Citrus Sinensis ID: 008280

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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-------550-------560-------570-
Protein Sequence
MNVKTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGYVPDLEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYISAIEKREIIVRDTTRFHHFKDGTCSCGDYW
Secondary Structure (PSIPRED)
cccccccHHHHHHHHHHHccccHHHHHHHHccccccccEEHHHHHHHHHHccccHHHHHHHHcccccccHHHHHHHHHHHHccccHHHHHHHHccccccccEEHHHHHHHHHHcccHHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHHHHHccccccccEEEHHHHHHHHHHccccHHHHHHHHHHHHcccccccEEHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHccccHHHHHHHHHcccccccEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHcccccHHHHHHHHHHHcHHccccccccccHHHHHHHHHccccHHHHHHHHHcccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccHHHHHHHHHHccccHHHHHHHHHHHHccccccccEEEEEEccEEEEEEccccccccHHHHHHHHHHHHHHHHHcccccccccccccccHHHHHHHHHHccHHHHHHHHHccccccccEEEEcccccccHHHHHHHHHHHHcccEEEEEccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccEEEHHHHHHHHHHHcccHHHHHHHHHHccccccEHHHHHHHHHHHHcccHHHHHHHHHHccccccHHHHHHHHHHHHcccHHHHHHHHHHcccccccHHHHHHHHHHHcccHHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccEHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccEHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccEEEEEEccEEEEEEEccccccHHHHHHHHHHHHHHHHHHccccccccEEEEcccHHHHHHHHHHHHHHHHHHHHHHcccccccEEEEEccEEcccHHHHHHHHHHHcccEEEEEcccccEEcccccEcccccc
Coil and Loop (DISEMBL)
MNVKTTVNWNSVLAGFAKQRGKLKDAQElfdkipqpdvvSYNIMLSCILLNSDDVVAAFDffqrlpikdtaswNTMISGFVQKKNMAKARDLFLampeknsvSWSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGKVDLAEKlfdemptknlVTWNAMIAGYVENSWAEDGLKLLRMMIGlgirpnasslSSVLLGcshlsslqlgKQVHQLvfksplckdttaltpLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKmkdegmkpdSITFVALLLACNHAGLVDLGIQYFDSMVNdygiaakpdhYTCMVDLLGRAGKLVEAVDLikkmpfkpqpaifgTLLSACRVHKRLDLAEFAAMnlfnlnpanaaGCYVQLANIYAAMKKWDDVARIRLSMkennvvkmpgyswiEVGTVVhefrsgdrvhpELVSIHEKLKELEKRMKLAGYVPDLEFALHAVGEEVKEQLLLFHSEKLAIAFGlikvplgtpirvfKNLRVCGDCHRATKYISAIEKREIIVrdttrfhhfkdgtcscgdyw
Flexible Loop (DISEMBL)
mnvkttvnwnsVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQRlpikdtaswNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISgyaqhgkgekALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMkennvvkmpgySWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGYVPDLEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDChratkyisaiekreiivrdttrfhhfkdgtcscgdyw
Low Complexity Region (SEG)
MNVKTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHeklkelekrmklAGYVPDLEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYISAIEKREIIVRDTTRFHHFKDGTCSCGDYW
Disordered region (IsUnstruct)
*****TVNWNSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKM*****KPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGYVPDLEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYISAIEKREIIVRDTTRFHHFKDGTCSCGD**
Disordered Region (DISOPRED)
*NVKTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGYVPDLEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYISAIEKREIIVRDTTRFHHFKDGTCSCGDYW
Disordered Region (DISEMBL)
MNVKTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGYVPDLEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYISAIEKREIIVRDTTRFHHFKDGTCSCGDYW
Disordered Region (DISPRO)
***KTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGYVPDLEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYISAIEKREIIVRDTTRFHHFKDGTCSCGDYW
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MNVKTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGYVPDLEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYISAIEKREIIVRDTTRFHHFKDGTCSCGDYW
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	571	2.2.26 [Sep-21-2011]
Q9M4P3	656	Pentatricopeptide repeat-	yes	no	0.996	0.867	0.680	0.0
Q9SY02	781	Pentatricopeptide repeat-	no	no	0.984	0.719	0.483	1e-162
Q9FXB9	704	Pentatricopeptide repeat-	no	no	0.994	0.806	0.433	1e-138
Q56XI1	705	Pentatricopeptide repeat-	no	no	0.994	0.805	0.432	1e-137
Q9SUH6	792	Pentatricopeptide repeat-	no	no	0.957	0.690	0.385	1e-125
Q9SHZ8	786	Pentatricopeptide repeat-	no	no	0.978	0.711	0.418	1e-124
Q9FHF9	697	Pentatricopeptide repeat-	no	no	0.991	0.812	0.396	1e-123
Q9LW63	715	Putative pentatricopeptid	no	no	0.945	0.755	0.400	1e-121
Q9LTV8	694	Pentatricopeptide repeat-	no	no	0.980	0.806	0.371	1e-120
Q9ZUW3	868	Pentatricopeptide repeat-	no	no	0.882	0.580	0.430	1e-120

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

 Score =  795 bits (2054), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 389/572 (68%), Positives = 463/572 (80%), Gaps = 3/572 (0%)

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 VELFKVAPVKSVVAWTAMISGYMKFGKVDLAEKLFDEMP-TKNLVTWNAMIAGYVENSWA 179
              FKVAPV+ VVAWTAMI+GYMK  KV+LAE +F +M   KNLVTWNAMI+GYVENS  
Sbjct: 206 SHFFKVAPVRGVVAWTAMITGYMKAKKVELAEAMFKDMTVNKNLVTWNAMISGYVENSRP 265

Query: 180 EDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPL 239
           EDGLKL R M+  GIRPN+S LSS LLGCS LS+LQLG+Q+HQ+V KS LC D TALT L
Sbjct: 266 EDGLKLFRAMLEEGIRPNSSGLSSALLGCSELSALQLGRQIHQIVSKSTLCNDVTALTSL 325

Query: 240 ISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDS 299
           ISMYCKCG+L DA KLF  +++KDVV WNAMISGYAQHG  +KAL LF +M D  ++PD 
Sbjct: 326 ISMYCKCGELGDAWKLFEVMKKKDVVAWNAMISGYAQHGNADKALCLFREMIDNKIRPDW 385

Query: 300 ITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIK 359
           ITFVA+LLACNHAGLV++G+ YF+SMV DY +  +PDHYTCMVDLLGRAGKL EA+ LI+
Sbjct: 386 ITFVAVLLACNHAGLVNIGMAYFESMVRDYKVEPQPDHYTCMVDLLGRAGKLEEALKLIR 445

Query: 360 KMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWD 419
            MPF+P  A+FGTLL ACRVHK ++LAEFAA  L  LN  NAAG YVQLANIYA+  +W+
Sbjct: 446 SMPFRPHAAVFGTLLGACRVHKNVELAEFAAEKLLQLNSQNAAG-YVQLANIYASKNRWE 504

Query: 420 DVARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAG 479
           DVAR+R  MKE+NVVK+PGYSWIE+   VH FRS DR+HPEL SIH+KLKELEK+MKLAG
Sbjct: 505 DVARVRKRMKESNVVKVPGYSWIEIRNKVHHFRSSDRIHPELDSIHKKLKELEKKMKLAG 564

Query: 480 YVPDLEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATK 539
           Y P+LEFALH V EE KE+LLL+HSEKLA+AFG IK+P G+ I+VFKNLR+CGDCH+A K
Sbjct: 565 YKPELEFALHNVEEEQKEKLLLWHSEKLAVAFGCIKLPQGSQIQVFKNLRICGDCHKAIK 624

Query: 540 YISAIEKREIIVRDTTRFHHFKDGTCSCGDYW 571
           +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 =  570 bits (1470), Expect = e-162,   Method: Compositional matrix adjust.
 Identities = 273/565 (48%), Positives = 378/565 (66%), Gaps = 3/565 (0%)

Query: 7   VNWNSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQRLP 66
           V+WN +L GF K++ K+ +A++ FD +   DVVS+N +++     S  +  A   F   P
Sbjct: 220 VSWNCLLGGFVKKK-KIVEARQFFDSMNVRDVVSWNTIITG-YAQSGKIDEARQLFDESP 277

Query: 67  IKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKV 126
           ++D  +W  M+SG++Q + + +AR+LF  MPE+N VSW+AM++GY++  +++ A ELF V
Sbjct: 278 VQDVFTWTAMVSGYIQNRMVEEARELFDKMPERNEVSWNAMLAGYVQGERMEMAKELFDV 337

Query: 127 APVKSVVAWTAMISGYMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAEDGLKLL 186
            P ++V  W  MI+GY + GK+  A+ LFD+MP ++ V+W AMIAGY ++  + + L+L 
Sbjct: 338 MPCRNVSTWNTMITGYAQCGKISEAKNLFDKMPKRDPVSWAAMIAGYSQSGHSFEALRLF 397

Query: 187 RMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKC 246
             M   G R N SS SS L  C+ + +L+LGKQ+H  + K            L+ MYCKC
Sbjct: 398 VQMEREGGRLNRSSFSSALSTCADVVALELGKQLHGRLVKGGYETGCFVGNALLLMYCKC 457

Query: 247 GDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALL 306
           G +E+A  LF E+  KD+V+WN MI+GY++HG GE ALR F+ MK EG+KPD  T VA+L
Sbjct: 458 GSIEEANDLFKEMAGKDIVSWNTMIAGYSRHGFGEVALRFFESMKREGLKPDDATMVAVL 517

Query: 307 LACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQ 366
            AC+H GLVD G QYF +M  DYG+     HY CMVDLLGRAG L +A +L+K MPF+P 
Sbjct: 518 SACSHTGLVDKGRQYFYTMTQDYGVMPNSQHYACMVDLLGRAGLLEDAHNLMKNMPFEPD 577

Query: 367 PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRL 426
            AI+GTLL A RVH   +LAE AA  +F + P N+ G YV L+N+YA+  +W DV ++R+
Sbjct: 578 AAIWGTLLGASRVHGNTELAETAADKIFAMEPENS-GMYVLLSNLYASSGRWGDVGKLRV 636

Query: 427 SMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGYVPDLEF 486
            M++  V K+PGYSWIE+    H F  GD  HPE   I   L+EL+ RMK AGYV     
Sbjct: 637 RMRDKGVKKVPGYSWIEIQNKTHTFSVGDEFHPEKDEIFAFLEELDLRMKKAGYVSKTSV 696

Query: 487 ALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYISAIEK 546
            LH V EE KE+++ +HSE+LA+A+G+++V  G PIRV KNLRVC DCH A KY++ I  
Sbjct: 697 VLHDVEEEEKERMVRYHSERLAVAYGIMRVSSGRPIRVIKNLRVCEDCHNAIKYMARITG 756

Query: 547 REIIVRDTTRFHHFKDGTCSCGDYW 571
           R II+RD  RFHHFKDG+CSCGDYW
Sbjct: 757 RLIILRDNNRFHHFKDGSCSCGDYW 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 =  493 bits (1268), Expect = e-138,   Method: Compositional matrix adjust.
 Identities = 248/572 (43%), Positives = 353/572 (61%), Gaps = 4/572 (0%)

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 VELFKVAPVKSVVAWTAMISGYMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAE 180
            E F+V P+K V+A  AMI G+ + G++  A ++FD M  ++  TW  MI  Y    +  
Sbjct: 254 EEFFEVMPMKPVIACNAMIVGFGEVGEISKARRVFDLMEDRDNATWRGMIKAYERKGFEL 313

Query: 181 DGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLI 240
           + L L   M   G+RP+  SL S+L  C+ L+SLQ G+QVH  + +     D    + L+
Sbjct: 314 EALDLFAQMQKQGVRPSFPSLISILSVCATLASLQYGRQVHAHLVRCQFDDDVYVASVLM 373

Query: 241 SMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSI 300
           +MY KCG+L  A  +F     KD++ WN++ISGYA HG GE+AL++F +M   G  P+ +
Sbjct: 374 TMYVKCGELVKAKLVFDRFSSKDIIMWNSIISGYASHGLGEEALKIFHEMPSSGTMPNKV 433

Query: 301 TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKK 360
           T +A+L AC++AG ++ G++ F+SM + + +    +HY+C VD+LGRAG++ +A++LI+ 
Sbjct: 434 TLIAILTACSYAGKLEEGLEIFESMESKFCVTPTVEHYSCTVDMLGRAGQVDKAMELIES 493

Query: 361 MPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDD 420
           M  KP   ++G LL AC+ H RLDLAE AA  LF   P N AG YV L++I A+  KW D
Sbjct: 494 MTIKPDATVWGALLGACKTHSRLDLAEVAAKKLFENEPDN-AGTYVLLSSINASRSKWGD 552

Query: 421 VARIRLSMKENNVVKMPGYSWIEVGTVVHEF-RSGDRVHPELVSIHEKLKELEKRMKLAG 479
           VA +R +M+ NNV K PG SWIEVG  VH F R G + HPE   I   L++ +  ++ AG
Sbjct: 553 VAVVRKNMRTNNVSKFPGCSWIEVGKKVHMFTRGGIKNHPEQAMILMMLEKTDGLLREAG 612

Query: 480 YVPDLEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATK 539
           Y PD    LH V EE K   L  HSE+LA+A+GL+K+P G PIRV KNLRVCGDCH A K
Sbjct: 613 YSPDCSHVLHDVDEEEKVDSLSRHSERLAVAYGLLKLPEGVPIRVMKNLRVCGDCHAAIK 672

Query: 540 YISAIEKREIIVRDTTRFHHFKDGTCSCGDYW 571
            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 =  489 bits (1260), Expect = e-137,   Method: Compositional matrix adjust.
 Identities = 248/573 (43%), Positives = 359/573 (62%), Gaps = 5/573 (0%)

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 VELFKVAPVKSVVAWTAMISGYMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAE 180
            ELF+V PVK V+A  AMISG  + G++  A ++FD M  +N  +W  +I  +  N +  
Sbjct: 254 EELFEVMPVKPVIACNAMISGLGQKGEIAKARRVFDSMKERNDASWQTVIKIHERNGFEL 313

Query: 181 DGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLI 240
           + L L  +M   G+RP   +L S+L  C+ L+SL  GKQVH  + +     D    + L+
Sbjct: 314 EALDLFILMQKQGVRPTFPTLISILSVCASLASLHHGKQVHAQLVRCQFDVDVYVASVLM 373

Query: 241 SMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEG-MKPDS 299
           +MY KCG+L  +  +F     KD++ WN++ISGYA HG GE+AL++F +M   G  KP+ 
Sbjct: 374 TMYIKCGELVKSKLIFDRFPSKDIIMWNSIISGYASHGLGEEALKVFCEMPLSGSTKPNE 433

Query: 300 ITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIK 359
           +TFVA L AC++AG+V+ G++ ++SM + +G+     HY CMVD+LGRAG+  EA+++I 
Sbjct: 434 VTFVATLSACSYAGMVEEGLKIYESMESVFGVKPITAHYACMVDMLGRAGRFNEAMEMID 493

Query: 360 KMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWD 419
            M  +P  A++G+LL ACR H +LD+AEF A  L  + P N +G Y+ L+N+YA+  +W 
Sbjct: 494 SMTVEPDAAVWGSLLGACRTHSQLDVAEFCAKKLIEIEPEN-SGTYILLSNMYASQGRWA 552

Query: 420 DVARIRLSMKENNVVKMPGYSWIEVGTVVHEF-RSGDRVHPELVSIHEKLKELEKRMKLA 478
           DVA +R  MK   V K PG SW EV   VH F R G   HPE  SI + L EL+  ++ A
Sbjct: 553 DVAELRKLMKTRLVRKSPGCSWTEVENKVHAFTRGGINSHPEQESILKILDELDGLLREA 612

Query: 479 GYVPDLEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRAT 538
           GY PD  +ALH V EE K   L +HSE+LA+A+ L+K+  G PIRV KNLRVC DCH A 
Sbjct: 613 GYNPDCSYALHDVDEEEKVNSLKYHSERLAVAYALLKLSEGIPIRVMKNLRVCSDCHTAI 672

Query: 539 KYISAIEKREIIVRDTTRFHHFKDGTCSCGDYW 571
           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 =  449 bits (1156), Expect = e-125,   Method: Compositional matrix adjust.
 Identities = 242/627 (38%), Positives = 351/627 (55%), Gaps = 80/627 (12%)

Query: 22  KLKDAQELFDKIPQPDVVSYNIMLS----------------------CILLNSD---DVV 56
           +++DA+++FD++P+ D + +N M+S                      C  L++    D++
Sbjct: 169 RVEDARKVFDRMPEKDTILWNTMISGYRKNEMYVESIQVFRDLINESCTRLDTTTLLDIL 228

Query: 57  AAFDFFQRLPI----------KDTASWNTMISGFVQ------KKNMAKARDLFLAMPEKN 100
            A    Q L +              S + +++GF+       K  M  A  LF    + +
Sbjct: 229 PAVAELQELRLGMQIHSLATKTGCYSHDYVLTGFISLYSKCGKIKMGSA--LFREFRKPD 286

Query: 101 SVSWSAMISGYIECGQLDKAVELFK----------------VAPVKS------------- 131
            V+++AMI GY   G+ + ++ LFK                + PV               
Sbjct: 287 IVAYNAMIHGYTSNGETELSLSLFKELMLSGARLRSSTLVSLVPVSGHLMLIYAIHGYCL 346

Query: 132 -------VVAWTAMISGYMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAEDGLK 184
                      TA+ + Y K  +++ A KLFDE P K+L +WNAMI+GY +N   ED + 
Sbjct: 347 KSNFLSHASVSTALTTVYSKLNEIESARKLFDESPEKSLPSWNAMISGYTQNGLTEDAIS 406

Query: 185 LLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYC 244
           L R M      PN  +++ +L  C+ L +L LGK VH LV  +         T LI MY 
Sbjct: 407 LFREMQKSEFSPNPVTITCILSACAQLGALSLGKWVHDLVRSTDFESSIYVSTALIGMYA 466

