~~~n~ad~~~ 1200 (1630)
T 1xi4_A         1132 ------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI---NGPNNAHIQQ 1200 (1630)
T ss_pred             ------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH---hCCCHHHHHH
Confidence                  467788889999999999999999999888765  44444556899999999988644443   3556677888


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcC
Q 009066          244 MISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAG  323 (545)
Q Consensus       244 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  323 (545)
                      +...|...|++++|..+|...         ..|..+...+.+.|++++|.+.+++.       .+..+|..+..++...|
T Consensus      1201 iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA-------~n~~aWkev~~acve~~ 1264 (1630)
T 1xi4_A         1201 VGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA-------NSTRTWKEVCFACVDGK 1264 (1630)
T ss_pred             HHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHh-------CCHHHHHHHHHHHhhhh
Confidence            888899999999999999884         37888889999999999999888655       34688888888888899


Q ss_pred             CHHHHHHHHHhCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHc--CCchHHHHHHH
Q 009066          324 KLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAM--KKWDDVARIRL  400 (545)
Q Consensus       324 ~~~~A~~~~~~m~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~--g~~~~a~~~~~  400 (545)
                      ++..|......+  ..++..+..++..|...|.+++|+.++++.++++|.+.. .|..|+.+|++.  ++..++.+.|.
T Consensus      1265 Ef~LA~~cgl~I--iv~~deLeeli~yYe~~G~feEAI~LlE~aL~LeraH~g-mftELaiLyaKy~peklmEhlk~f~ 1340 (1630)
T 1xi4_A         1265 EFRLAQMCGLHI--VVHADELEELINYYQDRGYFEELITMLEAALGLERAHMG-MFTELAILYSKFKPQKMREHLELFW 1340 (1630)
T ss_pred             HHHHHHHHHHhh--hcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccChhHhH-HHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            999998877654  345556678888999999999999999999999988877 887777777765  33444444443

>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=99.70  E-value=4.7e-16  Score=150.14  Aligned_cols=267  Identities=12%  Similarity=0.051  Sum_probs=146.3

Q ss_pred             ehHHHHHHHHHhCCCHHHHHHHHhhCCc---CCHhHHHHHHHHHHHcCChHHHHHHHhhCC---CCCcccHHHHHHHhcc
Q 009066           71 ASWNTMISGFVQKKNMAKARDLFLAMPE---KNSVSWSAMISGYIECGQLDKAVELFKVAP---VKSVVAWTAMISGYMK  144 (545)
Q Consensus        71 ~~~~~li~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~f~~~~---~~~~~~~~~li~~~~~  144 (545)
                      ..|..+...+...|++++|..+|+++..   .+..++..+...|...|++++|.+.|+++.   ..+..+|..+...+  
T Consensus        22 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~--   99 (327)
T 3cv0_A           22 ENPMEEGLSMLKLANLAEAALAFEAVCQAAPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSH--   99 (327)
T ss_dssp             SCHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH--
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcCCHHHHHHHHHHH--
Confidence            3455555556666666666666655542   234445555555555555555555554432   12334444444555  


Q ss_pred             hhhhccCChHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHH-HH-HHHhcC
Q 009066          145 FGYVENSWAEDGLKLLRMMIGLGIRPNA-SSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPL-IS-MYCKCG  221 (545)
Q Consensus       145 ~g~~~~g~~~~A~~~~~~m~~~~~~pd~-~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l-i~-~y~~~g  221 (545)
                         ...|++++|++.|+++.+..  |+. ..+..+...+                      ++......+ .. .+...|
T Consensus       100 ---~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~----------------------~~~~~~~~~~~~~~~~~~~  152 (327)
T 3cv0_A          100 ---TNEHNANAALASLRAWLLSQ--PQYEQLGSVNLQAD----------------------VDIDDLNVQSEDFFFAAPN  152 (327)
T ss_dssp             ---HHTTCHHHHHHHHHHHHHTS--TTTTTC------------------------------------------CCTTSHH
T ss_pred             ---HHcCCHHHHHHHHHHHHHhC--CccHHHHHHHhHHH----------------------HHHHHHHHHHHhHHHHHcc
Confidence               55555555555555554432  211 1111110000                      000000001 22 255566


Q ss_pred             CHHHHHHHHHhccC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHH
Q 009066          222 DLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDS  298 (545)
Q Consensus       222 ~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~  298 (545)
                      ++++|...|+++.+   .+...|..+...|...|++++|+..++++.+.. +.+..++..+...+...|++++|...+++
T Consensus       153 ~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  231 (327)
T 3cv0_A          153 EYRECRTLLHAALEMNPNDAQLHASLGVLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAYNR  231 (327)
T ss_dssp             HHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            66667666666542   345666677777777777777777777766642 22455666666777777777777777777


Q ss_pred             hHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-------------CHhHHHHHHHHHHhcCCHHHHHHHH
Q 009066          299 MVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-------------QPAIFGTLLSACRVHKRLDLAEFAA  364 (545)
Q Consensus       299 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-------------~~~~~~~li~~~~~~g~~~~A~~~~  364 (545)
                      +.+.  .+.+...+..+...|.+.|++++|.+.+++. ...|             +...|..+..++...|++++|...+
T Consensus       232 a~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  309 (327)
T 3cv0_A          232 ALDI--NPGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTY  309 (327)
T ss_dssp             HHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHT
T ss_pred             HHHc--CCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHH
Confidence            6653  2344666777777777777777777777665 1122             2566777777777777777777777


Q ss_pred             HHHhc
Q 009066          365 MNLFN  369 (545)
Q Consensus       365 ~~~~~  369 (545)
                      ++.++
T Consensus       310 ~~~l~  314 (327)
T 3cv0_A          310 AQNVE  314 (327)
T ss_dssp             TCCSH
T ss_pred             HHHHH
Confidence            65544

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.70  E-value=1.8e-17  Score=173.67  Aligned_cols=150  Identities=15%  Similarity=0.190  Sum_probs=123.0

Q ss_pred             CCcccHHHHHHHHHhcCCHHHHHHHHHhcc-------CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHH
Q 009066          205 KDTTALTPLISMYCKCGDLEDACKLFLEIQ-------RKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFV  277 (545)
Q Consensus       205 ~~~~~~~~li~~y~~~g~~~~A~~~f~~~~-------~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~  277 (545)
                      .-..+||+||++|+++|++++|.++|++|.       .||+++||+||.+|++.|+.++|.++|++|.+.|+.||.+||+
T Consensus       125 ~~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYn  204 (1134)
T 3spa_A          125 GQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYA  204 (1134)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHH
T ss_pred             hHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHH
Confidence            345689999999999999999999998764       4799999999999999999999999999999999999999999


Q ss_pred             HHHHHHHccCc-HHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhCCCC----CCHhHHHHHHHHHH
Q 009066          278 ALLLACNHAGL-VDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFK----PQPAIFGTLLSACR  352 (545)
Q Consensus       278 ~ll~a~~~~g~-~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----p~~~~~~~li~~~~  352 (545)
                      ++|.++++.|+ .++|.++|++|.++ |+.||..+|++++....+.+-++...++..++...    |.+.+..-|...|.
T Consensus       205 tLI~glcK~G~~~e~A~~Ll~EM~~k-G~~PD~vtY~~ll~~~eR~~vL~~Vrkv~P~f~p~~~~~~~~~t~~LL~dl~s  283 (1134)
T 3spa_A          205 AALQCMGRQDQDAGTIERCLEQMSQE-GLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYA  283 (1134)
T ss_dssp             HHHHHHHHHTCCHHHHHHHHHHHHHH-TCCSHHHHHHSCCCHHHHHHHHHHHGGGCCCCCCCCCCCCCCCCCTTTHHHHC
T ss_pred             HHHHHHHhCCCcHHHHHHHHHHHHHc-CCCCChhhcccccChhhHHHHHHHHHHhCcccCCCCCCcccccchHHHHHHHc
Confidence            99999999997 57899999999887 99999999999998888776666555554444111    11334444555565


Q ss_pred             hcC
Q 009066          353 VHK  355 (545)
Q Consensus       353 ~~g  355 (545)
                      +.+
T Consensus       284 ~d~  286 (1134)
T 3spa_A          284 KDG  286 (1134)
T ss_dssp             CCS
T ss_pred             cCC
Confidence            544

>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=99.69  E-value=1.2e-13  Score=149.43  Aligned_cols=347  Identities=12%  Similarity=0.157  Sum_probs=273.2

Q ss_pred             CccHHHHHHHHHHhCCCChHHHHHHHccCCCCChhhHHHHHHHHHcCCCCHHHHHHHHhcCCCCCeehHHHHHHHHHhCC
Q 009066            5 TTVNWNSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQRLPIKDTASWNTMISGFVQKK   84 (545)
Q Consensus         5 ~~~~~~~li~~~~~~g~~~~~A~~~f~~~~~~~~~~~~~li~~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g   84 (545)
                      +....|.|+.+..+. + ..+.....+....-+   ...+-..+... |.+++|..+|++.. ......+.++   -..+
T Consensus      1021 n~~LqnlLi~tAIka-D-~~Rv~eyI~kLd~~d---~~eIA~Iai~l-glyEEAf~IYkKa~-~~~~A~~VLi---e~i~ 1090 (1630)
T 1xi4_A         1021 HRNLQNLLILTAIKA-D-RTRVMEYINRLDNYD---APDIANIAISN-ELFEEAFAIFRKFD-VNTSAVQVLI---EHIG 1090 (1630)
T ss_pred             cHHHHHHHHHHHHHh-C-hhhHHHHHHHhhhcc---HHHHHHHHHhC-CCHHHHHHHHHHcC-CHHHHHHHHH---HHHh
Confidence            456778888777777 3 566666666555333   33344556667 99999999999974 2222223333   2788


Q ss_pred             CHHHHHHHHhhCCcCCHhHHHHHHHHHHHcCChHHHHHHHhhCCCCCcccHHHHHHHhcchhhhccCChHHHHHHHHHHH
Q 009066           85 NMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMI  164 (545)
Q Consensus        85 ~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~  164 (545)
                      ++++|.++.++.  .++.+|..+..++.+.|++++|.+.|.+.  .|...|..++..+     .+.|++++|++.|...+
T Consensus      1091 nldrAiE~Aerv--n~p~vWsqLAKAql~~G~~kEAIdsYiKA--dD~say~eVa~~~-----~~lGkyEEAIeyL~mAr 1161 (1630)
T 1xi4_A         1091 NLDRAYEFAERC--NEPAVWSQLAKAQLQKGMVKEAIDSYIKA--DDPSSYMEVVQAA-----NTSGNWEELVKYLQMAR 1161 (1630)
T ss_pred             hHHHHHHHHHhc--CCHHHHHHHHHHHHhCCCHHHHHHHHHhc--CChHHHHHHHHHH-----HHcCCHHHHHHHHHHHH
Confidence            999999999987  45788999999999999999999999774  6778889999999     99999999999999877


Q ss_pred             hCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccCCChhhHHHH
Q 009066          165 GLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAM  244 (545)
Q Consensus       165 ~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~l  244 (545)
                      +..  +++...+.++.+|++.++++....+.    +   .++...+..+.+.|...|++++|..+|...     ..|..+
T Consensus      1162 k~~--~e~~Idt~LafaYAKl~rleele~fI----~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA-----~ny~rL 1227 (1630)
T 1xi4_A         1162 KKA--RESYVETELIFALAKTNRLAELEEFI----N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV-----SNFGRL 1227 (1630)
T ss_pred             hhc--ccccccHHHHHHHHhhcCHHHHHHHH----h---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh-----hHHHHH
Confidence            654  33333345888999999988655443    2   345566777999999999999999999986     489999


Q ss_pred             HHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCC
Q 009066          245 ISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGK  324 (545)
Q Consensus       245 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  324 (545)
                      ...|.+.|++++|++.+++.      .+..+|..+..+|...|++..|......      +..++..+..++..|.+.|.
T Consensus      1228 A~tLvkLge~q~AIEaarKA------~n~~aWkev~~acve~~Ef~LA~~cgl~------Iiv~~deLeeli~yYe~~G~ 1295 (1630)
T 1xi4_A         1228 ASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLH------IVVHADELEELINYYQDRGY 1295 (1630)
T ss_pred             HHHHHHhCCHHHHHHHHHHh------CCHHHHHHHHHHHhhhhHHHHHHHHHHh------hhcCHHHHHHHHHHHHHcCC
Confidence            99999999999999999987      3668999999999999999999887643      34567788899999999999


Q ss_pred             HHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhc--CCHHHHHHHHHHHhcCCC-----CCCchhHHHHHHHHHHcCCchHH
Q 009066          325 LVEAVDLIKKM-PFKP-QPAIFGTLLSACRVH--KRLDLAEFAAMNLFNLNP-----ANAAGCYVQLANIYAAMKKWDDV  395 (545)
Q Consensus       325 ~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~--g~~~~A~~~~~~~~~~~p-----~~~~~~~~~l~~~~~~~g~~~~a  395 (545)
                      +++|+.+++.. +..| ....|+-|..++++.  ++..++.++|..-..+.|     .... .|..+...|.+.|+|+.|
T Consensus      1296 feEAI~LlE~aL~LeraH~gmftELaiLyaKy~peklmEhlk~f~~rini~k~~r~~e~~~-lW~elv~LY~~~~e~dnA 1374 (1630)
T 1xi4_A         1296 FEELITMLEAALGLERAHMGMFTELAILYSKFKPQKMREHLELFWSRVNIPKVLRAAEQAH-LWAELVFLYDKYEEYDNA 1374 (1630)
T ss_pred             HHHHHHHHHHHhccChhHhHHHHHHHHHHHhCCHHHHHHHHHHHHHhcccchHhHHHHHHH-HHHHHHHHHHhcccHHHH
Confidence            99999999876 5544 345777777777765  466678888887777665     4444 789999999999999998


Q ss_pred             HH
Q 009066          396 AR  397 (545)
Q Consensus       396 ~~  397 (545)
                      ..
T Consensus      1375 ~~ 1376 (1630)
T 1xi4_A         1375 II 1376 (1630)
T ss_pred             HH
Confidence            84

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.68  E-value=6e-15  Score=150.51  Aligned_cols=359  Identities=11%  Similarity=-0.036  Sum_probs=233.9

Q ss_pred             ccHHHHHHHHHHhCCCChHHHHHHHccCC-----------CC-ChhhHHHHHHHHHcCCCCHHHHHHHHhcCC-------
Q 009066            6 TVNWNSVLAGFAKQRGKLKDAQELFDKIP-----------QP-DVVSYNIMLSCILLNSDDVVAAFDFFQRLP-------   66 (545)
Q Consensus         6 ~~~~~~li~~~~~~g~~~~~A~~~f~~~~-----------~~-~~~~~~~li~~~~~~~g~~~~A~~~~~~m~-------   66 (545)
                      ..+||.|...|...|+ .++|.+.|++..           .| ..++|+.+-..|... |++++|...|++..       
T Consensus        51 a~~yn~Lg~~~~~~G~-~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~-g~~~~A~~~~~ka~~i~~~~~  128 (472)
T 4g1t_A           51 ATMCNLLAYLKHLKGQ-NEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHM-GRLSDVQIYVDKVKHVCEKFS  128 (472)
T ss_dssp             CHHHHHHHHHHHHTTC-HHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHSC
T ss_pred             HHHHHHHHHHHHHCCC-HHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHc-CChHHHHHHHHHHHHHhHhcc
Confidence            5578999999999999 999999987642           23 346788888899999 99999999888664       


Q ss_pred             C---C-CeehHHHHHHHHHh--CCCHHHHHHHHhhCCc---CCHhHHHHHHHHH---HHcCChHHHHHHHhhCC---CCC
Q 009066           67 I---K-DTASWNTMISGFVQ--KKNMAKARDLFLAMPE---KNSVSWSAMISGY---IECGQLDKAVELFKVAP---VKS  131 (545)
Q Consensus        67 ~---~-d~~~~~~li~~~~~--~g~~~~a~~~~~~~~~---~~~~~~~~li~~~---~~~g~~~~A~~~f~~~~---~~~  131 (545)
                      .   + ...++..+..++..  .+++++|+..|++..+   .++..+..+...+   ...++.++|.+.|++..   ..+
T Consensus       129 ~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p~~  208 (472)
T 4g1t_A          129 SPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNPDN  208 (472)
T ss_dssp             CSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCSSC
T ss_pred             cccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCCcc
Confidence            1   1 23456655555554  4579999999998873   3556666666554   45677788888887643   334


Q ss_pred             cccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHH
Q 009066          132 VVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALT  211 (545)
Q Consensus       132 ~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~  211 (545)
                      ...+..+...+...+ ...++.++|.+.+++..... +.+...+..+...+...|++++|...+..+.+.. +.+..++.
T Consensus       209 ~~~~~~l~~~~~~~~-~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~  285 (472)
T 4g1t_A          209 QYLKVLLALKLHKMR-EEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYI-PNNAYLHC  285 (472)
T ss_dssp             HHHHHHHHHHHHHCC-------CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHH
T ss_pred             hHHHHHHHHHHHHHH-hhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC-CChHHHHH
Confidence            555655554442211 45678899999999988754 4567788889999999999999999999998875 44566677


Q ss_pred             HHHHHHHhc-------------------CCHHHHHHHHHhccC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCC
Q 009066          212 PLISMYCKC-------------------GDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGM  269 (545)
Q Consensus       212 ~li~~y~~~-------------------g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  269 (545)
                      .+...|...                   +..+.|...|++..+   .+..+|..+...|...|++++|+..|++.+....
T Consensus       286 ~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~  365 (472)
T 4g1t_A          286 QIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEANDNLFRVCSILASLHALADQYEEAEYYFQKEFSKEL  365 (472)
T ss_dssp             HHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHCTTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcCCchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCC
Confidence            777666432                   235667777776653   4667899999999999999999999999988654


Q ss_pred             CCCHH--HHHHHHH-HHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCC-CCHhHH
Q 009066          270 KPDSI--TFVALLL-ACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFK-PQPAIF  344 (545)
Q Consensus       270 ~p~~~--t~~~ll~-a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~-p~~~~~  344 (545)
                      .|...  .+..+.. ...+.|+.++|+..|.+..+   +.|+.......         .+.+.+++++. ... .+..+|
T Consensus       366 ~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~---i~~~~~~~~~~---------~~~l~~~~~~~l~~~p~~~~~~  433 (472)
T 4g1t_A          366 TPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVK---INQKSREKEKM---------KDKLQKIAKMRLSKNGADSEAL  433 (472)
T ss_dssp             CHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHH---SCCCCHHHHHH---------HHHHHHHHHHHHHHCC-CTTHH
T ss_pred             CChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCcccHHHHHH---------HHHHHHHHHHHHHhCCCCHHHH
Confidence            43322  1222222 34578999999999998875   35554332222         22333344333 222 467899


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHH
Q 009066          345 GTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQL  382 (545)
Q Consensus       345 ~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l  382 (545)
                      ..|...|...|++++|+..|+++++++|.++. +...+
T Consensus       434 ~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~-a~~~~  470 (472)
T 4g1t_A          434 HVLAFLQELNEKMQQADEDSERGLESGSLIPS-ASSWN  470 (472)
T ss_dssp             HHHHHHHHHHHHCC------------------------
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCc-HhhcC
Confidence            99999999999999999999999999988775 54443

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.66  E-value=3.5e-17  Score=171.62  Aligned_cols=146  Identities=12%  Similarity=0.220  Sum_probs=108.7

Q ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHHHh---CCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhcc----CCChhhHHHH
Q 009066          172 ASSLSSVLLGCSHLSSLQLGKQVHQLVFK---SPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQ----RKDVVTWNAM  244 (545)
Q Consensus       172 ~~t~~~ll~~~~~~~~~~~a~~~~~~~~~---~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~----~~~~~~~~~l  244 (545)
                      ..||+++|.+|++.|++++|.++|..|.+   .|+.||+.+||+||++|++.|++++|.++|++|.    .||++|||++
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            45777777777777777777777766543   4677777777777888888888888888887775    4788889999


Q ss_pred             HHHHHHcCCh-HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCC------HHHHHHHHH
Q 009066          245 ISGYAQHGKG-EKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAK------PDHYTCMVD  317 (545)
Q Consensus       245 i~~~~~~g~~-~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~------~~~~~~li~  317 (545)
                      |.++++.|+. ++|.++|++|.+.|+.||.+||+.++.++.+.+-+    +..+++..  ++.|+      +.+...|.+
T Consensus       207 I~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~vL----~~Vrkv~P--~f~p~~~~~~~~~t~~LL~d  280 (1134)
T 3spa_A          207 LQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVL----KAVHKVKP--TFSLPPQLPPPVNTSKLLRD  280 (1134)
T ss_dssp             HHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHHH----HHHGGGCC--CCCCCCCCCCCCCCCTTTHH
T ss_pred             HHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHHH----HHHHHhCc--ccCCCCCCcccccchHHHHH
Confidence            9999999875 78899999999999999999999998777664433    33334433  33333      445556778


Q ss_pred             HHhHcC
Q 009066          318 LLGRAG  323 (545)
Q Consensus       318 ~~~~~g  323 (545)
                      .|.+.+
T Consensus       281 l~s~d~  286 (1134)
T 3spa_A          281 VYAKDG  286 (1134)
T ss_dssp             HHCCCS
T ss_pred             HHccCC
Confidence            888766

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.64  E-value=2.1e-14  Score=133.29  Aligned_cols=219  Identities=11%  Similarity=0.030  Sum_probs=172.4

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccC--C-C-------hhhHH
Q 009066          173 SSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR--K-D-------VVTWN  242 (545)
Q Consensus       173 ~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~--~-~-------~~~~~  242 (545)
                      ..+..+...+...|++++|...+..+++..  .+..++..+...|...|++++|...|++..+  | +       ..+|.
T Consensus         6 ~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~   83 (258)
T 3uq3_A            6 DKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFA   83 (258)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHH
Confidence            345555666666677777777777766665  5566677777777777777777777776653  1 1       56788


Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHc
Q 009066          243 AMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRA  322 (545)
Q Consensus       243 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~  322 (545)
                      .+...|...|++++|+..|++....  .|+.       ..+...|++++|...++.+.+  ..+.+...+..+...|...
T Consensus        84 ~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~-------~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~~~~~~~~  152 (258)
T 3uq3_A           84 RIGNAYHKLGDLKKTIEYYQKSLTE--HRTA-------DILTKLRNAEKELKKAEAEAY--VNPEKAEEARLEGKEYFTK  152 (258)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--CCCH-------HHHHHHHHHHHHHHHHHHHHH--CCHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHhc--Cchh-------HHHHHHhHHHHHHHHHHHHHH--cCcchHHHHHHHHHHHHHh
Confidence            8888899999999999999998874  3443       345566888999999988876  3344567888899999999


Q ss_pred             CCHHHHHHHHHhC-CCC-CCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHH
Q 009066          323 GKLVEAVDLIKKM-PFK-PQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRL  400 (545)
Q Consensus       323 g~~~~A~~~~~~m-~~~-p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~  400 (545)
                      |++++|...+++. ... .+...|..+...+...|++++|...++++++..|++.. ++..++.+|...|++++|...++
T Consensus       153 ~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~  231 (258)
T 3uq3_A          153 SDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVR-AYIRKATAQIAVKEYASALETLD  231 (258)
T ss_dssp             TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCHHHHH-HHHHHHHHHHHHhhHHHHHHHHH
Confidence            9999999999887 222 35788999999999999999999999999999999887 89999999999999999999999


Q ss_pred             HhhhC
Q 009066          401 SMKEN  405 (545)
Q Consensus       401 ~m~~~  405 (545)
                      +..+.
T Consensus       232 ~a~~~  236 (258)
T 3uq3_A          232 AARTK  236 (258)
T ss_dssp             HHHHH
T ss_pred             HHHHh
Confidence            88653

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.63  E-value=1.8e-14  Score=130.54  Aligned_cols=195  Identities=14%  Similarity=0.027  Sum_probs=150.3

Q ss_pred             CCCcccHHHHHHHHHhcCCHHHHHHHHHhccC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 009066          204 CKDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALL  280 (545)
Q Consensus       204 ~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll  280 (545)
                      +++...+..+...+.+.|++++|...|++..+   .+...|..+...+.+.|++++|+..|++..+.. +.+...+..+.
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg   80 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKENPQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVLS   80 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHH
Confidence            45666777788888888888888888887764   356778888888888888888888888888753 22456777777


Q ss_pred             HHHHcc-----------CcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCCCHhHHHHHH
Q 009066          281 LACNHA-----------GLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQPAIFGTLL  348 (545)
Q Consensus       281 ~a~~~~-----------g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~li  348 (545)
                      .++...           |++++|...+++..+.  .+.+...+..+..+|...|++++|+..|++. ....+...|..+.
T Consensus        81 ~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~la  158 (217)
T 2pl2_A           81 EAYVALYRQAEDRERGKGYLEQALSVLKDAERV--NPRYAPLHLQRGLVYALLGERDKAEASLKQALALEDTPEIRSALA  158 (217)
T ss_dssp             HHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHHH
T ss_pred             HHHHHhhhhhhhhcccccCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcccchHHHHHHH
Confidence            788888           9999999999998864  2445788899999999999999999999887 2126788999999


Q ss_pred             HHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHh
Q 009066          349 SACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSM  402 (545)
Q Consensus       349 ~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  402 (545)
                      ..+...|++++|+..++++++.+|++.. ++..++.++...|++++|...+++.
T Consensus       159 ~~~~~~g~~~~A~~~~~~al~~~P~~~~-~~~~la~~~~~~g~~~~A~~~~~~~  211 (217)
T 2pl2_A          159 ELYLSMGRLDEALAQYAKALEQAPKDLD-LRVRYASALLLKGKAEEAARAAALE  211 (217)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHSTTCHH-HHHHHHHHHTC--------------
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCChH-HHHHHHHHHHHccCHHHHHHHHHHH
Confidence            9999999999999999999999999988 9999999999999999999888764

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.61  E-value=2e-14  Score=133.43  Aligned_cols=233  Identities=9%  Similarity=-0.013  Sum_probs=161.3

Q ss_pred             cHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCC--CC----c
Q 009066          134 AWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLC--KD----T  207 (545)
Q Consensus       134 ~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~--~~----~  207 (545)
                      .|..+...+     ...|++++|+..|+++.+..  ++...+..+..++...|++++|...+..+++....  ++    .
T Consensus         7 ~~~~~g~~~-----~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~   79 (258)
T 3uq3_A            7 KEKAEGNKF-----YKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVIS   79 (258)
T ss_dssp             HHHHHHHHH-----HHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHH
T ss_pred             HHHHHHHHH-----HHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHH
Confidence            345555566     66667777777776666654  55666666666677777777777777666654211  11    4


Q ss_pred             ccHHHHHHHHHhcCCHHHHHHHHHhccCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccC
Q 009066          208 TALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAG  287 (545)
Q Consensus       208 ~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g  287 (545)
                      .++..+...|.+.|++++|...|++..+.+..     ...+...|++++|+..++++.... +.+...+..+...+...|
T Consensus        80 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-----~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~  153 (258)
T 3uq3_A           80 KSFARIGNAYHKLGDLKKTIEYYQKSLTEHRT-----ADILTKLRNAEKELKKAEAEAYVN-PEKAEEARLEGKEYFTKS  153 (258)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-----HHHHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHhcCch-----hHHHHHHhHHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHhc
Confidence            56667777777777777777777776542111     234566677888888888877642 223455667777788888


Q ss_pred             cHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHH
Q 009066          288 LVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAM  365 (545)
Q Consensus       288 ~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~  365 (545)
                      ++++|...++...+.  .+.+...+..+...|.+.|++++|...+++. ...| +...|..+...+...|++++|...++
T Consensus       154 ~~~~A~~~~~~a~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  231 (258)
T 3uq3_A          154 DWPNAVKAYTEMIKR--APEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQIAVKEYASALETLD  231 (258)
T ss_dssp             CHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhc--CcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            888888888888763  2456778888888888888888888888876 2234 46788888888999999999999999


Q ss_pred             HHhcCC------CCCCchhHHHH
Q 009066          366 NLFNLN------PANAAGCYVQL  382 (545)
Q Consensus       366 ~~~~~~------p~~~~~~~~~l  382 (545)
                      +++++.      |++.. .+..+
T Consensus       232 ~a~~~~~~~~~~p~~~~-~~~~l  253 (258)
T 3uq3_A          232 AARTKDAEVNNGSSARE-IDQLY  253 (258)
T ss_dssp             HHHHHHHHHHTTTTHHH-HHHHH
T ss_pred             HHHHhChhhcCCCchHH-HHHHH
Confidence            988887      66554 44433

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.60  E-value=3.6e-14  Score=133.29  Aligned_cols=242  Identities=9%  Similarity=-0.090  Sum_probs=195.0

Q ss_pred             hccCChHHHHHHHHHHHhCCC--CC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHH
Q 009066          148 VENSWAEDGLKLLRMMIGLGI--RP-NASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLE  224 (545)
Q Consensus       148 ~~~g~~~~A~~~~~~m~~~~~--~p-d~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~  224 (545)
                      ...|++++|+..|+++.+...  +| +..++..+...+...|++++|...++.+++.. +.+..++..+...|...|+++
T Consensus        16 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~   94 (275)
T 1xnf_A           16 QPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFD   94 (275)
T ss_dssp             CCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHH
T ss_pred             CccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHH
Confidence            567889999999999997632  12 45678888889999999999999999999875 456788999999999999999


Q ss_pred             HHHHHHHhccC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHH
Q 009066          225 DACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVN  301 (545)
Q Consensus       225 ~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~  301 (545)
                      +|...|+++.+   .+..+|..+...|...|++++|+..|+++.+.  .|+.......+..+...|++++|...+.....
T Consensus        95 ~A~~~~~~al~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  172 (275)
T 1xnf_A           95 AAYEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFE  172 (275)
T ss_dssp             HHHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHHHHHHHHHHHh
Confidence            99999998874   46789999999999999999999999999985  45555555555566777999999999988876


Q ss_pred             hcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCCC-----HhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCC
Q 009066          302 DYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQ-----PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANA  375 (545)
Q Consensus       302 ~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~  375 (545)
                      .  .+++...+ .++..+...++.++|.+.+++. ...|+     ...|..+...+...|++++|...++++++.+|++.
T Consensus       173 ~--~~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~  249 (275)
T 1xnf_A          173 K--SDKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNF  249 (275)
T ss_dssp             H--SCCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTC
T ss_pred             c--CCcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCchhH
Confidence            4  24444444 4777888889999999999877 32232     57889999999999999999999999999999875


Q ss_pred             chhHHHHHHHHHHcCCchHHHHHH
Q 009066          376 AGCYVQLANIYAAMKKWDDVARIR  399 (545)
Q Consensus       376 ~~~~~~l~~~~~~~g~~~~a~~~~  399 (545)
                      . .+   ..++...|++++|.+.+
T Consensus       250 ~-~~---~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          250 V-EH---RYALLELSLLGQDQDDL  269 (275)
T ss_dssp             H-HH---HHHHHHHHHHHHC----
T ss_pred             H-HH---HHHHHHHHHHHhhHHHH
Confidence            4 33   56777888888887765

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.59  E-value=9.3e-14  Score=130.34  Aligned_cols=236  Identities=11%  Similarity=0.003  Sum_probs=136.7

Q ss_pred             hccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCc--ccHHHHHHHHHhcCCHHH
Q 009066          148 VENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDT--TALTPLISMYCKCGDLED  225 (545)
Q Consensus       148 ~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~--~~~~~li~~y~~~g~~~~  225 (545)
                      ...|++++|+..|++..+.. +.+...+..+..++...|++++|...+..+++.+..++.  ..+..+...|.+.|++++
T Consensus        14 ~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~~~~~~~~   92 (272)
T 3u4t_A           14 FKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILMKKGQDSL   92 (272)
T ss_dssp             HTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHcccHHH
Confidence            55556666666666655532 122334555555555666666666666665553211111  125556666666666666


Q ss_pred             HHHHHHhccC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHh
Q 009066          226 ACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVND  302 (545)
Q Consensus       226 A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~  302 (545)
                      |.+.|++..+   .+..+|..+...|...|++++|+..|++..+.. +.+...+..+...+...+++++|.+.|+.+.+.
T Consensus        93 A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~  171 (272)
T 3u4t_A           93 AIQQYQAAVDRDTTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYYNKEYVKADSSFVKVLEL  171 (272)
T ss_dssp             HHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCcccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            6666665542   344566666666666666666666666665531 223344444442333344777777777766653


Q ss_pred             cCCCCCHHHHHHHHHHHhHcCC---HHHHHHHHHhC----CCCCC------HhHHHHHHHHHHhcCCHHHHHHHHHHHhc
Q 009066          303 YGIAAKPDHYTCMVDLLGRAGK---LVEAVDLIKKM----PFKPQ------PAIFGTLLSACRVHKRLDLAEFAAMNLFN  369 (545)
Q Consensus       303 ~~~~~~~~~~~~li~~~~~~g~---~~~A~~~~~~m----~~~p~------~~~~~~li~~~~~~g~~~~A~~~~~~~~~  369 (545)
                        .+.+...+..+...+...|+   .++|...+++.    ...|+      ..+|..+...|...|++++|...++++++
T Consensus       172 --~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~  249 (272)
T 3u4t_A          172 --KPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKADAAWKNILA  249 (272)
T ss_dssp             --STTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             --CccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence              23335566666666666666   55555555544    11133      24677788888999999999999999999


Q ss_pred             CCCCCCchhHHHHHHHHHH
Q 009066          370 LNPANAAGCYVQLANIYAA  388 (545)
Q Consensus       370 ~~p~~~~~~~~~l~~~~~~  388 (545)
                      ++|++.. +...+......
T Consensus       250 ~~p~~~~-a~~~l~~~~~~  267 (272)
T 3u4t_A          250 LDPTNKK-AIDGLKMKLEH  267 (272)
T ss_dssp             HCTTCHH-HHHHHC-----
T ss_pred             cCccHHH-HHHHhhhhhcc
Confidence            9999876 55555544433

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.54  E-value=3.7e-13  Score=121.84  Aligned_cols=192  Identities=14%  Similarity=0.018  Sum_probs=97.5

Q ss_pred             ccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHH
Q 009066          133 VAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTP  212 (545)
Q Consensus       133 ~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~  212 (545)
                      ..|..+...+     .+.|++++|+..|++..+.. +.+...+..+..++...|++++|...++.+++.. +.+...+..
T Consensus         6 ~~~~~lg~~~-----~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~   78 (217)
T 2pl2_A            6 QNPLRLGVQL-----YALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMV   78 (217)
T ss_dssp             HHHHHHHHHH-----HHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             HHHHHHHHHH-----HHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHH
Confidence            3444444455     55555555555555555432 2234445555555555555555555555555443 233444455


Q ss_pred             HHHHHHhc-----------CCHHHHHHHHHhccC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHH
Q 009066          213 LISMYCKC-----------GDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVA  278 (545)
Q Consensus       213 li~~y~~~-----------g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~  278 (545)
                      +..+|.+.           |++++|...|++..+   .+...|..+...|...|++++|+..|++..+..  .+...+..
T Consensus        79 lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~  156 (217)
T 2pl2_A           79 LSEAYVALYRQAEDRERGKGYLEQALSVLKDAERVNPRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSA  156 (217)
T ss_dssp             HHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHH
T ss_pred             HHHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHH
Confidence            55555555           666666666665542   244556666666666666666666666666554  45555556


Q ss_pred             HHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC
Q 009066          279 LLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM  335 (545)
Q Consensus       279 ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  335 (545)
                      +..++...|++++|...|+...+.  .+.+...+..+..++.+.|++++|.+.|++.
T Consensus       157 la~~~~~~g~~~~A~~~~~~al~~--~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~  211 (217)
T 2pl2_A          157 LAELYLSMGRLDEALAQYAKALEQ--APKDLDLRVRYASALLLKGKAEEAARAAALE  211 (217)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHTC--------------
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            666666666666666666665542  2334555566666666666666666655543

>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=99.53  E-value=9e-13  Score=122.07  Aligned_cols=195  Identities=15%  Similarity=0.086  Sum_probs=86.6

Q ss_pred             HHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccC---CChhhHHHHHHHHHHcCCh
Q 009066          178 VLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKG  254 (545)
Q Consensus       178 ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~  254 (545)
                      +...+...|++++|...++.+++.. +.+..++..+...|.+.|++++|.+.|+++.+   .+...|..+...|...|++
T Consensus        43 ~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~  121 (252)
T 2ho1_A           43 LGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASDSRNARVLNNYGGFLYEQKRY  121 (252)
T ss_dssp             HHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHHhHH
Confidence            3333344444444444444443332 22233344444444444444444444444331   2334444444455555555


Q ss_pred             HHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHH
Q 009066          255 EKALRLFDKMKDEGMKPD-SITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIK  333 (545)
Q Consensus       255 ~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  333 (545)
                      ++|+..|+++...+..|+ ...+..+..++...|++++|...++.+.+.  .+.+...+..+...|...|++++|...++
T Consensus       122 ~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~g~~~~A~~~~~  199 (252)
T 2ho1_A          122 EEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRL--NRNQPSVALEMADLLYKEREYVPARQYYD  199 (252)
T ss_dssp             HHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CcccHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            555555555444222232 233344444445555555555555544432  12234444455555555555555555554


Q ss_pred             hC-CCC-CCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCC
Q 009066          334 KM-PFK-PQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANA  375 (545)
Q Consensus       334 ~m-~~~-p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~  375 (545)
                      ++ ... .+...+..+...+...|+.++|...++++.+..|++.
T Consensus       200 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~p~~~  243 (252)
T 2ho1_A          200 LFAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLYPGSL  243 (252)
T ss_dssp             HHHTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSH
T ss_pred             HHHHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCCH
Confidence            44 111 2333444444455555555555555555555555443

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.53  E-value=1.6e-13  Score=138.88  Aligned_cols=369  Identities=9%  Similarity=-0.030  Sum_probs=235.7

Q ss_pred             HHHHHHHhCCCChHHHHHHHccCCCC-ChhhHHHHHHHHHcCCCCH---HHHHHHHhcCCCCCeehHHHHHHHHHhCC--
Q 009066           11 SVLAGFAKQRGKLKDAQELFDKIPQP-DVVSYNIMLSCILLNSDDV---VAAFDFFQRLPIKDTASWNTMISGFVQKK--   84 (545)
Q Consensus        11 ~li~~~~~~g~~~~~A~~~f~~~~~~-~~~~~~~li~~~~~~~g~~---~~A~~~~~~m~~~d~~~~~~li~~~~~~g--   84 (545)
                      .+...+.+.|+ +++|.+.|.+..++ +...+..+-..|... |+.   ++|+..|++....+...+..+...+...+  
T Consensus         8 ~la~~~~~~g~-~~~A~~~~~~aa~~g~~~A~~~Lg~~y~~~-g~~~d~~~A~~~~~~A~~~~~~A~~~Lg~~~~~~~~~   85 (452)
T 3e4b_A            8 RLANEALKRGD-TVTAQQNYQQLAELGYSEAQVGLADIQVGT-RDPAQIKQAEATYRAAADTSPRAQARLGRLLAAKPGA   85 (452)
T ss_dssp             HHHHHHHHHHH-HHHHHHHHHHHHHHTCCTGGGTCC-----------------------------CHHHHHHHHHTC--C
T ss_pred             HHHHHHHhCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHHHcc-CCCCCHHHHHHHHHHHHhCCHHHHHHHHHHHHhCCCC
Confidence            35667777888 99999999887632 344444454555555 777   89999999888667778888888666655  


Q ss_pred             ---CHHHHHHHHhhCCcC-CHhHHHHHHHHHHHcCChHHHHH---HHhhCC-CCCcccHHHHHHHhcchhhhccCChHHH
Q 009066           85 ---NMAKARDLFLAMPEK-NSVSWSAMISGYIECGQLDKAVE---LFKVAP-VKSVVAWTAMISGYMKFGYVENSWAEDG  156 (545)
Q Consensus        85 ---~~~~a~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~A~~---~f~~~~-~~~~~~~~~li~~~~~~g~~~~g~~~~A  156 (545)
                         ++++|+..|++..++ ++..+..|..+|...+..+++.+   .+.... ..+...+..+...|     ...+.++++
T Consensus        86 ~~~~~~~A~~~~~~Aa~~g~~~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g~~~a~~~Lg~~y-----~~~~~~~~~  160 (452)
T 3e4b_A           86 TEAEHHEAESLLKKAFANGEGNTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAGYPEAGLAQVLLY-----RTQGTYDQH  160 (452)
T ss_dssp             CHHHHHHHHHHHHHHHHTTCSSCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHTCTTHHHHHHHHH-----HHHTCGGGG
T ss_pred             CCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHH-----HcCCCcccC
Confidence               788999999887754 45678888888888776554433   333222 23556777777777     555644444


Q ss_pred             ----HHHHHHHHhCCCCCCHHHHHHHHHHHhccC---cHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhc----CCHHH
Q 009066          157 ----LKLLRMMIGLGIRPNASSLSSVLLGCSHLS---SLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKC----GDLED  225 (545)
Q Consensus       157 ----~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~---~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~----g~~~~  225 (545)
                          ..+++.... + .|+  .+..+...+...|   +.++|...|+...+.| +++...+..|..+|...    +++++
T Consensus       161 ~~~a~~~~~~a~~-~-~~~--a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g-~~~a~~~~~Lg~~y~~g~~~~~d~~~  235 (452)
T 3e4b_A          161 LDDVERICKAALN-T-TDI--CYVELATVYQKKQQPEQQAELLKQMEAGVSRG-TVTAQRVDSVARVLGDATLGTPDEKT  235 (452)
T ss_dssp             HHHHHHHHHHHTT-T-CTT--HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTT-CSCHHHHHHHHHHHTCGGGSSCCHHH
T ss_pred             HHHHHHHHHHHHc-C-CHH--HHHHHHHHHHHcCCcccHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHhCCCCCCCCHHH
Confidence                444443332 2 333  7777777888888   8999999999999888 44555546688888665    78999


Q ss_pred             HHHHHHhccCCChhhHHHHHHH-H--HHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccC-----cHHHHHHHHH
Q 009066          226 ACKLFLEIQRKDVVTWNAMISG-Y--AQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAG-----LVDLGIQYFD  297 (545)
Q Consensus       226 A~~~f~~~~~~~~~~~~~li~~-~--~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g-----~~~~a~~~~~  297 (545)
                      |.+.|++....+...+..+... |  ...+++++|+..|++..+.|   +......|...|. .|     +.++|..+|+
T Consensus       236 A~~~~~~aa~g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~  311 (452)
T 3e4b_A          236 AQALLEKIAPGYPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFE  311 (452)
T ss_dssp             HHHHHHHHGGGSTHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHH
T ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHH
Confidence            9999998884467778877777 4  45789999999999988876   5556666666665 45     8999999997


Q ss_pred             HhHHhcCCCCCHHHHHHHHHHHhH----cCCHHHHHHHHHhCCCCCCHhHHHHHHHHHHh----cCCHHHHHHHHHHHhc
Q 009066          298 SMVNDYGIAAKPDHYTCMVDLLGR----AGKLVEAVDLIKKMPFKPQPAIFGTLLSACRV----HKRLDLAEFAAMNLFN  369 (545)
Q Consensus       298 ~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~  369 (545)
                      +..     +.++..+..|..+|..    ..++++|...|++.-...+......|...|..    ..+.++|...+++..+
T Consensus       312 ~Aa-----~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~  386 (452)
T 3e4b_A          312 KAV-----GREVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQNSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKA  386 (452)
T ss_dssp             TTT-----TTCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTCTTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHT
T ss_pred             HHh-----CCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhChHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHH
Confidence            764     4466777788887776    34899999999887223455566667766663    4688999999999988


Q ss_pred             CCCCCCchhHHHHHHHH--HHcCCchHHHHHHHHhh
Q 009066          370 LNPANAAGCYVQLANIY--AAMKKWDDVARIRLSMK  403 (545)
Q Consensus       370 ~~p~~~~~~~~~l~~~~--~~~g~~~~a~~~~~~m~  403 (545)
                      .++...   ...+..+.  ...++.++|.++.++-+
T Consensus       387 ~g~~~a---~~~l~~l~~~~~~~~~~~a~~~~~~~~  419 (452)
T 3e4b_A          387 QDTPEA---NDLATQLEAPLTPAQRAEGQRLVQQEL  419 (452)
T ss_dssp             TCCHHH---HHHHHHHHTTCCHHHHHHHHHHHHHHH
T ss_pred             CCCHHH---HHHHHHHHHhCCHHHHHHHHHHHHHHH
Confidence            776543   33333332  22234455555555443

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.53  E-value=1.9e-13  Score=125.69  Aligned_cols=205  Identities=11%  Similarity=0.072  Sum_probs=111.6

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccC---CChhhHHHHHHHHHH
Q 009066          174 SLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQ  250 (545)
Q Consensus       174 t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~  250 (545)
                      ++..+...+...|++++|...++.+++.. +.+..++..+...|.+.|++++|...|+++.+   .+...|..+...|..
T Consensus        25 ~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~  103 (243)
T 2q7f_A           25 TGGQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELDSSAATAYYGAGNVYVV  103 (243)
T ss_dssp             -----------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcchHHHHHHHHHHHH
Confidence            33334444444455555555555444432 22344445555555555555555555555432   245556666666666


Q ss_pred             cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHH
Q 009066          251 HGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVD  330 (545)
Q Consensus       251 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  330 (545)
                      .|++++|+..|+++.+.. +.+...+..+...+...|++++|...++++.+.  .+.+...+..+...|.+.|++++|.+
T Consensus       104 ~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~  180 (243)
T 2q7f_A          104 KEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVEL--NENDTEARFQFGMCLANEGMLDEALS  180 (243)
T ss_dssp             TTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCHHHHH
T ss_pred             hccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHcCCHHHHHH
Confidence            666666666666666543 224455556666666667777777776666553  23345666666677777777777777


Q ss_pred             HHHhC-CCC-CCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHH
Q 009066          331 LIKKM-PFK-PQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLA  383 (545)
Q Consensus       331 ~~~~m-~~~-p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~  383 (545)
                      .+++. ... .+..+|..+...+...|++++|...++++++..|++.. ++..+.
T Consensus       181 ~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~-~~~~~~  234 (243)
T 2q7f_A          181 QFAAVTEQDPGHADAFYNAGVTYAYKENREKALEMLDKAIDIQPDHML-ALHAKK  234 (243)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHCTTCHH-HHHHHT
T ss_pred             HHHHHHHhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHccCcchHH-HHHHHH
Confidence            66655 112 24556666777777777777777777777777776654 444443

>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=99.53  E-value=6.1e-13  Score=130.70  Aligned_cols=245  Identities=12%  Similarity=0.112  Sum_probs=185.4

Q ss_pred             ccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCc-HHHHHHHHHHHHhCCCCCCcccHH
Q 009066          133 VAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSS-LQLGKQVHQLVFKSPLCKDTTALT  211 (545)
Q Consensus       133 ~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~-~~~a~~~~~~~~~~g~~~~~~~~~  211 (545)
                      ..|+.+...+     ...|++++|++.|++.++.. +-+...|..+..++...|+ +++|...++.+++.. +.+..+|.
T Consensus        98 ~a~~~lg~~~-----~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~  170 (382)
T 2h6f_A           98 DVYDYFRAVL-----QRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWH  170 (382)
T ss_dssp             HHHHHHHHHH-----HHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             HHHHHHHHHH-----HHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHH
Confidence            4566666677     77788888888888887643 3355677777777778885 888888888887765 44667788


Q ss_pred             HHHHHHHhcCCHHHHHHHHHhccC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHc-cC
Q 009066          212 PLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNH-AG  287 (545)
Q Consensus       212 ~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~-~g  287 (545)
                      .+..+|.+.|++++|...|+++.+   .+...|..+..++.+.|++++|+..|+++++.... +...|+.+..++.. .|
T Consensus       171 ~~g~~~~~~g~~~eAl~~~~kal~ldP~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P~-~~~a~~~lg~~l~~l~~  249 (382)
T 2h6f_A          171 HRRVLVEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTTG  249 (382)
T ss_dssp             HHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcC
Confidence            888888888888888888888764   46778888888888899999999999998886432 56777777777777 55


Q ss_pred             cHHHH-----HHHHHHhHHhcCCCCCHHHHHHHHHHHhHcC--CHHHHHHHHHhCCCCC-CHhHHHHHHHHHHhcC----
Q 009066          288 LVDLG-----IQYFDSMVNDYGIAAKPDHYTCMVDLLGRAG--KLVEAVDLIKKMPFKP-QPAIFGTLLSACRVHK----  355 (545)
Q Consensus       288 ~~~~a-----~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g--~~~~A~~~~~~m~~~p-~~~~~~~li~~~~~~g----  355 (545)
                      ..++|     +..+++.++.  -+.+...|..+..+|...|  ++++|++.+.++...| +...+..+...|...|    
T Consensus       250 ~~~eA~~~~el~~~~~Al~l--~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~~~~p~~~~al~~La~~~~~~~~~~~  327 (382)
T 2h6f_A          250 YNDRAVLEREVQYTLEMIKL--VPHNESAWNYLKGILQDRGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQC  327 (382)
T ss_dssp             SCSHHHHHHHHHHHHHHHHH--STTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTC
T ss_pred             cchHHHHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHccCccchHHHHHHHHHhccCCCCHHHHHHHHHHHHHHhcccc
Confidence            54666     4777777653  2445778888888888888  6888988888774445 4567888888888764    


Q ss_pred             -----CHHHHHHHHHHH-hcCCCCCCchhHHHHHHHHHH
Q 009066          356 -----RLDLAEFAAMNL-FNLNPANAAGCYVQLANIYAA  388 (545)
Q Consensus       356 -----~~~~A~~~~~~~-~~~~p~~~~~~~~~l~~~~~~  388 (545)
                           ..++|+.+++++ .+++|.... .|..++..+..
T Consensus       328 ~~~~~~~~~A~~~~~~l~~~~DP~r~~-~w~~~~~~l~~  365 (382)
T 2h6f_A          328 DNKEDILNKALELCEILAKEKDTIRKE-YWRYIGRSLQS  365 (382)
T ss_dssp             SSHHHHHHHHHHHHHHHHHTTCGGGHH-HHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHHHHhCchhHH-HHHHHHHHHHH
Confidence                 258999999999 899998876 77777766543

>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=99.52  E-value=1.3e-12  Score=120.98  Aligned_cols=196  Identities=11%  Similarity=-0.013  Sum_probs=171.5

Q ss_pred             cccHHHHHHHHHhcCCHHHHHHHHHhccC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 009066          207 TTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLAC  283 (545)
Q Consensus       207 ~~~~~~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~  283 (545)
                      ...+..+...|...|++++|...|+++.+   .+...|..+...|...|++++|++.|+++.+.. +.+...+..+...+
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~  115 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEIDPSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGFL  115 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHH
Confidence            45677788999999999999999998763   467889999999999999999999999998864 33677888888999


Q ss_pred             HccCcHHHHHHHHHHhHHhcCCCC-CHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHH
Q 009066          284 NHAGLVDLGIQYFDSMVNDYGIAA-KPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLA  360 (545)
Q Consensus       284 ~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A  360 (545)
                      ...|++++|.++++++.+ .+..| +...+..+...|.+.|++++|.+.+++. ...| +...|..+...+...|++++|
T Consensus       116 ~~~g~~~~A~~~~~~~~~-~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  194 (252)
T 2ho1_A          116 YEQKRYEEAYQRLLEASQ-DTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNRNQPSVALEMADLLYKEREYVPA  194 (252)
T ss_dssp             HHTTCHHHHHHHHHHHTT-CTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhHHHHHHHHHHHHHh-CccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCCHHHH
Confidence            999999999999999876 22344 5678889999999999999999999987 2233 578899999999999999999


Q ss_pred             HHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhhC
Q 009066          361 EFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKEN  405 (545)
Q Consensus       361 ~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  405 (545)
                      ...++++++..|++.. .+..++.+|...|++++|.+.++.+.+.
T Consensus       195 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~~g~~~~A~~~~~~~~~~  238 (252)
T 2ho1_A          195 RQYYDLFAQGGGQNAR-SLLLGIRLAKVFEDRDTAASYGLQLKRL  238 (252)
T ss_dssp             HHHHHHHHTTSCCCHH-HHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCcCcHH-HHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            9999999999998887 8999999999999999999999998764

>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=99.52  E-value=4.9e-12  Score=118.76  Aligned_cols=220  Identities=12%  Similarity=0.013  Sum_probs=128.0

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHh----cCCHHHHHHHHHhccC-CChhhHHHHHHHH
Q 009066          174 SLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCK----CGDLEDACKLFLEIQR-KDVVTWNAMISGY  248 (545)
Q Consensus       174 t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~----~g~~~~A~~~f~~~~~-~~~~~~~~li~~~  248 (545)
                      ++..+...+...|++++|...++...+.   .+...+..+..+|..    .|++++|...|++..+ .+..++..+...|
T Consensus         8 a~~~lg~~~~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~   84 (273)
T 1ouv_A            8 ELVGLGAKSYKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLNYSNGCHLLGNLY   84 (273)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            3444444444445555555555555442   123344445555555    5555555555555443 2445555555566


Q ss_pred             HH----cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHc----cCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHh
Q 009066          249 AQ----HGKGEKALRLFDKMKDEGMKPDSITFVALLLACNH----AGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLG  320 (545)
Q Consensus       249 ~~----~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~  320 (545)
                      ..    .+++++|+..|++..+.+   +...+..+...+..    .+++++|...+++..+. +   +...+..+...|.
T Consensus        85 ~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~-~---~~~a~~~lg~~~~  157 (273)
T 1ouv_A           85 YSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL-N---DGDGCTILGSLYD  157 (273)
T ss_dssp             HHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHH
T ss_pred             hCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhc-C---cHHHHHHHHHHHH
Confidence            65    666666666666665543   44555555555555    66666666666666542 2   4455556666666


Q ss_pred             H----cCCHHHHHHHHHhCCCCCCHhHHHHHHHHHHh----cCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHH----
Q 009066          321 R----AGKLVEAVDLIKKMPFKPQPAIFGTLLSACRV----HKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAA----  388 (545)
Q Consensus       321 ~----~g~~~~A~~~~~~m~~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~----  388 (545)
                      .    .+++++|...|++.-...+...+..+...|..    .+++++|...++++.+.+|  .. ++..|+.+|..    
T Consensus       158 ~~~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~--~~-a~~~l~~~~~~g~~~  234 (273)
T 1ouv_A          158 AGRGTPKDLKKALASYDKACDLKDSPGCFNAGNMYHHGEGATKNFKEALARYSKACELEN--GG-GCFNLGAMQYNGEGV  234 (273)
T ss_dssp             HTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTTC--HH-HHHHHHHHHHTTSSS
T ss_pred             cCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCCC--HH-HHHHHHHHHHcCCCc
Confidence            5    66666666666655111345566666666666    7777777777777776655  23 66777777777    


Q ss_pred             cCCchHHHHHHHHhhhCC
Q 009066          389 MKKWDDVARIRLSMKENN  406 (545)
Q Consensus       389 ~g~~~~a~~~~~~m~~~~  406 (545)
                      .+++++|.+.+++..+.|
T Consensus       235 ~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          235 TRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             SCCSTTHHHHHHHHHHHT
T ss_pred             ccCHHHHHHHHHHHHHcC
Confidence            777777777777766544

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.51  E-value=1.8e-12  Score=117.43  Aligned_cols=199  Identities=14%  Similarity=0.023  Sum_probs=97.3

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccC---CChhhHHHHHHHHHH
Q 009066          174 SLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQ  250 (545)
Q Consensus       174 t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~  250 (545)
                      .+..+...+...|++++|.+.++.+.+.. +.+..++..+...|...|++++|.+.|+++.+   .+..+|..+...|..
T Consensus        10 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~   88 (225)
T 2vq2_A           10 IKTQLAMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIKPDSAEINNNYGWFLCG   88 (225)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHH
Confidence            33344444444444444444444444432 22233444444555555555555555544432   234445555555555


Q ss_pred             c-CChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHH
Q 009066          251 H-GKGEKALRLFDKMKDEGMKPD-SITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEA  328 (545)
Q Consensus       251 ~-g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  328 (545)
                      . |++++|+..|+++.+.+..|+ ...+..+..++...|++++|...++.+.+.  .+.+...+..+...|.+.|++++|
T Consensus        89 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A  166 (225)
T 2vq2_A           89 RLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAA--QPQFPPAFKELARTKMLAGQLGDA  166 (225)
T ss_dssp             TTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             hcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCchHHHHHHHHHHHcCCHHHH
Confidence            5 555555555555554222222 234444555555555555555555555442  122345555555555555555555


Q ss_pred             HHHHHhC-CCC--CCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCC
Q 009066          329 VDLIKKM-PFK--PQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANA  375 (545)
Q Consensus       329 ~~~~~~m-~~~--p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~  375 (545)
                      .+.+++. ...  .+...+..+...+...|+.+.|...++.+.+..|++.
T Consensus       167 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~p~~~  216 (225)
T 2vq2_A          167 DYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQANFPYSE  216 (225)
T ss_dssp             HHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCH
T ss_pred             HHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhCCCCH
Confidence            5555544 111  2334444444555555566655555555555555554

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.51  E-value=1.3e-12  Score=118.30  Aligned_cols=197  Identities=14%  Similarity=0.056  Sum_probs=170.9

Q ss_pred             CcccHHHHHHHHHhcCCHHHHHHHHHhccC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 009066          206 DTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLA  282 (545)
Q Consensus       206 ~~~~~~~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a  282 (545)
                      +..++..+...|...|++++|.+.|+++.+   .+...|..+...|...|++++|+..|+++.... +.+..++..+...
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~   85 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKSDPKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGWF   85 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHHH
Confidence            456778899999999999999999998764   467789999999999999999999999998863 3367788888899


Q ss_pred             HHcc-CcHHHHHHHHHHhHHhcCCCC-CHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHH
Q 009066          283 CNHA-GLVDLGIQYFDSMVNDYGIAA-KPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLD  358 (545)
Q Consensus       283 ~~~~-g~~~~a~~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~  358 (545)
                      +... |++++|...++.+.+. +..| +...+..+...|...|++++|...++++ ...| +...|..+...+...|+++
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~  164 (225)
T 2vq2_A           86 LCGRLNRPAESMAYFDKALAD-PTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQPQFPPAFKELARTKMLAGQLG  164 (225)
T ss_dssp             HHTTTCCHHHHHHHHHHHHTS-TTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHhcCcHHHHHHHHHHHHcC-cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHcCCHH
Confidence            9999 9999999999999862 2333 3678899999999999999999999887 2234 5788999999999999999


Q ss_pred             HHHHHHHHHhcCCC-CCCchhHHHHHHHHHHcCCchHHHHHHHHhhhC
Q 009066          359 LAEFAAMNLFNLNP-ANAAGCYVQLANIYAAMKKWDDVARIRLSMKEN  405 (545)
Q Consensus       359 ~A~~~~~~~~~~~p-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  405 (545)
                      +|...++++++..| ++.. .+..+...+...|+.+++..+++.+.+.
T Consensus       165 ~A~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~a~~~~~~~~~~  211 (225)
T 2vq2_A          165 DADYYFKKYQSRVEVLQAD-DLLLGWKIAKALGNAQAAYEYEAQLQAN  211 (225)
T ss_dssp             HHHHHHHHHHHHHCSCCHH-HHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCCCHH-HHHHHHHHHHhcCcHHHHHHHHHHHHHh
Confidence            99999999999999 7776 8888889999999999999999988753

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.51  E-value=4.5e-13  Score=123.20  Aligned_cols=197  Identities=11%  Similarity=0.084  Sum_probs=156.3

Q ss_pred             CCcccHHHHHHHHHhcCCHHHHHHHHHhccC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 009066          205 KDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLL  281 (545)
Q Consensus       205 ~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~  281 (545)
                      .....+..+...+...|++++|...|+++.+   .+...|..+...|...|++++|+..|+++.+.. +.+...+..+..
T Consensus        21 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~   99 (243)
T 2q7f_A           21 MASMTGGQQMGRGSEFGDYEKAAEAFTKAIEENKEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGN   99 (243)
T ss_dssp             ---------------------CCTTHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHH
Confidence            3456677788899999999999999999864   367789999999999999999999999998863 336778888889


Q ss_pred             HHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHHHHhcCCHHH
Q 009066          282 ACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFK-PQPAIFGTLLSACRVHKRLDL  359 (545)
Q Consensus       282 a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~-p~~~~~~~li~~~~~~g~~~~  359 (545)
                      .+...|++++|.+.++++.+.  .+.+...+..+...|.+.|++++|...++++ ... .+...|..+...+...|++++
T Consensus       100 ~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  177 (243)
T 2q7f_A          100 VYVVKEMYKEAKDMFEKALRA--GMENGDLFYMLGTVLVKLEQPKLALPYLQRAVELNENDTEARFQFGMCLANEGMLDE  177 (243)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--TCCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHH
T ss_pred             HHHHhccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHcCCHHH
Confidence            999999999999999999874  3557888999999999999999999999987 222 467889999999999999999


Q ss_pred             HHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhhC
Q 009066          360 AEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKEN  405 (545)
Q Consensus       360 A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  405 (545)
                      |+..++++++..|++.. ++..++.+|...|++++|.+.++++.+.
T Consensus       178 A~~~~~~~~~~~~~~~~-~~~~la~~~~~~~~~~~A~~~~~~~~~~  222 (243)
T 2q7f_A          178 ALSQFAAVTEQDPGHAD-AFYNAGVTYAYKENREKALEMLDKAIDI  222 (243)
T ss_dssp             HHHHHHHHHHHCTTCHH-HHHHHHHHHHHTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCcccHH-HHHHHHHHHHHccCHHHHHHHHHHHHcc
Confidence            99999999999999887 9999999999999999999999998764

>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=99.51  E-value=6.2e-12  Score=118.09  Aligned_cols=226  Identities=11%  Similarity=-0.041  Sum_probs=168.0

Q ss_pred             cccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhc----cCcHHHHHHHHHHHHhCCCCCCc
Q 009066          132 VVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSH----LSSLQLGKQVHQLVFKSPLCKDT  207 (545)
Q Consensus       132 ~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~----~~~~~~a~~~~~~~~~~g~~~~~  207 (545)
                      ..++..+...+     ...|++++|++.|++..+.   -+...+..+...+..    .+++++|...++...+.+   +.
T Consensus         6 ~~a~~~lg~~~-----~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~   74 (273)
T 1ouv_A            6 PKELVGLGAKS-----YKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YS   74 (273)
T ss_dssp             HHHHHHHHHHH-----HHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CH
T ss_pred             hHHHHHHHHHH-----HhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CH
Confidence            34555566666     6667777777777777663   244556666666666    777777777777777765   55


Q ss_pred             ccHHHHHHHHHh----cCCHHHHHHHHHhccC-CChhhHHHHHHHHHH----cCChHHHHHHHHHHHHcCCCCCHHHHHH
Q 009066          208 TALTPLISMYCK----CGDLEDACKLFLEIQR-KDVVTWNAMISGYAQ----HGKGEKALRLFDKMKDEGMKPDSITFVA  278 (545)
Q Consensus       208 ~~~~~li~~y~~----~g~~~~A~~~f~~~~~-~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~t~~~  278 (545)
                      ..+..+..+|..    .+++++|...|++..+ .+..++..+...|..    .+++++|+..|++..+.+   +...+..
T Consensus        75 ~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~  151 (273)
T 1ouv_A           75 NGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLKYAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTI  151 (273)
T ss_dssp             HHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHH
T ss_pred             HHHHHHHHHHhCCCCcccCHHHHHHHHHHHHHcCCccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHH
Confidence            666777777777    8888888888877654 366778888888888    888888888888888765   4556666


Q ss_pred             HHHHHHc----cCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhH----cCCHHHHHHHHHhCCCCCCHhHHHHHHHH
Q 009066          279 LLLACNH----AGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGR----AGKLVEAVDLIKKMPFKPQPAIFGTLLSA  350 (545)
Q Consensus       279 ll~a~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~p~~~~~~~li~~  350 (545)
                      +...+..    .+++++|...++...+.    .++..+..+..+|..    .+++++|.+.|++.-...+...+..+...
T Consensus       152 lg~~~~~~~~~~~~~~~A~~~~~~a~~~----~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~l~~~  227 (273)
T 1ouv_A          152 LGSLYDAGRGTPKDLKKALASYDKACDL----KDSPGCFNAGNMYHHGEGATKNFKEALARYSKACELENGGGCFNLGAM  227 (273)
T ss_dssp             HHHHHHHTSSSCCCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHcCCCCCCCHHHHHHHHHHHHHC----CCHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            6667776    88899999988887763    346777888888888    89999999988876111336777888888


Q ss_pred             HHh----cCCHHHHHHHHHHHhcCCCCCC
Q 009066          351 CRV----HKRLDLAEFAAMNLFNLNPANA  375 (545)
Q Consensus       351 ~~~----~g~~~~A~~~~~~~~~~~p~~~  375 (545)
                      |..    .+++++|...++++.+.+|++.
T Consensus       228 ~~~g~~~~~~~~~A~~~~~~a~~~~~~~a  256 (273)
T 1ouv_A          228 QYNGEGVTRNEKQAIENFKKGCKLGAKGA  256 (273)
T ss_dssp             HHTTSSSSCCSTTHHHHHHHHHHHTCHHH
T ss_pred             HHcCCCcccCHHHHHHHHHHHHHcCCHHH
Confidence            888    8999999999999998888653

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.50  E-value=2.3e-12  Score=120.67  Aligned_cols=227  Identities=11%  Similarity=-0.002  Sum_probs=186.4

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccC--CCh----hhHHHHHHH
Q 009066          174 SLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR--KDV----VTWNAMISG  247 (545)
Q Consensus       174 t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~--~~~----~~~~~li~~  247 (545)
                      .+......+...|++++|...++.+++.. +.+...+..+...|...|++++|...|++..+  ++.    .+|..+...
T Consensus         5 ~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~   83 (272)
T 3u4t_A            5 VEFRYADFLFKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKI   83 (272)
T ss_dssp             CHHHHHHHHHTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHH
Confidence            44556677889999999999999999875 44666888999999999999999999998875  232    248899999


Q ss_pred             HHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHH
Q 009066          248 YAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVE  327 (545)
Q Consensus       248 ~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  327 (545)
                      |...|++++|+..|++..+.. +.+..++..+...+...|++++|...+++..+.  .+.+...+..+...+...+++++
T Consensus        84 ~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~~~~~~  160 (272)
T 3u4t_A           84 LMKKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRP--TTTDPKVFYELGQAYYYNKEYVK  160 (272)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCS--SCCCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhc--CCCcHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999863 235578888999999999999999999988753  34557778888834445569999


Q ss_pred             HHHHHHhC-CCCC-CHhHHHHHHHHHHhcCC---HHHHHHHHHHHhcCC---CCCC-----chhHHHHHHHHHHcCCchH
Q 009066          328 AVDLIKKM-PFKP-QPAIFGTLLSACRVHKR---LDLAEFAAMNLFNLN---PANA-----AGCYVQLANIYAAMKKWDD  394 (545)
Q Consensus       328 A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~---~~~A~~~~~~~~~~~---p~~~-----~~~~~~l~~~~~~~g~~~~  394 (545)
                      |.+.|++. ...| +...+..+...+...|+   +++|...++++++..   |+..     . +|..++.+|...|++++
T Consensus       161 A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~  239 (272)
T 3u4t_A          161 ADSSFVKVLELKPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIE-ANEYIAYYYTINRDKVK  239 (272)
T ss_dssp             HHHHHHHHHHHSTTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHH-HHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHhCccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHH-HHHHHHHHHHHcCCHHH
Confidence            99999987 3334 46778888888888888   888999999988764   4421     3 78889999999999999


Q ss_pred             HHHHHHHhhhC
Q 009066          395 VARIRLSMKEN  405 (545)
Q Consensus       395 a~~~~~~m~~~  405 (545)
                      |.+.+++..+.
T Consensus       240 A~~~~~~al~~  250 (272)
T 3u4t_A          240 ADAAWKNILAL  250 (272)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHhc
Confidence            99999998764

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.50  E-value=8.5e-13  Score=133.53  Aligned_cols=336  Identities=13%  Similarity=0.057  Sum_probs=200.2

Q ss_pred             HHHHcCCCCHHHHHHHHhcCC-CCCeehHHHHHHHHHhCCCH---HHHHHHHhhCCcCCHhHHHHHHHHHHHcC-----C
Q 009066           46 SCILLNSDDVVAAFDFFQRLP-IKDTASWNTMISGFVQKKNM---AKARDLFLAMPEKNSVSWSAMISGYIECG-----Q  116 (545)
Q Consensus        46 ~~~~~~~g~~~~A~~~~~~m~-~~d~~~~~~li~~~~~~g~~---~~a~~~~~~~~~~~~~~~~~li~~~~~~g-----~  116 (545)
                      ..+.+. |++++|.++|++.. ..+..++..|...|...|+.   ++|...|++..+.++..+..|..++...|     +
T Consensus        11 ~~~~~~-g~~~~A~~~~~~aa~~g~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~~~~A~~~Lg~~~~~~~~~~~~~   89 (452)
T 3e4b_A           11 NEALKR-GDTVTAQQNYQQLAELGYSEAQVGLADIQVGTRDPAQIKQAEATYRAAADTSPRAQARLGRLLAAKPGATEAE   89 (452)
T ss_dssp             HHHHHH-HHHHHHHHHHHHHHHHTCCTGGGTCC----------------------------CHHHHHHHHHTC--CCHHH
T ss_pred             HHHHhC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhCCHHHHHHHHHHHHhCCCCCCcC
Confidence            344556 88888888888765 33555666666777777777   78888888877666677777777555555     6


Q ss_pred             hHHHHHHHhhCCCC-CcccHHHHHHHhcchhhhccCCh---HHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccC----cH
Q 009066          117 LDKAVELFKVAPVK-SVVAWTAMISGYMKFGYVENSWA---EDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLS----SL  188 (545)
Q Consensus       117 ~~~A~~~f~~~~~~-~~~~~~~li~~~~~~g~~~~g~~---~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~----~~  188 (545)
                      .++|.+.|++...+ +...+..|...|     ...+..   .++++.+.+....|   +......+...|...+    +.
T Consensus        90 ~~~A~~~~~~Aa~~g~~~A~~~Lg~~y-----~~~~~~~~~~~a~~~~~~a~~~g---~~~a~~~Lg~~y~~~~~~~~~~  161 (452)
T 3e4b_A           90 HHEAESLLKKAFANGEGNTLIPLAMLY-----LQYPHSFPNVNAQQQISQWQAAG---YPEAGLAQVLLYRTQGTYDQHL  161 (452)
T ss_dssp             HHHHHHHHHHHHHTTCSSCHHHHHHHH-----HHCGGGCTTCCHHHHHHHHHHHT---CTTHHHHHHHHHHHHTCGGGGH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHH-----HhCCCCCCCHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcccCH
Confidence            77888888765533 456777777777     443332   34555555555444   2334445555555555    34


Q ss_pred             HHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcC---CHHHHHHHHHhccCC---ChhhHHHHHHHHHHc----CChHHHH
Q 009066          189 QLGKQVHQLVFKSPLCKDTTALTPLISMYCKCG---DLEDACKLFLEIQRK---DVVTWNAMISGYAQH----GKGEKAL  258 (545)
Q Consensus       189 ~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g---~~~~A~~~f~~~~~~---~~~~~~~li~~~~~~----g~~~~A~  258 (545)
                      +.+..++....+.    +...+..|..+|.+.|   +.++|.+.|++..+.   +...+..+...|...    +++++|+
T Consensus       162 ~~a~~~~~~a~~~----~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~~a~~~~~Lg~~y~~g~~~~~d~~~A~  237 (452)
T 3e4b_A          162 DDVERICKAALNT----TDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGTVTAQRVDSVARVLGDATLGTPDEKTAQ  237 (452)
T ss_dssp             HHHHHHHHHHTTT----CTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCSCHHHHHHHHHHHTCGGGSSCCHHHHH
T ss_pred             HHHHHHHHHHHcC----CHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCCCHHHHH
Confidence            4444444444332    3336777888888888   788888888776542   333345666666443    5788888


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHH-H--HccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcC-----CHHHHHH
Q 009066          259 RLFDKMKDEGMKPDSITFVALLLA-C--NHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAG-----KLVEAVD  330 (545)
Q Consensus       259 ~~~~~m~~~g~~p~~~t~~~ll~a-~--~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-----~~~~A~~  330 (545)
                      ..|++.. .|   +...+..+... +  ...++.++|.++|++..+. |   ++..+..|..+|. .|     ++++|.+
T Consensus       238 ~~~~~aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~-g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~  308 (452)
T 3e4b_A          238 ALLEKIA-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAA-D---QPRAELLLGKLYY-EGKWVPADAKAAEA  308 (452)
T ss_dssp             HHHHHHG-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHH-HCSSSCCCHHHHHH
T ss_pred             HHHHHHc-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHC-C---CHHHHHHHHHHHH-cCCCCCCCHHHHHH
Confidence            8888876 32   33444444444 3  4577888888888877653 3   5667777777776 44     8888888


Q ss_pred             HHHhCCCCCCHhHHHHHHHHHHh----cCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHH----cCCchHHHHHHHHh
Q 009066          331 LIKKMPFKPQPAIFGTLLSACRV----HKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAA----MKKWDDVARIRLSM  402 (545)
Q Consensus       331 ~~~~m~~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~m  402 (545)
                      .|++.- ..+...+..|...|..    ..++++|...|++..+.+.  +. +...|+.+|..    ..+.++|...++..
T Consensus       309 ~~~~Aa-~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~--~~-A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A  384 (452)
T 3e4b_A          309 HFEKAV-GREVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQ--NS-ADFAIAQLFSQGKGTKPDPLNAYVFSQLA  384 (452)
T ss_dssp             HHHTTT-TTCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTC--TT-HHHHHHHHHHSCTTBCCCHHHHHHHHHHH
T ss_pred             HHHHHh-CCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhCh--HH-HHHHHHHHHHhCCCCCCCHHHHHHHHHHH
Confidence            888876 5566777777766665    3488888888888776543  33 67778887765    34777888888877


Q ss_pred             hhCCC
Q 009066          403 KENNV  407 (545)
Q Consensus       403 ~~~~~  407 (545)
                      .+.|.
T Consensus       385 ~~~g~  389 (452)
T 3e4b_A          385 KAQDT  389 (452)
T ss_dssp             HTTCC
T ss_pred             HHCCC
Confidence            76654

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.49  E-value=7.4e-13  Score=124.22  Aligned_cols=237  Identities=8%  Similarity=-0.090  Sum_probs=157.6

Q ss_pred             cCChHHHHHHHhhCCCC-------CcccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccC
Q 009066          114 CGQLDKAVELFKVAPVK-------SVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLS  186 (545)
Q Consensus       114 ~g~~~~A~~~f~~~~~~-------~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~  186 (545)
                      .|++++|.+.|+++...       +..+|..+...+     ...|++++|+..|+++.+.. +.+..++..+...+...|
T Consensus        18 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~-----~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~   91 (275)
T 1xnf_A           18 TLQQEVILARMEQILASRALTDDERAQLLYERGVLY-----DSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAG   91 (275)
T ss_dssp             CHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHH-----HHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTT
T ss_pred             cchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHH-----HHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHcc
Confidence            35566666666554331       234566666666     77777777777777776643 335667777777777777


Q ss_pred             cHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccC--CChhhHHHHHHHHHHcCChHHHHHHHHHH
Q 009066          187 SLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR--KDVVTWNAMISGYAQHGKGEKALRLFDKM  264 (545)
Q Consensus       187 ~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m  264 (545)
                      ++++|...++.+++.. +.+..++..+..+|.+.|++++|...|+++.+  |+.......+..+...|++++|+..+++.