Query: 245 KCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVA 304
           KCG + +A +LF  + +K+ VTWN MISGY  HG+G++AL +F +M + G+ P  +TF+ 
Sbjct: 467 KCGSIAEARRLFDLMTKKNEVTWNTMISGYGLHGQGQEALNIFYEMLNSGITPTPVTFLC 526

Query: 305 LLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFK 364
           +L AC+HAGLV  G + F+SM++ YG      HY CMVD+LGRAG L  A+  I+ M  +
Sbjct: 527 VLYACSHAGLVKEGDEIFNSMIHRYGFEPSVKHYACMVDILGRAGHLQRALQFIEAMSIE 586

Query: 365 PQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARI 424
           P  +++ TLL ACR+HK  +LA   +  LF L+P N  G +V L+NI++A + +   A +
Sbjct: 587 PGSSVWETLLGACRIHKDTNLARTVSEKLFELDPDN-VGYHVLLSNIHSADRNYPQAATV 645

Query: 425 RLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGYVPDL 484
           R + K+  + K PGY+ IE+G   H F SGD+ HP++  I+EKL++LE +M+ AGY P+ 
Sbjct: 646 RQTAKKRKLAKAPGYTLIEIGETPHVFTSGDQSHPQVKEIYEKLEKLEGKMREAGYQPET 705

Query: 485 EFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYISAI 544
           E ALH V EE +E ++  HSE+LAIAFGLI    GT IR+ KNLRVC DCH  TK IS I
Sbjct: 706 ELALHDVEEEERELMVKVHSERLAIAFGLIATEPGTEIRIIKNLRVCLDCHTVTKLISKI 765

Query: 545 EKREIIVRDTTRFHHFKDGTCSCGDYW 571
            +R I+VRD  RFHHFKDG CSCGDYW
Sbjct: 766 TERVIVVRDANRFHHFKDGVCSCGDYW 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 =  447 bits (1150), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 253/605 (41%), Positives = 352/605 (58%), Gaps = 46/605 (7%)

Query: 10  NSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQRLPIKD 69
           NS+L  +AK  G    A+ +FD++   D+ S+N M++ + +    +  A   F+++  +D
Sbjct: 185 NSLLNMYAKC-GDPMMAKFVFDRMVVRDISSWNAMIA-LHMQVGQMDLAMAQFEQMAERD 242

Query: 70  TASWNTMISGFVQKKNMAKARDLFLAM-------PEK----------------------- 99
             +WN+MISGF Q+    +A D+F  M       P++                       
Sbjct: 243 IVTWNSMISGFNQRGYDLRALDIFSKMLRDSLLSPDRFTLASVLSACANLEKLCIGKQIH 302

Query: 100 ----------NSVSWSAMISGYIECGQLDKAVELFKVAPVKS--VVAWTAMISGYMKFGK 147
                     + +  +A+IS Y  CG ++ A  L +    K   +  +TA++ GY+K G 
Sbjct: 303 SHIVTTGFDISGIVLNALISMYSRCGGVETARRLIEQRGTKDLKIEGFTALLDGYIKLGD 362

Query: 148 VDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLG 207
           ++ A+ +F  +  +++V W AMI GY ++    + + L R M+G G RPN+ +L+++L  
Sbjct: 363 MNQAKNIFVSLKDRDVVAWTAMIVGYEQHGSYGEAINLFRSMVGGGQRPNSYTLAAMLSV 422

Query: 208 CSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQ-RKDVVT 266
            S L+SL  GKQ+H    KS      +    LI+MY K G++  A + F  I+  +D V+
Sbjct: 423 ASSLASLSHGKQIHGSAVKSGEIYSVSVSNALITMYAKAGNITSASRAFDLIRCERDTVS 482

Query: 267 WNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMV 326
           W +MI   AQHG  E+AL LF+ M  EG++PD IT+V +  AC HAGLV+ G QYFD M 
Sbjct: 483 WTSMIIALAQHGHAEEALELFETMLMEGLRPDHITYVGVFSACTHAGLVNQGRQYFDMMK 542

Query: 327 NDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLA 386
           +   I     HY CMVDL GRAG L EA + I+KMP +P    +G+LLSACRVHK +DL 
Sbjct: 543 DVDKIIPTLSHYACMVDLFGRAGLLQEAQEFIEKMPIEPDVVTWGSLLSACRVHKNIDLG 602

Query: 387 EFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVVKMPGYSWIEVGT 446
           + AA  L  L P N+ G Y  LAN+Y+A  KW++ A+IR SMK+  V K  G+SWIEV  
Sbjct: 603 KVAAERLLLLEPENS-GAYSALANLYSACGKWEEAAKIRKSMKDGRVKKEQGFSWIEVKH 661

Query: 447 VVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGYVPDLEFALHAVGEEVKEQLLLFHSEK 506
            VH F   D  HPE   I+  +K++   +K  GYVPD    LH + EEVKEQ+L  HSEK
Sbjct: 662 KVHVFGVEDGTHPEKNEIYMTMKKIWDEIKKMGYVPDTASVLHDLEEEVKEQILRHHSEK 721

Query: 507 LAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYISAIEKREIIVRDTTRFHHFKDGTCS 566
           LAIAFGLI  P  T +R+ KNLRVC DCH A K+IS +  REIIVRDTTRFHHFKDG CS
Sbjct: 722 LAIAFGLISTPDKTTLRIMKNLRVCNDCHTAIKFISKLVGREIIVRDTTRFHHFKDGFCS 781

Query: 567 CGDYW 571
           C DYW
Sbjct: 782 CRDYW 786

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FHF9|PP419_ARATH Pentatricopeptide repeat-containing protein At5g46460, mitochondrial OS=Arabidopsis thaliana GN=PCMP-H49 PE=2 SV=1

 Score =  444 bits (1142), Expect = e-123,   Method: Compositional matrix adjust.
 Identities = 242/611 (39%), Positives = 355/611 (58%), Gaps = 45/611 (7%)

Query: 1   MNVKTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFD 60
           M V+  V+WNS+++G   + G +  A +LFD++P+  VVS+  M++     S  V  A  
Sbjct: 92  MPVRDVVSWNSMISGCV-ECGDMNTAVKLFDEMPERSVVSWTAMVNG-CFRSGKVDQAER 149

Query: 61  FFQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKA 120
            F ++P+KDTA+WN+M+ G++Q   +  A  LF  MP KN +SW+ MI G  +  +  +A
Sbjct: 150 LFYQMPVKDTAAWNSMVHGYLQFGKVDDALKLFKQMPGKNVISWTTMICGLDQNERSGEA 209

Query: 121 VELFK----------VAPVKSVVAWTA-----------------------------MISG 141
           ++LFK            P   V+   A                             +I+ 
Sbjct: 210 LDLFKNMLRCCIKSTSRPFTCVITACANAPAFHMGIQVHGLIIKLGFLYEEYVSASLITF 269

Query: 142 YMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSL 201
           Y    ++  + K+FDE   + +  W A+++GY  N   ED L +   M+   I PN S+ 
Sbjct: 270 YANCKRIGDSRKVFDEKVHEQVAVWTALLSGYSLNKKHEDALSIFSGMLRNSILPNQSTF 329

Query: 202 SSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR 261
           +S L  CS L +L  GK++H +  K  L  D      L+ MY   G++ DA  +F++I +
Sbjct: 330 ASGLNSCSALGTLDWGKEMHGVAVKLGLETDAFVGNSLVVMYSDSGNVNDAVSVFIKIFK 389

Query: 262 KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQY 321
           K +V+WN++I G AQHG+G+ A  +F +M     +PD ITF  LL AC+H G ++ G + 
Sbjct: 390 KSIVSWNSIIVGCAQHGRGKWAFVIFGQMIRLNKEPDEITFTGLLSACSHCGFLEKGRKL 449

Query: 322 FDSMVNDYG-IAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVH 380
           F  M +    I  K  HYTCMVD+LGR GKL EA +LI++M  KP   ++  LLSACR+H
Sbjct: 450 FYYMSSGINHIDRKIQHYTCMVDILGRCGKLKEAEELIERMVVKPNEMVWLALLSACRMH 509

Query: 381 KRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVVKMPGYS 440
             +D  E AA  +FNL+  ++A  YV L+NIYA+  +W +V+++R+ MK+N ++K PG S
Sbjct: 510 SDVDRGEKAAAAIFNLDSKSSAA-YVLLSNIYASAGRWSNVSKLRVKMKKNGIMKKPGSS 568

Query: 441 WIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGYVPDLEFALHAVGEEVKEQLL 500
           W+ +    HEF SGD+  P    I+EKL+ L +++K  GY PD   ALH V +E KE++L
Sbjct: 569 WVVIRGKKHEFFSGDQ--PHCSRIYEKLEFLREKLKELGYAPDYRSALHDVEDEQKEEML 626

Query: 501 LFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYISAIEKREIIVRDTTRFHHF 560
            +HSE+LAIAFGLI    G+ + V KNLRVC DCH   K IS +  REI++RD  RFHHF
Sbjct: 627 WYHSERLAIAFGLINTVEGSAVTVMKNLRVCEDCHTVIKLISGVVGREIVLRDPIRFHHF 686

Query: 561 KDGTCSCGDYW 571
           K+GTCSCGDYW
Sbjct: 687 KNGTCSCGDYW 697

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LW63|PP251_ARATH Putative pentatricopeptide repeat-containing protein At3g23330 OS=Arabidopsis thaliana GN=PCMP-H32 PE=3 SV=1

 Score =  434 bits (1116), Expect = e-121,   Method: Compositional matrix adjust.
 Identities = 222/554 (40%), Positives = 340/554 (61%), Gaps = 14/554 (2%)

Query: 29  LFDKIPQPDVVSYNIML---SCILLNSDDVVAAFDFFQRLPIKDTASWNTMISGFVQKKN 85
           +FD++PQ    S +  +   +CI+    D V     F+ +P KD  S+NT+I+G+ Q   
Sbjct: 165 VFDEMPQRTSNSGDEDVKAETCIMPFGIDSVRRV--FEVMPRKDVVSYNTIIAGYAQSGM 222

Query: 86  MAKA----RDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAPVKS----VVAWTA 137
              A    R++     + +S + S+++  + E   + K  E+      K     V   ++
Sbjct: 223 YEDALRMVREMGTTDLKPDSFTLSSVLPIFSEYVDVIKGKEIHGYVIRKGIDSDVYIGSS 282

Query: 138 MISGYMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPN 197
           ++  Y K  +++ +E++F  +  ++ ++WN+++AGYV+N    + L+L R M+   ++P 
Sbjct: 283 LVDMYAKSARIEDSERVFSRLYCRDGISWNSLVAGYVQNGRYNEALRLFRQMVTAKVKPG 342

Query: 198 ASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFL 257
           A + SSV+  C+HL++L LGKQ+H  V +     +    + L+ MY KCG+++ A K+F 
Sbjct: 343 AVAFSSVIPACAHLATLHLGKQLHGYVLRGGFGSNIFIASALVDMYSKCGNIKAARKIFD 402

Query: 258 EIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDL 317
            +   D V+W A+I G+A HG G +A+ LF++MK +G+KP+ + FVA+L AC+H GLVD 
Sbjct: 403 RMNVLDEVSWTAIIMGHALHGHGHEAVSLFEEMKRQGVKPNQVAFVAVLTACSHVGLVDE 462

Query: 318 GIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSAC 377
              YF+SM   YG+  + +HY  + DLLGRAGKL EA + I KM  +P  +++ TLLS+C
Sbjct: 463 AWGYFNSMTKVYGLNQELEHYAAVADLLGRAGKLEEAYNFISKMCVEPTGSVWSTLLSSC 522

Query: 378 RVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVVKMP 437
            VHK L+LAE  A  +F ++  N  G YV + N+YA+  +W ++A++RL M++  + K P
Sbjct: 523 SVHKNLELAEKVAEKIFTVDSEN-MGAYVLMCNMYASNGRWKEMAKLRLRMRKKGLRKKP 581

Query: 438 GYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGYVPDLEFALHAVGEEVKE 497
             SWIE+    H F SGDR HP +  I+E LK + ++M+  GYV D    LH V EE K 
Sbjct: 582 ACSWIEMKNKTHGFVSGDRSHPSMDKINEFLKAVMEQMEKEGYVADTSGVLHDVDEEHKR 641

Query: 498 QLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYISAIEKREIIVRDTTRF 557
           +LL  HSE+LA+AFG+I    GT IRV KN+R+C DCH A K+IS I +REIIVRD +RF
Sbjct: 642 ELLFGHSERLAVAFGIINTEPGTTIRVTKNIRICTDCHVAIKFISKITEREIIVRDNSRF 701

Query: 558 HHFKDGTCSCGDYW 571
           HHF  G CSCGDYW
Sbjct: 702 HHFNRGNCSCGDYW 715

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LTV8|PP224_ARATH Pentatricopeptide repeat-containing protein At3g12770 OS=Arabidopsis thaliana GN=PCMP-H43 PE=2 SV=1

 Score =  434 bits (1115), Expect = e-120,   Method: Compositional matrix adjust.
 Identities = 227/611 (37%), Positives = 356/611 (58%), Gaps = 51/611 (8%)

Query: 9   WNSVLAGFAKQRGKLKDAQELFDKIP----QPDVVSYNIMLSCILLNSDDVVAAFDFFQR 64
           WN+++ G+++     +DA  ++  +      PD  ++  +L      S   +  F   Q 
Sbjct: 87  WNAIIRGYSRN-NHFQDALLMYSNMQLARVSPDSFTFPHLLKACSGLSHLQMGRFVHAQV 145

Query: 65  LPI---KDTASWNTMISGFVQKKNMAKARDLF--LAMPEKNSVSWSAMISGYIECGQLDK 119
             +    D    N +I+ + + + +  AR +F  L +PE+  VSW+A++S Y + G+  +
Sbjct: 146 FRLGFDADVFVQNGLIALYAKCRRLGSARTVFEGLPLPERTIVSWTAIVSAYAQNGEPME 205

Query: 120 AVELFK-----------VAPVKSVVAWT----------------------------AMIS 140
           A+E+F            VA V  + A+T                            ++ +
Sbjct: 206 ALEIFSQMRKMDVKPDWVALVSVLNAFTCLQDLKQGRSIHASVVKMGLEIEPDLLISLNT 265

Query: 141 GYMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASS 200
            Y K G+V  A+ LFD+M + NL+ WNAMI+GY +N +A + + +   MI   +RP+  S
Sbjct: 266 MYAKCGQVATAKILFDKMKSPNLILWNAMISGYAKNGYAREAIDMFHEMINKDVRPDTIS 325

Query: 201 LSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQ 260
           ++S +  C+ + SL+  + +++ V +S    D    + LI M+ KCG +E A  +F    
Sbjct: 326 ITSAISACAQVGSLEQARSMYEYVGRSDYRDDVFISSALIDMFAKCGSVEGARLVFDRTL 385

Query: 261 RKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQ 320
            +DVV W+AMI GY  HG+  +A+ L+  M+  G+ P+ +TF+ LL+ACNH+G+V  G  
Sbjct: 386 DRDVVVWSAMIVGYGLHGRAREAISLYRAMERGGVHPNDVTFLGLLMACNHSGMVREGWW 445

Query: 321 YFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVH 380
           +F+ M  D+ I  +  HY C++DLLGRAG L +A ++IK MP +P   ++G LLSAC+ H
Sbjct: 446 FFNRMA-DHKINPQQQHYACVIDLLGRAGHLDQAYEVIKCMPVQPGVTVWGALLSACKKH 504

Query: 381 KRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVVKMPGYS 440
           + ++L E+AA  LF+++P+N  G YVQL+N+YAA + WD VA +R+ MKE  + K  G S
Sbjct: 505 RHVELGEYAAQQLFSIDPSNT-GHYVQLSNLYAAARLWDRVAEVRVRMKEKGLNKDVGCS 563

Query: 441 WIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGYVPDLEFALHAVGEEVKEQLL 500
           W+EV   +  FR GD+ HP    I  +++ +E R+K  G+V + + +LH + +E  E+ L
Sbjct: 564 WVEVRGRLEAFRVGDKSHPRYEEIERQVEWIESRLKEGGFVANKDASLHDLNDEEAEETL 623

Query: 501 LFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYISAIEKREIIVRDTTRFHHF 560
             HSE++AIA+GLI  P GTP+R+ KNLR C +CH ATK IS +  REI+VRDT RFHHF
Sbjct: 624 CSHSERIAIAYGLISTPQGTPLRITKNLRACVNCHAATKLISKLVDREIVVRDTNRFHHF 683

Query: 561 KDGTCSCGDYW 571
           KDG CSCGDYW
Sbjct: 684 KDGVCSCGDYW 694

Arabidopsis thaliana (taxid: 3702)

>sp|Q9ZUW3|PP172_ARATH Pentatricopeptide repeat-containing protein At2g27610 OS=Arabidopsis thaliana GN=PCMP-H60 PE=2 SV=1

 Score =  433 bits (1113), Expect = e-120,   Method: Compositional matrix adjust.
 Identities = 220/511 (43%), Positives = 313/511 (61%), Gaps = 7/511 (1%)

Query: 67  IKDTASWNTMISGFVQKKNMAKARDLFLAMPEK----NSVSWSAMISGYIECGQLDKAVE 122
           + +  SW  MISGF+Q     +A DLF  M  K    N  ++S +++        +   +
Sbjct: 359 VGNVVSWTAMISGFLQNDGKEEAVDLFSEMKRKGVRPNEFTYSVILTALPVISPSEVHAQ 418

Query: 123 LFKVAPVKSVVAWTAMISGYMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAEDG 182
           + K    +S    TA++  Y+K GKV+ A K+F  +  K++V W+AM+AGY +    E  
Sbjct: 419 VVKTNYERSSTVGTALLDAYVKLGKVEEAAKVFSGIDDKDIVAWSAMLAGYAQTGETEAA 478