T Consensus        92 ~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  170 (275)
T 1xnf_A           92 NFDAAYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDDPNDPFRSLWLYLAEQKLDEKQAKEVLKQH  170 (275)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            7777777777777754 34566777788888888888888888887753  44333444444556678888999888877


Q ss_pred             HHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCC-----HHHHHHHHHHHhHcCCHHHHHHHHHhC-CCC
Q 009066          265 KDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAK-----PDHYTCMVDLLGRAGKLVEAVDLIKKM-PFK  338 (545)
Q Consensus       265 ~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~-----~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~  338 (545)
                      .... +++...+ .++..+...++.++|...+....+.   .|+     ...+..+...|.+.|++++|...|++. ...
T Consensus       171 ~~~~-~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  245 (275)
T 1xnf_A          171 FEKS-DKEQWGW-NIVEFYLGNISEQTLMERLKADATD---NTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN  245 (275)
T ss_dssp             HHHS-CCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCS---HHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HhcC-CcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcc---cccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Confidence            7653 3333333 3566677777888888888776532   232     577888889999999999999999887 445


Q ss_pred             CCHhHHHHHHHHHHhcCCHHHHHHHH
Q 009066          339 PQPAIFGTLLSACRVHKRLDLAEFAA  364 (545)
Q Consensus       339 p~~~~~~~li~~~~~~g~~~~A~~~~  364 (545)
                      |+.  +.....++...|++++|+..+
T Consensus       246 p~~--~~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          246 VHN--FVEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             CTT--CHHHHHHHHHHHHHHHC----
T ss_pred             chh--HHHHHHHHHHHHHHHhhHHHH
Confidence            533  333355667778888877665

>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=99.48  E-value=8.8e-13  Score=129.57  Aligned_cols=227  Identities=11%  Similarity=0.066  Sum_probs=193.4

Q ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCC-HHHHHHHHHhccC---CChhhHHHHHHH
Q 009066          172 ASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGD-LEDACKLFLEIQR---KDVVTWNAMISG  247 (545)
Q Consensus       172 ~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~-~~~A~~~f~~~~~---~~~~~~~~li~~  247 (545)
                      ...|..+..++...|++++|...++.+++.. +.+..+|+.+..+|.+.|+ +++|+..|+++.+   .+...|+.+...
T Consensus        97 ~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~~~~a~~~~g~~  175 (382)
T 2h6f_A           97 RDVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVL  175 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCCCHHHHHHHHHH
Confidence            3467777778889999999999999999875 4567889999999999997 9999999999874   477899999999


Q ss_pred             HHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhH-cCCHH
Q 009066          248 YAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGR-AGKLV  326 (545)
Q Consensus       248 ~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~-~g~~~  326 (545)
                      +...|++++|+..|+++++... -+...|..+..++...|++++|+..++++++.  -+.+...|+.+..+|.+ .|..+
T Consensus       176 ~~~~g~~~eAl~~~~kal~ldP-~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l--~P~~~~a~~~lg~~l~~l~~~~~  252 (382)
T 2h6f_A          176 VEWLRDPSQELEFIADILNQDA-KNYHAWQHRQWVIQEFKLWDNELQYVDQLLKE--DVRNNSVWNQRYFVISNTTGYND  252 (382)
T ss_dssp             HHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCSCS
T ss_pred             HHHccCHHHHHHHHHHHHHhCc-cCHHHHHHHHHHHHHcCChHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCcch
Confidence            9999999999999999998643 36778888999999999999999999999874  35568899999999999 67657


Q ss_pred             HH-----HHHHHhC-CCCC-CHhHHHHHHHHHHhcC--CHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcC-------
Q 009066          327 EA-----VDLIKKM-PFKP-QPAIFGTLLSACRVHK--RLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMK-------  390 (545)
Q Consensus       327 ~A-----~~~~~~m-~~~p-~~~~~~~li~~~~~~g--~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g-------  390 (545)
                      +|     ++.|++. .+.| +...|..+...+...|  ++++|+..++++ +.+|++.. ++..|+.+|.+.|       
T Consensus       253 eA~~~~el~~~~~Al~l~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~~p~~~~-al~~La~~~~~~~~~~~~~~  330 (382)
T 2h6f_A          253 RAVLEREVQYTLEMIKLVPHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QPSHSSPY-LIAFLVDIYEDMLENQCDNK  330 (382)
T ss_dssp             HHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TTTCCCHH-HHHHHHHHHHHHHHTTCSSH
T ss_pred             HHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHccCccchHHHHHHHHHh-ccCCCCHH-HHHHHHHHHHHHhcccccch
Confidence            77     4667665 3445 5678999999999888  689999999998 89999887 8999999999875       


Q ss_pred             --CchHHHHHHHHh-hh
Q 009066          391 --KWDDVARIRLSM-KE  404 (545)
Q Consensus       391 --~~~~a~~~~~~m-~~  404 (545)
                        ..++|.++++++ .+
T Consensus       331 ~~~~~~A~~~~~~l~~~  347 (382)
T 2h6f_A          331 EDILNKALELCEILAKE  347 (382)
T ss_dssp             HHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence              358899999988 44

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.48  E-value=1.1e-12  Score=130.45  Aligned_cols=255  Identities=12%  Similarity=0.055  Sum_probs=163.6

Q ss_pred             hccCChHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHhccCcHHHHHHHHHHHHhC----CCCC-CcccHHHHHHHHH
Q 009066          148 VENSWAEDGLKLLRMMIGLGIRPN----ASSLSSVLLGCSHLSSLQLGKQVHQLVFKS----PLCK-DTTALTPLISMYC  218 (545)
Q Consensus       148 ~~~g~~~~A~~~~~~m~~~~~~pd----~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~----g~~~-~~~~~~~li~~y~  218 (545)
                      ...|++++|+..|++..+.+ +.+    ...+..+...+...|++++|...++.+++.    +..+ ...++..+...|.
T Consensus        20 ~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~   98 (406)
T 3sf4_A           20 CKSGDCRAGVSFFEAAVQVG-TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLK   98 (406)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHH
Confidence            55666666666666665532 112    134455555566666666666666554332    1111 1345556667777


Q ss_pred             hcCCHHHHHHHHHhccC-----CC----hhhHHHHHHHHHHcCC--------------------hHHHHHHHHHHHHc--
Q 009066          219 KCGDLEDACKLFLEIQR-----KD----VVTWNAMISGYAQHGK--------------------GEKALRLFDKMKDE--  267 (545)
Q Consensus       219 ~~g~~~~A~~~f~~~~~-----~~----~~~~~~li~~~~~~g~--------------------~~~A~~~~~~m~~~--  267 (545)
                      ..|++++|...|++..+     ++    ..++..+...|...|+                    +++|+..+++....  
T Consensus        99 ~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~  178 (406)
T 3sf4_A           99 VLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLVT  178 (406)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHH
Confidence            77777777777766543     12    3367777777777777                    77787777776542  


Q ss_pred             --CCCCC-HHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCC----HHHHHHHHHHHhHcCCHHHHHHHHHhC----C
Q 009066          268 --GMKPD-SITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAK----PDHYTCMVDLLGRAGKLVEAVDLIKKM----P  336 (545)
Q Consensus       268 --g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~m----~  336 (545)
                        +..|. ..++..+...+...|++++|...+++..+...-.++    ...+..+...|...|++++|...+++.    +
T Consensus       179 ~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~  258 (406)
T 3sf4_A          179 ALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLAR  258 (406)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             hccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHH
Confidence              11111 235666677778888888888888776643211122    336777888888888888888888765    1


Q ss_pred             CCCC----HhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCC------CchhHHHHHHHHHHcCCchHHHHHHHHhhh
Q 009066          337 FKPQ----PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPAN------AAGCYVQLANIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       337 ~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~------~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  404 (545)
                      ..++    ..++..+...+...|++++|...++++++..+..      .. ++..++.+|...|++++|.+.+++..+
T Consensus       259 ~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~-~~~~la~~~~~~g~~~~A~~~~~~al~  335 (406)
T 3sf4_A          259 QLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGR-ACWSLGNAYTALGNHDQAMHFAEKHLE  335 (406)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             hCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHH-HHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            1122    4567778888888899999988888887654322      33 677888889999999999988887654

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.45  E-value=7.5e-13  Score=134.81  Aligned_cols=209  Identities=11%  Similarity=0.031  Sum_probs=172.2

Q ss_pred             HHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCH-HHHHHHHHhccC---CChhhHHHHHHHHHHcCChHHHHHHHHH
Q 009066          188 LQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDL-EDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDK  263 (545)
Q Consensus       188 ~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~-~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~  263 (545)
                      ++.+.+.+....+.. +.+...+..+...|...|++ ++|.+.|++..+   .+...|..+...|.+.|++++|+..|++
T Consensus        84 ~~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~  162 (474)
T 4abn_A           84 MEKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEPELVEAWNQLGEVYWKKGDVTSAHTCFSG  162 (474)
T ss_dssp             HHHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            445555555544432 34566777788888888888 888888887653   3577899999999999999999999999


Q ss_pred             HHHcCCCCCHHHHHHHHHHHHcc---------CcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHc--------CCHH
Q 009066          264 MKDEGMKPDSITFVALLLACNHA---------GLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRA--------GKLV  326 (545)
Q Consensus       264 m~~~g~~p~~~t~~~ll~a~~~~---------g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~--------g~~~  326 (545)
                      ..+.  .|+...+..+..++...         |++++|...+++..+.  .+.+...|..+..+|...        |+++
T Consensus       163 al~~--~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~~~~g~~~  238 (474)
T 4abn_A          163 ALTH--CKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQM--DVLDGRSWYILGNAYLSLYFNTGQNPKISQ  238 (474)
T ss_dssp             HHTT--CCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHTTCCHHHHH
T ss_pred             HHhh--CCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHhhccccchHH
Confidence            9875  57778888888888888         9999999999998874  245688899999999988        9999


Q ss_pred             HHHHHHHhC-CCCC----CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHH
Q 009066          327 EAVDLIKKM-PFKP----QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLS  401 (545)
Q Consensus       327 ~A~~~~~~m-~~~p----~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  401 (545)
                      +|.+.|++. ...|    +...|..+...|...|++++|...|+++++++|++.. ++..+..++...|++++|.+.+..
T Consensus       239 ~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~-a~~~l~~~~~~lg~~~eAi~~~~~  317 (474)
T 4abn_A          239 QALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDPAWPE-PQQREQQLLEFLSRLTSLLESKGK  317 (474)
T ss_dssp             HHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHHHHHHHHHHHHhcc
Confidence            999999887 3345    6788999999999999999999999999999999987 899999999999999999876654


Q ss_pred             h
Q 009066          402 M  402 (545)
Q Consensus       402 m  402 (545)
                      +
T Consensus       318 ~  318 (474)
T 4abn_A          318 T  318 (474)
T ss_dssp             C
T ss_pred             c
Confidence            4

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.44  E-value=1.2e-12  Score=130.86  Aligned_cols=255  Identities=11%  Similarity=0.003  Sum_probs=165.5

Q ss_pred             hccCChHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHhccCcHHHHHHHHHHHHhC----CC-CCCcccHHHHHHHHH
Q 009066          148 VENSWAEDGLKLLRMMIGLGIRPNA----SSLSSVLLGCSHLSSLQLGKQVHQLVFKS----PL-CKDTTALTPLISMYC  218 (545)
Q Consensus       148 ~~~g~~~~A~~~~~~m~~~~~~pd~----~t~~~ll~~~~~~~~~~~a~~~~~~~~~~----g~-~~~~~~~~~li~~y~  218 (545)
                      ...|++++|+..|+++.+.+ +.+.    ..+..+...+...|++++|...++.+++.    +. +....++..+...|.
T Consensus        59 ~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~  137 (411)
T 4a1s_A           59 CNAGDCRAGVAFFQAAIQAG-TEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNLGNTLK  137 (411)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHhCcHHHHHHHHHHHHHhc-ccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHHHHHHH
Confidence            55666666666666665542 1122    24555555666666666666666655442    11 122345566677777


Q ss_pred             hcCCHHHHHHHHHhccCC---------ChhhHHHHHHHHHHcCC-----------------hHHHHHHHHHHHHc----C
Q 009066          219 KCGDLEDACKLFLEIQRK---------DVVTWNAMISGYAQHGK-----------------GEKALRLFDKMKDE----G  268 (545)
Q Consensus       219 ~~g~~~~A~~~f~~~~~~---------~~~~~~~li~~~~~~g~-----------------~~~A~~~~~~m~~~----g  268 (545)
                      ..|++++|...|++..+-         ...+|..+...|...|+                 +++|+..+++..+.    +
T Consensus       138 ~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~  217 (411)
T 4a1s_A          138 VMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDLG  217 (411)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHcC
Confidence            777777777777665421         23467777777777777                 77777777776442    1


Q ss_pred             CCC-CHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCC----HHHHHHHHHHHhHcCCHHHHHHHHHhC----CCCC
Q 009066          269 MKP-DSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAK----PDHYTCMVDLLGRAGKLVEAVDLIKKM----PFKP  339 (545)
Q Consensus       269 ~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~p  339 (545)
                      -.| ...++..+...+...|++++|...+++..+...-.++    ...+..+...|...|++++|...+++.    +...
T Consensus       218 ~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~  297 (411)
T 4a1s_A          218 DRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELG  297 (411)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcC
Confidence            111 1235666677788888888888888776653211111    236777888888888888888888765    1111


Q ss_pred             C----HhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCC------CchhHHHHHHHHHHcCCchHHHHHHHHhhh
Q 009066          340 Q----PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPAN------AAGCYVQLANIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       340 ~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~------~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  404 (545)
                      +    ..++..+...+...|++++|...++++++..+..      .. ++..++.+|...|++++|.+.+++..+
T Consensus       298 ~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~-~~~~la~~~~~~g~~~~A~~~~~~al~  371 (411)
T 4a1s_A          298 EREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEAR-ACWSLGNAHSAIGGHERALKYAEQHLQ  371 (411)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHH-HHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHH-HHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            1    4567778888888999999999888887653321      22 677889999999999999999888765

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.44  E-value=3e-12  Score=123.44  Aligned_cols=256  Identities=13%  Similarity=0.055  Sum_probs=170.1

Q ss_pred             hccCChHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHhccCcHHHHHHHHHHHHhC----CCC-CCcccHHHHHHHHH
Q 009066          148 VENSWAEDGLKLLRMMIGLGIRPN----ASSLSSVLLGCSHLSSLQLGKQVHQLVFKS----PLC-KDTTALTPLISMYC  218 (545)
Q Consensus       148 ~~~g~~~~A~~~~~~m~~~~~~pd----~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~----g~~-~~~~~~~~li~~y~  218 (545)
                      ...|++++|+..|+++.+.. +.+    ...+..+...+...|++++|...+..+.+.    +.. ....++..+...|.
T Consensus        16 ~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~   94 (338)
T 3ro2_A           16 CKSGDCRAGVSFFEAAVQVG-TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLK   94 (338)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHHH
Confidence            55666666666666666542 112    234555556666666666666666655432    111 12345666777777


Q ss_pred             hcCCHHHHHHHHHhccC-----CC----hhhHHHHHHHHHHcCC--------------------hHHHHHHHHHHHHc--
Q 009066          219 KCGDLEDACKLFLEIQR-----KD----VVTWNAMISGYAQHGK--------------------GEKALRLFDKMKDE--  267 (545)
Q Consensus       219 ~~g~~~~A~~~f~~~~~-----~~----~~~~~~li~~~~~~g~--------------------~~~A~~~~~~m~~~--  267 (545)
                      ..|++++|...|++..+     ++    ..++..+...|...|+                    +++|+..+++....  
T Consensus        95 ~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~~~  174 (338)
T 3ro2_A           95 VLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSLVT  174 (338)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHH
Confidence            77787777777776542     12    2367777777777888                    78888887776532  


Q ss_pred             --CCCCC-HHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCC----HHHHHHHHHHHhHcCCHHHHHHHHHhC----C
Q 009066          268 --GMKPD-SITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAK----PDHYTCMVDLLGRAGKLVEAVDLIKKM----P  336 (545)
Q Consensus       268 --g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~m----~  336 (545)
                        +..|. ..++..+...+...|++++|...++...+...-.++    ...+..+...|...|++++|...+++.    +
T Consensus       175 ~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~  254 (338)
T 3ro2_A          175 ALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLAR  254 (338)
T ss_dssp             HHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHH
T ss_pred             hcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHH
Confidence              11111 235666677788888888888888876643111111    336778888888999999998888765    1


Q ss_pred             CCCC----HhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCC------CchhHHHHHHHHHHcCCchHHHHHHHHhhhC
Q 009066          337 FKPQ----PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPAN------AAGCYVQLANIYAAMKKWDDVARIRLSMKEN  405 (545)
Q Consensus       337 ~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~------~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  405 (545)
                      ..++    ..++..+...+...|++++|...++++++..|..      .. ++..++.+|...|++++|.+.+++..+.
T Consensus       255 ~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~-~~~~la~~~~~~g~~~~A~~~~~~a~~~  332 (338)
T 3ro2_A          255 QLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGR-ACWSLGNAYTALGNHDQAMHFAEKHLEI  332 (338)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHH-HHHHHHHHHHHHTCHHHHHHHHHHHHHC
T ss_pred             hhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHH-HHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence            1122    4567778888899999999999999887654321      22 6778999999999999999999888653

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.44  E-value=3.3e-11  Score=115.32  Aligned_cols=219  Identities=9%  Similarity=0.044  Sum_probs=168.1

Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHh-------ccCcH-------HHHHHHHHHHHhCCCCCCcccHHHHHHHHHh
Q 009066          154 EDGLKLLRMMIGLGIRPNASSLSSVLLGCS-------HLSSL-------QLGKQVHQLVFKSPLCKDTTALTPLISMYCK  219 (545)
Q Consensus       154 ~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~-------~~~~~-------~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~  219 (545)
                      ++|+.+|++..... +-+...|......+.       ..|++       ++|..+++..++.-.+.+...|..++..+.+
T Consensus        33 ~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~  111 (308)
T 2ond_A           33 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHh
Confidence            67788888887642 335666776666654       34775       8899999999884224456688889999999


Q ss_pred             cCCHHHHHHHHHhccC--C-Chh-hHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH-HccCcHHHHHH
Q 009066          220 CGDLEDACKLFLEIQR--K-DVV-TWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLAC-NHAGLVDLGIQ  294 (545)
Q Consensus       220 ~g~~~~A~~~f~~~~~--~-~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~-~~~g~~~~a~~  294 (545)
                      .|++++|.++|++..+  | +.. .|..++..+.+.|++++|..+|++..+... ++...|....... ...|+.++|..
T Consensus       112 ~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p-~~~~~~~~~a~~~~~~~~~~~~A~~  190 (308)
T 2ond_A          112 RMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR-TRHHVYVTAALMEYYCSKDKSVAFK  190 (308)
T ss_dssp             TTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTT-CCTHHHHHHHHHHHHTSCCHHHHHH
T ss_pred             cCCHHHHHHHHHHHHhccccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHcCCHHHHHH
Confidence            9999999999998875  3 343 799999999999999999999999987542 3344444333332 23699999999


Q ss_pred             HHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-C---CCC--CHhHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 009066          295 YFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-P---FKP--QPAIFGTLLSACRVHKRLDLAEFAAMNLF  368 (545)
Q Consensus       295 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~---~~p--~~~~~~~li~~~~~~g~~~~A~~~~~~~~  368 (545)
                      +|+...+..  +.++..|..+++.+.+.|++++|..+|++. .   ..|  ....|..++..+...|+.+.|..+++++.
T Consensus       191 ~~~~al~~~--p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~  268 (308)
T 2ond_A          191 IFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRF  268 (308)
T ss_dssp             HHHHHHHHH--TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHHHHHHhC--CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            999888743  456788899999999999999999999887 2   344  35688999999999999999999999999


Q ss_pred             cCCCCCCc
Q 009066          369 NLNPANAA  376 (545)
Q Consensus       369 ~~~p~~~~  376 (545)
                      +..|++..
T Consensus       269 ~~~p~~~~  276 (308)
T 2ond_A          269 TAFREEYE  276 (308)
T ss_dssp             HHTTTTTS
T ss_pred             HHcccccc
Confidence            99998654

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.44  E-value=9.7e-12  Score=109.11  Aligned_cols=165  Identities=13%  Similarity=0.094  Sum_probs=106.3

Q ss_pred             ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHH
Q 009066          237 DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMV  316 (545)
Q Consensus       237 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li  316 (545)
                      +...|..+...|.+.|++++|+..|++.++... -+..++..+..++...|++++|...+......  .+.+...+..+.
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~   80 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADP-NNVETLLKLGKTYMDIGLPNDAIESLKKFVVL--DTTSAEAYYILG   80 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CchhHHHHHHHH
Confidence            344566666666666666666666666665421 24455556666666666666666666666542  233455566666


Q ss_pred             HHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchH
Q 009066          317 DLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDD  394 (545)
Q Consensus       317 ~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~  394 (545)
                      ..+...+++++|...+.+. ...| +...+..+...+...|++++|+..|+++++.+|++.. ++..++.+|.+.|++++
T Consensus        81 ~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~-~~~~lg~~~~~~g~~~~  159 (184)
T 3vtx_A           81 SANFMIDEKQAAIDALQRAIALNTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIR-AYQSIGLAYEGKGLRDE  159 (184)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHHTTCHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhh-HHHHHHHHHHHCCCHHH
Confidence            6666677777777666655 2223 4566677777777777777777777777777777766 77777777777777777


Q ss_pred             HHHHHHHhhhC
Q 009066          395 VARIRLSMKEN  405 (545)
Q Consensus       395 a~~~~~~m~~~  405 (545)
                      |.+.+++..+.
T Consensus       160 A~~~~~~al~~  170 (184)
T 3vtx_A          160 AVKYFKKALEK  170 (184)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHhC
Confidence            77777766553

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.44  E-value=9.1e-13  Score=131.10  Aligned_cols=219  Identities=12%  Similarity=0.004  Sum_probs=140.4

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHHhCCCC-C----CcccHHHHHHHHHhcCC--------------------HHHHHH
Q 009066          174 SLSSVLLGCSHLSSLQLGKQVHQLVFKSPLC-K----DTTALTPLISMYCKCGD--------------------LEDACK  228 (545)
Q Consensus       174 t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~-~----~~~~~~~li~~y~~~g~--------------------~~~A~~  228 (545)
                      ++..+...+...|++++|...+..+++.... +    ...++..+...|...|+                    +++|..
T Consensus        89 ~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~  168 (406)
T 3sf4_A           89 ASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVD  168 (406)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHH
Confidence            3444444455555555555555544332100 0    12245556666666666                    666666


Q ss_pred             HHHhccC-----C----ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcC-CCCC----HHHHHHHHHHHHccCcHHHHHH
Q 009066          229 LFLEIQR-----K----DVVTWNAMISGYAQHGKGEKALRLFDKMKDEG-MKPD----SITFVALLLACNHAGLVDLGIQ  294 (545)
Q Consensus       229 ~f~~~~~-----~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~----~~t~~~ll~a~~~~g~~~~a~~  294 (545)
                      .|++..+     .    ...+|..+...|...|++++|+..|++..+.. -.++    ..++..+...+...|++++|..
T Consensus       169 ~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~  248 (406)
T 3sf4_A          169 FYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASE  248 (406)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHH
Confidence            6655432     1    23467777788888888888888888876521 0112    2366677778888888888888


Q ss_pred             HHHHhHHhcCCCCC----HHHHHHHHHHHhHcCCHHHHHHHHHhC----CCCCC----HhHHHHHHHHHHhcCCHHHHHH
Q 009066          295 YFDSMVNDYGIAAK----PDHYTCMVDLLGRAGKLVEAVDLIKKM----PFKPQ----PAIFGTLLSACRVHKRLDLAEF  362 (545)
Q Consensus       295 ~~~~~~~~~~~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~p~----~~~~~~li~~~~~~g~~~~A~~  362 (545)
                      .++...+...-.++    ..++..+...|...|++++|...+++.    +..++    ..++..+...+...|++++|..
T Consensus       249 ~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~  328 (406)
T 3sf4_A          249 YYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMH  328 (406)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            88876643111111    557778888999999999999888776    11122    4577888889999999999999


Q ss_pred             HHHHHhcCCC------CCCchhHHHHHHHHHHcCCch
Q 009066          363 AAMNLFNLNP------ANAAGCYVQLANIYAAMKKWD  393 (545)
Q Consensus       363 ~~~~~~~~~p------~~~~~~~~~l~~~~~~~g~~~  393 (545)
                      .+++++++.+      .... ++..++.+|...|+..
T Consensus       329 ~~~~al~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~  364 (406)
T 3sf4_A          329 FAEKHLEISREVGDKSGELT-ARLNLSDLQMVLGLSY  364 (406)
T ss_dssp             HHHHHHHHHHHTTCHHHHHH-HHHHHHHHHHHHHTTS
T ss_pred             HHHHHHHHHHHhcCCcchhH-HHHHHHHHHHHhhHhH
Confidence            9999877532      2233 6777888888887664

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.40  E-value=9.5e-12  Score=109.16  Aligned_cols=168  Identities=15%  Similarity=0.088  Sum_probs=139.9

Q ss_pred             CCcccHHHHHHHHHhcCCHHHHHHHHHhccC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 009066          205 KDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLL  281 (545)
Q Consensus       205 ~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~  281 (545)
                      .+..+|..+...|.+.|++++|.+.|++..+   .+..+|..+...|.+.|++++|+..+++..... +.+...+..+..
T Consensus         3 e~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~   81 (184)
T 3vtx_A            3 ETTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGS   81 (184)
T ss_dssp             -CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHH
Confidence            3556788888999999999999999988763   467788999999999999999999999988753 234566667777


Q ss_pred             HHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHH
Q 009066          282 ACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDL  359 (545)
Q Consensus       282 a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~  359 (545)
                      .+...++++.+...+....+.  .+.+...+..+...|.+.|++++|++.|++. ...| +..+|..+...+...|++++
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~~--~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~~  159 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIAL--NTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRDE  159 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHHH
Confidence            888899999999999888763  3556788889999999999999999999887 3334 56789999999999999999


Q ss_pred             HHHHHHHHhcCCCCCC
Q 009066          360 AEFAAMNLFNLNPANA  375 (545)
Q Consensus       360 A~~~~~~~~~~~p~~~  375 (545)
                      |+..|+++++++|++.
T Consensus       160 A~~~~~~al~~~p~~a  175 (184)
T 3vtx_A          160 AVKYFKKALEKEEKKA  175 (184)
T ss_dssp             HHHHHHHHHHTTHHHH
T ss_pred             HHHHHHHHHhCCccCH
Confidence            9999999999998753

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.39  E-value=1.8e-12  Score=129.48  Aligned_cols=200  Identities=11%  Similarity=-0.029  Sum_probs=132.6

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHHhC----C-CCCCcccHHHHHHHHHhcCC-----------------HHHHHHHHH
Q 009066          174 SLSSVLLGCSHLSSLQLGKQVHQLVFKS----P-LCKDTTALTPLISMYCKCGD-----------------LEDACKLFL  231 (545)
Q Consensus       174 t~~~ll~~~~~~~~~~~a~~~~~~~~~~----g-~~~~~~~~~~li~~y~~~g~-----------------~~~A~~~f~  231 (545)
                      .+..+...+...|++++|...+..+++.    + .+....++..+...|...|+                 +++|.+.|+
T Consensus       128 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~  207 (411)
T 4a1s_A          128 SSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQ  207 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHH
Confidence            4444444555555555555555554432    1 01123345556666666676                 666666666


Q ss_pred             hccC-----C----ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCC-CCC----HHHHHHHHHHHHccCcHHHHHHHHH
Q 009066          232 EIQR-----K----DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGM-KPD----SITFVALLLACNHAGLVDLGIQYFD  297 (545)
Q Consensus       232 ~~~~-----~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~----~~t~~~ll~a~~~~g~~~~a~~~~~  297 (545)
                      +..+     .    ...+|..+...|...|++++|+..|++..+... .++    ..++..+...+...|++++|...++
T Consensus       208 ~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~  287 (411)
T 4a1s_A          208 ENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYK  287 (411)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHH
Confidence            5432     1    234677788888888888888888888765311 112    2266777788889999999999888


Q ss_pred             HhHHhcCCC----CCHHHHHHHHHHHhHcCCHHHHHHHHHhC----CCCCC----HhHHHHHHHHHHhcCCHHHHHHHHH
Q 009066          298 SMVNDYGIA----AKPDHYTCMVDLLGRAGKLVEAVDLIKKM----PFKPQ----PAIFGTLLSACRVHKRLDLAEFAAM  365 (545)
Q Consensus       298 ~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~p~----~~~~~~li~~~~~~g~~~~A~~~~~  365 (545)
                      +..+...-.    .....+..+...|...|++++|...+++.    +..++    ..++..+...|...|++++|...++
T Consensus       288 ~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~  367 (411)
T 4a1s_A          288 RTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAE  367 (411)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHH
Confidence            776532111    11567788899999999999999998876    11112    3477888889999999999999999


Q ss_pred             HHhcCCCC
Q 009066          366 NLFNLNPA  373 (545)
Q Consensus       366 ~~~~~~p~  373 (545)
                      +++++.+.
T Consensus       368 ~al~~~~~  375 (411)
T 4a1s_A          368 QHLQLAXX  375 (411)
T ss_dssp             HHHHHCCH
T ss_pred             HHHHHHhh
Confidence            98876553

>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=99.38  E-value=5e-10  Score=117.38  Aligned_cols=400  Identities=11%  Similarity=0.042  Sum_probs=269.6

Q ss_pred             CCCCccHHHHHHHHHHhCCCChHHHHHHHccCCC--C-ChhhHHHHHHHHHcCCCC---HHHHHHHHhcCC--C---CCe
Q 009066            2 NVKTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQ--P-DVVSYNIMLSCILLNSDD---VVAAFDFFQRLP--I---KDT   70 (545)
Q Consensus         2 ~~~~~~~~~~li~~~~~~g~~~~~A~~~f~~~~~--~-~~~~~~~li~~~~~~~g~---~~~A~~~~~~m~--~---~d~   70 (545)
                      +|.|..+|..++...-+.+. ++.|+.+|+.+..  | ....|...+..-.+. ++   .+.+.++|++..  .   |++
T Consensus        62 np~d~~~W~~yi~~~~~~~~-~~~aR~vyEraL~~fP~~~~lW~~Yi~~E~~~-~~~~~~~~v~~lfeRal~~~~~~~sv  139 (679)
T 4e6h_A           62 QPTDIFLYVKLLKHHVSLKQ-WKQVYETFDKLHDRFPLMANIWCMRLSLEFDK-MEELDAAVIEPVLARCLSKELGNNDL  139 (679)
T ss_dssp             CTTCHHHHHHHHHHHHHTTC-HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTC---CCCHHHHHHHHHHHTCSSSCCCCH
T ss_pred             CcCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHHHHCCCCHHHHHHHHHHHHhh-CCcchHHHHHHHHHHHHHhcCCCCCH
Confidence            56788999999999999998 9999999999873  3 455788888877777 78   999999999887  3   777


Q ss_pred             ehHHHHHHHHHhCCCH--------HHHHHHHhhCC------cC-CHhHHHHHHHHHH---------HcCChHHHHHHHhh
Q 009066           71 ASWNTMISGFVQKKNM--------AKARDLFLAMP------EK-NSVSWSAMISGYI---------ECGQLDKAVELFKV  126 (545)
Q Consensus        71 ~~~~~li~~~~~~g~~--------~~a~~~~~~~~------~~-~~~~~~~li~~~~---------~~g~~~~A~~~f~~  126 (545)
                      ..|..-+....+.++.        +...++|+..+      ++ +...|...+....         ..++++.++++|++
T Consensus       140 ~LW~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~eeq~~~~~~R~iy~r  219 (679)
T 4e6h_A          140 SLWLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQQRVQYIRKLYKT  219 (679)
T ss_dssp             HHHHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHHHhHHHHHHHHHHH
Confidence            8888877766554443        33447777643      22 3567888877654         24467889999987


Q ss_pred             CCCCCc----ccHH---HHHHHhcch-h--h--hccCChHHHHHHHHHHHh--CCCC---------------C-----CH
Q 009066          127 APVKSV----VAWT---AMISGYMKF-G--Y--VENSWAEDGLKLLRMMIG--LGIR---------------P-----NA  172 (545)
Q Consensus       127 ~~~~~~----~~~~---~li~~~~~~-g--~--~~~g~~~~A~~~~~~m~~--~~~~---------------p-----d~  172 (545)
                      ...-..    ..|.   .+...+... +  .  -....++.|...+.++..  .++.               |     +.
T Consensus       220 aL~iP~~~~~~~w~~Y~~fe~~~~~~~a~~~~~e~~~~y~~Ar~~~~e~~~~~~~l~r~~p~~~~~~~~~~~p~~~~~~~  299 (679)
T 4e6h_A          220 LLCQPMDCLESMWQRYTQWEQDVNQLTARRHIGELSAQYMNARSLYQDWLNITKGLKRNLPITLNQATESNLPKPNEYDV  299 (679)
T ss_dssp             HTTSCCSSHHHHHHHHHHHHHHHCTTTHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCCCCSSSTTCCTTTSCCTTCCCH
T ss_pred             HHhCccHHHHHHHHHHHHHHHhcCcchHHHHHHHhhHHHHHHHHHHHHHHHHHHhHhhccccccccchhccCCCCchhHH
Confidence            654211    2232   222111000 0  0  001123334445544321  1111               1     11


Q ss_pred             ---HHHHHHHHHHhccC-------cHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHH-HHHHhccC---CCh
Q 009066          173 ---SSLSSVLLGCSHLS-------SLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDAC-KLFLEIQR---KDV  238 (545)
Q Consensus       173 ---~t~~~ll~~~~~~~-------~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~-~~f~~~~~---~~~  238 (545)
                         ..|...+.---..+       ..+.+..+|++.+..- +.+..+|-..+..+...|+.++|. ++|++...   .+.
T Consensus       300 ~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~~-p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~~P~s~  378 (679)
T 4e6h_A          300 QQLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQHV-CFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQCIPNSA  378 (679)
T ss_dssp             HHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHHCTTCH
T ss_pred             HHHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHHc-CCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhCCCCH
Confidence               22333333222221       1344567788887753 456778888888888899999996 99988764   356


Q ss_pred             hhHHHHHHHHHHcCChHHHHHHHHHHHHcCC---------CCC------------HHHHHHHHHHHHccCcHHHHHHHHH
Q 009066          239 VTWNAMISGYAQHGKGEKALRLFDKMKDEGM---------KPD------------SITFVALLLACNHAGLVDLGIQYFD  297 (545)
Q Consensus       239 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~---------~p~------------~~t~~~ll~a~~~~g~~~~a~~~~~  297 (545)
                      ..|-..+...-+.|++++|.++|+++.....         .|+            ...|...+....+.|..+.|+.+|.
T Consensus       379 ~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~  458 (679)
T 4e6h_A          379 VLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFG  458 (679)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            6788888888899999999999999886410         132            2357777777778899999999999


Q ss_pred             HhHHhcCCCCCHHHHHHHHHHHhHcC-CHHHHHHHHHhC--CCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCC-
Q 009066          298 SMVNDYGIAAKPDHYTCMVDLLGRAG-KLVEAVDLIKKM--PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPA-  373 (545)
Q Consensus       298 ~~~~~~~~~~~~~~~~~li~~~~~~g-~~~~A~~~~~~m--~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~-  373 (545)
                      ...+.. ..+....|...+.+-.+.| +.+.|.++|+..  ....+...|...+......|+.+.|..+|++++...|+ 
T Consensus       459 ~A~~~~-~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~  537 (679)
T 4e6h_A          459 KCRRLK-KLVTPDIYLENAYIEYHISKDTKTACKVLELGLKYFATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDS  537 (679)
T ss_dssp             HHHHTG-GGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSST
T ss_pred             HHHHhc-CCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCH
Confidence            987641 1223445554444444554 589999999877  22235677888888888899999999999999998774 


Q ss_pred             -CCchhHHHHHHHHHHcCCchHHHHHHHHhhhC
Q 009066          374 -NAAGCYVQLANIYAAMKKWDDVARIRLSMKEN  405 (545)
Q Consensus       374 -~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  405 (545)
                       .....|...+..-.+.|+.+.+.++.+++.+.
T Consensus       538 ~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~  570 (679)
T 4e6h_A          538 HLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEK  570 (679)
T ss_dssp             THHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence             22226788888888999999999999999874

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.37  E-value=9.1e-12  Score=120.01  Aligned_cols=200  Identities=14%  Similarity=0.007  Sum_probs=126.0

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHHhCCCC-CC----cccHHHHHHHHHhcCC--------------------HHHHHH
Q 009066          174 SLSSVLLGCSHLSSLQLGKQVHQLVFKSPLC-KD----TTALTPLISMYCKCGD--------------------LEDACK  228 (545)
Q Consensus       174 t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~-~~----~~~~~~li~~y~~~g~--------------------~~~A~~  228 (545)
                      ++..+...+...|++++|...+....+.... ++    ..++..+...|...|+                    +++|.+
T Consensus        85 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~  164 (338)
T 3ro2_A           85 ASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVD  164 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHH
Confidence            3444444555555555555555554432100 01    2245556666666666                    666666


Q ss_pred             HHHhccC-----C----ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCC-CCC----HHHHHHHHHHHHccCcHHHHHH
Q 009066          229 LFLEIQR-----K----DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGM-KPD----SITFVALLLACNHAGLVDLGIQ  294 (545)
Q Consensus       229 ~f~~~~~-----~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~----~~t~~~ll~a~~~~g~~~~a~~  294 (545)
                      .|++...     +    ...++..+...|...|++++|+..+++..+... .++    ..++..+...+...|++++|..
T Consensus       165 ~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  244 (338)
T 3ro2_A          165 LYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASE  244 (338)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            6655432     1    234677777788888888888888887764210 111    2356667777888888888888


Q ss_pred             HHHHhHHhcCCCCC----HHHHHHHHHHHhHcCCHHHHHHHHHhC----CCCCC----HhHHHHHHHHHHhcCCHHHHHH
Q 009066          295 YFDSMVNDYGIAAK----PDHYTCMVDLLGRAGKLVEAVDLIKKM----PFKPQ----PAIFGTLLSACRVHKRLDLAEF  362 (545)
Q Consensus       295 ~~~~~~~~~~~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~p~----~~~~~~li~~~~~~g~~~~A~~  362 (545)
                      .++...+...-.++    ...+..+...|...|++++|...+++.    +..++    ..++..+...+...|++++|..
T Consensus       245 ~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~  324 (338)
T 3ro2_A          245 YYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMH  324 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHH
Confidence            88776543111111    556778888899999999998888776    11112    3467788889999999999999


Q ss_pred             HHHHHhcCCCC
Q 009066          363 AAMNLFNLNPA  373 (545)
Q Consensus       363 ~~~~~~~~~p~  373 (545)
                      .+++++++.+.
T Consensus       325 ~~~~a~~~~~~  335 (338)
T 3ro2_A          325 FAEKHLEISRE  335 (338)
T ss_dssp             HHHHHHHC---
T ss_pred             HHHHHHHHHHh
Confidence            99999877654

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.37  E-value=1.5e-11  Score=121.59  Aligned_cols=221  Identities=9%  Similarity=0.017  Sum_probs=109.7

Q ss_pred             hccCChHHHHHHHHHHHhCC-CCCC----HHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCC------CCcccHHHHHHH
Q 009066          148 VENSWAEDGLKLLRMMIGLG-IRPN----ASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLC------KDTTALTPLISM  216 (545)
Q Consensus       148 ~~~g~~~~A~~~~~~m~~~~-~~pd----~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~------~~~~~~~~li~~  216 (545)
                      ...|++++|+..|++..+.- -.||    ..++..+...+...|+++.|...+...++.-..      ....+++.+...
T Consensus       114 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~  193 (383)
T 3ulq_A          114 LDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHSLFATN  193 (383)
T ss_dssp             HHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHHHHHHH
Confidence            56677777777777766431 0122    235555666666666666666666665542100      012345555666


Q ss_pred             HHhcCCHHHHHHHHHhccC-----CC----hhhHHHHHHHHHHcCChHHHHHHHHHHHHc----CC-CCCHHHHHHHHHH
Q 009066          217 YCKCGDLEDACKLFLEIQR-----KD----VVTWNAMISGYAQHGKGEKALRLFDKMKDE----GM-KPDSITFVALLLA  282 (545)
Q Consensus       217 y~~~g~~~~A~~~f~~~~~-----~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~-~p~~~t~~~ll~a  282 (545)
                      |...|++++|...|++..+     ++    ..+++.+...|...|++++|+..|++..+.    +. +....++..+...
T Consensus       194 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~  273 (383)
T 3ulq_A          194 FLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFLITQI  273 (383)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHH
Confidence            6666666666666655442     11    124555666666666666666666665541    12 1123345555555


Q ss_pred             HHccCcHHHHHHHHHHhHHhc---CCCCCHHHHHHHHHHHhHcCC---HHHHHHHHHhCCCCCCH-hHHHHHHHHHHhcC
Q 009066          283 CNHAGLVDLGIQYFDSMVNDY---GIAAKPDHYTCMVDLLGRAGK---LVEAVDLIKKMPFKPQP-AIFGTLLSACRVHK  355 (545)
Q Consensus       283 ~~~~g~~~~a~~~~~~~~~~~---~~~~~~~~~~~li~~~~~~g~---~~~A~~~~~~m~~~p~~-~~~~~li~~~~~~g  355 (545)
                      +...|++++|...+++..+..   +.+.....+..+...|...|+   +++|+.++++.+..|+. ..+..+...|...|
T Consensus       274 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~~~~~~~~~~~~~la~~y~~~g  353 (383)
T 3ulq_A          274 HYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESKMLYADLEDFAIDVAKYYHERK  353 (383)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHCC
Confidence            556666666666555544321   111112223444555555555   55555555554322221 23334444444444


Q ss_pred             CHHHHHHHHHHHh
Q 009066          356 RLDLAEFAAMNLF  368 (545)
Q Consensus       356 ~~~~A~~~~~~~~  368 (545)
                      ++++|...+++++
T Consensus       354 ~~~~A~~~~~~al  366 (383)
T 3ulq_A          354 NFQKASAYFLKVE  366 (383)
T ss_dssp             CHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHH
Confidence            4444444444443

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.37  E-value=8e-12  Score=123.68  Aligned_cols=225  Identities=12%  Similarity=0.027  Sum_probs=174.2

Q ss_pred             HHHHHhccCcHHHHHHHHHHHHhC----CCCC-CcccHHHHHHHHHhcCCHHHHHHHHHhccC-----CC-----hhhHH
Q 009066          178 VLLGCSHLSSLQLGKQVHQLVFKS----PLCK-DTTALTPLISMYCKCGDLEDACKLFLEIQR-----KD-----VVTWN  242 (545)
Q Consensus       178 ll~~~~~~~~~~~a~~~~~~~~~~----g~~~-~~~~~~~li~~y~~~g~~~~A~~~f~~~~~-----~~-----~~~~~  242 (545)
                      ....+...|++++|...+..+.+.    +.++ ...++..+...|...|++++|...|++..+     ++     ..+++
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            455677899999999999999875    2112 346788899999999999999999988753     12     35788


Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHcCC-CCC----HHHHHHHHHHHHccCcHHHHHHHHHHhHHh---cCC-CCCHHHHH
Q 009066          243 AMISGYAQHGKGEKALRLFDKMKDEGM-KPD----SITFVALLLACNHAGLVDLGIQYFDSMVND---YGI-AAKPDHYT  313 (545)
Q Consensus       243 ~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~----~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~---~~~-~~~~~~~~  313 (545)
                      .+...|...|++++|+..|++..+... .++    ..++..+...+...|++++|...+++..+-   .+. +....++.
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            899999999999999999999875311 122    246778888999999999999999987652   123 33467789


Q ss_pred             HHHHHHhHcCCHHHHHHHHHhC----CCCCC---HhHHHHHHHHHHhcCC---HHHHHHHHHHHhcCCCCCCchhHHHHH
Q 009066          314 CMVDLLGRAGKLVEAVDLIKKM----PFKPQ---PAIFGTLLSACRVHKR---LDLAEFAAMNLFNLNPANAAGCYVQLA  383 (545)
Q Consensus       314 ~li~~~~~~g~~~~A~~~~~~m----~~~p~---~~~~~~li~~~~~~g~---~~~A~~~~~~~~~~~p~~~~~~~~~l~  383 (545)
                      .+...|.+.|++++|.+.+++.    +..++   ...+..+...+...|+   .++|...+++. ...|.... .+..|+
T Consensus       269 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~-~~~~~~~~-~~~~la  346 (383)
T 3ulq_A          269 LITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK-MLYADLED-FAIDVA  346 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT-TCHHHHHH-HHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC-cCHHHHHH-HHHHHH
Confidence            9999999999999999999876    11112   2335667778888898   78888888877 33333334 788999


Q ss_pred             HHHHHcCCchHHHHHHHHhhh
Q 009066          384 NIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       384 ~~~~~~g~~~~a~~~~~~m~~  404 (545)
                      .+|...|++++|...+++..+
T Consensus       347 ~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          347 KYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHH
Confidence            999999999999999998864

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.34  E-value=1.9e-12  Score=123.74  Aligned_cols=236  Identities=13%  Similarity=0.084  Sum_probs=114.1

Q ss_pred             ccHHHHHHHhcchhhhccCChHHHHHHHHHHHhC-------CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhC----
Q 009066          133 VAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGL-------GIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKS----  201 (545)
Q Consensus       133 ~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~-------~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~----  201 (545)
                      .+|..+...+     ...|++++|+.+|+++.+.       ..+.....+..+...+...|++++|...+..+++.    
T Consensus        28 ~~~~~l~~~~-----~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~  102 (311)
T 3nf1_A           28 RTLHNLVIQY-----ASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKT  102 (311)
T ss_dssp             HHHHHHHHHH-----HHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHH-----HHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHH
Confidence            4555566666     6666666666666666542       11112334444444555555555555555544432    


Q ss_pred             --CCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHc------CCCCC-
Q 009066          202 --PLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDE------GMKPD-  272 (545)
Q Consensus       202 --g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------g~~p~-  272 (545)
                        +..+                              ....+|..+...|...|++++|+..|+++.+.      +-.|+ 
T Consensus       103 ~~~~~~------------------------------~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~  152 (311)
T 3nf1_A          103 LGKDHP------------------------------AVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDV  152 (311)
T ss_dssp             HCTTCH------------------------------HHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHH
T ss_pred             hCCCCh------------------------------HHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHH
Confidence              1001                              01234455555555555555555555555432      11122 


Q ss_pred             HHHHHHHHHHHHccCcHHHHHHHHHHhHHhc-----C-CCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-C---------
Q 009066          273 SITFVALLLACNHAGLVDLGIQYFDSMVNDY-----G-IAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-P---------  336 (545)
Q Consensus       273 ~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~-----~-~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~---------  336 (545)
                      ...+..+...+...|++++|.++++.+.+..     + .+.....+..+...|.+.|++++|.+.++++ .         
T Consensus       153 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  232 (311)
T 3nf1_A          153 AKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGS  232 (311)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCC
Confidence            2334455555666666666666665554320     0 1112345556666666666666666666554 0         


Q ss_pred             CCCCH-h------HHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhh
Q 009066          337 FKPQP-A------IFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       337 ~~p~~-~------~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  404 (545)
                      ..+.. .      .+..+...+...+.+.+|...+++.....|.... ++..++.+|...|++++|.+.+++..+
T Consensus       233 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          233 VDDENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTT-TLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             -----CCHHHHHHHHHHC-------CCSCCCC---------CHHHHH-HHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             CCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHH-HHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            11111 1      1222222333445555566666666666666666 777888888888888888888876653

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.33  E-value=1.5e-10  Score=110.73  Aligned_cols=212  Identities=8%  Similarity=0.048  Sum_probs=171.4

Q ss_pred             HHHHHHHHHHHhCCCCCCcccHHHHHHHHHh-------cCCH-------HHHHHHHHhccC---C-ChhhHHHHHHHHHH
Q 009066          189 QLGKQVHQLVFKSPLCKDTTALTPLISMYCK-------CGDL-------EDACKLFLEIQR---K-DVVTWNAMISGYAQ  250 (545)
Q Consensus       189 ~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~-------~g~~-------~~A~~~f~~~~~---~-~~~~~~~li~~~~~  250 (545)
                      ++|..+|+++++.. +.+..+|..++..+..       .|++       ++|..+|++..+   | +...|..++..+.+
T Consensus        33 ~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~  111 (308)
T 2ond_A           33 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHh
Confidence            67788888888764 5667788888887763       5886       999999998765   2 55689999999999


Q ss_pred             cCChHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHh-HcCCHHH
Q 009066          251 HGKGEKALRLFDKMKDEGMKPDS--ITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLG-RAGKLVE  327 (545)
Q Consensus       251 ~g~~~~A~~~~~~m~~~g~~p~~--~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~-~~g~~~~  327 (545)
                      .|++++|..+|++..+.  .|+.  ..|..+...+.+.|++++|+.+|++..+.  .+++...|...+.... ..|++++
T Consensus       112 ~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~p~~~~~~~~~a~~~~~~~~~~~~  187 (308)
T 2ond_A          112 RMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED--ARTRHHVYVTAALMEYYCSKDKSV  187 (308)
T ss_dssp             TTCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTS--TTCCTHHHHHHHHHHHHTSCCHHH
T ss_pred             cCCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHHcCCHHH
Confidence            99999999999999984  5543  27888888899999999999999999863  2445566655554433 3699999


Q ss_pred             HHHHHHhC-CCC-CCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcC---CCCCCchhHHHHHHHHHHcCCchHHHHHHHHh
Q 009066          328 AVDLIKKM-PFK-PQPAIFGTLLSACRVHKRLDLAEFAAMNLFNL---NPANAAGCYVQLANIYAAMKKWDDVARIRLSM  402 (545)
Q Consensus       328 A~~~~~~m-~~~-p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  402 (545)
                      |.++|++. ... .+...|..++..+...|++++|..+|+++++.   .|+.....|..++..+.+.|+.++|..+++++
T Consensus       188 A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a  267 (308)
T 2ond_A          188 AFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRR  267 (308)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            99999987 222 36788999999999999999999999999985   55433337888999999999999999999998


Q ss_pred             hhC
Q 009066          403 KEN  405 (545)
Q Consensus       403 ~~~  405 (545)
                      .+.
T Consensus       268 ~~~  270 (308)
T 2ond_A          268 FTA  270 (308)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            764

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=99.32  E-value=3.1e-11  Score=127.95  Aligned_cols=163  Identities=16%  Similarity=0.192  Sum_probs=128.9

Q ss_pred             ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHH
Q 009066          237 DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKP-DSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCM  315 (545)
Q Consensus       237 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l  315 (545)
                      +..+|+.+...|.+.|++++|+..|++.++.  .| +..++..+..++.+.|++++|++.|++..+.  -+.+...|..+
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l--~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l--~P~~~~a~~nL   83 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALEV--FPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI--SPTFADAYSNM   83 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHH
Confidence            3456777788888888888888888887774  33 4567777778888888888888888877753  23446788888


Q ss_pred             HHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCch
Q 009066          316 VDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWD  393 (545)
Q Consensus       316 i~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~  393 (545)
                      ..+|.+.|++++|++.|++. .+.| +...|..+..+|...|++++|+..|+++++++|++.. ++..|+.+|...|+|+
T Consensus        84 g~~l~~~g~~~~A~~~~~kAl~l~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~-a~~~L~~~l~~~g~~~  162 (723)
T 4gyw_A           84 GNTLKEMQDVQGALQCYTRAIQINPAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPD-AYCNLAHCLQIVCDWT  162 (723)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHH-HHHHHHHHHHHTTCCT
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChH-HHhhhhhHHHhcccHH
Confidence            88888888888888888776 3445 4578888888999999999999999999999998887 8999999999999999


Q ss_pred             HHHHHHHHhhh
Q 009066          394 DVARIRLSMKE  404 (545)
Q Consensus       394 ~a~~~~~~m~~  404 (545)
                      +|.+.+++..+
T Consensus       163 ~A~~~~~kal~  173 (723)
T 4gyw_A          163 DYDERMKKLVS  173 (723)
T ss_dssp             THHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            98888877643

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.29  E-value=7.5e-12  Score=119.47  Aligned_cols=238  Identities=12%  Similarity=0.086  Sum_probs=140.5

Q ss_pred             CHhHHHHHHHHHHHcCChHHHHHHHhhCCC--------C---CcccHHHHHHHhcchhhhccCChHHHHHHHHHHHhC--
Q 009066          100 NSVSWSAMISGYIECGQLDKAVELFKVAPV--------K---SVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGL--  166 (545)
Q Consensus       100 ~~~~~~~li~~~~~~g~~~~A~~~f~~~~~--------~---~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~--  166 (545)
                      +..++..+...|...|++++|..+|+++..        .   ....+..+...|     ...|++++|+..|++....  
T Consensus        26 ~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~-----~~~g~~~~A~~~~~~al~~~~  100 (311)
T 3nf1_A           26 RLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVY-----RDQNKYKDAANLLNDALAIRE  100 (311)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHH-----HHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHH-----HHCCCHHHHHHHHHHHHHHHH
Confidence            356888999999999999999999998754        2   235688888899     9999999999999998753  


Q ss_pred             ----CCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHhC------CC-CCCcccHHHHHHHHHhcCCHHHHHHHHHhcc
Q 009066          167 ----GIRP-NASSLSSVLLGCSHLSSLQLGKQVHQLVFKS------PL-CKDTTALTPLISMYCKCGDLEDACKLFLEIQ  234 (545)
Q Consensus       167 ----~~~p-d~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~------g~-~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~  234 (545)
                          +-.| ...++..+...+...|++++|...+..+.+.      +. +....++..+...|...|++++|.+.|+++ 
T Consensus       101 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a-  179 (311)
T 3nf1_A          101 KTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRA-  179 (311)
T ss_dssp             HHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHH-
T ss_pred             HHhCCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHH-
Confidence                2122 3456777777888888888888888877653      11 112233444555555555555555555444 


Q ss_pred             CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHc------CCCCC-HHHHHHHHHHHHccCcHHHHHHHHHHhHHhc----
Q 009066          235 RKDVVTWNAMISGYAQHGKGEKALRLFDKMKDE------GMKPD-SITFVALLLACNHAGLVDLGIQYFDSMVNDY----  303 (545)
Q Consensus       235 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~----  303 (545)
                                                    ...      +..|+ ..++..+..++...|++++|...++++.+..    
T Consensus       180 ------------------------------~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~  229 (311)
T 3nf1_A          180 ------------------------------LEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHERE  229 (311)
T ss_dssp             ------------------------------HHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHH
T ss_pred             ------------------------------HHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhc
Confidence                                          332      11111 1233344444444555555555544443210    


Q ss_pred             --CCCC-------CHHHHHHHHHHHhHcCCHHHHHHHHHhCC-CCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCC
Q 009066          304 --GIAA-------KPDHYTCMVDLLGRAGKLVEAVDLIKKMP-FKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNP  372 (545)
Q Consensus       304 --~~~~-------~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p  372 (545)
                        ...+       ....+..+...+...+.+.+|...+.... ..| +..+|..+...|...|++++|...+++++++.|
T Consensus       230 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~~  309 (311)
T 3nf1_A          230 FGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMRSRK  309 (311)
T ss_dssp             HC------CCHHHHHHHHHHC-------CCSCCCC---------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHC
T ss_pred             CCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhh
Confidence              0000       11222233344445556666666666652 223 346788889999999999999999999887766


Q ss_pred             C
Q 009066          373 A  373 (545)
Q Consensus       373 ~  373 (545)
                      .
T Consensus       310 ~  310 (311)
T 3nf1_A          310 Q  310 (311)
T ss_dssp             -
T ss_pred             c
Confidence            4

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.28  E-value=1.7e-09  Score=106.33  Aligned_cols=257  Identities=11%  Similarity=-0.012  Sum_probs=174.4

Q ss_pred             hccCChHHHHHHHHHHHhCCCCCCHH----HHHHHHHHHhccCcHHHHHHHHHHHHhCCCC-CC----cccHHHHHHHHH
Q 009066          148 VENSWAEDGLKLLRMMIGLGIRPNAS----SLSSVLLGCSHLSSLQLGKQVHQLVFKSPLC-KD----TTALTPLISMYC  218 (545)
Q Consensus       148 ~~~g~~~~A~~~~~~m~~~~~~pd~~----t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~-~~----~~~~~~li~~y~  218 (545)
                      ...|++++|...+++........+..    .+..+...+...|++++|...+....+.... .+    ..+...+...|.
T Consensus        25 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~  104 (373)
T 1hz4_A           25 INDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILF  104 (373)
T ss_dssp             HHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHH
Confidence            56777888888887776643222222    3445555667778888888888776653111 11    123456777888


Q ss_pred             hcCCHHHHHHHHHhccC-------C----ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCC--C--CHHHHHHHHHHH
Q 009066          219 KCGDLEDACKLFLEIQR-------K----DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMK--P--DSITFVALLLAC  283 (545)
Q Consensus       219 ~~g~~~~A~~~f~~~~~-------~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~--p--~~~t~~~ll~a~  283 (545)
                      ..|++++|...|++..+       +    ....+..+...+...|++++|...+++.......  |  ...++..+...+
T Consensus       105 ~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~  184 (373)
T 1hz4_A          105 AQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCS  184 (373)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHHHHH
Confidence            88999888888877642       1    1235666778888899999999999988764321  1  234666777788


Q ss_pred             HccCcHHHHHHHHHHhHHhcCCCCCHHHHH-----HHHHHHhHcCCHHHHHHHHHhC-CCCCC-----HhHHHHHHHHHH
Q 009066          284 NHAGLVDLGIQYFDSMVNDYGIAAKPDHYT-----CMVDLLGRAGKLVEAVDLIKKM-PFKPQ-----PAIFGTLLSACR  352 (545)
Q Consensus       284 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~-----~li~~~~~~g~~~~A~~~~~~m-~~~p~-----~~~~~~li~~~~  352 (545)
                      ...|++++|...++.......-......+.     .++..+...|++++|...+++. ...|.     ...+..+...+.
T Consensus       185 ~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~~~~  264 (373)
T 1hz4_A          185 LARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQI  264 (373)
T ss_dssp             HHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHHHHHH
Confidence            889999999999988765321111111121     3345577899999999999887 22221     224667778889


Q ss_pred             hcCCHHHHHHHHHHHhcCCCCC-----CchhHHHHHHHHHHcCCchHHHHHHHHhhh
Q 009066          353 VHKRLDLAEFAAMNLFNLNPAN-----AAGCYVQLANIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       353 ~~g~~~~A~~~~~~~~~~~p~~-----~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  404 (545)
                      ..|++++|...++++....+..     ...++..++.++...|+.++|...+++...
T Consensus       265 ~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~  321 (373)
T 1hz4_A          265 LLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  321 (373)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            9999999999999887643321     111567788899999999999999988764

>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=99.28  E-value=1.2e-10  Score=101.66  Aligned_cols=160  Identities=15%  Similarity=0.069  Sum_probs=83.0

Q ss_pred             cHHHHHHHHHhcCCHHHHHHHHHhccC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHc
Q 009066          209 ALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNH  285 (545)
Q Consensus       209 ~~~~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~  285 (545)
                      .+..+...|...|++++|...|+++.+   .+...|..+...+...|++++|...++++.+.. +.+...+..+...+..
T Consensus        10 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~   88 (186)
T 3as5_A           10 YYRDKGISHAKAGRYSQAVMLLEQVYDADAFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTYVQ   88 (186)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHTTTCCTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhCccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHH
Confidence            344455555556666666666655543   234445555555555555555555555554431 1233344444444444


Q ss_pred             cCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHH
Q 009066          286 AGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAM  365 (545)
Q Consensus       286 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~li~~~~~~g~~~~A~~~~~  365 (545)
                      .|++++|.+.++.+.+.  .+.                                +...|..+...+...|++++|...++
T Consensus        89 ~~~~~~A~~~~~~~~~~--~~~--------------------------------~~~~~~~~a~~~~~~~~~~~A~~~~~  134 (186)
T 3as5_A           89 VQKYDLAVPLLIKVAEA--NPI--------------------------------NFNVRFRLGVALDNLGRFDEAIDSFK  134 (186)
T ss_dssp             HTCHHHHHHHHHHHHHH--CTT--------------------------------CHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHhc--CcH--------------------------------hHHHHHHHHHHHHHcCcHHHHHHHHH
Confidence            45555555444444432  122                                34445555555555555555555555


Q ss_pred             HHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhh
Q 009066          366 NLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       366 ~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  404 (545)
                      ++++..|++.. ++..++.+|...|++++|.+.++...+
T Consensus       135 ~~~~~~~~~~~-~~~~la~~~~~~~~~~~A~~~~~~~~~  172 (186)
T 3as5_A          135 IALGLRPNEGK-VHRAIAFSYEQMGRHEEALPHFKKANE  172 (186)
T ss_dssp             HHHHHCTTCHH-HHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhcCccchH-HHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            55555555544 555666666666666666666555543

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.27  E-value=1.4e-10  Score=118.07  Aligned_cols=209  Identities=14%  Similarity=0.040  Sum_probs=148.1

Q ss_pred             hHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcH-HHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHH
Q 009066          153 AEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSL-QLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFL  231 (545)
Q Consensus       153 ~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~-~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~  231 (545)
                      .++++..+.+..... +.+...+..+..++...|++ ++|.+.++.+++.. +.+...+..+...|.+.|++++|.+.|+
T Consensus        84 ~~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~  161 (474)
T 4abn_A           84 MEKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCFS  161 (474)
T ss_dssp             HHHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            455666666655432 33566677777777777777 88888877777764 3456677778888888888888888887


Q ss_pred             hccC--CChhhHHHHHHHHHHc---------CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHcc--------CcHHHH
Q 009066          232 EIQR--KDVVTWNAMISGYAQH---------GKGEKALRLFDKMKDEGMKPDSITFVALLLACNHA--------GLVDLG  292 (545)
Q Consensus       232 ~~~~--~~~~~~~~li~~~~~~---------g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~--------g~~~~a  292 (545)
                      +..+  |+...|..+...|...         |++++|+..|++..+.. +-+...+..+..++...        |++++|
T Consensus       162 ~al~~~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A  240 (474)
T 4abn_A          162 GALTHCKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPKISQQA  240 (474)
T ss_dssp             HHHTTCCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             HHHhhCCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccchHHHH
Confidence            7754  5566777777777777         88888888888877753 22456677777777777        788888


Q ss_pred             HHHHHHhHHhcCCC---CCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHH
Q 009066          293 IQYFDSMVNDYGIA---AKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMN  366 (545)
Q Consensus       293 ~~~~~~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~  366 (545)
                      ...|++..+.  .+   .+...|..+..+|...|++++|.+.|++. ...| +...|..+...+...|++++|...+.+
T Consensus       241 ~~~~~~al~~--~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~a~~~l~~~~~~lg~~~eAi~~~~~  317 (474)
T 4abn_A          241 LSAYAQAEKV--DRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDPAWPEPQQREQQLLEFLSRLTSLLESKGK  317 (474)
T ss_dssp             HHHHHHHHHH--CGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHh--CCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            8888887763  12   36777888888888888888888888776 3334 445677777778777877777765543

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.27  E-value=9.7e-11  Score=115.62  Aligned_cols=224  Identities=11%  Similarity=0.028  Sum_probs=160.0

Q ss_pred             HHHHhccCcHHHHHHHHHHHHhCCCC-C----CcccHHHHHHHHHhcCCHHHHHHHHHhccC-----CC-----hhhHHH
Q 009066          179 LLGCSHLSSLQLGKQVHQLVFKSPLC-K----DTTALTPLISMYCKCGDLEDACKLFLEIQR-----KD-----VVTWNA  243 (545)
Q Consensus       179 l~~~~~~~~~~~a~~~~~~~~~~g~~-~----~~~~~~~li~~y~~~g~~~~A~~~f~~~~~-----~~-----~~~~~~  243 (545)
                      ...+...|++++|...+..+.+.... +    ...++..+...|...|+++.|...+++..+     ++     ..+++.
T Consensus       108 g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~  187 (378)
T 3q15_A          108 GMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFV  187 (378)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHH
T ss_pred             HHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHH
Confidence            34456788899999988888764211 1    234677788888999999988888877652     12     346788


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHhHHhc---CCCCCHHHHHHH
Q 009066          244 MISGYAQHGKGEKALRLFDKMKDE----GMKP-DSITFVALLLACNHAGLVDLGIQYFDSMVNDY---GIAAKPDHYTCM  315 (545)
Q Consensus       244 li~~~~~~g~~~~A~~~~~~m~~~----g~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~---~~~~~~~~~~~l  315 (545)
                      +...|...|++++|++.|++..+.    +-.+ ...++..+..++...|++++|...+++..+..   +.+....++..+
T Consensus       188 lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l  267 (378)
T 3q15_A          188 IAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFGL  267 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHHH
Confidence            888899999999999999887653    1111 12466777788889999999999998876511   223336778888


Q ss_pred             HHHHhHcCCHHHHHHHHHhC----CC--CCC-HhHHHHHHHHHHhcCC---HHHHHHHHHHHhcCCCCCCchhHHHHHHH
Q 009066          316 VDLLGRAGKLVEAVDLIKKM----PF--KPQ-PAIFGTLLSACRVHKR---LDLAEFAAMNLFNLNPANAAGCYVQLANI  385 (545)
Q Consensus       316 i~~~~~~g~~~~A~~~~~~m----~~--~p~-~~~~~~li~~~~~~g~---~~~A~~~~~~~~~~~p~~~~~~~~~l~~~  385 (545)
                      ...|.+.|++++|...+++.    +.  .|. ...+..+...+...++   +++|...+++. ...|.... .+..++..
T Consensus       268 a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~-~~~~~~~~-~~~~la~~  345 (378)
T 3q15_A          268 SWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKK-NLHAYIEA-CARSAAAV  345 (378)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHT-TCHHHHHH-HHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhC-CChhHHHH-HHHHHHHH
Confidence            99999999999999998876    11  122 2345556666667777   77787777763 22233333 67789999


Q ss_pred             HHHcCCchHHHHHHHHhhh
Q 009066          386 YAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       386 ~~~~g~~~~a~~~~~~m~~  404 (545)
                      |...|++++|.+.+++..+
T Consensus       346 y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          346 FESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHH
Confidence            9999999999999887653

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=99.26  E-value=1.9e-10  Score=104.64  Aligned_cols=186  Identities=12%  Similarity=-0.035  Sum_probs=90.3

Q ss_pred             cccHHHHHHHHHhcCCHHHHHHHHHhccC----CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHH
Q 009066          207 TTALTPLISMYCKCGDLEDACKLFLEIQR----KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKP-DSITFVALLL  281 (545)
Q Consensus       207 ~~~~~~li~~y~~~g~~~~A~~~f~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~  281 (545)
                      +..+..+...|.+.|++++|...|++..+    ++...|..+..++...|++++|+..|++..+.  .| +...+..+..
T Consensus         7 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~   84 (228)
T 4i17_A            7 PNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKK--NYNLANAYIGKSA   84 (228)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--TCSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHh--CcchHHHHHHHHH
Confidence            34445555555555555555555555432    34444444555555555555555555555543  22 2334444555


Q ss_pred             HHHccCcHHHHHHHHHHhHHhcCCCCCH-------HHHHHHHHHHhHcCCHHHHHHHHHhC-CCCCC---HhHHHHHHHH
Q 009066          282 ACNHAGLVDLGIQYFDSMVNDYGIAAKP-------DHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQ---PAIFGTLLSA  350 (545)
Q Consensus       282 a~~~~g~~~~a~~~~~~~~~~~~~~~~~-------~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~---~~~~~~li~~  350 (545)
                      ++...|++++|...+++..+..  +.+.       ..|..+...+...|++++|.+.|++. ...|+   ...|..+...
T Consensus        85 ~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~  162 (228)
T 4i17_A           85 AYRDMKNNQEYIATLTEGIKAV--PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVTSKKWKTDALYSLGVL  162 (228)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSSCHHHHHHHHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcCCCcccHHHHHHHHHH
Confidence            5555555555555555555421  2222       33444555555555555555555544 33343   2344444444


Q ss_pred             HHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhh
Q 009066          351 CRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       351 ~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  404 (545)
                      +..     .+...++++..+.+.... .|..+  .....+.+++|...+++..+
T Consensus       163 ~~~-----~~~~~~~~a~~~~~~~~~-~~~~~--~~~~~~~~~~A~~~~~~a~~  208 (228)
T 4i17_A          163 FYN-----NGADVLRKATPLASSNKE-KYASE--KAKADAAFKKAVDYLGEAVT  208 (228)
T ss_dssp             HHH-----HHHHHHHHHGGGTTTCHH-HHHHH--HHHHHHHHHHHHHHHHHHHH
T ss_pred             HHH-----HHHHHHHHHHhcccCCHH-HHHHH--HHHHHHHHHHHHHHHHHHhh
Confidence            432     223334444444443322 22222  22233445788888877765

>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=99.25  E-value=3.5e-10  Score=98.54  Aligned_cols=160  Identities=16%  Similarity=0.102  Sum_probs=125.5

Q ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccC---CChhhHHHHHHHH
Q 009066          172 ASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGY  248 (545)
Q Consensus       172 ~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~  248 (545)
                      ...+..+...+...|++++|...++.+.+.. +.+..++..+...|...|++++|...|+++.+   .+...|..+...+
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~   86 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADAPDNVKVATVLGLTY   86 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHH
Confidence            3466777888899999999999999988764 45677888999999999999999999998763   4678899999999


Q ss_pred             HHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHH
Q 009066          249 AQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEA  328 (545)
Q Consensus       249 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  328 (545)
                      ...|++++|...|+++.... +.+...+..+..++...|++++|...++.+.+.  .+.+...+..+...|...|++++|
T Consensus        87 ~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A  163 (186)
T 3as5_A           87 VQVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGL--RPNEGKVHRAIAFSYEQMGRHEEA  163 (186)
T ss_dssp             HHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhc--CccchHHHHHHHHHHHHcCCHHHH
Confidence            99999999999999998863 346677777888888889999999988887764  233445555555555555555555


Q ss_pred             HHHHHhC
Q 009066          329 VDLIKKM  335 (545)
Q Consensus       329 ~~~~~~m  335 (545)
                      .+.+++.
T Consensus       164 ~~~~~~~  170 (186)
T 3as5_A          164 LPHFKKA  170 (186)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            5555543

>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=99.23  E-value=3.8e-10  Score=102.63  Aligned_cols=204  Identities=9%  Similarity=0.035  Sum_probs=158.9

Q ss_pred             CCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccC---CChhhHHHHHH
Q 009066          170 PNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMIS  246 (545)
Q Consensus       170 pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~  246 (545)
                      .|+..+......+...|++++|...|..+++...+++...+..+...|.+.|++++|...|++..+   .+...|..+..
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~   84 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYNLANAYIGKSA   84 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCSHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcchHHHHHHHHH
Confidence            466788888899999999999999999999987547777777799999999999999999998864   35678999999


Q ss_pred             HHHHcCChHHHHHHHHHHHHcCCCCCH-------HHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCC---HHHHHHHH
Q 009066          247 GYAQHGKGEKALRLFDKMKDEGMKPDS-------ITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAK---PDHYTCMV  316 (545)
Q Consensus       247 ~~~~~g~~~~A~~~~~~m~~~g~~p~~-------~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~---~~~~~~li  316 (545)
                      .|...|++++|+..|++..+... .+.       ..+..+...+...|++++|.+.|++..+   ..|+   ...+..+.
T Consensus        85 ~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~---~~p~~~~~~~~~~l~  160 (228)
T 4i17_A           85 AYRDMKNNQEYIATLTEGIKAVP-GNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATD---VTSKKWKTDALYSLG  160 (228)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTT---SSCHHHHHHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHh---cCCCcccHHHHHHHH
Confidence            99999999999999999998532 233       4577777888899999999999999875   3554   67788888


Q ss_pred             HHHhHcCCH--HHHHHHHHhCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHH
Q 009066          317 DLLGRAGKL--VEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANI  385 (545)
Q Consensus       317 ~~~~~~g~~--~~A~~~~~~m~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~  385 (545)
                      .+|...|+.  ++|..+    . ..+...+..+.  ....+.+++|...++++++++|++.. +...+..+
T Consensus       161 ~~~~~~~~~~~~~a~~~----~-~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~p~~~~-~~~~l~~i  223 (228)
T 4i17_A          161 VLFYNNGADVLRKATPL----A-SSNKEKYASEK--AKADAAFKKAVDYLGEAVTLSPNRTE-IKQMQDQV  223 (228)
T ss_dssp             HHHHHHHHHHHHHHGGG----T-TTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHCTTCHH-HHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhc----c-cCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhcCCCCHH-HHHHHHHH
Confidence            888776653  332221    1 12344444333  34556789999999999999999876 55555443

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.22  E-value=8.3e-10  Score=108.88  Aligned_cols=222  Identities=9%  Similarity=0.034  Sum_probs=163.3

Q ss_pred             hccCChHHHHHHHHHHHhCCC-CCC----HHHHHHHHHHHhccCcHHHHHHHHHHHHhCCC-----CC-CcccHHHHHHH
Q 009066          148 VENSWAEDGLKLLRMMIGLGI-RPN----ASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPL-----CK-DTTALTPLISM  216 (545)
Q Consensus       148 ~~~g~~~~A~~~~~~m~~~~~-~pd----~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~-----~~-~~~~~~~li~~  216 (545)
                      ...|++++|+..|++..+.-. .+|    ..++..+..++...|+++.|...+...++...     .+ ...+++.+...
T Consensus       112 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~  191 (378)
T 3q15_A          112 FDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIAGN  191 (378)
T ss_dssp             HHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHHHH
T ss_pred             HHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHHHH
Confidence            667888888888887765311 122    34566677778888888888888877765311     11 23466778888


Q ss_pred             HHhcCCHHHHHHHHHhccC-----CC----hhhHHHHHHHHHHcCChHHHHHHHHHHHHc----CCCCCHHHHHHHHHHH
Q 009066          217 YCKCGDLEDACKLFLEIQR-----KD----VVTWNAMISGYAQHGKGEKALRLFDKMKDE----GMKPDSITFVALLLAC  283 (545)
Q Consensus       217 y~~~g~~~~A~~~f~~~~~-----~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p~~~t~~~ll~a~  283 (545)
                      |...|++++|.+.|++..+     ++    ..+++.+...|...|++++|+..|++....    +.+....++..+...+
T Consensus       192 y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~  271 (378)
T 3q15_A          192 YDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFGLSWTL  271 (378)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHHHHHHH
Confidence            8999999999888887653     12    346788888999999999999999998761    2222356777888899


Q ss_pred             HccCcHHHHHHHHHHhHHhcC---CCCCHHHHHHHHHHHhHcCC---HHHHHHHHHhCCCCCCH-hHHHHHHHHHHhcCC
Q 009066          284 NHAGLVDLGIQYFDSMVNDYG---IAAKPDHYTCMVDLLGRAGK---LVEAVDLIKKMPFKPQP-AIFGTLLSACRVHKR  356 (545)
Q Consensus       284 ~~~g~~~~a~~~~~~~~~~~~---~~~~~~~~~~li~~~~~~g~---~~~A~~~~~~m~~~p~~-~~~~~li~~~~~~g~  356 (545)
                      ...|++++|...+++..+...   .+.....+..+...|...|+   +++|+..+++.+..|+. ..+..+...|...|+
T Consensus       272 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~~~~~~~~~~~~~la~~y~~~g~  351 (378)
T 3q15_A          272 CKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKKNLHAYIEACARSAAAVFESSCH  351 (378)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHCCC
Confidence            999999999999998876422   22224556777778888888   89999999987544443 466778889999999


Q ss_pred             HHHHHHHHHHHhc
Q 009066          357 LDLAEFAAMNLFN  369 (545)
Q Consensus       357 ~~~A~~~~~~~~~  369 (545)
                      +++|...++++++
T Consensus       352 ~~~A~~~~~~al~  364 (378)
T 3q15_A          352 FEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999988764

>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=99.19  E-value=1.3e-08  Score=106.83  Aligned_cols=369  Identities=10%  Similarity=0.036  Sum_probs=247.6

Q ss_pred             CChhhHHHHHHHHHcCCCCHHHHHHHHhcCC---CCCeehHHHHHHHHHhCCC---HHHHHHHHhhCCc-----CCHhHH
Q 009066           36 PDVVSYNIMLSCILLNSDDVVAAFDFFQRLP---IKDTASWNTMISGFVQKKN---MAKARDLFLAMPE-----KNSVSW  104 (545)
Q Consensus        36 ~~~~~~~~li~~~~~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~g~---~~~a~~~~~~~~~-----~~~~~~  104 (545)
                      .|..+|..++..+.+. +.++.|..+|+++.   +.....|..-+..-.+.|+   ++.+.++|++.+.     +++..|
T Consensus        64 ~d~~~W~~yi~~~~~~-~~~~~aR~vyEraL~~fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~lfeRal~~~~~~~sv~LW  142 (679)
T 4e6h_A           64 TDIFLYVKLLKHHVSL-KQWKQVYETFDKLHDRFPLMANIWCMRLSLEFDKMEELDAAVIEPVLARCLSKELGNNDLSLW  142 (679)
T ss_dssp             TCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTC--CCCHHHHHHHHHHHTCSSSCCCCHHHH
T ss_pred             CCHHHHHHHHHHHHhc-CcHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHHhcCCCCCHHHH
Confidence            4777899999988888 99999999999988   5566788888888888898   9999999999873     778889


Q ss_pred             HHHHHHHHHcCCh--------HHHHHHHhhCC------CC-CcccHHHHHHHhcchh----hhccCChHHHHHHHHHHHh
Q 009066          105 SAMISGYIECGQL--------DKAVELFKVAP------VK-SVVAWTAMISGYMKFG----YVENSWAEDGLKLLRMMIG  165 (545)
Q Consensus       105 ~~li~~~~~~g~~--------~~A~~~f~~~~------~~-~~~~~~~li~~~~~~g----~~~~g~~~~A~~~~~~m~~  165 (545)
                      ...+....+.++.        +..+++|+...      .+ +...|...+.-....+    ...+++.+.+..+|++.+.
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            8888877776654        33447776521      22 3457877776541100    0123456788899999885


Q ss_pred             CCCCCCHHHHH---HHHHHHh----------ccCcHHHHHHHHHHHHh--CCC----CCC-------------------c
Q 009066          166 LGIRPNASSLS---SVLLGCS----------HLSSLQLGKQVHQLVFK--SPL----CKD-------------------T  207 (545)
Q Consensus       166 ~~~~pd~~t~~---~ll~~~~----------~~~~~~~a~~~~~~~~~--~g~----~~~-------------------~  207 (545)
                      .....-..+|.   ..-....          ....++.|+..+..+..  .++    +..                   .
T Consensus       223 iP~~~~~~~w~~Y~~fe~~~~~~~a~~~~~e~~~~y~~Ar~~~~e~~~~~~~l~r~~p~~~~~~~~~~~p~~~~~~~~ql  302 (679)
T 4e6h_A          223 QPMDCLESMWQRYTQWEQDVNQLTARRHIGELSAQYMNARSLYQDWLNITKGLKRNLPITLNQATESNLPKPNEYDVQQL  302 (679)
T ss_dssp             SCCSSHHHHHHHHHHHHHHHCTTTHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCCCCSSSTTCCTTTSCCTTCCCHHHH
T ss_pred             CccHHHHHHHHHHHHHHHhcCcchHHHHHHHhhHHHHHHHHHHHHHHHHHHhHhhccccccccchhccCCCCchhHHHHH
Confidence            21111122332   2211110          01233445555554322  121    110                   1


Q ss_pred             ccHHHHHHHHHhcC-------CHHHHHHHHHhccC---CChhhHHHHHHHHHHcCChHHHH-HHHHHHHHcCCCCCHHHH
Q 009066          208 TALTPLISMYCKCG-------DLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKAL-RLFDKMKDEGMKPDSITF  276 (545)
Q Consensus       208 ~~~~~li~~y~~~g-------~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~-~~~~~m~~~g~~p~~~t~  276 (545)
                      ..|...+..--..+       ..+.+..+|++...   .+...|-..+.-+...|+.++|. .+|++.... .+.+...+
T Consensus       303 ~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~~p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~-~P~s~~Lw  381 (679)
T 4e6h_A          303 LIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQHVCFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNSAVLA  381 (679)
T ss_dssp             HHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTCHHHH
T ss_pred             HHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCCHHHH
Confidence            23444444332222       12334567777653   36778998888888999999997 999999874 33455556


Q ss_pred             HHHHHHHHccCcHHHHHHHHHHhHHhcC--------CCC------------CHHHHHHHHHHHhHcCCHHHHHHHHHhCC
Q 009066          277 VALLLACNHAGLVDLGIQYFDSMVNDYG--------IAA------------KPDHYTCMVDLLGRAGKLVEAVDLIKKMP  336 (545)
Q Consensus       277 ~~ll~a~~~~g~~~~a~~~~~~~~~~~~--------~~~------------~~~~~~~li~~~~~~g~~~~A~~~~~~m~  336 (545)
                      ...+......|+++.|+++|+.+.....        -.|            ...+|...+....+.|.++.|..+|.+..
T Consensus       382 l~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~  461 (679)
T 4e6h_A          382 FSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCR  461 (679)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            6777778889999999999999876310        013            23468888888889999999999999872


Q ss_pred             -C--CCCHhHHHHHHHHHHhc-CCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhhCCC
Q 009066          337 -F--KPQPAIFGTLLSACRVH-KRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNV  407 (545)
Q Consensus       337 -~--~p~~~~~~~li~~~~~~-g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  407 (545)
                       .  .+....|...+..-.+. ++.+.|..+|+..++..|++.. .+...+......|+.+.|+.+|++......
T Consensus       462 ~~~~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~~p~~~~-~w~~y~~fe~~~~~~~~AR~lferal~~~~  535 (679)
T 4e6h_A          462 RLKKLVTPDIYLENAYIEYHISKDTKTACKVLELGLKYFATDGE-YINKYLDFLIYVNEESQVKSLFESSIDKIS  535 (679)
T ss_dssp             HTGGGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTTCHH-HHHHHHHHHHHHTCHHHHHHHHHHHTTTSS
T ss_pred             HhcCCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCchH-HHHHHHHHHHhCCCHHHHHHHHHHHHHhcC
Confidence             1  12233444333333343 4589999999999999998876 677888888899999999999999877543

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.17  E-value=6.9e-10  Score=105.19  Aligned_cols=201  Identities=11%  Similarity=0.023  Sum_probs=142.4

Q ss_pred             cHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccC-----CC----hhhHHHHHHHHHHcCChHHH
Q 009066          187 SLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR-----KD----VVTWNAMISGYAQHGKGEKA  257 (545)
Q Consensus       187 ~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~-----~~----~~~~~~li~~~~~~g~~~~A  257 (545)
                      ++++|...|..+               ...|...|++++|...|++..+     .+    ..+|+.+...|...|++++|
T Consensus        32 ~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A   96 (292)
T 1qqe_A           32 KFEEAADLCVQA---------------ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNA   96 (292)
T ss_dssp             HHHHHHHHHHHH---------------HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             cHHHHHHHHHHH---------------HHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHH
Confidence            477777777665               4457778888888888876643     12    45788888999999999999


Q ss_pred             HHHHHHHHHcCC---CCC--HHHHHHHHHHHHcc-CcHHHHHHHHHHhHHhcCCCCC----HHHHHHHHHHHhHcCCHHH
Q 009066          258 LRLFDKMKDEGM---KPD--SITFVALLLACNHA-GLVDLGIQYFDSMVNDYGIAAK----PDHYTCMVDLLGRAGKLVE  327 (545)
Q Consensus       258 ~~~~~~m~~~g~---~p~--~~t~~~ll~a~~~~-g~~~~a~~~~~~~~~~~~~~~~----~~~~~~li~~~~~~g~~~~  327 (545)
                      +..|++......   .+.  ..++..+..+|... |++++|...|++..+...-..+    ..++..+...|.+.|++++
T Consensus        97 ~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~  176 (292)
T 1qqe_A           97 VDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIE  176 (292)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHH
Confidence            999988775311   111  34677888888886 9999999999988753211111    4568889999999999999


Q ss_pred             HHHHHHhC-CCCCC---H-----hHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCch----hHHHHHHHHH--HcCCc
Q 009066          328 AVDLIKKM-PFKPQ---P-----AIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAG----CYVQLANIYA--AMKKW  392 (545)
Q Consensus       328 A~~~~~~m-~~~p~---~-----~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~----~~~~l~~~~~--~~g~~  392 (545)
                      |+..|++. ...|+   .     ..|..+..++...|++++|+..+++.++++|+....    .+..++.+|.  ..+++
T Consensus       177 A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~l~~l~~~~~~~~~~~~  256 (292)
T 1qqe_A          177 ASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQL  256 (292)
T ss_dssp             HHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTH
T ss_pred             HHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHcCCHHHH
Confidence            99999887 22232   1     156778888999999999999999999999976531    1344566664  45668


Q ss_pred             hHHHHHHHHh
Q 009066          393 DDVARIRLSM  402 (545)
Q Consensus       393 ~~a~~~~~~m  402 (545)
                      ++|.+.|+.+
T Consensus       257 ~~A~~~~~~~  266 (292)
T 1qqe_A          257 SEHCKEFDNF  266 (292)
T ss_dssp             HHHHHHHTTS
T ss_pred             HHHHHHhccC
Confidence            8888777554

>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=99.15  E-value=2.6e-10  Score=106.89  Aligned_cols=164  Identities=15%  Similarity=0.135  Sum_probs=81.9

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHHc------CCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHhHHhc-----C-CC
Q 009066          240 TWNAMISGYAQHGKGEKALRLFDKMKDE------GMKP-DSITFVALLLACNHAGLVDLGIQYFDSMVNDY-----G-IA  306 (545)
Q Consensus       240 ~~~~li~~~~~~g~~~~A~~~~~~m~~~------g~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~-----~-~~  306 (545)
                      +|..+...|...|++++|+..|++....      .-.| ...++..+...+...|++++|...+++..+..     . .+
T Consensus        87 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  166 (283)
T 3edt_B           87 TLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDP  166 (283)
T ss_dssp             HHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCH
Confidence            4455555555555555555555554432      1112 23345555556666666666666666554420     0 11


Q ss_pred             CCHHHHHHHHHHHhHcCCHHHHHHHHHhC----------CCCCC-HhHHHHHHHHHHhcCC------HHHHHHHHHHHhc
Q 009066          307 AKPDHYTCMVDLLGRAGKLVEAVDLIKKM----------PFKPQ-PAIFGTLLSACRVHKR------LDLAEFAAMNLFN  369 (545)
Q Consensus       307 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m----------~~~p~-~~~~~~li~~~~~~g~------~~~A~~~~~~~~~  369 (545)
                      .....+..+...|.+.|++++|...+++.          ...+. ...|..+.......+.      +..+...++....
T Consensus       167 ~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  246 (283)
T 3edt_B          167 NVAKTKNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKV  246 (283)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCC
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCC
Confidence            22445566666666666666666666554          11222 2233333333333222      2233333333333


Q ss_pred             CCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhh
Q 009066          370 LNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       370 ~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  404 (545)
                      ..|.... ++..++.+|...|++++|.+++++..+
T Consensus       247 ~~~~~~~-~~~~la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          247 DSPTVNT-TLRSLGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             CCHHHHH-HHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             CCHHHHH-HHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3344444 677788888888888888888877654

>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=99.12  E-value=3.7e-10  Score=119.77  Aligned_cols=161  Identities=15%  Similarity=0.171  Sum_probs=115.4

Q ss_pred             cccHHHHHHHHHhcCCHHHHHHHHHhccC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 009066          207 TTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLAC  283 (545)
Q Consensus       207 ~~~~~~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~  283 (545)
                      ...++.|...|.+.|++++|++.|++..+   .+..+|+.+...|.+.|++++|+..|++.++... -+...+..+..++
T Consensus         9 a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~P-~~~~a~~nLg~~l   87 (723)
T 4gyw_A            9 ADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISP-TFADAYSNMGNTL   87 (723)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHH
Confidence            45566677777777777777777776653   3566777777777777888888888877776421 2356677777777


Q ss_pred             HccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHH
Q 009066          284 NHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAE  361 (545)
Q Consensus       284 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~  361 (545)
                      ...|++++|++.|++..+.  -+.+...|..+..+|.+.|++++|++.|++. .+.| +...|..+...+...|++++|.
T Consensus        88 ~~~g~~~~A~~~~~kAl~l--~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~~L~~~l~~~g~~~~A~  165 (723)
T 4gyw_A           88 KEMQDVQGALQCYTRAIQI--NPAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHCLQIVCDWTDYD  165 (723)
T ss_dssp             HHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCCTTHH
T ss_pred             HHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHhhhhhHHHhcccHHHHH
Confidence            7888888888888777653  2344677778888888888888888888776 3445 4567778888888888888888


Q ss_pred             HHHHHHhcC
Q 009066          362 FAAMNLFNL  370 (545)
Q Consensus       362 ~~~~~~~~~  370 (545)
                      +.+++++++
T Consensus       166 ~~~~kal~l  174 (723)
T 4gyw_A          166 ERMKKLVSI  174 (723)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            888777654

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.09  E-value=1.7e-09  Score=102.47  Aligned_cols=168  Identities=10%  Similarity=-0.015  Sum_probs=108.6

Q ss_pred             ccHHHHHHHHHhcCCHHHHHHHHHhccC-----CC----hhhHHHHHHHHHHc-CChHHHHHHHHHHHHcCCC-CC----
Q 009066          208 TALTPLISMYCKCGDLEDACKLFLEIQR-----KD----VVTWNAMISGYAQH-GKGEKALRLFDKMKDEGMK-PD----  272 (545)
Q Consensus       208 ~~~~~li~~y~~~g~~~~A~~~f~~~~~-----~~----~~~~~~li~~~~~~-g~~~~A~~~~~~m~~~g~~-p~----  272 (545)
                      .+++.+..+|.+.|++++|...|++..+     .+    ..+|+.+...|... |++++|+..|++..+.... .+    
T Consensus        78 ~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~  157 (292)
T 1qqe_A           78 NTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALS  157 (292)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHH
Confidence            3445555556666666666555555432     11    34677778888885 8888888888887763111 01    


Q ss_pred             HHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCH-----HHHHHHHHHHhHcCCHHHHHHHHHhC-CCCCCHh----
Q 009066          273 SITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKP-----DHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQPA----  342 (545)
Q Consensus       273 ~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~-----~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~----  342 (545)
                      ..++..+...+...|++++|...|+...+...-.+..     ..|..+..+|...|++++|...|++. .+.|+..    
T Consensus       158 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~  237 (292)
T 1qqe_A          158 NKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRE  237 (292)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHH
Confidence            3457777888888899999998888887642111111     25677788888899999999988887 4444321    


Q ss_pred             --HHHHHHHHHH--hcCCHHHHHHHHHHHhcCCCCCC
Q 009066          343 --IFGTLLSACR--VHKRLDLAEFAAMNLFNLNPANA  375 (545)
Q Consensus       343 --~~~~li~~~~--~~g~~~~A~~~~~~~~~~~p~~~  375 (545)
                        .+..++.++.  ..+++++|+..|+++..++|...
T Consensus       238 ~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~l~~~~~  274 (292)
T 1qqe_A          238 SNFLKSLIDAVNEGDSEQLSEHCKEFDNFMRLDKWKI  274 (292)
T ss_dssp             HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSCCCHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHhccCCccHHHHH
Confidence              3444555554  45678888888888888877653

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.05  E-value=4.4e-08  Score=96.16  Aligned_cols=226  Identities=9%  Similarity=-0.049  Sum_probs=167.6

Q ss_pred             HHHHhccCcHHHHHHHHHHHHhCCCCCCcc----cHHHHHHHHHhcCCHHHHHHHHHhccC-----CCh----hhHHHHH
Q 009066          179 LLGCSHLSSLQLGKQVHQLVFKSPLCKDTT----ALTPLISMYCKCGDLEDACKLFLEIQR-----KDV----VTWNAMI  245 (545)
Q Consensus       179 l~~~~~~~~~~~a~~~~~~~~~~g~~~~~~----~~~~li~~y~~~g~~~~A~~~f~~~~~-----~~~----~~~~~li  245 (545)
                      ...+...|++++|...++..+......+..    +++.+...|...|++++|...+++...     .+.    .+++.+.
T Consensus        21 a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la  100 (373)
T 1hz4_A           21 AQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQS  100 (373)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            344567899999999999988865322222    456778889999999999999998763     222    3466778


Q ss_pred             HHHHHcCChHHHHHHHHHHHHc----CCC--CC-HHHHHHHHHHHHccCcHHHHHHHHHHhHHhcC---CCCCHHHHHHH
Q 009066          246 SGYAQHGKGEKALRLFDKMKDE----GMK--PD-SITFVALLLACNHAGLVDLGIQYFDSMVNDYG---IAAKPDHYTCM  315 (545)
Q Consensus       246 ~~~~~~g~~~~A~~~~~~m~~~----g~~--p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~---~~~~~~~~~~l  315 (545)
                      ..+...|++++|...+++....    +..  |. ...+..+...+...|++++|...+++......   .......+..+
T Consensus       101 ~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l  180 (373)
T 1hz4_A          101 EILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAML  180 (373)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHH
Confidence            8899999999999999998753    222  32 34556677888999999999999998765321   11124577889


Q ss_pred             HHHHhHcCCHHHHHHHHHhC----CCCCCHhHHHH-----HHHHHHhcCCHHHHHHHHHHHhcCCCCCCc---hhHHHHH
Q 009066          316 VDLLGRAGKLVEAVDLIKKM----PFKPQPAIFGT-----LLSACRVHKRLDLAEFAAMNLFNLNPANAA---GCYVQLA  383 (545)
Q Consensus       316 i~~~~~~g~~~~A~~~~~~m----~~~p~~~~~~~-----li~~~~~~g~~~~A~~~~~~~~~~~p~~~~---~~~~~l~  383 (545)
                      ...+...|++++|...+++.    +...+...|..     .+..+...|++++|...+++.....|.+..   ..+..++
T Consensus       181 a~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la  260 (373)
T 1hz4_A          181 IQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIA  260 (373)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHH
Confidence            99999999999999999876    21112122322     334477999999999999999887765421   1456888


Q ss_pred             HHHHHcCCchHHHHHHHHhhh
Q 009066          384 NIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       384 ~~~~~~g~~~~a~~~~~~m~~  404 (545)
                      .++...|++++|...++...+
T Consensus       261 ~~~~~~g~~~~A~~~l~~a~~  281 (373)
T 1hz4_A          261 RAQILLGEFEPAEIVLEELNE  281 (373)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHH
Confidence            999999999999999988754

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.04  E-value=1.8e-08  Score=93.53  Aligned_cols=206  Identities=11%  Similarity=0.082  Sum_probs=130.1

Q ss_pred             CcccHHHHHHHHHhcCCHHHHHHHHHhccC--C-C---hhhHHHHHHHHHHcCChHHHHHHHHHHHHcCC-CCC-HHHHH
Q 009066          206 DTTALTPLISMYCKCGDLEDACKLFLEIQR--K-D---VVTWNAMISGYAQHGKGEKALRLFDKMKDEGM-KPD-SITFV  277 (545)
Q Consensus       206 ~~~~~~~li~~y~~~g~~~~A~~~f~~~~~--~-~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~-~~t~~  277 (545)
                      +...+-.+...+.+.|++++|...|+++.+  | +   ...+..+..+|.+.|++++|+..|++..+... .|+ ...+.
T Consensus        14 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~   93 (261)
T 3qky_A           14 SPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEY   93 (261)
T ss_dssp             SHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHH
Confidence            344555566677777777777777777654  2 2   44566667777777777777777777766422 122 23444


Q ss_pred             HHHHHHHc--------cCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhCCCCCCHhHHHHHHH
Q 009066          278 ALLLACNH--------AGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLS  349 (545)
Q Consensus       278 ~ll~a~~~--------~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~li~  349 (545)
                      .+..++..        .|++++|...|+++.+.+  +.+.....++.......+.+               ...+..+..
T Consensus        94 ~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a~~~~~~~~~~~---------------~~~~~~la~  156 (261)
T 3qky_A           94 ERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY--PNHELVDDATQKIRELRAKL---------------ARKQYEAAR  156 (261)
T ss_dssp             HHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC--TTCTTHHHHHHHHHHHHHHH---------------HHHHHHHHH
T ss_pred             HHHHHHHHhcccccccchhHHHHHHHHHHHHHHC--cCchhHHHHHHHHHHHHHHH---------------HHHHHHHHH
Confidence            55555555        677777777777766542  11222222221111111111               112466778


Q ss_pred             HHHhcCCHHHHHHHHHHHhcCCCCCCc--hhHHHHHHHHHHc----------CCchHHHHHHHHhhhCCCccCCceeEEE
Q 009066          350 ACRVHKRLDLAEFAAMNLFNLNPANAA--GCYVQLANIYAAM----------KKWDDVARIRLSMKENNVVKMPGYSWIE  417 (545)
Q Consensus       350 ~~~~~g~~~~A~~~~~~~~~~~p~~~~--~~~~~l~~~~~~~----------g~~~~a~~~~~~m~~~~~~~~~~~s~~~  417 (545)
                      .|...|++++|+..++++++..|++..  .++..++.+|...          |++++|...++++.+..    |      
T Consensus       157 ~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~----p------  226 (261)
T 3qky_A          157 LYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIF----P------  226 (261)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHC----T------
T ss_pred             HHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHC----C------
Confidence            899999999999999999999998532  2688899999877          89999999999987632    1      


Q ss_pred             ECCEEEEEecCCCCCCChHHHHHHHHHHHHHHHH
Q 009066          418 VGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKL  451 (545)
Q Consensus       418 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~m~~  451 (545)
                                   .+|...+....+.++...+.+
T Consensus       227 -------------~~~~~~~a~~~l~~~~~~~~~  247 (261)
T 3qky_A          227 -------------DSPLLRTAEELYTRARQRLTE  247 (261)
T ss_dssp             -------------TCTHHHHHHHHHHHHHHHHHH
T ss_pred             -------------CChHHHHHHHHHHHHHHHHHH
Confidence                         235555666666666666544

>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=99.02  E-value=3.6e-09  Score=99.01  Aligned_cols=223  Identities=12%  Similarity=0.029  Sum_probs=140.5

Q ss_pred             hccCChHHHHHHHHHHHh-------CCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhC------CC-CCCcccHHHH
Q 009066          148 VENSWAEDGLKLLRMMIG-------LGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKS------PL-CKDTTALTPL  213 (545)
Q Consensus       148 ~~~g~~~~A~~~~~~m~~-------~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~------g~-~~~~~~~~~l  213 (545)
                      ...|++++|+.+|++..+       ...+....++..+...+...|++++|...+..+++.      +. +....++..+
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            334555555555554443       121223456677777778888888888888777654      21 2234567778


Q ss_pred             HHHHHhcCCHHHHHHHHHhccC-------C----ChhhHHHHHHHHHHcCChHHHHHHHHHHHHc------CCCCC-HHH
Q 009066          214 ISMYCKCGDLEDACKLFLEIQR-------K----DVVTWNAMISGYAQHGKGEKALRLFDKMKDE------GMKPD-SIT  275 (545)
Q Consensus       214 i~~y~~~g~~~~A~~~f~~~~~-------~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------g~~p~-~~t  275 (545)
                      ...|...|++++|...|++..+       +    ...+|..+...|...|++++|+..|++..+.      +-.|+ ..+
T Consensus        92 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  171 (283)
T 3edt_B           92 AVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKT  171 (283)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHH
Confidence            8888888888888888877652       1    2456788888888899999999999888764      11332 456


Q ss_pred             HHHHHHHHHccCcHHHHHHHHHHhHHhc------CCCC-CHHHHHHHHHHHhHc------CCHHHHHHHHHhCC-CCC-C
Q 009066          276 FVALLLACNHAGLVDLGIQYFDSMVNDY------GIAA-KPDHYTCMVDLLGRA------GKLVEAVDLIKKMP-FKP-Q  340 (545)
Q Consensus       276 ~~~ll~a~~~~g~~~~a~~~~~~~~~~~------~~~~-~~~~~~~li~~~~~~------g~~~~A~~~~~~m~-~~p-~  340 (545)
                      +..+..++...|++++|...+++..+..      ...+ ....+..+...+...      ..+.++...++..+ ..| .
T Consensus       172 ~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  251 (283)
T 3edt_B          172 KNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTV  251 (283)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHH
Confidence            7777888889999999999998876531      0111 222333333333332      23455555555553 223 2


Q ss_pred             HhHHHHHHHHHHhcCCHHHHHHHHHHHhcC
Q 009066          341 PAIFGTLLSACRVHKRLDLAEFAAMNLFNL  370 (545)
Q Consensus       341 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  370 (545)
                      ..++..+...|...|++++|...++++++.
T Consensus       252 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          252 NTTLRSLGALYRRQGKLEAAHTLEDCASRN  281 (283)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            357888999999999999999999998765

>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=98.99  E-value=1.4e-08  Score=82.93  Aligned_cols=130  Identities=16%  Similarity=0.218  Sum_probs=67.6

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHH
Q 009066          240 TWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLL  319 (545)
Q Consensus       240 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~  319 (545)
                      .|..+...+...|++++|+.+|+++.+.. +.+...+..+...+...|++++|...++.+.+.  .+.+...+..+...+
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~   79 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL--DPRSAEAWYNLGNAY   79 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHH--CCCchHHHHHHHHHH
Confidence            35555566666666666666666665542 223445555555555666666666666655542  123344445555555


Q ss_pred             hHcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCC
Q 009066          320 GRAGKLVEAVDLIKKM-PFK-PQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNP  372 (545)
Q Consensus       320 ~~~g~~~~A~~~~~~m-~~~-p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p  372 (545)
                      ...|++++|.+.++++ ... .+...|..+...+...|++++|...++++++.+|
T Consensus        80 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~  134 (136)
T 2fo7_A           80 YKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDP  134 (136)
T ss_dssp             HTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHST
T ss_pred             HHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHHHHccCC
Confidence            5555555555555444 111 2334445555555555555555555555554444

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.98  E-value=1.1e-07  Score=88.76  Aligned_cols=174  Identities=9%  Similarity=-0.021  Sum_probs=115.5

Q ss_pred             HHHHHHhccC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHhHH
Q 009066          226 ACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKP-DSITFVALLLACNHAGLVDLGIQYFDSMVN  301 (545)
Q Consensus       226 A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~  301 (545)
                      |...|++...   ++..++..+..++...|++++|++++.+.+..+..+ +...+..++..+.+.|+.+.|.+.++.|.+
T Consensus        85 a~~~l~~l~~~~~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~  164 (310)
T 3mv2_B           85 NIEELENLLKDKQNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTN  164 (310)
T ss_dssp             CCHHHHHTTTTSCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            5666666543   345555667777778888888888888776654322 344555666778888888888888888764


Q ss_pred             hcCCCC-----CHHHHHHHHHH--HhHcC--CHHHHHHHHHhC-CCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcC-
Q 009066          302 DYGIAA-----KPDHYTCMVDL--LGRAG--KLVEAVDLIKKM-PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNL-  370 (545)
Q Consensus       302 ~~~~~~-----~~~~~~~li~~--~~~~g--~~~~A~~~~~~m-~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-  370 (545)
                      .   .|     +..+...|+.+  ....|  ++.+|..+|+++ ...|+..+-..++.++.+.|++++|+..++.+.+. 
T Consensus       165 ~---~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~~  241 (310)
T 3mv2_B          165 A---IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQTFPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSDY  241 (310)
T ss_dssp             H---SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTTSCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSHH
T ss_pred             c---CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhc
Confidence            3   55     24444455544  22233  788888888887 32354333344444777888888888888877665 


Q ss_pred             ---------CCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhhC
Q 009066          371 ---------NPANAAGCYVQLANIYAAMKKWDDVARIRLSMKEN  405 (545)
Q Consensus       371 ---------~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  405 (545)
                               +|+++. ++..++..+...|+  +|.+++.++++.
T Consensus       242 p~~~~k~~~~p~~~~-~LaN~i~l~~~lgk--~a~~l~~qL~~~  282 (310)
T 3mv2_B          242 YSVEQKENAVLYKPT-FLANQITLALMQGL--DTEDLTNQLVKL  282 (310)
T ss_dssp             HHTTTCHHHHSSHHH-HHHHHHHHHHHTTC--TTHHHHHHHHHT
T ss_pred             ccccccccCCCCCHH-HHHHHHHHHHHhCh--HHHHHHHHHHHh
Confidence                     477766 77677777777776  777888877764

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.98  E-value=1.4e-08  Score=94.29  Aligned_cols=201  Identities=12%  Similarity=0.023  Sum_probs=143.3

Q ss_pred             CCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCC---cccHHHHHHHHHhcCCHHHHHHHHHhccC--C-C---hhh
Q 009066          170 PNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKD---TTALTPLISMYCKCGDLEDACKLFLEIQR--K-D---VVT  240 (545)
Q Consensus       170 pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~---~~~~~~li~~y~~~g~~~~A~~~f~~~~~--~-~---~~~  240 (545)
                      .+...+......+...|++++|...|+.+++... .+   ...+..+..+|.+.|++++|...|++..+  | +   ..+
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            3566777788888999999999999999998752 23   56777899999999999999999999874  2 1   346


Q ss_pred             HHHHHHHHHH--------cCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHH
Q 009066          241 WNAMISGYAQ--------HGKGEKALRLFDKMKDEGMKPDSI-TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDH  311 (545)
Q Consensus       241 ~~~li~~~~~--------~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  311 (545)
                      +..+..++..        .|++++|+..|++.....  |+.. ....              ...+..+...     ....
T Consensus        92 ~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a--------------~~~~~~~~~~-----~~~~  150 (261)
T 3qky_A           92 EYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY--PNHELVDDA--------------TQKIRELRAK-----LARK  150 (261)
T ss_dssp             HHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC--TTCTTHHHH--------------HHHHHHHHHH-----HHHH
T ss_pred             HHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHC--cCchhHHHH--------------HHHHHHHHHH-----HHHH
Confidence            7778888888        999999999999998853  3321 1111              1111111110     1123


Q ss_pred             HHHHHHHHhHcCCHHHHHHHHHhC-CCCCC----HhHHHHHHHHHHhc----------CCHHHHHHHHHHHhcCCCCCCc
Q 009066          312 YTCMVDLLGRAGKLVEAVDLIKKM-PFKPQ----PAIFGTLLSACRVH----------KRLDLAEFAAMNLFNLNPANAA  376 (545)
Q Consensus       312 ~~~li~~~~~~g~~~~A~~~~~~m-~~~p~----~~~~~~li~~~~~~----------g~~~~A~~~~~~~~~~~p~~~~  376 (545)
                      +..+...|.+.|++++|...|+++ ...|+    ...+..+..+|...          |++++|+..++++++..|++..
T Consensus       151 ~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~  230 (261)
T 3qky_A          151 QYEAARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFPDSPL  230 (261)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCTTCTH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCCCChH
Confidence            567788889999999999998877 22233    34677777777765          8899999999999999999863


Q ss_pred             --hhHHHHHHHHHHcCCc
Q 009066          377 --GCYVQLANIYAAMKKW  392 (545)
Q Consensus       377 --~~~~~l~~~~~~~g~~  392 (545)
                        .+...+..++...+++
T Consensus       231 ~~~a~~~l~~~~~~~~~~  248 (261)
T 3qky_A          231 LRTAEELYTRARQRLTEL  248 (261)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHh
Confidence              1333444444444443

>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=98.96  E-value=3.4e-09  Score=112.75  Aligned_cols=169  Identities=10%  Similarity=-0.067  Sum_probs=133.8

Q ss_pred             HhcCCHHHHHHHHHhcc-----------CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHcc
Q 009066          218 CKCGDLEDACKLFLEIQ-----------RKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHA  286 (545)
Q Consensus       218 ~~~g~~~~A~~~f~~~~-----------~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~  286 (545)
                      ...|++++|.+.|++..           ..+...|..+...|.+.|++++|+..|++..+.. +-+...+..+..++...
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~  480 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELLT  480 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHHc
Confidence            66788899988888876           2456778888888899999999999999888753 22556777777888889


Q ss_pred             CcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHH
Q 009066          287 GLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAA  364 (545)
Q Consensus       287 g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~  364 (545)
                      |++++|...|++..+.  .+.+...+..+..+|.+.|++++ .+.|++. ...| +...|..+..++...|++++|+..+
T Consensus       481 g~~~~A~~~~~~al~l--~P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~  557 (681)
T 2pzi_A          481 GDYDSATKHFTEVLDT--FPGELAPKLALAATAELAGNTDE-HKFYQTVWSTNDGVISAAFGLARARSAEGDRVGAVRTL  557 (681)
T ss_dssp             TCHHHHHHHHHHHHHH--STTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCchHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            9999999999888764  24457788888899999999988 8888876 3334 5678888888999999999999999


Q ss_pred             HHHhcCCCCCCchhHHHHHHHHHHcCC
Q 009066          365 MNLFNLNPANAAGCYVQLANIYAAMKK  391 (545)
Q Consensus       365 ~~~~~~~p~~~~~~~~~l~~~~~~~g~  391 (545)
                      +++++++|++.. ++..++.++...|+
T Consensus       558 ~~al~l~P~~~~-a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          558 DEVPPTSRHFTT-ARLTSAVTLLSGRS  583 (681)
T ss_dssp             HTSCTTSTTHHH-HHHHHHHHTC----
T ss_pred             HhhcccCcccHH-HHHHHHHHHHccCC
Confidence            999999998877 88888888876655

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.95  E-value=5.2e-08  Score=88.23  Aligned_cols=183  Identities=10%  Similarity=0.040  Sum_probs=116.9

Q ss_pred             ccHHHHHHHHHhcCCHHHHHHHHHhccC--CC----hhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCC-CCH-HHHHHH
Q 009066          208 TALTPLISMYCKCGDLEDACKLFLEIQR--KD----VVTWNAMISGYAQHGKGEKALRLFDKMKDEGMK-PDS-ITFVAL  279 (545)
Q Consensus       208 ~~~~~li~~y~~~g~~~~A~~~f~~~~~--~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~~-~t~~~l  279 (545)
                      ..+..+...+.+.|++++|...|+++.+  |+    ...+..+..+|.+.|++++|+..|+++.+.... |.. ..+..+
T Consensus         5 ~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~~   84 (225)
T 2yhc_A            5 NEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYMR   84 (225)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHHH
Confidence            3445567778888888888888888764  32    246777788888888888888888888774322 111 133333


Q ss_pred             HHHHHc------------------cCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhCCCCCCH
Q 009066          280 LLACNH------------------AGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQP  341 (545)
Q Consensus       280 l~a~~~------------------~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~  341 (545)
                      ..++..                  .|+.++|...|+.+.+.+  +-+...+.++..+..-.+.+.               
T Consensus        85 g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--P~~~~a~~a~~~l~~~~~~~~---------------  147 (225)
T 2yhc_A           85 GLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGY--PNSQYTTDATKRLVFLKDRLA---------------  147 (225)
T ss_dssp             HHHHHHHHC--------------CCHHHHHHHHHHHHHHTTC--TTCTTHHHHHHHHHHHHHHHH---------------
T ss_pred             HHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHC--cCChhHHHHHHHHHHHHHHHH---------------
Confidence            333332                  345566666666555431  112222211111000000000               


Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCc--hhHHHHHHHHHHcCCchHHHHHHHHhhhCCC
Q 009066          342 AIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA--GCYVQLANIYAAMKKWDDVARIRLSMKENNV  407 (545)
Q Consensus       342 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~--~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  407 (545)
                      .....+...+...|++++|+..|+++++..|+++.  .++..++.+|.+.|++++|.+.++.+...+.
T Consensus       148 ~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~  215 (225)
T 2yhc_A          148 KYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSS  215 (225)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCS
T ss_pred             HHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCC
Confidence            01134566788999999999999999999998752  1688999999999999999999999887653

>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=98.95  E-value=1.4e-08  Score=82.93  Aligned_cols=128  Identities=17%  Similarity=0.181  Sum_probs=111.7

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CC-CCCHhHHHHHHHHHH
Q 009066          275 TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PF-KPQPAIFGTLLSACR  352 (545)
Q Consensus       275 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~-~p~~~~~~~li~~~~  352 (545)
                      .+..+...+...|++++|..+++.+.+.  .+.+...+..+...+...|++++|...++++ .. ..+...|..+...+.
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~   80 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALEL--DPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYY   80 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHc--CCcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCCCchHHHHHHHHHHH
Confidence            4566777888999999999999998864  2456788889999999999999999999987 22 245678899999999


Q ss_pred             hcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhhC
Q 009066          353 VHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKEN  405 (545)
Q Consensus       353 ~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  405 (545)
                      ..|++++|...++++.+..|.+.. ++..++.+|...|++++|.+.++++.+.
T Consensus        81 ~~~~~~~A~~~~~~~~~~~~~~~~-~~~~la~~~~~~~~~~~A~~~~~~~~~~  132 (136)
T 2fo7_A           81 KQGDYDEAIEYYQKALELDPRSAE-AWYNLGNAYYKQGDYDEAIEYYQKALEL  132 (136)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHhCCCChH-HHHHHHHHHHHHccHHHHHHHHHHHHcc
Confidence            999999999999999999998877 8999999999999999999999988753

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.94  E-value=8.4e-08  Score=89.56  Aligned_cols=178  Identities=12%  Similarity=0.096  Sum_probs=116.3

Q ss_pred             HHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccCC-----ChhhHHHHHHHHHHcCChHHHHHHHHHHH
Q 009066          191 GKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRK-----DVVTWNAMISGYAQHGKGEKALRLFDKMK  265 (545)
Q Consensus       191 a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~-----~~~~~~~li~~~~~~g~~~~A~~~~~~m~  265 (545)
                      +...++..++.+ +++......+..+|...|++++|++++.+....     +...+..++..+.+.|+.+.|.+.+++|.
T Consensus        85 a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~  163 (310)
T 3mv2_B           85 NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYT  163 (310)
T ss_dssp             CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            445555555544 334444456677777777777777777776432     34566677778888888888888888887


Q ss_pred             HcCCCC-----CHHHHHHHHHH--HHccC--cHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-
Q 009066          266 DEGMKP-----DSITFVALLLA--CNHAG--LVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-  335 (545)
Q Consensus       266 ~~g~~p-----~~~t~~~ll~a--~~~~g--~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-  335 (545)
                      +.  .|     +..+...+..+  ....|  +.++|..+|+++...   .|+......+..++.+.|++++|.+.++.+ 
T Consensus       164 ~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~---~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~  238 (310)
T 3mv2_B          164 NA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT---FPTWKTQLGLLNLHLQQRNIAEAQGIVELLL  238 (310)
T ss_dssp             HH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT---SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             hc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh---CCCcccHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            64  55     35555555555  22223  788888888887653   344333334444778888888888887654 


Q ss_pred             CC----------CC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCc
Q 009066          336 PF----------KP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA  376 (545)
Q Consensus       336 ~~----------~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~  376 (545)
                      ..          .| |+.+...+|......|+  +|.++++++.+..|+++.
T Consensus       239 ~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~P~hp~  288 (310)
T 3mv2_B          239 SDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLDHEHAF  288 (310)
T ss_dssp             SHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTTCCCHH
T ss_pred             HhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhCCCChH
Confidence            11          13 45566566666666776  888999999999998863

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.94  E-value=3.1e-08  Score=93.40  Aligned_cols=176  Identities=10%  Similarity=-0.033  Sum_probs=140.5

Q ss_pred             HHHHHHHHHhccCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHh
Q 009066          223 LEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVND  302 (545)
Q Consensus       223 ~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~  302 (545)
                      .+...+.+......+...+..+...+.+.|++++|+..|++..... +-+...+..+..++...|++++|...++.+...
T Consensus       102 ~~~l~~~l~~~lp~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~  180 (287)
T 3qou_A          102 EEAIRALLDXVLPREEELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ  180 (287)
T ss_dssp             HHHHHHHHHHHSCCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG
T ss_pred             HHHHHHHHHHHcCCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh
Confidence            4455566666665566778888889999999999999999998853 225567778888999999999999999988754


Q ss_pred             cCCCCCHHHHHHH-HHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCC--Cch
Q 009066          303 YGIAAKPDHYTCM-VDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPAN--AAG  377 (545)
Q Consensus       303 ~~~~~~~~~~~~l-i~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~--~~~  377 (545)
                         .|+....... ...+.+.++.++|...+++. ...| +...+..+...+...|++++|+..++++++.+|++  .. 
T Consensus       181 ---~p~~~~~~~~~~~~l~~~~~~~~a~~~l~~al~~~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~-  256 (287)
T 3qou_A          181 ---DQDTRYQGLVAQIELLXQAADTPEIQQLQQQVAENPEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQ-  256 (287)
T ss_dssp             ---GCSHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGH-
T ss_pred             ---hcchHHHHHHHHHHHHhhcccCccHHHHHHHHhcCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccch-
Confidence               4554433333 33466778888888888776 3334 67889999999999999999999999999999987  66 


Q ss_pred             hHHHHHHHHHHcCCchHHHHHHHHhh
Q 009066          378 CYVQLANIYAAMKKWDDVARIRLSMK  403 (545)
Q Consensus       378 ~~~~l~~~~~~~g~~~~a~~~~~~m~  403 (545)
                      ++..|+.+|...|+.++|...+++..
T Consensus       257 a~~~l~~~~~~~g~~~~a~~~~r~al  282 (287)
T 3qou_A          257 TRXTFQEILAALGTGDALASXYRRQL  282 (287)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCCcHHHHHHHHH
Confidence            89999999999999999998887653

>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=98.92  E-value=3.5e-08  Score=94.07  Aligned_cols=221  Identities=9%  Similarity=0.007  Sum_probs=150.1

Q ss_pred             ccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHH
Q 009066          149 ENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACK  228 (545)
Q Consensus       149 ~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~  228 (545)
                      ..|++++|.+++++..+.. +..      +   +...++++.|...|..+               ...|...|++++|..
T Consensus         3 ~~~~~~eA~~~~~~a~k~~-~~~------~---~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~   57 (307)
T 2ifu_A            3 AAQKISEAHEHIAKAEKYL-KTS------F---MKWKPDYDSAASEYAKA---------------AVAFKNAKQLEQAKD   57 (307)
T ss_dssp             CHHHHHHHHHHHHHHHHHH-CCC------S---SSCSCCHHHHHHHHHHH---------------HHHHHHTTCHHHHHH
T ss_pred             ccchHHHHHHHHHHHHHHc-ccc------c---cCCCCCHHHHHHHHHHH---------------HHHHHHcCCHHHHHH
Confidence            3566777888877766431 111      0   11146677776666554               456677788888887


Q ss_pred             HHHhccC-----CC----hhhHHHHHHHHHHcCChHHHHHHHHHHHHcC---CCCC--HHHHHHHHHHHHccCcHHHHHH
Q 009066          229 LFLEIQR-----KD----VVTWNAMISGYAQHGKGEKALRLFDKMKDEG---MKPD--SITFVALLLACNHAGLVDLGIQ  294 (545)
Q Consensus       229 ~f~~~~~-----~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g---~~p~--~~t~~~ll~a~~~~g~~~~a~~  294 (545)
                      .|.+..+     .+    ..+|+.+...|...|++++|+..|++..+.-   -.|.  ..++..+...|.. |++++|..
T Consensus        58 ~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~  136 (307)
T 2ifu_A           58 AYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVH  136 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHH
Confidence            7776643     11    3467888888999999999999998876531   1122  3467777788888 99999999


Q ss_pred             HHHHhHHhcCCCC----CHHHHHHHHHHHhHcCCHHHHHHHHHhC----CCCCC----HhHHHHHHHHHHhcCCHHHHHH
Q 009066          295 YFDSMVNDYGIAA----KPDHYTCMVDLLGRAGKLVEAVDLIKKM----PFKPQ----PAIFGTLLSACRVHKRLDLAEF  362 (545)
Q Consensus       295 ~~~~~~~~~~~~~----~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~p~----~~~~~~li~~~~~~g~~~~A~~  362 (545)
                      .|++..+.+.-..    ...++..+...|.+.|++++|+..|++.    +..++    ...+..++..+...|++++|..
T Consensus       137 ~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~  216 (307)
T 2ifu_A          137 LYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQK  216 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            9988765321111    1467888999999999999999999876    11122    2356667777888899999999


Q ss_pred             HHHHHhcCCCCCCch----hHHHHHHHHHHcCCchHHHH
Q 009066          363 AAMNLFNLNPANAAG----CYVQLANIYAAMKKWDDVAR  397 (545)
Q Consensus       363 ~~~~~~~~~p~~~~~----~~~~l~~~~~~~g~~~~a~~  397 (545)
                      .+++.+ +.|.....    ....++.++ ..|+.+.+..
T Consensus       217 ~~~~al-~~p~~~~~~e~~~l~~l~~~~-~~~d~~~~~~  253 (307)
T 2ifu_A          217 CVRESY-SIPGFSGSEDCAALEDLLQAY-DEQDEEQLLR  253 (307)
T ss_dssp             HHHHHT-TSTTSTTSHHHHHHHHHHHHH-HTTCHHHHHH
T ss_pred             HHHHHh-CCCCCCCCHHHHHHHHHHHHH-HhcCHHHHHH
Confidence            999999 99876531    233455555 5677665555

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.89  E-value=3.6e-08  Score=88.08  Aligned_cols=128  Identities=9%  Similarity=0.014  Sum_probs=98.6

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcC
Q 009066          244 MISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAG  323 (545)
Q Consensus       244 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  323 (545)
                      +...|.+.|++++|+..|++..+.. +-+...+..+..++...|++++|...|++..+.  -+.+...+..+...|...|
T Consensus        60 lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~~  136 (208)
T 3urz_A           60 LALAYKKNRNYDKAYLFYKELLQKA-PNNVDCLEACAEMQVCRGQEKDALRMYEKILQL--EADNLAANIFLGNYYYLTA  136 (208)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHHh
Confidence            8888999999999999999998853 225677888888999999999999999998874  2456788888888887665


Q ss_pred             C--HHHHHHHHHhCCCCCCH--hHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCC
Q 009066          324 K--LVEAVDLIKKMPFKPQP--AIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANA  375 (545)
Q Consensus       324 ~--~~~A~~~~~~m~~~p~~--~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~  375 (545)
                      .  .+.+...++... .|+.  ..|..+..++...|++++|+..|++++++.|+..
T Consensus       137 ~~~~~~~~~~~~~~~-~~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~P~~~  191 (208)
T 3urz_A          137 EQEKKKLETDYKKLS-SPTKMQYARYRDGLSKLFTTRYEKARNSLQKVILRFPSTE  191 (208)
T ss_dssp             HHHHHHHHHHHC----CCCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTTSCCHH
T ss_pred             HHHHHHHHHHHHHHh-CCCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCHH
Confidence            4  445666676662 3443  3455566677788999999999999999999753

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=98.89  E-value=1.3e-09  Score=91.88  Aligned_cols=137  Identities=14%  Similarity=0.072  Sum_probs=84.5

Q ss_pred             HcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHH
Q 009066          250 QHGKGEKALRLFDKMKDEGMKPD-SITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEA  328 (545)
Q Consensus       250 ~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  328 (545)
                      ..|++++|+..+++....  .|+ ...+..+...|...|++++|.+.|++..+.  -+.++..|..+..+|.+.|++++|
T Consensus         9 ~~~~~e~ai~~~~~a~~~--~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~~~~~~A   84 (150)
T 4ga2_A            9 SKADVERYIASVQGSTPS--PRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINV--QERDPKAHRFLGLLYELEENTDKA   84 (150)
T ss_dssp             CHHHHHHHHHHHHHHSCS--HHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HcChHHHHHHHHHHhccc--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCchHHH
Confidence            344555555555554321  222 223334455556666666666666665542  233456666666667777777777


Q ss_pred             HHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHH-HHHHhcCCCCCCchhHHHHHHHHHHcCC
Q 009066          329 VDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFA-AMNLFNLNPANAAGCYVQLANIYAAMKK  391 (545)
Q Consensus       329 ~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~-~~~~~~~~p~~~~~~~~~l~~~~~~~g~  391 (545)
                      ...|++. .+.| +...|..+...|...|+.++|... ++++++++|+++. +|.....++...|+
T Consensus        85 ~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~~~~-~~~l~~~ll~~~G~  149 (150)
T 4ga2_A           85 VECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPGSPA-VYKLKEQLLDCEGE  149 (150)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTTCHH-HHHHHHHHHHTCCC
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcCCHH-HHHHHHHHHHHhCc
Confidence            7666665 3334 456777788888888887765554 5888888888877 77777777776664

>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=98.86  E-value=1.6e-07  Score=84.10  Aligned_cols=172  Identities=11%  Similarity=-0.047  Sum_probs=125.1

Q ss_pred             HHHHHHhccC-CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccC----cHHHHHHHHHHhH
Q 009066          226 ACKLFLEIQR-KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAG----LVDLGIQYFDSMV  300 (545)
Q Consensus       226 A~~~f~~~~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g----~~~~a~~~~~~~~  300 (545)
                      |.+.|++..+ .++.++..+...|...+++++|+..|++..+.|   +...+..|...|.. +    +.++|.++|+...
T Consensus         5 A~~~~~~aa~~g~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~   80 (212)
T 3rjv_A            5 PGSQYQQQAEAGDRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEKAV   80 (212)
T ss_dssp             TTHHHHHHHHTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHH
Confidence            4444544432 466677777777777788888888888877654   45555566666666 5    7888888888776


Q ss_pred             HhcCCCCCHHHHHHHHHHHhH----cCCHHHHHHHHHhC-CCCCC---HhHHHHHHHHHHh----cCCHHHHHHHHHHHh
Q 009066          301 NDYGIAAKPDHYTCMVDLLGR----AGKLVEAVDLIKKM-PFKPQ---PAIFGTLLSACRV----HKRLDLAEFAAMNLF  368 (545)
Q Consensus       301 ~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~m-~~~p~---~~~~~~li~~~~~----~g~~~~A~~~~~~~~  368 (545)
                      +    ..++..+..|..+|..    .+++++|.+.|++. ...|+   +..+..|...|..    .+++++|+..|++..
T Consensus        81 ~----~g~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~  156 (212)
T 3rjv_A           81 E----AGSKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSS  156 (212)
T ss_dssp             H----TTCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHH
T ss_pred             H----CCCHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHH
Confidence            5    2356677777777776    77888888888877 33332   6778888888887    788999999999998


Q ss_pred             cCCCCCCchhHHHHHHHHHHc-C-----CchHHHHHHHHhhhCCC
Q 009066          369 NLNPANAAGCYVQLANIYAAM-K-----KWDDVARIRLSMKENNV  407 (545)
Q Consensus       369 ~~~p~~~~~~~~~l~~~~~~~-g-----~~~~a~~~~~~m~~~~~  407 (545)
                      +. |.++. ++..|+.+|... |     +.++|.+.+++..+.|.
T Consensus       157 ~~-~~~~~-a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          157 SL-SRTGY-AEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             HT-SCTTH-HHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             Hc-CCCHH-HHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            88 55555 788888888765 3     78999999988877654

>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=98.86  E-value=1e-07  Score=101.43  Aligned_cols=189  Identities=13%  Similarity=0.016  Sum_probs=149.7

Q ss_pred             hccCcHHHHHHHHHHHH--------hCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccC---CChhhHHHHHHHHHHc
Q 009066          183 SHLSSLQLGKQVHQLVF--------KSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQH  251 (545)
Q Consensus       183 ~~~~~~~~a~~~~~~~~--------~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~  251 (545)
                      ...|++++|.+.++.++        +.. +.+...+..+...|.+.|++++|.+.|++..+   .+...|..+...|.+.
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~  480 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDF-SESVELPLMEVRALLDLGDVAKATRKLDDLAERVGWRWRLVWYRAVAELLT  480 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CC-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccccc-ccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcchHHHHHHHHHHHHHc
Confidence            77899999999999998        432 45677888899999999999999999998874   4778999999999999


Q ss_pred             CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHH
Q 009066          252 GKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDL  331 (545)
Q Consensus       252 g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  331 (545)
                      |++++|+..|++..+... -+...+..+..++...|++++ .+.|++..+.  .+.+...|..+..+|.+.|++++|.+.
T Consensus       481 g~~~~A~~~~~~al~l~P-~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~--~P~~~~a~~~lg~~~~~~g~~~~A~~~  556 (681)
T 2pzi_A          481 GDYDSATKHFTEVLDTFP-GELAPKLALAATAELAGNTDE-HKFYQTVWST--NDGVISAAFGLARARSAEGDRVGAVRT  556 (681)
T ss_dssp             TCHHHHHHHHHHHHHHST-TCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHcCChHH-HHHHHHHHHh--CCchHHHHHHHHHHHHHcCCHHHHHHH
Confidence            999999999999998632 245677888889999999999 9999998864  245678899999999999999999999


Q ss_pred             HHhC-CCCCC-HhHHHHHHHHHHhcCC-----HHHHHHHHHHHhcCCCCCCc
Q 009066          332 IKKM-PFKPQ-PAIFGTLLSACRVHKR-----LDLAEFAAMNLFNLNPANAA  376 (545)
Q Consensus       332 ~~~m-~~~p~-~~~~~~li~~~~~~g~-----~~~A~~~~~~~~~~~p~~~~  376 (545)
                      |++. ...|+ ...|..+..++...++     .+...++.+.+.++.++...
T Consensus       557 ~~~al~l~P~~~~a~~~~~~~~~~~~~~~~~~~~~~~~A~~~l~~~~~~~~~  608 (681)
T 2pzi_A          557 LDEVPPTSRHFTTARLTSAVTLLSGRSTSEVTEEQIRDAARRVEALPPTEPR  608 (681)
T ss_dssp             HHTSCTTSTTHHHHHHHHHHHTC-------CCHHHHHHHHHHHHTSCTTSTT
T ss_pred             HHhhcccCcccHHHHHHHHHHHHccCCCCCCCHHHHHHHHHHHhhCCCCcHH
Confidence            9998 56676 4677777777766555     23444444445555555543

>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=98.83  E-value=4.6e-08  Score=84.79  Aligned_cols=157  Identities=13%  Similarity=0.046  Sum_probs=93.7

Q ss_pred             cHHHHHHHHHhcCCHHHHHHHHHhccC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHc
Q 009066          209 ALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNH  285 (545)
Q Consensus       209 ~~~~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~  285 (545)
                      ....+...+.+.|++++|...|++..+   .+...|..+...+.+.|++++|+..|++.....  |+.... .+...+  
T Consensus         8 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~-~~~~~~--   82 (176)
T 2r5s_A            8 QLLKQVSELLQQGEHAQALNVIQTLSDELQSRGDVKLAKADCLLETKQFELAQELLATIPLEY--QDNSYK-SLIAKL--   82 (176)
T ss_dssp             THHHHHHHHHHTTCHHHHHHHHHTSCHHHHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHHHH-HHHHHH--
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChHHH-HHHHHH--
Confidence            344455666666666666666666553   245556666666666666666666666654432  222211 111000  


Q ss_pred             cCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHH
Q 009066          286 AGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFA  363 (545)
Q Consensus       286 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~  363 (545)
                                                     . +...+...+|...+++. ...| +...+..+...+...|++++|...
T Consensus        83 -------------------------------~-~~~~~~~~~a~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~  130 (176)
T 2r5s_A           83 -------------------------------E-LHQQAAESPELKRLEQELAANPDNFELACELAVQYNQVGRDEEALEL  130 (176)
T ss_dssp             -------------------------------H-HHHHHTSCHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             -------------------------------H-HHhhcccchHHHHHHHHHHhCCCCHHHHHHHHHHHHHcccHHHHHHH
Confidence                                           0 00111111233444433 2234 467777888888888888888888


Q ss_pred             HHHHhcCCCCC--CchhHHHHHHHHHHcCCchHHHHHHHHhh
Q 009066          364 AMNLFNLNPAN--AAGCYVQLANIYAAMKKWDDVARIRLSMK  403 (545)
Q Consensus       364 ~~~~~~~~p~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  403 (545)
                      ++++++.+|+.  .. .+..++.++...|+.++|...+++..
T Consensus       131 ~~~~l~~~p~~~~~~-a~~~l~~~~~~~g~~~~A~~~y~~al  171 (176)
T 2r5s_A          131 LWNILKVNLGAQDGE-VKKTFMDILSALGQGNAIASKYRRQL  171 (176)
T ss_dssp             HHHHHTTCTTTTTTH-HHHHHHHHHHHHCSSCHHHHHHHHHH
T ss_pred             HHHHHHhCcccChHH-HHHHHHHHHHHhCCCCcHHHHHHHHH
Confidence            88888888764  34 67888888888888888888887654

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.83  E-value=1.8e-06  Score=87.72  Aligned_cols=187  Identities=8%  Similarity=0.020  Sum_probs=110.7

Q ss_pred             cHHHHHHHHHHhCCCChHHHHHHHccCC--CCChhhHHHHHHHHHcCCCCHHHHHHHHhcCC------CCCeehHHHHHH
Q 009066            7 VNWNSVLAGFAKQRGKLKDAQELFDKIP--QPDVVSYNIMLSCILLNSDDVVAAFDFFQRLP------IKDTASWNTMIS   78 (545)
Q Consensus         7 ~~~~~li~~~~~~g~~~~~A~~~f~~~~--~~~~~~~~~li~~~~~~~g~~~~A~~~~~~m~------~~d~~~~~~li~   78 (545)
                      .+|...+..+-. |. .+.|+.+|++..  .|++..|...+....+.+...+....+|+...      ..+...|...+.
T Consensus        16 ~vyer~l~~~P~-~~-~e~~~~iferal~~~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~~s~~iW~~Yi~   93 (493)
T 2uy1_A           16 AIMEHARRLYMS-KD-YRSLESLFGRCLKKSYNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYWDSYGLYKEYIE   93 (493)
T ss_dssp             HHHHHHHHHHHT-TC-HHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHCCC-CC-HHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCcccHHHHHHHHH
Confidence            356666766665 66 999999999876  48888999988866665223455666776644      235567777776


Q ss_pred             HHH----hCCCHHHHHHHHhhCCc-CC---HhHHHHHHHHHH-------------HcCChHHHHHHHhhCC----CCCcc
Q 009066           79 GFV----QKKNMAKARDLFLAMPE-KN---SVSWSAMISGYI-------------ECGQLDKAVELFKVAP----VKSVV  133 (545)
Q Consensus        79 ~~~----~~g~~~~a~~~~~~~~~-~~---~~~~~~li~~~~-------------~~g~~~~A~~~f~~~~----~~~~~  133 (545)
                      .+.    ..++.+.+..+|++.+. |.   ...|......-.             ..+.+..|+.+++.+.    ..+..
T Consensus        94 f~~~~~~~~~~~~~vR~iy~rAL~~P~~~~~~lw~~Y~~fE~~~~~~~~~~~~~~~~~~y~~ar~~y~~~~~~~~~~s~~  173 (493)
T 2uy1_A           94 EEGKIEDEQTRIEKIRNGYMRALQTPMGSLSELWKDFENFELELNKITGKKIVGDTLPIFQSSFQRYQQIQPLIRGWSVK  173 (493)
T ss_dssp             HTSSCSSHHHHHHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSHH
T ss_pred             HHHhchhhhHHHHHHHHHHHHHHhChhhhHHHHHHHHHHHHHHhccccHHHHHHHHhHHHHHHHHHHHHHHHHHhhccHH
Confidence            654    24678889999988864 11   112222211110             0112233343333221    11333


Q ss_pred             cHHHHHHHhcchhhhcc--C-----ChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhC
Q 009066          134 AWTAMISGYMKFGYVEN--S-----WAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKS  201 (545)
Q Consensus       134 ~~~~li~~~~~~g~~~~--g-----~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~  201 (545)
                      .|...+.--     ..+  +     ..+.+..+|++++... +.+...|...+..+.+.|+++.|+.+++..++.
T Consensus       174 ~W~~y~~~E-----~~~~~~~~~~~~~~Rv~~~ye~al~~~-p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~  242 (493)
T 2uy1_A          174 NAARLIDLE-----MENGMKLGGRPHESRMHFIHNYILDSF-YYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM  242 (493)
T ss_dssp             HHHHHHHHH-----HTCTTCCCHHHHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHH-----hcCCccCcchhhHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC
Confidence            565544432     211  1     1345667888887643 445667777777777888889999999888887

>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=98.81  E-value=7.4e-08  Score=83.44  Aligned_cols=157  Identities=11%  Similarity=0.030  Sum_probs=94.5

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccC--CChhhHHHHHHH-HHH
Q 009066          174 SLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR--KDVVTWNAMISG-YAQ  250 (545)
Q Consensus       174 t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~--~~~~~~~~li~~-~~~  250 (545)
                      .+......+...|++++|...++.+++.. +.+...+..+..+|.+.|++++|...|++...  |+...+..+... +..
T Consensus         8 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~   86 (176)
T 2r5s_A            8 QLLKQVSELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLEYQDNSYKSLIAKLELHQ   86 (176)
T ss_dssp             THHHHHHHHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGGCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhccCChHHHHHHHHHHHHh
Confidence            34556667889999999999999987764 45677888999999999999999999999875  333322222111 112


Q ss_pred             cCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHH
Q 009066          251 HGKGEKALRLFDKMKDEGMKP-DSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAV  329 (545)
Q Consensus       251 ~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  329 (545)
                      .+...+|+..|++..+.  .| +...+..+..++...|++++|...|+++.+...-..+...+..+...|...|+.++|.
T Consensus        87 ~~~~~~a~~~~~~al~~--~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~  164 (176)
T 2r5s_A           87 QAAESPELKRLEQELAA--NPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIA  164 (176)
T ss_dssp             HHTSCHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHH
T ss_pred             hcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHH
Confidence            22233455566655553  22 3444555555555666666666666555532100111334555555555555555555


Q ss_pred             HHHH
Q 009066          330 DLIK  333 (545)
Q Consensus       330 ~~~~  333 (545)
                      ..|+
T Consensus       165 ~~y~  168 (176)
T 2r5s_A          165 SKYR  168 (176)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5544

>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=98.79  E-value=1e-07  Score=99.39  Aligned_cols=160  Identities=13%  Similarity=0.063  Sum_probs=116.2

Q ss_pred             cCCHHHHHHHHHhccC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHH
Q 009066          220 CGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYF  296 (545)
Q Consensus       220 ~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~  296 (545)
                      .|++++|.+.|++..+   .+...|..+...|.+.|++++|++.|++..+.. +.+...+..+..++...|++++|.+.+
T Consensus         2 ~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~   80 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRPQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVLL   80 (568)
T ss_dssp             -------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            3677888888877764   356778888888888899999999998888753 224667778888888899999999999


Q ss_pred             HHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhc---CCHHHHHHHHHHHhcCC
Q 009066          297 DSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVH---KRLDLAEFAAMNLFNLN  371 (545)
Q Consensus       297 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~---g~~~~A~~~~~~~~~~~  371 (545)
                      ++..+.  .+.+...+..+..+|.+.|++++|.+.+++. ...| +...+..+...+...   |+.++|...++++++.+
T Consensus        81 ~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~~  158 (568)
T 2vsy_A           81 QQASDA--APEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQG  158 (568)
T ss_dssp             HHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHT
T ss_pred             HHHHhc--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhcC
Confidence            888764  2445778888999999999999999998877 3334 567888888899999   99999999999999999


Q ss_pred             CCCCchhHHHHH
Q 009066          372 PANAAGCYVQLA  383 (545)
Q Consensus       372 p~~~~~~~~~l~  383 (545)
                      |+... .|..+.
T Consensus       159 p~~~~-~~~~l~  169 (568)
T 2vsy_A          159 VGAVE-PFAFLS  169 (568)
T ss_dssp             CCCSC-HHHHTT
T ss_pred             CcccC-hHHHhC
Confidence            98876 666655

>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=98.78  E-value=6.1e-08  Score=101.04  Aligned_cols=151  Identities=16%  Similarity=0.080  Sum_probs=116.3

Q ss_pred             cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHH
Q 009066          251 HGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVD  330 (545)
Q Consensus       251 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  330 (545)
                      .|++++|+..|++..+.. +-+...+..+...+...|++++|.+.+++..+.  .+.+...+..+..+|...|++++|.+
T Consensus         2 ~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~   78 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLAL--HPGHPEAVARLGRVRWTQQRHAEAAV   78 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT--STTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            478899999999988752 224677888889999999999999999998863  34468899999999999999999999


Q ss_pred             HHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHc---CCchHHHHHHHHhhhC
Q 009066          331 LIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAM---KKWDDVARIRLSMKEN  405 (545)
Q Consensus       331 ~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~---g~~~~a~~~~~~m~~~  405 (545)
                      .+++. ...| +...|..+...+...|++++|...++++++.+|++.. ++..++.++...   |++++|.+.+++..+.
T Consensus        79 ~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~-~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~  157 (568)
T 2vsy_A           79 LLQQASDAAPEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEEPY-ITAQLLNWRRRLCDWRALDVLSAQVRAAVAQ  157 (568)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Confidence            99987 3334 5688999999999999999999999999999999987 999999999999   9999999999887653

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=98.77  E-value=7.2e-09  Score=87.32  Aligned_cols=121  Identities=13%  Similarity=-0.002  Sum_probs=100.2

Q ss_pred             HHHHHccCcHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCC
Q 009066          280 LLACNHAGLVDLGIQYFDSMVNDYGIAAK-PDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKR  356 (545)
Q Consensus       280 l~a~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~  356 (545)
                      ...+...|++++|+..++....   ..|+ +..+..+..+|.+.|++++|.+.|++. .+.| +...|..+...+...|+
T Consensus         4 G~~~~~~~~~e~ai~~~~~a~~---~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~   80 (150)
T 4ga2_A            4 GSMRRSKADVERYIASVQGSTP---SPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQERDPKAHRFLGLLYELEEN   80 (150)
T ss_dssp             ---CCCHHHHHHHHHHHHHHSC---SHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHcChHHHHHHHHHHhcc---cCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCc
Confidence            3445677899999999987764   2333 455678999999999999999999987 4445 67899999999999999


Q ss_pred             HHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHH-HHHhhh
Q 009066          357 LDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARI-RLSMKE  404 (545)
Q Consensus       357 ~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~-~~~m~~  404 (545)
                      +++|+..|+++++++|+++. ++..++.+|.+.|++++|.+. +++..+
T Consensus        81 ~~~A~~~~~~al~~~p~~~~-~~~~la~~~~~~~~~~~aa~~~~~~al~  128 (150)
T 4ga2_A           81 TDKAVECYRRSVELNPTQKD-LVLKIAELLCKNDVTDGRAKYWVERAAK  128 (150)
T ss_dssp             HHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHHHCSSSSHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence            99999999999999999988 999999999999999887765 466654

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.76  E-value=2e-07  Score=84.25  Aligned_cols=185  Identities=14%  Similarity=0.002  Sum_probs=131.6

Q ss_pred             CHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCC--cccHHHHHHHHHhcCCHHHHHHHHHhccC--CC-h---hhHH
Q 009066          171 NASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKD--TTALTPLISMYCKCGDLEDACKLFLEIQR--KD-V---VTWN  242 (545)
Q Consensus       171 d~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~--~~~~~~li~~y~~~g~~~~A~~~f~~~~~--~~-~---~~~~  242 (545)
                      +...+..+...+...|++++|...|+.+++......  ...+..+..+|.+.|++++|...|++..+  |+ .   .++.
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            344566667788899999999999999998642221  24677789999999999999999999864  32 2   2455


Q ss_pred             HHHHHHHH------------------cCChHHHHHHHHHHHHcCCCCCHHH-HHHHHHHHHccCcHHHHHHHHHHhHHhc
Q 009066          243 AMISGYAQ------------------HGKGEKALRLFDKMKDEGMKPDSIT-FVALLLACNHAGLVDLGIQYFDSMVNDY  303 (545)
Q Consensus       243 ~li~~~~~------------------~g~~~~A~~~~~~m~~~g~~p~~~t-~~~ll~a~~~~g~~~~a~~~~~~~~~~~  303 (545)
                      .+..++..                  .|++++|+..|+++.+.  .|+... ......    .      ..+...+    
T Consensus        83 ~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~P~~~~a~~a~~~----l------~~~~~~~----  146 (225)
T 2yhc_A           83 MRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG--YPNSQYTTDATKR----L------VFLKDRL----  146 (225)
T ss_dssp             HHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTT--CTTCTTHHHHHHH----H------HHHHHHH----
T ss_pred             HHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH--CcCChhHHHHHHH----H------HHHHHHH----
Confidence            55555554                  57899999999999875  454321 111110    0      0011111    


Q ss_pred             CCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCCCH----hHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCc
Q 009066          304 GIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQP----AIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA  376 (545)
Q Consensus       304 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~----~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~  376 (545)
                           ......+...|.+.|++++|...|+++ ...|+.    ..+..+..++.+.|+.++|...++.+....|++..
T Consensus       147 -----~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~~~~~  219 (225)
T 2yhc_A          147 -----AKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSSNTLE  219 (225)
T ss_dssp             -----HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCSCCCC
T ss_pred             -----HHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCchh
Confidence                 112245678899999999999999887 223432    56888899999999999999999999999888754

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.74  E-value=5.1e-06  Score=78.20  Aligned_cols=224  Identities=11%  Similarity=0.074  Sum_probs=150.6

Q ss_pred             hccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccC--cHHHHHHHHHHHHhCCCCCCcccHHHHHHHH----Hhc-
Q 009066          148 VENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLS--SLQLGKQVHQLVFKSPLCKDTTALTPLISMY----CKC-  220 (545)
Q Consensus       148 ~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~--~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y----~~~-  220 (545)
                      ......++|++++.+++..+ +-+...|+.--.++...+  +++++...+..++... +.+..+|+.-...+    .+. 
T Consensus        44 ~~~e~s~~aL~~t~~~L~~n-P~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~n-Pk~y~aW~~R~~iL~~~~~~l~  121 (306)
T 3dra_A           44 KAEEYSERALHITELGINEL-ASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDN-EKNYQIWNYRQLIIGQIMELNN  121 (306)
T ss_dssp             HTTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHC-TTCCHHHHHHHHHHHHHHHHTT
T ss_pred             HcCCCCHHHHHHHHHHHHHC-cHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHC-cccHHHHHHHHHHHHHHHHhcc
Confidence            33445568888888887743 224445666666666777  8888888888887764 34555565544444    444 


Q ss_pred             --CCHHHHHHHHHhccC---CChhhHHHHHHHHHHcCChH--HHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCc-----
Q 009066          221 --GDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGE--KALRLFDKMKDEGMKPDSITFVALLLACNHAGL-----  288 (545)
Q Consensus       221 --g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~--~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~-----  288 (545)
                        ++++++.++++++.+   +|..+|+--...+.+.|.++  ++++.++++.+..+. |...|+.-.....+.+.     
T Consensus       122 ~~~~~~~EL~~~~~~l~~~pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~-N~sAW~~R~~ll~~l~~~~~~~  200 (306)
T 3dra_A          122 NDFDPYREFDILEAMLSSDPKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLK-NNSAWSHRFFLLFSKKHLATDN  200 (306)
T ss_dssp             TCCCTHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHSSGGGCCHH
T ss_pred             ccCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccccchhh
Confidence              678888888888764   56778888777777888877  888888888876543 55666655555556555     


Q ss_pred             -HHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHH-HHHHHHhC-CC----CCCHhHHHHHHHHHHhcCCHHHHH
Q 009066          289 -VDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVE-AVDLIKKM-PF----KPQPAIFGTLLSACRVHKRLDLAE  361 (545)
Q Consensus       289 -~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~-A~~~~~~m-~~----~p~~~~~~~li~~~~~~g~~~~A~  361 (545)
                       ++++.+.++.++..  .+-|...|+-+...+.+.|+..+ +..+..+. ..    ..+...+..+...+.+.|+.++|.
T Consensus       201 ~~~eEl~~~~~aI~~--~p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~  278 (306)
T 3dra_A          201 TIDEELNYVKDKIVK--CPQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESR  278 (306)
T ss_dssp             HHHHHHHHHHHHHHH--CSSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             hHHHHHHHHHHHHHh--CCCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHH
Confidence             77777777777653  35566777777777777776443 44455554 11    235567777777777777777777


Q ss_pred             HHHHHHhc-CCCCCCc
Q 009066          362 FAAMNLFN-LNPANAA  376 (545)
Q Consensus       362 ~~~~~~~~-~~p~~~~  376 (545)
                      ++++.+.+ .+|-...