Query: 183 LKLLRMMIGLGIRPNASSLSSVLLGCSHL-SSLQLGKQVHQLVFKSPLCKDTTALTPLIS 241
           +K+   +   GI+PN  + SS+L  C+   +S+  GKQ H    KS L       + L++
Sbjct: 479 IKMFGELTKGGIKPNEFTFSSILNVCAATNASMGQGKQFHGFAIKSRLDSSLCVSSALLT 538

Query: 242 MYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSIT 301
           MY K G++E A ++F   + KD+V+WN+MISGYAQHG+  KAL +F +MK   +K D +T
Sbjct: 539 MYAKKGNIESAEEVFKRQREKDLVSWNSMISGYAQHGQAMKALDVFKEMKKRKVKMDGVT 598

Query: 302 FVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM 361
           F+ +  AC HAGLV+ G +YFD MV D  IA   +H +CMVDL  RAG+L +A+ +I+ M
Sbjct: 599 FIGVFAACTHAGLVEEGEKYFDIMVRDCKIAPTKEHNSCMVDLYSRAGQLEKAMKVIENM 658

Query: 362 PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDV 421
           P      I+ T+L+ACRVHK+ +L   AA  +  + P ++A  YV L+N+YA    W + 
Sbjct: 659 PNPAGSTIWRTILAACRVHKKTELGRLAAEKIIAMKPEDSAA-YVLLSNMYAESGDWQER 717

Query: 422 ARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGYV 481
           A++R  M E NV K PGYSWIEV    + F +GDR HP    I+ KL++L  R+K  GY 
Sbjct: 718 AKVRKLMNERNVKKEPGYSWIEVKNKTYSFLAGDRSHPLKDQIYMKLEDLSTRLKDLGYE 777

Query: 482 PDLEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYI 541
           PD  + L  + +E KE +L  HSE+LAIAFGLI  P G+P+ + KNLRVCGDCH   K I
Sbjct: 778 PDTSYVLQDIDDEHKEAVLAQHSERLAIAFGLIATPKGSPLLIIKNLRVCGDCHLVIKLI 837

Query: 542 SAIEKREIIVRDTTRFHHF-KDGTCSCGDYW 571
           + IE+REI+VRD+ RFHHF  DG CSCGD+W
Sbjct: 838 AKIEEREIVVRDSNRFHHFSSDGVCSCGDFW 868

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	571
359497567	599	PREDICTED: pentatricopeptide repeat-cont	0.996	0.949	0.746	0.0
224071204	569	predicted protein [Populus trichocarpa]	0.996	1.0	0.740	0.0
356507248	635	PREDICTED: pentatricopeptide repeat-cont	0.996	0.896	0.726	0.0
449517557	667	PREDICTED: pentatricopeptide repeat-cont	0.996	0.853	0.714	0.0
449458990	667	PREDICTED: pentatricopeptide repeat-cont	0.996	0.853	0.714	0.0
334186622	656	tetratricopeptide repeat domain-containi	0.996	0.867	0.680	0.0
297804490	853	hypothetical protein ARALYDRAFT_329829 [	0.917	0.614	0.632	0.0
222641236	662	hypothetical protein OsJ_28705 [Oryza sa	0.991	0.854	0.585	0.0
27817913	613	putative pentatricopeptide (PPR) repeat-	0.991	0.923	0.585	0.0
125547694	613	hypothetical protein OsI_15309 [Oryza sa	0.991	0.923	0.585	0.0

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

 Score =  902 bits (2330), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 426/571 (74%), Positives = 495/571 (86%), Gaps = 2/571 (0%)

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 VELFKVAPVKSVVAWTAMISGYMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAE 180
            +LF+VAPV+SVVAWTAMI+G+MKFGK++LAEK F+EMP KNLVTWNAMIAGY+EN  AE
Sbjct: 150 KQLFEVAPVRSVVAWTAMITGFMKFGKIELAEKYFEEMPMKNLVTWNAMIAGYIENCQAE 209

Query: 181 DGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLI 240
           +GLKL + M+  G RPN SSLSSVLLGCS+LS+L+LGKQVHQL+ KSP+  + TA T L+
Sbjct: 210 NGLKLFKRMVESGFRPNPSSLSSVLLGCSNLSALKLGKQVHQLICKSPVSWNITAGTSLL 269

Query: 241 SMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSI 300
           SMYCKCGDLEDA KLFL + +KDVVTWNAMISGYAQHG GEKAL LFDKM+DEGMKPD I
Sbjct: 270 SMYCKCGDLEDAWKLFLVMPQKDVVTWNAMISGYAQHGAGEKALYLFDKMRDEGMKPDWI 329

Query: 301 TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKK 360
           TFVA+L ACNHAG VDLGI+YF+SMV DYG+ AKPDHYTC+VDLLGR GKLVEAVDLIKK
Sbjct: 330 TFVAVLSACNHAGFVDLGIEYFNSMVRDYGVEAKPDHYTCVVDLLGRGGKLVEAVDLIKK 389

Query: 361 MPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDD 420
           MPFKP  AIFGTLL ACR+HK L+LAEFAA NL NL+P +AAG YVQLAN+YAAM +WD 
Sbjct: 390 MPFKPHSAIFGTLLGACRIHKNLELAEFAAKNLLNLDPESAAG-YVQLANVYAAMNRWDH 448

Query: 421 VARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGY 480
           VA +R SMK+N V+K PGYSWIEV +VVHEFRSGDR+HPEL  IHEKL ELE++M+LAGY
Sbjct: 449 VAMVRRSMKDNKVIKTPGYSWIEVKSVVHEFRSGDRIHPELAFIHEKLNELERKMRLAGY 508

Query: 481 VPDLEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKY 540
           VPDLE+ALH VGEE K+Q+LL HSEKLAIA+GLI++PLGTPIRVFKNLRVCGDCH ATKY
Sbjct: 509 VPDLEYALHDVGEEQKKQILLRHSEKLAIAYGLIRMPLGTPIRVFKNLRVCGDCHSATKY 568

Query: 541 ISAIEKREIIVRDTTRFHHFKDGTCSCGDYW 571
           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 =  877 bits (2267), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 423/571 (74%), Positives = 489/571 (85%), Gaps = 2/571 (0%)

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 VELFKVAPVKSVVAWTAMISGYMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAE 180
           ++LF+ AP KSVVAWTAMI+GYMK G++ LAE+LF++MP KNLVTWNAMIAGY+EN  AE
Sbjct: 120 LKLFEKAPFKSVVAWTAMITGYMKLGRIGLAERLFEKMPEKNLVTWNAMIAGYIENHRAE 179

Query: 181 DGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLI 240
           DG+KL R M+G GI+PN+S+LSS LLGCS LS+LQLG+QVHQLV KSPLC DTTA T LI
Sbjct: 180 DGVKLFRTMVGFGIQPNSSTLSSALLGCSELSALQLGRQVHQLVCKSPLCDDTTAGTSLI 239

Query: 241 SMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSI 300
           SMYCKCG LED  KLF+++ R+DVVTWNAMISGYAQHG+G+KAL LFD+M ++GMKPD I
Sbjct: 240 SMYCKCGVLEDGWKLFVQVPRRDVVTWNAMISGYAQHGEGKKALGLFDEMIEKGMKPDWI 299

Query: 301 TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKK 360
           TFVA+L+ACNHAG  DLG++YF SM  DYG+ AKPDHYTCMVDLLGRAGKLVEAVDLI+K
Sbjct: 300 TFVAVLMACNHAGFTDLGVKYFHSMAKDYGLVAKPDHYTCMVDLLGRAGKLVEAVDLIEK 359

Query: 361 MPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDD 420
           MPFKP  A+FGTLL ACR+HK  ++AEFA+  L NL+PA+A G YVQLAN+YAA K+WD 
Sbjct: 360 MPFKPHAAVFGTLLGACRIHKNTEMAEFASQKLLNLDPASATG-YVQLANVYAATKRWDH 418

Query: 421 VARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGY 480
           VAR+R SMK   VVK PGYSWIEV ++ H+FRSGD+ HPEL SIH KLKELEK+MKLAGY
Sbjct: 419 VARVRKSMKSCKVVKTPGYSWIEVKSMAHQFRSGDKFHPELASIHGKLKELEKKMKLAGY 478

Query: 481 VPDLEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKY 540
           VPDLEFALH VGEE KEQLLL+HSEKLAIA+GLIK+P GTPIRVFKNLRVCGDCHRA KY
Sbjct: 479 VPDLEFALHDVGEEQKEQLLLWHSEKLAIAYGLIKLPPGTPIRVFKNLRVCGDCHRAIKY 538

Query: 541 ISAIEKREIIVRDTTRFHHFKDGTCSCGDYW 571
           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 =  868 bits (2244), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 415/571 (72%), Positives = 475/571 (83%), Gaps = 2/571 (0%)

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 VELFKVAPVKSVVAWTAMISGYMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAE 180
           VE F  AP++SV+ WTAMI+GYMKFG+V+LAE+LF EM  + LVTWNAMIAGYVEN  AE
Sbjct: 186 VECFYAAPMRSVITWTAMITGYMKFGRVELAERLFQEMSMRTLVTWNAMIAGYVENGRAE 245

Query: 181 DGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLI 240
           DGL+L R M+  G++PNA SL+SVLLGCS+LS+LQLGKQVHQLV K PL  DTTA T L+
Sbjct: 246 DGLRLFRTMLETGVKPNALSLTSVLLGCSNLSALQLGKQVHQLVCKCPLSSDTTAGTSLV 305

Query: 241 SMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSI 300
           SMY KCGDL+DA +LF++I RKDVV WNAMISGYAQHG G+KALRLFD+MK EG+KPD I
Sbjct: 306 SMYSKCGDLKDAWELFIQIPRKDVVCWNAMISGYAQHGAGKKALRLFDEMKKEGLKPDWI 365

Query: 301 TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKK 360
           TFVA+LLACNHAGLVDLG+QYF++M  D+GI  KP+HY CMVDLLGRAGKL EAVDLIK 
Sbjct: 366 TFVAVLLACNHAGLVDLGVQYFNTMRRDFGIETKPEHYACMVDLLGRAGKLSEAVDLIKS 425

Query: 361 MPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDD 420
           MPFKP PAI+GTLL ACR+HK L+LAEFAA NL  L+P  A G YVQLAN+YAA  +WD 
Sbjct: 426 MPFKPHPAIYGTLLGACRIHKNLNLAEFAAKNLLELDPTIATG-YVQLANVYAAQNRWDH 484

Query: 421 VARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGY 480
           VA IR SMK+NNVVK+PGYSWIE+ +VVH FRS DR+HPEL SIHEKLK+LEK+MKLAGY
Sbjct: 485 VASIRRSMKDNNVVKIPGYSWIEINSVVHGFRSSDRLHPELASIHEKLKDLEKKMKLAGY 544

Query: 481 VPDLEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKY 540
           VPDLEF LH VGEE+KEQLLL+HSEKLAIAFGL+KVPLG PIRVFKNLRVCGDCH ATKY
Sbjct: 545 VPDLEFVLHDVGEELKEQLLLWHSEKLAIAFGLLKVPLGVPIRVFKNLRVCGDCHSATKY 604

Query: 541 ISAIEKREIIVRDTTRFHHFKDGTCSCGDYW 571
           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|449517557|ref|XP_004165812.1| PREDICTED: pentatricopeptide repeat-containing protein At4g16835, mitochondrial-like [Cucumis sativus]

 Score =  851 bits (2198), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 408/571 (71%), Positives = 473/571 (82%), Gaps = 2/571 (0%)

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 VELFKVAPVKSVVAWTAMISGYMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAE 180
            EL+K   +KSVV  TAM++GYMKFGKV+LAE++F  M  KNLVTWN+MIAGYVEN  AE
Sbjct: 218 EELYKNVGMKSVVVETAMLTGYMKFGKVELAERIFQRMAVKNLVTWNSMIAGYVENCRAE 277

Query: 181 DGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLI 240
           DGLK+ + MI   +RPN  SLSSVLLGCS+LS+L LG+Q+HQLV KSPL KDTTA T LI
Sbjct: 278 DGLKVFKTMIESRVRPNPLSLSSVLLGCSNLSALPLGRQMHQLVSKSPLSKDTTACTSLI 337

Query: 241 SMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSI 300
           SMYCKCGDL+ A KLFLE+ RKDV++WNAMISGYAQHG G KAL LFDKM++  MKPD I
Sbjct: 338 SMYCKCGDLDSAWKLFLEMPRKDVISWNAMISGYAQHGAGRKALHLFDKMRNGTMKPDWI 397

Query: 301 TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKK 360
           TFVA++LACNHAG VDLG+QYF SM  ++GI AKP HYTC++DLLGRAG+L EAV LIK+
Sbjct: 398 TFVAVILACNHAGFVDLGVQYFKSMKKEFGIEAKPVHYTCVIDLLGRAGRLDEAVSLIKE 457

Query: 361 MPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDD 420
           MPFKP  AI+GTLL ACR+HK LDLAEFAA NL NL+P +A G YVQLANIYAA  KWD 
Sbjct: 458 MPFKPHAAIYGTLLGACRIHKNLDLAEFAARNLLNLDPTSATG-YVQLANIYAATNKWDQ 516

Query: 421 VARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGY 480
           VA++R  MKE+NVVK+PGYSWIE+ +V HEFRS DR+HPEL SIH+KL EL+ +MKLAGY
Sbjct: 517 VAKVRKMMKEHNVVKIPGYSWIEIKSVTHEFRSSDRLHPELTSIHKKLNELDGKMKLAGY 576

Query: 481 VPDLEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKY 540
           VPDLEFALH V EE KE+LLL+HSEKLAIAFGL+K   GTPIRVFKNLRVCGDCHRA K+
Sbjct: 577 VPDLEFALHDVEEEHKEKLLLWHSEKLAIAFGLMKTAPGTPIRVFKNLRVCGDCHRAIKF 636

Query: 541 ISAIEKREIIVRDTTRFHHFKDGTCSCGDYW 571
           ISAIEKREIIVRDTTRFHHF++G CSCGDYW
Sbjct: 637 ISAIEKREIIVRDTTRFHHFRNGFCSCGDYW 667

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  851 bits (2198), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 408/571 (71%), Positives = 472/571 (82%), Gaps = 2/571 (0%)

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 VELFKVAPVKSVVAWTAMISGYMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAE 180
            EL+K   +KSVV  TAM++GYMKFGKV+LAE++F  M  KNLVTWN+MIAGYVEN  AE
Sbjct: 218 EELYKNVGMKSVVVETAMLTGYMKFGKVELAERIFQRMAVKNLVTWNSMIAGYVENCRAE 277

Query: 181 DGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLI 240
           DGLK+ + MI   +RPN  SLSSVLLGCS+LS+L LG+Q+HQLV KSPL KDTTA T LI
Sbjct: 278 DGLKVFKTMIESRVRPNPLSLSSVLLGCSNLSALPLGRQMHQLVSKSPLSKDTTACTSLI 337

Query: 241 SMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSI 300
           SMYCKCGDL+ A KLFLE+ RKDV+TWNAMISGYAQHG G KAL LFDKM++  MKPD I
Sbjct: 338 SMYCKCGDLDSAWKLFLEMPRKDVITWNAMISGYAQHGAGRKALHLFDKMRNGTMKPDWI 397

Query: 301 TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKK 360
           TFVA++LACNHAG VDLG+QYF SM  ++GI AKP HYTC++DLLGRAG+L EAV LIK+
Sbjct: 398 TFVAVILACNHAGFVDLGVQYFKSMKKEFGIEAKPVHYTCVIDLLGRAGRLDEAVSLIKE 457

Query: 361 MPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDD 420
           MPF P  AI+GTLL ACR+HK LDLAEFAA NL NL+P +A G YVQLANIYAA  KWD 
Sbjct: 458 MPFTPHAAIYGTLLGACRIHKNLDLAEFAARNLLNLDPTSATG-YVQLANIYAATNKWDQ 516

Query: 421 VARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGY 480
           VA++R  MKE+NVVK+PGYSWIE+ +V HEFRS DR+HPEL SIH+KL EL+ +MKLAGY
Sbjct: 517 VAKVRKMMKEHNVVKIPGYSWIEIKSVTHEFRSSDRLHPELTSIHKKLNELDGKMKLAGY 576

Query: 481 VPDLEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKY 540
           VPDLEFALH V EE KE+LLL+HSEKLAIAFGL+K   GTPIRVFKNLRVCGDCHRA K+
Sbjct: 577 VPDLEFALHDVEEEHKEKLLLWHSEKLAIAFGLMKTAPGTPIRVFKNLRVCGDCHRAIKF 636

Query: 541 ISAIEKREIIVRDTTRFHHFKDGTCSCGDYW 571
           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 =  795 bits (2054), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 389/572 (68%), Positives = 463/572 (80%), Gaps = 3/572 (0%)

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 VELFKVAPVKSVVAWTAMISGYMKFGKVDLAEKLFDEMP-TKNLVTWNAMIAGYVENSWA 179
              FKVAPV+ VVAWTAMI+GYMK  KV+LAE +F +M   KNLVTWNAMI+GYVENS  
Sbjct: 206 SHFFKVAPVRGVVAWTAMITGYMKAKKVELAEAMFKDMTVNKNLVTWNAMISGYVENSRP 265

Query: 180 EDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPL 239
           EDGLKL R M+  GIRPN+S LSS LLGCS LS+LQLG+Q+HQ+V KS LC D TALT L
Sbjct: 266 EDGLKLFRAMLEEGIRPNSSGLSSALLGCSELSALQLGRQIHQIVSKSTLCNDVTALTSL 325

Query: 240 ISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDS 299
           ISMYCKCG+L DA KLF  +++KDVV WNAMISGYAQHG  +KAL LF +M D  ++PD 
Sbjct: 326 ISMYCKCGELGDAWKLFEVMKKKDVVAWNAMISGYAQHGNADKALCLFREMIDNKIRPDW 385