T Consensus       279 ~~~~~l~~~~Dpir~~  294 (306)
T 3dra_A          279 TVYDLLKSKYNPIRSN  294 (306)
T ss_dssp             HHHHHHHHTTCGGGHH
T ss_pred             HHHHHHHhccChHHHH
Confidence            77777775 6776543

>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=98.73  E-value=7.9e-07  Score=79.31  Aligned_cols=144  Identities=11%  Similarity=0.025  Sum_probs=86.0

Q ss_pred             HHHHHHHhcCCHHHHHHHHHhccCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHH
Q 009066          212 PLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDL  291 (545)
Q Consensus       212 ~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~  291 (545)
                      .+...|...|++++|...|++...++...|..+...|...|++++|+..|++..... +.+...+..+..++...|++++
T Consensus        11 ~~g~~~~~~~~~~~A~~~~~~a~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~   89 (213)
T 1hh8_A           11 NEGVLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKYDL   89 (213)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHcCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcccHHH
Confidence            355566667777777777777766666677777777777777777777777766542 2244555556666666666666


Q ss_pred             HHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhCCCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcC
Q 009066          292 GIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNL  370 (545)
Q Consensus       292 a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  370 (545)
                      |...|+...+..  +.+....      +...|           +...| ....|..+...+...|++++|...+++++++
T Consensus        90 A~~~~~~al~~~--~~~~~~~------~~~~~-----------~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  150 (213)
T 1hh8_A           90 AIKDLKEALIQL--RGNQLID------YKILG-----------LQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM  150 (213)
T ss_dssp             HHHHHHHHHHTT--TTCSEEE------CGGGT-----------BCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhC--CCccHHH------HHHhc-----------cccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHc
Confidence            666666655421  1111000      00000           01122 2256677777777788888888888888887


Q ss_pred             CCCCC
Q 009066          371 NPANA  375 (545)
Q Consensus       371 ~p~~~  375 (545)
                      .|++.
T Consensus       151 ~p~~~  155 (213)
T 1hh8_A          151 KSEPR  155 (213)
T ss_dssp             CCSGG
T ss_pred             Ccccc
Confidence            77653

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.73  E-value=4e-07  Score=85.73  Aligned_cols=164  Identities=10%  Similarity=0.020  Sum_probs=102.3

Q ss_pred             CCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccC--CChhhHHH-HH
Q 009066          169 RPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR--KDVVTWNA-MI  245 (545)
Q Consensus       169 ~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~--~~~~~~~~-li  245 (545)
                      +.+...+..+...+...|++++|...++.+++.. +.+...+..+...|.+.|++++|...|+++..  |+...... ..
T Consensus       114 p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~~~~~  192 (287)
T 3qou_A          114 PREEELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQDQDTRYQGLVAQ  192 (287)
T ss_dssp             CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGGCSHHHHHHHHH
T ss_pred             CCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhhcchHHHHHHHH
Confidence            3344556666666777788888888888877764 34556677777778888888888888877764  33322222 22


Q ss_pred             HHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCH
Q 009066          246 SGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKL  325 (545)
Q Consensus       246 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  325 (545)
                      ..+.+.++.++|+..|++..... +.+...+..+..++...|++++|...+..+.+...-..+...+..++..|...|+.
T Consensus       193 ~~l~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~~  271 (287)
T 3qou_A          193 IELLXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGTG  271 (287)
T ss_dssp             HHHHHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCTT
T ss_pred             HHHHhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCCC
Confidence            23555666667777777766642 22455566666677777777777777777665411111245666666666666666


Q ss_pred             HHHHHHHHh
Q 009066          326 VEAVDLIKK  334 (545)
Q Consensus       326 ~~A~~~~~~  334 (545)
                      ++|...|++
T Consensus       272 ~~a~~~~r~  280 (287)
T 3qou_A          272 DALASXYRR  280 (287)
T ss_dssp             CHHHHHHHH
T ss_pred             CcHHHHHHH
Confidence            666655543

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.72  E-value=1.3e-06  Score=82.22  Aligned_cols=213  Identities=15%  Similarity=0.143  Sum_probs=168.4

Q ss_pred             cHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcC--CHHHHHHHHHhccC---CChhhHHHHHHHH----HHc---CCh
Q 009066          187 SLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCG--DLEDACKLFLEIQR---KDVVTWNAMISGY----AQH---GKG  254 (545)
Q Consensus       187 ~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g--~~~~A~~~f~~~~~---~~~~~~~~li~~~----~~~---g~~  254 (545)
                      ..++|......++... +.+..+|+.-...+...|  +++++++.++.+..   ++..+|+.--..+    ...   +++
T Consensus        48 ~s~~aL~~t~~~L~~n-P~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk~y~aW~~R~~iL~~~~~~l~~~~~~  126 (306)
T 3dra_A           48 YSERALHITELGINEL-ASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEKNYQIWNYRQLIIGQIMELNNNDFDP  126 (306)
T ss_dssp             CSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTTCCHHHHHHHHHHHHHHHHTTTCCCT
T ss_pred             CCHHHHHHHHHHHHHC-cHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcccHHHHHHHHHHHHHHHHhccccCCH
Confidence            3467888888888765 445667888888888888  99999999998874   4667788776666    555   789


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHH--HHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCC------HH
Q 009066          255 EKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVD--LGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGK------LV  326 (545)
Q Consensus       255 ~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~--~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~------~~  326 (545)
                      ++++.+++++.+...+ |...|..-.-.+.+.|.++  ++.+.++.+.+.  -+.+...|+....++.+.|+      ++
T Consensus       127 ~~EL~~~~~~l~~~pk-ny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~--d~~N~sAW~~R~~ll~~l~~~~~~~~~~  203 (306)
T 3dra_A          127 YREFDILEAMLSSDPK-NHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDT--DLKNNSAWSHRFFLLFSKKHLATDNTID  203 (306)
T ss_dssp             HHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHSSGGGCCHHHHH
T ss_pred             HHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcccChHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhccccchhhhHH
Confidence            9999999999986433 6677777666777778877  999999999874  35567777777777777776      89


Q ss_pred             HHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHH-HHHHHHHHhcCC---CCCCchhHHHHHHHHHHcCCchHHHHHHH
Q 009066          327 EAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDL-AEFAAMNLFNLN---PANAAGCYVQLANIYAAMKKWDDVARIRL  400 (545)
Q Consensus       327 ~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~-A~~~~~~~~~~~---p~~~~~~~~~l~~~~~~~g~~~~a~~~~~  400 (545)
                      ++++.++++ ...| |...|+.+...+.+.|+... ....++++.+++   |.++. ++..++.+|.+.|+.++|.++++
T Consensus       204 eEl~~~~~aI~~~p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~-al~~la~~~~~~~~~~~A~~~~~  282 (306)
T 3dra_A          204 EELNYVKDKIVKCPQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSF-ALETLAKIYTQQKKYNESRTVYD  282 (306)
T ss_dssp             HHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHH-HHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHH-HHHHHHHHHHccCCHHHHHHHHH
Confidence            999998876 3334 78899999999998888554 556778887766   77766 89999999999999999999999


Q ss_pred             Hhhh
Q 009066          401 SMKE  404 (545)
Q Consensus       401 ~m~~  404 (545)
                      .+.+
T Consensus       283 ~l~~  286 (306)
T 3dra_A          283 LLKS  286 (306)
T ss_dssp             HHHH
T ss_pred             HHHh
Confidence            9875

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.72  E-value=4.3e-08  Score=82.33  Aligned_cols=97  Identities=9%  Similarity=-0.012  Sum_probs=86.2

Q ss_pred             CHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHH
Q 009066          308 KPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANI  385 (545)
Q Consensus       308 ~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~  385 (545)
                      +...+..+...+.+.|++++|...|++. ...| +...|..+..++...|++++|+..|+++++++|+++. +|..++.+
T Consensus        35 ~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~-~~~~lg~~  113 (151)
T 3gyz_A           35 MMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYDFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYT-PVFHTGQC  113 (151)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCH-HHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcH-HHHHHHHH
Confidence            3567778888899999999999999887 3345 6788999999999999999999999999999999998 99999999


Q ss_pred             HHHcCCchHHHHHHHHhhhC
Q 009066          386 YAAMKKWDDVARIRLSMKEN  405 (545)
Q Consensus       386 ~~~~g~~~~a~~~~~~m~~~  405 (545)
                      |...|++++|.+.|++..+.
T Consensus       114 ~~~lg~~~eA~~~~~~al~l  133 (151)
T 3gyz_A          114 QLRLKAPLKAKECFELVIQH  133 (151)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHh
Confidence            99999999999999998764

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.72  E-value=2.2e-07  Score=82.91  Aligned_cols=135  Identities=14%  Similarity=0.017  Sum_probs=82.9

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhccC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccC
Q 009066          211 TPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAG  287 (545)
Q Consensus       211 ~~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g  287 (545)
                      ..+...|.+.|++++|...|++..+   .+...|..+...|...|++++|+..|++.++.. +-+..++..+..++...|
T Consensus        58 ~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~  136 (208)
T 3urz_A           58 TELALAYKKNRNYDKAYLFYKELLQKAPNNVDCLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYLTA  136 (208)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHh
Confidence            3467777777888888877777653   356677777778888888888888888877743 224556666666655444


Q ss_pred             c--HHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCCCHhHHHHHHH
Q 009066          288 L--VDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQPAIFGTLLS  349 (545)
Q Consensus       288 ~--~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~li~  349 (545)
                      .  .+.+...+....   ...|....+..+...+...|++++|...|++. ...|+......+..
T Consensus       137 ~~~~~~~~~~~~~~~---~~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~P~~~~~~~l~~  198 (208)
T 3urz_A          137 EQEKKKLETDYKKLS---SPTKMQYARYRDGLSKLFTTRYEKARNSLQKVILRFPSTEAQKTLDK  198 (208)
T ss_dssp             HHHHHHHHHHHC------CCCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTTSCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHh---CCCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCHHHHHHHHH
Confidence            3  333444444332   22222333444555666678888888888776 56677655554443

>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=98.71  E-value=5.7e-08  Score=92.62  Aligned_cols=198  Identities=9%  Similarity=0.010  Sum_probs=148.6

Q ss_pred             ccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccCCChhhHHHHHHHHHHcCChHHHHHHHHH
Q 009066          184 HLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDK  263 (545)
Q Consensus       184 ~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  263 (545)
                      ..|++++|.+++++..+... ..         .+...+++++|...|++.           ...|...|++++|...|.+
T Consensus         3 ~~~~~~eA~~~~~~a~k~~~-~~---------~~~~~~~~~~A~~~~~~a-----------~~~~~~~g~~~~A~~~~~~   61 (307)
T 2ifu_A            3 AAQKISEAHEHIAKAEKYLK-TS---------FMKWKPDYDSAASEYAKA-----------AVAFKNAKQLEQAKDAYLQ   61 (307)
T ss_dssp             CHHHHHHHHHHHHHHHHHHC-CC---------SSSCSCCHHHHHHHHHHH-----------HHHHHHTTCHHHHHHHHHH
T ss_pred             ccchHHHHHHHHHHHHHHcc-cc---------ccCCCCCHHHHHHHHHHH-----------HHHHHHcCCHHHHHHHHHH
Confidence            35788899999988876421 11         011158899999888764           5678889999999999998


Q ss_pred             HHHc----CCCCC-HHHHHHHHHHHHccCcHHHHHHHHHHhHHhc---CCCC-CHHHHHHHHHHHhHcCCHHHHHHHHHh
Q 009066          264 MKDE----GMKPD-SITFVALLLACNHAGLVDLGIQYFDSMVNDY---GIAA-KPDHYTCMVDLLGRAGKLVEAVDLIKK  334 (545)
Q Consensus       264 m~~~----g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~---~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~  334 (545)
                      ..+.    +-.+. ..+|..+...|...|++++|...|++..+-+   +... ...++..+..+|.. |++++|+..|++
T Consensus        62 al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~  140 (307)
T 2ifu_A           62 EAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQ  140 (307)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHH
Confidence            8753    11111 3477888889999999999999998876532   1111 24678889999998 999999999987


Q ss_pred             C----CCCCC----HhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCc-----hhHHHHHHHHHHcCCchHHHHHHHH
Q 009066          335 M----PFKPQ----PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA-----GCYVQLANIYAAMKKWDDVARIRLS  401 (545)
Q Consensus       335 m----~~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~-----~~~~~l~~~~~~~g~~~~a~~~~~~  401 (545)
                      .    +...+    ..++..+...+...|++++|+..+++++++.|....     .++..++.++...|++++|...+++
T Consensus       141 Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~  220 (307)
T 2ifu_A          141 AAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRE  220 (307)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            6    11111    357888999999999999999999999987654321     1566777888888999999999998


Q ss_pred             hh
Q 009066          402 MK  403 (545)
Q Consensus       402 m~  403 (545)
                      ..
T Consensus       221 al  222 (307)
T 2ifu_A          221 SY  222 (307)
T ss_dssp             HT
T ss_pred             Hh
Confidence            86

>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=98.69  E-value=9.7e-07  Score=83.36  Aligned_cols=159  Identities=7%  Similarity=-0.006  Sum_probs=113.5

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHcC-CCCCHH----HHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCC----HHHHHH
Q 009066          244 MISGYAQHGKGEKALRLFDKMKDEG-MKPDSI----TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAK----PDHYTC  314 (545)
Q Consensus       244 li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~----t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~~  314 (545)
                      .+..+...|++++|..++++..... ..|+..    .+..+...+...|++++|...++...+...-.++    ...++.
T Consensus        81 ~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~  160 (293)
T 3u3w_A           81 QVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENA  160 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHH
Confidence            4566778888888888888877632 223321    2334556666777888888888887763221222    336888


Q ss_pred             HHHHHhHcCCHHHHHHHHHhC-------CCC-CC-HhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCC------CchhH
Q 009066          315 MVDLLGRAGKLVEAVDLIKKM-------PFK-PQ-PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPAN------AAGCY  379 (545)
Q Consensus       315 li~~~~~~g~~~~A~~~~~~m-------~~~-p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~------~~~~~  379 (545)
                      +...|...|++++|...|+++       +.. +. ..++..+...|...|++++|...+++++++.+..      .. +|
T Consensus       161 lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~-~~  239 (293)
T 3u3w_A          161 IANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQ-LY  239 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHH-HH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHH-HH
Confidence            888888999988888888766       111 11 2477888899999999999999999987754322      33 78


Q ss_pred             HHHHHHHHHcCC-chHHHHHHHHhh
Q 009066          380 VQLANIYAAMKK-WDDVARIRLSMK  403 (545)
Q Consensus       380 ~~l~~~~~~~g~-~~~a~~~~~~m~  403 (545)
                      ..++.+|.+.|+ +++|.+.+++..
T Consensus       240 ~~lg~~~~~~g~~~~~A~~~~~~Al  264 (293)
T 3u3w_A          240 YQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHH
Confidence            899999999995 599999888764

>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=98.68  E-value=6.7e-08  Score=81.06  Aligned_cols=97  Identities=9%  Similarity=-0.004  Sum_probs=83.6

Q ss_pred             CHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHH
Q 009066          308 KPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANI  385 (545)
Q Consensus       308 ~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~  385 (545)
                      +...+..+...+.+.|++++|...|++. ...| +...|..+..++...|++++|+..|+++++++|+++. ++..++.+
T Consensus        20 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~-~~~~lg~~   98 (148)
T 2vgx_A           20 TLEQLYSLAFNQYQSGXYEDAHXVFQALCVLDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIXEPR-FPFHAAEC   98 (148)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTH-HHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCch-HHHHHHHH
Confidence            4566777888889999999999998877 2334 6778888999999999999999999999999999988 89999999


Q ss_pred             HHHcCCchHHHHHHHHhhhC
Q 009066          386 YAAMKKWDDVARIRLSMKEN  405 (545)
Q Consensus       386 ~~~~g~~~~a~~~~~~m~~~  405 (545)
                      |...|++++|.+.++...+.
T Consensus        99 ~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           99 LLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHH
Confidence            99999999999999887653

>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=98.68  E-value=6.1e-07  Score=80.04  Aligned_cols=124  Identities=9%  Similarity=-0.021  Sum_probs=96.1

Q ss_pred             HHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHHHHhc
Q 009066          277 VALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFK-PQPAIFGTLLSACRVH  354 (545)
Q Consensus       277 ~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~-p~~~~~~~li~~~~~~  354 (545)
                      ..+...+...|++++|...|++..     .|+...+..+...|.+.|++++|.+.|++. ... .+...|..+...+...
T Consensus        10 ~~~g~~~~~~~~~~~A~~~~~~a~-----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~lg~~~~~~   84 (213)
T 1hh8_A           10 WNEGVLAADKKDWKGALDAFSAVQ-----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQT   84 (213)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHTSS-----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHc-----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHc
Confidence            344455666777777777776542     456677777777777788888887777766 222 3567788888888889


Q ss_pred             CCHHHHHHHHHHHhcCCCCCC----------------chhHHHHHHHHHHcCCchHHHHHHHHhhhCC
Q 009066          355 KRLDLAEFAAMNLFNLNPANA----------------AGCYVQLANIYAAMKKWDDVARIRLSMKENN  406 (545)
Q Consensus       355 g~~~~A~~~~~~~~~~~p~~~----------------~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  406 (545)
                      |++++|+..++++++..|.+.                . ++..++.+|...|++++|.+.++...+..
T Consensus        85 ~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~al~~~  151 (213)
T 1hh8_A           85 EKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACE-VLYNIAFMYAKKEEWKKAEEQLALATSMK  151 (213)
T ss_dssp             TCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHH-HHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             ccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchH-HHHHHHHHHHHccCHHHHHHHHHHHHHcC
Confidence            999999999999988888766                6 89999999999999999999999987654

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.66  E-value=4.6e-07  Score=85.57  Aligned_cols=165  Identities=7%  Similarity=-0.032  Sum_probs=118.4

Q ss_pred             hhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCH-----HHHHHHHHHHHccCcHHHHHHHHHHhHHhcC--CCCC--H
Q 009066          239 VTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDS-----ITFVALLLACNHAGLVDLGIQYFDSMVNDYG--IAAK--P  309 (545)
Q Consensus       239 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-----~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~--~~~~--~  309 (545)
                      ..+...+..+...|++++|++.+++..+.....+.     ..+..+...+...|++++|...++...+...  ..+.  .
T Consensus        76 ~~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~  155 (293)
T 2qfc_A           76 KQFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNL  155 (293)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHH
Confidence            34555677788889999999988887764322111     1233445566778899999999888764211  1111  4


Q ss_pred             HHHHHHHHHHhHcCCHHHHHHHHHhC----CCCCC-----HhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCC-----CC
Q 009066          310 DHYTCMVDLLGRAGKLVEAVDLIKKM----PFKPQ-----PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPA-----NA  375 (545)
Q Consensus       310 ~~~~~li~~~~~~g~~~~A~~~~~~m----~~~p~-----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~-----~~  375 (545)
                      .+|+.+...|...|++++|...|++.    ...|+     ..++..+...|...|++++|...+++++++.++     ..
T Consensus       156 ~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~  235 (293)
T 2qfc_A          156 YIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALI  235 (293)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHH
Confidence            57888999999999999999888765    11122     257888999999999999999999998765432     11


Q ss_pred             chhHHHHHHHHHHcCCchHH-HHHHHHhh
Q 009066          376 AGCYVQLANIYAAMKKWDDV-ARIRLSMK  403 (545)
Q Consensus       376 ~~~~~~l~~~~~~~g~~~~a-~~~~~~m~  403 (545)
                      ..+|..++.+|.+.|++++| ...+++..
T Consensus       236 ~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al  264 (293)
T 2qfc_A          236 GQLYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence            22788999999999999999 77677654

>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=98.65  E-value=1.2e-06  Score=78.42  Aligned_cols=158  Identities=13%  Similarity=-0.040  Sum_probs=91.2

Q ss_pred             ccHHHHHHHHHhcCCHHHHHHHHHhccC-CChhhHHHHHHHHHHcC----ChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 009066          208 TALTPLISMYCKCGDLEDACKLFLEIQR-KDVVTWNAMISGYAQHG----KGEKALRLFDKMKDEGMKPDSITFVALLLA  282 (545)
Q Consensus       208 ~~~~~li~~y~~~g~~~~A~~~f~~~~~-~~~~~~~~li~~~~~~g----~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a  282 (545)
                      ..+..|..+|...+++++|.+.|++..+ .+..++..+...|.. +    ++++|+..|++..+.|   +...+..|...
T Consensus        19 ~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~~g---~~~a~~~Lg~~   94 (212)
T 3rjv_A           19 RAQYYLADTWVSSGDYQKAEYWAQKAAAQGDGDALALLAQLKIR-NPQQADYPQARQLAEKAVEAG---SKSGEIVLARV   94 (212)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHHTT---CHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHH
Confidence            3444455555555555555555555443 244455555555554 4    5666666666665543   34455555555


Q ss_pred             HHc----cCcHHHHHHHHHHhHHhcCCCCC---HHHHHHHHHHHhH----cCCHHHHHHHHHhC-CCCCCHhHHHHHHHH
Q 009066          283 CNH----AGLVDLGIQYFDSMVNDYGIAAK---PDHYTCMVDLLGR----AGKLVEAVDLIKKM-PFKPQPAIFGTLLSA  350 (545)
Q Consensus       283 ~~~----~g~~~~a~~~~~~~~~~~~~~~~---~~~~~~li~~~~~----~g~~~~A~~~~~~m-~~~p~~~~~~~li~~  350 (545)
                      +..    .+++++|.++|++..+.   .|+   +..+..|..+|..    .+++++|...|++. ...++...+..|...
T Consensus        95 y~~g~g~~~d~~~A~~~~~~A~~~---~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~a~~~Lg~~  171 (212)
T 3rjv_A           95 LVNRQAGATDVAHAITLLQDAARD---SESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSLSRTGYAEYWAGMM  171 (212)
T ss_dssp             HTCGGGSSCCHHHHHHHHHHHTSS---TTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHTSCTTHHHHHHHHH
T ss_pred             HHcCCCCccCHHHHHHHHHHHHHc---CCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHcCCCHHHHHHHHHH
Confidence            554    56677777777666542   232   5666667777766    66777777777766 222445556666666


Q ss_pred             HHhc-C-----CHHHHHHHHHHHhcCCC
Q 009066          351 CRVH-K-----RLDLAEFAAMNLFNLNP  372 (545)
Q Consensus       351 ~~~~-g-----~~~~A~~~~~~~~~~~p  372 (545)
                      |... |     +.++|...|++..+.+.
T Consensus       172 y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          172 FQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             HHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             HHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            6542 2     77777777777766544

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.61  E-value=4.2e-07  Score=73.74  Aligned_cols=107  Identities=10%  Similarity=0.012  Sum_probs=71.3

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHH
Q 009066          275 TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACR  352 (545)
Q Consensus       275 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~  352 (545)
                      .+......+.+.|++++|++.|++.++.  .+.+...|..+..+|.+.|++++|+..|++. .+.| +...|..+..++.
T Consensus        15 ~~~~~G~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~   92 (126)
T 4gco_A           15 EEKNKGNEYFKKGDYPTAMRHYNEAVKR--DPENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYIRKAACLV   92 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHHHHHHHHH
Confidence            4445556666677777777777666552  2445666667777777777777777777665 2233 4567777777777


Q ss_pred             hcCCHHHHHHHHHHHhcCCCCCCchhHHHHHH
Q 009066          353 VHKRLDLAEFAAMNLFNLNPANAAGCYVQLAN  384 (545)
Q Consensus       353 ~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~  384 (545)
                      ..|++++|+..|+++++++|++.. ++..|.+
T Consensus        93 ~~~~~~~A~~~~~~al~l~P~~~~-a~~~l~~  123 (126)
T 4gco_A           93 AMREWSKAQRAYEDALQVDPSNEE-AREGVRN  123 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTTCHH-HHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHHCcCCHH-HHHHHHH
Confidence            788888888888888888887765 5555544

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.61  E-value=1.3e-06  Score=88.85  Aligned_cols=353  Identities=8%  Similarity=-0.035  Sum_probs=205.6

Q ss_pred             hHHHHHHHccCCCCChhhHHHHHHHHHcCCCCHHHHHHHHhcCC--CCCeehHHHHHHHHHhCCC-HHHHHHHHhhCC--
Q 009066           23 LKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQRLP--IKDTASWNTMISGFVQKKN-MAKARDLFLAMP--   97 (545)
Q Consensus        23 ~~~A~~~f~~~~~~~~~~~~~li~~~~~~~g~~~~A~~~~~~m~--~~d~~~~~~li~~~~~~g~-~~~a~~~~~~~~--   97 (545)
                      ++.|+.+|+.+           +..+ -. |+.+.+..+|++..  .|++..|..-+....+.++ .+....+|+...  
T Consensus        11 i~~aR~vyer~-----------l~~~-P~-~~~e~~~~iferal~~~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~   77 (493)
T 2uy1_A           11 LSSPSAIMEHA-----------RRLY-MS-KDYRSLESLFGRCLKKSYNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQ   77 (493)
T ss_dssp             -CCHHHHHHHH-----------HHHH-HT-TCHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHC----CTHHHHHHHHHH
T ss_pred             hHHHHHHHHHH-----------HHHC-CC-CCHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHH
Confidence            66677776653           2222 22 78999999999877  5788889888887766653 344566666544  


Q ss_pred             ----cCCHhHHHHHHHHHH----HcCChHHHHHHHhhCCCCCcccHHHHHHHhcchhh------------hccCChHHHH
Q 009066           98 ----EKNSVSWSAMISGYI----ECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGY------------VENSWAEDGL  157 (545)
Q Consensus        98 ----~~~~~~~~~li~~~~----~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~------------~~~g~~~~A~  157 (545)
                          ..+...|...+..+.    ..|+++.++++|++...-....+..+-..|.....            ...+.+..|.
T Consensus        78 vg~d~~s~~iW~~Yi~f~~~~~~~~~~~~~vR~iy~rAL~~P~~~~~~lw~~Y~~fE~~~~~~~~~~~~~~~~~~y~~ar  157 (493)
T 2uy1_A           78 FENYWDSYGLYKEYIEEEGKIEDEQTRIEKIRNGYMRALQTPMGSLSELWKDFENFELELNKITGKKIVGDTLPIFQSSF  157 (493)
T ss_dssp             STTCTTCHHHHHHHHHHTSSCSSHHHHHHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHH
T ss_pred             cCCCcccHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHHhChhhhHHHHHHHHHHHHHHhccccHHHHHHHHhHHHHHHH
Confidence                235677888777654    34678889999987643211112222222211000            0011222334


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHhcc--C-----cHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHH
Q 009066          158 KLLRMMIGLGIRPNASSLSSVLLGCSHL--S-----SLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLF  230 (545)
Q Consensus       158 ~~~~~m~~~~~~pd~~t~~~ll~~~~~~--~-----~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f  230 (545)
                      .+++.+...--..+...|...+.--...  +     ..+.+..+|++++... +.+..+|...+..+.+.|+.+.|..+|
T Consensus       158 ~~y~~~~~~~~~~s~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al~~~-p~~~~lW~~ya~~~~~~~~~~~ar~i~  236 (493)
T 2uy1_A          158 QRYQQIQPLIRGWSVKNAARLIDLEMENGMKLGGRPHESRMHFIHNYILDSF-YYAEEVYFFYSEYLIGIGQKEKAKKVV  236 (493)
T ss_dssp             HHHHHHHHHHHTCSHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHhhccHHHHHHHHHHHhcCCccCcchhhHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            4444433210001223444433332211  1     1345677888888753 455777888888888899999999999


Q ss_pred             HhccC-C-ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcC---------CCC---CHHHHHHHHHHHHccCcHHHHHHHH
Q 009066          231 LEIQR-K-DVVTWNAMISGYAQHGKGEKALRLFDKMKDEG---------MKP---DSITFVALLLACNHAGLVDLGIQYF  296 (545)
Q Consensus       231 ~~~~~-~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g---------~~p---~~~t~~~ll~a~~~~g~~~~a~~~~  296 (545)
                      ++... | +...|.    .|+...+.++.   ++.+.+.-         ..+   ....|...+....+.+.++.|+.+|
T Consensus       237 erAi~~P~~~~l~~----~y~~~~e~~~~---~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~  309 (493)
T 2uy1_A          237 ERGIEMSDGMFLSL----YYGLVMDEEAV---YGDLKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLF  309 (493)
T ss_dssp             HHHHHHCCSSHHHH----HHHHHTTCTHH---HHHHHHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             HHHHhCCCcHHHHH----HHHhhcchhHH---HHHHHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            87653 2 222232    23332222222   23322210         011   1234555666666677899999999


Q ss_pred             HHhHHhcCCCCCHHHHHHHHHHHhHcC-CHHHHHHHHHhC--CCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCC
Q 009066          297 DSMVNDYGIAAKPDHYTCMVDLLGRAG-KLVEAVDLIKKM--PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPA  373 (545)
Q Consensus       297 ~~~~~~~~~~~~~~~~~~li~~~~~~g-~~~~A~~~~~~m--~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~  373 (545)
                      +.. +..  ..+...|...+.+-.+.| +.+.|..+|+..  ....+...|...+.-....|+.+.|..+|+++.    .
T Consensus       310 ~~A-~~~--~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~~~~~~~~~~yid~e~~~~~~~~aR~l~er~~----k  382 (493)
T 2uy1_A          310 IEL-GNE--GVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKHPDSTLLKEEFFLFLLRIGDEENARALFKRLE----K  382 (493)
T ss_dssp             HHH-TTS--CCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHSC----C
T ss_pred             HHh-hCC--CCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH----H
Confidence            888 421  234455554444444444 699999999876  221234567777777788899999999999983    2


Q ss_pred             CCchhHHHHHHHHHHcCCchHHHHHHHHhhh
Q 009066          374 NAAGCYVQLANIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       374 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  404 (545)
                      ... .+...+..-...|+.+.+.++++++.+
T Consensus       383 ~~~-lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          383 TSR-MWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             BHH-HHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHH-HHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            233 677777777888999999988877764

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.60  E-value=5.9e-07  Score=71.96  Aligned_cols=114  Identities=18%  Similarity=0.151  Sum_probs=77.8

Q ss_pred             HHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CC-CCCHhHHHHHHHHH
Q 009066          274 ITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PF-KPQPAIFGTLLSAC  351 (545)
Q Consensus       274 ~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~-~p~~~~~~~li~~~  351 (545)
                      ..+..+...+...|++++|.+.++.+.+.  .+.+...+..+...|.+.|++++|..+++++ .. ..+..+|..+...+
T Consensus        10 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~   87 (125)
T 1na0_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALEL--DPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAY   87 (125)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHH
Confidence            44555555666666666666666666543  2334566666777777777777777777665 11 23566777888888


Q ss_pred             HhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcC
Q 009066          352 RVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMK  390 (545)
Q Consensus       352 ~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g  390 (545)
                      ...|++++|...++++++..|++.. .+..+..++...|
T Consensus        88 ~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g  125 (125)
T 1na0_A           88 YKQGDYDEAIEYYQKALELDPNNAE-AKQNLGNAKQKQG  125 (125)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHHHC
T ss_pred             HHhcCHHHHHHHHHHHHHhCCCcHH-HHHHHHHHHHhcc
Confidence            8888888888888888888888776 7777777765543

>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=98.59  E-value=6.7e-07  Score=76.00  Aligned_cols=126  Identities=7%  Similarity=-0.038  Sum_probs=90.7

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHH
Q 009066          275 TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACR  352 (545)
Q Consensus       275 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~  352 (545)
                      .+..+...+...|++++|...++...+.  .+.+...+..+...|...|++++|...+++. ...| +...|..+...+.
T Consensus        15 ~~~~~a~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~   92 (166)
T 1a17_A           15 ELKTQANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNM   92 (166)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            3444555666667777777777666553  2335666777777777777777777777765 2223 5677888888888


Q ss_pred             hcCCHHHHHHHHHHHhcCCCCCCchhHHHH--HHHHHHcCCchHHHHHHHHhh
Q 009066          353 VHKRLDLAEFAAMNLFNLNPANAAGCYVQL--ANIYAAMKKWDDVARIRLSMK  403 (545)
Q Consensus       353 ~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l--~~~~~~~g~~~~a~~~~~~m~  403 (545)
                      ..|++++|...++++++..|++.. .+..+  +..+...|++++|.+.++...
T Consensus        93 ~~~~~~~A~~~~~~a~~~~p~~~~-~~~~~~~~~~~~~~~~~~~A~~~~~~~~  144 (166)
T 1a17_A           93 ALGKFRAALRDYETVVKVKPHDKD-AKMKYQECNKIVKQKAFERAIAGDEHKR  144 (166)
T ss_dssp             HTTCHHHHHHHHHHHHHHSTTCHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhccHHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHHHHHHHHHHHHHcccchH
Confidence            999999999999999999998876 66444  444778899999999887664

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.58  E-value=4.7e-07  Score=75.16  Aligned_cols=97  Identities=10%  Similarity=-0.049  Sum_probs=82.7

Q ss_pred             CHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHH
Q 009066          308 KPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANI  385 (545)
Q Consensus       308 ~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~  385 (545)
                      +...+..+...+.+.|++++|...|++. ...| +...|..+..++...|++++|+..|+++++++|+++. .+..++.+
T Consensus        17 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~-~~~~lg~~   95 (142)
T 2xcb_A           17 TLEQLYALGFNQYQAGKWDDAQKIFQALCMLDHYDARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPR-FPFHAAEC   95 (142)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTH-HHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcH-HHHHHHHH
Confidence            3456667788888899999999998877 2334 6678888999999999999999999999999999988 89999999


Q ss_pred             HHHcCCchHHHHHHHHhhhC
Q 009066          386 YAAMKKWDDVARIRLSMKEN  405 (545)
Q Consensus       386 ~~~~g~~~~a~~~~~~m~~~  405 (545)
                      |...|++++|.+.++...+.
T Consensus        96 ~~~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           96 HLQLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHh
Confidence            99999999999999887653

>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=98.57  E-value=1.3e-07  Score=88.80  Aligned_cols=188  Identities=12%  Similarity=-0.023  Sum_probs=102.7

Q ss_pred             cHHHHHHHHHhcCCHHHHHHHHHhccC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHc
Q 009066          209 ALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNH  285 (545)
Q Consensus       209 ~~~~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~  285 (545)
                      .+..+...|.+.|++++|...|++..+   .+...|..+...|.+.|++++|+..+++..+.. +.+...+..+..++..
T Consensus         6 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~   84 (281)
T 2c2l_A            6 ELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQCQLE   84 (281)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH
Confidence            344455556666666666666665542   245566666666666666666666666665532 1234455555666666


Q ss_pred             cCcHHHHHHHHHHhHHhcCCCCCH-HHHHHHHHHHhHcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHHhcCCHHHHHHHH
Q 009066          286 AGLVDLGIQYFDSMVNDYGIAAKP-DHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAA  364 (545)
Q Consensus       286 ~g~~~~a~~~~~~~~~~~~~~~~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~li~~~~~~g~~~~A~~~~  364 (545)
                      .|++++|...|+...+.   .|+. ..+...+....+..+...... .......++......+.. + ..|+.++|...+
T Consensus        85 ~g~~~~A~~~~~~al~l---~p~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~i~~~l~~-l-~~~~~~~A~~~~  158 (281)
T 2c2l_A           85 MESYDEAIANLQRAYSL---AKEQRLNFGDDIPSALRIAKKKRWNS-IEERRIHQESELHSYLTR-L-IAAERERELEEC  158 (281)
T ss_dssp             TTCHHHHHHHHHHHHHH---HHHTTCCCCSHHHHHHHHHHHHHHHH-HHHTCCCCCCHHHHHHHH-H-HHHHHHHHHTTT
T ss_pred             cCCHHHHHHHHHHHHHh---CccchhhHHHHHHHHHHHHHHHHHHH-HHHHHHhhhHHHHHHHHH-H-HHHHHHHHHHHH
Confidence            66666666666655442   1110 001111111111111111111 112222234444333322 2 268888899889


Q ss_pred             HHHhcCCCCCCchhHHHHHHHHHHc-CCchHHHHHHHHhhh
Q 009066          365 MNLFNLNPANAAGCYVQLANIYAAM-KKWDDVARIRLSMKE  404 (545)
Q Consensus       365 ~~~~~~~p~~~~~~~~~l~~~~~~~-g~~~~a~~~~~~m~~  404 (545)
                      +++++.+|++.. ....+...+.+. +.++++.++|....+
T Consensus       159 ~~al~~~p~~~~-~~~~l~~~~~~~~~~~~~a~~~f~~a~~  198 (281)
T 2c2l_A          159 QRNHEGHEDDGH-IRAQQACIEAKHDKYMADMDELFSQVDE  198 (281)
T ss_dssp             SGGGTTTSCHHH-HTHHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             Hhhhccccchhh-hhhHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            888888887765 556666666665 678889998887765

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.57  E-value=6.8e-07  Score=72.29  Aligned_cols=117  Identities=10%  Similarity=0.054  Sum_probs=85.0

Q ss_pred             HHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHH
Q 009066          274 ITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSAC  351 (545)
Q Consensus       274 ~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~  351 (545)
                      ..+..+...+...|++++|...++...+.  .+.+...+..+...|...|++++|.+.+++. ...| +...|..+...+
T Consensus        13 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   90 (131)
T 2vyi_A           13 ERLKTEGNEQMKVENFEAAVHFYGKAIEL--NPANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGLAL   90 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHHHH
Confidence            34555556666677777777777766653  2345666777777777777777777777665 2223 466788888888


Q ss_pred             HhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCch
Q 009066          352 RVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWD  393 (545)
Q Consensus       352 ~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~  393 (545)
                      ...|++++|...++++++..|++.. .+..++.++...|+++
T Consensus        91 ~~~~~~~~A~~~~~~~~~~~p~~~~-~~~~l~~~~~~~~~~~  131 (131)
T 2vyi_A           91 SSLNKHVEAVAYYKKALELDPDNET-YKSNLKIAELKLREAP  131 (131)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSTTCHH-HHHHHHHHHHHHTTCC
T ss_pred             HHhCCHHHHHHHHHHHHhcCccchH-HHHHHHHHHHHHhcCC
Confidence            8889999999999999888888876 8888888888887653

>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=98.56  E-value=9.1e-06  Score=76.58  Aligned_cols=157  Identities=11%  Similarity=0.012  Sum_probs=117.1

Q ss_pred             HHHHHHhcCCHHHHHHHHHhccCCC---------hhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCC-CC----HHHHHH
Q 009066          213 LISMYCKCGDLEDACKLFLEIQRKD---------VVTWNAMISGYAQHGKGEKALRLFDKMKDEGMK-PD----SITFVA  278 (545)
Q Consensus       213 li~~y~~~g~~~~A~~~f~~~~~~~---------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~----~~t~~~  278 (545)
                      .+..+...|++++|...+++..+..         ...+..+...+...|++++|+..|++....... ++    ..+++.
T Consensus        81 ~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~  160 (293)
T 3u3w_A           81 QVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENA  160 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHH
Confidence            4677888999999999998876421         113334666677778999999999999874322 22    236888


Q ss_pred             HHHHHHccCcHHHHHHHHHHhHHhc----CCCCC-HHHHHHHHHHHhHcCCHHHHHHHHHhC-------CCCCC-HhHHH
Q 009066          279 LLLACNHAGLVDLGIQYFDSMVNDY----GIAAK-PDHYTCMVDLLGRAGKLVEAVDLIKKM-------PFKPQ-PAIFG  345 (545)
Q Consensus       279 ll~a~~~~g~~~~a~~~~~~~~~~~----~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~m-------~~~p~-~~~~~  345 (545)
                      +..+|...|++++|...|+++.+..    +..+. ..++..+...|.+.|++++|.+.+++.       +..+. ..+|.
T Consensus       161 lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~  240 (293)
T 3u3w_A          161 IANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYY  240 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHH
Confidence            8889999999999999998887421    11222 347888999999999999999998866       11222 46788


Q ss_pred             HHHHHHHhcCC-HHHHHHHHHHHhc
Q 009066          346 TLLSACRVHKR-LDLAEFAAMNLFN  369 (545)
Q Consensus       346 ~li~~~~~~g~-~~~A~~~~~~~~~  369 (545)
                      .+...+...|+ +++|...+++++.
T Consensus       241 ~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          241 QRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            89999999994 6999999988764

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.56  E-value=4.6e-07  Score=73.48  Aligned_cols=100  Identities=12%  Similarity=0.115  Sum_probs=89.1

Q ss_pred             CCCC-HHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHH
Q 009066          305 IAAK-PDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQ  381 (545)
Q Consensus       305 ~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~  381 (545)
                      +.|+ ...+..+...|.+.|++++|++.|++. ...| +...|..+..++...|++++|+..++++++++|++.. +|..
T Consensus         8 inP~~a~~~~~~G~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~-a~~~   86 (126)
T 4gco_A            8 INPELAQEEKNKGNEYFKKGDYPTAMRHYNEAVKRDPENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIK-GYIR   86 (126)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH-HHHH
T ss_pred             HCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhH-HHHH
Confidence            3444 467788899999999999999999987 3344 6789999999999999999999999999999999988 9999


Q ss_pred             HHHHHHHcCCchHHHHHHHHhhhC
Q 009066          382 LANIYAAMKKWDDVARIRLSMKEN  405 (545)
Q Consensus       382 l~~~~~~~g~~~~a~~~~~~m~~~  405 (545)
                      ++.+|...|++++|.+.|++..+.
T Consensus        87 lg~~~~~~~~~~~A~~~~~~al~l  110 (126)
T 4gco_A           87 KAACLVAMREWSKAQRAYEDALQV  110 (126)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHH
Confidence            999999999999999999988763

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.55  E-value=7.9e-07  Score=72.29  Aligned_cols=115  Identities=9%  Similarity=0.014  Sum_probs=72.2

Q ss_pred             HHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHH
Q 009066          274 ITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSAC  351 (545)
Q Consensus       274 ~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~  351 (545)
                      ..+..+...+...|++++|...++...+.  .+.+...+..+...|...|++++|.+.+++. ...| +...|..+...+
T Consensus        17 ~~~~~~~~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~   94 (133)
T 2lni_A           17 LMVKNKGNECFQKGDYPQAMKHYTEAIKR--NPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAAAL   94 (133)
T ss_dssp             HHHHHHHHHHHHTTCSHHHHHHHHHHHTT--CTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHHHH
Confidence            34444455555555555555555555431  1234555556666666666666666666554 1122 456777777778


Q ss_pred             HhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCC
Q 009066          352 RVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKK  391 (545)
Q Consensus       352 ~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~  391 (545)
                      ...|++++|...++++++.+|.+.. .+..+..++...|+
T Consensus        95 ~~~~~~~~A~~~~~~~~~~~p~~~~-~~~~l~~~~~~~~~  133 (133)
T 2lni_A           95 EAMKDYTKAMDVYQKALDLDSSCKE-AADGYQRCMMAQYN  133 (133)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCGGGTH-HHHHHHHHHHHHTC
T ss_pred             HHHhhHHHHHHHHHHHHHhCCCchH-HHHHHHHHHHHhcC
Confidence            8888888888888888888887766 77777777766553

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.51  E-value=3.1e-06  Score=79.86  Aligned_cols=160  Identities=10%  Similarity=-0.004  Sum_probs=111.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhccC--C-Ch------hhHHHHHHHHHHcCChHHHHHHHHHHHHcCC---CCC--HHH
Q 009066          210 LTPLISMYCKCGDLEDACKLFLEIQR--K-DV------VTWNAMISGYAQHGKGEKALRLFDKMKDEGM---KPD--SIT  275 (545)
Q Consensus       210 ~~~li~~y~~~g~~~~A~~~f~~~~~--~-~~------~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~---~p~--~~t  275 (545)
                      +...+..+...|++++|.+.+++..+  + ..      ..+..+...+...|++++|+..|++......   .+.  ..+
T Consensus        78 l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~  157 (293)
T 2qfc_A           78 FKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYI  157 (293)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHHH
Confidence            34456677888888888888876543  1 11      2234455566777899999999988875321   112  347


Q ss_pred             HHHHHHHHHccCcHHHHHHHHHHhHH---hcCCCC--CHHHHHHHHHHHhHcCCHHHHHHHHHhC-------CCCC-CHh
Q 009066          276 FVALLLACNHAGLVDLGIQYFDSMVN---DYGIAA--KPDHYTCMVDLLGRAGKLVEAVDLIKKM-------PFKP-QPA  342 (545)
Q Consensus       276 ~~~ll~a~~~~g~~~~a~~~~~~~~~---~~~~~~--~~~~~~~li~~~~~~g~~~~A~~~~~~m-------~~~p-~~~  342 (545)
                      ++.+...|...|++++|...+++..+   .....+  ...++..+...|.+.|++++|...+++.       +... -..
T Consensus       158 ~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~~  237 (293)
T 2qfc_A          158 ENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQ  237 (293)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHHH
Confidence            77888888889999999999888763   211111  1257888888999999999999888765       1111 146


Q ss_pred             HHHHHHHHHHhcCCHHHH-HHHHHHHhc
Q 009066          343 IFGTLLSACRVHKRLDLA-EFAAMNLFN  369 (545)
Q Consensus       343 ~~~~li~~~~~~g~~~~A-~~~~~~~~~  369 (545)
                      +|..+...|...|++++| ...+++++.
T Consensus       238 ~~~~lg~~y~~~g~~~~Ai~~~~~~Al~  265 (293)
T 2qfc_A          238 LYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCcHHHHHHHHHHHHH
Confidence            788888899999999999 776777654

>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=98.47  E-value=1.9e-06  Score=74.41  Aligned_cols=117  Identities=4%  Similarity=0.062  Sum_probs=63.7

Q ss_pred             cCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHH-HHhcCCH--HHH
Q 009066          286 AGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSA-CRVHKRL--DLA  360 (545)
Q Consensus       286 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~-~~~~g~~--~~A  360 (545)
                      .|++++|...++...+.  .+.+...+..+...|...|++++|...|++. ...| +...|..+... +...|++  ++|
T Consensus        23 ~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~l~~~~~~~~~~~A  100 (177)
T 2e2e_A           23 QQNPEAQLQALQDKIRA--NPQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGENAELYAALATVLYYQASQHMTAQT  100 (177)
T ss_dssp             ----CCCCHHHHHHHHH--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCCCHHH
T ss_pred             ccCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCcchHHH
Confidence            34455555555544432  1334455555555555555555555555554 1112 34455555555 5556665  666


Q ss_pred             HHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhhC
Q 009066          361 EFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKEN  405 (545)
Q Consensus       361 ~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  405 (545)
                      ...++++++.+|++.. ++..++.+|...|++++|...+++..+.
T Consensus       101 ~~~~~~al~~~p~~~~-~~~~la~~~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A          101 RAMIDKALALDSNEIT-ALMLLASDAFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             HHHHHHHHHHCTTCHH-HHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhCCCcHH-HHHHHHHHHHHcccHHHHHHHHHHHHhh
Confidence            6666666666666655 6666666666666666666666665543

>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=98.47  E-value=1.1e-06  Score=84.65  Aligned_cols=160  Identities=15%  Similarity=0.058  Sum_probs=111.2

Q ss_pred             CCHHHHHHHHHhccC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHH
Q 009066          221 GDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFD  297 (545)
Q Consensus       221 g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~  297 (545)
                      +++++|...|+...+   .+...|..+...|.+.|++++|+..|++..........  +           ..+.+.+.- 
T Consensus       127 ~~~~~A~~~~~~a~~~~p~~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~--~-----------~~~~~~~~~-  192 (336)
T 1p5q_A          127 KSFEKAKESWEMNSEEKLEQSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESS--F-----------SNEEAQKAQ-  192 (336)
T ss_dssp             EEEECCCCGGGCCHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCC--C-----------CSHHHHHHH-
T ss_pred             eecccccchhcCCHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhcccc--C-----------ChHHHHHHH-
Confidence            334444444443332   24456777777777777777777777777764322110  0           001111100 


Q ss_pred             HhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCC
Q 009066          298 SMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANA  375 (545)
Q Consensus       298 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~  375 (545)
                              +.....|..+..+|.+.|++++|+..+++. ...| +...|..+..+|...|++++|+..|+++++++|++.
T Consensus       193 --------~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~  264 (336)
T 1p5q_A          193 --------ALRLASHLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNK  264 (336)
T ss_dssp             --------HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCH
T ss_pred             --------HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCH
Confidence                    111467788888888899999998888877 3334 677899999999999999999999999999999998


Q ss_pred             chhHHHHHHHHHHcCCchHH-HHHHHHhh
Q 009066          376 AGCYVQLANIYAAMKKWDDV-ARIRLSMK  403 (545)
Q Consensus       376 ~~~~~~l~~~~~~~g~~~~a-~~~~~~m~  403 (545)
                      . ++..+..++...|+++++ .+.++.|.
T Consensus       265 ~-a~~~l~~~~~~~~~~~~a~~~~~~~~~  292 (336)
T 1p5q_A          265 A-AKTQLAVCQQRIRRQLAREKKLYANMF  292 (336)
T ss_dssp             H-HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             H-HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            8 999999999999999998 44666654

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.45  E-value=7.7e-07  Score=81.97  Aligned_cols=128  Identities=13%  Similarity=-0.057  Sum_probs=82.0

Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCC--HHHHHHHHHHH
Q 009066          242 NAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAK--PDHYTCMVDLL  319 (545)
Q Consensus       242 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~--~~~~~~li~~~  319 (545)
                      -.....+...|++++|.++|+.+...  .|+......+...+.+.+++++|+..|+...+. . .|.  ...+..+..++
T Consensus       106 LayA~~L~~~g~y~eA~~~l~~~~~~--~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~-~-d~~~~~~a~~~LG~al  181 (282)
T 4f3v_A          106 MGFAACEAAQGNYADAMEALEAAPVA--GSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKW-P-DKFLAGAAGVAHGVAA  181 (282)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHTSSCCT--TCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGC-S-CHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHcCCHHHHHHHHHHhhcc-C-CcccHHHHHHHHHHHH
Confidence            34556666777777777777766553  344434444445667777777777777644321 0 111  23566677777


Q ss_pred             hHcCCHHHHHHHHHhC---CCCCC--HhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCC
Q 009066          320 GRAGKLVEAVDLIKKM---PFKPQ--PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPA  373 (545)
Q Consensus       320 ~~~g~~~~A~~~~~~m---~~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~  373 (545)
                      .+.|++++|++.|++.   +..|.  ...+..+..++...|+.++|...|+++...+|+
T Consensus       182 ~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P~  240 (282)
T 4f3v_A          182 ANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHPE  240 (282)
T ss_dssp             HHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSCC
T ss_pred             HHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc
Confidence            7788888888777766   21132  235666677777888888888888888888887

>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=98.45  E-value=8.2e-05  Score=70.78  Aligned_cols=172  Identities=9%  Similarity=0.030  Sum_probs=107.6

Q ss_pred             hccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccC-cHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhc-C-CHH
Q 009066          148 VENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLS-SLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKC-G-DLE  224 (545)
Q Consensus       148 ~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~-~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~-g-~~~  224 (545)
                      ...+..++|++++.+++..+ +-+...|+.--.++...+ .++++..++..+++.. +.+..+|+.-...+.+. + +++
T Consensus        65 ~~~e~se~AL~lt~~~L~~n-P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL~~l~~~~~~  142 (349)
T 3q7a_A           65 AKEEKSERALELTEIIVRMN-PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLLDRISPQDPV  142 (349)
T ss_dssp             HTTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHHHCCSCCH
T ss_pred             HhCCCCHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhcCCChH
Confidence            44556678888888888753 224445666666666666 4788888888887765 44566666666666665 6 777


Q ss_pred             HHHHHHHhccCC---ChhhHHHHHHHHHHcCChH--------HHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCc-----
Q 009066          225 DACKLFLEIQRK---DVVTWNAMISGYAQHGKGE--------KALRLFDKMKDEGMKPDSITFVALLLACNHAGL-----  288 (545)
Q Consensus       225 ~A~~~f~~~~~~---~~~~~~~li~~~~~~g~~~--------~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~-----  288 (545)
                      ++.++++++.+.   |..+|+--...+.+.|.++        ++++.++++.+..+. |...|+.....+.+.+.     
T Consensus       143 ~EL~~~~k~L~~dpkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp~-N~SAW~~R~~lL~~l~~~~~~~  221 (349)
T 3q7a_A          143 SEIEYIHGSLLPDPKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDGR-NNSAWGWRWYLRVSRPGAETSS  221 (349)
T ss_dssp             HHHHHHHHHTSSCTTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHTTSTTCCCCH
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccccccch
Confidence            888888887753   5566666555555555555        777777777775433 55566655555555554     


Q ss_pred             --HHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCC
Q 009066          289 --VDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGK  324 (545)
Q Consensus       289 --~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  324 (545)
                        ++++.+.+++.+..  .+-|...|+-+-..+.+.|+
T Consensus       222 ~~~~eELe~~~~aI~~--~P~n~SaW~Ylr~Ll~~~~~  257 (349)
T 3q7a_A          222 RSLQDELIYILKSIHL--IPHNVSAWNYLRGFLKHFSL  257 (349)
T ss_dssp             HHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhcCC
Confidence              56666666665542  24445555555555555444

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.45  E-value=1.8e-06  Score=76.14  Aligned_cols=150  Identities=14%  Similarity=0.016  Sum_probs=71.1

Q ss_pred             hcCCHHHHHH---HHHhccCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHHccCcHH
Q 009066          219 KCGDLEDACK---LFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDE----GMKP-DSITFVALLLACNHAGLVD  290 (545)
Q Consensus       219 ~~g~~~~A~~---~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p-~~~t~~~ll~a~~~~g~~~  290 (545)
                      ..|++++|.+   .+..-+.....+++.+...|...|++++|+..+++....    +..| ...++..+...+...|+++
T Consensus         4 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~   83 (203)
T 3gw4_A            4 EAHDYALAERQAQALLAHPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNWD   83 (203)
T ss_dssp             ---CHHHHHHHHHHHHTSTTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             ccccHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCHH
Confidence            3566666666   443322233455666666666666666666666665541    1111 1234444555566666666


Q ss_pred             HHHHHHHHhHHh---cCCCC--CHHHHHHHHHHHhHcCCHHHHHHHHHhC----CCCCCH----hHHHHHHHHHHhcCCH
Q 009066          291 LGIQYFDSMVND---YGIAA--KPDHYTCMVDLLGRAGKLVEAVDLIKKM----PFKPQP----AIFGTLLSACRVHKRL  357 (545)
Q Consensus       291 ~a~~~~~~~~~~---~~~~~--~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~p~~----~~~~~li~~~~~~g~~  357 (545)
                      +|...+++..+.   .+..|  ....+..+...+...|++++|...+++.    +..++.    .++..+...+...|++
T Consensus        84 ~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~  163 (203)
T 3gw4_A           84 AARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKNL  163 (203)
T ss_dssp             HHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcCH
Confidence            666666554432   11111  1233445555555556665555555443    000111    1234444444555555


Q ss_pred             HHHHHHHHHHh
Q 009066          358 DLAEFAAMNLF  368 (545)
Q Consensus       358 ~~A~~~~~~~~  368 (545)
                      ++|...+++.+
T Consensus       164 ~~A~~~~~~al  174 (203)
T 3gw4_A          164 LEAQQHWLRAR  174 (203)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            55555544443

>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=98.43  E-value=1.3e-06  Score=70.67  Aligned_cols=96  Identities=11%  Similarity=0.045  Sum_probs=77.5

Q ss_pred             HHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHH
Q 009066          309 PDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIY  386 (545)
Q Consensus       309 ~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~  386 (545)
                      ...+..+...+.+.|++++|...|++. ...| +...|..+..++...|++++|+..++++++++|++.. ++..++.+|
T Consensus         4 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~-~~~~lg~~~   82 (126)
T 3upv_A            4 AEEARLEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVR-AYIRKATAQ   82 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH-HHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHH-HHHHHHHHH
Confidence            455667777788888888888888776 2233 5678888888888889999999999999888888877 888899999


Q ss_pred             HHcCCchHHHHHHHHhhhC
Q 009066          387 AAMKKWDDVARIRLSMKEN  405 (545)
Q Consensus       387 ~~~g~~~~a~~~~~~m~~~  405 (545)
                      ...|++++|...+++..+.
T Consensus        83 ~~~~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           83 IAVKEYASALETLDAARTK  101 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhCHHHHHHHHHHHHHh
Confidence            9999999999888887653

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.41  E-value=1e-05  Score=71.24  Aligned_cols=127  Identities=17%  Similarity=0.087  Sum_probs=73.6

Q ss_pred             cHHHHHHHHHhcCCHHHHHHHHHhccC---------CChhhHHHHHHHHHHcCChHHHHHHHHHHHHc----CCCC--CH
Q 009066          209 ALTPLISMYCKCGDLEDACKLFLEIQR---------KDVVTWNAMISGYAQHGKGEKALRLFDKMKDE----GMKP--DS  273 (545)
Q Consensus       209 ~~~~li~~y~~~g~~~~A~~~f~~~~~---------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p--~~  273 (545)
                      ++..+...|...|++++|...|++..+         ....+++.+...|...|++++|+..+++....    +-.|  ..
T Consensus        28 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  107 (203)
T 3gw4_A           28 ARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNWDAARRCFLEERELLASLPEDPLAAS  107 (203)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHH
T ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCccHHHHH
Confidence            334444444445555555554444332         12345666666777777777777777766542    1111  12


Q ss_pred             HHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCC----HHHHHHHHHHHhHcCCHHHHHHHHHhC
Q 009066          274 ITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAK----PDHYTCMVDLLGRAGKLVEAVDLIKKM  335 (545)
Q Consensus       274 ~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~m  335 (545)
                      ..+..+...+...|++++|...+++..+...-..+    ...+..+...|...|++++|.+.+++.
T Consensus       108 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a  173 (203)
T 3gw4_A          108 ANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKNLLEAQQHWLRA  173 (203)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcCHHHHHHHHHHH
Confidence            34556666777778888887777766532111111    234567788888888888888777654

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.40  E-value=3.3e-06  Score=77.71  Aligned_cols=181  Identities=10%  Similarity=-0.033  Sum_probs=134.6

Q ss_pred             hcCCHHHHHHHHHhccC---CChhhHHHH-------HHHHHHcCChHHHHHHHHHHHHcCCCCCH---------------
Q 009066          219 KCGDLEDACKLFLEIQR---KDVVTWNAM-------ISGYAQHGKGEKALRLFDKMKDEGMKPDS---------------  273 (545)
Q Consensus       219 ~~g~~~~A~~~f~~~~~---~~~~~~~~l-------i~~~~~~g~~~~A~~~~~~m~~~g~~p~~---------------  273 (545)
                      ..++.+.|.+.|.++..   .....|+.+       ...+...++..+++..++.-..  +.|+.               
T Consensus        18 ~~~d~~~A~~~F~~a~~~dP~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~--l~p~~l~a~~~~~g~y~~~~   95 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYDESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQ--ISMSTLNARIAIGGLYGDIT   95 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTT--CCGGGGCCEEECCTTTCCCE
T ss_pred             cCCCHHHHHHHHHHHHHhChhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhc--CChhhhhhhhccCCcccccc
Confidence            46788888888887764   245678777       4556666666666666665443  22221               


Q ss_pred             -------HHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhCCCCCCH----h
Q 009066          274 -------ITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQP----A  342 (545)
Q Consensus       274 -------~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~----~  342 (545)
                             .....+..++...|++++|.++|+.+...   .|+......+...+.+.|++++|+..|+.....|+.    .
T Consensus        96 ~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~---~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~d~~~~~~  172 (282)
T 4f3v_A           96 YPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVA---GSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWPDKFLAGA  172 (282)
T ss_dssp             EECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCT---TCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCSCHHHHHH
T ss_pred             cccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhc---CCchHHHHHHHHHHHHcCCHHHHHHHHHHhhccCCcccHHH
Confidence                   12234556788899999999999888642   454436677778999999999999999977433433    3


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhcCC--CC-CCchhHHHHHHHHHHcCCchHHHHHHHHhhhC
Q 009066          343 IFGTLLSACRVHKRLDLAEFAAMNLFNLN--PA-NAAGCYVQLANIYAAMKKWDDVARIRLSMKEN  405 (545)
Q Consensus       343 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~--p~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  405 (545)
                      .+..+..++...|++++|+..|++.....  |. ... ....++.++.+.|+.++|...|+++...
T Consensus       173 a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~d-a~~~~glaL~~lGr~deA~~~l~~a~a~  237 (282)
T 4f3v_A          173 AGVAHGVAAANLALFTEAERRLTEANDSPAGEACARA-IAWYLAMARRSQGNESAAVALLEWLQTT  237 (282)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHH-HHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHH-HHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            68888999999999999999999997533  54 333 6788999999999999999999999764

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.38  E-value=1.7e-06  Score=72.54  Aligned_cols=98  Identities=8%  Similarity=-0.076  Sum_probs=58.7

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHH
Q 009066          275 TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACR  352 (545)
Q Consensus       275 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~  352 (545)
                      .+..+...+.+.|++++|...|+...+.  -+.++..|..+..+|.+.|++++|...|++. .+.| +...|..+..+|.
T Consensus        38 ~~~~lg~~~~~~g~~~eA~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~~~~~lg~~~~  115 (151)
T 3gyz_A           38 DIYSYAYDFYNKGRIEEAEVFFRFLCIY--DFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTPVFHTGQCQL  115 (151)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcHHHHHHHHHHH
Confidence            3444445555566666666666655542  2334555666666666666666666666655 2223 3456666777777


Q ss_pred             hcCCHHHHHHHHHHHhcCCCCC
Q 009066          353 VHKRLDLAEFAAMNLFNLNPAN  374 (545)
Q Consensus       353 ~~g~~~~A~~~~~~~~~~~p~~  374 (545)
                      ..|++++|+..|++++++.|++
T Consensus       116 ~lg~~~eA~~~~~~al~l~~~~  137 (151)
T 3gyz_A          116 RLKAPLKAKECFELVIQHSNDE  137 (151)
T ss_dssp             HTTCHHHHHHHHHHHHHHCCCH
T ss_pred             HcCCHHHHHHHHHHHHHhCCCH
Confidence            7777777777777777776654

>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=98.37  E-value=3.4e-06  Score=72.71  Aligned_cols=125  Identities=11%  Similarity=0.077  Sum_probs=92.6

Q ss_pred             HHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHH-HhHcCCH--
Q 009066          249 AQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDL-LGRAGKL--  325 (545)
Q Consensus       249 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~-~~~~g~~--  325 (545)
                      ...|++++|+..+++..... +.+...+..+...+...|++++|...|+...+..  +.+...+..+..+ |...|++  
T Consensus        21 ~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~la~~l~~~~~~~~~   97 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR--GENAELYAALATVLYYQASQHMT   97 (177)
T ss_dssp             C-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--CSCHHHHHHHHHHHHHHTTTCCC
T ss_pred             hhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHhcCCcch
Confidence            34677778888888777653 2355677777778888888888888888877642  3456777778887 7788887  


Q ss_pred             HHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCc
Q 009066          326 VEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA  376 (545)
Q Consensus       326 ~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~  376 (545)
                      ++|...+++. ...| +...|..+...+...|++++|...++++++..|++..
T Consensus        98 ~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~  150 (177)
T 2e2e_A           98 AQTRAMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQKVMDLNSPRIN  150 (177)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTSC
T ss_pred             HHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCCCCcc
Confidence            8888888876 2334 4677888888999999999999999999999998864

>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=98.37  E-value=6.4e-06  Score=65.00  Aligned_cols=108  Identities=14%  Similarity=0.064  Sum_probs=67.5

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHH
Q 009066          275 TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACR  352 (545)
Q Consensus       275 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~  352 (545)
                      .+..+...+...|++++|...++...+.  .+.+...+..+...|.+.|++++|...+++. ...| +...|..+...+.
T Consensus         6 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~   83 (118)
T 1elw_A            6 ELKEKGNKALSVGNIDDALQCYSEAIKL--DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALE   83 (118)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            3444555555666666666666665542  2334556666666666667777776666655 2223 4566777777777


Q ss_pred             hcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHH
Q 009066          353 VHKRLDLAEFAAMNLFNLNPANAAGCYVQLANI  385 (545)
Q Consensus       353 ~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~  385 (545)
                      ..|++++|...++++.+.+|++.. .+..+..+
T Consensus        84 ~~~~~~~A~~~~~~~~~~~~~~~~-~~~~l~~~  115 (118)
T 1elw_A           84 FLNRFEEAKRTYEEGLKHEANNPQ-LKEGLQNM  115 (118)
T ss_dssp             HTTCHHHHHHHHHHHHTTCTTCHH-HHHHHHHH
T ss_pred             HHhhHHHHHHHHHHHHHcCCCCHH-HHHHHHHh
Confidence            788888888888888888777665 55544443

>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=98.36  E-value=7.3e-06  Score=69.42  Aligned_cols=127  Identities=11%  Similarity=0.010  Sum_probs=82.2

Q ss_pred             hhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHH
Q 009066          239 VTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDL  318 (545)
Q Consensus       239 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~  318 (545)
                      ..|..+...+...|++++|+..|++..... +.+..++..+..++...|++++|...++...+.  .+.+...+..+...
T Consensus        14 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~a~~   90 (166)
T 1a17_A           14 EELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIEL--DKKYIKGYYRRAAS   90 (166)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHHHHHH
Confidence            345666667777777777777777776642 224556666667777777777777777777653  24456677777777


Q ss_pred             HhHcCCHHHHHHHHHhC-CCCC-CHhHHH--HHHHHHHhcCCHHHHHHHHHHHh
Q 009066          319 LGRAGKLVEAVDLIKKM-PFKP-QPAIFG--TLLSACRVHKRLDLAEFAAMNLF  368 (545)
Q Consensus       319 ~~~~g~~~~A~~~~~~m-~~~p-~~~~~~--~li~~~~~~g~~~~A~~~~~~~~  368 (545)
                      |...|++++|...|++. ...| +...+.  .++..+...|++++|...+++..
T Consensus        91 ~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  144 (166)
T 1a17_A           91 NMALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKR  144 (166)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHcccchH
Confidence            77778888877777766 2223 333443  33333666777777777776653

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.35  E-value=1.7e-06  Score=67.71  Aligned_cols=96  Identities=18%  Similarity=0.106  Sum_probs=67.9

Q ss_pred             HHHHHHHHHHHhHcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCC--CCchhHHHHHH
Q 009066          309 PDHYTCMVDLLGRAGKLVEAVDLIKKM-PFK-PQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPA--NAAGCYVQLAN  384 (545)
Q Consensus       309 ~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~-p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~--~~~~~~~~l~~  384 (545)
                      ...+..+...+.+.|++++|...|++. ... .+...|..+...+...|++++|...++++++..|+  +.. .+..++.
T Consensus         6 ~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~-~~~~l~~   84 (112)
T 2kck_A            6 PEEYYLEGVLQYDAGNYTESIDLFEKAIQLDPEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKD-VWAAKAD   84 (112)
T ss_dssp             TTGGGGHHHHHHSSCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHH-HHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHH-HHHHHHH
Confidence            445556666677777777777777665 122 34566777777777778888888888888777777  666 7777778


Q ss_pred             HHHHc-CCchHHHHHHHHhhhC
Q 009066          385 IYAAM-KKWDDVARIRLSMKEN  405 (545)
Q Consensus       385 ~~~~~-g~~~~a~~~~~~m~~~  405 (545)
                      +|... |++++|.+.++...+.
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~  106 (112)
T 2kck_A           85 ALRYIEGKEVEAEIAEARAKLE  106 (112)
T ss_dssp             HHTTCSSCSHHHHHHHHHHGGG
T ss_pred             HHHHHhCCHHHHHHHHHHHhhc
Confidence            88888 8888888877777654

>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=98.34  E-value=3.9e-06  Score=78.66  Aligned_cols=191  Identities=9%  Similarity=-0.057  Sum_probs=121.4

Q ss_pred             CHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccC---CChhhHHHHHHH
Q 009066          171 NASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISG  247 (545)
Q Consensus       171 d~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~  247 (545)
                      +...+..+...+...|++++|...+..+++.. +.+...+..+...|.+.|++++|...|++..+   .+...|..+..+
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~   81 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQC   81 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            34556666667777777777777777777653 34566777788888888888888888888765   356778888889


Q ss_pred             HHHcCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHH
Q 009066          248 YAQHGKGEKALRLFDKMKDEGMKPDS-ITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLV  326 (545)
Q Consensus       248 ~~~~g~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  326 (545)
                      |...|++++|+..|++..+..  |+. ..+...+....   ....+.... ..... ..+.+......+...+  .|+.+
T Consensus        82 ~~~~g~~~~A~~~~~~al~l~--p~~~~~~~~~~~~~~---~~~~~~~~~-~~~~~-~~~~~~~i~~~l~~l~--~~~~~  152 (281)
T 2c2l_A           82 QLEMESYDEAIANLQRAYSLA--KEQRLNFGDDIPSAL---RIAKKKRWN-SIEER-RIHQESELHSYLTRLI--AAERE  152 (281)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHH--HHTTCCCCSHHHHHH---HHHHHHHHH-HHHHT-CCCCCCHHHHHHHHHH--HHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC--ccchhhHHHHHHHHH---HHHHHHHHH-HHHHH-HHhhhHHHHHHHHHHH--HHHHH
Confidence            999999999999998887642  211 01111111111   111112221 22222 4455666555554433  68899


Q ss_pred             HHHHHHHhC-CCCCCHh-HHHHHHHHHHhc-CCHHHHHHHHHHHhcCC
Q 009066          327 EAVDLIKKM-PFKPQPA-IFGTLLSACRVH-KRLDLAEFAAMNLFNLN  371 (545)
Q Consensus       327 ~A~~~~~~m-~~~p~~~-~~~~li~~~~~~-g~~~~A~~~~~~~~~~~  371 (545)
                      +|.+.+++. ...|+.. ....+...+... +.+++|..+|.++.+..
T Consensus       153 ~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~~~  200 (281)
T 2c2l_A          153 RELEECQRNHEGHEDDGHIRAQQACIEAKHDKYMADMDELFSQVDEKR  200 (281)
T ss_dssp             HHHTTTSGGGTTTSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSCTT
T ss_pred             HHHHHHHhhhccccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhccc
Confidence            999888776 5556543 334444444444 67888999999887643

>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=98.34  E-value=3.6e-06  Score=68.95  Aligned_cols=99  Identities=10%  Similarity=0.004  Sum_probs=79.8

Q ss_pred             CCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHH
Q 009066          306 AAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLA  383 (545)
Q Consensus       306 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~  383 (545)
                      +.+...+..+...+...|++++|...|++. ...| +...|..+...+...|++++|...++++++++|++.. ++..++
T Consensus         6 ~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~-~~~~l~   84 (137)
T 3q49_B            6 SPSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVK-AHFFLG   84 (137)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH-HHHHHH
T ss_pred             cccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHH-HHHHHH
Confidence            345677778888888888888888888766 2223 5677888888888889999999999999888888877 888899


Q ss_pred             HHHHHcCCchHHHHHHHHhhhC
Q 009066          384 NIYAAMKKWDDVARIRLSMKEN  405 (545)
Q Consensus       384 ~~~~~~g~~~~a~~~~~~m~~~  405 (545)
                      .+|...|++++|...+++..+.
T Consensus        85 ~~~~~~~~~~~A~~~~~~a~~~  106 (137)
T 3q49_B           85 QCQLEMESYDEAIANLQRAYSL  106 (137)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHH
Confidence            9999999999999888887653

>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=98.32  E-value=3.4e-05  Score=73.41  Aligned_cols=213  Identities=12%  Similarity=0.081  Sum_probs=154.0

Q ss_pred             cHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcC-CHHHHHHHHHhccC---CChhhHHHHHHHHHHc-C-ChHHHHHH
Q 009066          187 SLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCG-DLEDACKLFLEIQR---KDVVTWNAMISGYAQH-G-KGEKALRL  260 (545)
Q Consensus       187 ~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g-~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~-g-~~~~A~~~  260 (545)
                      ..++|.++...++... +.+..+|+.--..+...| .+++++++++.+..   ++..+|+.-...+.+. + ++++++++
T Consensus        69 ~se~AL~lt~~~L~~n-P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPKny~aW~hR~wlL~~l~~~~~~~EL~~  147 (349)
T 3q7a_A           69 KSERALELTEIIVRMN-PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLKSYQVWHHRLLLLDRISPQDPVSEIEY  147 (349)
T ss_dssp             CSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHCCSCCHHHHHH
T ss_pred             CCHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhcCCChHHHHHH
Confidence            3457788888888765 445667787777777888 59999999999875   4677898888888776 7 89999999


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHccCcHH--------HHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCC-------H
Q 009066          261 FDKMKDEGMKPDSITFVALLLACNHAGLVD--------LGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGK-------L  325 (545)
Q Consensus       261 ~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~--------~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~-------~  325 (545)
                      ++++.+...+ |...|+.-.-...+.|..+        ++.+.++++++.  .+.+...|+....++.+.++       +
T Consensus       148 ~~k~L~~dpk-Ny~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~--dp~N~SAW~~R~~lL~~l~~~~~~~~~~  224 (349)
T 3q7a_A          148 IHGSLLPDPK-NYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRV--DGRNNSAWGWRWYLRVSRPGAETSSRSL  224 (349)
T ss_dssp             HHHHTSSCTT-CHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHTTSTTCCCCHHHH
T ss_pred             HHHHHHhCCC-CHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhccccccchHHH
Confidence            9999876433 5666665444444444444        889999988874  35677888888888888876       7


Q ss_pred             HHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCH--------------------HHHHHHHHHHhcCC------CCCCch
Q 009066          326 VEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRL--------------------DLAEFAAMNLFNLN------PANAAG  377 (545)
Q Consensus       326 ~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~--------------------~~A~~~~~~~~~~~------p~~~~~  377 (545)
                      +++++.+++. ...| |...|+-+-..+.+.|+.                    .........+....      +..+. 
T Consensus       225 ~eELe~~~~aI~~~P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~-  303 (349)
T 3q7a_A          225 QDELIYILKSIHLIPHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTPLPVPL-  303 (349)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSSCCSCCHH-
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccccccCCCcHH-
Confidence            8899888776 3334 778899888888877764                    22233333333322      33333 


Q ss_pred             hHHHHHHHHHHcCCchHHHHHHHHhhh
Q 009066          378 CYVQLANIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       378 ~~~~l~~~~~~~g~~~~a~~~~~~m~~  404 (545)
                      +...|+.+|...|+.++|.++++.+.+
T Consensus       304 al~~l~d~~~~~~~~~~a~~~~~~l~~  330 (349)
T 3q7a_A          304 ALEYLADSFIEQNRVDDAAKVFEKLSS  330 (349)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHh
Confidence            778999999999999999999999864

>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=98.32  E-value=3.8e-06  Score=73.99  Aligned_cols=168  Identities=10%  Similarity=-0.061  Sum_probs=101.6

Q ss_pred             HHHHhcCCHHHHHHHHHhccC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHH
Q 009066          215 SMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDL  291 (545)
Q Consensus       215 ~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~  291 (545)
                      ......|++++|.+.++...+   .....|..+...+...|++++|+..|++.....  |+...+...        ..+.