Query: 300 ITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIK 359
           ITFVA+LLACNHAGLV++G+ YF+SMV DY +  +PDHYTCMVDLLGRAGKL EA+ LI+
Sbjct: 386 ITFVAVLLACNHAGLVNIGMAYFESMVRDYKVEPQPDHYTCMVDLLGRAGKLEEALKLIR 445

Query: 360 KMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWD 419
            MPF+P  A+FGTLL ACRVHK ++LAEFAA  L  LN  NAAG YVQLANIYA+  +W+
Sbjct: 446 SMPFRPHAAVFGTLLGACRVHKNVELAEFAAEKLLQLNSQNAAG-YVQLANIYASKNRWE 504

Query: 420 DVARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAG 479
           DVAR+R  MKE+NVVK+PGYSWIE+   VH FRS DR+HPEL SIH+KLKELEK+MKLAG
Sbjct: 505 DVARVRKRMKESNVVKVPGYSWIEIRNKVHHFRSSDRIHPELDSIHKKLKELEKKMKLAG 564

Query: 480 YVPDLEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATK 539
           Y P+LEFALH V EE KE+LLL+HSEKLA+AFG IK+P G+ I+VFKNLR+CGDCH+A K
Sbjct: 565 YKPELEFALHNVEEEQKEKLLLWHSEKLAVAFGCIKLPQGSQIQVFKNLRICGDCHKAIK 624

Query: 540 YISAIEKREIIVRDTTRFHHFKDGTCSCGDYW 571
           +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 =  711 bits (1836), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 344/544 (63%), Positives = 415/544 (76%), Gaps = 20/544 (3%)

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 VELFKVAPVKSVVAWTAMISGYMKFGKVDLAEKLFDEMPTK-NLVTWNAMIAGYVENSWA 179
              FK AP + VVAWTAMI+GYMK  KV+LAE +F +M  K NLVTWNAMI+GYVENS  
Sbjct: 206 AHFFKAAPFRGVVAWTAMITGYMKAKKVELAEAMFKDMTVKKNLVTWNAMISGYVENSRP 265

Query: 180 EDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPL 239
           EDGLKL R M+  GIRPN+S LSS LLGCS LS+L LG+Q+HQ+V               
Sbjct: 266 EDGLKLFRAMLEEGIRPNSSGLSSALLGCSELSALCLGRQIHQIV--------------- 310

Query: 240 ISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDS 299
             MYCKCG+L DA KLF  +++KDVV WNAMISGYAQHG  EKAL LF +M+D   KPD 
Sbjct: 311 --MYCKCGELGDAWKLFEAMKKKDVVAWNAMISGYAQHGNAEKALCLFHEMRDSKTKPDW 368

Query: 300 ITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIK 359
           ITFVA+LLACNHAGLVD+G+ YFDSMV DY +  +PDHYTCMVDLLGRAGK+ EA+ LI+
Sbjct: 369 ITFVAVLLACNHAGLVDIGMTYFDSMVRDYRVEPRPDHYTCMVDLLGRAGKVEEALKLIR 428

Query: 360 KMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWD 419
            MPF+P  A+FGTLL ACRVHK ++LAEFAA  L  L+P NAAG YVQLANIYA+   W+
Sbjct: 429 SMPFRPHAAVFGTLLGACRVHKNVELAEFAAEKLLELDPRNAAG-YVQLANIYASKNLWE 487

Query: 420 DVARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAG 479
           DVAR+R  MKE+NVVK+PGYSWIE+   +H FRS DR+HPEL SIH+KLKELE++MKLAG
Sbjct: 488 DVARVRKRMKESNVVKVPGYSWIEIRNKIHHFRSSDRIHPELDSIHKKLKELERKMKLAG 547

Query: 480 YVPDLEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATK 539
           Y P+LEFALH V EE KE+LLL+HSEKLA+AFG IK+P G+PI+VFKNLR+C    R + 
Sbjct: 548 YKPELEFALHNVEEEQKEKLLLWHSEKLAVAFGCIKLPQGSPIQVFKNLRICASGSRVSD 607

Query: 540 YISA 543
           +  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 =  701 bits (1810), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 334/570 (58%), Positives = 420/570 (73%), Gaps = 4/570 (0%)

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-VVAWTAMISGYMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAEDG 182
           F+ AP K   V WTAM+SGYM  G V  A + F+ MP +NLV+WNA++AGYV+NS A+D 
Sbjct: 214 FRNAPEKGDAVLWTAMVSGYMDIGNVVKAIEYFEAMPVRNLVSWNAVVAGYVKNSHADDA 273

Query: 183 LKLLRMMIG-LGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLIS 241
           L+L R M+    ++PNAS+LSSVLLGCS+LS+L  GKQ+HQ   K PL ++ T  T L+S
Sbjct: 274 LRLFRTMVREANVQPNASTLSSVLLGCSNLSALGFGKQIHQWCMKLPLSRNLTVGTSLVS 333

Query: 242 MYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSIT 301
           MYCKCGDL  ACKLF E+  +DVV WNAMISGYAQHG G++A+ LF++MKDEG++P+ IT
Sbjct: 334 MYCKCGDLSSACKLFGEMHTRDVVAWNAMISGYAQHGDGKEAINLFERMKDEGVEPNWIT 393

Query: 302 FVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM 361
           FVA+L AC H GL D GI+ F+ M   YGI  + DHY+CMVDLL RAGKL  AVDLI+ M
Sbjct: 394 FVAVLTACIHTGLCDFGIRCFEGMQELYGIEPRVDHYSCMVDLLCRAGKLERAVDLIRSM 453

Query: 362 PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDV 421
           PF+P P+ +GTLL+ACRV+K L+ AE AA  L   +P  +AG YVQLANIYA   +WDDV
Sbjct: 454 PFEPHPSAYGTLLAACRVYKNLEFAELAAGKLIEKDP-QSAGAYVQLANIYAGANQWDDV 512

Query: 422 ARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGYV 481
           +R+R  MK+N VVK PGYSWIE+  V+HEFRS DR+HP+L  IHEKL +L +RMK  GYV
Sbjct: 513 SRVRRWMKDNAVVKTPGYSWIEIKGVMHEFRSNDRLHPQLYLIHEKLGQLAERMKAMGYV 572

Query: 482 PDLEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYI 541
           PDL+F LH V E +K Q+L+ HSEKLAI+FGLI    G  +R+FKNLRVCGDCH A K I
Sbjct: 573 PDLDFVLHDVDETLKVQMLMRHSEKLAISFGLISTAPGMTLRIFKNLRVCGDCHNAAKVI 632

Query: 542 SAIEKREIIVRDTTRFHHFKDGTCSCGDYW 571
           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 =  700 bits (1806), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 334/570 (58%), Positives = 420/570 (73%), Gaps = 4/570 (0%)

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-VVAWTAMISGYMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAEDG 182
           F+ AP K   V WTAM+SGYM  G V  A + F+ MP +NLV+WNA++AGYV+NS A+D 
Sbjct: 165 FRNAPEKGDAVLWTAMVSGYMDIGNVVKAIEYFEAMPVRNLVSWNAVVAGYVKNSHADDA 224

Query: 183 LKLLRMMI-GLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLIS 241
           L+L R M+    ++PNAS+LSSVLLGCS+LS+L  GKQ+HQ   K PL ++ T  T L+S
Sbjct: 225 LRLFRTMVREANVQPNASTLSSVLLGCSNLSALGFGKQIHQWCMKLPLSRNLTVGTSLVS 284

Query: 242 MYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSIT 301
           MYCKCGDL  ACKLF E+  +DVV WNAMISGYAQHG G++A+ LF++MKDEG++P+ IT
Sbjct: 285 MYCKCGDLSSACKLFGEMHTRDVVAWNAMISGYAQHGDGKEAINLFERMKDEGVEPNWIT 344

Query: 302 FVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM 361
           FVA+L AC H GL D GI+ F+ M   YGI  + DHY+CMVDLL RAGKL  AVDLI+ M
Sbjct: 345 FVAVLTACIHTGLCDFGIRCFEGMQELYGIEPRVDHYSCMVDLLCRAGKLERAVDLIRSM 404

Query: 362 PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDV 421
           PF+P P+ +GTLL+ACRV+K L+ AE AA  L   +P  +AG YVQLANIYA   +WDDV
Sbjct: 405 PFEPHPSAYGTLLAACRVYKNLEFAELAAGKLIEKDP-QSAGAYVQLANIYAGANQWDDV 463

Query: 422 ARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGYV 481
           +R+R  MK+N VVK PGYSWIE+  V+HEFRS DR+HP+L  IHEKL +L +RMK  GYV
Sbjct: 464 SRVRRWMKDNAVVKTPGYSWIEIKGVMHEFRSNDRLHPQLYLIHEKLGQLAERMKAMGYV 523

Query: 482 PDLEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYI 541
           PDL+F LH V E +K Q+L+ HSEKLAI+FGLI    G  +R+FKNLRVCGDCH A K I
Sbjct: 524 PDLDFVLHDVDETLKVQMLMRHSEKLAISFGLISTAPGMTLRIFKNLRVCGDCHNAAKVI 583

Query: 542 SAIEKREIIVRDTTRFHHFKDGTCSCGDYW 571
           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 =  694 bits (1791), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 334/570 (58%), Positives = 417/570 (73%), Gaps = 4/570 (0%)

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-VVAWTAMISGYMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAEDG 182
           F+ AP K   V WTAM+SGYM  G V  A K F+ MP +NLV+WNA++AGYV+NS A+D 
Sbjct: 165 FRNAPEKEDAVLWTAMVSGYMDIGNVVKAIKYFEAMPVRNLVSWNAVVAGYVKNSHADDA 224

Query: 183 LKLLRMMI-GLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLIS 241
           L+L R M+    ++PNAS+LSSVLLGCS+LS+L  GKQ+HQ   K  L ++ T  T L+S
Sbjct: 225 LRLFRTMVREANVQPNASTLSSVLLGCSNLSALGFGKQIHQWCMKLLLSRNLTVGTSLVS 284

Query: 242 MYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSIT 301
           MYCKCGDL  AC LF E+  +DVV WNAMISGYAQHG G++A+ LF++MKDEG++P+ IT
Sbjct: 285 MYCKCGDLSSACILFGEMHTRDVVAWNAMISGYAQHGDGKEAINLFERMKDEGVEPNWIT 344

Query: 302 FVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM 361
           FV +L AC H GL D GIQ F+ M   YGI  + DHY+CMVDLL RAGKL  AVD I+ M
Sbjct: 345 FVVVLTACIHTGLCDFGIQCFEGMQELYGIEPRVDHYSCMVDLLCRAGKLERAVDFIRSM 404

Query: 362 PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDV 421
           PF+P P+ +GTLL+ACRV+K L+ AE AA  L   +P  +AG YVQLANIYA   +WDDV
Sbjct: 405 PFEPHPSAYGTLLAACRVYKNLEFAELAAGKLIEKDP-QSAGAYVQLANIYAVANQWDDV 463

Query: 422 ARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGYV 481
           +R+R  MK+N VVK PGYSWIE+  V+HEFRS DR+HP+L  IHEKL +L +RMK  GYV
Sbjct: 464 SRVRRWMKDNTVVKTPGYSWIEIKGVLHEFRSNDRLHPQLYLIHEKLGQLAERMKEMGYV 523

Query: 482 PDLEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYI 541
           PDL+F LH V E +K Q+L+ HSEKLAIAFGLI    G  +R+FKNLRVCGDCH A K I
Sbjct: 524 PDLDFVLHDVDETMKVQMLMRHSEKLAIAFGLISTAHGMTLRIFKNLRVCGDCHNAAKVI 583

Query: 542 SAIEKREIIVRDTTRFHHFKDGTCSCGDYW 571
           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	571
TAIR|locus:2140235	781	AT4G02750 [Arabidopsis thalian	0.984	0.719	0.472	1.1e-142
TAIR|locus:2027554	704	AT1G56690 [Arabidopsis thalian	0.994	0.806	0.431	1.3e-125
TAIR|locus:2012295	705	AT1G09410 [Arabidopsis thalian	0.994	0.805	0.427	3e-124
TAIR|locus:2103483	890	OTP84 "ORGANELLE TRANSCRIPT PR	0.749	0.480	0.460	1.2e-117
TAIR|locus:2055919	786	AT2G22070 "AT2G22070" [Arabido	0.992	0.721	0.414	6.6e-113
TAIR|locus:2205200	741	OTP82 "AT1G08070" [Arabidopsis	0.963	0.742	0.406	1.4e-112
TAIR|locus:2125899	990	AT4G33170 [Arabidopsis thalian	0.879	0.507	0.393	1.9e-108
TAIR|locus:2154855	620	AT5G66520 "AT5G66520" [Arabido	0.945	0.870	0.411	1.7e-107
TAIR|locus:2038603	868	AT2G27610 "AT2G27610" [Arabido	0.882	0.580	0.420	3.5e-107
TAIR|locus:2205425	743	AT1G68930 "AT1G68930" [Arabido	0.957	0.736	0.401	4e-106

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

 Score = 1395 (496.1 bits), Expect = 1.1e-142, P = 1.1e-142
 Identities = 267/565 (47%), Positives = 370/565 (65%)

Query:     7 VNWNSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQRLP 66
             V+WN +L GF K++ K+ +A++ FD +   DVVS+N +++     S  +  A   F   P
Sbjct:   220 VSWNCLLGGFVKKK-KIVEARQFFDSMNVRDVVSWNTIITGYA-QSGKIDEARQLFDESP 277

Query:    67 IKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKV 126
             ++D  +W  M+SG++Q + + +AR+LF  MPE+N VSW+AM++GY++  +++ A ELF V
Sbjct:   278 VQDVFTWTAMVSGYIQNRMVEEARELFDKMPERNEVSWNAMLAGYVQGERMEMAKELFDV 337

Query:   127 APVKSVVAWTAMISGYMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAEDGLKLL 186
              P ++V  W  MI+GY + GK+  A+ LFD+MP ++ V+W AMIAGY ++  + + L+L 
Sbjct:   338 MPCRNVSTWNTMITGYAQCGKISEAKNLFDKMPKRDPVSWAAMIAGYSQSGHSFEALRLF 397

Query:   187 RMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKC 246
               M   G R N SS SS L  C+ + +L+LGKQ+H  + K            L+ MYCKC
Sbjct:   398 VQMEREGGRLNRSSFSSALSTCADVVALELGKQLHGRLVKGGYETGCFVGNALLLMYCKC 457

Query:   247 GDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALL 306
             G +E+A  LF E+  KD+V+WN MI+GY++HG GE ALR F+ MK EG+KPD  T VA+L
Sbjct:   458 GSIEEANDLFKEMAGKDIVSWNTMIAGYSRHGFGEVALRFFESMKREGLKPDDATMVAVL 517

Query:   307 LACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQ 366
              AC+H GLVD G QYF +M  DYG+     HY CMVDLLGRAG L +A +L+K MPF+P 
Sbjct:   518 SACSHTGLVDKGRQYFYTMTQDYGVMPNSQHYACMVDLLGRAGLLEDAHNLMKNMPFEPD 577

Query:   367 PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRL 426
              AI+GTLL A RVH   +LAE AA  +F + P N+ G YV L+N+YA+  +W DV ++R+
Sbjct:   578 AAIWGTLLGASRVHGNTELAETAADKIFAMEPENS-GMYVLLSNLYASSGRWGDVGKLRV 636

Query:   427 SMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHXXXXXXXXXXXXAGYVPDLEF 486
              M++  V K+PGYSWIE+    H F  GD  HPE   I             AGYV     
Sbjct:   637 RMRDKGVKKVPGYSWIEIQNKTHTFSVGDEFHPEKDEIFAFLEELDLRMKKAGYVSKTSV 696

Query:   487 ALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYISAIEK 546
              LH V EE KE+++ +HSE+LA+A+G+++V  G PIRV KNLRVC DCH A KY++ I  
Sbjct:   697 VLHDVEEEEKERMVRYHSERLAVAYGIMRVSSGRPIRVIKNLRVCEDCHNAIKYMARITG 756

Query:   547 REIIVRDTTRFHHFKDGTCSCGDYW 571
             R II+RD  RFHHFKDG+CSCGDYW
Sbjct:   757 RLIILRDNNRFHHFKDGSCSCGDYW 781

GO:0005739 "mitochondrion" evidence=ISM

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

 Score = 1234 (439.4 bits), Expect = 1.3e-125, P = 1.3e-125
 Identities = 247/572 (43%), Positives = 347/572 (60%)

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 VELFKVAPVKSVVAWTAMISGYMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAE 180
              E F+V P+K V+A  AMI G+ + G++  A ++FD M  ++  TW  MI  Y    +  
Sbjct:   254 EEFFEVMPMKPVIACNAMIVGFGEVGEISKARRVFDLMEDRDNATWRGMIKAYERKGFEL 313

Query:   181 DGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLI 240
             + L L   M   G+RP+  SL S+L  C+ L+SLQ G+QVH  + +     D    + L+
Sbjct:   314 EALDLFAQMQKQGVRPSFPSLISILSVCATLASLQYGRQVHAHLVRCQFDDDVYVASVLM 373

Query:   241 SMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSI 300
             +MY KCG+L  A  +F     KD++ WN++ISGYA HG GE+AL++F +M   G  P+ +
Sbjct:   374 TMYVKCGELVKAKLVFDRFSSKDIIMWNSIISGYASHGLGEEALKIFHEMPSSGTMPNKV 433

Query:   301 TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKK 360
             T +A+L AC++AG ++ G++ F+SM + + +    +HY+C VD+LGRAG++ +A++LI+ 
Sbjct:   434 TLIAILTACSYAGKLEEGLEIFESMESKFCVTPTVEHYSCTVDMLGRAGQVDKAMELIES 493