T Consensus        12 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~--------~~~~   81 (198)
T 2fbn_A           12 SGRENLYFQGAKKSIYDYTDEEKVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFF--IHTEEWDDQ--------ILLD   81 (198)
T ss_dssp             ----------CCCSGGGCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT--TTCTTCCCH--------HHHH
T ss_pred             hhhhhhhhccccCchhhCCHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH--hcccccchh--------hHHH
Confidence            334445666666666653332   134567777777888888888888888877642  221100000        0000


Q ss_pred             HHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhc
Q 009066          292 GIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFN  369 (545)
Q Consensus       292 a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  369 (545)
                      -.       .    ......+..+..+|.+.|++++|...+++. ...| +...|..+..++...|++++|+..|+++++
T Consensus        82 ~~-------~----~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~  150 (198)
T 2fbn_A           82 KK-------K----NIEISCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAAS  150 (198)
T ss_dssp             HH-------H----HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HH-------H----HHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence            00       0    001356677888888888888888888776 2233 567888899999999999999999999999


Q ss_pred             CCCCCCchhHHHHHHHHHHcCCchHHH-HHHHHhhh
Q 009066          370 LNPANAAGCYVQLANIYAAMKKWDDVA-RIRLSMKE  404 (545)
Q Consensus       370 ~~p~~~~~~~~~l~~~~~~~g~~~~a~-~~~~~m~~  404 (545)
                      ++|++.. ++..+..++...|+.+++. ..++.|..
T Consensus       151 ~~p~~~~-~~~~l~~~~~~~~~~~~~~~~~~~~~f~  185 (198)
T 2fbn_A          151 LNPNNLD-IRNSYELCVNKLKEARKKDKLTFGGMFD  185 (198)
T ss_dssp             HSTTCHH-HHHHHHHHHHHHHHHHC-----------
T ss_pred             HCCCcHH-HHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            9999887 8889999988888777766 44555543

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.32  E-value=1.9e-06  Score=69.28  Aligned_cols=93  Identities=14%  Similarity=-0.015  Sum_probs=76.7

Q ss_pred             HHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHc
Q 009066          312 YTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAM  389 (545)
Q Consensus       312 ~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~  389 (545)
                      +..+...+.+.|++++|...|++. ...| +...|..+..++...|++++|+..++++++++|++.. ++..++.+|...
T Consensus        20 ~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~-~~~~la~~~~~~   98 (121)
T 1hxi_A           20 PMEEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIA-VHAALAVSHTNE   98 (121)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHHc
Confidence            455677788888888888888877 3334 6678888888889999999999999999999998887 888999999999


Q ss_pred             CCchHHHHHHHHhhhC
Q 009066          390 KKWDDVARIRLSMKEN  405 (545)
Q Consensus       390 g~~~~a~~~~~~m~~~  405 (545)
                      |++++|...+++..+.
T Consensus        99 g~~~~A~~~~~~al~~  114 (121)
T 1hxi_A           99 HNANAALASLRAWLLS  114 (121)
T ss_dssp             HHHHHHHHHHHHHHC-
T ss_pred             CCHHHHHHHHHHHHHh
Confidence            9999999998887653

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.31  E-value=2.8e-06  Score=72.31  Aligned_cols=95  Identities=14%  Similarity=0.111  Sum_probs=54.4

Q ss_pred             HHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHH
Q 009066          309 PDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIY  386 (545)
Q Consensus       309 ~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~  386 (545)
                      ...+..+...|.+.|++++|++.|++. ...| +...|..+...|...|++++|+..++++++++|++.. +|..++.+|
T Consensus        11 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~-~~~~lg~~~   89 (164)
T 3sz7_A           11 SDKLKSEGNAAMARKEYSKAIDLYTQALSIAPANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSK-AWSRLGLAR   89 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH-HHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHH-HHHHHHHHH
Confidence            344555555555555555555555554 2222 4455555566666666666666666666666666555 566666666


Q ss_pred             HHcCCchHHHHHHHHhhh
Q 009066          387 AAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       387 ~~~g~~~~a~~~~~~m~~  404 (545)
                      ...|++++|.+.+++..+
T Consensus        90 ~~~g~~~~A~~~~~~al~  107 (164)
T 3sz7_A           90 FDMADYKGAKEAYEKGIE  107 (164)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHccCHHHHHHHHHHHHH
Confidence            666666666666665544

>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=98.29  E-value=1.8e-06  Score=72.27  Aligned_cols=101  Identities=10%  Similarity=-0.038  Sum_probs=75.9

Q ss_pred             HHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHH
Q 009066          274 ITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSAC  351 (545)
Q Consensus       274 ~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~  351 (545)
                      ..+..+...+...|++++|...|+.....  -+.+...|..+..+|...|++++|...|++. ...| +...|..+..++
T Consensus        22 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~   99 (148)
T 2vgx_A           22 EQLYSLAFNQYQSGXYEDAHXVFQALCVL--DHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIXEPRFPFHAAECL   99 (148)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHc--CcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHH
Confidence            34555666777778888888888777653  2446677777888888888888888888776 2234 557788888888


Q ss_pred             HhcCCHHHHHHHHHHHhcCCCCCCc
Q 009066          352 RVHKRLDLAEFAAMNLFNLNPANAA  376 (545)
Q Consensus       352 ~~~g~~~~A~~~~~~~~~~~p~~~~  376 (545)
                      ...|++++|+..|++++++.|+++.
T Consensus       100 ~~~g~~~~A~~~~~~al~~~p~~~~  124 (148)
T 2vgx_A          100 LQXGELAEAESGLFLAQELIANXPE  124 (148)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHTTCGG
T ss_pred             HHcCCHHHHHHHHHHHHHHCcCCCc
Confidence            8999999999999999988887764

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.29  E-value=4.6e-06  Score=67.58  Aligned_cols=99  Identities=12%  Similarity=0.082  Sum_probs=89.0

Q ss_pred             CCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHH
Q 009066          306 AAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLA  383 (545)
Q Consensus       306 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~  383 (545)
                      +.+...+..+...+.+.|++++|.+.|++. ...| +...|..+...+...|++++|+..++++++..|++.. ++..++
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~-~~~~la   91 (133)
T 2lni_A           13 PDLALMVKNKGNECFQKGDYPQAMKHYTEAIKRNPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIK-GYTRKA   91 (133)
T ss_dssp             SCHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHH-HHHHHH
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchH-HHHHHH
Confidence            445778889999999999999999999987 4445 6788999999999999999999999999999999887 999999


Q ss_pred             HHHHHcCCchHHHHHHHHhhhC
Q 009066          384 NIYAAMKKWDDVARIRLSMKEN  405 (545)
Q Consensus       384 ~~~~~~g~~~~a~~~~~~m~~~  405 (545)
                      .+|...|++++|.+.+++..+.
T Consensus        92 ~~~~~~~~~~~A~~~~~~~~~~  113 (133)
T 2lni_A           92 AALEAMKDYTKAMDVYQKALDL  113 (133)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHh
Confidence            9999999999999999988763

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.28  E-value=2.2e-05  Score=62.45  Aligned_cols=93  Identities=16%  Similarity=0.284  Sum_probs=45.6

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHH
Q 009066          240 TWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLL  319 (545)
Q Consensus       240 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~  319 (545)
                      .|..+...+...|++++|+..|+++.... +.+..++..+...+...|++++|..+++.+.+.  .+.+...+..+...|
T Consensus        11 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~   87 (125)
T 1na0_A           11 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALEL--DPNNAEAWYNLGNAY   87 (125)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CCccHHHHHHHHHHH
Confidence            44444455555555555555555554432 123344444445555555555555555554432  123344455555555


Q ss_pred             hHcCCHHHHHHHHHhC
Q 009066          320 GRAGKLVEAVDLIKKM  335 (545)
Q Consensus       320 ~~~g~~~~A~~~~~~m  335 (545)
                      ...|++++|...++++
T Consensus        88 ~~~~~~~~A~~~~~~~  103 (125)
T 1na0_A           88 YKQGDYDEAIEYYQKA  103 (125)
T ss_dssp             HHTTCHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHH
Confidence            5555555555555544

>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=98.28  E-value=5.7e-06  Score=65.29  Aligned_cols=97  Identities=10%  Similarity=0.123  Sum_probs=86.4

Q ss_pred             CHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHH
Q 009066          308 KPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANI  385 (545)
Q Consensus       308 ~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~  385 (545)
                      ....+..+...+...|++++|...|++. ...| +...|..+...+...|++++|...++++++..|++.. .+..++.+
T Consensus         3 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~a~~   81 (118)
T 1elw_A            3 QVNELKEKGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGK-GYSRKAAA   81 (118)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHH-HHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHH-HHHHHHHH
Confidence            3567788899999999999999999987 2234 6788999999999999999999999999999999887 89999999


Q ss_pred             HHHcCCchHHHHHHHHhhhC
Q 009066          386 YAAMKKWDDVARIRLSMKEN  405 (545)
Q Consensus       386 ~~~~g~~~~a~~~~~~m~~~  405 (545)
                      |...|++++|.+.++...+.
T Consensus        82 ~~~~~~~~~A~~~~~~~~~~  101 (118)
T 1elw_A           82 LEFLNRFEEAKRTYEEGLKH  101 (118)
T ss_dssp             HHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHhhHHHHHHHHHHHHHc
Confidence            99999999999999988764

>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=98.27  E-value=0.00014  Score=68.76  Aligned_cols=223  Identities=12%  Similarity=0.066  Sum_probs=128.0

Q ss_pred             HHHHHHHHHHHhCCCCCCH-HHHHHHHHHHhccCc----------HHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcC-
Q 009066          154 EDGLKLLRMMIGLGIRPNA-SSLSSVLLGCSHLSS----------LQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCG-  221 (545)
Q Consensus       154 ~~A~~~~~~m~~~~~~pd~-~t~~~ll~~~~~~~~----------~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g-  221 (545)
                      ++|++++..+...  .|+. ..|+.--......+.          ++++..++..++... +.+..+|+.-.-.+.+.| 
T Consensus        47 ~eaL~~t~~~L~~--nP~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~-PKny~aW~hR~wlL~~l~~  123 (331)
T 3dss_A           47 ESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPE  123 (331)
T ss_dssp             HHHHHHHHHHHTT--CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHCSS
T ss_pred             HHHHHHHHHHHHH--CchhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHhccCc
Confidence            3566666666653  3433 233332222222222          456666666666653 445666666666666666 


Q ss_pred             -CHHHHHHHHHhccC---CChhhHHHHHHHHHHcCC-hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHcc----------
Q 009066          222 -DLEDACKLFLEIQR---KDVVTWNAMISGYAQHGK-GEKALRLFDKMKDEGMKPDSITFVALLLACNHA----------  286 (545)
Q Consensus       222 -~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~-~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~----------  286 (545)
                       .++++..+++++.+   +|..+|+--...+...|. ++++++.+.++.+..+. |...|+.....+...          
T Consensus       124 ~~~~~EL~~~~k~l~~dprNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~p~-N~SAW~~R~~ll~~l~~~~~~~~~~  202 (331)
T 3dss_A          124 PNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQLHPQPDSGPQG  202 (331)
T ss_dssp             CCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHHSCCC------
T ss_pred             ccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHhhhcccccccc
Confidence             37777777777764   466677777777777776 47888888888776433 555555444333332          


Q ss_pred             ----CcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHc-----------CCHHHHHHHHHhC-CCCCCHhHHHHHHHH
Q 009066          287 ----GLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRA-----------GKLVEAVDLIKKM-PFKPQPAIFGTLLSA  350 (545)
Q Consensus       287 ----g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~-----------g~~~~A~~~~~~m-~~~p~~~~~~~li~~  350 (545)
                          +.++++.+.+...+..  .+-|...|+-+-..+.+.           +.++++++.++++ ...||. .|..+..+
T Consensus       203 ~~~~~~~~eEle~~~~ai~~--~P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~~pd~-~w~l~~~~  279 (331)
T 3dss_A          203 RLPENVLLKELELVQNAFFT--DPNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQELEPEN-KWCLLTII  279 (331)
T ss_dssp             CCCHHHHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHHCTTC-HHHHHHHH
T ss_pred             ccchHHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHhhCccc-chHHHHHH
Confidence                4466777777776653  244556665554444444           3466777777666 344554 34322222


Q ss_pred             H-----HhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHH
Q 009066          351 C-----RVHKRLDLAEFAAMNLFNLNPANAAGCYVQLAN  384 (545)
Q Consensus       351 ~-----~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~  384 (545)
                      .     ...|..++....+.++.+++|.... -|.-|..
T Consensus       280 ~~~~~~~~~~~~~~~~~~l~~l~~~Dp~r~~-~y~d~~~  317 (331)
T 3dss_A          280 LLMRALDPLLYEKETLQYFSTLKAVDPMRAA-YLDDLRS  317 (331)
T ss_dssp             HHHHHHCTTTTHHHHHHHHHHHHHHCGGGHH-HHHHHHH
T ss_pred             HHHHhhcccccHHHHHHHHHHHHHhCcchhh-HHHHHHH
Confidence            1     1345666777777777777777655 4554443

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.26  E-value=7.3e-06  Score=67.87  Aligned_cols=95  Identities=8%  Similarity=0.013  Sum_probs=51.7

Q ss_pred             HHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCCC----HhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHH
Q 009066          309 PDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQ----PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLA  383 (545)
Q Consensus       309 ~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~  383 (545)
                      ...+..+...+...|++++|.+.|++. ...|+    ...|..+...+...|++++|+..++++++..|++.. .+..++
T Consensus        28 ~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~a  106 (148)
T 2dba_A           28 VEQLRKEGNELFKCGDYGGALAAYTQALGLDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVK-ALYRRS  106 (148)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHH-HHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHH-HHHHHH
Confidence            444455555555555555555555544 33344    344555555555555555565555555555555544 555555


Q ss_pred             HHHHHcCCchHHHHHHHHhhh
Q 009066          384 NIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       384 ~~~~~~g~~~~a~~~~~~m~~  404 (545)
                      .+|...|++++|.+.+++..+
T Consensus       107 ~~~~~~~~~~~A~~~~~~al~  127 (148)
T 2dba_A          107 QALEKLGRLDQAVLDLQRCVS  127 (148)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHH
Confidence            555556666666555555543

>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=98.26  E-value=7.1e-06  Score=66.18  Aligned_cols=108  Identities=9%  Similarity=-0.080  Sum_probs=67.7

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHH
Q 009066          275 TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACR  352 (545)
Q Consensus       275 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~  352 (545)
                      .+..+...+...|++++|...|+...+.  .+.+...|..+..+|.+.|++++|+..+++. ...| +...|..+..++.
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~   83 (126)
T 3upv_A            6 EARLEGKEYFTKSDWPNAVKAYTEMIKR--APEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQI   83 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHH
Confidence            3444455556666666666666665542  2334566666667777777777777766655 2233 4566777777777


Q ss_pred             hcCCHHHHHHHHHHHhcCC------CCCCchhHHHHHHH
Q 009066          353 VHKRLDLAEFAAMNLFNLN------PANAAGCYVQLANI  385 (545)
Q Consensus       353 ~~g~~~~A~~~~~~~~~~~------p~~~~~~~~~l~~~  385 (545)
                      ..|++++|...++++++++      |++.. ....+..+
T Consensus        84 ~~~~~~~A~~~~~~al~~~p~~~~~p~~~~-~~~~l~~~  121 (126)
T 3upv_A           84 AVKEYASALETLDAARTKDAEVNNGSSARE-IDQLYYKA  121 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHHHTTTTHHH-HHHHHHHH
T ss_pred             HHhCHHHHHHHHHHHHHhCcccCCchhHHH-HHHHHHHH
Confidence            7888888888888887777      66554 44444433

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.26  E-value=5.4e-06  Score=68.62  Aligned_cols=100  Identities=16%  Similarity=-0.002  Sum_probs=71.2

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHH
Q 009066          275 TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACR  352 (545)
Q Consensus       275 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~  352 (545)
                      .+..+...+...|++++|...|+...+.  -+.+...|..+..+|.+.|++++|...|++. ...| +...|..+..++.
T Consensus        20 ~~~~~a~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~   97 (142)
T 2xcb_A           20 QLYALGFNQYQAGKWDDAQKIFQALCML--DHYDARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPRFPFHAAECHL   97 (142)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Confidence            3444555666777777777777776653  2445667777777777788888887777766 2223 4566777888888


Q ss_pred             hcCCHHHHHHHHHHHhcCCCCCCc
Q 009066          353 VHKRLDLAEFAAMNLFNLNPANAA  376 (545)
Q Consensus       353 ~~g~~~~A~~~~~~~~~~~p~~~~  376 (545)
                      ..|++++|...+++++++.|+++.
T Consensus        98 ~~g~~~~A~~~~~~al~~~p~~~~  121 (142)
T 2xcb_A           98 QLGDLDGAESGFYSARALAAAQPA  121 (142)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHTCGG
T ss_pred             HcCCHHHHHHHHHHHHHhCCCCcc
Confidence            888888888888888888887764

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.26  E-value=9.5e-06  Score=68.94  Aligned_cols=108  Identities=11%  Similarity=-0.050  Sum_probs=82.3

Q ss_pred             HHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHH
Q 009066          273 SITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSA  350 (545)
Q Consensus       273 ~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~  350 (545)
                      ...+..+...+...|++++|...|+...+.  .+.+...|..+..+|.+.|++++|+..|++. ...| +...|..+..+
T Consensus        11 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~   88 (164)
T 3sz7_A           11 SDKLKSEGNAAMARKEYSKAIDLYTQALSI--APANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSKAWSRLGLA   88 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            345566666777777777777777777653  2345777788888888888888888888776 3334 56788899999


Q ss_pred             HHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHH
Q 009066          351 CRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLA  383 (545)
Q Consensus       351 ~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~  383 (545)
                      +...|++++|...|+++++++|++.. .+....
T Consensus        89 ~~~~g~~~~A~~~~~~al~~~p~~~~-~~~~~~  120 (164)
T 3sz7_A           89 RFDMADYKGAKEAYEKGIEAEGNGGS-DAMKRG  120 (164)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHSSSCC-HHHHHH
T ss_pred             HHHccCHHHHHHHHHHHHHhCCCchH-HHHHHH
Confidence            99999999999999999999999876 554443

>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=98.24  E-value=3.4e-06  Score=68.37  Aligned_cols=96  Identities=6%  Similarity=-0.034  Sum_probs=78.0

Q ss_pred             HHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCc------hhHH
Q 009066          309 PDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA------GCYV  380 (545)
Q Consensus       309 ~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~------~~~~  380 (545)
                      ...+..|...|.+.|++++|++.|++. .+.| +...|..+..+|...|++++|+..++++++++|+...      .+|.
T Consensus         8 A~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~   87 (127)
T 4gcn_A            8 AIAEKDLGNAAYKQKDFEKAHVHYDKAIELDPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMS   87 (127)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHH
Confidence            345667888888899999999988876 3344 5678888999999999999999999999988876542      1567


Q ss_pred             HHHHHHHHcCCchHHHHHHHHhhh
Q 009066          381 QLANIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       381 ~l~~~~~~~g~~~~a~~~~~~m~~  404 (545)
                      .++.+|...|++++|.+.|++..+
T Consensus        88 ~lg~~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           88 RAGNAFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHh
Confidence            788889999999999999988754

>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=98.23  E-value=1.1e-05  Score=77.75  Aligned_cols=120  Identities=11%  Similarity=0.013  Sum_probs=71.1

Q ss_pred             CcccHHHHHHHHHhcCCHHHHHHHHHhccC--CC----------------hhhHHHHHHHHHHcCChHHHHHHHHHHHHc
Q 009066          206 DTTALTPLISMYCKCGDLEDACKLFLEIQR--KD----------------VVTWNAMISGYAQHGKGEKALRLFDKMKDE  267 (545)
Q Consensus       206 ~~~~~~~li~~y~~~g~~~~A~~~f~~~~~--~~----------------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  267 (545)
                      +...+..+...|.+.|++++|...|++..+  |+                ...|..+..+|.+.|++++|+..|++.++.
T Consensus       146 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  225 (336)
T 1p5q_A          146 QSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALEL  225 (336)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            456788899999999999999999998763  32                245666666666666666666666666554


Q ss_pred             CCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHH
Q 009066          268 GMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEA  328 (545)
Q Consensus       268 g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  328 (545)
                      . +.+...+..+..++...|++++|...|++..+.  .+.+...+..+..++.+.|+.++|
T Consensus       226 ~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l--~P~~~~a~~~l~~~~~~~~~~~~a  283 (336)
T 1p5q_A          226 D-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQL--YPNNKAAKTQLAVCQQRIRRQLAR  283 (336)
T ss_dssp             C-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSSCHHHHHHHHHHHHHHHHHHHH
T ss_pred             C-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHHHHHH
Confidence            2 123444555555555555555555555555432  122334444444444444444444

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.22  E-value=1.7e-05  Score=65.62  Aligned_cols=108  Identities=14%  Similarity=-0.026  Sum_probs=62.3

Q ss_pred             HHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCC----HHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHH
Q 009066          274 ITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAK----PDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTL  347 (545)
Q Consensus       274 ~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~l  347 (545)
                      ..+..+...+...|++++|...|+...+   ..|+    ...+..+...|...|++++|...+++. ...| +...|..+
T Consensus        29 ~~~~~~a~~~~~~~~~~~A~~~~~~a~~---~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~  105 (148)
T 2dba_A           29 EQLRKEGNELFKCGDYGGALAAYTQALG---LDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALYRR  105 (148)
T ss_dssp             HHHHHHHHHHHTTTCHHHHHHHHHHHHT---SCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHH---HcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHHHH
Confidence            3344444444455555555555554442   1233    345555566666666666666666554 2223 45666777


Q ss_pred             HHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHH
Q 009066          348 LSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANI  385 (545)
Q Consensus       348 i~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~  385 (545)
                      ...+...|++++|...++++++++|++.. .+..+..+
T Consensus       106 a~~~~~~~~~~~A~~~~~~al~~~p~~~~-~~~~l~~~  142 (148)
T 2dba_A          106 SQALEKLGRLDQAVLDLQRCVSLEPKNKV-FQEALRNI  142 (148)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHCSSCHH-HHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHcCCCcHH-HHHHHHHH
Confidence            77777778888888888888777777654 44444443

>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=98.22  E-value=1.1e-05  Score=81.59  Aligned_cols=85  Identities=14%  Similarity=0.135  Sum_probs=42.6

Q ss_pred             HHHhcCCHHHHHHHHHhccC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHH
Q 009066          216 MYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLG  292 (545)
Q Consensus       216 ~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a  292 (545)
                      .|.+.|++++|.+.|++..+   .+..+|..+..+|.+.|++++|+..+++..+.. +.+..++..+..++...|++++|
T Consensus        15 ~~~~~g~~~~A~~~~~~Al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~g~~~eA   93 (477)
T 1wao_1           15 DYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFRAA   93 (477)
T ss_dssp             STTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHH
Confidence            34445555555555554432   234455555555555555555555555555432 11334444444555555555555


Q ss_pred             HHHHHHhHH
Q 009066          293 IQYFDSMVN  301 (545)
Q Consensus       293 ~~~~~~~~~  301 (545)
                      .+.+++..+
T Consensus        94 ~~~~~~al~  102 (477)
T 1wao_1           94 LRDYETVVK  102 (477)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            555555444

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.21  E-value=2.4e-05  Score=62.89  Aligned_cols=115  Identities=18%  Similarity=0.094  Sum_probs=61.4

Q ss_pred             hhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHH
Q 009066          239 VTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDL  318 (545)
Q Consensus       239 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~  318 (545)
                      ..|..+...+...|++++|+..|++..... +.+...+..+...+...|++++|...++...+.  .+.+...+..+...
T Consensus        13 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~   89 (131)
T 2vyi_A           13 ERLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICI--DPAYSKAYGRMGLA   89 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhc--CccCHHHHHHHHHH
Confidence            345555555555666666666666655432 223445555555555666666666666655542  13335555566666


Q ss_pred             HhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCC
Q 009066          319 LGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKR  356 (545)
Q Consensus       319 ~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~  356 (545)
                      |.+.|++++|...|++. ...| +...+..+...+...|+
T Consensus        90 ~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~  129 (131)
T 2vyi_A           90 LSSLNKHVEAVAYYKKALELDPDNETYKSNLKIAELKLRE  129 (131)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTT
T ss_pred             HHHhCCHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHhc
Confidence            66666666666666554 2222 34455555555554443

>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=98.18  E-value=1.2e-05  Score=65.71  Aligned_cols=100  Identities=7%  Similarity=-0.124  Sum_probs=65.1

Q ss_pred             CHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHH
Q 009066          272 DSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLS  349 (545)
Q Consensus       272 ~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~  349 (545)
                      +...+..+...+...|++++|...|+...+.  .+.+...+..+..+|...|++++|...+++. ...| +...|..+..
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~   85 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQ   85 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhh--CcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHHH
Confidence            4455555566666666666666666665543  2334566666677777777777777766655 2223 4567777777


Q ss_pred             HHHhcCCHHHHHHHHHHHhcCCCC
Q 009066          350 ACRVHKRLDLAEFAAMNLFNLNPA  373 (545)
Q Consensus       350 ~~~~~g~~~~A~~~~~~~~~~~p~  373 (545)
                      .+...|++++|+..+++++++.|+
T Consensus        86 ~~~~~~~~~~A~~~~~~a~~~~p~  109 (137)
T 3q49_B           86 CQLEMESYDEAIANLQRAYSLAKE  109 (137)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHHChh
Confidence            777788888888888877777666

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.16  E-value=9.7e-06  Score=63.27  Aligned_cols=98  Identities=14%  Similarity=0.031  Sum_probs=58.7

Q ss_pred             HHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC---CHhHHHHHHHHH
Q 009066          276 FVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP---QPAIFGTLLSAC  351 (545)
Q Consensus       276 ~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p---~~~~~~~li~~~  351 (545)
                      +..+...+...|++++|...+++..+.  .+.+...+..+...|...|++++|...+++. ...|   +...|..+...+
T Consensus         9 ~~~~~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~~~   86 (112)
T 2kck_A            9 YYLEGVLQYDAGNYTESIDLFEKAIQL--DPEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKADAL   86 (112)
T ss_dssp             GGGHHHHHHSSCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHHHHH
Confidence            334444455555555555555555442  1334455556666666666666666666655 2223   356677777777


Q ss_pred             Hhc-CCHHHHHHHHHHHhcCCCCCC
Q 009066          352 RVH-KRLDLAEFAAMNLFNLNPANA  375 (545)
Q Consensus       352 ~~~-g~~~~A~~~~~~~~~~~p~~~  375 (545)
                      ... |++++|...++++.+..|.++
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~~p~~~  111 (112)
T 2kck_A           87 RYIEGKEVEAEIAEARAKLEHHHHH  111 (112)
T ss_dssp             TTCSSCSHHHHHHHHHHGGGCCCCC
T ss_pred             HHHhCCHHHHHHHHHHHhhcccCCC
Confidence            777 777777777777777777653

>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=98.16  E-value=2.4e-05  Score=78.79  Aligned_cols=144  Identities=13%  Similarity=0.037  Sum_probs=99.2

Q ss_pred             hhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHH
Q 009066          238 VVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVD  317 (545)
Q Consensus       238 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~  317 (545)
                      ...|..+...|.+.|++++|+..|++.++..  |+...+          . -+...+    ..     +.....|..+..
T Consensus       268 a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~--p~~~~~----------~-~~~~~~----~~-----~~~~~~~~nla~  325 (457)
T 1kt0_A          268 AAIVKEKGTVYFKGGKYMQAVIQYGKIVSWL--EMEYGL----------S-EKESKA----SE-----SFLLAAFLNLAM  325 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--TTCCSC----------C-HHHHHH----HH-----HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh--cccccC----------C-hHHHHH----HH-----HHHHHHHHHHHH
Confidence            4456666777777777777777777766531  111000          0 000000    00     112467888889


Q ss_pred             HHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHH
Q 009066          318 LLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDV  395 (545)
Q Consensus       318 ~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a  395 (545)
                      +|.+.|++++|+..+++. ...| +...|..+..+|...|++++|+..|+++++++|++.. ++..+..++.+.|+++++
T Consensus       326 ~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~~~~-a~~~l~~~~~~~~~~~~a  404 (457)
T 1kt0_A          326 CYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKA-ARLQISMCQKKAKEHNER  404 (457)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC----C-HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHHHHHHHHH
Confidence            999999999999998877 3334 6788999999999999999999999999999999988 999999999999999887


Q ss_pred             HH-HHHHhhh
Q 009066          396 AR-IRLSMKE  404 (545)
Q Consensus       396 ~~-~~~~m~~  404 (545)
                      .+ .++.|..
T Consensus       405 ~~~~~~~~f~  414 (457)
T 1kt0_A          405 DRRIYANMFK  414 (457)
T ss_dssp             HHHHHHHC--
T ss_pred             HHHHHHHHHh
Confidence            64 4555543

>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=98.14  E-value=4.8e-06  Score=73.38  Aligned_cols=145  Identities=10%  Similarity=0.011  Sum_probs=82.9

Q ss_pred             HHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccC---CCh----------------hhH
Q 009066          181 GCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDV----------------VTW  241 (545)
Q Consensus       181 ~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~---~~~----------------~~~  241 (545)
                      .....+.++.+.+.+....... ......+..+...|.+.|++++|...|++..+   .+.                ..|
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (198)
T 2fbn_A           13 GRENLYFQGAKKSIYDYTDEEK-VQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCN   91 (198)
T ss_dssp             ---------CCCSGGGCCHHHH-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHH
T ss_pred             hhhhhhhccccCchhhCCHHHH-HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHH
Confidence            3445566666666554322211 11234566788899999999999999998764   232                566


Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhH
Q 009066          242 NAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGR  321 (545)
Q Consensus       242 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~  321 (545)
                      ..+..+|.+.|++++|+..+++..... +.+...+..+..++...|++++|...|+...+.  .+.+...+..+..++..
T Consensus        92 ~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~  168 (198)
T 2fbn_A           92 LNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASL--NPNNLDIRNSYELCVNK  168 (198)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHH
Confidence            666667777777777777777766642 224455556666666666677766666666542  12344555555555555


Q ss_pred             cCCHHHHH
Q 009066          322 AGKLVEAV  329 (545)
Q Consensus       322 ~g~~~~A~  329 (545)
                      .++.+++.
T Consensus       169 ~~~~~~~~  176 (198)
T 2fbn_A          169 LKEARKKD  176 (198)
T ss_dssp             HHHHHC--
T ss_pred             HHHHHHHH
Confidence            55555444

>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=98.13  E-value=0.00044  Score=65.44  Aligned_cols=216  Identities=11%  Similarity=0.081  Sum_probs=154.4

Q ss_pred             ccCcH-HHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCC----------HHHHHHHHHhccC---CChhhHHHHHHHHH
Q 009066          184 HLSSL-QLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGD----------LEDACKLFLEIQR---KDVVTWNAMISGYA  249 (545)
Q Consensus       184 ~~~~~-~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~----------~~~A~~~f~~~~~---~~~~~~~~li~~~~  249 (545)
                      +.|.+ ++|..+...++... |.+..+|+.--..+...|.          ++++..+++.+..   ++..+|+.-...+.
T Consensus        41 ~~~e~s~eaL~~t~~~L~~n-P~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~PKny~aW~hR~wlL~  119 (331)
T 3dss_A           41 QAGELDESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLS  119 (331)
T ss_dssp             HTTCCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HcCCCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHh
Confidence            34443 57888889888775 3444556544444433333          6788888888764   57788998888888


Q ss_pred             HcCC--hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCc-HHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHc----
Q 009066          250 QHGK--GEKALRLFDKMKDEGMKPDSITFVALLLACNHAGL-VDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRA----  322 (545)
Q Consensus       250 ~~g~--~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~-~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~----  322 (545)
                      ..|.  +++++.+++++.+...+ |...|+.-...+...|. .+++.+.+..+++.  .+.+...|+....++.+.    
T Consensus       120 ~l~~~~~~~EL~~~~k~l~~dpr-Ny~AW~~R~~vl~~l~~~~~eel~~~~~~I~~--~p~N~SAW~~R~~ll~~l~~~~  196 (331)
T 3dss_A          120 RLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITR--NFSNYSSWHYRSCLLPQLHPQP  196 (331)
T ss_dssp             HCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHHSCCC
T ss_pred             ccCcccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHhhhcc
Confidence            8884  89999999999987543 66677766666677777 68999999999874  356677777776666655    


Q ss_pred             ----------CCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhc-----------CCHHHHHHHHHHHhcCCCCCCchhH
Q 009066          323 ----------GKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVH-----------KRLDLAEFAAMNLFNLNPANAAGCY  379 (545)
Q Consensus       323 ----------g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~-----------g~~~~A~~~~~~~~~~~p~~~~~~~  379 (545)
                                +.++++++.+.+. ...| |...|+-+-..+...           +.++++++.++++++++|++.- ++
T Consensus       197 ~~~~~~~~~~~~~~eEle~~~~ai~~~P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~~pd~~w-~l  275 (331)
T 3dss_A          197 DSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQELEPENKW-CL  275 (331)
T ss_dssp             ------CCCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHHCTTCHH-HH
T ss_pred             ccccccccchHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHhhCcccch-HH
Confidence                      4588899988877 2334 778888776666655           4578999999999999999854 44


Q ss_pred             HHHHHHH---HHcCCchHHHHHHHHhhh
Q 009066          380 VQLANIY---AAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       380 ~~l~~~~---~~~g~~~~a~~~~~~m~~  404 (545)
                      ..++...   ...|..++....+.++.+
T Consensus       276 ~~~~~~~~~~~~~~~~~~~~~~l~~l~~  303 (331)
T 3dss_A          276 LTIILLMRALDPLLYEKETLQYFSTLKA  303 (331)
T ss_dssp             HHHHHHHHHHCTTTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhcccccHHHHHHHHHHHHH
Confidence            4443322   235667778888888765

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=98.13  E-value=7.7e-06  Score=68.03  Aligned_cols=92  Identities=13%  Similarity=0.005  Sum_probs=70.2

Q ss_pred             HHHHHHHHhHcCCHHHHHHHHHhC-CCCCC-------------HhHHHHHHHHHHhcCCHHHHHHHHHHHhcC-------
Q 009066          312 YTCMVDLLGRAGKLVEAVDLIKKM-PFKPQ-------------PAIFGTLLSACRVHKRLDLAEFAAMNLFNL-------  370 (545)
Q Consensus       312 ~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-------------~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-------  370 (545)
                      +......+.+.|++++|+..|++. .+.|+             ...|..+..++...|++++|+..+++++++       
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            344555556666666666666655 11222             237888888888899999999888888888       


Q ss_pred             CCCCCchhH----HHHHHHHHHcCCchHHHHHHHHhhh
Q 009066          371 NPANAAGCY----VQLANIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       371 ~p~~~~~~~----~~l~~~~~~~g~~~~a~~~~~~m~~  404 (545)
                      +|++.. +|    ...+.++...|++++|...|++..+
T Consensus        94 ~pd~~~-A~~~~~~~rG~aL~~lgr~eEAl~~y~kAle  130 (159)
T 2hr2_A           94 NQDEGK-LWISAVYSRALALDGLGRGAEAMPEFKKVVE  130 (159)
T ss_dssp             TSTHHH-HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CCchHH-HHHHHHHhHHHHHHHCCCHHHHHHHHHHHHh
Confidence            998877 88    9999999999999999999998865

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.11  E-value=1.2e-05  Score=64.54  Aligned_cols=96  Identities=9%  Similarity=0.021  Sum_probs=61.8

Q ss_pred             HHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcC
Q 009066          278 ALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHK  355 (545)
Q Consensus       278 ~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g  355 (545)
                      .+...+...|++++|...++...+.  .+.+...|..+..++.+.|++++|+..|++. ...| +...|..+..++...|
T Consensus        22 ~~g~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~~~g   99 (121)
T 1hxi_A           22 EEGLSMLKLANLAEAALAFEAVCQK--EPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEH   99 (121)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcC
Confidence            3444556667777777777766653  2345666677777777777777777777665 3334 4567777777888888


Q ss_pred             CHHHHHHHHHHHhcCCCCCC
Q 009066          356 RLDLAEFAAMNLFNLNPANA  375 (545)
Q Consensus       356 ~~~~A~~~~~~~~~~~p~~~  375 (545)
                      ++++|+..++++++.+|++.
T Consensus       100 ~~~~A~~~~~~al~~~P~~~  119 (121)
T 1hxi_A          100 NANAALASLRAWLLSQPQYE  119 (121)
T ss_dssp             HHHHHHHHHHHHHC------
T ss_pred             CHHHHHHHHHHHHHhCcCCC
Confidence            88888888888888887653

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.11  E-value=2.2e-05  Score=78.26  Aligned_cols=163  Identities=9%  Similarity=-0.061  Sum_probs=84.2

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHc-CCCCCHH----HHHHHHHHHHccCcHHHHHHHHHHhHHh---cCCCC-CHHH
Q 009066          241 WNAMISGYAQHGKGEKALRLFDKMKDE-GMKPDSI----TFVALLLACNHAGLVDLGIQYFDSMVND---YGIAA-KPDH  311 (545)
Q Consensus       241 ~~~li~~~~~~g~~~~A~~~~~~m~~~-g~~p~~~----t~~~ll~a~~~~g~~~~a~~~~~~~~~~---~~~~~-~~~~  311 (545)
                      +..+...|...|++++|.+++.++... +..++..    ..+.+-..+...|+.+++..++......   .+..+ -..+
T Consensus        58 l~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  137 (434)
T 4b4t_Q           58 ILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSL  137 (434)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHH
Confidence            445555666666666666666555431 1111111    1111222233456666666665554321   11111 2445


Q ss_pred             HHHHHHHHhHcCCHHHHHHHHHhC-----C--CCCC-HhHHHHHHHHHHhcCCHHHHHHHHHHHhcCC---CCCC---ch
Q 009066          312 YTCMVDLLGRAGKLVEAVDLIKKM-----P--FKPQ-PAIFGTLLSACRVHKRLDLAEFAAMNLFNLN---PANA---AG  377 (545)
Q Consensus       312 ~~~li~~~~~~g~~~~A~~~~~~m-----~--~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~---p~~~---~~  377 (545)
                      +..|...|...|++++|..++++.     +  -+|. ..++..++..|...|++++|...++++....   +++.   ..
T Consensus       138 ~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~  217 (434)
T 4b4t_Q          138 SIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAE  217 (434)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHH
T ss_pred             HHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHH
Confidence            566667777777777777666654     1  1121 2456666666777777777777776665432   1111   11


Q ss_pred             hHHHHHHHHHHcCCchHHHHHHHHhh
Q 009066          378 CYVQLANIYAAMKKWDDVARIRLSMK  403 (545)
Q Consensus       378 ~~~~l~~~~~~~g~~~~a~~~~~~m~  403 (545)
                      .+..++..+...|++++|.+.+....
T Consensus       218 ~~~~~g~~~~~~~~y~~A~~~~~~a~  243 (434)
T 4b4t_Q          218 LDLMSGILHCEDKDYKTAFSYFFESF  243 (434)
T ss_dssp             HHHHHHHHTTSSSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            44555666666677777766665553

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.10  E-value=1.1e-05  Score=65.04  Aligned_cols=89  Identities=16%  Similarity=0.095  Sum_probs=54.0

Q ss_pred             HHHHHhHcCCHHHHHHHHHhC-CCCCCH----hHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCC---CchhHHHHHHHH
Q 009066          315 MVDLLGRAGKLVEAVDLIKKM-PFKPQP----AIFGTLLSACRVHKRLDLAEFAAMNLFNLNPAN---AAGCYVQLANIY  386 (545)
Q Consensus       315 li~~~~~~g~~~~A~~~~~~m-~~~p~~----~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~---~~~~~~~l~~~~  386 (545)
                      +...+.+.|++++|.+.|++. ...|+.    ..+..+...+...|++++|...++++++..|++   .. ++..++.+|
T Consensus         8 ~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~-~~~~la~~~   86 (129)
T 2xev_A            8 VAFDALKNGKYDDASQLFLSFLELYPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAG-GLLKLGLSQ   86 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHH-HHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHH-HHHHHHHHH
Confidence            444555666666666666554 112222    355556666666677777777777766666665   33 566666677


Q ss_pred             HHcCCchHHHHHHHHhhh
Q 009066          387 AAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       387 ~~~g~~~~a~~~~~~m~~  404 (545)
                      ...|++++|...++...+
T Consensus        87 ~~~g~~~~A~~~~~~~~~  104 (129)
T 2xev_A           87 YGEGKNTEAQQTLQQVAT  104 (129)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHH
Confidence            777777777777666654

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.10  E-value=1.9e-05  Score=66.83  Aligned_cols=64  Identities=14%  Similarity=0.076  Sum_probs=53.5

Q ss_pred             HhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhhC
Q 009066          341 PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKEN  405 (545)
Q Consensus       341 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  405 (545)
                      ...|..+..+|...|++++|+..++++++++|++.. +|..++.+|...|++++|...+++..+.
T Consensus        63 ~~~~~nla~~~~~~~~~~~A~~~~~~al~~~p~~~~-a~~~~g~~~~~~g~~~~A~~~~~~al~l  126 (162)
T 3rkv_A           63 IPLYANMSQCYLNIGDLHEAEETSSEVLKREETNEK-ALFRRAKARIAAWKLDEAEEDLKLLLRN  126 (162)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHH-HHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCcchH-HHHHHHHHHHHHhcHHHHHHHHHHHHhc
Confidence            356777888888888888888888888888888877 8888888888888888888888877653

>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=98.10  E-value=7.8e-06  Score=82.78  Aligned_cols=115  Identities=7%  Similarity=-0.037  Sum_probs=70.0

Q ss_pred             HHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHH
Q 009066          283 CNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLA  360 (545)
Q Consensus       283 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A  360 (545)
                      +...|++++|.+.+++..+.  .+.+...|..+..+|.+.|++++|++.+++. ...| +...|..+..+|...|++++|
T Consensus        16 ~~~~g~~~~A~~~~~~Al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~g~~~eA   93 (477)
T 1wao_1           16 YFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKFRAA   93 (477)
T ss_dssp             TTTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHH
Confidence            34556666666666665543  1334566666666666666666666666655 2233 445666777777777777777


Q ss_pred             HHHHHHHhcCCCCCCchhHHHHHHH--HHHcCCchHHHHHHH
Q 009066          361 EFAAMNLFNLNPANAAGCYVQLANI--YAAMKKWDDVARIRL  400 (545)
Q Consensus       361 ~~~~~~~~~~~p~~~~~~~~~l~~~--~~~~g~~~~a~~~~~  400 (545)
                      +..++++++++|++.. ++..+..+  +.+.|++++|.+.++
T Consensus        94 ~~~~~~al~~~p~~~~-~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           94 LRDYETVVKVKPHDKD-AKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHSTTCTT-HHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHhCCCCHH-HHHHHHHHHHHHHHHHHHHHhcccc
Confidence            7777777777777665 66666666  666677777777666

>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=98.09  E-value=1.1e-05  Score=65.28  Aligned_cols=31  Identities=13%  Similarity=-0.077  Sum_probs=19.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhcCCCC
Q 009066          343 IFGTLLSACRVHKRLDLAEFAAMNLFNLNPA  373 (545)
Q Consensus       343 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~  373 (545)
                      +|..+...+...|++++|+..|++.++..|+
T Consensus        85 ~~~~lg~~~~~~~~~~~A~~~~~kal~~~~~  115 (127)
T 4gcn_A           85 AMSRAGNAFQKQNDLSLAVQWFHRSLSEFRD  115 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCcC
Confidence            4555556666667777777777766666554

>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=98.09  E-value=3.1e-05  Score=62.21  Aligned_cols=106  Identities=8%  Similarity=-0.035  Sum_probs=54.6

Q ss_pred             HHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC----C-CCCC----HhHHHHH
Q 009066          277 VALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM----P-FKPQ----PAIFGTL  347 (545)
Q Consensus       277 ~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~-~~p~----~~~~~~l  347 (545)
                      ..+...+...|++++|...++...+.  .+.+...+..+...|...|++++|...+++.    + ..++    ..+|..+
T Consensus         8 ~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~l   85 (131)
T 1elr_A            8 KELGNDAYKKKDFDTALKHYDKAKEL--DPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARI   85 (131)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHHH
Confidence            33334444444555555554444432  1233444455555555555555555555444    1 0112    4456666


Q ss_pred             HHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHH
Q 009066          348 LSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIY  386 (545)
Q Consensus       348 i~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~  386 (545)
                      ...+...|++++|...++++++..|+ .. ....+..+.
T Consensus        86 a~~~~~~~~~~~A~~~~~~~~~~~~~-~~-~~~~l~~~~  122 (131)
T 1elr_A           86 GNSYFKEEKYKDAIHFYNKSLAEHRT-PD-VLKKCQQAE  122 (131)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCCC-HH-HHHHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHhCCC-HH-HHHHHHHHH
Confidence            66677777777777777777776663 22 444444443

>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=98.06  E-value=9.6e-06  Score=65.34  Aligned_cols=96  Identities=9%  Similarity=0.040  Sum_probs=83.7

Q ss_pred             HHHHHHHHHHHhHcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCC-------CchhH
Q 009066          309 PDHYTCMVDLLGRAGKLVEAVDLIKKM-PFK-PQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPAN-------AAGCY  379 (545)
Q Consensus       309 ~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~-p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~-------~~~~~  379 (545)
                      ...+..+...+...|++++|...|++. ... .+...+..+...+...|++++|...++++++..|++       .. ++
T Consensus         4 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~-~~   82 (131)
T 1elr_A            4 ALKEKELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAK-AY   82 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHH-HH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHH-HH
Confidence            456788899999999999999999887 222 467788999999999999999999999999988765       55 88


Q ss_pred             HHHHHHHHHcCCchHHHHHHHHhhhC
Q 009066          380 VQLANIYAAMKKWDDVARIRLSMKEN  405 (545)
Q Consensus       380 ~~l~~~~~~~g~~~~a~~~~~~m~~~  405 (545)
                      ..++.+|...|++++|.+.++...+.
T Consensus        83 ~~la~~~~~~~~~~~A~~~~~~~~~~  108 (131)
T 1elr_A           83 ARIGNSYFKEEKYKDAIHFYNKSLAE  108 (131)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            99999999999999999999988763

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.03  E-value=5.2e-05  Score=61.03  Aligned_cols=94  Identities=13%  Similarity=0.023  Sum_probs=57.2

Q ss_pred             HHHHccCcHHHHHHHHHHhHHhcCCCCCH---HHHHHHHHHHhHcCCHHHHHHHHHhC-CCCCC----HhHHHHHHHHHH
Q 009066          281 LACNHAGLVDLGIQYFDSMVNDYGIAAKP---DHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQ----PAIFGTLLSACR  352 (545)
Q Consensus       281 ~a~~~~g~~~~a~~~~~~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~----~~~~~~li~~~~  352 (545)
                      ..+...|++++|...|+.+.+..  +.+.   ..+..+..+|.+.|++++|...|++. ...|+    ...+..+...+.
T Consensus        10 ~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~~~~   87 (129)
T 2xev_A           10 FDALKNGKYDDASQLFLSFLELY--PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLSQY   87 (129)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC--SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHHC--CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHH
Confidence            34445566666666666555431  1222   35555666666666666666666655 11232    345666777777


Q ss_pred             hcCCHHHHHHHHHHHhcCCCCCCc
Q 009066          353 VHKRLDLAEFAAMNLFNLNPANAA  376 (545)
Q Consensus       353 ~~g~~~~A~~~~~~~~~~~p~~~~  376 (545)
                      ..|++++|...++++++..|++..
T Consensus        88 ~~g~~~~A~~~~~~~~~~~p~~~~  111 (129)
T 2xev_A           88 GEGKNTEAQQTLQQVATQYPGSDA  111 (129)
T ss_dssp             HTTCHHHHHHHHHHHHHHSTTSHH
T ss_pred             HcCCHHHHHHHHHHHHHHCCCChH
Confidence            788888888888888877777653

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.02  E-value=0.00011  Score=73.19  Aligned_cols=159  Identities=8%  Similarity=-0.054  Sum_probs=79.0

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhccC-----CCh----hhHHHHHHHHHHcCChHHHHHHHHHHHH----cCCCCC-HHHH
Q 009066          211 TPLISMYCKCGDLEDACKLFLEIQR-----KDV----VTWNAMISGYAQHGKGEKALRLFDKMKD----EGMKPD-SITF  276 (545)
Q Consensus       211 ~~li~~y~~~g~~~~A~~~f~~~~~-----~~~----~~~~~li~~~~~~g~~~~A~~~~~~m~~----~g~~p~-~~t~  276 (545)
                      ..|+..|.+.|++++|.+.+..+.+     ++.    ...+.+-..+...|++++|+.++++...    .+..+. ..++
T Consensus        59 ~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  138 (434)
T 4b4t_Q           59 LELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLS  138 (434)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHH
Confidence            3455566666666666665555432     010    1122222223334566666666655443    122222 2344


Q ss_pred             HHHHHHHHccCcHHHHHHHHHHhHHhcCCCC----CHHHHHHHHHHHhHcCCHHHHHHHHHhC-------CCCCC--HhH
Q 009066          277 VALLLACNHAGLVDLGIQYFDSMVNDYGIAA----KPDHYTCMVDLLGRAGKLVEAVDLIKKM-------PFKPQ--PAI  343 (545)
Q Consensus       277 ~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~----~~~~~~~li~~~~~~g~~~~A~~~~~~m-------~~~p~--~~~  343 (545)
                      ..+...+...|++++|..+++.+.....-..    ....+..++.+|...|++++|..++++.       +..|.  ...
T Consensus       139 ~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~  218 (434)
T 4b4t_Q          139 IKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAEL  218 (434)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHH
T ss_pred             HHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHH
Confidence            4555666666666666666665543211111    1345666666666666666666666544       11111  133


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhc
Q 009066          344 FGTLLSACRVHKRLDLAEFAAMNLFN  369 (545)
Q Consensus       344 ~~~li~~~~~~g~~~~A~~~~~~~~~  369 (545)
                      +..+...+...|++++|...|.+.++
T Consensus       219 ~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          219 DLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             HHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            44444555566666666666655543

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.01  E-value=3.3e-05  Score=64.68  Aligned_cols=61  Identities=13%  Similarity=0.097  Sum_probs=38.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhcCCC------CCCchhHHHHHHHHHHcCCchHHHHHHHHhhh
Q 009066          343 IFGTLLSACRVHKRLDLAEFAAMNLFNLNP------ANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       343 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~p------~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  404 (545)
                      .+..+...+...|++++|...+++.++..+      .... ++..++.+|...|++++|.+.+++..+
T Consensus        91 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~-~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           91 SCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGR-ACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHH-HHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            455555566666666666666666654321      1122 567778888888888888888776543

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=98.01  E-value=3.7e-05  Score=74.98  Aligned_cols=137  Identities=12%  Similarity=0.019  Sum_probs=101.2

Q ss_pred             hhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHH
Q 009066          239 VTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDL  318 (545)
Q Consensus       239 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~  318 (545)
                      ..|..+...+.+.|++++|+..|++.++.  .|+..          .....+       ...+  ..+.+...|..+..+
T Consensus       224 ~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~--~~~~~----------~~~~~~-------~~~~--~~~~~~~~~~nla~~  282 (370)
T 1ihg_A          224 EDLKNIGNTFFKSQNWEMAIKKYTKVLRY--VEGSR----------AAAEDA-------DGAK--LQPVALSCVLNIGAC  282 (370)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HHHHH----------HHSCHH-------HHGG--GHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHH--hhcCc----------cccChH-------HHHH--HHHHHHHHHHHHHHH
Confidence            45777777788888888888888877652  01000          000111       1111  112346778889999


Q ss_pred             HhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHH
Q 009066          319 LGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVA  396 (545)
Q Consensus       319 ~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~  396 (545)
                      |.+.|++++|++.+++. ...| +...|..+..+|...|++++|+..++++++++|++.. .+..+..++...++.+++.
T Consensus       283 ~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~~~~-~~~~l~~~~~~~~~~~~a~  361 (370)
T 1ihg_A          283 KLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKA-IQAELLKVKQKIKAQKDKE  361 (370)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHHHHHHHHHH
T ss_pred             HHhccCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHHHHHHHHHH
Confidence            99999999999999887 4455 5678899999999999999999999999999999887 8888999998888877765


Q ss_pred             H
Q 009066          397 R  397 (545)
Q Consensus       397 ~  397 (545)
                      +
T Consensus       362 k  362 (370)
T 1ihg_A          362 K  362 (370)
T ss_dssp             H
T ss_pred             H
Confidence            4

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.00  E-value=3e-05  Score=64.95  Aligned_cols=95  Identities=13%  Similarity=0.008  Sum_probs=47.3

Q ss_pred             HHHHHHHHHccCcHHHHHHHHHHhHHhcCCCC----CHHHHHHHHHHHhHcCCHHHHHHHHHhC-------CCCC-CHhH
Q 009066          276 FVALLLACNHAGLVDLGIQYFDSMVNDYGIAA----KPDHYTCMVDLLGRAGKLVEAVDLIKKM-------PFKP-QPAI  343 (545)
Q Consensus       276 ~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~----~~~~~~~li~~~~~~g~~~~A~~~~~~m-------~~~p-~~~~  343 (545)
                      +..+...+...|++++|...++...+...-.+    ....+..+...+...|++++|.+.+++.       +..+ ....
T Consensus        52 ~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~  131 (164)
T 3ro3_A           52 YSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRA  131 (164)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHH
Confidence            33344444445555555554444332110001    1234445555556666666666555543       1001 1234


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhcC
Q 009066          344 FGTLLSACRVHKRLDLAEFAAMNLFNL  370 (545)
Q Consensus       344 ~~~li~~~~~~g~~~~A~~~~~~~~~~  370 (545)
                      +..+...+...|++++|...+++.+++
T Consensus       132 ~~~la~~~~~~g~~~~A~~~~~~a~~~  158 (164)
T 3ro3_A          132 CWSLGNAYTALGNHDQAMHFAEKHLEI  158 (164)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            556666677777777777777766543

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.99  E-value=1.7e-05  Score=76.33  Aligned_cols=147  Identities=10%  Similarity=-0.028  Sum_probs=81.1

Q ss_pred             hhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHH
Q 009066          239 VTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDL  318 (545)
Q Consensus       239 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~  318 (545)
                      ..|..+...+.+.|++++|+..|++....  .|+...       +...|+.+++...+.           ...|..+..+
T Consensus       180 ~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~l~-----------~~~~~nla~~  239 (338)
T 2if4_A          180 DRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALAVK-----------NPCHLNIAAC  239 (338)
T ss_dssp             HHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHHHH-----------THHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHHHH-----------HHHHHHHHHH
Confidence            45667777888899999999999998764  444432       233344444433221           2367788888


Q ss_pred             HhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHH-HHcCCchHH
Q 009066          319 LGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIY-AAMKKWDDV  395 (545)
Q Consensus       319 ~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~-~~~g~~~~a  395 (545)
                      |.+.|++++|+..+++. ...| +...|..+..+|...|++++|+..|+++++++|++.. ++..|..+. ...+..+.+
T Consensus       240 ~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~-a~~~L~~l~~~~~~~~~~a  318 (338)
T 2if4_A          240 LIKLKRYDEAIGHCNIVLTEEEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKA-IRRELRALAEQEKALYQKQ  318 (338)
T ss_dssp             HHTTTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC---------------------------
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHH-HHHHHHHHHHHHHHHHHHH
Confidence            88999999999888876 3334 5678888888999999999999999999999998877 777777773 445667778


Q ss_pred             HHHHHHhhhCC
Q 009066          396 ARIRLSMKENN  406 (545)
Q Consensus       396 ~~~~~~m~~~~  406 (545)
                      .+.++.|....
T Consensus       319 ~~~~~~~l~~~  329 (338)
T 2if4_A          319 KEMYKGIFKGK  329 (338)
T ss_dssp             -----------
T ss_pred             HHHHHHhhCCC
Confidence            88888876543

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=97.98  E-value=4.5e-06  Score=66.49  Aligned_cols=61  Identities=18%  Similarity=0.115  Sum_probs=33.3

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhh
Q 009066          342 AIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMK  403 (545)
Q Consensus       342 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  403 (545)
                      ..|..+...+...|++++|+..++++++.+|++.. ++..++.+|...|++++|...+++..
T Consensus        28 ~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~-~~~~l~~~~~~~g~~~~A~~~~~~al   88 (117)
T 3k9i_A           28 ECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQA-LRVFYAMVLYNLGRYEQGVELLLKII   88 (117)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchH-HHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            34455555555555555555555555555555544 55555555555555555555555443

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.94  E-value=9.5e-05  Score=74.46  Aligned_cols=125  Identities=9%  Similarity=0.032  Sum_probs=97.4

Q ss_pred             HHHccCcHHHHHHHHHHhHHhcC--CC---C-CHHHHHHHHHHHhHcCCHHHHHHHHHhC---------CCCCCH-hHHH
Q 009066          282 ACNHAGLVDLGIQYFDSMVNDYG--IA---A-KPDHYTCMVDLLGRAGKLVEAVDLIKKM---------PFKPQP-AIFG  345 (545)
Q Consensus       282 a~~~~g~~~~a~~~~~~~~~~~~--~~---~-~~~~~~~li~~~~~~g~~~~A~~~~~~m---------~~~p~~-~~~~  345 (545)
                      .+...|++++|..++++..+...  +.   | ...+++.|..+|...|++++|..++++.         +..|++ .+++
T Consensus       318 ~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~  397 (490)
T 3n71_A          318 KARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVM  397 (490)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHH
Confidence            35578899999888877665321  11   2 2567889999999999999999888765         344554 6789


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHhc-----CCCCCCc--hhHHHHHHHHHHcCCchHHHHHHHHhhhCC
Q 009066          346 TLLSACRVHKRLDLAEFAAMNLFN-----LNPANAA--GCYVQLANIYAAMKKWDDVARIRLSMKENN  406 (545)
Q Consensus       346 ~li~~~~~~g~~~~A~~~~~~~~~-----~~p~~~~--~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  406 (545)
                      .|...|...|++++|+.+++++++     ++|+.+.  .....|..++...|++++|..++.++++.-
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~~  465 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREAA  465 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999875     5777654  134577888889999999999999998743

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=97.93  E-value=2.3e-05  Score=66.42  Aligned_cols=128  Identities=13%  Similarity=-0.016  Sum_probs=82.8

Q ss_pred             hhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHH
Q 009066          239 VTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDL  318 (545)
Q Consensus       239 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~  318 (545)
                      ..+......+.+.|++++|+..|++.+..            +.............  +..+     .+.+...|..+..+
T Consensus        12 ~~~~~~G~~~~~~~~~~~A~~~y~~al~~------------~~~~~~~~~~~~~~--~~~~-----~~~~~~~~~nla~~   72 (162)
T 3rkv_A           12 EALRQKGNELFVQKDYKEAIDAYRDALTR------------LDTLILREKPGEPE--WVEL-----DRKNIPLYANMSQC   72 (162)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH------------HHHHHHTSCTTSHH--HHHH-----HHTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHH------------HHHhcccCCCCHHH--HHHH-----HHHHHHHHHHHHHH
Confidence            45666666777777777777777776542            00000000000000  0000     12335678888899


Q ss_pred             HhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHH
Q 009066          319 LGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANI  385 (545)
Q Consensus       319 ~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~  385 (545)
                      |.+.|++++|+..+++. ...| +...|..+..++...|++++|...++++++++|++.......|..+
T Consensus        73 ~~~~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~l~~~  141 (162)
T 3rkv_A           73 YLNIGDLHEAEETSSEVLKREETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNHPAAASVVAREMKIV  141 (162)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHH
T ss_pred             HHhcCcHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcCCCCHHHHHHHHHHH
Confidence            99999999999988877 3334 5678899999999999999999999999999998863134444333

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.92  E-value=7.4e-06  Score=64.11  Aligned_cols=92  Identities=12%  Similarity=-0.031  Sum_probs=73.6

Q ss_pred             CHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCC------CchhH
Q 009066          308 KPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPAN------AAGCY  379 (545)
Q Consensus       308 ~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~------~~~~~  379 (545)
                      +...+..+...+.+.|++++|.+.|++. ...| +...|..+..++...|++++|+..++++++++|++      .. .+
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~-~~   81 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTSTAEHVAIRSK-LQ   81 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSSTTSHHHHHH-HH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCccHHHHHHH-HH
Confidence            4566777888888899999999888876 2234 66788899999999999999999999999999987      54 67


Q ss_pred             HHHHHHHHHcCCchHHHHHHH
Q 009066          380 VQLANIYAAMKKWDDVARIRL  400 (545)
Q Consensus       380 ~~l~~~~~~~g~~~~a~~~~~  400 (545)
                      ..++.++...|++++|...++
T Consensus        82 ~~~~~~~~~~~~~~~a~~~~~  102 (111)
T 2l6j_A           82 YRLELAQGAVGSVQIPVVEVD  102 (111)
T ss_dssp             HHHHHHHHHHHCCCCCSSSSS
T ss_pred             HHHHHHHHHHHhHhhhHhHHH
Confidence            777888888777776655443

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.91  E-value=3e-05  Score=74.65  Aligned_cols=113  Identities=10%  Similarity=-0.047  Sum_probs=88.0

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHHhc
Q 009066          275 TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVH  354 (545)
Q Consensus       275 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~li~~~~~~  354 (545)
                      .+..+...+...|++++|...|++..+.   .|+...       +...|+.+++...+.       ...|..+..+|.+.
T Consensus       181 ~~~~~g~~~~~~g~~~~A~~~y~~Al~~---~p~~~~-------~~~~~~~~~~~~~l~-------~~~~~nla~~~~~~  243 (338)
T 2if4_A          181 RRKMDGNSLFKEEKLEEAMQQYEMAIAY---MGDDFM-------FQLYGKYQDMALAVK-------NPCHLNIAACLIKL  243 (338)
T ss_dssp             HHHHHHHHTCSSSCCHHHHHHHHHHHHH---SCHHHH-------HTCCHHHHHHHHHHH-------THHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHH---hccchh-------hhhcccHHHHHHHHH-------HHHHHHHHHHHHHc
Confidence            3555666778889999999999887753   343321       233444455444332       23788899999999


Q ss_pred             CCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhhC
Q 009066          355 KRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKEN  405 (545)
Q Consensus       355 g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  405 (545)
                      |++++|+..++++++++|++.. +|..++.+|...|++++|...+++..+.
T Consensus       244 g~~~~A~~~~~~al~~~p~~~~-a~~~lg~a~~~~g~~~~A~~~l~~al~l  293 (338)
T 2if4_A          244 KRYDEAIGHCNIVLTEEEKNPK-ALFRRGKAKAELGQMDSARDDFRKAQKY  293 (338)
T ss_dssp             TCCHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHTTTCHHHHHHHHHHTTC-
T ss_pred             CCHHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            9999999999999999999987 9999999999999999999999998654

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=97.91  E-value=0.00039  Score=71.70  Aligned_cols=168  Identities=9%  Similarity=-0.030  Sum_probs=127.4

Q ss_pred             HHHHHHHHHhccC---CChhhHHHHHHHHHHcCC----------hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccC--
Q 009066          223 LEDACKLFLEIQR---KDVVTWNAMISGYAQHGK----------GEKALRLFDKMKDEGMKPDSITFVALLLACNHAG--  287 (545)
Q Consensus       223 ~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~----------~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g--  287 (545)
                      -++|.+.++++..   .+..+|+.--..+...|+          ++++++.++++.+...+ +..+|..-..++.+.+  
T Consensus        45 ~eeal~~~~~~l~~nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~pK-~y~aW~hR~w~l~~l~~~  123 (567)
T 1dce_A           45 DESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLPEP  123 (567)
T ss_dssp             SHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCSSC
T ss_pred             CHHHHHHHHHHHHHCchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcccc
Confidence            3566777777653   345667776666666666          78888888888876433 5666776666777778  


Q ss_pred             cHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcC-CHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhc----------
Q 009066          288 LVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAG-KLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVH----------  354 (545)
Q Consensus       288 ~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~----------  354 (545)
                      +++++.+.++++.+.  -+.+...|+.-.-++.+.| ..+++++.++++ ...| |...|+.....+...          
T Consensus       124 ~~~~el~~~~k~l~~--d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~~~~~~~  201 (567)
T 1dce_A          124 NWARELELCARFLEA--DERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQG  201 (567)
T ss_dssp             CHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSCC
T ss_pred             cHHHHHHHHHHHHhh--ccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhhcccccccccc
Confidence            678888888888874  2556777777777777888 888899888887 4444 667888877776653          


Q ss_pred             ----CCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchH
Q 009066          355 ----KRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDD  394 (545)
Q Consensus       355 ----g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~  394 (545)
                          +.++++.+.+.+++..+|++.. +|..+...+.+.++.++
T Consensus       202 ~~~~~~~~eel~~~~~ai~~~P~~~s-aW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          202 RLPENVLLKELELVQNAFFTDPNDQS-AWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             SSCHHHHHHHHHHHHHHHHHCSSCSH-HHHHHHHHHSCCCCCSC
T ss_pred             cccHHHHHHHHHHHHHHHhhCCCCcc-HHHHHHHHHhcCCCccc
Confidence                5578999999999999999998 99999999999888555

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=97.89  E-value=1.1e-05  Score=64.17  Aligned_cols=90  Identities=11%  Similarity=0.125  Sum_probs=55.8

Q ss_pred             cCcHHHHHHHHHHhHHhcC--CCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHH
Q 009066          286 AGLVDLGIQYFDSMVNDYG--IAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAE  361 (545)
Q Consensus       286 ~g~~~~a~~~~~~~~~~~~--~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~  361 (545)
                      .|++++|+..|++..+. +  -+.+...+..+..+|.+.|++++|...|++. ...| +...+..+..++...|++++|+
T Consensus         3 ~g~~~~A~~~~~~al~~-~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~   81 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIAS-GLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQGV   81 (117)
T ss_dssp             ----CCCHHHHHHHHSS-CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCcHHHHHHHHHHHHHc-CCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHHHH
Confidence            45566666666665532 1  1223455666677777777777777777665 2223 4566777777777788888888


Q ss_pred             HHHHHHhcCCCCCCc
Q 009066          362 FAAMNLFNLNPANAA  376 (545)
Q Consensus       362 ~~~~~~~~~~p~~~~  376 (545)
                      ..++++++..|+++.
T Consensus        82 ~~~~~al~~~p~~~~   96 (117)
T 3k9i_A           82 ELLLKIIAETSDDET   96 (117)
T ss_dssp             HHHHHHHHHHCCCHH
T ss_pred             HHHHHHHHhCCCcHH
Confidence            888888777777653

>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=97.84  E-value=0.00017  Score=72.49  Aligned_cols=134  Identities=10%  Similarity=0.015  Sum_probs=67.5

Q ss_pred             cccHHHHHHHHHhcCCHHHHHHHHHhccC--CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 009066          207 TTALTPLISMYCKCGDLEDACKLFLEIQR--KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACN  284 (545)
Q Consensus       207 ~~~~~~li~~y~~~g~~~~A~~~f~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~  284 (545)
                      ...+..+...|.+.|++++|...|++..+  |+...+           ..++..+ ....       ....|..+..++.
T Consensus       268 a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~-----------~~~~~~~-~~~~-------~~~~~~nla~~~~  328 (457)
T 1kt0_A          268 AAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGL-----------SEKESKA-SESF-------LLAAFLNLAMCYL  328 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSC-----------CHHHHHH-HHHH-------HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccC-----------ChHHHHH-HHHH-------HHHHHHHHHHHHH
Confidence            44677889999999999999999998764  221000           0000000 0000       1123334444444


Q ss_pred             ccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHH
Q 009066          285 HAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAE  361 (545)
Q Consensus       285 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~  361 (545)
                      +.|++++|+..+++.++.  .+.+...|..+..+|...|++++|...|++. .+.| +...+..+...+...++.+++.
T Consensus       329 ~~g~~~~A~~~~~~al~~--~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a~  405 (457)
T 1kt0_A          329 KLREYTKAVECCDKALGL--DSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQISMCQKKAKEHNERD  405 (457)
T ss_dssp             HTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC----CHHHHHHHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            455555555555444432  1233445555555555555555555555554 3333 2345555555555555555544

>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=97.82  E-value=4.8e-05  Score=63.24  Aligned_cols=66  Identities=11%  Similarity=-0.017  Sum_probs=52.2

Q ss_pred             HHHHHHHHHhHcCCHHHHHHHHHhC-C-------CCCCH-hHH----HHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCc
Q 009066          311 HYTCMVDLLGRAGKLVEAVDLIKKM-P-------FKPQP-AIF----GTLLSACRVHKRLDLAEFAAMNLFNLNPANAA  376 (545)
Q Consensus       311 ~~~~li~~~~~~g~~~~A~~~~~~m-~-------~~p~~-~~~----~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~  376 (545)
                      .|..+..++.+.|++++|+..+++. .       +.|+. ..|    .....++...|++++|+..|+++++++|++..
T Consensus        59 a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~d~~  137 (159)
T 2hr2_A           59 CHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKG  137 (159)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCS
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCCcHH
Confidence            6666666677777777666666554 3       37754 678    89999999999999999999999999998876

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.76  E-value=9.7e-05  Score=55.10  Aligned_cols=82  Identities=18%  Similarity=0.182  Sum_probs=65.5

Q ss_pred             CHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHH
Q 009066          308 KPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANI  385 (545)
Q Consensus       308 ~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~  385 (545)
                      +...+..+...|.+.|++++|...|++. ...| +...|..+...+...|++++|...++++++.+|++.. ++..++.+
T Consensus         8 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~~~~-~~~~l~~~   86 (91)
T 1na3_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAE-AKQNLGNA   86 (91)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH-HHHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCHH-HHHHHHHH
Confidence            3556777888888888888888888776 2223 5678888888999999999999999999999998877 88888888


Q ss_pred             HHHcC
Q 009066          386 YAAMK  390 (545)
Q Consensus       386 ~~~~g  390 (545)
                      +...|
T Consensus        87 ~~~~g   91 (91)
T 1na3_A           87 KQKQG   91 (91)
T ss_dssp             HHHHC
T ss_pred             HHhcC
Confidence            76654

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.69  E-value=0.00013  Score=55.93  Aligned_cols=64  Identities=19%  Similarity=0.179  Sum_probs=58.7

Q ss_pred             CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhh
Q 009066          340 QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       340 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  404 (545)
                      +...|..+...+...|++++|+..|+++++++|++.. +|..++.+|...|++++|.+.+++..+
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~-a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETDPDYVG-TYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTH-HHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHH-HHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            5678889999999999999999999999999999988 999999999999999999999988765

>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=97.61  E-value=0.00043  Score=67.34  Aligned_cols=117  Identities=7%  Similarity=-0.030  Sum_probs=66.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhccC-------------------CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCC
Q 009066          210 LTPLISMYCKCGDLEDACKLFLEIQR-------------------KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMK  270 (545)
Q Consensus       210 ~~~li~~y~~~g~~~~A~~~f~~~~~-------------------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  270 (545)
                      +..+...|.+.|++++|.+.|++..+                   .+...|+.+..+|.+.|++++|+..+++.++.. +
T Consensus       226 ~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p  304 (370)
T 1ihg_A          226 LKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID-P  304 (370)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-T
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhC-c
Confidence            44566777777777777777776543                   133455566666666666666666666666532 1


Q ss_pred             CCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHH
Q 009066          271 PDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAV  329 (545)
Q Consensus       271 p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  329 (545)
                      .+...+..+..++...|++++|...|++..+.  .+.+...+..+..++.+.++.+++.
T Consensus       305 ~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l--~P~~~~~~~~l~~~~~~~~~~~~a~  361 (370)
T 1ihg_A          305 SNTKALYRRAQGWQGLKEYDQALADLKKAQEI--APEDKAIQAELLKVKQKIKAQKDKE  361 (370)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            23445555555666666666666666655542  1223444555555555555555443

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.59  E-value=0.00013  Score=57.52  Aligned_cols=76  Identities=12%  Similarity=0.051  Sum_probs=59.2

Q ss_pred             HHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhh
Q 009066          328 AVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       328 A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  404 (545)
                      |++.|++. ...| +...|..+...+...|++++|+..++++++.+|++.. ++..++.+|...|++++|...+++..+
T Consensus         4 a~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~-~~~~la~~~~~~g~~~~A~~~~~~al~   81 (115)
T 2kat_A            4 ITERLEAMLAQGTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSV-AWKWLGKTLQGQGDRAGARQAWESGLA   81 (115)
T ss_dssp             HHHHHHHHHTTTCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHH-HHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            44455444 2334 5677888888888888888888888888888888877 888888888888999888888887765

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.54  E-value=0.00029  Score=70.96  Aligned_cols=123  Identities=12%  Similarity=0.027  Sum_probs=87.0

Q ss_pred             HHHHcCChHHHHHHHHHHHHc---CCCCC----HHHHHHHHHHHHccCcHHHHHHHHHHhHHh----cCC-CCC-HHHHH
Q 009066          247 GYAQHGKGEKALRLFDKMKDE---GMKPD----SITFVALLLACNHAGLVDLGIQYFDSMVND----YGI-AAK-PDHYT  313 (545)
Q Consensus       247 ~~~~~g~~~~A~~~~~~m~~~---g~~p~----~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~----~~~-~~~-~~~~~  313 (545)
                      .+..+|++++|+.++++.++.   -+-|+    ..+++.|..+|...|++++|..++++...-    +|- .|+ ..+++
T Consensus       318 ~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~  397 (490)
T 3n71_A          318 KARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVM  397 (490)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHH
Confidence            355678888888888887652   12222    246778888888889998888888776542    121 222 45688


Q ss_pred             HHHHHHhHcCCHHHHHHHHHhC---------CCCCCH-hHHHHHHHHHHhcCCHHHHHHHHHHHhc
Q 009066          314 CMVDLLGRAGKLVEAVDLIKKM---------PFKPQP-AIFGTLLSACRVHKRLDLAEFAAMNLFN  369 (545)
Q Consensus       314 ~li~~~~~~g~~~~A~~~~~~m---------~~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~  369 (545)
                      .|...|...|++++|..++++.         +-.|++ .+.+.+..++...+.++.|+.++.++.+
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            8999999999999999888765         333444 3445666677788889999999888754

>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=97.45  E-value=5.3e-05  Score=62.82  Aligned_cols=82  Identities=7%  Similarity=0.022  Sum_probs=58.8

Q ss_pred             CCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCC----------HHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcC
Q 009066          323 GKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKR----------LDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMK  390 (545)
Q Consensus       323 g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~----------~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g  390 (545)
                      +.+++|.+.+++. ...| +...|..+..++...++          +++|+..|+++++++|+... +|..++.+|...|
T Consensus        16 ~~feeA~~~~~~Ai~l~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~~~-A~~~LG~ay~~lg   94 (158)
T 1zu2_A           16 LLFEQIRQDAENTYKSNPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDE-AVWCIGNAYTSFA   94 (158)
T ss_dssp             HHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCcHH-HHHHHHHHHHHhc
Confidence            3444444444443 1222 34445545555544443          56999999999999999988 9999999999875


Q ss_pred             -----------CchHHHHHHHHhhhC
Q 009066          391 -----------KWDDVARIRLSMKEN  405 (545)
Q Consensus       391 -----------~~~~a~~~~~~m~~~  405 (545)
                                 ++++|.+.|++..+.
T Consensus        95 ~l~P~~~~a~g~~~eA~~~~~kAl~l  120 (158)
T 1zu2_A           95 FLTPDETEAKHNFDLATQFFQQAVDE  120 (158)
T ss_dssp             HHCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccCcchhhhhccHHHHHHHHHHHHHh
Confidence                       899999999998764

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=97.43  E-value=0.00041  Score=68.73  Aligned_cols=117  Identities=10%  Similarity=0.094  Sum_probs=83.8

Q ss_pred             HHHHhHcCCHHHHHHHHHhC---------CCCCC-HhHHHHHHHHHHhcCCHHHHHHHHHHHhc-----CCCCCCc--hh
Q 009066          316 VDLLGRAGKLVEAVDLIKKM---------PFKPQ-PAIFGTLLSACRVHKRLDLAEFAAMNLFN-----LNPANAA--GC  378 (545)
Q Consensus       316 i~~~~~~g~~~~A~~~~~~m---------~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~p~~~~--~~  378 (545)
                      +.-+.+.|++++|..++++.         +..|+ ..+++.|..+|...|++++|+.+++++++     .+|+++.  .+
T Consensus       294 ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~  373 (429)
T 3qwp_A          294 IEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQ  373 (429)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHH
T ss_pred             HHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHH
Confidence            44456778888888887655         11222 25788888899999999999999988865     3455432  26


Q ss_pred             HHHHHHHHHHcCCchHHHHHHHHhhhCCCccCCceeEEEECCEEEEEecCCCCCCChHHHHHHHHHHHHHHH
Q 009066          379 YVQLANIYAAMKKWDDVARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMK  450 (545)
Q Consensus       379 ~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~m~  450 (545)
                      ++.|+.+|...|++++|..++++..+--..                  .-...||...+++..+.+...+|+
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al~i~~~------------------~lG~~Hp~~~~~~~~l~~~~~e~~  427 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAFDIMRV------------------THGREHSLIEDLILLLEECDANIR  427 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHH------------------HTCTTSHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHH------------------hcCCCChHHHHHHHHHHHHHHHHh
Confidence            788999999999999999999887642110                  112358988888888887777765

>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=97.40  E-value=0.00014  Score=60.38  Aligned_cols=108  Identities=14%  Similarity=0.134  Sum_probs=63.0

Q ss_pred             cHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCC----------HHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhc-
Q 009066          288 LVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGK----------LVEAVDLIKKM-PFKP-QPAIFGTLLSACRVH-  354 (545)
Q Consensus       288 ~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~----------~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~-  354 (545)
                      .+++|.+.++...+.  -+.+...|..+..++...|+          +++|+..|++. .+.| +...|..+..+|... 
T Consensus        17 ~feeA~~~~~~Ai~l--~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~~~A~~~LG~ay~~lg   94 (158)
T 1zu2_A           17 LFEQIRQDAENTYKS--NPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYTSFA   94 (158)
T ss_dssp             HHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhc
Confidence            444455554444432  13344444444444444443          34666666655 3344 345666777777665 


Q ss_pred             ----------CCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhhC
Q 009066          355 ----------KRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKEN  405 (545)
Q Consensus       355 ----------g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  405 (545)
                                |++++|+..|+++++++|++.  .|...+...      ++|.+++-.....
T Consensus        95 ~l~P~~~~a~g~~~eA~~~~~kAl~l~P~~~--~y~~al~~~------~ka~el~~~~~~~  147 (158)
T 1zu2_A           95 FLTPDETEAKHNFDLATQFFQQAVDEQPDNT--HYLKSLEMT------AKAPQLHAEAYKQ  147 (158)
T ss_dssp             HHCCCHHHHHHHHHHHHHHHHHHHHHCTTCH--HHHHHHHHH------HTHHHHHHHHHHS
T ss_pred             ccCcchhhhhccHHHHHHHHHHHHHhCCCCH--HHHHHHHHH------HhCHhccCccccc
Confidence                      589999999999999999986  454444433      4455555555444

>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=97.31  E-value=0.0038  Score=50.92  Aligned_cols=109  Identities=15%  Similarity=-0.044  Sum_probs=54.3

Q ss_pred             ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhH----cCCHHHH
Q 009066          253 KGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGR----AGKLVEA  328 (545)
Q Consensus       253 ~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A  328 (545)
                      ++++|+..|++..+.| .|+..    +-..|...+.+++|.++|++..+.    .++..+..|..+|..    .+++++|
T Consensus        10 d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~----g~~~a~~~Lg~~y~~G~g~~~d~~~A   80 (138)
T 1klx_A           10 DLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACEL----NSGNGCRFLGDFYENGKYVKKDLRKA   80 (138)
T ss_dssp             HHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             CHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcC----CCHHHHHHHHHHHHcCCCCCccHHHH
Confidence            4556666666666555 23332    334444555555666666655542    344455555555555    4555555


Q ss_pred             HHHHHhCCCCCCHhHHHHHHHHHHh----cCCHHHHHHHHHHHhcC
Q 009066          329 VDLIKKMPFKPQPAIFGTLLSACRV----HKRLDLAEFAAMNLFNL  370 (545)
Q Consensus       329 ~~~~~~m~~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~  370 (545)
                      .+.|++.-...+...+..|...|..    .++.++|...+++..+.
T Consensus        81 ~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~  126 (138)
T 1klx_A           81 AQYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRL  126 (138)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHC
Confidence            5555544111344444444444444    44555555555544443

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.29  E-value=0.00023  Score=55.23  Aligned_cols=94  Identities=11%  Similarity=0.091  Sum_probs=56.3

Q ss_pred             hhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCC-------HH
Q 009066          238 VVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAK-------PD  310 (545)
Q Consensus       238 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~-------~~  310 (545)
                      ...|..+...+...|++++|+..|++..+.. +.+...+..+..++...|++++|...++...+   +.|+       ..
T Consensus         4 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~~~~   79 (111)
T 2l6j_A            4 FEKQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLR---YTSTAEHVAIRSK   79 (111)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT---SCSSTTSHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHH---hCCCccHHHHHHH
Confidence            4456666677777777777777777776642 22455566666667777777777777766654   2333       34


Q ss_pred             HHHHHHHHHhHcCCHHHHHHHHHhC
Q 009066          311 HYTCMVDLLGRAGKLVEAVDLIKKM  335 (545)
Q Consensus       311 ~~~~li~~~~~~g~~~~A~~~~~~m  335 (545)
                      .+..+..++...|+.++|.+.++++
T Consensus        80 ~~~~~~~~~~~~~~~~~a~~~~~~~  104 (111)
T 2l6j_A           80 LQYRLELAQGAVGSVQIPVVEVDEL  104 (111)
T ss_dssp             HHHHHHHHHHHHHCCCCCSSSSSSC
T ss_pred             HHHHHHHHHHHHHhHhhhHhHHHHh
Confidence            4455555555555555555444443

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=97.25  E-value=0.0067  Score=62.46  Aligned_cols=151  Identities=10%  Similarity=-0.001  Sum_probs=118.4

Q ss_pred             HcC-ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCc----------HHHHHHHHHHhHHhcCCCCCHHHHHHHHHH
Q 009066          250 QHG-KGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGL----------VDLGIQYFDSMVNDYGIAAKPDHYTCMVDL  318 (545)
Q Consensus       250 ~~g-~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~----------~~~a~~~~~~~~~~~~~~~~~~~~~~li~~  318 (545)
                      +.| ..++|++.++++...+.. +...|+.--.++...|+          ++++.+.++.+.+.  .+.+...|..-.-+
T Consensus        40 ~~~~~~eeal~~~~~~l~~nP~-~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~--~pK~y~aW~hR~w~  116 (567)
T 1dce_A           40 QAGELDESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRV--NPKSYGTWHHRCWL  116 (567)
T ss_dssp             HTTCCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHH
T ss_pred             HcCCCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHH
Confidence            344 457889999999985322 34445544445555555          89999999999874  36678888888888


Q ss_pred             HhHcC--CHHHHHHHHHhC-CCC-CCHhHHHHHHHHHHhcC-CHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHc----
Q 009066          319 LGRAG--KLVEAVDLIKKM-PFK-PQPAIFGTLLSACRVHK-RLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAM----  389 (545)
Q Consensus       319 ~~~~g--~~~~A~~~~~~m-~~~-p~~~~~~~li~~~~~~g-~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~----  389 (545)
                      +.+.|  ++++|++.++++ ... .|...|+.-...+...| .++++.+.++++++.+|.+.. +|.....++.+.    
T Consensus       117 l~~l~~~~~~~el~~~~k~l~~d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~s-aW~~r~~ll~~l~~~~  195 (567)
T 1dce_A          117 LSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYS-SWHYRSCLLPQLHPQP  195 (567)
T ss_dssp             HHTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHH-HHHHHHHHHHHHSCCC
T ss_pred             HHHcccccHHHHHHHHHHHHhhccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCcc-HHHHHHHHHHhhcccc
Confidence            88999  779999999998 333 47789999888888889 899999999999999999988 999999988874    


Q ss_pred             ----------CCchHHHHHHHHhhh
Q 009066          390 ----------KKWDDVARIRLSMKE  404 (545)
Q Consensus       390 ----------g~~~~a~~~~~~m~~  404 (545)
                                +.++++.+.++....
T Consensus       196 ~~~~~~~~~~~~~~eel~~~~~ai~  220 (567)
T 1dce_A          196 DSGPQGRLPENVLLKELELVQNAFF  220 (567)
T ss_dssp             CSSSCCSSCHHHHHHHHHHHHHHHH
T ss_pred             cccccccccHHHHHHHHHHHHHHHh
Confidence                      456778777776654

>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=97.24  E-value=0.0031  Score=51.44  Aligned_cols=113  Identities=12%  Similarity=-0.094  Sum_probs=94.1

Q ss_pred             CcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHHh----cCCHHHHHH
Q 009066          287 GLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRV----HKRLDLAEF  362 (545)
Q Consensus       287 g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~li~~~~~----~g~~~~A~~  362 (545)
                      ++.++|.++|++..+. + .|...    |..+|...+.+++|.+.|++.-...+...+..|...|..    .+++++|..
T Consensus         9 ~d~~~A~~~~~~aa~~-g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~   82 (138)
T 1klx_A            9 KDLKKAIQYYVKACEL-N-EMFGC----LSLVSNSQINKQKLFQYLSKACELNSGNGCRFLGDFYENGKYVKKDLRKAAQ   82 (138)
T ss_dssp             HHHHHHHHHHHHHHHT-T-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHH
T ss_pred             cCHHHHHHHHHHHHcC-C-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHcCCCCCccHHHHHH
Confidence            4788999999998874 4 33333    888888889999999999987333678888899999988    899999999


Q ss_pred             HHHHHhcCCCCCCchhHHHHHHHHHH----cCCchHHHHHHHHhhhCCCc
Q 009066          363 AAMNLFNLNPANAAGCYVQLANIYAA----MKKWDDVARIRLSMKENNVV  408 (545)
Q Consensus       363 ~~~~~~~~~p~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~m~~~~~~  408 (545)
                      .|++..+.+  ++. ++..|..+|..    .++.++|.+.+++..+.|..
T Consensus        83 ~~~~Aa~~g--~~~-a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~~  129 (138)
T 1klx_A           83 YYSKACGLN--DQD-GCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGSE  129 (138)
T ss_dssp             HHHHHHHTT--CHH-HHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCC--CHH-HHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCCH
Confidence            999998873  444 89999999999    89999999999999887653

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.20  E-value=0.0012  Score=51.81  Aligned_cols=80  Identities=9%  Similarity=-0.040  Sum_probs=51.6

Q ss_pred             HHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhc
Q 009066          292 GIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFN  369 (545)
Q Consensus       292 a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  369 (545)
                      +...++...+  ..+.+...+..+...|.+.|++++|...|++. ...| +...|..+...+...|++++|...++++++
T Consensus         4 a~~~~~~al~--~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~   81 (115)
T 2kat_A            4 ITERLEAMLA--QGTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESGLA   81 (115)
T ss_dssp             HHHHHHHHHT--TTCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHH--hCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            4445555543  22344566667777777777777777777665 2223 456677777777777888888877777777


Q ss_pred             CCCC
Q 009066          370 LNPA  373 (545)
Q Consensus       370 ~~p~  373 (545)
                      +.|.
T Consensus        82 ~~~~   85 (115)
T 2kat_A           82 AAQS   85 (115)
T ss_dssp             HHHH
T ss_pred             hccc
Confidence            6664

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.18  E-value=0.0016  Score=48.99  Aligned_cols=68  Identities=12%  Similarity=0.091  Sum_probs=57.7

Q ss_pred             CCHhHHHHHHHHHHhcCC---HHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhhCCC
Q 009066          339 PQPAIFGTLLSACRVHKR---LDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNV  407 (545)
Q Consensus       339 p~~~~~~~li~~~~~~g~---~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  407 (545)
                      +|...+..+..++...++   .++|..+++++++++|++.. +...++..+...|++++|...|+++.+..-
T Consensus         4 ~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~r-A~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p   74 (93)
T 3bee_A            4 VTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEA-ALSLIANDHFISFRFQEAIDTWVLLLDSND   74 (93)
T ss_dssp             CCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHHTTCHHHHHHHHHHHHTCCC
T ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHH-HHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            466778888887765555   68999999999999999988 999999999999999999999999987643

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.11  E-value=0.024  Score=61.14  Aligned_cols=152  Identities=13%  Similarity=0.146  Sum_probs=98.5

Q ss_pred             HcCCCCHHHHHH-HHhcCCCCCeehHHHHHHHHHhCCCHHHHHHHHhhCCcCCHhHHHHHHHHHHHcCChHHHHHHHhhC
Q 009066           49 LLNSDDVVAAFD-FFQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVA  127 (545)
Q Consensus        49 ~~~~g~~~~A~~-~~~~m~~~d~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~  127 (545)
                      ... +++++|.+ ++..++  +......++..+.+.|..++|+++.+.     .   ..-......+|++++|.++.+.+
T Consensus       610 ~~~-~~~~~a~~~~l~~i~--~~~~~~~~~~~l~~~~~~~~a~~~~~~-----~---~~~f~~~l~~~~~~~A~~~~~~~  678 (814)
T 3mkq_A          610 TLR-GEIEEAIENVLPNVE--GKDSLTKIARFLEGQEYYEEALNISPD-----Q---DQKFELALKVGQLTLARDLLTDE  678 (814)
T ss_dssp             HHT-TCHHHHHHHTGGGCC--CHHHHHHHHHHHHHTTCHHHHHHHCCC-----H---HHHHHHHHHHTCHHHHHHHHTTC
T ss_pred             HHh-CCHHHHHHHHHhcCC--chHHHHHHHHHHHhCCChHHheecCCC-----c---chheehhhhcCCHHHHHHHHHhh
Confidence            445 78888887 554443  122336777778888888888876632     1   12244567788999998888776


Q ss_pred             CCCCcccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCc
Q 009066          128 PVKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDT  207 (545)
Q Consensus       128 ~~~~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~  207 (545)
                      .  +...|..+...+     .+.++++.|.+.|.++..         |..+...+...++.+...++-+.....|     
T Consensus       679 ~--~~~~W~~la~~a-----l~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a~~~~-----  737 (814)
T 3mkq_A          679 S--AEMKWRALGDAS-----LQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDAETTG-----  737 (814)
T ss_dssp             C--CHHHHHHHHHHH-----HHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHHHHTT-----
T ss_pred             C--cHhHHHHHHHHH-----HHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHHHHcC-----
Confidence            3  456888888888     888899999888887752         2234444444666666666555555544     


Q ss_pred             ccHHHHHHHHHhcCCHHHHHHHHHhc
Q 009066          208 TALTPLISMYCKCGDLEDACKLFLEI  233 (545)
Q Consensus       208 ~~~~~li~~y~~~g~~~~A~~~f~~~  233 (545)
                       -++.....|.++|++++|.+++.++
T Consensus       738 -~~~~A~~~~~~~g~~~~a~~~~~~~  762 (814)
T 3mkq_A          738 -KFNLAFNAYWIAGDIQGAKDLLIKS  762 (814)
T ss_dssp             -CHHHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             -chHHHHHHHHHcCCHHHHHHHHHHc
Confidence             2344455566677777776665433

>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=97.03  E-value=0.014  Score=55.38  Aligned_cols=138  Identities=14%  Similarity=0.031  Sum_probs=76.8

Q ss_pred             CChhhHHHHHHHHHH--cC---ChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHH----cc----CcHHHHHHHHHHhHH
Q 009066          236 KDVVTWNAMISGYAQ--HG---KGEKALRLFDKMKDEGMKPDS-ITFVALLLACN----HA----GLVDLGIQYFDSMVN  301 (545)
Q Consensus       236 ~~~~~~~~li~~~~~--~g---~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~a~~----~~----g~~~~a~~~~~~~~~  301 (545)
                      .+..+|...+.+...  .+   ...+|+.+|++..+.  .|+- ..+..+.-++.    ..    .........+.....
T Consensus       192 ~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~l--DP~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~~a  269 (372)
T 3ly7_A          192 HRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQS--SPEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNIVT  269 (372)
T ss_dssp             SSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHHh
Confidence            356666666655432  22   246777788877764  4542 23332222221    00    011111111111111


Q ss_pred             hcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCC
Q 009066          302 DYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANA  375 (545)
Q Consensus       302 ~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~  375 (545)
                      ....+.++..|.++.-.+...|++++|...++++ ...|+...|..+...+...|++++|...+++++.++|...
T Consensus       270 ~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~P~~~  344 (372)
T 3ly7_A          270 LPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLEMSWLNYVLLGKVYEMKGMNREAADAYLTAFNLRPGAN  344 (372)
T ss_dssp             CGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCSHH
T ss_pred             cccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcC
Confidence            1123556677777766666677788777777776 3346666666666777777888888888877777777654

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.00  E-value=0.0072  Score=44.46  Aligned_cols=78  Identities=14%  Similarity=0.231  Sum_probs=38.6

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHH
Q 009066          240 TWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLL  319 (545)
Q Consensus       240 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~  319 (545)
                      .|..+...+...|++++|+..|++..... +.+...+..+..++...|++++|...+++..+.  .+.+...+..+..++
T Consensus        11 ~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~p~~~~~~~~l~~~~   87 (91)
T 1na3_A           11 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALEL--DPNNAEAKQNLGNAK   87 (91)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc--CCCCHHHHHHHHHHH
Confidence            44455555555555555555555555432 123344445555555555555555555555442  122344444444444


Q ss_pred             h
Q 009066          320 G  320 (545)
Q Consensus       320 ~  320 (545)
                      .
T Consensus        88 ~   88 (91)
T 1na3_A           88 Q   88 (91)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=96.97  E-value=0.0039  Score=61.58  Aligned_cols=91  Identities=7%  Similarity=-0.100  Sum_probs=62.0

Q ss_pred             ccCcHHHHHHHHHHhHHhc--CCCC----CHHHHHHHHHHHhHcCCHHHHHHHHHhC---------CCCCCH-hHHHHHH
Q 009066          285 HAGLVDLGIQYFDSMVNDY--GIAA----KPDHYTCMVDLLGRAGKLVEAVDLIKKM---------PFKPQP-AIFGTLL  348 (545)
Q Consensus       285 ~~g~~~~a~~~~~~~~~~~--~~~~----~~~~~~~li~~~~~~g~~~~A~~~~~~m---------~~~p~~-~~~~~li  348 (545)
                      ..|++++|..++++..+..  -+.|    ...+++.|..+|...|++++|..++++.         +..|++ .+++.|.
T Consensus       310 ~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa  389 (433)
T 3qww_A          310 HYKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLG  389 (433)
T ss_dssp             TTSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHH
Confidence            3467777777776655421  1112    1456777888888888888888777665         334554 5678888


Q ss_pred             HHHHhcCCHHHHHHHHHHHhc-----CCCCCC
Q 009066          349 SACRVHKRLDLAEFAAMNLFN-----LNPANA  375 (545)
Q Consensus       349 ~~~~~~g~~~~A~~~~~~~~~-----~~p~~~  375 (545)
                      ..|...|++++|+.+++++++     ++|+.+
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~i~~~~lG~~Hp  421 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIAIMEVAHGKDHP  421 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCH
T ss_pred             HHHHhccCHHHHHHHHHHHHHHHHHHcCCCCh
Confidence            888888888888888888765     567665

>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=96.96  E-value=0.0009  Score=66.19  Aligned_cols=84  Identities=6%  Similarity=0.029  Sum_probs=67.7

Q ss_pred             HcCCHHHHHHHHHhC---------CCCCCH-hHHHHHHHHHHhcCCHHHHHHHHHHHhc-----CCCCCCc--hhHHHHH
Q 009066          321 RAGKLVEAVDLIKKM---------PFKPQP-AIFGTLLSACRVHKRLDLAEFAAMNLFN-----LNPANAA--GCYVQLA  383 (545)
Q Consensus       321 ~~g~~~~A~~~~~~m---------~~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~p~~~~--~~~~~l~  383 (545)
                      ..|++++|..++++.         +..|+. .+++.|..+|...|++++|+.+++++++     ++|+++.  .+++.|+
T Consensus       310 ~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa  389 (433)
T 3qww_A          310 HYKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLG  389 (433)
T ss_dssp             TTSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHH
Confidence            357888888887764         333444 6889999999999999999999999875     4555443  2688999


Q ss_pred             HHHHHcCCchHHHHHHHHhhh
Q 009066          384 NIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       384 ~~~~~~g~~~~a~~~~~~m~~  404 (545)
                      .+|...|++++|..++++..+
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHH
Confidence            999999999999999998764

>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=96.93  E-value=0.0072  Score=59.76  Aligned_cols=97  Identities=9%  Similarity=-0.031  Sum_probs=72.3

Q ss_pred             HHHHHccCcHHHHHHHHHHhHHhc--CCCCC----HHHHHHHHHHHhHcCCHHHHHHHHHhC---------CCCCCH-hH
Q 009066          280 LLACNHAGLVDLGIQYFDSMVNDY--GIAAK----PDHYTCMVDLLGRAGKLVEAVDLIKKM---------PFKPQP-AI  343 (545)
Q Consensus       280 l~a~~~~g~~~~a~~~~~~~~~~~--~~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~m---------~~~p~~-~~  343 (545)
                      +..+...|++++|..++++..+..  -+.|+    ..+++.|..+|...|++++|+.++++.         +..|+. .+
T Consensus       294 ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~  373 (429)
T 3qwp_A          294 IEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQ  373 (429)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHH
T ss_pred             HHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHH
Confidence            444556788888888887776432  12222    456788888888899999988888765         344554 57


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhc-----CCCCCCc
Q 009066          344 FGTLLSACRVHKRLDLAEFAAMNLFN-----LNPANAA  376 (545)
Q Consensus       344 ~~~li~~~~~~g~~~~A~~~~~~~~~-----~~p~~~~  376 (545)
                      ++.|...|...|++++|+.+++++++     ++|+.+.
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al~i~~~~lG~~Hp~  411 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAFDIMRVTHGREHSL  411 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhcCCCChH
Confidence            88999999999999999999998876     5787764

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=96.92  E-value=0.0041  Score=47.32  Aligned_cols=58  Identities=17%  Similarity=0.129  Sum_probs=25.6

Q ss_pred             ccHHHHHHHHHhcCCHHHHHHHHHhccC---CChhhHHHHHHHHHHcCChHHHHHHHHHHH
Q 009066          208 TALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMK  265 (545)
Q Consensus       208 ~~~~~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  265 (545)
                      ..+..+...|.+.|++++|...|++..+   .+...|..+..+|...|++++|+..|++..
T Consensus         8 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al   68 (100)
T 3ma5_A            8 FTRYALAQEHLKHDNASRALALFEELVETDPDYVGTYYHLGKLYERLDRTDDAIDTYAQGI   68 (100)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3344444444444444444444444432   123344444444444444444444444433

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.78  E-value=0.0062  Score=45.91  Aligned_cols=64  Identities=17%  Similarity=0.169  Sum_probs=48.3

Q ss_pred             HHHHHhHcCCHHHHHHHHHhC-CCCC-CHh-HHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhH
Q 009066          315 MVDLLGRAGKLVEAVDLIKKM-PFKP-QPA-IFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCY  379 (545)
Q Consensus       315 li~~~~~~g~~~~A~~~~~~m-~~~p-~~~-~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~  379 (545)
                      ....+.+.|++++|.+.|++. ...| +.. .|..+...+...|++++|+..|+++++++|++.. ++
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~-~~   72 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNPDSPA-LQ   72 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTH-HH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHH-HH
Confidence            455667778888888888776 2234 456 7788888888888888888888888888888875 44

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.76  E-value=0.04  Score=59.42  Aligned_cols=47  Identities=21%  Similarity=0.215  Sum_probs=26.2

Q ss_pred             HHhcCCHHHHHHHHHhccCCChhhHHHHHHHHHHcCChHHHHHHHHHHH
Q 009066          217 YCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMK  265 (545)
Q Consensus       217 y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  265 (545)
                      ...+|++++|.++.+.+.  +...|..+...+.+.|+++.|.+.|.++.
T Consensus       662 ~l~~~~~~~A~~~~~~~~--~~~~W~~la~~al~~~~~~~A~~~y~~~~  708 (814)
T 3mkq_A          662 ALKVGQLTLARDLLTDES--AEMKWRALGDASLQRFNFKLAIEAFTNAH  708 (814)
T ss_dssp             HHHHTCHHHHHHHHTTCC--CHHHHHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             hhhcCCHHHHHHHHHhhC--cHhHHHHHHHHHHHcCCHHHHHHHHHHcc
Confidence            344555666555554442  34556666666666666666666666553

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.57  E-value=0.011  Score=48.38  Aligned_cols=65  Identities=8%  Similarity=-0.062  Sum_probs=46.8

Q ss_pred             CCHhHHHHHHHHHHhcC---CHHHHHHHHHHHhcCC-C-CCCchhHHHHHHHHHHcCCchHHHHHHHHhhh
Q 009066          339 PQPAIFGTLLSACRVHK---RLDLAEFAAMNLFNLN-P-ANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       339 p~~~~~~~li~~~~~~g---~~~~A~~~~~~~~~~~-p-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  404 (545)
                      ++..+...+..++.+.+   +.++|+.+++.+++.+ | +... .+..|+-+|.+.|++++|++.++.+.+
T Consensus        30 ~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd-~lY~LAv~~~kl~~Y~~A~~y~~~lL~   99 (152)
T 1pc2_A           30 VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRD-YVFYLAVGNYRLKEYEKALKYVRGLLQ   99 (152)
T ss_dssp             CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHH-HHHHHHHHHHHTSCHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHH-HHHHHHHHHHHccCHHHHHHHHHHHHh
Confidence            56666666777777766   5557788888777776 6 3334 677777788888888888888887765

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=96.44  E-value=0.089  Score=49.98  Aligned_cols=163  Identities=10%  Similarity=0.015  Sum_probs=84.1

Q ss_pred             HHHHHHhhCCCCCcccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHhccCcHHHHHHHHHH
Q 009066          119 KAVELFKVAPVKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNA-SSLSSVLLGCSHLSSLQLGKQVHQL  197 (545)
Q Consensus       119 ~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~-~t~~~ll~~~~~~~~~~~a~~~~~~  197 (545)
                      ++.+.... +..+..+|...+.+.............+|+.+|++..+.  .|+. ..+..+.-++..             
T Consensus       182 e~~r~~~~-~p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~l--DP~~a~A~A~la~a~~~-------------  245 (372)
T 3ly7_A          182 MQETLQKI-LPHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQS--SPEFTYARAEKALVDIV-------------  245 (372)
T ss_dssp             HHHHHHHH-SCSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHH-------------
T ss_pred             HHHHHhcc-CCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHH-------------
Confidence            33334444 344778888888765221111223357889999999875  4653 344433333320             


Q ss_pred             HHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhc--cCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHH
Q 009066          198 VFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEI--QRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSIT  275 (545)
Q Consensus       198 ~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~--~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t  275 (545)
                      ....+ +.+.....          .+..+.+-...+  ...+..+|.++...+...|++++|+..++++...+  |+...
T Consensus       246 ~~~~~-~~~~~~~~----------~l~~a~~a~~a~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a  312 (372)
T 3ly7_A          246 RHSQH-PLDEKQLA----------ALNTEIDNIVTLPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLN  312 (372)
T ss_dssp             HHHHS-CCCHHHHH----------HHHHHHHHHHTCGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHH
T ss_pred             HhccC-CCchhhHH----------HHHHHHHHHHhcccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHH
Confidence            00000 00000000          011122211111  12355666666666666677777777777777654  56666


Q ss_pred             HHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHH
Q 009066          276 FVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYT  313 (545)
Q Consensus       276 ~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  313 (545)
                      |..+...+...|++++|.+.+++....   .|...+|.
T Consensus       313 ~~llG~~~~~~G~~~eA~e~~~~AlrL---~P~~~t~~  347 (372)
T 3ly7_A          313 YVLLGKVYEMKGMNREAADAYLTAFNL---RPGANTLY  347 (372)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH---SCSHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhc---CCCcChHH
Confidence            656666666777777777777666543   55555543

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.27  E-value=0.0038  Score=47.12  Aligned_cols=55  Identities=13%  Similarity=0.164  Sum_probs=26.0

Q ss_pred             HHHHHcCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHHccCcHHHHHHHHHHhHH
Q 009066          246 SGYAQHGKGEKALRLFDKMKDEGMKPDSI-TFVALLLACNHAGLVDLGIQYFDSMVN  301 (545)
Q Consensus       246 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~  301 (545)
                      ..+.+.|++++|+..|++..+.. +.+.. .+..+..++...|++++|.+.|+...+
T Consensus         8 ~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~   63 (99)
T 2kc7_A            8 KELINQGDIENALQALEEFLQTE-PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIE   63 (99)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHC-SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            34445555555555555555431 11223 444444445555555555555555443

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.24  E-value=0.32  Score=38.38  Aligned_cols=140  Identities=10%  Similarity=0.069  Sum_probs=95.1

Q ss_pred             HHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHH
Q 009066          249 AQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEA  328 (545)
Q Consensus       249 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  328 (545)
                      .-.|..++..++..+.....   +..-++-++.-....-+-+...+.++.+-+-+.+              ..+|++...
T Consensus        18 ildG~v~qGveii~k~~~ss---ni~E~NW~ICNiiD~a~C~y~v~vLd~IGkiFDi--------------s~C~NlKrV   80 (172)
T 1wy6_A           18 LLDGYIDEGVKIVLEITKSS---TKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDL--------------DKCQNLKSV   80 (172)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS---CHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCG--------------GGCSCTHHH
T ss_pred             HHhhhHHHHHHHHHHHcCCC---CccccceeeeecchhhchhHHHHHHHHHhhhcCc--------------HhhhcHHHH
Confidence            34566677777777665532   3334444443333334444455555555432222              356777777


Q ss_pred             HHHHHhCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhhCCCc
Q 009066          329 VDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVV  408 (545)
Q Consensus       329 ~~~~~~m~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  408 (545)
                      ...+-.++  .+..-.+.-+..+...|+.+.-.++...++.-+|-++. ....++.+|.+.|+..++.+++++.-++|++
T Consensus        81 i~C~~~~n--~~se~vd~ALd~lv~~~KkDqLdki~~~~l~n~~~~~~-~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~k  157 (172)
T 1wy6_A           81 VECGVINN--TLNEHVNKALDILVIQGKRDKLEEIGREILKNNEVSAS-ILVAIANALRRVGDERDATTLLIEACKKGEK  157 (172)
T ss_dssp             HHHHHHTT--CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHH-HHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHhc--chHHHHHHHHHHHHHhccHhHHHHHHHHHhccCCCChH-HHHHHHHHHHHhcchhhHHHHHHHHHHhhhH
Confidence            77777764  45666777888899999999999999997655554445 8889999999999999999999999999885

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=96.20  E-value=0.031  Score=41.70  Aligned_cols=77  Identities=17%  Similarity=0.108  Sum_probs=56.9

Q ss_pred             CCCHHHHHHHHHHHhHcCC---HHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHH
Q 009066          306 AAKPDHYTCMVDLLGRAGK---LVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYV  380 (545)
Q Consensus       306 ~~~~~~~~~li~~~~~~g~---~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~  380 (545)
                      +.++..+..+..++...++   .++|..++++. ...| ++..+..+...+.+.|++++|+..++++++.+|.++  ...
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p~~~--~~~   80 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSNDPNL--DRV   80 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCCTTC--CHH
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCc--cHH
Confidence            5567778888887765544   68888888877 3345 556777778888999999999999999999998843  344


Q ss_pred             HHHH
Q 009066          381 QLAN  384 (545)
Q Consensus       381 ~l~~  384 (545)
                      .+..
T Consensus        81 ~i~~   84 (93)
T 3bee_A           81 TIIE   84 (93)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            4433

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=96.02  E-value=0.001  Score=64.66  Aligned_cols=234  Identities=11%  Similarity=0.127  Sum_probs=112.0

Q ss_pred             ccHHHHHHHHHHhCCCChHHHHHHHccCCCCChhhHHHHHHHHHcCCCCHHHHHHHHhcCC--CCCeehHHHHHHHHHhC
Q 009066            6 TVNWNSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQRLP--IKDTASWNTMISGFVQK   83 (545)
Q Consensus         6 ~~~~~~li~~~~~~g~~~~~A~~~f~~~~~~~~~~~~~li~~~~~~~g~~~~A~~~~~~m~--~~d~~~~~~li~~~~~~   83 (545)
                      +.+|..|..++.+.+. ..+|...|=+...|  ..|..+|....+. |.+++-++.+.-.+  .+++..=+.|+-+|++.
T Consensus        54 p~VWs~LgkAqL~~~~-v~eAIdsyIkA~Dp--s~y~eVi~~A~~~-~~~edLv~yL~MaRk~~ke~~IDteLi~ayAk~  129 (624)
T 3lvg_A           54 PAVWSQLAKAQLQKGM-VKEAIDSYIKADDP--SSYMEVVQAANTS-GNWEELVKYLQMARKKARESYVETELIFALAKT  129 (624)
T ss_dssp             CCCSSSHHHHTTTSSS-CTTTTTSSCCCSCC--CSSSHHHHHTTTS-SCCTTHHHHHHTTSTTCCSTTTTHHHHHHHHTS
T ss_pred             ccHHHHHHHHHHccCc-hHHHHHHHHhCCCh--HHHHHHHHHHHhC-CCHHHHHHHHHHHHHHhcccccHHHHHHHHHhh
Confidence            4455566666666665 66665555433333  3345566655555 66666666554444  23444555666666666


Q ss_pred             CCHHHHHHHHhhCCcCCHhHHHHHHHHHHHcCChHHHHHHHhhCC------------------------CCCcccHHHHH
Q 009066           84 KNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAP------------------------VKSVVAWTAMI  139 (545)
Q Consensus        84 g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~------------------------~~~~~~~~~li  139 (545)
                      +++.+-.+++.   .||..-...+.+-+...|.++.|.-+|..+.                        ..++.+|-.+-
T Consensus       130 ~rL~elEefl~---~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~ktWKeV~  206 (624)
T 3lvg_A          130 NRLAELEEFIN---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRTWKEVC  206 (624)
T ss_dssp             CSSSTTTSTTS---CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCSHHHHT
T ss_pred             CcHHHHHHHHc---CCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhHHHHHH
Confidence            66554333221   2444444455556666666666666665443                        12556777777


Q ss_pred             HHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHh
Q 009066          140 SGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCK  219 (545)
Q Consensus       140 ~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~  219 (545)
                      .+|     +..+.+.-|.-.--.+.   +.||  ....++..|...|.+++-..+++.-+... .....+++-|.-.|+|
T Consensus       207 ~AC-----vd~~EfrLAqicGLniI---vhad--eL~elv~~YE~~G~f~ELIsLlEaglglE-rAHmGmFTELaILYsK  275 (624)
T 3lvg_A          207 FAC-----VDGKEFRLAQMCGLHIV---VHAD--ELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSK  275 (624)
T ss_dssp             HHH-----HHSCTTTTTTHHHHHHH---CCSS--CCSGGGSSSSTTCCCTTSTTTHHHHTTST-TCCHHHHHHHHHHHHS
T ss_pred             HHH-----hCchHHHHHHHhcchhc---ccHH--HHHHHHHHHHhCCCHHHHHHHHHHHhCCC-chhHHHHHHHHHHHHh
Confidence            777     44444443322222221   1111  11123333444444444444444433211 2233445555555554


Q ss_pred             cCCHHHHHHHHHhccC-----------CChhhHHHHHHHHHHcCChHHHH
Q 009066          220 CGDLEDACKLFLEIQR-----------KDVVTWNAMISGYAQHGKGEKAL  258 (545)
Q Consensus       220 ~g~~~~A~~~f~~~~~-----------~~~~~~~~li~~~~~~g~~~~A~  258 (545)
                      - +.++-.+.++..-.           .....|.-++-.|.+..+++.|.
T Consensus       276 Y-~PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~  324 (624)
T 3lvg_A          276 F-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAI  324 (624)
T ss_dssp             S-CTTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHH
T ss_pred             c-CHHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHH
Confidence            3 23333333222211           13345666666666666655444

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=95.80  E-value=0.038  Score=42.22  Aligned_cols=69  Identities=12%  Similarity=0.092  Sum_probs=50.2

Q ss_pred             CHHHHHHHHHHHhHcCCHHHHHHHHHhC-----C----CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCc
Q 009066          308 KPDHYTCMVDLLGRAGKLVEAVDLIKKM-----P----FKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA  376 (545)
Q Consensus       308 ~~~~~~~li~~~~~~g~~~~A~~~~~~m-----~----~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~  376 (545)
                      ++.-+..|...+.+.|+++.|...|+..     +    -.+...++..|..++.+.|+++.|...+++++++.|++..
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~P~~~~   81 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQR   81 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHH
Confidence            3444556666666667766666666554     1    1134567888899999999999999999999999999865

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=95.49  E-value=0.79  Score=38.35  Aligned_cols=46  Identities=20%  Similarity=0.290  Sum_probs=24.4

Q ss_pred             HHHcCChHHHHHHHhhCCCCCcccHHHHHHHhcchhhhccCChHHHHHHHHHH
Q 009066          111 YIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMM  163 (545)
Q Consensus       111 ~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m  163 (545)
                      ..++|+++.|.++.+.+  .+...|..|....     ..+|+.+-|.+.|.+.
T Consensus        15 AL~lg~l~~A~e~a~~l--~~~~~Wk~Lg~~A-----L~~gn~~lAe~cy~~~   60 (177)
T 3mkq_B           15 ALEYGNLDAALDEAKKL--NDSITWERLIQEA-----LAQGNASLAEMIYQTQ   60 (177)
T ss_dssp             HHHTTCHHHHHHHHHHH--CCHHHHHHHHHHH-----HHTTCHHHHHHHHHHT
T ss_pred             HHhcCCHHHHHHHHHHh--CCHHHHHHHHHHH-----HHcCChHHHHHHHHHh
Confidence            34455555555555443  2344555555555     5555555555555544

>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=95.48  E-value=0.034  Score=50.69  Aligned_cols=86  Identities=13%  Similarity=0.096  Sum_probs=67.0

Q ss_pred             HHHHHHHHHhC-CCCCC---HhHHHHHHHHHHh-----cCCHHHHHHHHHHHhcCCCCC-CchhHHHHHHHHHHc-CCch
Q 009066          325 LVEAVDLIKKM-PFKPQ---PAIFGTLLSACRV-----HKRLDLAEFAAMNLFNLNPAN-AAGCYVQLANIYAAM-KKWD  393 (545)
Q Consensus       325 ~~~A~~~~~~m-~~~p~---~~~~~~li~~~~~-----~g~~~~A~~~~~~~~~~~p~~-~~~~~~~l~~~~~~~-g~~~  393 (545)
                      ..+|...+++. .+.|+   ...|..|...|.+     -|+.++|++.|+++++++|+. .. +++..+..++.. |+.+
T Consensus       179 l~~A~a~lerAleLDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id-~~v~YA~~l~~~~gd~~  257 (301)
T 3u64_A          179 VHAAVMMLERACDLWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPD-HHITYADALCIPLNNRA  257 (301)
T ss_dssp             HHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSH-HHHHHHHHTTTTTTCHH
T ss_pred             HHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCch-HHHHHHHHHHHhcCCHH
Confidence            44555555555 44565   4678888888888     499999999999999999975 66 899999998884 9999


Q ss_pred             HHHHHHHHhhhCCCccCC
Q 009066          394 DVARIRLSMKENNVVKMP  411 (545)
Q Consensus       394 ~a~~~~~~m~~~~~~~~~  411 (545)
                      ++.+.+++.........|
T Consensus       258 ~a~~~L~kAL~a~p~~~P  275 (301)
T 3u64_A          258 GFDEALDRALAIDPESVP  275 (301)
T ss_dssp             HHHHHHHHHHHCCGGGCS
T ss_pred             HHHHHHHHHHcCCCCCCC
Confidence            999999998886655334

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=95.43  E-value=0.98  Score=37.79  Aligned_cols=129  Identities=13%  Similarity=0.107  Sum_probs=81.5

Q ss_pred             HHHHhcCCHHHHHHHHHhccCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHH
Q 009066          215 SMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQ  294 (545)
Q Consensus       215 ~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~  294 (545)
                      +....+|+++.|.++.+.+  .+...|..+......+|+++-|.+.|.+...         |..+.-.|...|+.+.-.+
T Consensus        13 ~LAL~lg~l~~A~e~a~~l--~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~L~k   81 (177)
T 3mkq_B           13 DLALEYGNLDAALDEAKKL--NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNKLSK   81 (177)
T ss_dssp             HHHHHTTCHHHHHHHHHHH--CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHhcCCHHHHHHHHHHh--CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHHHHH
Confidence            3445688888888887766  4677888888888888888888888887643         2334444555677665555


Q ss_pred             HHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHH
Q 009066          295 YFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNL  367 (545)
Q Consensus       295 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~  367 (545)
                      +-+....+ |      -++.-...+.-.|+++++.+++.+.+.-|...      -....+|..+.|.++.+++
T Consensus        82 la~iA~~~-g------~~n~af~~~l~lGdv~~~i~lL~~~~r~~eA~------~~A~t~g~~~~a~~~~~~~  141 (177)
T 3mkq_B           82 MQNIAQTR-E------DFGSMLLNTFYNNSTKERSSIFAEGGSLPLAY------AVAKANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHHHHT-T------CHHHHHHHHHHHTCHHHHHHHHHHTTCHHHHH------HHHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHHHC-c------cHHHHHHHHHHcCCHHHHHHHHHHCCChHHHH------HHHHHcCcHHHHHHHHHHh
Confidence            44333221 1      13444455666788888888888775322211      1223466667777776655

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=95.42  E-value=0.04  Score=45.05  Aligned_cols=85  Identities=16%  Similarity=0.045  Sum_probs=54.5

Q ss_pred             HHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcC---CHHHHHHHHHhC-CCC-C--CHhHHHHHHHHHHhcCCHHHHHH
Q 009066          290 DLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAG---KLVEAVDLIKKM-PFK-P--QPAIFGTLLSACRVHKRLDLAEF  362 (545)
Q Consensus       290 ~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g---~~~~A~~~~~~m-~~~-p--~~~~~~~li~~~~~~g~~~~A~~  362 (545)
                      ..+++.|.+..+. + +++..+...+.-++.+.+   ++++++.++++. ... |  +...+..|.-++.+.|++++|.+
T Consensus        15 ~~~~~~y~~e~~~-~-~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~A~~   92 (152)
T 1pc2_A           15 LKFEKKFQSEKAA-G-SVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALK   92 (152)
T ss_dssp             HHHHHHHHHHHHT-T-CCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHHHHH
T ss_pred             HHHHHHHHHHHcc-C-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHHHHH
Confidence            3344444444331 2 355555556666666655   444666666555 112 3  23456677778899999999999


Q ss_pred             HHHHHhcCCCCCCc
Q 009066          363 AAMNLFNLNPANAA  376 (545)
Q Consensus       363 ~~~~~~~~~p~~~~  376 (545)
                      .++.+++.+|++..
T Consensus        93 y~~~lL~ieP~n~Q  106 (152)
T 1pc2_A           93 YVRGLLQTEPQNNQ  106 (152)
T ss_dssp             HHHHHHHHCTTCHH
T ss_pred             HHHHHHhcCCCCHH
Confidence            99999999998864

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=95.09  E-value=0.13  Score=40.32  Aligned_cols=66  Identities=8%  Similarity=-0.084  Sum_probs=33.3

Q ss_pred             CCHhHHHHHHHHHHhcCCHHH---HHHHHHHHhcCC-CCCCchhHHHHHHHHHHcCCchHHHHHHHHhhh
Q 009066          339 PQPAIFGTLLSACRVHKRLDL---AEFAAMNLFNLN-PANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       339 p~~~~~~~li~~~~~~g~~~~---A~~~~~~~~~~~-p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  404 (545)
                      |+..+--.+..++.+..+...   ++.+++.++..+ |.........|+-++.+.|++++|++..+.+.+
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            344444444444544444443   555555555544 311111455555666666666666666665544

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=94.58  E-value=0.0011  Score=64.34  Aligned_cols=237  Identities=11%  Similarity=0.104  Sum_probs=140.4

Q ss_pred             HhHHHHHHHHHHHcCChHHHHHHHhhCCCCCcccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 009066          101 SVSWSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLL  180 (545)
Q Consensus       101 ~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~  180 (545)
                      +.+|+.|..++.+.+++.+|.+.|-  ...|+..|..+|.+.     .+.|.+++-+..+...++..-.|.  .=+.++-
T Consensus        54 p~VWs~LgkAqL~~~~v~eAIdsyI--kA~Dps~y~eVi~~A-----~~~~~~edLv~yL~MaRk~~ke~~--IDteLi~  124 (624)
T 3lvg_A           54 PAVWSQLAKAQLQKGMVKEAIDSYI--KADDPSSYMEVVQAA-----NTSGNWEELVKYLQMARKKARESY--VETELIF  124 (624)
T ss_dssp             CCCSSSHHHHTTTSSSCTTTTTSSC--CCSCCCSSSHHHHHT-----TTSSCCTTHHHHHHTTSTTCCSTT--TTHHHHH
T ss_pred             ccHHHHHHHHHHccCchHHHHHHHH--hCCChHHHHHHHHHH-----HhCCCHHHHHHHHHHHHHHhcccc--cHHHHHH
Confidence            4455666666666666666655442  234555566666666     666666666665554443322222  2234555


Q ss_pred             HHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccC------------------------C
Q 009066          181 GCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR------------------------K  236 (545)
Q Consensus       181 ~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~------------------------~  236 (545)
                      +|++.+++.+-+++.       -.|+..-...+.+-+...|.++.|.-+|..+..                        .
T Consensus       125 ayAk~~rL~elEefl-------~~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAn  197 (624)
T 3lvg_A          125 ALAKTNRLAELEEFI-------NGPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKAN  197 (624)
T ss_dssp             HHHTSCSSSTTTSTT-------SCCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCC
T ss_pred             HHHhhCcHHHHHHHH-------cCCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            666666654433222       135555555666666666777766666665542                        3


Q ss_pred             ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHH
Q 009066          237 DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMV  316 (545)
Q Consensus       237 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li  316 (545)
                      ++.+|-.+-.+|...+.+.-|.-.--.+.   +.||.  ...++..|...|.+++-+.+++.-..  .-......++-|.
T Consensus       198 s~ktWKeV~~ACvd~~EfrLAqicGLniI---vhade--L~elv~~YE~~G~f~ELIsLlEaglg--lErAHmGmFTELa  270 (624)
T 3lvg_A          198 STRTWKEVCFACVDGKEFRLAQMCGLHIV---VHADE--LEELINYYQDRGYFEELITMLEAALG--LERAHMGMFTELA  270 (624)
T ss_dssp             SSCSHHHHTHHHHHSCTTTTTTHHHHHHH---CCSSC--CSGGGSSSSTTCCCTTSTTTHHHHTT--STTCCHHHHHHHH
T ss_pred             ChhHHHHHHHHHhCchHHHHHHHhcchhc---ccHHH--HHHHHHHHHhCCCHHHHHHHHHHHhC--CCchhHHHHHHHH
Confidence            67889999999999888877665544444   22222  22356667788888888888876552  2235567777787


Q ss_pred             HHHhHcCCHHHHHHHHHhC----CCC------CCHhHHHHHHHHHHhcCCHHHHH
Q 009066          317 DLLGRAGKLVEAVDLIKKM----PFK------PQPAIFGTLLSACRVHKRLDLAE  361 (545)
Q Consensus       317 ~~~~~~g~~~~A~~~~~~m----~~~------p~~~~~~~li~~~~~~g~~~~A~  361 (545)
                      -+|++= +.++-++-++-.    .+.      .....|.-++-.|.+..+++.|.
T Consensus       271 ILYsKY-~PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~  324 (624)
T 3lvg_A          271 ILYSKF-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAI  324 (624)
T ss_dssp             HHHHSS-CTTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHhc-CHHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHH
Confidence            777764 444444444332    221      13456888888888888777665

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=94.56  E-value=1  Score=35.94  Aligned_cols=66  Identities=8%  Similarity=-0.036  Sum_probs=38.3

Q ss_pred             CCHhHHHHHHHHHHhcCCH---HHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhh
Q 009066          339 PQPAIFGTLLSACRVHKRL---DLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       339 p~~~~~~~li~~~~~~g~~---~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  404 (545)
                      |+..+--.+..++.+..+.   .+++.+++.+...+|.........|+-++.+.|++++|++..+.+.+
T Consensus        37 vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~  105 (144)
T 1y8m_A           37 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  105 (144)
T ss_dssp             SCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            4444444445555554433   35666666666666643333566666667777777777777666655

>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=93.86  E-value=0.16  Score=46.26  Aligned_cols=82  Identities=10%  Similarity=0.150  Sum_probs=51.2

Q ss_pred             HHHHHHHHHHhHHhcCCCCC---HHHHHHHHHHHhH-----cCCHHHHHHHHHhC-CCCCC--HhHHHHHHHHHHhc-CC
Q 009066          289 VDLGIQYFDSMVNDYGIAAK---PDHYTCMVDLLGR-----AGKLVEAVDLIKKM-PFKPQ--PAIFGTLLSACRVH-KR  356 (545)
Q Consensus       289 ~~~a~~~~~~~~~~~~~~~~---~~~~~~li~~~~~-----~g~~~~A~~~~~~m-~~~p~--~~~~~~li~~~~~~-g~  356 (545)
                      ...|...+++.++   +.|+   ...|..|...|.+     -|+.++|.+.|++. .+.|+  ..++......++.. |+
T Consensus       179 l~~A~a~lerAle---LDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd  255 (301)
T 3u64_A          179 VHAAVMMLERACD---LWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNN  255 (301)
T ss_dssp             HHHHHHHHHHHHH---HCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTC
T ss_pred             HHHHHHHHHHHHH---hCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCC
Confidence            3444555555543   2444   4456666666766     37777777777766 44452  45566666666663 77


Q ss_pred             HHHHHHHHHHHhcCCCC
Q 009066          357 LDLAEFAAMNLFNLNPA  373 (545)
Q Consensus       357 ~~~A~~~~~~~~~~~p~  373 (545)
                      .++|.+.+++++...|.
T Consensus       256 ~~~a~~~L~kAL~a~p~  272 (301)
T 3u64_A          256 RAGFDEALDRALAIDPE  272 (301)
T ss_dssp             HHHHHHHHHHHHHCCGG
T ss_pred             HHHHHHHHHHHHcCCCC
Confidence            77777777777777776

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=93.41  E-value=0.8  Score=48.10  Aligned_cols=55  Identities=13%  Similarity=-0.014  Sum_probs=49.6

Q ss_pred             HHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhh
Q 009066          348 LSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMK  403 (545)
Q Consensus       348 i~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  403 (545)
                      ..-|...|+++.|+.+.+++...-|.... +|..|+.+|.+.|+|+.|+-.+..+-
T Consensus       344 a~FLl~K~~~elAL~~Ak~AV~~aPseF~-tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          344 TNFLLNRGDYELALGVSNTSTELALDSFE-SWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCSSCHH-HHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             HHHHhccCcHHHHHHHHHHHHhcCchhhH-HHHHHHHHHHHhccHHHHHHHHhcCC
Confidence            34466789999999999999999999988 99999999999999999999998873

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=93.29  E-value=0.29  Score=37.08  Aligned_cols=58  Identities=14%  Similarity=0.057  Sum_probs=31.2

Q ss_pred             HHHHHHHccCcHHHHHHHHHHhHHhcC-----CCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC
Q 009066          278 ALLLACNHAGLVDLGIQYFDSMVNDYG-----IAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM  335 (545)
Q Consensus       278 ~ll~a~~~~g~~~~a~~~~~~~~~~~~-----~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  335 (545)
                      .+...+...|+++.|...++...+...     -.+....+..|..+|.+.|++++|...+++.
T Consensus        10 ~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~a   72 (104)
T 2v5f_A           10 ELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKL   72 (104)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            444445555555555555555443220     1233455666666666666666666666655

>1qsa_A Protein (soluble lytic transglycosylase SLT70); alpha-superhelix, transferase; HET: GOL; 1.65A {Escherichia coli} SCOP: a.118.5.1 d.2.1.6 PDB: 1qte_A* 1sly_A*

Probab=92.62  E-value=10  Score=38.90  Aligned_cols=114  Identities=9%  Similarity=0.001  Sum_probs=68.5

Q ss_pred             CChHHHHHHHHHHHHcCCCCCHHHHH----HHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHH
Q 009066          252 GKGEKALRLFDKMKDEGMKPDSITFV----ALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVE  327 (545)
Q Consensus       252 g~~~~A~~~~~~m~~~g~~p~~~t~~----~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  327 (545)
                      .+.+.|..+|....... ..+.....    .+.......+...++...+......   .++.....-.+..-.+.|+.+.
T Consensus       228 ~d~~~A~~~~~~~~~~~-~~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~e~~~r~Alr~~d~~~  303 (618)
T 1qsa_A          228 QDAENARLMIPSLAQAQ-QLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMR---SQSTSLIERRVRMALGTGDRRG  303 (618)
T ss_dssp             HCHHHHHHHHHHHHHHT-TCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHT---CCCHHHHHHHHHHHHHHTCHHH
T ss_pred             cCHHHHHHHHHhhhhcc-CCCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhcccc---CCChHHHHHHHHHHHHCCCHHH
Confidence            37789999998886543 22333222    2222333444244555566554432   3343334444455557899999


Q ss_pred             HHHHHHhCCCCC-CHhH-HHHHHHHHHhcCCHHHHHHHHHHHhc
Q 009066          328 AVDLIKKMPFKP-QPAI-FGTLLSACRVHKRLDLAEFAAMNLFN  369 (545)
Q Consensus       328 A~~~~~~m~~~p-~~~~-~~~li~~~~~~g~~~~A~~~~~~~~~  369 (545)
                      |...|+.|+..+ +..- .-=+..++...|+.++|..+|+++.+
T Consensus       304 a~~~~~~l~~~~~~~~r~~YW~~ra~~~~g~~~~a~~~~~~~a~  347 (618)
T 1qsa_A          304 LNTWLARLPMEAKEKDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (618)
T ss_dssp             HHHHHHHSCTTGGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHccccccccHhHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            999999995432 2222 23344567788999999999999875

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=92.44  E-value=0.89  Score=35.63  Aligned_cols=85  Identities=16%  Similarity=0.013  Sum_probs=53.7

Q ss_pred             HHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHH---HHHHHHhC-CCC-C--CHhHHHHHHHHHHhcCCHHHHHH
Q 009066          290 DLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVE---AVDLIKKM-PFK-P--QPAIFGTLLSACRVHKRLDLAEF  362 (545)
Q Consensus       290 ~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~---A~~~~~~m-~~~-p--~~~~~~~li~~~~~~g~~~~A~~  362 (545)
                      ..+.+.+...... + .++..+-..+.-++.+.....+   ++.++++. ... |  .....-.|.-++.+.|++++|.+
T Consensus        18 ~~~~~~y~~e~~~-~-~~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A~~   95 (126)
T 1nzn_A           18 LKFEKKFQSEKAA-G-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALK   95 (126)
T ss_dssp             HHHHHHHHHHHHH-S-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHhcc-C-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHHHH
Confidence            3344444444332 2 2566666666666666665554   66666655 211 3  22344556678889999999999


Q ss_pred             HHHHHhcCCCCCCc
Q 009066          363 AAMNLFNLNPANAA  376 (545)
Q Consensus       363 ~~~~~~~~~p~~~~  376 (545)
                      .++.+++.+|++..
T Consensus        96 ~~~~lL~~eP~n~Q  109 (126)
T 1nzn_A           96 YVRGLLQTEPQNNQ  109 (126)
T ss_dssp             HHHHHHHHCTTCHH
T ss_pred             HHHHHHHhCCCCHH
Confidence            99999999998864

>3ltj_A Alpharep-4; protein engineering, heat-like repeat, protein binding; 1.80A {Synthetic}

Probab=92.05  E-value=5.1  Score=34.09  Aligned_cols=180  Identities=9%  Similarity=-0.038  Sum_probs=101.2

Q ss_pred             HHHccCCCCChhhHHHHHHHHHcCCCCHHHHHHHHhcCCCCCeehHHHHHHHHHhCCCHHHHHHHHhhCCcCCHhHHHHH
Q 009066           28 ELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAM  107 (545)
Q Consensus        28 ~~f~~~~~~~~~~~~~li~~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l  107 (545)
                      .+++.+..+|...-...+..+... +..+..-.+.+.+..+|...-...+.++.+.|+.+....+...+..++..+-...
T Consensus        18 ~~i~~L~~~~~~vr~~A~~~L~~~-~~~~~~~~L~~~l~~~~~~vr~~a~~~L~~~~~~~~~~~L~~~l~d~~~~vr~~a   96 (201)
T 3ltj_A           18 MYIKNLQDDSYYVRRAAAYALGKI-GDERAVEPLIKALKDEDAWVRRAAADALGQIGDERAVEPLIKALKDEDGWVRQSA   96 (201)
T ss_dssp             HHHHHTTCSCHHHHHHHHHHHHHH-CCGGGHHHHHHHTTCSSHHHHHHHHHHHHHHCCGGGHHHHHHHTTCSSHHHHHHH
T ss_pred             HHHHHhcCCCHHHHHHHHHHHHhc-CChhHHHHHHHHHcCCCHHHHHHHHHHHHhhCCHHHHHHHHHHHcCCCHHHHHHH
Confidence            344445555555444445555554 4433333444444455555555566666666665555555555666777777788


Q ss_pred             HHHHHHcCChHHHHHHHhhCCCCCcccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCc
Q 009066          108 ISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSS  187 (545)
Q Consensus       108 i~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~  187 (545)
                      +.++.+.|+.+....+.+.+..++...-...+.++     ...+. .+++..+..+..   .++...-...+.+....+.
T Consensus        97 ~~aL~~~~~~~~~~~L~~~l~d~~~~vr~~a~~aL-----~~~~~-~~~~~~L~~~l~---d~~~~vr~~A~~aL~~~~~  167 (201)
T 3ltj_A           97 AVALGQIGDERAVEPLIKALKDEDWFVRIAAAFAL-----GEIGD-ERAVEPLIKALK---DEDGWVRQSAADALGEIGG  167 (201)
T ss_dssp             HHHHHHHCCGGGHHHHHHHTTCSSHHHHHHHHHHH-----HHHTC-GGGHHHHHHHTT---CSSHHHHHHHHHHHHHHCS
T ss_pred             HHHHHHhCcHHHHHHHHHHHcCCCHHHHHHHHHHH-----HHhCC-HHHHHHHHHHHc---CCCHHHHHHHHHHHHHhCc
Confidence            88888888765555555555556654444555555     33443 245555555554   3566666666777777766


Q ss_pred             HHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcC
Q 009066          188 LQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCG  221 (545)
Q Consensus       188 ~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g  221 (545)
                      .+ +...+..+.+.   ++..+-...+.+..+.+
T Consensus       168 ~~-~~~~L~~~l~d---~~~~vr~~A~~aL~~l~  197 (201)
T 3ltj_A          168 ER-VRAAMEKLAET---GTGFARKVAVNYLETHK  197 (201)
T ss_dssp             HH-HHHHHHHHHHH---CCHHHHHHHHHHHHHCC
T ss_pred             hh-HHHHHHHHHhC---CCHHHHHHHHHHHHHHH
Confidence            44 44444444432   34555555555555443

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=91.49  E-value=1.2  Score=35.02  Aligned_cols=46  Identities=11%  Similarity=0.097  Sum_probs=24.2

Q ss_pred             HHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhh
Q 009066          359 LAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       359 ~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  404 (545)
                      +++.+++.+.+.+|......+..|+-++.+.|++++|++..+.+.+
T Consensus        61 ~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~  106 (134)
T 3o48_A           61 LGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  106 (134)
T ss_dssp             HHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            4555555555555532222455555556666666666665555543

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=91.21  E-value=19  Score=38.84  Aligned_cols=251  Identities=12%  Similarity=0.001  Sum_probs=118.7

Q ss_pred             HHcCChHHHHHHHhhCCCCC-cccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCC--CCC---H-H---HHHHHHHH
Q 009066          112 IECGQLDKAVELFKVAPVKS-VVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGI--RPN---A-S---SLSSVLLG  181 (545)
Q Consensus       112 ~~~g~~~~A~~~f~~~~~~~-~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~--~pd---~-~---t~~~ll~~  181 (545)
                      ...|+.+++..+++.....+ ...-..-..++.-.|.+..|..+++++++...+...-  .-+   . .   ....+..+
T Consensus       385 Ih~g~~~~gl~~L~~yL~~~~s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGLGla  464 (963)
T 4ady_A          385 IHKGNLLEGKKVMAPYLPGSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGIGLA  464 (963)
T ss_dssp             HTSSCTTTHHHHHTTTSTTSCCSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHHHHH
T ss_pred             hccCchHHHHHHHHHhccccCCCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHHHHH
Confidence            34555566666665543311 1111111222222233666666677777766554210  000   1 1   11122223


Q ss_pred             HhccCcHHHHHHHHHHHHhCCCCCCc--ccHHHHHHHHHhcCCHHHHHHHHHhccC-CChhh--HHHHHHHHHHcCChHH
Q 009066          182 CSHLSSLQLGKQVHQLVFKSPLCKDT--TALTPLISMYCKCGDLEDACKLFLEIQR-KDVVT--WNAMISGYAQHGKGEK  256 (545)
Q Consensus       182 ~~~~~~~~~a~~~~~~~~~~g~~~~~--~~~~~li~~y~~~g~~~~A~~~f~~~~~-~~~~~--~~~li~~~~~~g~~~~  256 (545)
                      +...++-+ +...+..++...- +..  ...-+|...|.-.|+-+....++..+.+ .+...  .-++.-++...|+.+.
T Consensus       465 ~~GS~~ee-v~e~L~~~L~dd~-~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~~e~vrR~aalgLGll~~g~~e~  542 (963)
T 4ady_A          465 AMGSANIE-VYEALKEVLYNDS-ATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQHGNITRGLAVGLALINYGRQEL  542 (963)
T ss_dssp             STTCCCHH-HHHHHHHHHHTCC-HHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCGGG
T ss_pred             hcCCCCHH-HHHHHHHHHhcCC-HHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhhhCCChHH
Confidence            33344433 3344444433211 101  1222344555566777777777765542 22222  2333344556788888


Q ss_pred             HHHHHHHHHHcCCCCCHHHHH---HHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHH
Q 009066          257 ALRLFDKMKDEGMKPDSITFV---ALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIK  333 (545)
Q Consensus       257 A~~~~~~m~~~g~~p~~~t~~---~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  333 (545)
                      +..+.+.+... ..|. .-|.   ++.-+|+..|+.....++++.+..+  ...++.-...+.-++...|+.+.+.++++
T Consensus       543 ~~~li~~L~~~-~dp~-vRygaa~alglAyaGTGn~~aIq~LL~~~~~d--~~d~VRraAViaLGlI~~g~~e~v~rlv~  618 (963)
T 4ady_A          543 ADDLITKMLAS-DESL-LRYGGAFTIALAYAGTGNNSAVKRLLHVAVSD--SNDDVRRAAVIALGFVLLRDYTTVPRIVQ  618 (963)
T ss_dssp             GHHHHHHHHHC-SCHH-HHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHC--SCHHHHHHHHHHHHHHTSSSCSSHHHHTT
T ss_pred             HHHHHHHHHhC-CCHH-HHHHHHHHHHHHhcCCCCHHHHHHHHHHhccC--CcHHHHHHHHHHHHhhccCCHHHHHHHHH
Confidence            88888888763 1222 2232   3345677889988877788877652  22333333333334444666666667766


Q ss_pred             hCC--CCCCHhHHHHHHHHHHhcCCH-HHHHHHHHHHh
Q 009066          334 KMP--FKPQPAIFGTLLSACRVHKRL-DLAEFAAMNLF  368 (545)
Q Consensus       334 ~m~--~~p~~~~~~~li~~~~~~g~~-~~A~~~~~~~~  368 (545)
                      .+.  ..|.+.--..+.-+....|+. .++...+..+.
T Consensus       619 ~L~~~~d~~VR~gAalALGli~aGn~~~~aid~L~~L~  656 (963)
T 4ady_A          619 LLSKSHNAHVRCGTAFALGIACAGKGLQSAIDVLDPLT  656 (963)
T ss_dssp             TGGGCSCHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHH
T ss_pred             HHHhcCCHHHHHHHHHHHHHhccCCCcHHHHHHHHHHc
Confidence            542  223332222232333333333 35555665554

>3ltm_A Alpha-REP4; protein engineering, heat-like repeat, protein binding; HET: 1PE 12P; 2.15A {Synthetic}

Probab=90.95  E-value=7  Score=33.52  Aligned_cols=186  Identities=8%  Similarity=-0.047  Sum_probs=113.5

Q ss_pred             hHHHHHHHccCCCCChhhHHHHHHHHHcCCCCHHHHHHHHhcCCCCCeehHHHHHHHHHhCCCHHHHHHHHhhCCcCCHh
Q 009066           23 LKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSV  102 (545)
Q Consensus        23 ~~~A~~~f~~~~~~~~~~~~~li~~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  102 (545)
                      .+....+.+.+..+|...-...+..+.+. |..+..-.+.+.+..+|...-...+.++.+.++.+....+...+..++..
T Consensus        18 ~~~~~~L~~~L~~~~~~vR~~A~~~L~~~-~~~~~~~~L~~~l~~~~~~vr~~a~~aL~~~~~~~~~~~L~~~l~~~~~~   96 (211)
T 3ltm_A           18 PEKVEMYIKNLQDDSYYVRRAAAYALGKI-GDERAVEPLIKALKDEDAWVRRAAADALGQIGDERAVEPLIKALKDEDGW   96 (211)
T ss_dssp             GGGHHHHHHHTTCSSHHHHHHHHHHHHHH-CCGGGHHHHHHHTTCSCHHHHHHHHHHHHHHCCGGGHHHHHHHTTCSSHH
T ss_pred             HhHHHHHHHHHcCCCHHHHHHHHHHHHHh-CCccHHHHHHHHHcCCCHHHHHHHHHHHHhhCCHHHHHHHHHHHcCCCHH
Confidence            44444555556667666555555566665 55443444444455666666666777777777765555566666678888


Q ss_pred             HHHHHHHHHHHcCChHHHHHHHhhCCCCCcccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 009066          103 SWSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGC  182 (545)
Q Consensus       103 ~~~~li~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~  182 (545)
                      +-...+..+.+.|+.+....+.+.+..++...-...+.++     ...|.. +++..+.++.+   .+|...-...+.+.
T Consensus        97 vr~~a~~aL~~~~~~~~~~~L~~~l~d~~~~vr~~a~~aL-----~~~~~~-~~~~~L~~~l~---d~~~~vr~~a~~aL  167 (211)
T 3ltm_A           97 VRQSAAVALGQIGDERAVEPLIKALKDEDWFVRIAAAFAL-----GEIGDE-RAVEPLIKALK---DEDGWVRQSAADAL  167 (211)
T ss_dssp             HHHHHHHHHHHHCCGGGHHHHHHHTTCSSHHHHHHHHHHH-----HHHCCG-GGHHHHHHHTT---CSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHhCCCHHHHHHHHHHH-----HHcCCH-HHHHHHHHHHc---CCCHHHHHHHHHHH
Confidence            8888888888888866555566666666665555556666     444443 45666666654   45666667777777


Q ss_pred             hccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCC
Q 009066          183 SHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGD  222 (545)
Q Consensus       183 ~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~  222 (545)
                      ...+.. .+...+..+.+.   ++..+-...+.++.+.+.
T Consensus       168 ~~~~~~-~~~~~L~~~l~d---~~~~vr~~A~~aL~~~~~  203 (211)
T 3ltm_A          168 GEIGGE-RVRAAMEKLAET---GTGFARKVAVNYLETHKS  203 (211)
T ss_dssp             HHHCSH-HHHHHHHHHHHH---CCHHHHHHHHHHHHC---
T ss_pred             HHhCch-hHHHHHHHHHhC---CCHHHHHHHHHHHHhcCC
Confidence            777764 444555555543   345555555666555443

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=90.94  E-value=4.9  Score=31.76  Aligned_cols=140  Identities=13%  Similarity=0.061  Sum_probs=86.4

Q ss_pred             hccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHH
Q 009066          148 VENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDAC  227 (545)
Q Consensus       148 ~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~  227 (545)
                      .-.|..++..++..+....   .+..-++-++.-....-+-+-..++++.+-+   ..|.          ..||++....
T Consensus        18 ildG~v~qGveii~k~~~s---sni~E~NW~ICNiiD~a~C~y~v~vLd~IGk---iFDi----------s~C~NlKrVi   81 (172)
T 1wy6_A           18 LLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGS---YFDL----------DKCQNLKSVV   81 (172)
T ss_dssp             HHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGG---GSCG----------GGCSCTHHHH
T ss_pred             HHhhhHHHHHHHHHHHcCC---CCccccceeeeecchhhchhHHHHHHHHHhh---hcCc----------HhhhcHHHHH
Confidence            3445566667777766653   2344444444443444444444444444432   2222          2356666666


Q ss_pred             HHHHhccCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCC
Q 009066          228 KLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIA  306 (545)
Q Consensus       228 ~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~  306 (545)
                      ..|-.+.. +....+..+..+...|+-++-.+++..+.. +.+|+......+..||.+.|+..++.+++.+..++ |++
T Consensus        82 ~C~~~~n~-~se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~k-G~k  157 (172)
T 1wy6_A           82 ECGVINNT-LNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACKK-GEK  157 (172)
T ss_dssp             HHHHHTTC-CCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT-TCH
T ss_pred             HHHHHhcc-hHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHh-hhH
Confidence            66655533 444556667778888888888888888644 35777788888888899999988888888888775 543

>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=90.44  E-value=1.2  Score=35.88  Aligned_cols=54  Identities=6%  Similarity=-0.090  Sum_probs=34.5

Q ss_pred             CCHHHHHHHHHhC-CC-CCCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCc
Q 009066          323 GKLVEAVDLIKKM-PF-KPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA  376 (545)
Q Consensus       323 g~~~~A~~~~~~m-~~-~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~  376 (545)
                      ++.++|.++|+.+ .. +.=..+|-....--.++|+...|.+++.+.+++.|.+..
T Consensus        74 ~D~d~aR~vy~~a~~~hKkFAKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~~~  129 (161)
T 4h7y_A           74 QEPDDARDYFQMARANCKKFAFVHISFAQFELSQGNVKKSKQLLQKAVERGAVPLE  129 (161)
T ss_dssp             HCGGGCHHHHHHHHHHCTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBCHH
T ss_pred             cCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCcHH
Confidence            4445555555444 00 011556666666667788888888888888888887654

>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=89.25  E-value=0.97  Score=36.48  Aligned_cols=100  Identities=8%  Similarity=-0.003  Sum_probs=63.4

Q ss_pred             CCHHHHHHHHHHHhHcCCH------HHHHHHHHhC--CCCCCH-hHHHHHHHH------HHhcCCHHHHHHHHHHHhcCC
Q 009066          307 AKPDHYTCMVDLLGRAGKL------VEAVDLIKKM--PFKPQP-AIFGTLLSA------CRVHKRLDLAEFAAMNLFNLN  371 (545)
Q Consensus       307 ~~~~~~~~li~~~~~~g~~------~~A~~~~~~m--~~~p~~-~~~~~li~~------~~~~g~~~~A~~~~~~~~~~~  371 (545)
                      .|.++|-..++.+-+.|+.      ++..++|++.  .++|+. ..|...|..      +...+|.++|..+|+.++.+.
T Consensus        11 ~~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~~h   90 (161)
T 4h7y_A           11 NNPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEALPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARANC   90 (161)
T ss_dssp             CSHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHHSCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHHC
T ss_pred             CCHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHcCCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence            3455555555555555555      5555555544  222322 233332221      233489999999999998774


Q ss_pred             CCCCchhHHHHHHHHHHcCCchHHHHHHHHhhhCCC
Q 009066          372 PANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNV  407 (545)
Q Consensus       372 p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  407 (545)
                      ..-.- .+...+..-.+.|+...|++++.+....+.
T Consensus        91 KkFAK-iwi~~AqFEiRqgnl~kARkILg~AiG~~~  125 (161)
T 4h7y_A           91 KKFAF-VHISFAQFELSQGNVKKSKQLLQKAVERGA  125 (161)
T ss_dssp             TTBHH-HHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHH-HHHHHHHHHHHcccHHHHHHHHHHHhccCC
Confidence            44433 677777778899999999999999887654

>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=88.57  E-value=4.3  Score=29.94  Aligned_cols=61  Identities=11%  Similarity=0.110  Sum_probs=44.7

Q ss_pred             HHHHHcCChHHHHHHHhhCCCCCcccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHH
Q 009066          109 SGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSS  177 (545)
Q Consensus       109 ~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~  177 (545)
                      ..+...|++++|..+.+.+.-||..+|-+|-..       +.|..+++..-+.++...| .|....|..
T Consensus        48 sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce~-------rlGl~s~le~rL~~la~sg-~p~~q~Fa~  108 (116)
T 2p58_C           48 SSLMNRGDYASALQQGNKLAYPDLEPWLALCEY-------RLGLGSALESRLNRLARSQ-DPRIQTFVN  108 (116)
T ss_dssp             HHHHHTTCHHHHHHHHTTSCCGGGHHHHHHHHH-------HHTCHHHHHHHHHHHTTCC-CHHHHHHHH
T ss_pred             HHHHcchhHHHHHHhcCCCCCchHHHHHHHHHH-------hcccHHHHHHHHHHHHhCC-CHHHHHHHH
Confidence            456678999999999999888999998887664       4566677777777777766 554444443

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=88.39  E-value=4  Score=30.04  Aligned_cols=61  Identities=15%  Similarity=0.185  Sum_probs=46.6

Q ss_pred             HHHHHcCChHHHHHHHhhCCCCCcccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHH
Q 009066          109 SGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSS  177 (545)
Q Consensus       109 ~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~  177 (545)
                      ..+...|++++|..+.+.+.-||..+|-++-..       +.|..+++..-+.++..+| .|....|..