Query:   361 MPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDD 420
             M  KP   ++G LL AC+ H RLDLAE AA  LF   P NA G YV L++I A+  KW D
Sbjct:   494 MTIKPDATVWGALLGACKTHSRLDLAEVAAKKLFENEPDNA-GTYVLLSSINASRSKWGD 552

Query:   421 VARIRLSMKENNVVKMPGYSWIEVGTVVHEF-RSGDRVHPELVSIHXXXXXXXXXXXXAG 479
             VA +R +M+ NNV K PG SWIEVG  VH F R G + HPE   I             AG
Sbjct:   553 VAVVRKNMRTNNVSKFPGCSWIEVGKKVHMFTRGGIKNHPEQAMILMMLEKTDGLLREAG 612

Query:   480 YVPDLEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATK 539
             Y PD    LH V EE K   L  HSE+LA+A+GL+K+P G PIRV KNLRVCGDCH A K
Sbjct:   613 YSPDCSHVLHDVDEEEKVDSLSRHSERLAVAYGLLKLPEGVPIRVMKNLRVCGDCHAAIK 672

Query:   540 YISAIEKREIIVRDTTRFHHFKDGTCSCGDYW 571
              IS + +REII+RD  RFHHF +G CSC DYW
Sbjct:   673 LISKVTEREIILRDANRFHHFNNGECSCRDYW 704

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 1221 (434.9 bits), Expect = 3.0e-124, P = 3.0e-124
 Identities = 245/573 (42%), Positives = 352/573 (61%)

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 VELFKVAPVKSVVAWTAMISGYMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAE 180
              ELF+V PVK V+A  AMISG  + G++  A ++FD M  +N  +W  +I  +  N +  
Sbjct:   254 EELFEVMPVKPVIACNAMISGLGQKGEIAKARRVFDSMKERNDASWQTVIKIHERNGFEL 313

Query:   181 DGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLI 240
             + L L  +M   G+RP   +L S+L  C+ L+SL  GKQVH  + +     D    + L+
Sbjct:   314 EALDLFILMQKQGVRPTFPTLISILSVCASLASLHHGKQVHAQLVRCQFDVDVYVASVLM 373

Query:   241 SMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGM-KPDS 299
             +MY KCG+L  +  +F     KD++ WN++ISGYA HG GE+AL++F +M   G  KP+ 
Sbjct:   374 TMYIKCGELVKSKLIFDRFPSKDIIMWNSIISGYASHGLGEEALKVFCEMPLSGSTKPNE 433

Query:   300 ITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIK 359
             +TFVA L AC++AG+V+ G++ ++SM + +G+     HY CMVD+LGRAG+  EA+++I 
Sbjct:   434 VTFVATLSACSYAGMVEEGLKIYESMESVFGVKPITAHYACMVDMLGRAGRFNEAMEMID 493

Query:   360 KMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWD 419
              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:   420 DVARIRLSMKENNVVKMPGYSWIEVGTVVHEF-RSGDRVHPELVSIHXXXXXXXXXXXXA 478
             DVA +R  MK   V K PG SW EV   VH F R G   HPE  SI             A
Sbjct:   553 DVAELRKLMKTRLVRKSPGCSWTEVENKVHAFTRGGINSHPEQESILKILDELDGLLREA 612

Query:   479 GYVPDLEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRAT 538
             GY PD  +ALH V EE K   L +HSE+LA+A+ L+K+  G PIRV KNLRVC DCH A 
Sbjct:   613 GYNPDCSYALHDVDEEEKVNSLKYHSERLAVAYALLKLSEGIPIRVMKNLRVCSDCHTAI 672

Query:   539 KYISAIEKREIIVRDTTRFHHFKDGTCSCGDYW 571
             K IS +++REII+RD  RFHHF++G CSC DYW
Sbjct:   673 KIISKVKEREIILRDANRFHHFRNGECSCKDYW 705

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 1014 (362.0 bits), Expect = 1.2e-117, Sum P(2) = 1.2e-117
 Identities = 204/443 (46%), Positives = 273/443 (61%)

Query:   142 YMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAEDGLKLLRMMIGL--------- 192
             Y + GK+D+A ++F +M  ++LVTWN MI GYV +   ED L LL  M  L         
Sbjct:   450 YSRLGKIDIAMRIFGKMEDRDLVTWNTMITGYVFSEHHEDALLLLHKMQNLERKVSKGAS 509

Query:   193 --GIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLE 250
                ++PN+ +L ++L  C+ LS+L  GK++H    K+ L  D    + L+ MY KCG L+
Sbjct:   510 RVSLKPNSITLMTILPSCAALSALAKGKEIHAYAIKNNLATDVAVGSALVDMYAKCGCLQ 569

Query:   251 DACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACN 310
              + K+F +I +K+V+TWN +I  Y  HG G++A+ L   M  +G+KP+ +TF+++  AC+
Sbjct:   570 MSRKVFDQIPQKNVITWNVIIMAYGMHGNGQEAIDLLRMMMVQGVKPNEVTFISVFAACS 629

Query:   311 HAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMP--FKPQPA 368
             H+G+VD G++ F  M  DYG+    DHY C+VDLLGRAG++ EA  L+  MP  F    A
Sbjct:   630 HSGMVDEGLRIFYVMKPDYGVEPSSDHYACVVDLLGRAGRIKEAYQLMNMMPRDFNKAGA 689

Query:   369 IFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSM 428
              + +LL A R+H  L++ E AA NL  L P N A  YV LANIY++   WD    +R +M
Sbjct:   690 -WSSLLGASRIHNNLEIGEIAAQNLIQLEP-NVASHYVLLANIYSSAGLWDKATEVRRNM 747

Query:   429 KENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHXXXXXXXXXXXXAGYVPDLEFAL 488
             KE  V K PG SWIE G  VH+F +GD  HP+   +              GYVPD    L
Sbjct:   748 KEQGVRKEPGCSWIEHGDEVHKFVAGDSSHPQSEKLSGYLETLWERMRKEGYVPDTSCVL 807

Query:   489 HAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYISAIEKRE 548
             H V E+ KE LL  HSEKLAIAFG++    GT IRV KNLRVC DCH ATK+IS I  RE
Sbjct:   808 HNVEEDEKEILLCGHSEKLAIAFGILNTSPGTIIRVAKNLRVCNDCHLATKFISKIVDRE 867

Query:   549 IIVRDTTRFHHFKDGTCSCGDYW 571
             II+RD  RFH FK+GTCSCGDYW
Sbjct:   868 IILRDVRRFHRFKNGTCSCGDYW 890

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0031425 "chloroplast RNA processing" evidence=IMP

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

 Score = 1114 (397.2 bits), Expect = 6.6e-113, P = 6.6e-113
 Identities = 242/584 (41%), Positives = 344/584 (58%)

Query:     1 MNVKTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFD 60
             M V+   +WN+++A    Q G++  A   F+++ + D+V++N M+S       D+  A D
Sbjct:   207 MVVRDISSWNAMIA-LHMQVGQMDLAMAQFEQMAERDIVTWNSMISGFNQRGYDL-RALD 264

Query:    61 FFQRLPIKDTA------SWNTMISGFVQKKNMAKARDLFLAMP----EKNSVSWSAMISG 110
              F ++ ++D+       +  +++S     + +   + +   +     + + +  +A+IS 
Sbjct:   265 IFSKM-LRDSLLSPDRFTLASVLSACANLEKLCIGKQIHSHIVTTGFDISGIVLNALISM 323

Query:   111 YIECGQLDKAVELFKVAPVKS--VVAWTAMISGYMKFGKVDLAEKLFDEMPTKNLVTWNA 168
             Y  CG ++ A  L +    K   +  +TA++ GY+K G ++ A+ +F  +  +++V W A
Sbjct:   324 YSRCGGVETARRLIEQRGTKDLKIEGFTALLDGYIKLGDMNQAKNIFVSLKDRDVVAWTA 383

Query:   169 MIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSP 228
             MI GY ++    + + L R M+G G RPN+ +L+++L   S L+SL  GKQ+H    KS 
Sbjct:   384 MIVGYEQHGSYGEAINLFRSMVGGGQRPNSYTLAAMLSVASSLASLSHGKQIHGSAVKSG 443

Query:   229 LCKDTTALTPLISMYCKCGDLEDACKLFLEIQ-RKDVVTWNAMISGYAQHGKGEKALRLF 287
                  +    LI+MY K G++  A + F  I+  +D V+W +MI   AQHG  E+AL LF
Sbjct:   444 EIYSVSVSNALITMYAKAGNITSASRAFDLIRCERDTVSWTSMIIALAQHGHAEEALELF 503

Query:   288 DKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGR 347
             + M  EG++PD IT+V +  AC HAGLV+ G QYFD M +   I     HY CMVDL GR
Sbjct:   504 ETMLMEGLRPDHITYVGVFSACTHAGLVNQGRQYFDMMKDVDKIIPTLSHYACMVDLFGR 563

Query:   348 AGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQ 407
             AG L EA + I+KMP +P    +G+LLSACRVHK +DL + AA  L  L P N+ G Y  
Sbjct:   564 AGLLQEAQEFIEKMPIEPDVVTWGSLLSACRVHKNIDLGKVAAERLLLLEPENS-GAYSA 622

Query:   408 LANIYAAMKKWDDVARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHXX 467
             LAN+Y+A  KW++ A+IR SMK+  V K  G+SWIEV   VH F   D  HPE   I+  
Sbjct:   623 LANLYSACGKWEEAAKIRKSMKDGRVKKEQGFSWIEVKHKVHVFGVEDGTHPEKNEIYMT 682

Query:   468 XXXXXXXXXXAGYVPDLEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKN 527
                        GYVPD    LH + EEVKEQ+L  HSEKLAIAFGLI  P  T +R+ KN
Sbjct:   683 MKKIWDEIKKMGYVPDTASVLHDLEEEVKEQILRHHSEKLAIAFGLISTPDKTTLRIMKN 742

Query:   528 LRVCGDCHRATKYISAIEKREIIVRDTTRFHHFKDGTCSCGDYW 571
             LRVC DCH A K+IS +  REIIVRDTTRFHHFKDG CSC DYW
Sbjct:   743 LRVCNDCHTAIKFISKLVGREIIVRDTTRFHHFKDGFCSCRDYW 786

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 1111 (396.2 bits), Expect = 1.4e-112, P = 1.4e-112
 Identities = 229/564 (40%), Positives = 333/564 (59%)

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

Query:    79 GFVQKKNMAKARDLFLAMPEKN-SVSWSAMISGYIECGQLDKAVELFKVAPV-------- 129
             G+ +  N  +A +LF  M + N     S M++    C Q   ++EL +   +        
Sbjct:   240 GYAETGNYKEALELFKDMMKTNVRPDESTMVTVVSACAQ-SGSIELGRQVHLWIDDHGFG 298

Query:   130 KSVVAWTAMISGYMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAEDGLKLLRMM 189
              ++    A+I  Y K G+++ A  LF+ +P K++++WN +I GY   +  ++ L L + M
Sbjct:   299 SNLKIVNALIDLYSKCGELETACGLFERLPYKDVISWNTLIGGYTHMNLYKEALLLFQEM 358

Query:   190 IGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFK--SPLCKDTTALTPLISMYCKCG 247
             +  G  PN  ++ S+L  C+HL ++ +G+ +H  + K    +   ++  T LI MY KCG
Sbjct:   359 LRSGETPNDVTMLSILPACAHLGAIDIGRWIHVYIDKRLKGVTNASSLRTSLIDMYAKCG 418

Query:   248 DLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLL 307
             D+E A ++F  I  K + +WNAMI G+A HG+ + +  LF +M+  G++PD ITFV LL 
Sbjct:   419 DIEAAHQVFNSILHKSLSSWNAMIFGFAMHGRADASFDLFSRMRKIGIQPDDITFVGLLS 478

Query:   308 ACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQP 367
             AC+H+G++DLG   F +M  DY +  K +HY CM+DLLG +G   EA ++I  M  +P  
Sbjct:   479 ACSHSGMLDLGRHIFRTMTQDYKMTPKLEHYGCMIDLLGHSGLFKEAEEMINMMEMEPDG 538

Query:   368 AIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLS 427
              I+ +LL AC++H  ++L E  A NL  + P N  G YV L+NIYA+  +W++VA+ R  
Sbjct:   539 VIWCSLLKACKMHGNVELGESFAENLIKIEPENP-GSYVLLSNIYASAGRWNEVAKTRAL 597

Query:   428 MKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHXXXXXXXXXXXXAGYVPDLEFA 487
             + +  + K+PG S IE+ +VVHEF  GD+ HP    I+            AG+VPD    
Sbjct:   598 LNDKGMKKVPGCSSIEIDSVVHEFIIGDKFHPRNREIYGMLEEMEVLLEKAGFVPDTSEV 657

Query:   488 LHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYISAIEKR 547
             L  + EE KE  L  HSEKLAIAFGLI    GT + + KNLRVC +CH ATK IS I KR
Sbjct:   658 LQEMEEEWKEGALRHHSEKLAIAFGLISTKPGTKLTIVKNLRVCRNCHEATKLISKIYKR 717

Query:   548 EIIVRDTTRFHHFKDGTCSCGDYW 571
             EII RD TRFHHF+DG CSC DYW
Sbjct:   718 EIIARDRTRFHHFRDGVCSCNDYW 741

GO:0003674 "molecular_function" evidence=ND

GO:0009507 "chloroplast" evidence=ISM

GO:0031425 "chloroplast RNA processing" evidence=IMP

TAIR|locus:2125899 AT4G33170 [Arabidopsis thaliana (taxid:3702)]

 Score = 997 (356.0 bits), Expect = 1.9e-108, Sum P(2) = 1.9e-108
 Identities = 201/511 (39%), Positives = 296/511 (57%)

Query:    69 DTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIE-CGQL-----DKAVE 122
             D  +WN M++G+ Q  +  K   LF  M ++   S    ++   + CG L      K V 
Sbjct:   481 DLVAWNAMMAGYTQSHDGHKTLKLFALMHKQGERSDDFTLATVFKTCGFLFAINQGKQVH 540

Query:   123 LFKVAPVKSVVAWTA--MISGYMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAE 180
              + +     +  W +  ++  Y+K G +  A+  FD +P  + V W  MI+G +EN   E
Sbjct:   541 AYAIKSGYDLDLWVSSGILDMYVKCGDMSAAQFAFDSIPVPDDVAWTTMISGCIENGEEE 600

Query:   181 DGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLI 240
                 +   M  +G+ P+  +++++    S L++L+ G+Q+H    K     D    T L+
Sbjct:   601 RAFHVFSQMRLMGVLPDEFTIATLAKASSCLTALEQGRQIHANALKLNCTNDPFVGTSLV 660

Query:   241 SMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSI 300
              MY KCG ++DA  LF  I+  ++  WNAM+ G AQHG+G++ L+LF +MK  G+KPD +
Sbjct:   661 DMYAKCGSIDDAYCLFKRIEMMNITAWNAMLVGLAQHGEGKETLQLFKQMKSLGIKPDKV 720

Query:   301 TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKK 360
             TF+ +L AC+H+GLV    ++  SM  DYGI  + +HY+C+ D LGRAG + +A +LI+ 
Sbjct:   721 TFIGVLSACSHSGLVSEAYKHMRSMHGDYGIKPEIEHYSCLADALGRAGLVKQAENLIES 780

Query:   361 MPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDD 420
             M  +   +++ TLL+ACRV    +  +  A  L  L P +++  YV L+N+YAA  KWD+
Sbjct:   781 MSMEASASMYRTLLAACRVQGDTETGKRVATKLLELEPLDSSA-YVLLSNMYAAASKWDE 839

Query:   421 VARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHXXXXXXXXXXXXAGY 480
             +   R  MK + V K PG+SWIEV   +H F   DR + +   I+             GY
Sbjct:   840 MKLARTMMKGHKVKKDPGFSWIEVKNKIHIFVVDDRSNRQTELIYRKVKDMIRDIKQEGY 899

Query:   481 VPDLEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKY 540
             VP+ +F L  V EE KE+ L +HSEKLA+AFGL+  P  TPIRV KNLRVCGDCH A KY
Sbjct:   900 VPETDFTLVDVEEEEKERALYYHSEKLAVAFGLLSTPPSTPIRVIKNLRVCGDCHNAMKY 959

Query:   541 ISAIEKREIIVRDTTRFHHFKDGTCSCGDYW 571
             I+ +  REI++RD  RFH FKDG CSCGDYW
Sbjct:   960 IAKVYNREIVLRDANRFHRFKDGICSCGDYW 990

GO:0005739 "mitochondrion" evidence=ISM

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

 Score = 1063 (379.3 bits), Expect = 1.7e-107, P = 1.7e-107
 Identities = 230/559 (41%), Positives = 326/559 (58%)

Query:    26 AQELFDKIPQPDVVSYNIML---SCILLNSDDVVAAFDFFQRLPIKDTASWNTMISGFVQ 82
             AQ +FD   +PD   +N+M+   SC    SD+   +   +QR+ +  +A  N      + 
Sbjct:    68 AQIVFDGFDRPDTFLWNLMIRGFSC----SDEPERSLLLYQRM-LCSSAPHNAYTFPSLL 122

Query:    83 K--KNMAKARDL------FLAMPEKNSV-SWSAMISGYIECGQLDKAVELFKVAPVKSVV 133
             K   N++   +          +  +N V + +++I+ Y   G    A  LF   P    V
Sbjct:   123 KACSNLSAFEETTQIHAQITKLGYENDVYAVNSLINSYAVTGNFKLAHLLFDRIPEPDDV 182

Query:   134 AWTAMISGYMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLG 193
             +W ++I GY+K GK+D+A  LF +M  KN ++W  MI+GYV+    ++ L+L   M    
Sbjct:   183 SWNSVIKGYVKAGKMDIALTLFRKMAEKNAISWTTMISGYVQADMNKEALQLFHEMQNSD 242