T Consensus        47 sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce~-------rlGl~s~le~rL~~la~sg-~p~~q~Fa~  107 (115)
T 2uwj_G           47 SSLANQGRYQEALAFAHGNPWPALEPWFALCEW-------HLGLGAALDRRLAGLGGSS-DPALADFAA  107 (115)
T ss_dssp             HHHHHTTCHHHHHGGGTTCCCGGGHHHHHHHHH-------HTTCHHHHHHHHHHHHTCS-SHHHHHHHH
T ss_pred             HHHHcchhHHHHHHhcCCCCCchHHHHHHHHHH-------hcccHHHHHHHHHHHHhCC-CHHHHHHHH
Confidence            456678999999999999999999999888764       4677778877777887776 555555543

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=87.66  E-value=7.9  Score=40.67  Aligned_cols=123  Identities=13%  Similarity=0.109  Sum_probs=77.2

Q ss_pred             HHHHHHHhcCC-HHHHHHHHHhccCCChh--h--HHHHHHHHHHcC-ChHHHHHHHHHHHHc------CCCCCHH-----
Q 009066          212 PLISMYCKCGD-LEDACKLFLEIQRKDVV--T--WNAMISGYAQHG-KGEKALRLFDKMKDE------GMKPDSI-----  274 (545)
Q Consensus       212 ~li~~y~~~g~-~~~A~~~f~~~~~~~~~--~--~~~li~~~~~~g-~~~~A~~~~~~m~~~------g~~p~~~-----  274 (545)
                      +|+..+...|+ ++.|..+|+++.+.+..  +  ...+|..+.+.+ +--+|+.++.+..+.      ...+...     
T Consensus       253 ~Ll~~~~~t~~~~~~a~~~le~L~~~~p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~~~~  332 (754)
T 4gns_B          253 SLKSFIAITPSLVDFTIDYLKGLTKKDPIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADSARL  332 (754)
T ss_dssp             HHHHHHHTCGGGHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHHHHH
T ss_pred             HHHHHHcccccHHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhcccccccccc
Confidence            34444444566 57899999988764432  2  222333322222 233566666555421      1221111     


Q ss_pred             ------HHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhCC
Q 009066          275 ------TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMP  336 (545)
Q Consensus       275 ------t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  336 (545)
                            ....-...|...|+++-|+++-++....  .+.+-.+|..|+..|...|+++.|+-.++.+|
T Consensus       333 ~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~--aPseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          333 MNCMSDLLNIQTNFLLNRGDYELALGVSNTSTEL--ALDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             cCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhc--CchhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence                  1111123466789999999999988763  34557899999999999999999999999986

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=87.36  E-value=19  Score=33.58  Aligned_cols=167  Identities=14%  Similarity=0.166  Sum_probs=101.9

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhccCCChhhHHHHHHHHHHcCChHHHHHHH----HHHHHcCCCCCHHHHHHHHHHHHcc
Q 009066          211 TPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLF----DKMKDEGMKPDSITFVALLLACNHA  286 (545)
Q Consensus       211 ~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~----~~m~~~g~~p~~~t~~~ll~a~~~~  286 (545)
                      .++..=|.+.+++++|.+++..-           ...+.++|+...|-++-    +-..+.++++|..+...|+..+...
T Consensus        39 RTi~~Ry~~~k~y~eAidLL~~G-----------A~~ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~~L~~~~  107 (336)
T 3lpz_A           39 RLVAARYSKQGNWAAAVDILASV-----------SQTLLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLLGCLRLF  107 (336)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHH-----------HHHHHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTS
T ss_pred             HHHHHHHHhhcCHHHHHHHHHHH-----------HHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhC
Confidence            34556688889999998876533           34456667766555544    4455567888888877777776654


Q ss_pred             CcHHHH-HHHHHHhH---HhcC--CCCCHHHHHHHHHHHhHcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHHhcCCHHHH
Q 009066          287 GLVDLG-IQYFDSMV---NDYG--IAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLA  360 (545)
Q Consensus       287 g~~~~a-~~~~~~~~---~~~~--~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~li~~~~~~g~~~~A  360 (545)
                      ..-+-. ..+.+.++   .++|  ..-++.....+...|.+.|++.+|..-|- .+..+.+..+..++.-+...+...++
T Consensus       108 ~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~i-lg~~~s~~~~a~mL~ew~~~~~~~e~  186 (336)
T 3lpz_A          108 QPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKHLV-LGTKESPEVLARMEYEWYKQDESHTA  186 (336)
T ss_dssp             CTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHT-TSCTTHHHHHHHHHHHHHHTSCGGGH
T ss_pred             CCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHHHH-hcCCchHHHHHHHHHHHHHhcCCccH
Confidence            431111 11222221   1123  34567888899999999999999998884 34334446666666555444432221


Q ss_pred             HHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhh
Q 009066          361 EFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       361 ~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  404 (545)
                      -.               .....+--|...++...|..+++...+
T Consensus       187 dl---------------fiaRaVL~yL~l~n~~~A~~~~~~f~~  215 (336)
T 3lpz_A          187 PL---------------YCARAVLPYLLVANVRAANTAYRIFTS  215 (336)
T ss_dssp             HH---------------HHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HH---------------HHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            11               222333456678899999888776654

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=87.21  E-value=25  Score=37.88  Aligned_cols=258  Identities=12%  Similarity=0.051  Sum_probs=137.5

Q ss_pred             HHhCCCHHHHHHHHhhCCc----CCH--hHHHHHHHHHHHcCChHHHHHHHhhCC-CCCc-----ccHHHHHHHhcchhh
Q 009066           80 FVQKKNMAKARDLFLAMPE----KNS--VSWSAMISGYIECGQLDKAVELFKVAP-VKSV-----VAWTAMISGYMKFGY  147 (545)
Q Consensus        80 ~~~~g~~~~a~~~~~~~~~----~~~--~~~~~li~~~~~~g~~~~A~~~f~~~~-~~~~-----~~~~~li~~~~~~g~  147 (545)
                      ....|+.++++.++.....    .+.  .....+.-+...+|.-+++..++.... ..+.     ..-.....+..-.|.
T Consensus       384 lIh~g~~~~gl~~L~~yL~~~~s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGLGl  463 (963)
T 4ady_A          384 VIHKGNLLEGKKVMAPYLPGSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGIGL  463 (963)
T ss_dssp             HHTSSCTTTHHHHHTTTSTTSCCSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHHHH
T ss_pred             hhccCchHHHHHHHHHhccccCCCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHHHH
Confidence            4456777788888887764    222  233444455666777667777665432 2220     001111122222222


Q ss_pred             hccCC-hHHHHHHHHHHHhCCCCCCH--HHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHH--HhcCC
Q 009066          148 VENSW-AEDGLKLLRMMIGLGIRPNA--SSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMY--CKCGD  222 (545)
Q Consensus       148 ~~~g~-~~~A~~~~~~m~~~~~~pd~--~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y--~~~g~  222 (545)
                      +-.|. -+++.+.+..+.... .+..  ..-.++...+...|+-+....++..+.+..   +..+...+..+.  .-.|+
T Consensus       464 a~~GS~~eev~e~L~~~L~dd-~~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~---~e~vrR~aalgLGll~~g~  539 (963)
T 4ady_A          464 AAMGSANIEVYEALKEVLYND-SATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQ---HGNITRGLAVGLALINYGR  539 (963)
T ss_dssp             HSTTCCCHHHHHHHHHHHHTC-CHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCS---CHHHHHHHHHHHHHHTTTC
T ss_pred             HhcCCCCHHHHHHHHHHHhcC-CHHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccC---cHHHHHHHHHHHHhhhCCC
Confidence            33332 246777777777532 1111  111223334567788888888888877642   233333344443  46788


Q ss_pred             HHHHHHHHHhccC-CChh-hHH---HHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHH
Q 009066          223 LEDACKLFLEIQR-KDVV-TWN---AMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFD  297 (545)
Q Consensus       223 ~~~A~~~f~~~~~-~~~~-~~~---~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~  297 (545)
                      .+.+..+.+.+.. .|.. -|.   ++.-+|+..|+......++..+... ...+......+.-++...|+.+.+.++++
T Consensus       540 ~e~~~~li~~L~~~~dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d-~~d~VRraAViaLGlI~~g~~e~v~rlv~  618 (963)
T 4ady_A          540 QELADDLITKMLASDESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSD-SNDDVRRAAVIALGFVLLRDYTTVPRIVQ  618 (963)
T ss_dssp             GGGGHHHHHHHHHCSCHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHC-SCHHHHHHHHHHHHHHTSSSCSSHHHHTT
T ss_pred             hHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccC-CcHHHHHHHHHHHHhhccCCHHHHHHHHH
Confidence            8888888777753 3333 333   2345677788876666688888764 22222222222234444566666667766


Q ss_pred             HhHHhcCCCCCHHHHHHHHHHHhHcCCH-HHHHHHHHhCCCCCCHhHH
Q 009066          298 SMVNDYGIAAKPDHYTCMVDLLGRAGKL-VEAVDLIKKMPFKPQPAIF  344 (545)
Q Consensus       298 ~~~~~~~~~~~~~~~~~li~~~~~~g~~-~~A~~~~~~m~~~p~~~~~  344 (545)
                      .+.+  ...|.+..-.++.-+....|.. .+|.+++..+.-.+|..+-
T Consensus       619 ~L~~--~~d~~VR~gAalALGli~aGn~~~~aid~L~~L~~D~d~~Vr  664 (963)
T 4ady_A          619 LLSK--SHNAHVRCGTAFALGIACAGKGLQSAIDVLDPLTKDPVDFVR  664 (963)
T ss_dssp             TGGG--CSCHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHTCSSHHHH
T ss_pred             HHHh--cCCHHHHHHHHHHHHHhccCCCcHHHHHHHHHHccCCCHHHH
Confidence            5544  2245555555555555545543 5677777776334454433

>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=87.03  E-value=21  Score=34.17  Aligned_cols=128  Identities=10%  Similarity=-0.025  Sum_probs=57.7

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHHHhC-CCCC---CcccHHHHHHHHHhcC-CHHHHHHHHHhccC---CChhhH---
Q 009066          173 SSLSSVLLGCSHLSSLQLGKQVHQLVFKS-PLCK---DTTALTPLISMYCKCG-DLEDACKLFLEIQR---KDVVTW---  241 (545)
Q Consensus       173 ~t~~~ll~~~~~~~~~~~a~~~~~~~~~~-g~~~---~~~~~~~li~~y~~~g-~~~~A~~~f~~~~~---~~~~~~---  241 (545)
                      .....+...|.+.|+.++..+++...... +.-+   .......|++.+.... ..+.-.++..+..+   .+-.+|   
T Consensus        20 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~~~r~flr~   99 (394)
T 3txn_A           20 QGILQQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWAKQEKRTFLRQ   99 (394)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34555666666666666666666554321 0000   1123344555555432 22222222222221   111222   


Q ss_pred             ---HHHHHHHHHcCChHHHHHHHHHHHHcCCCCCH-----HHHHHHHHHHHccCcHHHHHHHHHHhH
Q 009066          242 ---NAMISGYAQHGKGEKALRLFDKMKDEGMKPDS-----ITFVALLLACNHAGLVDLGIQYFDSMV  300 (545)
Q Consensus       242 ---~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-----~t~~~ll~a~~~~g~~~~a~~~~~~~~  300 (545)
                         .-++..|...|++.+|..++.++.+.=-..|.     ..+..-+..|...+++.++...+....
T Consensus       100 ~l~~kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~  166 (394)
T 3txn_A          100 SLEARLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSAR  166 (394)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence               13455666666666666666666542111111     123333445555666666666655543

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=86.39  E-value=20  Score=35.20  Aligned_cols=184  Identities=10%  Similarity=0.074  Sum_probs=118.9

Q ss_pred             cCChHHHHHHHHHHHhC-----CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhC-CCCCCcccHHHHHH----HHHh
Q 009066          150 NSWAEDGLKLLRMMIGL-----GIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKS-PLCKDTTALTPLIS----MYCK  219 (545)
Q Consensus       150 ~g~~~~A~~~~~~m~~~-----~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~-g~~~~~~~~~~li~----~y~~  219 (545)
                      .|++++|++.+..+.+.     +..........++..|...++++...+.+..+.+. |..+  .....+++    ....
T Consensus        29 ~~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~qlk--~ai~~~V~~~~~~l~~  106 (445)
T 4b4t_P           29 QNDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLK--LSIQYMIQKVMEYLKS  106 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSH--HHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhH--HHHHHHHHHHHHHHhc
Confidence            47789999887766532     34456677888999999999999988877766543 3222  22233333    2222


Q ss_pred             cCCHH--HHHHHHHhccC---CC-------hhhHHHHHHHHHHcCChHHHHHHHHHHHHc--CCCCC---HHHHHHHHHH
Q 009066          220 CGDLE--DACKLFLEIQR---KD-------VVTWNAMISGYAQHGKGEKALRLFDKMKDE--GMKPD---SITFVALLLA  282 (545)
Q Consensus       220 ~g~~~--~A~~~f~~~~~---~~-------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--g~~p~---~~t~~~ll~a  282 (545)
                      ....+  .-..+.+....   .-       ......|...|...|++.+|.+++.++...  |..+.   ...+...+..
T Consensus       107 ~~~~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl  186 (445)
T 4b4t_P          107 SKSLDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMEL  186 (445)
T ss_dssp             HCTTHHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHH
T ss_pred             CCchhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            33222  22333333321   10       123456778889999999999999998753  32222   1345566788


Q ss_pred             HHccCcHHHHHHHHHHhHHh-cCCCCC----HHHHHHHHHHHhHcCCHHHHHHHHHhC
Q 009066          283 CNHAGLVDLGIQYFDSMVND-YGIAAK----PDHYTCMVDLLGRAGKLVEAVDLIKKM  335 (545)
Q Consensus       283 ~~~~g~~~~a~~~~~~~~~~-~~~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~m  335 (545)
                      |...+++..|..++.++... ....+.    ...|.+++..+...+++.+|.+.|.+.
T Consensus       187 ~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~  244 (445)
T 4b4t_P          187 SILKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEI  244 (445)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence            99999999999999887432 112222    345678888888999999998877665

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=86.38  E-value=4.6  Score=33.22  Aligned_cols=116  Identities=4%  Similarity=-0.030  Sum_probs=67.0

Q ss_pred             cHHHHHHHHHhcCCHHHHHHHHHhcc-----CCCh-------hhHHHHHHHHHHcCChHHHHHHHHHHHHcC-CCCCHH-
Q 009066          209 ALTPLISMYCKCGDLEDACKLFLEIQ-----RKDV-------VTWNAMISGYAQHGKGEKALRLFDKMKDEG-MKPDSI-  274 (545)
Q Consensus       209 ~~~~li~~y~~~g~~~~A~~~f~~~~-----~~~~-------~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~-  274 (545)
                      .+-.-+..+...|.++.|+-+.+.+.     .+++       .+...+..++...|++..|...|++.+... .-|... 
T Consensus        22 ~l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~~s  101 (167)
T 3ffl_A           22 NVIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKTSK  101 (167)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC-----
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcCCC
Confidence            33445677777888888887777643     2332       245666778888888888988888875421 111111 


Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhCCCC
Q 009066          275 TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFK  338 (545)
Q Consensus       275 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  338 (545)
                      +...+-    .......          .....++.+.---+..+|.+.|+.++|+.+++.+|.+
T Consensus       102 ~~~~~~----~~ss~p~----------s~~~~~e~Elkykia~C~~~l~~~~~Ai~~Le~Ip~k  151 (167)
T 3ffl_A          102 VRPSTG----NSASTPQ----------SQCLPSEIEVKYKLAECYTVLKQDKDAIAILDGIPSR  151 (167)
T ss_dssp             -----------------------------CCCCHHHHHHHHHHHHHHTTCHHHHHHHHHTSCGG
T ss_pred             cccccc----ccCCCcc----------cccccchHHHHHHHHHHHHHHCCHHHHHHHHhcCCch
Confidence            111110    0000000          0122344555556788888999999999999988543

>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=84.94  E-value=4.6  Score=29.95  Aligned_cols=63  Identities=11%  Similarity=0.202  Sum_probs=48.8

Q ss_pred             ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHH
Q 009066          253 KGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVD  317 (545)
Q Consensus       253 ~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~  317 (545)
                      +.-+..+-++.+....+.|+.....+.+.||.+.+++..|.++++.+..+.+..  ...|..+++
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~~~~--~~iY~~~lq   87 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPH--KEIYPYVIQ   87 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTC--TTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCc--hhhHHHHHH
Confidence            344666667777777889999999999999999999999999998887654333  456766655

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=84.73  E-value=31  Score=33.73  Aligned_cols=181  Identities=12%  Similarity=0.077  Sum_probs=111.4

Q ss_pred             CChHHHHHHHhhCC-----CCCc----ccHHHHHHHhcchhhhccCChHHHHHHHHHHHhC-CCCCCHHHHHHHHHH---
Q 009066          115 GQLDKAVELFKVAP-----VKSV----VAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGL-GIRPNASSLSSVLLG---  181 (545)
Q Consensus       115 g~~~~A~~~f~~~~-----~~~~----~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~-~~~pd~~t~~~ll~~---  181 (545)
                      |+++.|.+.+-.+.     ..|.    .....++..|     ...++++...+.+.-+.+. |..+..  ...++..   
T Consensus        30 ~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~-----~~~~~~~~l~e~i~~Lskkr~qlk~a--i~~~V~~~~~  102 (445)
T 4b4t_P           30 NDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLL-----ASRNKWDDLNEQLTLLSKKHGQLKLS--IQYMIQKVME  102 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHH-----HHHSCHHHHHHHHHHHHTTTTTSHHH--HHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHH-----HHhccHHHHHHHHHHHHHHhhhhHHH--HHHHHHHHHH
Confidence            77888887764432     2232    3466788888     8999999888877666543 333322  2333333   


Q ss_pred             -HhccCcHHHHHH--HHHHHHh--CCC-CC---CcccHHHHHHHHHhcCCHHHHHHHHHhccC----C-----ChhhHHH
Q 009066          182 -CSHLSSLQLGKQ--VHQLVFK--SPL-CK---DTTALTPLISMYCKCGDLEDACKLFLEIQR----K-----DVVTWNA  243 (545)
Q Consensus       182 -~~~~~~~~~a~~--~~~~~~~--~g~-~~---~~~~~~~li~~y~~~g~~~~A~~~f~~~~~----~-----~~~~~~~  243 (545)
                       .......+....  +......  .|- -.   .......|...|...|++.+|.+++.++..    .     -+..+..
T Consensus       103 ~l~~~~~~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~  182 (445)
T 4b4t_P          103 YLKSSKSLDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILE  182 (445)
T ss_dssp             HHHHHCTTHHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHH
T ss_pred             HHhcCCchhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHH
Confidence             333333332211  1111111  110 00   112235688999999999999999998762    1     1346777


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHH----cCCCCCH--HHHHHHHHHHHccCcHHHHHHHHHHhHHh
Q 009066          244 MISGYAQHGKGEKALRLFDKMKD----EGMKPDS--ITFVALLLACNHAGLVDLGIQYFDSMVND  302 (545)
Q Consensus       244 li~~~~~~g~~~~A~~~~~~m~~----~g~~p~~--~t~~~ll~a~~~~g~~~~a~~~~~~~~~~  302 (545)
                      .+..|...+++.+|..++++...    ....|+.  ..+...+..+...+++.+|.+.|..+...
T Consensus       183 q~rl~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~~  247 (445)
T 4b4t_P          183 QMELSILKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQT  247 (445)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhc
Confidence            88899999999999999998753    2222322  23455566677888898888888777653

>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=84.35  E-value=7.1  Score=28.81  Aligned_cols=86  Identities=15%  Similarity=0.167  Sum_probs=55.4

Q ss_pred             cHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccCCChhhHHHHHHHHHHcCChHHHHHHHHHHHH
Q 009066          187 SLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKD  266 (545)
Q Consensus       187 ~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  266 (545)
                      ..++|..|-+.+...+.  ...+--.-+..+...|++++|..+.+...-||...|-++-.  .+.|..+++..-+.++..
T Consensus        22 ~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL~~la~   97 (116)
T 2p58_C           22 YHEEANCIAEWLHLKGE--EEAVQLIRLSSLMNRGDYASALQQGNKLAYPDLEPWLALCE--YRLGLGSALESRLNRLAR   97 (116)
T ss_dssp             CHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTSCCGGGHHHHHHHH--HHHTCHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHHHHHHh
Confidence            45566666555555542  22222223344567899999999999888899999987765  356777777777767766


Q ss_pred             cCCCCCHHHHH
Q 009066          267 EGMKPDSITFV  277 (545)
Q Consensus       267 ~g~~p~~~t~~  277 (545)
                      +| .|....|.
T Consensus        98 sg-~p~~q~Fa  107 (116)
T 2p58_C           98 SQ-DPRIQTFV  107 (116)
T ss_dssp             CC-CHHHHHHH
T ss_pred             CC-CHHHHHHH
Confidence            54 44444443

>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=83.85  E-value=8.4  Score=37.04  Aligned_cols=70  Identities=13%  Similarity=0.137  Sum_probs=46.9

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHH----hcCCCCCHHH
Q 009066          241 WNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVN----DYGIAAKPDH  311 (545)
Q Consensus       241 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~----~~~~~~~~~~  311 (545)
                      ...++..+...|++.+|+..++.+.... +-++..+..++.++...|+..+|.+.|+...+    +.|+.|++.+
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            3445666677777777777777776542 33666777777777777777777777766543    3466666655

>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=83.70  E-value=2  Score=41.47  Aligned_cols=66  Identities=15%  Similarity=0.024  Sum_probs=50.2

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhh-----CCCccCC
Q 009066          345 GTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKE-----NNVVKMP  411 (545)
Q Consensus       345 ~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~-----~~~~~~~  411 (545)
                      ..++.++...|++++|...+..+...+|-+.. .|..|+.+|...|+..+|.+.|+...+     .|+.|.|
T Consensus       175 ~~~~~~~l~~g~~~~a~~~l~~~~~~~P~~E~-~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~  245 (388)
T 2ff4_A          175 TAKAEAEIACGRASAVIAELEALTFEHPYREP-LWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGP  245 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHH-HHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCH
Confidence            44566677788888888888888888888776 888888888888888888888877643     4666443

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=83.30  E-value=40  Score=37.66  Aligned_cols=79  Identities=13%  Similarity=0.083  Sum_probs=45.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhcc----CCCh----hhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 009066          210 LTPLISMYCKCGDLEDACKLFLEIQ----RKDV----VTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLL  281 (545)
Q Consensus       210 ~~~li~~y~~~g~~~~A~~~f~~~~----~~~~----~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~  281 (545)
                      |.-++..+-+.|.++.+.++-....    ..+.    ..|..+..++...|++++|...+-.+-....+  ...+..|+.
T Consensus       902 Y~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~r--~~cLr~LV~  979 (1139)
T 4fhn_B          902 YLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPLK--KSCLLDFVN  979 (1139)
T ss_dssp             HHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSSC--HHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHHH--HHHHHHHHH
Confidence            3445555555555555544433221    1111    25777888888888888888888777654333  345556666


Q ss_pred             HHHccCcHH
Q 009066          282 ACNHAGLVD  290 (545)
Q Consensus       282 a~~~~g~~~  290 (545)
                      ..+..|..+
T Consensus       980 ~lce~~~~~  988 (1139)
T 4fhn_B          980 QLTKQGKIN  988 (1139)
T ss_dssp             HHHHHCCHH
T ss_pred             HHHhCCChh
Confidence            555555544

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=83.14  E-value=6.7  Score=28.89  Aligned_cols=86  Identities=15%  Similarity=0.124  Sum_probs=56.3

Q ss_pred             cHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccCCChhhHHHHHHHHHHcCChHHHHHHHHHHHH
Q 009066          187 SLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKD  266 (545)
Q Consensus       187 ~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  266 (545)
                      ..++|..|-+.+...+.  ...+--.-+..+...|++++|..+.+...-||...|-++-.  .+.|..+++..-+.++..
T Consensus        21 ~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL~~la~   96 (115)
T 2uwj_G           21 CHEEALCIAEWLERLGQ--DEAARLIRISSLANQGRYQEALAFAHGNPWPALEPWFALCE--WHLGLGAALDRRLAGLGG   96 (115)
T ss_dssp             CHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHGGGTTCCCGGGHHHHHHHH--HHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHHHHHHh
Confidence            45566666555555542  22222223345567899999999999888899999987765  467788888777777776


Q ss_pred             cCCCCCHHHHH
Q 009066          267 EGMKPDSITFV  277 (545)
Q Consensus       267 ~g~~p~~~t~~  277 (545)
                      +| .|....|.
T Consensus        97 sg-~p~~q~Fa  106 (115)
T 2uwj_G           97 SS-DPALADFA  106 (115)
T ss_dssp             CS-SHHHHHHH
T ss_pred             CC-CHHHHHHH
Confidence            65 44444443

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=82.99  E-value=30  Score=32.18  Aligned_cols=181  Identities=13%  Similarity=0.063  Sum_probs=101.5

Q ss_pred             HHHhCCCH---HHHHHHHhhCCcCCHhHHHHHHHHHHHcCChHHHHHHHhhCCCCCcccHHHHHHHhcchhhhccCChHH
Q 009066           79 GFVQKKNM---AKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGYVENSWAED  155 (545)
Q Consensus        79 ~~~~~g~~---~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~g~~~~  155 (545)
                      .....|++   =+|.+.+           .++..=|.+.+++++|.+++-.-           ...+     .+.|+...
T Consensus        21 ~~I~~G~y~~~YEAHQ~~-----------RTi~~Ry~~~k~y~eAidLL~~G-----------A~~l-----l~~~Q~~s   73 (336)
T 3lpz_A           21 RRIAEGQPEEQYEAAQET-----------RLVAARYSKQGNWAAAVDILASV-----------SQTL-----LRSGQGGS   73 (336)
T ss_dssp             HHHHHCCHHHHHHHHHHH-----------HHHHHHHHHTTCHHHHHHHHHHH-----------HHHH-----HHTTCHHH
T ss_pred             HHHhCCCCccccHHHHHH-----------HHHHHHHHhhcCHHHHHHHHHHH-----------HHHH-----HHCCCcch
Confidence            34455666   4555544           44666677888888888765331           1222     44455544


Q ss_pred             HHHH----HHHHHhCCCCCCHHHHHHHHHHHhccCc--HHH---HHHHHHHHHhCC--CCCCcccHHHHHHHHHhcCCHH
Q 009066          156 GLKL----LRMMIGLGIRPNASSLSSVLLGCSHLSS--LQL---GKQVHQLVFKSP--LCKDTTALTPLISMYCKCGDLE  224 (545)
Q Consensus       156 A~~~----~~~m~~~~~~pd~~t~~~ll~~~~~~~~--~~~---a~~~~~~~~~~g--~~~~~~~~~~li~~y~~~g~~~  224 (545)
                      |-++    .+-..+.++++|......++..+.....  .+.   ..+....-.+.|  ..-|......+...|.+.+++.
T Consensus        74 g~DL~~llvevy~~~~~~~~~~~~~rL~~L~~~~~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~  153 (336)
T 3lpz_A           74 GGDLAVLLVDTFRQAGQRVDGASRGKLLGCLRLFQPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFE  153 (336)
T ss_dssp             HHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHH
Confidence            4443    3444456777777777777776655443  111   122222333333  2345677788999999999999


Q ss_pred             HHHHHHHhccCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHH
Q 009066          225 DACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVN  301 (545)
Q Consensus       225 ~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~  301 (545)
                      +|+..|-.-.++.+..+..|+.-+...+...+              +|...-..++. |...+++..|..+++...+
T Consensus       154 ~Ae~H~ilg~~~s~~~~a~mL~ew~~~~~~~e--------------~dlfiaRaVL~-yL~l~n~~~A~~~~~~f~~  215 (336)
T 3lpz_A          154 AAEKHLVLGTKESPEVLARMEYEWYKQDESHT--------------APLYCARAVLP-YLLVANVRAANTAYRIFTS  215 (336)
T ss_dssp             HHHHHHTTSCTTHHHHHHHHHHHHHHTSCGGG--------------HHHHHHHHHHH-HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCchHHHHHHHHHHHHHhcCCcc--------------HHHHHHHHHHH-HHHhCCHHHHHHHHHHHHH
Confidence            99998853222233566555555444443222              22222333443 4456788888887766554

>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=82.62  E-value=35  Score=32.68  Aligned_cols=274  Identities=9%  Similarity=0.006  Sum_probs=152.5

Q ss_pred             HHHHHHHHHHhCCCChHHHHHHHccCCC--------CChhhHHHHHHHHHcCCCCHHHHHHHHhcCC---CCCeehHH--
Q 009066            8 NWNSVLAGFAKQRGKLKDAQELFDKIPQ--------PDVVSYNIMLSCILLNSDDVVAAFDFFQRLP---IKDTASWN--   74 (545)
Q Consensus         8 ~~~~li~~~~~~g~~~~~A~~~f~~~~~--------~~~~~~~~li~~~~~~~g~~~~A~~~~~~m~---~~d~~~~~--   74 (545)
                      ....|...|.+.|+ .++...++.....        .....-..+|..+....+..+.-.++..+..   ..+..+|-  
T Consensus        21 ~~~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~~~r~flr~   99 (394)
T 3txn_A           21 GILQQGELYKQEGK-AKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWAKQEKRTFLRQ   99 (394)
T ss_dssp             HHHHHHHHHHHHTC-HHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHcCC-HHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34568899999999 9999998887753        2233466778877776566666666655544   12334452  


Q ss_pred             ----HHHHHHHhCCCHHHHHHHHhhCCc----CC-----HhHHHHHHHHHHHcCChHHHHHHHhhCCC------CCcccH
Q 009066           75 ----TMISGFVQKKNMAKARDLFLAMPE----KN-----SVSWSAMISGYIECGQLDKAVELFKVAPV------KSVVAW  135 (545)
Q Consensus        75 ----~li~~~~~~g~~~~a~~~~~~~~~----~~-----~~~~~~li~~~~~~g~~~~A~~~f~~~~~------~~~~~~  135 (545)
                          .++..|...|++.+|.+++.++..    .|     ..++..-+.+|...+++.++...+.....      +++.. 
T Consensus       100 ~l~~kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~i-  178 (394)
T 3txn_A          100 SLEARLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPKV-  178 (394)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHH-
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHHH-
Confidence                578899999999999998888772    11     34677778899999999999988854321      11111 


Q ss_pred             HHHHHHhcchhhh-ccCChHHHHHHHHHHHhC---CCCC---CHHHHHHHHHHHhccCcHHHHHHHHH-H-HHhCCCCCC
Q 009066          136 TAMISGYMKFGYV-ENSWAEDGLKLLRMMIGL---GIRP---NASSLSSVLLGCSHLSSLQLGKQVHQ-L-VFKSPLCKD  206 (545)
Q Consensus       136 ~~li~~~~~~g~~-~~g~~~~A~~~~~~m~~~---~~~p---d~~t~~~ll~~~~~~~~~~~a~~~~~-~-~~~~g~~~~  206 (545)
                      .+.+..+.-.-.. ..+++..|...|-+....   -..|   +...|..+ .+.......+. ..+.. . .... ..|.
T Consensus       179 ~a~i~~~~Gi~~l~~~rdyk~A~~~F~eaf~~f~~~~~~~~~~~lkYlvL-~aLl~~~r~el-~~~l~~~~~~~~-~~pe  255 (394)
T 3txn_A          179 QGALDLQSGILHAADERDFKTAFSYFYEAFEGFDSVDSVKALTSLKYMLL-CKIMLGQSDDV-NQLVSGKLAITY-SGRD  255 (394)
T ss_dssp             HHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHH-HHHHTTCGGGH-HHHHHSHHHHTT-CSHH
T ss_pred             HHHHHHHhhHHHHHhccCHHHHHHHHHHHHhcccccccHHHHHHHHHHHH-HHHHcCCHHHH-HHHhcccccccc-CCcc
Confidence            1222222111125 789999999888766421   0112   12233222 22222221122 22221 1 1221 2455


Q ss_pred             cccHHHHHHHHHhcCCHHHHHHHHHhccC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcC----CCC-CHHHHHH
Q 009066          207 TTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEG----MKP-DSITFVA  278 (545)
Q Consensus       207 ~~~~~~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g----~~p-~~~t~~~  278 (545)
                      ...+..|+.+|. .+++.+...+++....   .|......             ...+++++...+    +.| ..+++..
T Consensus       256 i~~l~~L~~a~~-~~dl~~f~~iL~~~~~~l~~D~~l~~h-------------~~~L~~~Ir~~~L~~i~~pYsrIsl~~  321 (394)
T 3txn_A          256 IDAMKSVAEASH-KRSLADFQAALKEYKKELAEDVIVQAH-------------LGTLYDTMLEQNLCRIIEPYSRVQVAH  321 (394)
T ss_dssp             HHHHHHHHHHHH-TTCHHHHHHHHHHSTTTTTTSHHHHHH-------------HHHHHHHHHHHHHHHHHTTCSEEEHHH
T ss_pred             HHHHHHHHHHHH-hCCHHHHHHHHHHHHHHHhcChHHHHH-------------HHHHHHHHHHHHHHHHhHhhceeeHHH
Confidence            555566666654 5677776666665532   34432110             111122221111    122 3455666


Q ss_pred             HHHHHHccCcHHHHHHHHHHhHHh
Q 009066          279 LLLACNHAGLVDLGIQYFDSMVND  302 (545)
Q Consensus       279 ll~a~~~~g~~~~a~~~~~~~~~~  302 (545)
                      +...+.-  ..+++...+.+|+..
T Consensus       322 iA~~l~l--s~~evE~~L~~lI~d  343 (394)
T 3txn_A          322 VAESIQL--PMPQVEKKLSQMILD  343 (394)
T ss_dssp             HHHHHTC--CHHHHHHHHHHHHHT
T ss_pred             HHHHHCc--CHHHHHHHHHHHHHC
Confidence            6655543  567888888777765

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=80.30  E-value=36  Score=31.33  Aligned_cols=181  Identities=9%  Similarity=0.091  Sum_probs=106.8

Q ss_pred             HHhCCCHHHHHHHHhhCCcCCHhHHHHHHHHHHHcCChHHHHHHHhhCCCCCcccHHHHHHHhcchhhhccCChHHHHHH
Q 009066           80 FVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGYVENSWAEDGLKL  159 (545)
Q Consensus        80 ~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~g~~~~A~~~  159 (545)
                      -...|++=+|.+.+           .++..=|.+.+++++|.+++...           ...+     .+.|+...|-++
T Consensus        23 ~I~~G~yYEAhQ~~-----------Rtl~~Ry~~~~~~~eAidlL~~g-----------a~~l-----l~~~Q~~sa~DL   75 (312)
T 2wpv_A           23 KIKAGDYYEAHQTL-----------RTIANRYVRSKSYEHAIELISQG-----------ALSF-----LKAKQGGSGTDL   75 (312)
T ss_dssp             HHHHTCHHHHHHHH-----------HHHHHHHHHTTCHHHHHHHHHHH-----------HHHH-----HHTTCHHHHHHH
T ss_pred             HhhccChHHHHHHH-----------HHHHHHHHHhcCHHHHHHHHHHH-----------HHHH-----HHCCCcchHHHH
Confidence            34456666666554           45677788888888888776431           1222     445555554443


Q ss_pred             ----HHHHHhCCCCCCHHHHHHHHHHHhccC-----cHHHHHHHHHHHHhCCC--CCCcccHHHHHHHHHhcCCHHHHHH
Q 009066          160 ----LRMMIGLGIRPNASSLSSVLLGCSHLS-----SLQLGKQVHQLVFKSPL--CKDTTALTPLISMYCKCGDLEDACK  228 (545)
Q Consensus       160 ----~~~m~~~~~~pd~~t~~~ll~~~~~~~-----~~~~a~~~~~~~~~~g~--~~~~~~~~~li~~y~~~g~~~~A~~  228 (545)
                          .+-..+.++++|......++..+....     ..+-..+....-.+.|-  .-++.....+...|.+.|++.+|+.
T Consensus        76 a~llvev~~~~~~~~~~~~~~rl~~l~~~~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~  155 (312)
T 2wpv_A           76 IFYLLEVYDLAEVKVDDISVARLVRLIAELDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAER  155 (312)
T ss_dssp             HHHHHHHHHHTTCCCSHHHHHHHHHHHTTCCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHH
Confidence                444456677888877777777665432     22333334444444432  2366778889999999999999999


Q ss_pred             HHHhccCCChhhHHHHHHHHHHc---CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHh
Q 009066          229 LFLEIQRKDVVTWNAMISGYAQH---GKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVND  302 (545)
Q Consensus       229 ~f~~~~~~~~~~~~~li~~~~~~---g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~  302 (545)
                      .|-.-...|...+..|+.-+...   |...++--.              .-..++. |.-.|++..|..+++...+.
T Consensus       156 H~i~~~~~s~~~~a~~l~~w~~~~~~~~~~e~dlf--------------~~RaVL~-yL~l~n~~~A~~~~~~f~~~  217 (312)
T 2wpv_A          156 YFMLGTHDSMIKYVDLLWDWLCQVDDIEDSTVAEF--------------FSRLVFN-YLFISNISFAHESKDIFLER  217 (312)
T ss_dssp             HHHTSCHHHHHHHHHHHHHHHHHTTCCCHHHHHHH--------------HHHHHHH-HHHTTBHHHHHHHHHHHHHH
T ss_pred             HHHhCCCccHHHHHHHHHHHHHhcCCCCcchHHHH--------------HHHHHHH-HHHhcCHHHHHHHHHHHHHH
Confidence            88633323455666555555444   444332211              1222332 34567888888888776543

>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=80.23  E-value=9  Score=28.42  Aligned_cols=62  Identities=15%  Similarity=0.248  Sum_probs=44.5

Q ss_pred             hHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHH
Q 009066          153 AEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLIS  215 (545)
Q Consensus       153 ~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~  215 (545)
                      .-+..+-++.+....+.|++....+.|.||.+.+++..|.++++-+...- .....+|..+++
T Consensus        26 ~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~-~~~~~iY~~~lq   87 (109)
T 1v54_E           26 AWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVIQ   87 (109)
T ss_dssp             HHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh-cCchhhHHHHHH
Confidence            34555666677777888999999999999999999999999988875432 222445655543

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	545
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.91
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.9
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.58
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.57
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.15
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.14
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.06
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.02
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.01
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.0
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.97
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.93
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.93
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.82
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.71
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.62
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.58
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.47
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.44
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.42
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.39
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.37
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.37
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.37
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.29
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.28
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.21
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.18
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.17
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.05
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.0
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	97.99
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.99
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.95
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.94
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.93
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.91
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.89
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.85
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.84
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.79
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.68
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.63
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.54
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.51
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.39
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.38
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.34
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.28
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.25
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.13
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.1
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	96.96
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	96.45
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	95.45
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	94.49
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	93.92
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	93.54
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	93.15
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	90.28
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	88.62
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	83.46

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.91  E-value=2.1e-21  Score=189.92  Aligned_cols=367  Identities=12%  Similarity=0.095  Sum_probs=293.0

Q ss_pred             HHHHHHhCCCChHHHHHHHccCC--CC-ChhhHHHHHHHHHcCCCCHHHHHHHHhcCC---CCCeehHHHHHHHHHhCCC
Q 009066           12 VLAGFAKQRGKLKDAQELFDKIP--QP-DVVSYNIMLSCILLNSDDVVAAFDFFQRLP---IKDTASWNTMISGFVQKKN   85 (545)
Q Consensus        12 li~~~~~~g~~~~~A~~~f~~~~--~~-~~~~~~~li~~~~~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~g~   85 (545)
                      |...+.+.|+ +++|.+.|+++.  .| +...|..+...+.+. |++++|+..|++..   +.+..+|..+...|.+.|+
T Consensus         5 la~~~~~~G~-~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~-~~~~~A~~~~~~al~~~p~~~~a~~~l~~~~~~~g~   82 (388)
T d1w3ba_           5 LAHREYQAGD-FEAAERHCMQLWRQEPDNTGVLLLLSSIHFQC-RRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQ   82 (388)
T ss_dssp             HHHHHHHHTC-HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHcCC-HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHhCCCCHHHHHHHHHHhhhhcc
Confidence            4556778898 999999998876  45 455677777788888 99999999999876   4456789999999999999


Q ss_pred             HHHHHHHHhhCCc---CCHhHHHHHHHHHHHcCChHHHHHHHhhCC---CCCcccHHHHHHHhcchhhhccCChHHHHHH
Q 009066           86 MAKARDLFLAMPE---KNSVSWSAMISGYIECGQLDKAVELFKVAP---VKSVVAWTAMISGYMKFGYVENSWAEDGLKL  159 (545)
Q Consensus        86 ~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~f~~~~---~~~~~~~~~li~~~~~~g~~~~g~~~~A~~~  159 (545)
                      +++|+..+.....   .+..........+...+....+........   ......+.......     ...+....+...
T Consensus        83 ~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~  157 (388)
T d1w3ba_          83 LQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLL-----KALGRLEEAKAC  157 (388)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHH-----HTTSCHHHHHHH
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-----cccchhhhhHHH
Confidence            9999999988773   344455555555566666655555443322   23344445555555     677788888888


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccC---C
Q 009066          160 LRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR---K  236 (545)
Q Consensus       160 ~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~---~  236 (545)
                      +.+..... +-+...+..+...+...++++.|...+...++.. +.+...+..+...|...|++++|...|++...   .
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            87777643 3356677778888899999999999999988764 44567788899999999999999999988764   4


Q ss_pred             ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHH
Q 009066          237 DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMV  316 (545)
Q Consensus       237 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li  316 (545)
                      +...|..+...+.+.|++++|+..|++..+.. +-+..++..+..++...|++++|.+.++....  ..+.+...+..+.
T Consensus       236 ~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~~~l~  312 (388)
T d1w3ba_         236 HAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALR--LCPTHADSLNNLA  312 (388)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH--HCTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhc--cCCccchhhhHHH
Confidence            66788889999999999999999999998753 22466788888999999999999999998876  3466788889999


Q ss_pred             HHHhHcCCHHHHHHHHHhC-CCCCC-HhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCC
Q 009066          317 DLLGRAGKLVEAVDLIKKM-PFKPQ-PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKK  391 (545)
Q Consensus       317 ~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~  391 (545)
                      ..|.+.|++++|++.|++. ...|+ ..+|..+...+...|++++|+..|+++++++|++.. +|..|+.+|.+.|+
T Consensus       313 ~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~P~~~~-a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         313 NIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFAD-AYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCTTCHH-HHHHHHHHHHHTCC
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHHcCC
Confidence            9999999999999999886 55564 578888999999999999999999999999999988 99999999988875

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.90  E-value=1.3e-20  Score=184.08  Aligned_cols=347  Identities=15%  Similarity=0.085  Sum_probs=283.5

Q ss_pred             HHHHcCCCCHHHHHHHHhcCC---CCCeehHHHHHHHHHhCCCHHHHHHHHhhCCc---CCHhHHHHHHHHHHHcCChHH
Q 009066           46 SCILLNSDDVVAAFDFFQRLP---IKDTASWNTMISGFVQKKNMAKARDLFLAMPE---KNSVSWSAMISGYIECGQLDK  119 (545)
Q Consensus        46 ~~~~~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~  119 (545)
                      ..+.+. |++++|++.|+++.   +.+..++..+...|.+.|++++|+..|++..+   .+..++..+...|.+.|++++
T Consensus         7 ~~~~~~-G~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l~~~~~~~g~~~~   85 (388)
T d1w3ba_           7 HREYQA-GDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQLQE   85 (388)
T ss_dssp             HHHHHH-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHc-CCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHhhhhccccc
Confidence            345677 99999999999886   44677899999999999999999999998873   457789999999999999999


Q ss_pred             HHHHHhhCCCC---CcccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHH
Q 009066          120 AVELFKVAPVK---SVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQ  196 (545)
Q Consensus       120 A~~~f~~~~~~---~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~  196 (545)
                      |.+.|......   +...+.......     ...+....+........... .................+....+...+.
T Consensus        86 A~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~  159 (388)
T d1w3ba_          86 AIEHYRHALRLKPDFIDGYINLAAAL-----VAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYL  159 (388)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHH-----HHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHH
T ss_pred             cccccccccccccccccccccccccc-----cccccccccccccccccccc-cccccccccccccccccchhhhhHHHHH
Confidence            99999876532   333344444444     44555556666555555443 3344555556666677788888888887


Q ss_pred             HHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCH
Q 009066          197 LVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDS  273 (545)
Q Consensus       197 ~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  273 (545)
                      ...... +.+...+..+...+...|++++|...+++..+   .+..+|..+...+...|++++|+..+++....+ ..+.
T Consensus       160 ~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~  237 (388)
T d1w3ba_         160 KAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHA  237 (388)
T ss_dssp             HHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCH
T ss_pred             HhhccC-cchhHHHHhhcccccccCcHHHHHHHHHHHHHhCcccHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-hhHH
Confidence            777654 44567788889999999999999999997753   466789999999999999999999999998864 3456


Q ss_pred             HHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC--CCCCCHhHHHHHHHHH
Q 009066          274 ITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM--PFKPQPAIFGTLLSAC  351 (545)
Q Consensus       274 ~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m--~~~p~~~~~~~li~~~  351 (545)
                      ..+..+..++...|++++|...|++..+.  .+.++..+..+...|...|++++|.+.++..  ..+.+...+..+...+
T Consensus       238 ~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~  315 (388)
T d1w3ba_         238 VVHGNLACVYYEQGLIDLAIDTYRRAIEL--QPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIK  315 (388)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHT--CSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccCCccchhhhHHHHHH
Confidence            77778888999999999999999998863  3556788999999999999999999999877  2235678899999999


Q ss_pred             HhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhh
Q 009066          352 RVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       352 ~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  404 (545)
                      ...|++++|+..++++++..|++.. ++..++.+|.+.|++++|.+.+++..+
T Consensus       316 ~~~~~~~~A~~~~~~al~~~p~~~~-~~~~la~~~~~~g~~~~A~~~~~~al~  367 (388)
T d1w3ba_         316 REQGNIEEAVRLYRKALEVFPEFAA-AHSNLASVLQQQGKLQEALMHYKEAIR  367 (388)
T ss_dssp             HTTTCHHHHHHHHHHHTTSCTTCHH-HHHHHHHHHHTTTCCHHHHHHHHHHHT
T ss_pred             HHCCCHHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            9999999999999999999999987 999999999999999999999998865

>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=99.58  E-value=1.1e-13  Score=131.32  Aligned_cols=234  Identities=12%  Similarity=0.049  Sum_probs=153.2

Q ss_pred             hccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHH
Q 009066          148 VENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDAC  227 (545)
Q Consensus       148 ~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~  227 (545)
                      .+.|++++|+..|+++.+.. +-+..+|..+..++...|+++.|...+..+++.. +.+...+..+...|...|++++|.
T Consensus        30 ~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~  107 (323)
T d1fcha_          30 LQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQAC  107 (323)
T ss_dssp             HHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-cccccccccccccccccccccccc
Confidence            66666666766666666543 2234455556666666666666666666665543 223444555555555555555555


Q ss_pred             HHHHhccCCChh---hHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcC
Q 009066          228 KLFLEIQRKDVV---TWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYG  304 (545)
Q Consensus       228 ~~f~~~~~~~~~---~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~  304 (545)
                      +.+++....+..   .+........                    ..+.......+..+...+...++...+....+...
T Consensus       108 ~~~~~~~~~~~~~~~~~~~~~~~~~--------------------~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p  167 (323)
T d1fcha_         108 EILRDWLRYTPAYAHLVTPAEEGAG--------------------GAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDP  167 (323)
T ss_dssp             HHHHHHHHTSTTTGGGCC-----------------------------------CTTHHHHHHHHHHHHHHHHHHHHHHST
T ss_pred             cchhhHHHhccchHHHHHhhhhhhh--------------------hcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhh
Confidence            555554321110   0000000000                    00000111112223344567778888887766534


Q ss_pred             CCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHH
Q 009066          305 IAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQL  382 (545)
Q Consensus       305 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l  382 (545)
                      ..++...+..+...+...|++++|...|++. ...| +...|..+...+...|++++|+..++++++++|++.. ++..+
T Consensus       168 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~-a~~~l  246 (323)
T d1fcha_         168 TSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIR-SRYNL  246 (323)
T ss_dssp             TSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH-HHHHH
T ss_pred             cccccccchhhHHHHHHHHHHhhhhcccccccccccccccchhhhhhcccccccchhHHHHHHHHHHHhhccHH-HHHHH
Confidence            4456788889999999999999999999886 3334 5678999999999999999999999999999999988 99999


Q ss_pred             HHHHHHcCCchHHHHHHHHhhh
Q 009066          383 ANIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       383 ~~~~~~~g~~~~a~~~~~~m~~  404 (545)
                      +.+|.+.|++++|.+.|++..+
T Consensus       247 g~~~~~~g~~~~A~~~~~~al~  268 (323)
T d1fcha_         247 GISCINLGAHREAVEHFLEALN  268 (323)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHH
Confidence            9999999999999999998866

>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=99.57  E-value=7.3e-14  Score=132.52  Aligned_cols=267  Identities=15%  Similarity=0.076  Sum_probs=194.1

Q ss_pred             HHHHHHHHcCChHHHHHHHhhCCC---CCcccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 009066          106 AMISGYIECGQLDKAVELFKVAPV---KSVVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGC  182 (545)
Q Consensus       106 ~li~~~~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~  182 (545)
                      .....|.+.|++++|...|++..+   .+..+|..+...+     ...|++++|+..|.+..+.. +-+...+..+...+
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~-----~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~   97 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQ-----AENEQELLAISALRRCLELK-PDNQTALMALAVSF   97 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHH-----HHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH-----HHcCChHHHHHHHHhhhccc-cccccccccccccc
Confidence            466778999999999999998653   3567899999999     99999999999999998753 33567888888899


Q ss_pred             hccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccCCChhhHHHHHHHHHHcCChHHHHHHHH
Q 009066          183 SHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFD  262 (545)
Q Consensus       183 ~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  262 (545)
                      ...|++++|.+.+..+....... ............                ..+.......+..+...+.+.+|...|.
T Consensus        98 ~~~~~~~~A~~~~~~~~~~~~~~-~~~~~~~~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~a~~~~~  160 (323)
T d1fcha_          98 TNESLQRQACEILRDWLRYTPAY-AHLVTPAEEGAG----------------GAGLGPSKRILGSLLSDSLFLEVKELFL  160 (323)
T ss_dssp             HHTTCHHHHHHHHHHHHHTSTTT-GGGCC-------------------------------CTTHHHHHHHHHHHHHHHHH
T ss_pred             cccccccccccchhhHHHhccch-HHHHHhhhhhhh----------------hcccccchhhHHHHHHhhHHHHHHHHHH
Confidence            99999999999999998764211 111110000000                0011111112233444566778888888


Q ss_pred             HHHHcC-CCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-
Q 009066          263 KMKDEG-MKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-  339 (545)
Q Consensus       263 ~m~~~g-~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-  339 (545)
                      +..... -.++...+..+...+...|++++|...++.....  .+.+...|..+...|.+.|++++|.+.|++. ...| 
T Consensus       161 ~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~  238 (323)
T d1fcha_         161 AAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV--RPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPG  238 (323)
T ss_dssp             HHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHhhcccccccchhhHHHHHHHHHHhhhhccccccccc--ccccccchhhhhhcccccccchhHHHHHHHHHHHhhc
Confidence            877643 2345667778888889999999999999988764  2445788899999999999999999999887 3445 


Q ss_pred             CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCc----------hhHHHHHHHHHHcCCchHHHH
Q 009066          340 QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA----------GCYVQLANIYAAMKKWDDVAR  397 (545)
Q Consensus       340 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~----------~~~~~l~~~~~~~g~~~~a~~  397 (545)
                      +..+|..+..+|...|++++|+..|++++++.|++..          ..+..+..++...|+.+.+..
T Consensus       239 ~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~l~~al~~~~~~d~~~~  306 (323)
T d1fcha_         239 YIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGA  306 (323)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHH
T ss_pred             cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcChhhhhhhHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            5678999999999999999999999999998877654          023445666666777765543

>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=99.15  E-value=3.2e-09  Score=99.12  Aligned_cols=218  Identities=8%  Similarity=0.036  Sum_probs=159.9

Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHh--------------ccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHh
Q 009066          154 EDGLKLLRMMIGLGIRPNASSLSSVLLGCS--------------HLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCK  219 (545)
Q Consensus       154 ~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~--------------~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~  219 (545)
                      +.+..+|++++.. ++-+...|..-+..+.              ..+..+++..+++..++...+.+...+...+..+.+
T Consensus        33 ~Rv~~vyerAl~~-~~~~~~lW~~y~~~~~~~~~~~~~~~~~~~~~~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~  111 (308)
T d2onda1          33 KRVMFAYEQCLLV-LGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHcCchHHHHHHHhhcccchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHh
Confidence            4455566666653 1334444444333222              223467888999999887656667788888999999


Q ss_pred             cCCHHHHHHHHHhccC--C-C-hhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHH-HHHccCcHHHHHH
Q 009066          220 CGDLEDACKLFLEIQR--K-D-VVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLL-ACNHAGLVDLGIQ  294 (545)
Q Consensus       220 ~g~~~~A~~~f~~~~~--~-~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~-a~~~~g~~~~a~~  294 (545)
                      .|+++.|..+|+++.+  + + ...|...+....+.|+.++|.++|+++.+.+... ...|..... -+...|+.+.|..
T Consensus       112 ~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~~~~-~~~~~~~a~~e~~~~~~~~~a~~  190 (308)
T d2onda1         112 RMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDARTR-HHVYVTAALMEYYCSKDKSVAFK  190 (308)
T ss_dssp             TTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTCC-THHHHHHHHHHHHTSCCHHHHHH
T ss_pred             cccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCc-HHHHHHHHHHHHHhccCHHHHHH
Confidence            9999999999998764  2 3 3468899999999999999999999998765332 233333322 3445688999999


Q ss_pred             HHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC----CCCCC--HhHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 009066          295 YFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM----PFKPQ--PAIFGTLLSACRVHKRLDLAEFAAMNLF  368 (545)
Q Consensus       295 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~~~  368 (545)
                      +|+.+.+.  .+.++..+...++.+.+.|+++.|..+|++.    +..|+  ...|...+.--..+|+.+.+..+++++.
T Consensus       191 i~e~~l~~--~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~  268 (308)
T d2onda1         191 IFELGLKK--YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRF  268 (308)
T ss_dssp             HHHHHHHH--HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHHHHHHh--hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            99998874  3556788899999999999999999999876    33443  3578888888889999999999999888


Q ss_pred             cCCCCCC
Q 009066          369 NLNPANA  375 (545)
Q Consensus       369 ~~~p~~~  375 (545)
                      +..|...
T Consensus       269 ~~~~~~~  275 (308)
T d2onda1         269 TAFREEY  275 (308)
T ss_dssp             HHTTTTT
T ss_pred             HHCcccc
Confidence            8777664

>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=99.14  E-value=6.6e-09  Score=98.32  Aligned_cols=256  Identities=11%  Similarity=-0.010  Sum_probs=169.5

Q ss_pred             hccCChHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCC----C-CcccHHHHHHHHH
Q 009066          148 VENSWAEDGLKLLRMMIGLGIRPN----ASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLC----K-DTTALTPLISMYC  218 (545)
Q Consensus       148 ~~~g~~~~A~~~~~~m~~~~~~pd----~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~----~-~~~~~~~li~~y~  218 (545)
                      ...|++++|++++++..+.....+    ...+..+..++...|++++|...+..+.+....    + ....+..+...|.
T Consensus        23 ~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  102 (366)
T d1hz4a_          23 INDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILF  102 (366)
T ss_dssp             HHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHH
Confidence            566777777777777665421111    124455556667777777777777766542111    1 1233455666777


Q ss_pred             hcCCHHHHHHHHHhccC-------C----ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCC----CCCHHHHHHHHHHH
Q 009066          219 KCGDLEDACKLFLEIQR-------K----DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGM----KPDSITFVALLLAC  283 (545)
Q Consensus       219 ~~g~~~~A~~~f~~~~~-------~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~----~p~~~t~~~ll~a~  283 (545)
                      ..|++..|...+.....       +    ....+..+...+...|+++.+...+........    .....++......+
T Consensus       103 ~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  182 (366)
T d1hz4a_         103 AQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCS  182 (366)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHH
Confidence            78888888777766532       1    113455666778888999999988888776422    22234555556667


Q ss_pred             HccCcHHHHHHHHHHhHHhcCCCC-----CHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-----CHhHHHHHHHHHH
Q 009066          284 NHAGLVDLGIQYFDSMVNDYGIAA-----KPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-----QPAIFGTLLSACR  352 (545)
Q Consensus       284 ~~~g~~~~a~~~~~~~~~~~~~~~-----~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-----~~~~~~~li~~~~  352 (545)
                      ...+....+...+........-..     ....+..+...+...|+.++|...+++. ...|     ....+..+...+.
T Consensus       183 ~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~  262 (366)
T d1hz4a_         183 LARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQI  262 (366)
T ss_dssp             HHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHH
T ss_pred             HhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHH
Confidence            778888888877766544322111     1234566777888899999999999877 2222     1245666788899


Q ss_pred             hcCCHHHHHHHHHHHhc------CCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhh
Q 009066          353 VHKRLDLAEFAAMNLFN------LNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       353 ~~g~~~~A~~~~~~~~~------~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  404 (545)
                      ..|++++|...+++++.      ..|.... ++..++.+|...|++++|.+.+++..+
T Consensus       263 ~~g~~~~A~~~~~~al~~~~~~~~~~~~~~-~~~~la~~~~~~g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         263 LLGEFEPAEIVLEELNENARSLRLMSDLNR-NLLLLNQLYWQAGRKSDAQRVLLDALK  319 (366)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHHHhhcccChHHHH-HHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            99999999999998863      3454444 788999999999999999999987654

>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=99.06  E-value=2.4e-09  Score=97.02  Aligned_cols=221  Identities=10%  Similarity=-0.067  Sum_probs=149.6

Q ss_pred             cCChHHHHHHHHHHHhCCC-CC--CHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHH
Q 009066          150 NSWAEDGLKLLRMMIGLGI-RP--NASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDA  226 (545)
Q Consensus       150 ~g~~~~A~~~~~~m~~~~~-~p--d~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A  226 (545)
                      +.+.+.|+.-+.+...... .+  ...++..+..++.+.|++++|...|...++.. +.+..+++.+..+|.+.|++++|
T Consensus        12 ~~~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A   90 (259)
T d1xnfa_          12 TLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAA   90 (259)
T ss_dssp             CHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             cHHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHh
Confidence            3445667777777765421 11  22366677788899999999999999999875 45678899999999999999999


Q ss_pred             HHHHHhccC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhc
Q 009066          227 CKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDY  303 (545)
Q Consensus       227 ~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~  303 (545)
                      .+.|+++.+   .+..+|..+...|...|++++|+..|++..+... .+......+..++...+..+....+....... 
T Consensus        91 ~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-  168 (259)
T d1xnfa_          91 YEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDDP-NDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKS-  168 (259)
T ss_dssp             HHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHS-
T ss_pred             hhhhhHHHHHHhhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhcc-ccHHHHHHHHHHHHHhhhHHHHHHHHHHhhcc-
Confidence            999998874   3567899999999999999999999999987532 23444333444455555555555555444332 


Q ss_pred             CCCCCHHHHHHHHHHHhHcCC----HHHHHHHHHhC-CCCCC-HhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCc
Q 009066          304 GIAAKPDHYTCMVDLLGRAGK----LVEAVDLIKKM-PFKPQ-PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA  376 (545)
Q Consensus       304 ~~~~~~~~~~~li~~~~~~g~----~~~A~~~~~~m-~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~  376 (545)
                        .+....+. ++..+.....    .+.+...+... ...|+ ..+|..+...+...|++++|...|++++..+|++..
T Consensus       169 --~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~  244 (259)
T d1xnfa_         169 --DKEQWGWN-IVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNFV  244 (259)
T ss_dssp             --CCCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTCH
T ss_pred             --chhhhhhh-HHHHHHHHHHHHHHHHHHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHH
Confidence              22222222 2233322222    22222222211 11232 246777888999999999999999999999998764

>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=99.02  E-value=3.4e-08  Score=93.21  Aligned_cols=286  Identities=11%  Similarity=0.014  Sum_probs=169.5

Q ss_pred             HHHHHHcCChHHHHHHHhhCC--CC-C-----cccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCC-CCC----HHH
Q 009066          108 ISGYIECGQLDKAVELFKVAP--VK-S-----VVAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGI-RPN----ASS  174 (545)
Q Consensus       108 i~~~~~~g~~~~A~~~f~~~~--~~-~-----~~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~-~pd----~~t  174 (545)
                      ...+...|++++|.++|++..  .| +     ...++.+...|     ...|++++|+..|++..+... .++    ..+
T Consensus        19 A~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~-----~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~   93 (366)
T d1hz4a_          19 AQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVL-----HCKGELTRSLALMQQTEQMARQHDVWHYALWS   93 (366)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHH-----HHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHH-----HHCCCHHHHHHHHHHHHHHHHhhcchHHHHHH
Confidence            344555566666666554422  11 1     12344455555     666666666666666543210 111    123


Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHHHh----CCCCCC---cccHHHHHHHHHhcCCHHHHHHHHHhccC--------CChh
Q 009066          175 LSSVLLGCSHLSSLQLGKQVHQLVFK----SPLCKD---TTALTPLISMYCKCGDLEDACKLFLEIQR--------KDVV  239 (545)
Q Consensus       175 ~~~ll~~~~~~~~~~~a~~~~~~~~~----~g~~~~---~~~~~~li~~y~~~g~~~~A~~~f~~~~~--------~~~~  239 (545)
                      +..+...+...|++..+...+.....    .+....   ...+..+...|...|+++.|...+.....        ....
T Consensus        94 ~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  173 (366)
T d1hz4a_          94 LIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQ  173 (366)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHH
Confidence            44445556667777777776666543    111111   12344566777788888888887776542        1233


Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHHc----CCCCC--HHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCC--CCCHHH
Q 009066          240 TWNAMISGYAQHGKGEKALRLFDKMKDE----GMKPD--SITFVALLLACNHAGLVDLGIQYFDSMVNDYGI--AAKPDH  311 (545)
Q Consensus       240 ~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p~--~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~--~~~~~~  311 (545)
                      ++..+...+...+...++...+.+....    +..+.  ...+..+...+...|+.++|...+....+....  ......
T Consensus       174 ~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  253 (366)
T d1hz4a_         174 CLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQ  253 (366)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHH
T ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHH
Confidence            4555666777788888888887776542    11111  123444556677888899998888776543111  112345


Q ss_pred             HHHHHHHHhHcCCHHHHHHHHHhC-------CCCCC-HhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCC--Cc-----
Q 009066          312 YTCMVDLLGRAGKLVEAVDLIKKM-------PFKPQ-PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPAN--AA-----  376 (545)
Q Consensus       312 ~~~li~~~~~~g~~~~A~~~~~~m-------~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~--~~-----  376 (545)
                      +..+...|...|++++|...+++.       +..|+ ...+..+...|...|++++|...+++++++.+..  ..     
T Consensus       254 ~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~l~~~~~~~~~~~~~  333 (366)
T d1hz4a_         254 WRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLANRTGFISHFVIE  333 (366)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCCCHHHHTT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhhcCcHHHHHHH
Confidence            667788888999999988888765       33333 3567778888999999999999999887754321  11     


Q ss_pred             -hhHHHHHHHHHHcCCchHHHHH
Q 009066          377 -GCYVQLANIYAAMKKWDDVARI  398 (545)
Q Consensus       377 -~~~~~l~~~~~~~g~~~~a~~~  398 (545)
                       ..+..++..+...++.+++.+-
T Consensus       334 ~~~~~~~~~~l~~~~~l~e~e~~  356 (366)
T d1hz4a_         334 GEAMAQQLRQLIQLNTLPELEQH  356 (366)
T ss_dssp             HHHHHHHHHHHHHTTCSCHHHHH
T ss_pred             HHHHHHHHHHHHhcCCChHHHHH
Confidence             1234455566667777776543

>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=99.01  E-value=1e-08  Score=95.83  Aligned_cols=218  Identities=12%  Similarity=0.115  Sum_probs=126.4

Q ss_pred             HHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcC-CHHHHHHHHHhccC---CChhhHHHHHHHHHHcC
Q 009066          177 SVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCG-DLEDACKLFLEIQR---KDVVTWNAMISGYAQHG  252 (545)
Q Consensus       177 ~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g-~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g  252 (545)
                      .+...+.+.+..++|.++++.+++.. |.+..+|+....++...| ++++|...++...+   .+..+|+.+...+.+.|
T Consensus        48 ~~~~~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~~~~a~~~~~~~~~~l~  126 (315)
T d2h6fa1          48 YFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLVEWLR  126 (315)
T ss_dssp             HHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHhhhhHHHHHhHHHHhhc
Confidence            33334444555555555555555543 334445555555555554 36666666665542   35566666666666677


Q ss_pred             ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCC------HH
Q 009066          253 KGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGK------LV  326 (545)
Q Consensus       253 ~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~------~~  326 (545)
                      ++++|++.++++.+.. +-+...|..+...+...|++++|.+.++.+++.  -+.+...|+.+..++.+.+.      ++
T Consensus       127 ~~~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~--~p~n~~a~~~r~~~l~~~~~~~~~~~~~  203 (315)
T d2h6fa1         127 DPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKE--DVRNNSVWNQRYFVISNTTGYNDRAVLE  203 (315)
T ss_dssp             CCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCSCSHHHHH
T ss_pred             cHHHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHH--CCccHHHHHHHHHHHHHccccchhhhhH
Confidence            7777777777766642 224556666666666667777777777666653  13345556665555555444      56


Q ss_pred             HHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCc-hhHHHHHHHHHHc--CCchHHHHHH
Q 009066          327 EAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA-GCYVQLANIYAAM--KKWDDVARIR  399 (545)
Q Consensus       327 ~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~-~~~~~l~~~~~~~--g~~~~a~~~~  399 (545)
                      +|++.+.+. ...| +...|..+...+. ....+++...+++..++.|+... ..+..++.+|...  +..+.+...+
T Consensus       204 ~ai~~~~~al~~~P~~~~~~~~l~~ll~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~  280 (315)
T d2h6fa1         204 REVQYTLEMIKLVPHNESAWNYLKGILQ-DRGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNKEDIL  280 (315)
T ss_dssp             HHHHHHHHHHHHSTTCHHHHHHHHHHHT-TTCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSSHHHHH
T ss_pred             HhHHHHHHHHHhCCCchHHHHHHHHHHH-hcChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHHHHhcCHHHHHHHH
Confidence            677766655 3334 5667777766544 34467788888888887776543 1344566666443  3333443333

>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=99.00  E-value=1.2e-08  Score=95.37  Aligned_cols=208  Identities=13%  Similarity=0.174  Sum_probs=133.7

Q ss_pred             cHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccC-cHHHHHHHHHHHHhCCCCCCcccHHH
Q 009066          134 AWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLS-SLQLGKQVHQLVFKSPLCKDTTALTP  212 (545)
Q Consensus       134 ~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~-~~~~a~~~~~~~~~~g~~~~~~~~~~  212 (545)
                      .++.+-..+     .+.+.+++|+++++++++.+ +-+...|+....++...+ ++++|...++.+++.. +.+..+|..
T Consensus        45 a~~~~~~~~-----~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~  117 (315)
T d2h6fa1          45 VYDYFRAVL-----QRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHH  117 (315)
T ss_dssp             HHHHHHHHH-----HHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             HHHHHHHHH-----HhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHH
Confidence            344555555     66777777888777777643 224456666666666655 4777877777777664 445677777


Q ss_pred             HHHHHHhcCCHHHHHHHHHhccC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccC--
Q 009066          213 LISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAG--  287 (545)
Q Consensus       213 li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g--  287 (545)
                      +...+.+.|++++|...|+++.+   .+...|+.+...+.+.|++++|++.|+++++..+. +...|+.+...+...+  
T Consensus       118 ~~~~~~~l~~~~eAl~~~~kal~~dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~-n~~a~~~r~~~l~~~~~~  196 (315)
T d2h6fa1         118 RRVLVEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTTGY  196 (315)
T ss_dssp             HHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCS
T ss_pred             HhHHHHhhccHHHHHHHHhhhhhhhhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCc-cHHHHHHHHHHHHHcccc
Confidence            78888888888888888887764   46778888888888888888888888888875322 4455555544444333  


Q ss_pred             ----cHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC----CCCCCHhHHHHHHHHHH
Q 009066          288 ----LVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM----PFKPQPAIFGTLLSACR  352 (545)
Q Consensus       288 ----~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~p~~~~~~~li~~~~  352 (545)
                          .+++|.+.+....+.  .+.+...|..+...+...| ++++.+.++..    +...+...+..++..|.
T Consensus       197 ~~~~~~~~ai~~~~~al~~--~P~~~~~~~~l~~ll~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~  266 (315)
T d2h6fa1         197 NDRAVLEREVQYTLEMIKL--VPHNESAWNYLKGILQDRG-LSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYE  266 (315)
T ss_dssp             CSHHHHHHHHHHHHHHHHH--STTCHHHHHHHHHHHTTTC-GGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHH
T ss_pred             chhhhhHHhHHHHHHHHHh--CCCchHHHHHHHHHHHhcC-hHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHH
Confidence                367777777777653  2445666776666655444 45555555443    22234445555555543

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.97  E-value=4.2e-10  Score=106.62  Aligned_cols=267  Identities=9%  Similarity=-0.030  Sum_probs=183.2

Q ss_pred             HHHcCChHHHHHHHhhCCC--CC-cccHHHHHHHhcchh-----hhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 009066          111 YIECGQLDKAVELFKVAPV--KS-VVAWTAMISGYMKFG-----YVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGC  182 (545)
Q Consensus       111 ~~~~g~~~~A~~~f~~~~~--~~-~~~~~~li~~~~~~g-----~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~  182 (545)
                      ..+.+..++|.+++++...  |+ ...|+..-..+...+     ....|+.++|+.+++...+.. +-+...+..+..++
T Consensus        39 ~~~~~~~~~al~~~~~~l~~~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~  117 (334)
T d1dcea1          39 RQAGELDESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLL  117 (334)
T ss_dssp             HHTTCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HhcccccHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHHH
Confidence            3333344677777776542  32 234443322221100     134556788999999988753 33555666666666


Q ss_pred             hccC--cHHHHHHHHHHHHhCCCCCCcccH-HHHHHHHHhcCCHHHHHHHHHhccC---CChhhHHHHHHHHHHcCChHH
Q 009066          183 SHLS--SLQLGKQVHQLVFKSPLCKDTTAL-TPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEK  256 (545)
Q Consensus       183 ~~~~--~~~~a~~~~~~~~~~g~~~~~~~~-~~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~  256 (545)
                      ...+  +.+++...+..+++.. +++...+ ..+...+...|..++|...++.+.+   .+..+|+.+...+.+.|++++
T Consensus       118 ~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p~~~~a~~~l~~~~~~~~~~~~  196 (334)
T d1dcea1         118 SRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPD  196 (334)
T ss_dssp             HTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCC
T ss_pred             HHhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCHHH
Confidence            5554  5889999999988864 3344444 3455777788999999999998875   367789999999999999988


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-
Q 009066          257 ALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-  335 (545)
Q Consensus       257 A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-  335 (545)
                      |...+++....  .|+..   .+...+...+..+++...+.....  ..+++...+..++..+...|+.++|...+.+. 
T Consensus       197 A~~~~~~~~~~--~~~~~---~~~~~~~~l~~~~~a~~~~~~~l~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  269 (334)
T d1dcea1         197 SGPQGRLPENV--LLKEL---ELVQNAFFTDPNDQSAWFYHRWLL--GRAEPLFRCELSVEKSTVLQSELESCKELQELE  269 (334)
T ss_dssp             SSSCCSSCHHH--HHHHH---HHHHHHHHHCSSCSHHHHHHHHHH--SCCCCSSSCCCCHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHhHHh--HHHHH---HHHHHHHHhcchhHHHHHHHHHHH--hCcchhhHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            87766655442  22222   222334455666677777777665  33555666777788888899999999998877 


Q ss_pred             CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHH
Q 009066          336 PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYA  387 (545)
Q Consensus       336 ~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~  387 (545)
                      ...| +...|..+...+...|++++|...++++++++|.... .|..|...+.
T Consensus       270 ~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ldP~~~~-y~~~L~~~~~  321 (334)
T d1dcea1         270 PENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAA-YLDDLRSKFL  321 (334)
T ss_dssp             TTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGGGHH-HHHHHHHHHH
T ss_pred             hhCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCcccHH-HHHHHHHHHh
Confidence            4445 3467888889999999999999999999999998765 6776766554

>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=98.93  E-value=4.7e-08  Score=90.92  Aligned_cols=182  Identities=7%  Similarity=0.049  Sum_probs=145.1

Q ss_pred             CCHHHHHHHHHhccC----CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHH
Q 009066          221 GDLEDACKLFLEIQR----KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYF  296 (545)
Q Consensus       221 g~~~~A~~~f~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~  296 (545)
                      +..++|..+|++..+    .+...|...+..+...|+.++|..+|++++..........|...+..+.+.|+.+.|+++|
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            446888899988653    3567899999999999999999999999987544434557888899999999999999999


Q ss_pred             HHhHHhcCCCCCHHHHHHHHHHH-hHcCCHHHHHHHHHhC--CCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCC
Q 009066          297 DSMVNDYGIAAKPDHYTCMVDLL-GRAGKLVEAVDLIKKM--PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPA  373 (545)
Q Consensus       297 ~~~~~~~~~~~~~~~~~~li~~~-~~~g~~~~A~~~~~~m--~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~  373 (545)
                      +.+.+.  .+.+...|...+... ...|+.+.|..+|+.+  ....+...|...+..+...|+.+.|..+|++++...|.
T Consensus       158 ~~al~~--~~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~  235 (308)
T d2onda1         158 KKARED--ARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSL  235 (308)
T ss_dssp             HHHHTS--TTCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSS
T ss_pred             HHHHHh--CCCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC
Confidence            998763  344555665555543 3468999999999988  22246788999999999999999999999999887664


Q ss_pred             CC---chhHHHHHHHHHHcCCchHHHHHHHHhhh
Q 009066          374 NA---AGCYVQLANIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       374 ~~---~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  404 (545)
                      ++   ...|...+..-...|+.+.+.++.+++.+
T Consensus       236 ~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~  269 (308)
T d2onda1         236 PPEKSGEIWARFLAFESNIGDLASILKVEKRRFT  269 (308)
T ss_dssp             CGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            42   22577777777888999999999998865

>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=98.93  E-value=3.5e-09  Score=95.95  Aligned_cols=215  Identities=12%  Similarity=-0.011  Sum_probs=146.5

Q ss_pred             cHHHHHHHHHHHHhCCCCC---CcccHHHHHHHHHhcCCHHHHHHHHHhccC---CChhhHHHHHHHHHHcCChHHHHHH
Q 009066          187 SLQLGKQVHQLVFKSPLCK---DTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRL  260 (545)
Q Consensus       187 ~~~~a~~~~~~~~~~g~~~---~~~~~~~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~  260 (545)
                      ..+.+..-+.+++......   ...++..+..+|.+.|++++|...|++..+   .++.+|+.+..+|.+.|++++|+..