Query:   194 IRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDAC 253
             + P+  SL++ L  C+ L +L+ GK +H  + K+ +  D+     LI MY KCG++E+A 
Sbjct:   243 VEPDNVSLANALSACAQLGALEQGKWIHSYLNKTRIRMDSVLGCVLIDMYAKCGEMEEAL 302

Query:   254 KLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAG 313
             ++F  I++K V  W A+ISGYA HG G +A+  F +M+  G+KP+ ITF A+L AC++ G
Sbjct:   303 EVFKNIKKKSVQAWTALISGYAYHGHGREAISKFMEMQKMGIKPNVITFTAVLTACSYTG 362

Query:   314 LVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTL 373
             LV+ G   F SM  DY +    +HY C+VDLLGRAG L EA   I++MP KP   I+G L
Sbjct:   363 LVEEGKLIFYSMERDYNLKPTIEHYGCIVDLLGRAGLLDEAKRFIQEMPLKPNAVIWGAL 422

Query:   374 LSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNV 433
             L ACR+HK ++L E     L  ++P +  G YV  ANI+A  KKWD  A  R  MKE  V
Sbjct:   423 LKACRIHKNIELGEEIGEILIAIDPYHG-GRYVHKANIHAMDKKWDKAAETRRLMKEQGV 481

Query:   434 VKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHXXXXXXXXXXXXAGYVPDLE-FALHAVG 492
              K+PG S I +    HEF +GDR HPE+  I              GYVP+LE   L  V 
Sbjct:   482 AKVPGCSTISLEGTTHEFLAGDRSHPEIEKIQSKWRIMRRKLEENGYVPELEEMLLDLVD 541

Query:   493 EEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYISAIEKREIIVR 552
             ++ +E ++  HSEKLAI +GLIK   GT IR+ KNLRVC DCH+ TK IS I KR+I++R
Sbjct:   542 DDEREAIVHQHSEKLAITYGLIKTKPGTIIRIMKNLRVCKDCHKVTKLISKIYKRDIVMR 601

Query:   553 DTTRFHHFKDGTCSCGDYW 571
             D TRFHHF+DG CSCGDYW
Sbjct:   602 DRTRFHHFRDGKCSCGDYW 620

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0016556 "mRNA modification" evidence=RCA

TAIR|locus:2038603 AT2G27610 "AT2G27610" [Arabidopsis thaliana (taxid:3702)]

 Score = 1060 (378.2 bits), Expect = 3.5e-107, P = 3.5e-107
 Identities = 215/511 (42%), Positives = 305/511 (59%)

Query:    67 IKDTASWNTMISGFVQKKNMAKARDLFLAMPEK----NSVSWSAMISGYIECGQLDKAVE 122
             + +  SW  MISGF+Q     +A DLF  M  K    N  ++S +++        +   +
Sbjct:   359 VGNVVSWTAMISGFLQNDGKEEAVDLFSEMKRKGVRPNEFTYSVILTALPVISPSEVHAQ 418

Query:   123 LFKVAPVKSVVAWTAMISGYMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAEDG 182
             + K    +S    TA++  Y+K GKV+ A K+F  +  K++V W+AM+AGY +    E  
Sbjct:   419 VVKTNYERSSTVGTALLDAYVKLGKVEEAAKVFSGIDDKDIVAWSAMLAGYAQTGETEAA 478

Query:   183 LKLLRMMIGLGIRPNASSLSSVLLGCSHLS-SLQLGKQVHQLVFKSPLCKDTTALTPLIS 241
             +K+   +   GI+PN  + SS+L  C+  + S+  GKQ H    KS L       + L++
Sbjct:   479 IKMFGELTKGGIKPNEFTFSSILNVCAATNASMGQGKQFHGFAIKSRLDSSLCVSSALLT 538

Query:   242 MYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSIT 301
             MY K G++E A ++F   + KD+V+WN+MISGYAQHG+  KAL +F +MK   +K D +T
Sbjct:   539 MYAKKGNIESAEEVFKRQREKDLVSWNSMISGYAQHGQAMKALDVFKEMKKRKVKMDGVT 598

Query:   302 FVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM 361
             F+ +  AC HAGLV+ G +YFD MV D  IA   +H +CMVDL  RAG+L +A+ +I+ M
Sbjct:   599 FIGVFAACTHAGLVEEGEKYFDIMVRDCKIAPTKEHNSCMVDLYSRAGQLEKAMKVIENM 658

Query:   362 PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDV 421
             P      I+ T+L+ACRVHK+ +L   AA  +  + P ++A  YV L+N+YA    W + 
Sbjct:   659 PNPAGSTIWRTILAACRVHKKTELGRLAAEKIIAMKPEDSAA-YVLLSNMYAESGDWQER 717

Query:   422 ARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHXXXXXXXXXXXXAGYV 481
             A++R  M E NV K PGYSWIEV    + F +GDR HP    I+             GY 
Sbjct:   718 AKVRKLMNERNVKKEPGYSWIEVKNKTYSFLAGDRSHPLKDQIYMKLEDLSTRLKDLGYE 777

Query:   482 PDLEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYI 541
             PD  + L  + +E KE +L  HSE+LAIAFGLI  P G+P+ + KNLRVCGDCH   K I
Sbjct:   778 PDTSYVLQDIDDEHKEAVLAQHSERLAIAFGLIATPKGSPLLIIKNLRVCGDCHLVIKLI 837

Query:   542 SAIEKREIIVRDTTRFHHFK-DGTCSCGDYW 571
             + IE+REI+VRD+ RFHHF  DG CSCGD+W
Sbjct:   838 AKIEEREIVVRDSNRFHHFSSDGVCSCGDFW 868

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2205425 AT1G68930 "AT1G68930" [Arabidopsis thaliana (taxid:3702)]

 Score = 1050 (374.7 bits), Expect = 4.0e-106, P = 4.0e-106
 Identities = 225/560 (40%), Positives = 320/560 (57%)

Query:    21 GKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQRLPIKDTASWNTMISGF 80
             G + DA+++F  +   + V YN ++   LL    +  A   F+ +  KD+ SW  MI G 
Sbjct:   188 GCISDAKKVFYGLDDRNTVMYNSLMGG-LLACGMIEDALQLFRGME-KDSVSWAAMIKGL 245

Query:    81 VQKKNMAKARDLFLAMPEKNSVSWSAMISGYI--ECGQLDKAVE-------LFKVAPVKS 131
              Q     +A + F  M +   +       G +   CG L    E       + +      
Sbjct:   246 AQNGLAKEAIECFREM-KVQGLKMDQYPFGSVLPACGGLGAINEGKQIHACIIRTNFQDH 304

Query:   132 VVAWTAMISGYMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAEDGLKLLRMMIG 191
             +   +A+I  Y K   +  A+ +FD M  KN+V+W AM+ GY +   AE+ +K+   M  
Sbjct:   305 IYVGSALIDMYCKCKCLHYAKTVFDRMKQKNVVSWTAMVVGYGQTGRAEEAVKIFLDMQR 364

Query:   192 LGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLED 251
              GI P+  +L   +  C+++SSL+ G Q H     S L    T    L+++Y KCGD++D
Sbjct:   365 SGIDPDHYTLGQAISACANVSSLEEGSQFHGKAITSGLIHYVTVSNSLVTLYGKCGDIDD 424

Query:   252 ACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNH 311
             + +LF E+  +D V+W AM+S YAQ G+  + ++LFDKM   G+KPD +T   ++ AC+ 
Sbjct:   425 STRLFNEMNVRDAVSWTAMVSAYAQFGRAVETIQLFDKMVQHGLKPDGVTLTGVISACSR 484

Query:   312 AGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFG 371
             AGLV+ G +YF  M ++YGI     HY+CM+DL  R+G+L EA+  I  MPF P    + 
Sbjct:   485 AGLVEKGQRYFKLMTSEYGIVPSIGHYSCMIDLFSRSGRLEEAMRFINGMPFPPDAIGWT 544

Query:   372 TLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKEN 431
             TLLSACR    L++ ++AA +L  L+P + AG Y  L++IYA+  KWD VA++R  M+E 
Sbjct:   545 TLLSACRNKGNLEIGKWAAESLIELDPHHPAG-YTLLSSIYASKGKWDSVAQLRRGMREK 603

Query:   432 NVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHXXXXXXXXXXXXAGYVPDLEFALHAV 491
             NV K PG SWI+    +H F + D   P L  I+             GY PD  F  H V
Sbjct:   604 NVKKEPGQSWIKWKGKLHSFSADDESSPYLDQIYAKLEELNNKIIDNGYKPDTSFVHHDV 663

Query:   492 GEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYISAIEKREIIV 551
              E VK ++L +HSE+LAIAFGLI VP G PIRV KNLRVC DCH ATK+IS++  REI+V
Sbjct:   664 EEAVKVKMLNYHSERLAIAFGLIFVPSGQPIRVGKNLRVCVDCHNATKHISSVTGREILV 723

Query:   552 RDTTRFHHFKDGTCSCGDYW 571
             RD  RFH FKDGTCSCGD+W
Sbjct:   724 RDAVRFHRFKDGTCSCGDFW 743

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9M4P3	PP316_ARATH	No assigned EC number	0.6800	0.9964	0.8673	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	571
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-149
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-147
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	7e-49
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	2e-39
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-38
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	9e-35
pfam14432	116	pfam14432, DYW_deaminase, DYW family of nucleic ac	4e-29
pfam13041	50	pfam13041, PPR_2, PPR repeat family	6e-15
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	8e-13
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-12
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	5e-12
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	8e-12
pfam13041	50	pfam13041, PPR_2, PPR repeat family	7e-10
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-09
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	4e-09
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	8e-09
pfam01535	31	pfam01535, PPR, PPR repeat	8e-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
pfam01535	31	pfam01535, PPR, PPR repeat	5e-06
pfam13041	50	pfam13041, PPR_2, PPR repeat family	7e-06
pfam12854	34	pfam12854, PPR_1, PPR repeat	2e-05
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	3e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	3e-04
pfam01535	31	pfam01535, PPR, PPR repeat	4e-04
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	4e-04
pfam01535	31	pfam01535, PPR, PPR repeat	8e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.002
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 =  446 bits (1149), Expect = e-149
 Identities = 211/605 (34%), Positives = 328/605 (54%), Gaps = 62/605 (10%)

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 -------MNRVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFR 213

Query: 126 V-------APVKSVVA--------WT------------------------AMISGYMKFG 146
                   A  ++ V          +                        A+I  Y K G
Sbjct: 214 EMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCG 273

Query: 147 KVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLL 206
            ++ A  +FD MP K  V WN+M+AGY  + ++E+ L L   M   G+  +  + S ++ 
Sbjct: 274 DIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIR 333

Query: 207 GCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVT 266
             S L+ L+  KQ H  + ++    D  A T L+ +Y K G +EDA  +F  + RK++++
Sbjct: 334 IFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLIS 393

Query: 267 WNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMV 326
           WNA+I+GY  HG+G KA+ +F++M  EG+ P+ +TF+A+L AC ++GL + G + F SM 
Sbjct: 394 WNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMS 453

Query: 327 NDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLA 386
            ++ I  +  HY CM++LLGR G L EA  +I++ PFKP   ++  LL+ACR+HK L+L 
Sbjct: 454 ENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELG 513

Query: 387 EFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVVKMPGYSWIEVGT 446
             AA  L+ + P      YV L N+Y +  +  + A++  ++K   +   P  +WIEV  
Sbjct: 514 RLAAEKLYGMGP-EKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSMHPACTWIEVKK 572

Query: 447 VVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGYVPDLEFALHAVGEEVKEQLLLFHSEK 506
             H F SGDR+HP+   I++KL EL K +   GYV +    L  V E+ ++    +HSEK
Sbjct: 573 QDHSFFSGDRLHPQSREIYQKLDELMKEISEYGYVAEENELLPDVDEDEEKVSGRYHSEK 632

Query: 507 LAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYISAIEKREIIVRDTTRFHHFKDGTCS 566
           LAIAFGLI     TP+++ ++ R+C DCH+  K+I+ + KREI+VRD +RFHHFK G CS
Sbjct: 633 LAIAFGLINTSEWTPLQITQSHRICKDCHKVIKFIALVTKREIVVRDASRFHHFKLGKCS 692

Query: 567 CGDYW 571
           CGDYW
Sbjct: 693 CGDYW 697

Length = 697

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

 Score =  445 bits (1145), Expect = e-147
 Identities = 209/516 (40%), Positives = 312/516 (60%), Gaps = 12/516 (2%)

Query: 62  FQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKN----SVSWSAMISGYIECGQL 117
           F R+  KD  SW  MISG+ +     KA + +  M + N     ++ ++++S     G L
Sbjct: 346 FSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDL 405

Query: 118 DKAVELFKVAPVKS----VVAWTAMISGYMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGY 173
           D  V+L ++A  K     VV   A+I  Y K   +D A ++F  +P K++++W ++IAG 
Sbjct: 406 DVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGL 465

Query: 174 VENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDT 233
             N+   + L   R M+ L ++PN+ +L + L  C+ + +L  GK++H  V ++ +  D 
Sbjct: 466 RLNNRCFEALIFFRQML-LTLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDG 524

Query: 234 TALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDE 293
                L+ +Y +CG +  A   F     KDVV+WN +++GY  HGKG  A+ LF++M + 
Sbjct: 525 FLPNALLDLYVRCGRMNYAWNQF-NSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVES 583

Query: 294 GMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVE 353
           G+ PD +TF++LL AC+ +G+V  G++YF SM   Y I     HY C+VDLLGRAGKL E
Sbjct: 584 GVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTE 643

Query: 354 AVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYA 413
           A + I KMP  P PA++G LL+ACR+H+ ++L E AA ++F L+P N+ G Y+ L N+YA
Sbjct: 644 AYNFINKMPITPDPAVWGALLNACRIHRHVELGELAAQHIFELDP-NSVGYYILLCNLYA 702

Query: 414 AMKKWDDVARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEK 473
              KWD+VAR+R +M+EN +   PG SW+EV   VH F + D  HP++  I+  L+   +
Sbjct: 703 DAGKWDEVARVRKTMRENGLTVDPGCSWVEVKGKVHAFLTDDESHPQIKEINTVLEGFYE 762

Query: 474 RMKLAGYVPDLEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGD 533
           +MK +G       ++  + E  K+ +   HSE+LAIAFGLI    G PI V KNL +C +
Sbjct: 763 KMKASGLAGSESSSMDEI-EVSKDDIFCGHSERLAIAFGLINTVPGMPIWVTKNLYMCEN 821

Query: 534 CHRATKYISAIEKREIIVRDTTRFHHFKDGTCSCGD 569
           CH   K+IS I +REI VRDT +FHHFKDG CSCGD
Sbjct: 822 CHNTVKFISKIVRREISVRDTEQFHHFKDGECSCGD 857

Length = 857

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

 Score =  181 bits (461), Expect = 7e-49
 Identities = 95/334 (28%), Positives = 162/334 (48%), Gaps = 48/334 (14%)

Query: 74  NTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFK------VA 127
           N M+S FV+   +  A  +F  MPE++  SW+ ++ GY + G  D+A+ L+       V 
Sbjct: 125 NAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVR 184

Query: 128 P---------------------------------VKSVVAWTAMISGYMKFGKVDLAEKL 154
           P                                    V    A+I+ Y+K G V  A  +
Sbjct: 185 PDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLV 244

Query: 155 FDEMPTKNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSL 214
           FD MP ++ ++WNAMI+GY EN    +GL+L   M  L + P+  +++SV+  C  L   
Sbjct: 245 FDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDE 304

Query: 215 QLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGY 274
           +LG+++H  V K+    D +    LI MY   G   +A K+F  ++ KD V+W AMISGY
Sbjct: 305 RLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGY 364

Query: 275 AQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVN----DYG 330
            ++G  +KAL  +  M+ + + PD IT  ++L AC   G +D+G++  +         Y 
Sbjct: 365 EKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYV 424

Query: 331 IAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFK 364
           + A       ++++  +   + +A+++   +P K
Sbjct: 425 VVA-----NALIEMYSKCKCIDKALEVFHNIPEK 453

Length = 857

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

 Score =  153 bits (389), Expect = 2e-39
 Identities = 103/364 (28%), Positives = 174/364 (47%), Gaps = 58/364 (15%)

Query: 1   MNVKTTVNWNSVLAGFAKQRGKLKDAQELFDKI----PQPDVVSYNIML-SC----ILLN 51
           M  +   +WN ++ G+AK  G   +A  L+ ++     +PDV ++  +L +C     L  
Sbjct: 147 MPERDLFSWNVLVGGYAKA-GYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLAR 205

Query: 52  SDDV---VAAFDFFQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMI 108
             +V   V  F F       D    N +I+ +V+  ++  AR +F  MP ++ +SW+AMI
Sbjct: 206 GREVHAHVVRFGFEL-----DVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMI 260

Query: 109 SGYIECGQLDKAVELF------KVAP----VKSVVAWTAMISG----------------- 141
           SGY E G+  + +ELF       V P    + SV++   ++                   
Sbjct: 261 SGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFA 320

Query: 142 ------------YMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAEDGLKLLRMM 189
                       Y+  G    AEK+F  M TK+ V+W AMI+GY +N   +  L+   +M
Sbjct: 321 VDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALM 380

Query: 190 IGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDL 249
               + P+  +++SVL  C+ L  L +G ++H+L  +  L         LI MY KC  +
Sbjct: 381 EQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCI 440

Query: 250 EDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLAC 309
           + A ++F  I  KDV++W ++I+G   + +  +AL  F +M    +KP+S+T +A L AC
Sbjct: 441 DKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLLT-LKPNSVTLIAALSAC 499

Query: 310 NHAG 313
              G
Sbjct: 500 ARIG 503

Length = 857

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

 Score =  150 bits (381), Expect = 1e-38
 Identities = 89/306 (29%), Positives = 141/306 (46%), Gaps = 41/306 (13%)