T Consensus        14 ~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~~~~a~~~lg~~~~~~g~~~~A~~~   93 (259)
T d1xnfa_          14 QQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEA   93 (259)
T ss_dssp             HHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccCCCCHHHHhhhchHHHHHHHHHHhhhh
Confidence            3445555555665542111   234666788999999999999999998864   5788999999999999999999999


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC
Q 009066          261 FDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP  339 (545)
Q Consensus       261 ~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p  339 (545)
                      |++..+... -+..++..+..++...|++++|...|+...+.  .+.+......+...+.+.+..+.+..+.... ...+
T Consensus        94 ~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  170 (259)
T d1xnfa_          94 FDSVLELDP-TYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDK  170 (259)
T ss_dssp             HHHHHHHCT-TCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCC
T ss_pred             hhHHHHHHh-hhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhh--ccccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccch
Confidence            999998642 24567888888999999999999999998874  2344555555555566666655555444433 1122


Q ss_pred             CHhHHHHHHHHHHhcC----CHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhhCC
Q 009066          340 QPAIFGTLLSACRVHK----RLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENN  406 (545)
Q Consensus       340 ~~~~~~~li~~~~~~g----~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  406 (545)
                      +...++. +..+....    ..+.+...+.......|.... +|..|+.+|...|++++|.+.|+...+..
T Consensus       171 ~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~lg~~~~~~g~~~~A~~~~~~al~~~  239 (259)
T d1xnfa_         171 EQWGWNI-VEFYLGNISEQTLMERLKADATDNTSLAEHLSE-TNFYLGKYYLSLGDLDSATALFKLAVANN  239 (259)
T ss_dssp             CSTHHHH-HHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHH-HHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             hhhhhhH-HHHHHHHHHHHHHHHHHHHHHHHhhhcCcccHH-HHHHHHHHHHHCCCHHHHHHHHHHHHHcC
Confidence            2222322 22222222    223333333333344565555 78889999999999999999999987643

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.82  E-value=3.6e-09  Score=100.02  Aligned_cols=247  Identities=8%  Similarity=-0.078  Sum_probs=175.1

Q ss_pred             hccCChHHHHHHHHHHHhCCCCCCHHH-HHHH---HHH-------HhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHH
Q 009066          148 VENSWAEDGLKLLRMMIGLGIRPNASS-LSSV---LLG-------CSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISM  216 (545)
Q Consensus       148 ~~~g~~~~A~~~~~~m~~~~~~pd~~t-~~~l---l~~-------~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~  216 (545)
                      ...+..++|++++.+..+.  .|+..+ |+..   +..       +...+.++++..+++.+++.. +.+...+..+..+
T Consensus        40 ~~~~~~~~al~~~~~~l~~--~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~  116 (334)
T d1dcea1          40 QAGELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWL  116 (334)
T ss_dssp             HTTCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             hcccccHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHH
Confidence            3444568999999999874  566543 3322   222       223455788888888888764 4566677777777


Q ss_pred             HHhcCC--HHHHHHHHHhccC---CChhhHHHHH-HHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHH
Q 009066          217 YCKCGD--LEDACKLFLEIQR---KDVVTWNAMI-SGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVD  290 (545)
Q Consensus       217 y~~~g~--~~~A~~~f~~~~~---~~~~~~~~li-~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~  290 (545)
                      +...++  +++|...++++.+   ++...|...+ ..+...+.+++|+..++++..... -+...|..+..++...|+++
T Consensus       117 ~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p-~~~~a~~~l~~~~~~~~~~~  195 (334)
T d1dcea1         117 LSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNF-SNYSSWHYRSCLLPQLHPQP  195 (334)
T ss_dssp             HHTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTC-CCHHHHHHHHHHHHHHSCCC
T ss_pred             HHHhccccHHHHHHHHHHHHhhCchhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHhcCHH
Confidence            776654  7889888888753   3555665444 566678899999999988887543 25667777778888888887


Q ss_pred             HHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC--CCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 009066          291 LGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM--PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLF  368 (545)
Q Consensus       291 ~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m--~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~  368 (545)
                      +|...+....+.   .|.   ...+...+...+..+++...+...  ...++...+..++..+...++.++|...+.+..
T Consensus       196 ~A~~~~~~~~~~---~~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  269 (334)
T d1dcea1         196 DSGPQGRLPENV---LLK---ELELVQNAFFTDPNDQSAWFYHRWLLGRAEPLFRCELSVEKSTVLQSELESCKELQELE  269 (334)
T ss_dssp             CSSSCCSSCHHH---HHH---HHHHHHHHHHHCSSCSHHHHHHHHHHSCCCCSSSCCCCHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHhHHh---HHH---HHHHHHHHHHhcchhHHHHHHHHHHHhCcchhhHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            776655444331   111   122334455566667777766655  222455567777788888999999999999999


Q ss_pred             cCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhhC
Q 009066          369 NLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKEN  405 (545)
Q Consensus       369 ~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  405 (545)
                      +.+|++.. ++..++.+|...|++++|.+.++...+.
T Consensus       270 ~~~p~~~~-~~~~l~~~~~~~~~~~eA~~~~~~ai~l  305 (334)
T d1dcea1         270 PENKWCLL-TIILLMRALDPLLYEKETLQYFSTLKAV  305 (334)
T ss_dssp             TTCHHHHH-HHHHHHHHHCTGGGHHHHHHHHHHHHHH
T ss_pred             hhCchHHH-HHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            99999887 9999999999999999999999998763

>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=98.71  E-value=1.8e-07  Score=86.09  Aligned_cols=190  Identities=13%  Similarity=0.019  Sum_probs=125.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHhccC-----CC----hhhHHHHHHHHHHcCChHHHHHHHHHHHHcCC---CC--CHHHHHH
Q 009066          213 LISMYCKCGDLEDACKLFLEIQR-----KD----VVTWNAMISGYAQHGKGEKALRLFDKMKDEGM---KP--DSITFVA  278 (545)
Q Consensus       213 li~~y~~~g~~~~A~~~f~~~~~-----~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~---~p--~~~t~~~  278 (545)
                      ..+.|..+|++++|.+.|.+..+     .+    ..+|+.+...|.+.|++++|++.+++..+.-.   .+  ...++..
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            35667778888888888776643     12    34688888889899999999999887654211   11  1334555


Q ss_pred             HHHHHH-ccCcHHHHHHHHHHhHHhc---CCCC-CHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCCC-------H-hHH
Q 009066          279 LLLACN-HAGLVDLGIQYFDSMVNDY---GIAA-KPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQ-------P-AIF  344 (545)
Q Consensus       279 ll~a~~-~~g~~~~a~~~~~~~~~~~---~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-------~-~~~  344 (545)
                      +...|. ..|++++|.+.++...+-+   +.++ ...++..+...|...|++++|.+.|++. ...|+       . ..+
T Consensus       123 l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~  202 (290)
T d1qqea_         123 LGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYF  202 (290)
T ss_dssp             HHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHH
T ss_pred             HHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHH
Confidence            566664 4699999999998775421   1112 1355788899999999999999999886 11111       1 123


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCc----hhHHHHHHHHHH--cCCchHHHHHHHHh
Q 009066          345 GTLLSACRVHKRLDLAEFAAMNLFNLNPANAA----GCYVQLANIYAA--MKKWDDVARIRLSM  402 (545)
Q Consensus       345 ~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~----~~~~~l~~~~~~--~g~~~~a~~~~~~m  402 (545)
                      ...+..+...|+++.|...+++..+.+|....    .....|+.++..  .+.+++|.+.|+.+
T Consensus       203 ~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~  266 (290)
T d1qqea_         203 LKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNF  266 (290)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTS
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            44555677889999999999999999986443    023455666654  34577787777544

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.62  E-value=1.6e-06  Score=74.00  Aligned_cols=142  Identities=11%  Similarity=0.032  Sum_probs=93.5

Q ss_pred             HHHHHhcCCHHHHHHHHHhccCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHH
Q 009066          214 ISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGI  293 (545)
Q Consensus       214 i~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~  293 (545)
                      ...+...|+++.|.+.|.++..++..+|..+...|...|++++|++.|++.++.. +-+...|..+..++.+.|++++|.
T Consensus        12 g~~~~~~~d~~~Al~~~~~i~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~~~g~~~~A~   90 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKYDLAI   90 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHHhhccHHHHH
Confidence            4456677888888888888877788888888888888888888888888887754 224566777777788888888888


Q ss_pred             HHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhCCCCCC-HhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCC
Q 009066          294 QYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQ-PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNP  372 (545)
Q Consensus       294 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p  372 (545)
                      ..|++....  .+++...      .|...|           +..+++ ..++..+..++...|++++|...+++++++.|
T Consensus        91 ~~~~kAl~~--~~~n~~~------~~~~~~-----------~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~  151 (192)
T d1hh8a_          91 KDLKEALIQ--LRGNQLI------DYKILG-----------LQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKS  151 (192)
T ss_dssp             HHHHHHHHT--TTTCSEE------ECGGGT-----------BCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHh--CccCchH------HHHHhh-----------hhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC
Confidence            888776542  1111000      000000           000111 23455666677778888888888888877777


Q ss_pred             CCC
Q 009066          373 ANA  375 (545)
Q Consensus       373 ~~~  375 (545)
                      ...
T Consensus       152 ~~~  154 (192)
T d1hh8a_         152 EPR  154 (192)
T ss_dssp             SGG
T ss_pred             Ccc
Confidence            653

>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=98.58  E-value=1.4e-07  Score=81.37  Aligned_cols=96  Identities=10%  Similarity=0.010  Sum_probs=51.4

Q ss_pred             CCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHH
Q 009066          307 AKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLAN  384 (545)
Q Consensus       307 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~  384 (545)
                      |+...+......|.+.|++++|+..|++. ...| +...|..+..+|.+.|++++|+..|+++++++|++.. +|..++.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~-a~~~lg~   80 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVK-AHFFLGQ   80 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHH-HHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCCcHH-HHHHHHH
Confidence            34444444455555555555555555443 2222 3445555555555555555555555555555555554 5555555


Q ss_pred             HHHHcCCchHHHHHHHHhh
Q 009066          385 IYAAMKKWDDVARIRLSMK  403 (545)
Q Consensus       385 ~~~~~g~~~~a~~~~~~m~  403 (545)
                      +|...|++++|...+++..
T Consensus        81 ~~~~l~~~~~A~~~~~~al   99 (201)
T d2c2la1          81 CQLEMESYDEAIANLQRAY   99 (201)
T ss_dssp             HHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHH
Confidence            5555555555555555443

>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=98.47  E-value=1.1e-06  Score=68.13  Aligned_cols=103  Identities=14%  Similarity=0.046  Sum_probs=75.2

Q ss_pred             HHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHHHHhcCCH
Q 009066          280 LLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFK-PQPAIFGTLLSACRVHKRL  357 (545)
Q Consensus       280 l~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~-p~~~~~~~li~~~~~~g~~  357 (545)
                      ...+...|++++|...|+..++.  -+.++..|..+..+|.+.|++++|+..+++. .+. .+...|..+..++...|++
T Consensus        10 g~~~~~~g~~~eAi~~~~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~~   87 (117)
T d1elwa_          10 GNKALSVGNIDDALQCYSEAIKL--DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRF   87 (117)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhc--CCcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccCH
Confidence            44566777888888888777763  2555677778888888888888888877766 222 3667788888888888888


Q ss_pred             HHHHHHHHHHhcCCCCCCchhHHHHHHH
Q 009066          358 DLAEFAAMNLFNLNPANAAGCYVQLANI  385 (545)
Q Consensus       358 ~~A~~~~~~~~~~~p~~~~~~~~~l~~~  385 (545)
                      ++|+..++++++++|+++. .+..+.++
T Consensus        88 ~~A~~~~~~a~~~~p~~~~-~~~~l~~l  114 (117)
T d1elwa_          88 EEAKRTYEEGLKHEANNPQ-LKEGLQNM  114 (117)
T ss_dssp             HHHHHHHHHHHTTCTTCHH-HHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCHH-HHHHHHHH
Confidence            8888888888888888775 55555443

>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=98.44  E-value=3.9e-07  Score=78.46  Aligned_cols=115  Identities=7%  Similarity=-0.119  Sum_probs=86.9

Q ss_pred             CCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHH
Q 009066          271 PDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLL  348 (545)
Q Consensus       271 p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li  348 (545)
                      |+...+......+...|++++|+..|...++.  .+.++..|..+..+|.+.|++++|+..|++. .+.| +...|..+.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~--~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCCcHHHHHHHH
Confidence            56666677777888888888888888877763  3556778888888888888888888888877 5556 456888888


Q ss_pred             HHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHH
Q 009066          349 SACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAA  388 (545)
Q Consensus       349 ~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~  388 (545)
                      .+|...|++++|+..|+++++++|++.. .+...+..+..
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~l~p~~~~-~~~~~~~~~l~  118 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYSLAKEQRL-NFGDDIPSALR  118 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTC-CCCSHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCcccHH-HHHHHHHHHHH
Confidence            8899999999999999988888776554 44444444433

>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=98.42  E-value=6.5e-07  Score=69.56  Aligned_cols=91  Identities=11%  Similarity=0.122  Sum_probs=82.3

Q ss_pred             HHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCC
Q 009066          314 CMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKK  391 (545)
Q Consensus       314 ~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~  391 (545)
                      .-...+.+.|++++|+..|++. ...| +...|..+..++...|++++|+..++++++++|+++. .|..++.++...|+
T Consensus         8 ~~g~~~~~~g~~~eAi~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~-~~~~~g~~~~~~~~   86 (117)
T d1elwa_           8 EKGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGK-GYSRKAAALEFLNR   86 (117)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHHTTC
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcCCcchhhhhcccccccccccccccchhhhhHHHhccchhh-HHHHHHHHHHHccC
Confidence            3467788999999999999987 3334 6678999999999999999999999999999999998 99999999999999


Q ss_pred             chHHHHHHHHhhhC
Q 009066          392 WDDVARIRLSMKEN  405 (545)
Q Consensus       392 ~~~a~~~~~~m~~~  405 (545)
                      +++|...++...+.
T Consensus        87 ~~~A~~~~~~a~~~  100 (117)
T d1elwa_          87 FEEAKRTYEEGLKH  100 (117)
T ss_dssp             HHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999999998764

>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=98.39  E-value=3.3e-06  Score=77.22  Aligned_cols=193  Identities=9%  Similarity=-0.044  Sum_probs=114.1

Q ss_pred             HHHhccCcHHHHHHHHHHHHhC----CCCC-CcccHHHHHHHHHhcCCHHHHHHHHHhccC-----CC----hhhHHHHH
Q 009066          180 LGCSHLSSLQLGKQVHQLVFKS----PLCK-DTTALTPLISMYCKCGDLEDACKLFLEIQR-----KD----VVTWNAMI  245 (545)
Q Consensus       180 ~~~~~~~~~~~a~~~~~~~~~~----g~~~-~~~~~~~li~~y~~~g~~~~A~~~f~~~~~-----~~----~~~~~~li  245 (545)
                      ..|...+++++|.+.|.++.+.    +-++ -..++..+..+|.+.|++++|.+.+++..+     .+    ..++..+.
T Consensus        45 ~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~  124 (290)
T d1qqea_          45 TIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELG  124 (290)
T ss_dssp             HHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHHH
Confidence            3455556666666666555442    1111 123555666677777777777766665442     11    23455556


Q ss_pred             HHHHH-cCChHHHHHHHHHHHHc----CCCCC-HHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCC----C-HHHHHH
Q 009066          246 SGYAQ-HGKGEKALRLFDKMKDE----GMKPD-SITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAA----K-PDHYTC  314 (545)
Q Consensus       246 ~~~~~-~g~~~~A~~~~~~m~~~----g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~----~-~~~~~~  314 (545)
                      ..|.. .|++++|++.|++..+.    +-.+. ..++..+...+...|++++|...|+++.+.....+    . ...+..
T Consensus       125 ~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (290)
T d1qqea_         125 EILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLK  204 (290)
T ss_dssp             HHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHH
T ss_pred             HhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHHHH
Confidence            56644 58888888888876542    21111 23466677788888888888888888765321111    1 123445


Q ss_pred             HHHHHhHcCCHHHHHHHHHhC-CCCCC------HhHHHHHHHHHHh--cCCHHHHHHHHHHHhcCCC
Q 009066          315 MVDLLGRAGKLVEAVDLIKKM-PFKPQ------PAIFGTLLSACRV--HKRLDLAEFAAMNLFNLNP  372 (545)
Q Consensus       315 li~~~~~~g~~~~A~~~~~~m-~~~p~------~~~~~~li~~~~~--~g~~~~A~~~~~~~~~~~p  372 (545)
                      .+..+...|+++.|...+++. .+.|+      ......++.++..  .+.+++|+..|+++.+++|
T Consensus       205 ~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~~~lD~  271 (290)
T d1qqea_         205 KGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMRLDK  271 (290)
T ss_dssp             HHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSCCCH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCH
Confidence            555667788888888888887 33332      2244556666654  2457788888877776665

>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=98.37  E-value=6.2e-06  Score=70.14  Aligned_cols=73  Identities=19%  Similarity=0.151  Sum_probs=36.1

Q ss_pred             CCHHHHHHHHhcCCCCCeehHHHHHHHHHhCCCHHHHHHHHhhCCc---CCHhHHHHHHHHHHHcCChHHHHHHHh
Q 009066           53 DDVVAAFDFFQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPE---KNSVSWSAMISGYIECGQLDKAVELFK  125 (545)
Q Consensus        53 g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~f~  125 (545)
                      |++++|++.|.++.+++..+|..+...|...|++++|++.|++.++   .+...|..+..+|.+.|++++|.+.|+
T Consensus        19 ~d~~~Al~~~~~i~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~~~~a~~~~g~~~~~~g~~~~A~~~~~   94 (192)
T d1hh8a_          19 KDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQTEKYDLAIKDLK   94 (192)
T ss_dssp             TCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CCHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhhhhhHHHHHHHHHhhccHHHHHHHHH
Confidence            4555555555554444444555555555555555555555554441   233444444445555555555544444

>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=98.37  E-value=1.9e-06  Score=71.06  Aligned_cols=116  Identities=7%  Similarity=-0.042  Sum_probs=90.5

Q ss_pred             HHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCH
Q 009066          280 LLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRL  357 (545)
Q Consensus       280 l~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~  357 (545)
                      ...|.+.|++++|...|++..+.  .+.+...|..+..+|...|++++|...|++. ...| +...|..++.++...|++
T Consensus        17 gn~~~~~~~y~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g~~   94 (159)
T d1a17a_          17 ANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKF   94 (159)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHhhhcccc--chhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHHcCCH
Confidence            44677888888888888888764  2556788888999999999999999998877 3345 557899999999999999


Q ss_pred             HHHHHHHHHHhcCCCCCCchhHHHHHHHH--HHcCCchHHHHH
Q 009066          358 DLAEFAAMNLFNLNPANAAGCYVQLANIY--AAMKKWDDVARI  398 (545)
Q Consensus       358 ~~A~~~~~~~~~~~p~~~~~~~~~l~~~~--~~~g~~~~a~~~  398 (545)
                      ++|...+++++.++|++.. .+..+..+.  ...+.++++...
T Consensus        95 ~eA~~~~~~a~~~~p~~~~-~~~~l~~~~~~~~~~~~~~a~~~  136 (159)
T d1a17a_          95 RAALRDYETVVKVKPHDKD-AKMKYQECNKIVKQKAFERAIAG  136 (159)
T ss_dssp             HHHHHHHHHHHHHSTTCHH-HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCCCHH-HHHHHHHHHHHHHHHHHHHHHhC
Confidence            9999999999999999876 666665553  333445555543

>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=98.37  E-value=4.9e-07  Score=69.64  Aligned_cols=88  Identities=15%  Similarity=0.013  Sum_probs=78.5

Q ss_pred             HHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCC
Q 009066          314 CMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKK  391 (545)
Q Consensus       314 ~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~  391 (545)
                      .+...+.+.|++++|...|++. ...| +...|..+..++...|++++|+..++++++++|++.. ++..|+.+|...|+
T Consensus        21 ~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~-a~~~la~~y~~~g~   99 (112)
T d1hxia_          21 EEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIA-VHAALAVSHTNEHN   99 (112)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHhhhcccccccchhhhhhhhhhhhhhhHHHhhccccccccccccccc-chHHHHHHHHHCCC
Confidence            4567788899999999999887 3345 5788999999999999999999999999999999988 99999999999999


Q ss_pred             chHHHHHHHHh
Q 009066          392 WDDVARIRLSM  402 (545)
Q Consensus       392 ~~~a~~~~~~m  402 (545)
                      +++|.+.+++.
T Consensus       100 ~~~A~~~l~~~  110 (112)
T d1hxia_         100 ANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999999874

>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=98.29  E-value=1.6e-06  Score=71.50  Aligned_cols=92  Identities=14%  Similarity=0.084  Sum_probs=82.3

Q ss_pred             HHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcC
Q 009066          313 TCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMK  390 (545)
Q Consensus       313 ~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g  390 (545)
                      ......|.+.|++++|+..|++. ...| +...|..+...|...|++++|...|+++++++|++.. +|..++.+|...|
T Consensus        14 ~~~gn~~~~~~~y~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~-a~~~~g~~~~~~g   92 (159)
T d1a17a_          14 KTQANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIK-GYYRRAASNMALG   92 (159)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHHTT
T ss_pred             HHHHHHHHHcCCHHHHHHHhhhccccchhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchH-HHHHHHHHHHHcC
Confidence            34566788999999999999988 3334 6688999999999999999999999999999999988 9999999999999


Q ss_pred             CchHHHHHHHHhhhC
Q 009066          391 KWDDVARIRLSMKEN  405 (545)
Q Consensus       391 ~~~~a~~~~~~m~~~  405 (545)
                      ++++|...+++....
T Consensus        93 ~~~eA~~~~~~a~~~  107 (159)
T d1a17a_          93 KFRAALRDYETVVKV  107 (159)
T ss_dssp             CHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHc
Confidence            999999999988764

>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=98.28  E-value=1.7e-06  Score=67.39  Aligned_cols=104  Identities=13%  Similarity=-0.064  Sum_probs=80.5

Q ss_pred             HHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCH---HHHHHHHHhC-CCCCCH---hHHHHHHH
Q 009066          277 VALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKL---VEAVDLIKKM-PFKPQP---AIFGTLLS  349 (545)
Q Consensus       277 ~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~---~~A~~~~~~m-~~~p~~---~~~~~li~  349 (545)
                      ..+++.+...+++++|.+.|+...+.  -+.++.++..+..++.+.++.   ++|+.+++++ ...|+.   .+|..|..
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~--~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~   80 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAA--GSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAV   80 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH--SCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHH
Confidence            35677777888899999999888763  355678888888888875544   4688888886 334433   36788899


Q ss_pred             HHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHH
Q 009066          350 ACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLA  383 (545)
Q Consensus       350 ~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~  383 (545)
                      +|.+.|++++|+..|+++++++|++.. +...+.
T Consensus        81 ~y~~~g~~~~A~~~~~~aL~~~P~~~~-A~~l~~  113 (122)
T d1nzna_          81 GNYRLKEYEKALKYVRGLLQTEPQNNQ-AKELER  113 (122)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHH-HHHHHH
T ss_pred             HHHHHhhhHHHHHHHHHHHHhCcCCHH-HHHHHH
Confidence            999999999999999999999999875 544443

>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=98.21  E-value=0.00016  Score=64.55  Aligned_cols=216  Identities=11%  Similarity=0.003  Sum_probs=119.4

Q ss_pred             HHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHh----cCCHHHHHHHHHhccCC-ChhhHHHHHHHHHH----c
Q 009066          181 GCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCK----CGDLEDACKLFLEIQRK-DVVTWNAMISGYAQ----H  251 (545)
Q Consensus       181 ~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~----~g~~~~A~~~f~~~~~~-~~~~~~~li~~~~~----~  251 (545)
                      .+...+++++|.+.|+...+.|   +......|..+|..    ..+...|...+....++ +...+..+...+..    .
T Consensus        11 ~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~~~~a~~~l~~~~~~~~~~~   87 (265)
T d1ouva_          11 KSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLNYSNGCHLLGNLYYSGQGVS   87 (265)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSC
T ss_pred             HHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhcccccccccchhhccccccccccccc
Confidence            3333444444444444444433   22233334444443    33555555555554432 33344444443332    3


Q ss_pred             CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH--HccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhH----cCCH
Q 009066          252 GKGEKALRLFDKMKDEGMKPDSITFVALLLAC--NHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGR----AGKL  325 (545)
Q Consensus       252 g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~--~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~  325 (545)
                      .+.+.|...+++....|..+... ........  ........+...+.....    ..+...+..|...|..    ..+.
T Consensus        88 ~~~~~a~~~~~~a~~~g~~~a~~-~l~~~~~~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~~L~~~~~~~~~~~~~~  162 (265)
T d1ouva_          88 QNTNKALQYYSKACDLKYAEGCA-SLGGIYHDGKVVTRDFKKAVEYFTKACD----LNDGDGCTILGSLYDAGRGTPKDL  162 (265)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHH-HHHHHHHHCSSSCCCHHHHHHHHHHHHH----TTCHHHHHHHHHHHHHTSSSCCCH
T ss_pred             hhhHHHHHHHhhhhhhhhhhHHH-hhcccccCCCcccchhHHHHHHhhhhhc----ccccchhhhhhhhhccCCCccccc
Confidence            45666777777766654321111 11111111  123455666666655443    3455666667666664    3456


Q ss_pred             HHHHHHHHhCCCCCCHhHHHHHHHHHHh----cCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHH----cCCchHHHH
Q 009066          326 VEAVDLIKKMPFKPQPAIFGTLLSACRV----HKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAA----MKKWDDVAR  397 (545)
Q Consensus       326 ~~A~~~~~~m~~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~----~g~~~~a~~  397 (545)
                      ..+...++...-..+......|...+..    ..+++.|+..|++..+.+.  +. ++..|+.+|.+    ..+.++|.+
T Consensus       163 ~~~~~~~~~a~~~g~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g~--~~-a~~~LG~~y~~G~g~~~n~~~A~~  239 (265)
T d1ouva_         163 KKALASYDKACDLKDSPGCFNAGNMYHHGEGATKNFKEALARYSKACELEN--GG-GCFNLGAMQYNGEGVTRNEKQAIE  239 (265)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTTC--HH-HHHHHHHHHHTTSSSSCCSTTHHH
T ss_pred             ccchhhhhccccccccccccchhhhcccCcccccchhhhhhhHhhhhcccC--HH-HHHHHHHHHHcCCCCccCHHHHHH
Confidence            6666666655222456666666655554    5689999999999988754  34 78888888876    347888999


Q ss_pred             HHHHhhhCCC
Q 009066          398 IRLSMKENNV  407 (545)
Q Consensus       398 ~~~~m~~~~~  407 (545)
                      .|++..+.|.
T Consensus       240 ~~~kAa~~g~  249 (265)
T d1ouva_         240 NFKKGCKLGA  249 (265)
T ss_dssp             HHHHHHHHTC
T ss_pred             HHHHHHHCcC
Confidence            9998877664

>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=98.18  E-value=1.1e-05  Score=66.93  Aligned_cols=133  Identities=15%  Similarity=0.067  Sum_probs=94.1

Q ss_pred             hhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHH
Q 009066          239 VTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDL  318 (545)
Q Consensus       239 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~  318 (545)
                      ..+......+.+.|++++|+..|++.+..-.....              ....-......+        ....|..+..+
T Consensus        14 ~~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~--------------~~~~~~~~~~~~--------~~~~~~nla~~   71 (170)
T d1p5qa1          14 TIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESS--------------FSNEEAQKAQAL--------RLASHLNLAMC   71 (170)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCC--------------CCSHHHHHHHHH--------HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccc--------------cchHHHhhhchh--------HHHHHHHHHHH
Confidence            34555666788888888888888887753110000              000000111111        12357778899


Q ss_pred             HhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchH
Q 009066          319 LGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDD  394 (545)
Q Consensus       319 ~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~  394 (545)
                      |.+.|++++|+..+++. .+.| ++..|..+..+|...|++++|+..|+++++++|++.. +...+..+....+...+
T Consensus        72 y~k~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~n~~-~~~~l~~~~~~~~~~~~  148 (170)
T d1p5qa1          72 HLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKA-AKTQLAVCQQRIRRQLA  148 (170)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHH-HHHHHHHHHHHHHHHHH
T ss_pred             HHhhhhcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHHHHHHHH
Confidence            99999999999999877 3345 6788999999999999999999999999999999987 77788777766555544

>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=98.17  E-value=1.6e-05  Score=65.96  Aligned_cols=63  Identities=10%  Similarity=-0.046  Sum_probs=58.3

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhhC
Q 009066          342 AIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKEN  405 (545)
Q Consensus       342 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  405 (545)
                      .+|+.+..+|.+.|++++|+..++++++++|+++. ++..++.+|...|++++|...|+...+.
T Consensus        63 ~~~~nla~~y~k~~~~~~A~~~~~~al~~~p~~~~-a~~~~g~~~~~~g~~~~A~~~~~~al~l  125 (170)
T d1p5qa1          63 ASHLNLAMCHLKLQAFSAAIESCNKALELDSNNEK-GLSRRGEAHLAVNDFELARADFQKVLQL  125 (170)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcccccchhhhhhhccccchh-hhHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            45777888899999999999999999999999988 9999999999999999999999998763

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=98.05  E-value=4e-05  Score=62.19  Aligned_cols=62  Identities=10%  Similarity=0.002  Sum_probs=53.4

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhh
Q 009066          342 AIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       342 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  404 (545)
                      .+|..+..+|.+.|++++|+..++++++++|++.. +|..++.+|...|++++|...|+...+
T Consensus        68 ~~~~Nla~~~~~l~~~~~Al~~~~~al~~~p~~~k-a~~~~g~~~~~lg~~~~A~~~~~~al~  129 (153)
T d2fbna1          68 SCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVK-ALYKLGVANMYFGFLEEAKENLYKAAS  129 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHH-HHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHhcccchhhhhhhccccccchhhh-hhHHhHHHHHHcCCHHHHHHHHHHHHH
Confidence            35667788888899999999999999999998877 899999999999999999998888765

>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=98.00  E-value=0.0021  Score=56.82  Aligned_cols=113  Identities=12%  Similarity=-0.051  Sum_probs=58.0

Q ss_pred             ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHc----cCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhH----cCC
Q 009066          253 KGEKALRLFDKMKDEGMKPDSITFVALLLACNH----AGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGR----AGK  324 (545)
Q Consensus       253 ~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~  324 (545)
                      ....+...+......   .+...+..+...+..    ..+...+..+++...+    ..++.....|..+|..    ..+
T Consensus       125 ~~~~a~~~~~~~~~~---~~~~~~~~L~~~~~~~~~~~~~~~~~~~~~~~a~~----~g~~~A~~~lg~~y~~g~~~~~d  197 (265)
T d1ouva_         125 DFKKAVEYFTKACDL---NDGDGCTILGSLYDAGRGTPKDLKKALASYDKACD----LKDSPGCFNAGNMYHHGEGATKN  197 (265)
T ss_dssp             CHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHH----TTCHHHHHHHHHHHHHTCSSCCC
T ss_pred             hhHHHHHHhhhhhcc---cccchhhhhhhhhccCCCcccccccchhhhhcccc----ccccccccchhhhcccCcccccc
Confidence            344455555544432   233344444444432    3445555555555443    2244444455555544    456


Q ss_pred             HHHHHHHHHhCCCCCCHhHHHHHHHHHHh----cCCHHHHHHHHHHHhcCCC
Q 009066          325 LVEAVDLIKKMPFKPQPAIFGTLLSACRV----HKRLDLAEFAAMNLFNLNP  372 (545)
Q Consensus       325 ~~~A~~~~~~m~~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~p  372 (545)
                      +++|...|++....-++..+..|...|..    ..+.++|...|+++.+.++
T Consensus       198 ~~~A~~~~~~aa~~g~~~a~~~LG~~y~~G~g~~~n~~~A~~~~~kAa~~g~  249 (265)
T d1ouva_         198 FKEALARYSKACELENGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGA  249 (265)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTC
T ss_pred             hhhhhhhHhhhhcccCHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHCcC
Confidence            77777777665222345555555555553    3366677777777655544

>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=97.99  E-value=1.4e-05  Score=61.96  Aligned_cols=93  Identities=6%  Similarity=-0.022  Sum_probs=76.7

Q ss_pred             HHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcC---CHHHHHHHHHHHhcCCCCCCc-hhHHHHHHHH
Q 009066          313 TCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHK---RLDLAEFAAMNLFNLNPANAA-GCYVQLANIY  386 (545)
Q Consensus       313 ~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g---~~~~A~~~~~~~~~~~p~~~~-~~~~~l~~~~  386 (545)
                      ..++..+...+++++|.+.|++. ...| ++.++..+..++.+.+   +.++|+.++++++..+|++.. .++..|+.+|
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y   82 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAGSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGN   82 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHH
Confidence            46788888999999999999988 3334 6688888988887655   455799999999998876531 1688999999


Q ss_pred             HHcCCchHHHHHHHHhhhC
Q 009066          387 AAMKKWDDVARIRLSMKEN  405 (545)
Q Consensus       387 ~~~g~~~~a~~~~~~m~~~  405 (545)
                      .+.|++++|.+.|++..+.
T Consensus        83 ~~~g~~~~A~~~~~~aL~~  101 (122)
T d1nzna_          83 YRLKEYEKALKYVRGLLQT  101 (122)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhhhHHHHHHHHHHHHh
Confidence            9999999999999999773

>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=97.99  E-value=3.3e-05  Score=63.96  Aligned_cols=131  Identities=12%  Similarity=0.026  Sum_probs=92.9

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHH
Q 009066          240 TWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLL  319 (545)
Q Consensus       240 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~  319 (545)
                      .+......+...|++.+|+..|++++..            +............      . .  --+.....|..+..+|
T Consensus        29 ~~~~~~~~~~~~~~y~~Ai~~y~~al~~------------~~~~~~~~~~~~~------~-~--~~~~~~~~~~nla~~~   87 (169)
T d1ihga1          29 DLKNIGNTFFKSQNWEMAIKKYTKVLRY------------VEGSRAAAEDADG------A-K--LQPVALSCVLNIGACK   87 (169)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH------------HHHHHHHSCHHHH------G-G--GHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHh------------hhhhhhhhhhHHH------H-H--hChhhHHHHHHHHHHH
Confidence            3455566778888999999988887641            0000000111110      0 0  0123456778889999


Q ss_pred             hHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCc
Q 009066          320 GRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKW  392 (545)
Q Consensus       320 ~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~  392 (545)
                      .+.|++++|+..+++. .+.| +...|..+..++...|++++|+..|+++++++|++.. ++..|..+..+....
T Consensus        88 ~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~n~~-~~~~l~~~~~~l~~~  161 (169)
T d1ihga1          88 LKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKA-IQAELLKVKQKIKAQ  161 (169)
T ss_dssp             HHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHHHHHH
T ss_pred             HhhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHHHHHH
Confidence            9999999999999887 5555 5678999999999999999999999999999999987 777777666554433

>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=97.95  E-value=7.5e-05  Score=61.62  Aligned_cols=141  Identities=14%  Similarity=0.036  Sum_probs=96.2

Q ss_pred             hhHHHHHHHHHHcCChHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHH
Q 009066          239 VTWNAMISGYAQHGKGEKALRLFDKMKDE-GMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVD  317 (545)
Q Consensus       239 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~-g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~  317 (545)
                      ..+......+.+.|++.+|+..|++.+.. ...+              ....+.. .....+        ....|..+..
T Consensus        16 ~~~~e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~--------------~~~~~~~-~~~~~~--------~~~~~~Nla~   72 (168)
T d1kt1a1          16 AIVKEKGTVYFKGGKYVQAVIQYGKIVSWLEMEY--------------GLSEKES-KASESF--------LLAAFLNLAM   72 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCC--------------SCCHHHH-HHHHHH--------HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhh--------------ccchhhh-hhcchh--------HHHHHHhHHH
Confidence            34555666777788888888887775541 0000              0000000 001111        1335677888


Q ss_pred             HHhHcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCch-H
Q 009066          318 LLGRAGKLVEAVDLIKKM-PFK-PQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWD-D  394 (545)
Q Consensus       318 ~~~~~g~~~~A~~~~~~m-~~~-p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~-~  394 (545)
                      +|.+.|++++|+..+++. ... .+...|..+..++...|++++|+..|+++++++|++.. +...+..+....+... .
T Consensus        73 ~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~n~~-~~~~l~~~~~~~~~~~e~  151 (168)
T d1kt1a1          73 CYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKA-ARLQIFMCQKKAKEHNER  151 (168)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHH-HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHHHHhHHHH
Confidence            999999999999999877 333 46788999999999999999999999999999999987 7777777776666544 3


Q ss_pred             HHHHHHHhh
Q 009066          395 VARIRLSMK  403 (545)
Q Consensus       395 a~~~~~~m~  403 (545)
                      ..+++..|-
T Consensus       152 ~kk~~~~~f  160 (168)
T d1kt1a1         152 DRRTYANMF  160 (168)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            455555553

>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=97.94  E-value=0.0025  Score=58.11  Aligned_cols=134  Identities=16%  Similarity=0.163  Sum_probs=53.7

Q ss_pred             CeehHHHHHHHHHhCCCHHHHHHHHhhCCcCCHhHHHHHHHHHHHcCChHHHHHHHhhCCCCCcccHHHHHHHhcchhhh
Q 009066           69 DTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGYV  148 (545)
Q Consensus        69 d~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~  148 (545)
                      |..--..+.+-|.+.|.++.|..+|..+.     -|..++..|.+.++++.|.+++.+.  .+..+|..+...+     .
T Consensus        13 n~~d~~~i~~~c~~~~lye~A~~lY~~~~-----d~~rl~~~~v~l~~~~~avd~~~k~--~~~~~~k~~~~~l-----~   80 (336)
T d1b89a_          13 NNAHIQQVGDRCYDEKMYDAAKLLYNNVS-----NFGRLASTLVHLGEYQAAVDGARKA--NSTRTWKEVCFAC-----V   80 (336)
T ss_dssp             ----------------CTTTHHHHHHHTT-----CHHHHHHHHHTTTCHHHHHHHHHHH--TCHHHHHHHHHHH-----H
T ss_pred             CcCCHHHHHHHHHHCCCHHHHHHHHHhCC-----CHHHHHHHHHhhccHHHHHHHHHHc--CCHHHHHHHHHHH-----H
Confidence            33333344444555555555555554432     2334444455555555555554432  2334555555555     4


Q ss_pred             ccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhc
Q 009066          149 ENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKC  220 (545)
Q Consensus       149 ~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~  220 (545)
                      +.....-|     ++.......++.....++..|...|.+++...++....... ..+...++-++..|++.
T Consensus        81 ~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~-~~~~~~~~~L~~lyak~  146 (336)
T d1b89a_          81 DGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKF  146 (336)
T ss_dssp             HTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTT
T ss_pred             hCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCC-ccchHHHHHHHHHHHHh
Confidence            43332221     12222223344444455555555555555555555544321 33444455555555554

>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=97.93  E-value=4.5e-05  Score=63.09  Aligned_cols=65  Identities=11%  Similarity=0.066  Sum_probs=59.8

Q ss_pred             CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhhC
Q 009066          340 QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKEN  405 (545)
Q Consensus       340 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  405 (545)
                      +...|..+..++.+.|++++|+..+.++++++|+++. +|..++.+|...|++++|.+.|+...+.
T Consensus        76 ~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~~~~-a~~~~g~~~~~l~~~~~A~~~~~~al~l  140 (169)
T d1ihga1          76 ALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTK-ALYRRAQGWQGLKEYDQALADLKKAQEI  140 (169)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHH-HHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhhcccchhhhhhhhhhhhhhhhhh-HHHhHHHHHHHccCHHHHHHHHHHHHHh
Confidence            3457788888999999999999999999999999988 9999999999999999999999998763

>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=97.91  E-value=7.7e-05  Score=60.44  Aligned_cols=126  Identities=10%  Similarity=-0.014  Sum_probs=90.0

Q ss_pred             hhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHH
Q 009066          239 VTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDL  318 (545)
Q Consensus       239 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~  318 (545)
                      ..+......+.+.|++.+|+..|++.+..-....             ...-........        .....+|..+..+
T Consensus        18 ~~~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~-------------~~~~~~~~~~~~--------~~~~~~~~Nla~~   76 (153)
T d2fbna1          18 FDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTE-------------EWDDQILLDKKK--------NIEISCNLNLATC   76 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCT-------------TCCCHHHHHHHH--------HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcchh-------------hhhhHHHHHhhh--------hHHHHHHhhHHHH
Confidence            4566677788889999999999988876311000             000000000000        1123467789999


Q ss_pred             HhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHH
Q 009066          319 LGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIY  386 (545)
Q Consensus       319 ~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~  386 (545)
                      |.+.|++++|++.+++. .+.| +...|..+..++...|++++|+..|+++++++|++.. +...+..+.
T Consensus        77 ~~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~n~~-~~~~l~~~~  145 (153)
T d2fbna1          77 YNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLD-IRNSYELCV  145 (153)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHH-HHHHHHHHH
T ss_pred             HHHhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCCCCHH-HHHHHHHHH
Confidence            99999999999999887 3445 6789999999999999999999999999999999876 555554443

>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=97.89  E-value=4.7e-05  Score=57.99  Aligned_cols=86  Identities=8%  Similarity=-0.070  Sum_probs=42.2

Q ss_pred             HHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCC
Q 009066          245 ISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGK  324 (545)
Q Consensus       245 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  324 (545)
                      ...+.+.|++++|+..|++....... +...|..+..++.+.|++++|+..++...+.  .+.+...+..+...|...|+
T Consensus        23 g~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~a~~~la~~y~~~g~   99 (112)
T d1hxia_          23 GLSMLKLANLAEAALAFEAVCQKEPE-REEAWRSLGLTQAENEKDGLAIIALNHARML--DPKDIAVHAALAVSHTNEHN   99 (112)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhHHHHHHHhhhcccccc-cchhhhhhhhhhhhhhhHHHhhccccccccc--ccccccchHHHHHHHHHCCC
Confidence            34444555555555555555543211 3444444555555555555555555554432  13334455555555555555


Q ss_pred             HHHHHHHHH
Q 009066          325 LVEAVDLIK  333 (545)
Q Consensus       325 ~~~A~~~~~  333 (545)
                      +++|.+.++
T Consensus       100 ~~~A~~~l~  108 (112)
T d1hxia_         100 ANAALASLR  108 (112)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            555555544

>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=97.85  E-value=2.1e-06  Score=85.12  Aligned_cols=220  Identities=10%  Similarity=-0.015  Sum_probs=104.5

Q ss_pred             HHHHHHHHHHhCCCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCc-ccHHHHHHHHHhcCCHHHHHHHHHh
Q 009066          155 DGLKLLRMMIGLGIRPNA-SSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDT-TALTPLISMYCKCGDLEDACKLFLE  232 (545)
Q Consensus       155 ~A~~~~~~m~~~~~~pd~-~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~-~~~~~li~~y~~~g~~~~A~~~f~~  232 (545)
                      +|.+.|++..+  ++||. ..+..+..++...++++++   |+.++...  |+. ...+.... ..+ ..+..+.+.++.
T Consensus         4 eA~q~~~qA~~--l~p~~a~a~~~la~~~~~~~~l~ea---ye~~i~~d--p~~a~~~~~e~~-Lw~-~~y~~~ie~~r~   74 (497)
T d1ya0a1           4 QSAQYLRQAEV--LKADMTDSKLGPAEVWTSRQALQDL---YQKMLVTD--LEYALDKKVEQD-LWN-HAFKNQITTLQG   74 (497)
T ss_dssp             HHHHHHHHHHH--HHGGGTCSSSCSSSSHHHHHHHHHH---HHHHHHHC--HHHHHHHTHHHH-HHH-HHTHHHHHHHHH
T ss_pred             HHHHHHHHHHH--cCCCCHHHHhhHHHHHHHHchHHHH---HHHHHHcC--hhhHHHHhHHHH-HHH-HHHHHHHHHHHH
Confidence            67778887765  34443 2344444455555556544   55555432  110 01111110 011 112344455544


Q ss_pred             ccC----CChhhHHHHHHHH--HHcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCC
Q 009066          233 IQR----KDVVTWNAMISGY--AQHGKGEKALRLFDKMKDEGMKP-DSITFVALLLACNHAGLVDLGIQYFDSMVNDYGI  305 (545)
Q Consensus       233 ~~~----~~~~~~~~li~~~--~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~  305 (545)
                      ..+    ++.........++  ...+.++.|+..+++...  +.| +...+..+...+.+.|+.++|...+....+.   
T Consensus        75 ~~k~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~~--l~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~---  149 (497)
T d1ya0a1          75 QAKNRANPNRSEVQANLSLFLEAASGFYTQLLQELCTVFN--VDLPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSY---  149 (497)
T ss_dssp             HHSCSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC---------------------------------CCHHHHH---
T ss_pred             hcccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC--CChhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCC---
Confidence            432    1212111111111  123444455544444332  233 3345555666667777777777766554431   


Q ss_pred             CCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCCC-HhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHH
Q 009066          306 AAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQ-PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLA  383 (545)
Q Consensus       306 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~  383 (545)
                      .| ...+..|.+++...|++++|...|++. ...|+ ...|+.|...+...|+..+|...|.+.+...|..+. ++..|.
T Consensus       150 ~~-~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~~~~~~-a~~nL~  227 (497)
T d1ya0a1         150 IC-QHCLVHLGDIARYRNQTSQAESYYRHAAQLVPSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVKFPFPA-ASTNLQ  227 (497)
T ss_dssp             HH-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSSBCCHH-HHHHHH
T ss_pred             CH-HHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCHH-HHHHHH
Confidence            11 345667788888888888888888776 44454 367888888888888888888888888888877766 777777


Q ss_pred             HHHHHcC
Q 009066          384 NIYAAMK  390 (545)
Q Consensus       384 ~~~~~~g  390 (545)
                      ..+.+..
T Consensus       228 ~~~~~~~  234 (497)
T d1ya0a1         228 KALSKAL  234 (497)
T ss_dssp             HHHHHHT
T ss_pred             HHHHHhh
Confidence            7776544

>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=97.84  E-value=0.00018  Score=59.24  Aligned_cols=63  Identities=14%  Similarity=0.034  Sum_probs=57.7

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhhC
Q 009066          342 AIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKEN  405 (545)
Q Consensus       342 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  405 (545)
                      .+|..+..+|.+.|++++|+..++++++++|++.. +|..++.+|...|++++|...++...+.
T Consensus        65 ~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~-a~~~~~~~~~~l~~~~~A~~~~~~al~l  127 (168)
T d1kt1a1          65 AAFLNLAMCYLKLREYTKAVECCDKALGLDSANEK-GLYRRGEAQLLMNEFESAKGDFEKVLEV  127 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHHTTCHHHHHHHHHHHHHS
T ss_pred             HHHHhHHHHHHHhhhcccchhhhhhhhhcccchHH-HHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            34666778899999999999999999999999988 9999999999999999999999998763

>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=97.79  E-value=4.4e-05  Score=59.78  Aligned_cols=93  Identities=10%  Similarity=0.063  Sum_probs=74.7

Q ss_pred             HHHHHHHHhHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCc------hhHHHHH
Q 009066          312 YTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA------GCYVQLA  383 (545)
Q Consensus       312 ~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~------~~~~~l~  383 (545)
                      +..+...|.+.|++++|+..|++. ...| +...|..+..+|.+.|++++|+..++++++++|++..      .+|..++
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg   86 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIG   86 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHH
Confidence            445777888899999999988877 3334 5778888999999999999999999999998887654      1455677


Q ss_pred             HHHHHcCCchHHHHHHHHhhh
Q 009066          384 NIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       384 ~~~~~~g~~~~a~~~~~~m~~  404 (545)
                      ..+...+++++|.+.++....
T Consensus        87 ~~~~~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          87 NSYFKEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHh
Confidence            778888899999999977643

>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=97.68  E-value=9.6e-05  Score=61.50  Aligned_cols=116  Identities=10%  Similarity=0.004  Sum_probs=80.5

Q ss_pred             HHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHHhcCCHHHH
Q 009066          281 LACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLA  360 (545)
Q Consensus       281 ~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~li~~~~~~g~~~~A  360 (545)
                      ......|++++|.+.|.....-+.-.+-...        ...........-++.    .....+..+...+...|++++|
T Consensus        19 ~~~~~~g~~e~A~~~~~~AL~l~rG~~l~~~--------~~~~w~~~~r~~l~~----~~~~a~~~la~~~~~~g~~~~A   86 (179)
T d2ff4a2          19 VHAAAAGRFEQASRHLSAALREWRGPVLDDL--------RDFQFVEPFATALVE----DKVLAHTAKAEAEIACGRASAV   86 (179)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTCCSSTTGGG--------TTSTTHHHHHHHHHH----HHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCcccccccC--------cchHHHHHHHHHHHH----HHHHHHHHHHHHHHHCCCchHH
Confidence            4566778888888888877653211110000        000001111111111    1235678889999999999999


Q ss_pred             HHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhh-----CCCcc
Q 009066          361 EFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKE-----NNVVK  409 (545)
Q Consensus       361 ~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~-----~~~~~  409 (545)
                      +..++++++.+|.+.. .|..|+.+|...|++++|.+.|++..+     .|+.|
T Consensus        87 l~~~~~al~~~P~~e~-~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P  139 (179)
T d2ff4a2          87 IAELEALTFEHPYREP-LWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDP  139 (179)
T ss_dssp             HHHHHHHHHHSTTCHH-HHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCC
T ss_pred             HHHHHHHHHhCCccHH-HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCc
Confidence            9999999999999988 999999999999999999999998754     46653

>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=97.63  E-value=5.2e-05  Score=60.82  Aligned_cols=44  Identities=14%  Similarity=0.159  Sum_probs=31.3

Q ss_pred             CHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhhCCC
Q 009066          356 RLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNV  407 (545)
Q Consensus       356 ~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  407 (545)
                      +++.|...|+++++++|++.. .+..|...       ..|.+++.+..++|+
T Consensus       101 ~~~~A~~~~~kal~l~P~~~~-~~~~L~~~-------~ka~~~~~e~~k~~~  144 (145)
T d1zu2a1         101 NFDLATQFFQQAVDEQPDNTH-YLKSLEMT-------AKAPQLHAEAYKQGL  144 (145)
T ss_dssp             HHHHHHHHHHHHHHHCTTCHH-HHHHHHHH-------HTHHHHHHHHHHSSS
T ss_pred             hHHHhhhhhhcccccCCCHHH-HHHHHHHH-------HHHHHHHHHHHHHhc
Confidence            468899999999999999875 44444433       456667777666654

>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=97.54  E-value=0.00036  Score=54.29  Aligned_cols=58  Identities=10%  Similarity=0.060  Sum_probs=30.0

Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhH
Q 009066          242 NAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMV  300 (545)
Q Consensus       242 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~  300 (545)
                      ..+...|.+.|++++|+..|++.++.+. .+...+..+..+|.+.|++++|...++.++
T Consensus         8 k~~G~~~~~~~~y~~Ai~~y~~al~~~p-~~~~~~~~~a~~~~~~~~~~~A~~~~~~al   65 (128)
T d1elra_           8 KELGNDAYKKKDFDTALKHYDKAKELDP-TNMTYITNQAAVYFEKGDYNKCRELCEKAI   65 (128)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCc-ccHHHHHhHHHHHHHcCchHHHHHHHHHHH
Confidence            3344455555555555555555555421 234445555555555555555555555544

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.51  E-value=0.032  Score=50.50  Aligned_cols=197  Identities=13%  Similarity=0.153  Sum_probs=81.3

Q ss_pred             CCHHHHHHHHhcCCCCCeehHHHHHHHHHhCCCHHHHHHHHhhCCcCCHhHHHHHHHHHHHcCChHHHHHHHhhCCCCCc
Q 009066           53 DDVVAAFDFFQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAPVKSV  132 (545)
Q Consensus        53 g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~  132 (545)
                      |.++.|..+|..+.     -|..++..+.+.++++.|.+++.+.  .+..+|..+...+.+.....-|.-+ ......+.
T Consensus        28 ~lye~A~~lY~~~~-----d~~rl~~~~v~l~~~~~avd~~~k~--~~~~~~k~~~~~l~~~~e~~la~i~-~~~~~~~~   99 (336)
T d1b89a_          28 KMYDAAKLLYNNVS-----NFGRLASTLVHLGEYQAAVDGARKA--NSTRTWKEVCFACVDGKEFRLAQMC-GLHIVVHA   99 (336)
T ss_dssp             -CTTTHHHHHHHTT-----CHHHHHHHHHTTTCHHHHHHHHHHH--TCHHHHHHHHHHHHHTTCHHHHHHT-TTTTTTCH
T ss_pred             CCHHHHHHHHHhCC-----CHHHHHHHHHhhccHHHHHHHHHHc--CCHHHHHHHHHHHHhCcHHHHHHHH-HHHhhcCH
Confidence            55555555554442     2444445555555555555554433  2344444455555444444332211 11111122


Q ss_pred             ccHHHHHHHhcchhhhccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCC--------
Q 009066          133 VAWTAMISGYMKFGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLC--------  204 (545)
Q Consensus       133 ~~~~~li~~~~~~g~~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~--------  204 (545)
                      .....++..|     -..|.+++.+.++...... -.++...++-++..+++.+. ++..+.+...-. .+.        
T Consensus       100 d~l~~~v~~y-----e~~~~~e~Li~~Le~~~~~-~~~~~~~~~~L~~lyak~~~-~kl~e~l~~~s~-~y~~~k~~~~c  171 (336)
T d1b89a_         100 DELEELINYY-----QDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKFKP-QKMREHLELFWS-RVNIPKVLRAA  171 (336)
T ss_dssp             HHHHHHHHHH-----HHTTCHHHHHHHHHHHTTS-TTCCHHHHHHHHHHHHTTCH-HHHHHHHHHHST-TSCHHHHHHHH
T ss_pred             HHHHHHHHHH-----HHcCChHHHHHHHHHHHcC-CccchHHHHHHHHHHHHhCh-HHHHHHHHhccc-cCCHHHHHHHH
Confidence            2233444555     4555555555555544322 13344444445444444332 111111111100 000        


Q ss_pred             CCcccHHHHHHHHHhcCCHHHHHHHHHhccCCChhhHHHHHHHHHHcCChHHHHHHHHHHHH
Q 009066          205 KDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKD  266 (545)
Q Consensus       205 ~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  266 (545)
                      .....|..++-.|.+.|++++|..+.-.-+ +++......+..+.+.++.+...++....++
T Consensus       172 ~~~~l~~elv~Ly~~~~~~~~A~~~~i~~~-~~~~~~~~f~e~~~k~~N~e~~~~~i~~yL~  232 (336)
T d1b89a_         172 EQAHLWAELVFLYDKYEEYDNAIITMMNHP-TDAWKEGQFKDIITKVANVELYYRAIQFYLE  232 (336)
T ss_dssp             HTTTCHHHHHHHHHHTTCHHHHHHHHHHST-TTTCCHHHHHHHHHHCSSTHHHHHHHHHHHH
T ss_pred             HHcCChHHHHHHHHhcCCHHHHHHHHHHcc-hhhhhHHHHHHHHHccCChHHHHHHHHHHHH
Confidence            011223445566666666666655433221 1222233345555555555544444444333

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.39  E-value=0.00034  Score=51.11  Aligned_cols=74  Identities=12%  Similarity=0.067  Sum_probs=55.7

Q ss_pred             HHHHHHHHHHhHcCCHHHHHHHHHhC----C----CCCC-HhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHH
Q 009066          310 DHYTCMVDLLGRAGKLVEAVDLIKKM----P----FKPQ-PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYV  380 (545)
Q Consensus       310 ~~~~~li~~~~~~g~~~~A~~~~~~m----~----~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~  380 (545)
                      ..+-.+...+.+.|++++|...|++.    +    ..++ ..+++.|..++.+.|++++|+..++++++++|++.. ++.
T Consensus         6 ddc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P~~~~-a~~   84 (95)
T d1tjca_           6 EDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQR-ANG   84 (95)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH-HHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCcCCHH-HHH
Confidence            34446677777777777777777655    1    1122 457888999999999999999999999999999987 666


Q ss_pred             HHHH
Q 009066          381 QLAN  384 (545)
Q Consensus       381 ~l~~  384 (545)
                      .+..
T Consensus        85 Nl~~   88 (95)
T d1tjca_          85 NLKY   88 (95)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6543

>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=97.38  E-value=3.2e-05  Score=76.30  Aligned_cols=57  Identities=9%  Similarity=0.033  Sum_probs=26.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhccC--C-ChhhHHHHHHHHHHcCChHHHHHHHHHHHH
Q 009066          210 LTPLISMYCKCGDLEDACKLFLEIQR--K-DVVTWNAMISGYAQHGKGEKALRLFDKMKD  266 (545)
Q Consensus       210 ~~~li~~y~~~g~~~~A~~~f~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  266 (545)
                      +..|.+.+...|++++|...|++..+  | +..+|+.+...|...|+..+|+..|.+.+.
T Consensus       155 ~~~LG~l~~~~~~~~~A~~~y~~A~~l~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~  214 (497)
T d1ya0a1         155 LVHLGDIARYRNQTSQAESYYRHAAQLVPSNGQPYNQLAILASSKGDHLTTIFYYCRSIA  214 (497)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHHCCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            33344444444555555554444432  1 333444454444445555555555444444

>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=97.34  E-value=0.0004  Score=56.20  Aligned_cols=89  Identities=13%  Similarity=0.000  Sum_probs=61.7

Q ss_pred             HHHHhHcCCHHHHHHHHHhC----CCCCC----------HhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCC-------CC
Q 009066          316 VDLLGRAGKLVEAVDLIKKM----PFKPQ----------PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNP-------AN  374 (545)
Q Consensus       316 i~~~~~~g~~~~A~~~~~~m----~~~p~----------~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-------~~  374 (545)
                      ...+.+.|++++|+..|++.    +..|+          ...|+.+..+|...|++++|...+++.+++.|       +.
T Consensus        16 g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~   95 (156)
T d2hr2a1          16 AQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDE   95 (156)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccc
Confidence            34455566666666666654    21222          34677788888888888888888887765432       21


Q ss_pred             C---chhHHHHHHHHHHcCCchHHHHHHHHhhh
Q 009066          375 A---AGCYVQLANIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       375 ~---~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  404 (545)
                      .   ..++..++.+|...|++++|...|++..+
T Consensus        96 ~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          96 GKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            1   11577889999999999999999998765

>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=97.28  E-value=0.0026  Score=52.39  Aligned_cols=121  Identities=9%  Similarity=0.068  Sum_probs=77.3

Q ss_pred             HHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHHHHHHhccCCChhhHHHHHHHHHHcCChHHHHH
Q 009066          180 LGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALR  259 (545)
Q Consensus       180 ~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~  259 (545)
                      ......|++++|.+.|...+..--.+  ..        ......+.+...-..+.......+..+...+...|++++|+.
T Consensus        19 ~~~~~~g~~e~A~~~~~~AL~l~rG~--~l--------~~~~~~~w~~~~r~~l~~~~~~a~~~la~~~~~~g~~~~Al~   88 (179)
T d2ff4a2          19 VHAAAAGRFEQASRHLSAALREWRGP--VL--------DDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRASAVIA   88 (179)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTCCSS--TT--------GGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCccc--cc--------ccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCchHHHH
Confidence            34566777777777777776642100  00        000010111111122222334567788888888999999999


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHH----hcCCCCCHHH
Q 009066          260 LFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVN----DYGIAAKPDH  311 (545)
Q Consensus       260 ~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~----~~~~~~~~~~  311 (545)
                      .++++.... +-+...+..++.++...|+.++|.+.|+...+    +.|+.|+..+
T Consensus        89 ~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          89 ELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            999888753 33677888888899999999999888887643    3588888765

>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=97.25  E-value=0.00037  Score=61.81  Aligned_cols=124  Identities=9%  Similarity=-0.035  Sum_probs=74.8

Q ss_pred             HHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhHcCCHHH
Q 009066          249 AQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAK-PDHYTCMVDLLGRAGKLVE  327 (545)
Q Consensus       249 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~  327 (545)
                      .+.|++++|+..+++.++.. +-|...+..+...++..|++++|...++...+.   .|+ ...+..+..++...+..++
T Consensus         7 L~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l---~P~~~~~~~~l~~ll~a~~~~~~   82 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKL---FPEYLPGASQLRHLVKAAQARKD   82 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CGGGHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCcHHHHHHHHHHHHhccccHH
Confidence            34677777777777777753 235566667777777777777777777777653   343 4444455555544444444


Q ss_pred             HHHHHHhC--CCCCC-HhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCc
Q 009066          328 AVDLIKKM--PFKPQ-PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA  376 (545)
Q Consensus       328 A~~~~~~m--~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~  376 (545)
                      +..-....  ...|+ ...+......+...|+.++|...++++.+..|....
T Consensus        83 a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~p~~~~  134 (264)
T d1zbpa1          83 FAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQEKGF  134 (264)
T ss_dssp             HTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCCE
T ss_pred             HHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCCCc
Confidence            33322221  11222 233334455567778888888888888887777654

>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=97.13  E-value=0.00012  Score=58.56  Aligned_cols=96  Identities=11%  Similarity=0.066  Sum_probs=62.8

Q ss_pred             HccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHHhcCCHHHHHHH
Q 009066          284 NHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFA  363 (545)
Q Consensus       284 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~li~~~~~~g~~~~A~~~  363 (545)
                      -+.+.+++|++.|+...+.  -|.++..+..+..+|...+++..+.+                      ..+.+++|+..
T Consensus         8 ~r~~~fe~A~~~~e~al~~--~P~~~~~~~~~g~~l~~~~~~~~~~e----------------------~~~~~~~Ai~~   63 (145)
T d1zu2a1           8 DRILLFEQIRQDAENTYKS--NPLDADNLTRWGGVLLELSQFHSISD----------------------AKQMIQEAITK   63 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCHHH----------------------HHHHHHHHHHH
T ss_pred             HHHccHHHHHHHHHHHHhh--CCcchHHHHHHHHHHHHhhhhhhhhH----------------------HHHHHHHHHHH
Confidence            3444555666666555542  23344555555555544443333222                      22446789999


Q ss_pred             HHHHhcCCCCCCchhHHHHHHHHHHcCC-----------chHHHHHHHHhhh
Q 009066          364 AMNLFNLNPANAAGCYVQLANIYAAMKK-----------WDDVARIRLSMKE  404 (545)
Q Consensus       364 ~~~~~~~~p~~~~~~~~~l~~~~~~~g~-----------~~~a~~~~~~m~~  404 (545)
                      |+++++++|++.. +|..++.+|...|+           +++|.+.|++..+
T Consensus        64 ~~kAl~l~P~~~~-a~~~lG~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~  114 (145)
T d1zu2a1          64 FEEALLIDPKKDE-AVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVD  114 (145)
T ss_dssp             HHHHHHHCTTCHH-HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcchhhH-HHhhHHHHHHHcccchhhHHHHHHhHHHhhhhhhcccc
Confidence            9999999999988 99999999988764           5778888877765

>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=97.10  E-value=0.0019  Score=52.02  Aligned_cols=64  Identities=11%  Similarity=-0.055  Sum_probs=41.0

Q ss_pred             HHHHHHHHHhHcCCHHHHHHHHHhC--------CCCCC-----HhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCC
Q 009066          311 HYTCMVDLLGRAGKLVEAVDLIKKM--------PFKPQ-----PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPAN  374 (545)
Q Consensus       311 ~~~~li~~~~~~g~~~~A~~~~~~m--------~~~p~-----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~  374 (545)
                      .|+.+..+|...|++++|...+++.        ...++     ...+..+..+|...|++++|+..|++++++.|..
T Consensus        57 ~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l~~~~  133 (156)
T d2hr2a1          57 CHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEER  133 (156)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhHHh
Confidence            4455555555666655555554443        11122     1256777888999999999999999988775543

>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=96.96  E-value=0.00042  Score=61.42  Aligned_cols=119  Identities=10%  Similarity=0.085  Sum_probs=85.0

Q ss_pred             HccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhC-CCCCCH-hHHHHHHHHHHhcCCHHHHH
Q 009066          284 NHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQP-AIFGTLLSACRVHKRLDLAE  361 (545)
Q Consensus       284 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~-~~~~~li~~~~~~g~~~~A~  361 (545)
                      .+.|++++|+..+++.++  .-+.+...+..+...|+..|++++|.+.++.. ...|+. ..+..+...+...+..+++.
T Consensus         7 L~~G~l~eAl~~l~~al~--~~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~P~~~~~~~~l~~ll~a~~~~~~a~   84 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIK--ASPKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKAAQARKDFA   84 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHH--TCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHCCCHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhccccHHHH
Confidence            467999999999999987  44677899999999999999999999999988 445654 45555555554443333332


Q ss_pred             HHHHHHhc-CCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhhC
Q 009066          362 FAAMNLFN-LNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKEN  405 (545)
Q Consensus       362 ~~~~~~~~-~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  405 (545)
                      ........ .+|.... .+...+..+...|+.++|.+.+++..+.
T Consensus        85 ~~~~~~~~~~~p~~~~-~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          85 QGAATAKVLGENEELT-KSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             TSCCCEECCCSCHHHH-HHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHhhhhhcccCchHHH-HHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            22222111 2343333 5666778889999999999999988764

>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=96.45  E-value=0.0055  Score=44.29  Aligned_cols=65  Identities=8%  Similarity=-0.123  Sum_probs=53.1

Q ss_pred             HhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCC------chhHHHHHHHHHHcCCchHHHHHHHHhhhC
Q 009066          341 PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANA------AGCYVQLANIYAAMKKWDDVARIRLSMKEN  405 (545)
Q Consensus       341 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~------~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  405 (545)
                      ...+-.+...+.+.|+++.|+..|++++++.|.+.      ..++..|+.+|.+.|++++|...+++..+.
T Consensus         5 addc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l   75 (95)
T d1tjca_           5 AEDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (95)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh
Confidence            33455678889999999999999999987654331      126889999999999999999999998763

>d1qsaa1 a.118.5.1 (A:1-450) 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Bacterial muramidases
family: Bacterial muramidases
domain: 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain
species: Escherichia coli [TaxId: 562]

Probab=95.45  E-value=1.1  Score=42.07  Aligned_cols=80  Identities=10%  Similarity=0.030  Sum_probs=38.8

Q ss_pred             cCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHHHHHHHhCCCCCCH-hHH-HHHHHHHHhcCCHHHHHHH
Q 009066          286 AGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQP-AIF-GTLLSACRVHKRLDLAEFA  363 (545)
Q Consensus       286 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~-~~~-~~li~~~~~~g~~~~A~~~  363 (545)
                      .+..+.+..++......   ..+.....-++....+.++...+...++.|+..|.. .-| -=+..++...|+.+.|...
T Consensus       265 ~~~~~~a~~~~~~~~~~---~~~~~~~~w~~~~al~~~~~~~~~~~~~~l~~~~~~~~r~~YW~gRa~~~~G~~~~A~~~  341 (450)
T d1qsaa1         265 NDVTDEQAKWRDDAIMR---SQSTSLIERRVRMALGTGDRRGLNTWLARLPMEAKEKDEWRYWQADLLLERGREAEAKEI  341 (450)
T ss_dssp             TTCCHHHHHHHHHHHHT---CCCHHHHHHHHHHHHHHTCHHHHHHHHHHSCTTGGGSHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCchHHHHHHHHhhccc---ccchHHHHHHHHHHHHcCChHHHHHHHHhcCcccccHHHHHHHHHHHHHHcCChhhHHHH
Confidence            34445555555444332   223333333444444556666666666666422211 111 2344555566666666666


Q ss_pred             HHHHh
Q 009066          364 AMNLF  368 (545)
Q Consensus       364 ~~~~~  368 (545)
                      |..+.
T Consensus       342 ~~~~a  346 (450)
T d1qsaa1         342 LHQLM  346 (450)
T ss_dssp             HHHHH
T ss_pred             HHHHh
Confidence            66654

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=94.49  E-value=0.6  Score=34.38  Aligned_cols=140  Identities=10%  Similarity=0.069  Sum_probs=92.5

Q ss_pred             HHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhHcCCHHHH
Q 009066          249 AQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEA  328 (545)
Q Consensus       249 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  328 (545)
                      .-.|..++..+++.+.....   +..-|+-++.-....-+-+...+.++.+-+-+.+              ..++++...
T Consensus        13 ildG~ve~Gveii~k~~~ss---~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~FDl--------------s~C~Nlk~v   75 (161)
T d1wy6a1          13 LLDGYIDEGVKIVLEITKSS---TKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDL--------------DKCQNLKSV   75 (161)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS---CHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCG--------------GGCSCTHHH
T ss_pred             HHhhhHHhHHHHHHHHcccC---CccccceeeeecccccchHHHHHHHHHHhhhcCc--------------hhhhcHHHH
Confidence            34566777777777766532   3444444444334444445555555555443322              235555555


Q ss_pred             HHHHHhCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhhCCCc
Q 009066          329 VDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVV  408 (545)
Q Consensus       329 ~~~~~~m~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  408 (545)
                      ...+-.++  .+..-.+.-++.+.+.|+-+.-.++++.+++.+.-++. ....++++|.+.|...++-.++.+.-++|++
T Consensus        76 v~C~~~~n--~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~~i~~~-~llkia~A~kkig~~re~nell~~ACe~G~K  152 (161)
T d1wy6a1          76 VECGVINN--TLNEHVNKALDILVIQGKRDKLEEIGREILKNNEVSAS-ILVAIANALRRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             HHHHHHTT--CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHH-HHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHhc--chHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCCCCHH-HHHHHHHHHHHhcchhhHHHHHHHHHHHhHH
Confidence            55555553  45556677788888999999999999997775544444 7889999999999999999999999998875

>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=93.92  E-value=0.47  Score=35.83  Aligned_cols=46  Identities=9%  Similarity=-0.159  Sum_probs=24.5

Q ss_pred             ChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCC
Q 009066          152 WAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSP  202 (545)
Q Consensus       152 ~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g  202 (545)
                      ++++|+++|++..+.|- |  .....+.  .....+.++|...+....+.|
T Consensus         8 d~~~A~~~~~kaa~~g~-~--~a~~~l~--~~~~~~~~~a~~~~~~aa~~g   53 (133)
T d1klxa_           8 DLKKAIQYYVKACELNE-M--FGCLSLV--SNSQINKQKLFQYLSKACELN   53 (133)
T ss_dssp             HHHHHHHHHHHHHHTTC-T--THHHHHH--TCTTSCHHHHHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHHHCCC-h--hhhhhhc--cccccCHHHHHHHHhhhhccc
Confidence            56777777777776652 2  2222221  223345566666666655554

>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=93.54  E-value=0.52  Score=35.61  Aligned_cols=49  Identities=14%  Similarity=-0.062  Sum_probs=23.0

Q ss_pred             CHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHH----cCCchHHHHHHHHhhhCCC
Q 009066          356 RLDLAEFAAMNLFNLNPANAAGCYVQLANIYAA----MKKWDDVARIRLSMKENNV  407 (545)
Q Consensus       356 ~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~m~~~~~  407 (545)
                      +.++|.+.|++..+.+.  +. +...|+.+|..    ..+.++|.+++++..+.|.
T Consensus        74 d~~~A~~~~~~aa~~g~--~~-a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G~  126 (133)
T d1klxa_          74 DLRKAAQYYSKACGLND--QD-GCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  126 (133)
T ss_dssp             CHHHHHHHHHHHHHTTC--HH-HHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             hhHHHHHHHhhhhccCc--ch-HHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCCC
Confidence            34445555555444332  12 44445555544    2345555555555555443

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.15  E-value=0.28  Score=36.40  Aligned_cols=47  Identities=11%  Similarity=0.093  Sum_probs=23.4

Q ss_pred             HHHHHHHHHHhcCCCCCCchhHHHHHHHHHHcCCchHHHHHHHHhhh
Q 009066          358 DLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  404 (545)
Q Consensus       358 ~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  404 (545)
                      ++|+.+++++++.+|......+..|+-+|.+.|++++|++.++.+.+
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            34555555555544433211444555555555555555555555443

>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=90.28  E-value=0.76  Score=33.99  Aligned_cols=70  Identities=13%  Similarity=0.013  Sum_probs=47.6

Q ss_pred             CCHHHHHHHHHHHhHcC---CHHHHHHHHHhC-CCCC-CH-hHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCc
Q 009066          307 AKPDHYTCMVDLLGRAG---KLVEAVDLIKKM-PFKP-QP-AIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA  376 (545)
Q Consensus       307 ~~~~~~~~li~~~~~~g---~~~~A~~~~~~m-~~~p-~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~  376 (545)
                      +++.+--...-++.+..   ++++++.++++. ...| +. ..|..|.-+|.+.|++++|.+.++++++++|++..
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ieP~n~q  108 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQ  108 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHH
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccCCCcHH
Confidence            44455555555555543   345666676665 1123 32 46677888889999999999999999999998864

>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=88.62  E-value=3.4  Score=30.29  Aligned_cols=140  Identities=13%  Similarity=0.059  Sum_probs=88.6

Q ss_pred             hccCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCHHHHH
Q 009066          148 VENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDAC  227 (545)
Q Consensus       148 ~~~g~~~~A~~~~~~m~~~~~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~  227 (545)
                      .-.|..++..++..+....   .+..-|+.++.-....-+-+-..++++.+-+.   .|.          .+|+++....
T Consensus        13 ildG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~---FDl----------s~C~Nlk~vv   76 (161)
T d1wy6a1          13 LLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FDL----------DKCQNLKSVV   76 (161)
T ss_dssp             HHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SCG----------GGCSCTHHHH
T ss_pred             HHhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhhh---cCc----------hhhhcHHHHH
Confidence            3455666777777776653   24445555554444444555555555444331   111          2355555555


Q ss_pred             HHHHhccCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCC
Q 009066          228 KLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIA  306 (545)
Q Consensus       228 ~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~  306 (545)
                      ..|-.+.. +....+..++.+.++|+-++-.++++.+.+. -+|+......+..||.+.|...++.+++.+..++ |++
T Consensus        77 ~C~~~~n~-~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn-~~i~~~~llkia~A~kkig~~re~nell~~ACe~-G~K  152 (161)
T d1wy6a1          77 ECGVINNT-LNEHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKK-GEK  152 (161)
T ss_dssp             HHHHHTTC-CCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT-TCH
T ss_pred             HHHHHhcc-hHHHHHHHHHHHHHhccHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHH-hHH
Confidence            55544432 3445566677888889888888888887764 4777888888889999999999999998888775 543

>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=83.46  E-value=2.2  Score=29.64  Aligned_cols=63  Identities=11%  Similarity=0.225  Sum_probs=48.3

Q ss_pred             ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHhHHhcCCCCCHHHHHHHHH
Q 009066          253 KGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVD  317 (545)
Q Consensus       253 ~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~  317 (545)
                      +.-++..-+..+....+.|+.....+.+.||.+.+++..|.++++.+..+.+  ++...|..+++
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~~--~~k~~y~yilq   83 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAG--PHKEIYPYVIQ   83 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTT--TCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhc--CcHHHHHHHHH
Confidence            4446666677777778899999999999999999999999999988876543  33456666554