Query: 99  KNSVSWSAMISGYIECGQLDKAVELFKVAPV---------------------KSV----- 132
           K+ VS  + I   + CG+  +A+ELF++                        KS+     
Sbjct: 85  KSGVSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKA 144

Query: 133 VAWTAMISG--------------YMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSW 178
           V W    SG              ++K G +  A +LFDEMP +NL +W  +I G V+   
Sbjct: 145 VYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGN 204

Query: 179 AEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTP 238
             +   L R M   G      +   +L   + L S + G+Q+H  V K+ +  DT     
Sbjct: 205 YREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCA 264

Query: 239 LISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPD 298
           LI MY KCGD+EDA  +F  +  K  V WN+M++GYA HG  E+AL L+ +M+D G+  D
Sbjct: 265 LIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSID 324

Query: 299 SITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLI 358
             TF  ++   +   L++   Q    ++   G        T +VDL  + G++ +A ++ 
Sbjct: 325 QFTFSIMIRIFSRLALLEHAKQAHAGLIRT-GFPLDIVANTALVDLYSKWGRMEDARNVF 383

Query: 359 KKMPFK 364
            +MP K
Sbjct: 384 DRMPRK 389

Length = 697

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

 Score =  139 bits (352), Expect = 9e-35
 Identities = 91/343 (26%), Positives = 154/343 (44%), Gaps = 48/343 (13%)

Query: 137 AMISGYMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRP 196
           AM+S +++FG++  A  +F +MP ++L +WN ++ GY +  + ++ L L   M+  G+RP
Sbjct: 126 AMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRP 185

Query: 197 NASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLF 256
           +  +   VL  C  +  L  G++VH  V +     D   +  LI+MY KCGD+  A  +F
Sbjct: 186 DVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVF 245

Query: 257 LEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVD 316
             + R+D ++WNAMISGY ++G+  + L LF  M++  + PD +T  +++ AC   G   
Sbjct: 246 DRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDER 305

Query: 317 LGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFK------------ 364
           LG +     V   G A        ++ +    G   EA  +  +M  K            
Sbjct: 306 LGRE-MHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGY 364

Query: 365 -----PQPAI-----------------FGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA 402
                P  A+                   ++LSAC     LD+     + L  L      
Sbjct: 365 EKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDV----GVKLHELAERKGL 420

Query: 403 GCYVQLAN----IYAAMKKWDDVARIRLSMKENNVVKMPGYSW 441
             YV +AN    +Y+  K  D    +  ++ E +V+     SW
Sbjct: 421 ISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVI-----SW 458

Length = 857

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

 Score =  111 bits (279), Expect = 4e-29
 Identities = 53/132 (40%), Positives = 71/132 (53%), Gaps = 23/132 (17%)

Query: 437 PGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGYVPDLEFALHAVGEE-- 494
           PG  W E      +  SGD  HP         +EL +R+K+ G VP+ +   H V  E  
Sbjct: 1   PGCVWSEG----KKTLSGDGSHPT------SKEELFQRIKVEGVVPETKEIGHDVDAEEF 50

Query: 495 ----VKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNL-RVCGDCHRATKYISAIEKREI 549
               +K +LL  H+EK A+A+GL+        R+ K L R+CGDCH   +YI+    REI
Sbjct: 51  RDNGIKGKLLASHAEKQALAYGLL------TTRIIKVLKRMCGDCHEFFRYIAKYTGREI 104

Query: 550 IVRDTTRFHHFK 561
           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|205222 pfam13041, PPR_2, PPR repeat family

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

Query: 262 KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLAC 309
            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 = 70.7 bits (173), Expect = 8e-13
 Identities = 55/212 (25%), Positives = 96/212 (45%), Gaps = 6/212 (2%)

Query: 156 DEMPTKNLVTWNAMIAGYVENSWAEDGLKLLRMM-IGLGIRPNASSLSSVLLGCSHLSSL 214
           D    K+ V+  + I   V      + L+L  ++  G      AS+  +++  C  L S+
Sbjct: 80  DTQIRKSGVSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSI 139

Query: 215 QLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGY 274
           +  K V+  V  S    D   +  ++ M+ KCG L DA +LF E+  +++ +W  +I G 
Sbjct: 140 RCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGL 199

Query: 275 AQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAK 334
              G   +A  LF +M ++G   +  TFV +L A    G    G Q     V   G+   
Sbjct: 200 VDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQ-LHCCVLKTGVVG- 257

Query: 335 PDHY-TC-MVDLLGRAGKLVEAVDLIKKMPFK 364
            D + +C ++D+  + G + +A  +   MP K
Sbjct: 258 -DTFVSCALIDMYSKCGDIEDARCVFDGMPEK 288

Length = 697

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

 Score = 70.3 bits (172), Expect = 1e-12
 Identities = 66/308 (21%), Positives = 134/308 (43%), Gaps = 27/308 (8%)

Query: 10  NSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQRLPIKD 69
           N+++  ++K +  +  A E+F  IP+ DV+S+  +++ + LN+    A   FF+++ +  
Sbjct: 428 NALIEMYSKCK-CIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALI-FFRQMLLTL 485

Query: 70  TASWNTMIS--------GFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAV 121
             +  T+I+        G +       A  L   +     +  +A++  Y+ CG+++ A 
Sbjct: 486 KPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLP-NALLDLYVRCGRMNYAW 544

Query: 122 ELFKVAPVKSVVAWTAMISGYMKFGKVDLAEKLFDEMPTKNL----VTWNAMIAGYVENS 177
             F     K VV+W  +++GY+  GK  +A +LF+ M    +    VT+ +++     + 
Sbjct: 545 NQFNSHE-KDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSG 603

Query: 178 WAEDGLKLLRMM-IGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTAL 236
               GL+    M     I PN    + V+        L    + +  + K P+  D    
Sbjct: 604 MVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLT---EAYNFINKMPITPDPAVW 660

Query: 237 TPL-----ISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMK 291
             L     I  + + G+L  A +   E+    V  +  + + YA  GK ++  R+   M+
Sbjct: 661 GALLNACRIHRHVELGEL--AAQHIFELDPNSVGYYILLCNLYADAGKWDEVARVRKTMR 718

Query: 292 DEGMKPDS 299
           + G+  D 
Sbjct: 719 ENGLTVDP 726

Length = 857

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

 Score = 68.4 bits (167), Expect = 5e-12
 Identities = 73/287 (25%), Positives = 125/287 (43%), Gaps = 25/287 (8%)

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------KVAPVKSVVAWTAMISGYMKFGKVDLAEKLFDEMPTKNLVT 165
              G+  KAVE+F       VAP  + V + A++S     G  +   ++F  M   + + 
Sbjct: 402 GNHGRGTKAVEMFERMIAEGVAP--NHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIK 459

Query: 166 WNAMIAGYVENSWAEDGL--KLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQV-HQ 222
             AM    +      +GL  +   M+     +P  +  +++L  C    +L+LG+    +
Sbjct: 460 PRAMHYACMIELLGREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEK 519

Query: 223 LVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNA 269
           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 = 68.0 bits (166), Expect = 8e-12
 Identities = 62/292 (21%), Positives = 123/292 (42%), Gaps = 50/292 (17%)

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-WTAMISGYMKFGKVDLAEKLFDEMPTKNL----VTWNAMI--AG 172
           ++++     +K     +T  ++   + G  D A  ++D+M  K +    V ++A++  AG
Sbjct: 601 VYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAG 660

Query: 173 YVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKD 232
           +  +   +   ++L+     GI+    S SS++  CS+  + +   ++++ + KS     
Sbjct: 661 HAGD--LDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDI-KS----- 712

Query: 233 TTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKD 292
              L P +S                          NA+I+   +  +  KAL +  +MK 
Sbjct: 713 -IKLRPTVSTM------------------------NALITALCEGNQLPKALEVLSEMKR 747

Query: 293 EGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDL 344
            G+ P++IT+  LL+A       D+G+        D GI        C+  L
Sbjct: 748 LGLCPNTITYSILLVASERKDDADVGLDLLSQAKED-GIKPNLVMCRCITGL 798

Length = 1060

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

 Score = 54.3 bits (132), Expect = 7e-10
 Identities = 19/48 (39%), Positives = 28/48 (58%), Gaps = 4/48 (8%)

Query: 130 KSVVAWTAMISGYMKFGKVDLAEKLFDEMPTK----NLVTWNAMIAGY 173
             VV +  +I GY K GKV+ A KLF+EM  +    N+ T++ +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|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: 196 PNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKL 255
           P  S+ + ++  C+    +    +V +LV ++ L  D    T LIS   K G ++   ++
Sbjct: 435 PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEV 494

Query: 256 FLEIQ----RKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNH 311
           F E+       +V T+ A+I G A+ G+  KA   +  M+ + +KPD + F AL+ AC  
Sbjct: 495 FHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQ 554

Query: 312 AGLVDLGIQYFDSMVNDYGIAA---KPDHYTCMVDLL-------GRAGKLVEAVDLIKKM 361
           +G VD   + FD ++ +         PDH T  V  L       G+  +  E   +I + 
Sbjct: 555 SGAVD---RAFD-VLAEMKAETHPIDPDHIT--VGALMKACANAGQVDRAKEVYQMIHEY 608

Query: 362 PFKPQPAIFGTLLSACRVHKRLDLA 386
             K  P ++   +++C      D A
Sbjct: 609 NIKGTPEVYTIAVNSCSQKGDWDFA 633

Length = 1060

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

 Score = 59.5 bits (144), Expect = 4e-09
 Identities = 73/399 (18%), Positives = 157/399 (39%), Gaps = 72/399 (18%)

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----VAWTAMISGYMKFGKVDLAEKLFDEM-----PTK-NLVTWNAMIAGYVENSWA 179
           K+V    V + A+IS   + G VD A  +  EM     P   + +T  A++         
Sbjct: 536 KNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQV 595

Query: 180 EDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPL 239
           +   ++ +M+    I+      +  +  CS                              
Sbjct: 596 DRAKEVYQMIHEYNIKGTPEVYTIAVNSCS------------------------------ 625

Query: 240 ISMYCKCGDLEDACKLFLEIQRKDV----VTWNAMISGYAQHGKGEKALRLFDKMKDEGM 295
                + GD + A  ++ ++++K V    V ++A++      G  +KA  +    + +G+
Sbjct: 626 -----QKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGI 680

Query: 296 KPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYT--------CMVDLLGR 347
           K  ++++ +L+ AC++A      ++ ++ +     I  +P   T        C  + L +
Sbjct: 681 KLGTVSYSSLMGACSNAKNWKKALELYEDI---KSIKLRPTVSTMNALITALCEGNQLPK 737

Query: 348 AGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLA 386
           A   +E +  +K++   P    +  LL A       D+ 
Sbjct: 738 A---LEVLSEMKRLGLCPNTITYSILLVASERKDDADVG 773

Length = 1060

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

 Score = 50.9 bits (123), Expect = 8e-09
 Identities = 16/35 (45%), Positives = 25/35 (71%)

Query: 265 VTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDS 299
           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|144943 pfam01535, PPR, PPR repeat

 Score = 50.9 bits (123), Expect = 8e-09
 Identities = 17/31 (54%), Positives = 26/31 (83%)

Query: 265 VTWNAMISGYAQHGKGEKALRLFDKMKDEGM 295
           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|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: 239 LISMYCKCGDLEDACKLFLEIQRK----DVVTWNAMISGYAQ 276
           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: 263 DVVTWNAMISGYAQHGKGEKALRLFDKMK 291
           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 = 43.2 bits (103), 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|144943 pfam01535, PPR, PPR repeat

 Score = 42.8 bits (102), Expect = 5e-06
 Identities = 14/31 (45%), Positives = 21/31 (67%)

Query: 133 VAWTAMISGYMKFGKVDLAEKLFDEMPTKNL 163
           V + ++ISGY K GK++ A +LF EM  K +
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 43.2 bits (103), Expect = 7e-06
 Identities = 17/50 (34%), Positives = 27/50 (54%)

Query: 161 KNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSH 210
            ++VT+N +I GY +    E+ LKL   M   GI+PN  + S ++ G   
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 41.2 bits (98), Expect = 2e-05
 Identities = 12/28 (42%), Positives = 17/28 (60%)

Query: 132 VVAWTAMISGYMKFGKVDLAEKLFDEMP 159
           VV +  +I G  + G+VD A +L DEM 
Sbjct: 7   VVTYNTLIDGLCRAGRVDEAVELLDEME 34

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

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

 Score = 46.4 bits (110), Expect = 3e-05
 Identities = 50/240 (20%), Positives = 104/240 (43%), Gaps = 39/240 (16%)

Query: 10  NSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQRLPIKD 69
           N+ L     + G+++DA+ +FD++P+ +++S+N +++    N      A + F+R+  + 
Sbjct: 363 NTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAG-YGNHGRGTKAVEMFERMIAEG 421

Query: 70  TASWNTMI---------SGFVQKKNMAKARDLFLAMPEKNSVS-----WSAMISGYIECG 115
            A  +            SG  +     +  ++F +M E + +      ++ MI      G
Sbjct: 422 VAPNHVTFLAVLSACRYSGLSE-----QGWEIFQSMSENHRIKPRAMHYACMIELLGREG 476

Query: 116 QLDKAVELFKVAPVKSVV-AWTAM-----ISGYMKFGKVDLAEKLFDEMPTKNLVTWNAM 169
            LD+A  + + AP K  V  W A+     I   ++ G++  AEKL+   P K L  +  +
Sbjct: 477 LLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELGRL-AAEKLYGMGPEK-LNNYVVL 534

Query: 170 IAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPL 229
           +  Y  +    +  K++  +   G+        S+   C+    +++ KQ H       L
Sbjct: 535 LNLYNSSGRQAEAAKVVETLKRKGL--------SMHPACTW---IEVKKQDHSFFSGDRL 583

Length = 697

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

 Score = 38.2 bits (90), Expect = 3e-04
 Identities = 12/35 (34%), Positives = 19/35 (54%)

Query: 164 VTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNA 198
           VT+N +I G  +    E+ L+L + M   GI P+ 
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 37.4 bits (88), Expect = 4e-04
 Identities = 11/31 (35%), Positives = 20/31 (64%)

Query: 164 VTWNAMIAGYVENSWAEDGLKLLRMMIGLGI 194
           VT+N++I+GY +    E+ L+L + M   G+
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 37.9 bits (89), Expect = 4e-04
 Identities = 12/34 (35%), Positives = 22/34 (64%)

Query: 264 VVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKP 297
           + 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 = 8e-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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 35.5 bits (83), Expect = 0.002
 Identities = 11/32 (34%), Positives = 18/32 (56%)

Query: 133 VAWTAMISGYMKFGKVDLAEKLFDEMPTKNLV 164
           V +  +I G  K G+V+ A +LF EM  + + 
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIE 32

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

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

 Score = 35.5 bits (83), Expect = 0.002
 Identities = 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: 239 LISMYCKCGDLEDACKLFLEIQRKDV 264
           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	571
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
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.97
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.97
PF14432	116	DYW_deaminase: DYW family of nucleic acid deaminas	99.96
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.9
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.9
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.9
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.89
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.88
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.88
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.86
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.85
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.85
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.84
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.84
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.83
PRK14574	822	hmsH outer membrane protein; Provisional	99.8
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.79
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.78
PRK14574	822	hmsH outer membrane protein; Provisional	99.75
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.73
KOG2003	840	consensus TPR repeat-containing protein [General f	99.72
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.7
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.63
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.62
KOG2076	895	consensus RNA polymerase III transcription factor	99.6
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.57
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.55
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.55
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.55
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.54
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.54
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.53
KOG2003	840	consensus TPR repeat-containing protein [General f	99.53
KOG1126	638	consensus DNA-binding cell division cycle control	99.53
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.51
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.5
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.5
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.49
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.47
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.47
KOG2076	895	consensus RNA polymerase III transcription factor	99.45
KOG1126	638	consensus DNA-binding cell division cycle control	99.45
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.44
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.41
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.41
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.4
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.36
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.31
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.31
PRK12370	553	invasion protein regulator; Provisional	99.3
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.28
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.28
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.25
PF13041	50	PPR_2: PPR repeat family	99.25
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.23
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.22
PF13041	50	PPR_2: PPR repeat family	99.22
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.22
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.21
PRK12370	553	invasion protein regulator; Provisional	99.21
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.2
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.19
KOG1129	478	consensus TPR repeat-containing protein [General f	99.16
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.16
PRK11189	296	lipoprotein NlpI; Provisional	99.16
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.15
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.13
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.1
KOG1129	478	consensus TPR repeat-containing protein [General f	99.1
PRK11189	296	lipoprotein NlpI; Provisional	99.07
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.02
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.01
KOG3616	1636	consensus Selective LIM binding factor [Transcript	99.01
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	99.0
KOG1125	579	consensus TPR repeat-containing protein [General f	98.97
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.93
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	98.91
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.9
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.89
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	98.89
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.89
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.86
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.85
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.85
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.84
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.83
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.81
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.8
PRK04841	903	transcriptional regulator MalT; Provisional	98.8
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.78
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.75
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.74
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.74
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.74
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.73
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.72
PRK04841	903	transcriptional regulator MalT; Provisional	98.69
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.65
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.64
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.64
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.64
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.62
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.62
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.56
PLN02789	320	farnesyltranstransferase	98.55
PRK15359	144	type III secretion system chaperone protein SscB;	98.55
KOG1125	579	consensus TPR repeat-containing protein [General f	98.55
PRK15359	144	type III secretion system chaperone protein SscB;	98.51
PF12854	34	PPR_1: PPR repeat	98.45
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.44
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.43
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.43
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.42
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.42
PLN02789	320	farnesyltranstransferase	98.42
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.41
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.39
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.36
PF12854	34	PPR_1: PPR repeat	98.35
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.35
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.35
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.3
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.29
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.26
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.26
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.22
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.17
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.16
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.16
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.14
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.14
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.14
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.12
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.11
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.08
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.07
PF13812	34	PPR_3: Pentatricopeptide repeat domain	97.98
PF13812	34	PPR_3: Pentatricopeptide repeat domain	97.96
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.95
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	97.94
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.91
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.91
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.89
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.87
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.83
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.83
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.8
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.79
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.77
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.75
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.74
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.71
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.69
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.66
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.63
PRK15331	165	chaperone protein SicA; Provisional	97.62
KOG0553	304	consensus TPR repeat-containing protein [General f	97.62
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.61
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.6
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.6
COG3898	531	Uncharacterized membrane-bound protein [Function u	97.55
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.55
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.48
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.48
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.47
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.46
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.46
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.45
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.43
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.43
KOG0553	304	consensus TPR repeat-containing protein [General f	97.42
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.42
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.38
PF13371	73	TPR_9: Tetratricopeptide repeat	97.36
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.34
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.32
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.28
PF12688	120	TPR_5: Tetratrico peptide repeat	97.23
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.18
PF12688	120	TPR_5: Tetratrico peptide repeat	97.17
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.15
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.14
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	97.12
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.11
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.1
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.08
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.08
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.07
PF13431	34	TPR_17: Tetratricopeptide repeat	97.03
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	97.03
PRK10803	263	tol-pal system protein YbgF; Provisional	97.02
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	96.99
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	96.97
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	96.96
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.95
PF13428	44	TPR_14: Tetratricopeptide repeat	96.93
COG4700	251	Uncharacterized protein conserved in bacteria cont	96.93
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.92
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	96.81
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	96.75
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	96.73
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	96.71
PRK10803	263	tol-pal system protein YbgF; Provisional	96.69
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	96.65
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.63
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	96.63
PF13371	73	TPR_9: Tetratricopeptide repeat	96.61
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	96.6
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	96.53
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	96.49
KOG1258	577	consensus mRNA processing protein [RNA processing	96.41
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.39
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.36
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	96.3
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.23
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	96.22
PF13512	142	TPR_18: Tetratricopeptide repeat	96.2
COG3898	531	Uncharacterized membrane-bound protein [Function u	96.11
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.09
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	95.8
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.71
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	95.7
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	95.68
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.66
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	95.58
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	95.54
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	95.53
KOG4555	175	consensus TPR repeat-containing protein [Function	95.49
COG3118	304	Thioredoxin domain-containing protein [Posttransla	95.43
PF03704	146	BTAD: Bacterial transcriptional activator domain;	95.33
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	95.29
KOG1585	308	consensus Protein required for fusion of vesicles	95.26
PF13512	142	TPR_18: Tetratricopeptide repeat	95.21
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	95.2
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	95.2
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	95.08
PRK15331	165	chaperone protein SicA; Provisional	95.03
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	94.98
COG3118	304	Thioredoxin domain-containing protein [Posttransla	94.97
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	94.97
PRK09687	280	putative lyase; Provisional	94.94
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	94.92
PRK11906	458	transcriptional regulator; Provisional	94.91
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	94.65
smart00299	140	CLH Clathrin heavy chain repeat homology.	94.63
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	94.63
PRK11906	458	transcriptional regulator; Provisional	94.58
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	94.47
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	94.41
KOG3941	406	consensus Intermediate in Toll signal transduction	94.39
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	94.22
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	94.16
PRK09687	280	putative lyase; Provisional	93.95
KOG1258	577	consensus mRNA processing protein [RNA processing	93.76
KOG1941	518	consensus Acetylcholine receptor-associated protei	93.6
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	93.59
KOG3941	406	consensus Intermediate in Toll signal transduction	93.55
COG4105	254	ComL DNA uptake lipoprotein [General function pred	93.46
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	93.45
smart00299	140	CLH Clathrin heavy chain repeat homology.	93.37
PRK11619	644	lytic murein transglycosylase; Provisional	93.23
KOG2610	491	consensus Uncharacterized conserved protein [Funct	93.2
KOG4555	175	consensus TPR repeat-containing protein [Function	93.16
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	92.91
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	92.88
KOG4234	271	consensus TPR repeat-containing protein [General f	92.81
KOG2610	491	consensus Uncharacterized conserved protein [Funct	92.54
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	92.18
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	92.06
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	92.02
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	91.93
KOG1941	518	consensus Acetylcholine receptor-associated protei	91.7
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	91.48
KOG3364	149	consensus Membrane protein involved in organellar	91.44
KOG1586	288	consensus Protein required for fusion of vesicles	91.34
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	91.24
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	91.23
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	91.08
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	91.05
COG3629	280	DnrI DNA-binding transcriptional activator of the	91.05
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	91.02
PRK13800	897	putative oxidoreductase/HEAT repeat-containing pro	90.59
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	90.57
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	90.54
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	90.52
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	90.5
COG4105	254	ComL DNA uptake lipoprotein [General function pred	90.39
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	89.89
PF13428	44	TPR_14: Tetratricopeptide repeat	89.88
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	89.59
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	89.33
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	89.22
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	89.17
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	88.96
PRK13800	897	putative oxidoreductase/HEAT repeat-containing pro	88.73
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	88.46
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	88.23
COG3629	280	DnrI DNA-binding transcriptional activator of the	88.19
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	87.82
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	87.09
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	86.63
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	86.46
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	86.43
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	86.12
PF13431	34	TPR_17: Tetratricopeptide repeat	86.02
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	85.99
KOG4648	536	consensus Uncharacterized conserved protein, conta	85.97
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	85.25
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	84.88
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	84.38
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	84.2
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	84.17
PRK10941	269	hypothetical protein; Provisional	83.98
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	83.92
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	83.74
KOG4570	418	consensus Uncharacterized conserved protein [Funct	83.7
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	83.26
KOG1585	308	consensus Protein required for fusion of vesicles	83.25
COG1747	711	Uncharacterized N-terminal domain of the transcrip	82.15
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	82.14
PRK12798	421	chemotaxis protein; Reviewed	82.08
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	82.0
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	81.81
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	81.63
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	81.54
KOG4648	536	consensus Uncharacterized conserved protein, conta	81.06
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	80.83

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

Probab=100.00  E-value=2.4e-114  Score=929.67  Aligned_cols=566  Identities=35%  Similarity=0.633  Sum_probs=538.2

Q ss_pred             CCCcchHHHHHHHHHhCCCCHHHHHHHHhhCCC----CChhhHHHHHHHHHcCCCCHHHHHHHHhhCCCCChhhHHHHHH
Q 008280            3 VKTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQ----PDVVSYNIMLSCILLNSDDVVAAFDFFQRLPIKDTASWNTMIS   78 (571)
Q Consensus         3 ~~~~~~~~~l~~~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~ll~~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~   78 (571)
                      .||..+|+.++.+|++.+ +++.|.++|..|.+    ||+.+||.|+.+|++. |++++|.++|++|+.||.++||++|.
T Consensus       120 ~~~~~t~~~ll~a~~~~~-~~~~a~~l~~~m~~~g~~~~~~~~n~Li~~y~k~-g~~~~A~~lf~~m~~~~~~t~n~li~  197 (697)
T PLN03081        120 TLPASTYDALVEACIALK-SIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKC-GMLIDARRLFDEMPERNLASWGTIIG  197 (697)
T ss_pred             CCCHHHHHHHHHHHHhCC-CHHHHHHHHHHHHHhCCCcchHHHHHHHHHHhcC-CCHHHHHHHHhcCCCCCeeeHHHHHH
Confidence            467788888888888887 88888888887753    7888888888888888 88888888888888888888888888


Q ss_pred             HHHcCCCHHHHHHHHhhCC----CCCcchHHHHHHHHHHcCChHHHHHHHhhC----CCCChhHHHHHHHHHHhcCCHHH
Q 008280           79 GFVQKKNMAKARDLFLAMP----EKNSVSWSAMISGYIECGQLDKAVELFKVA----PVKSVVAWTAMISGYMKFGKVDL  150 (571)
Q Consensus        79 ~~~~~g~~~~A~~~~~~m~----~~d~~~~~~li~~~~~~g~~~~A~~~~~~~----~~~~~~~~~~li~~~~~~g~~~~  150 (571)
                      +|++.|++++|+++|++|.    .||..+|+.++.+|++.|..+.+.+++..+    ..+|..++++|+++|+++|++++
T Consensus       198 ~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~  277 (697)
T PLN03081        198 GLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIED  277 (697)
T ss_pred             HHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHH
Confidence            8888888888888888884    367788888888888888888888876654    36788999999999999999999


Q ss_pred             HHHHHhhCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCC
Q 008280          151 AEKLFDEMPTKNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLC  230 (571)
Q Consensus       151 A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~  230 (571)
                      |.++|++|+++|+++||+||.+|++.|++++|+++|++|.+.|+.||..||++++.+|++.|+++.|+++|..+.+.|++
T Consensus       278 A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~  357 (697)
T PLN03081        278 ARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFP  357 (697)
T ss_pred             HHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCcchHHHHHHHHHhcCCHHHHHHHHHhhCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 008280          231 KDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACN  310 (571)
Q Consensus       231 ~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~  310 (571)
                      +|..++++|+++|+++|++++|.++|++|.++|+++||+||.+|+++|+.++|+++|++|.+.|+.||..||+.++.+|+
T Consensus       358 ~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~  437 (697)
T PLN03081        358 LDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACR  437 (697)
T ss_pred             CCeeehHHHHHHHHHCCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHHhcCCHhHHHHHH
Q 008280          311 HAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAA  390 (571)
Q Consensus       311 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~  390 (571)
                      +.|++++|.++|+.|.+++|+.|+..+|++++++|++.|++++|.+++++|++.|+..+|++|+.+|+.+|+++.|+.++
T Consensus       438 ~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~  517 (697)
T PLN03081        438 YSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAA  517 (697)
T ss_pred             cCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcHHHHHHH
Confidence            99999999999999998889999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhCCCccCCceeEEEECCEEEEEecCCCCCcccHHHHHHHHH
Q 008280          391 MNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKE  470 (571)
Q Consensus       391 ~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~s~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~  470 (571)
                      +++++++|++.. +|..|+++|++.|+|++|.++++.|+++|+.+.||+||+++++.+|.|.+||.+||+.++|+..+.+
T Consensus       518 ~~l~~~~p~~~~-~y~~L~~~y~~~G~~~~A~~v~~~m~~~g~~k~~g~s~i~~~~~~~~f~~~d~~h~~~~~i~~~l~~  596 (697)
T PLN03081        518 EKLYGMGPEKLN-NYVVLLNLYNSSGRQAEAAKVVETLKRKGLSMHPACTWIEVKKQDHSFFSGDRLHPQSREIYQKLDE  596 (697)
T ss_pred             HHHhCCCCCCCc-chHHHHHHHHhCCCHHHHHHHHHHHHHcCCccCCCeeEEEECCeEEEEccCCCCCccHHHHHHHHHH
Confidence            999999999988 9999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHcCcccCCcccccccchhhhhhhhhhchHHHHHHHhccCCCCCCcEEEeccccccccccchhhhhhhhccceEE
Q 008280          471 LEKRMKLAGYVPDLEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYISAIEKREII  550 (571)
Q Consensus       471 ~~~~m~~~g~~pd~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  550 (571)
                      +..+|++.||.||+.+++||+++++++..+..||||||++|||+++|+|.||||+||||+|+|||+|+|+||++++|+||
T Consensus       597 l~~~~~~~gy~~~~~~~~~~~~~~~~~~~~~~hsekla~a~~l~~~~~~~~i~i~knlr~c~dch~~~k~~s~~~~r~i~  676 (697)
T PLN03081        597 LMKEISEYGYVAEENELLPDVDEDEEKVSGRYHSEKLAIAFGLINTSEWTPLQITQSHRICKDCHKVIKFIALVTKREIV  676 (697)
T ss_pred             HHHHHHHcCCCCCcchhhccccHHHHHHHHHhccHHHHHHhhCccCCCCCeEEEecCCEECCCchhhHHHHhhhcceEEE
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EecCCccccccCCccCCCCCC
Q 008280          551 VRDTTRFHHFKDGTCSCGDYW  571 (571)
Q Consensus       551 ~~~~~~~h~~~~g~~s~~~~~  571 (571)
                      |||.+|||||+||+|||+|||
T Consensus       677 ~rd~~rfh~f~~g~csc~d~w  697 (697)
T PLN03081        677 VRDASRFHHFKLGKCSCGDYW  697 (697)
T ss_pred             EecCCccccCCCCcccccccC
Confidence            999999999999999999999

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=3.1e-111  Score=926.70  Aligned_cols=561  Identities=39%  Similarity=0.726  Sum_probs=542.7

Q ss_pred             CCCcchHHHHHHHHHhCCCCHHHHHHHHhhCCCCChhhHHHHHHHHHcCCCCHHHHHHHHhhCC----------------
Q 008280            3 VKTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQRLP----------------   66 (571)
Q Consensus         3 ~~~~~~~~~l~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~ll~~~~~~~g~~~~A~~~~~~m~----------------   66 (571)
                      .||+.++|+|+.+|+++| ++++|.++|+.|++||+++||+||.+|++. |++++|+++|++|.                
T Consensus       219 ~~~~~~~n~Li~~y~k~g-~~~~A~~lf~~m~~~d~~s~n~li~~~~~~-g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~  296 (857)
T PLN03077        219 ELDVDVVNALITMYVKCG-DVVSARLVFDRMPRRDCISWNAMISGYFEN-GECLEGLELFFTMRELSVDPDLMTITSVIS  296 (857)
T ss_pred             CcccchHhHHHHHHhcCC-CHHHHHHHHhcCCCCCcchhHHHHHHHHhC-CCHHHHHHHHHHHHHcCCCCChhHHHHHHH
Confidence            478899999999999999 999999999999999999999999999999 99999999999984                


Q ss_pred             -----------------------CCChhhHHHHHHHHHcCCCHHHHHHHHhhCCCCCcchHHHHHHHHHHcCChHHHHHH
Q 008280           67 -----------------------IKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVEL  123 (571)
Q Consensus        67 -----------------------~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~~  123 (571)
                                             .||..+||+||.+|+++|++++|.++|++|.+||.++|+++|.+|.+.|++++|+++
T Consensus       297 a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n~li~~~~~~g~~~~A~~l  376 (857)
T PLN03077        297 ACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALET  376 (857)
T ss_pred             HHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeHHHHHHHHHhCCCHHHHHHH
Confidence                                   257888999999999999999999999999999999999999999999999999999


Q ss_pred             HhhCC---------------------------------------CCChhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCHH
Q 008280          124 FKVAP---------------------------------------VKSVVAWTAMISGYMKFGKVDLAEKLFDEMPTKNLV  164 (571)
Q Consensus       124 ~~~~~---------------------------------------~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~  164 (571)
                      |++|.                                       .++..++|+|+++|+++|++++|.++|++|.++|++
T Consensus       377 f~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~v  456 (857)
T PLN03077        377 YALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVI  456 (857)
T ss_pred             HHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCee
Confidence            99874                                       356678999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHH
Q 008280          165 TWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYC  244 (571)
Q Consensus       165 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~  244 (571)
                      +||+||.+|.+.|+.++|+.+|++|.. +++||..||+.++.+|++.|+++.++++|..+.+.|+.++..++++|+++|+
T Consensus       457 s~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~  535 (857)
T PLN03077        457 SWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYV  535 (857)
T ss_pred             eHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHH
Confidence            999999999999999999999999986 5899999999999999999999999999999999999999999999999999


Q ss_pred             hcCCHHHHHHHHHhhCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHH
Q 008280          245 KCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDS  324 (571)
Q Consensus       245 ~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~  324 (571)
                      ++|++++|.++|+.+ .+|+++||+||.+|+++|+.++|+++|++|.+.|+.||..||+.++.+|++.|++++|.++|+.
T Consensus       536 k~G~~~~A~~~f~~~-~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~  614 (857)
T PLN03077        536 RCGRMNYAWNQFNSH-EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHS  614 (857)
T ss_pred             HcCCHHHHHHHHHhc-CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHH
Confidence            999999999999999 8999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchh
Q 008280          325 MVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGC  404 (571)
Q Consensus       325 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~  404 (571)
                      |.+++|+.|+..+|++++++|++.|++++|.+++++|+++||..+|++|+.+|..+|+.+.|+.+.+++++++|+++. .
T Consensus       615 M~~~~gi~P~~~~y~~lv~~l~r~G~~~eA~~~~~~m~~~pd~~~~~aLl~ac~~~~~~e~~e~~a~~l~~l~p~~~~-~  693 (857)
T PLN03077        615 MEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMPITPDPAVWGALLNACRIHRHVELGELAAQHIFELDPNSVG-Y  693 (857)
T ss_pred             HHHHhCCCCchHHHHHHHHHHHhCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhhCCCCcc-h
Confidence            997789999999999999999999999999999999999999999999999999999999999999999999999998 9


Q ss_pred             HHHHHHHHhhccChhHHHHHHHHHHhCCCccCCceeEEEECCEEEEEecCCCCCcccHHHHHHHHHHHHHHHHcCcccCC
Q 008280          405 YVQLANIYAAMKKWDDVARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGYVPDL  484 (571)
Q Consensus       405 ~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~s~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~~~~m~~~g~~pd~  484 (571)
                      |..|+++|+..|+|++|.++++.|+++|+.++||+|||++++++|.|.+||.+||+.++||..|+++.++|++.||+||+
T Consensus       694 y~ll~n~ya~~g~~~~a~~vr~~M~~~g~~k~~g~s~ie~~~~~~~f~~~d~~h~~~~~i~~~l~~l~~~~~~~g~~~~~  773 (857)
T PLN03077        694 YILLCNLYADAGKWDEVARVRKTMRENGLTVDPGCSWVEVKGKVHAFLTDDESHPQIKEINTVLEGFYEKMKASGLAGSE  773 (857)
T ss_pred             HHHHHHHHHHCCChHHHHHHHHHHHHcCCCCCCCccEEEECCEEEEEecCCCCCcchHHHHHHHHHHHHHHHhCCcCCCc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccccccchhhhhhhhhhchHHHHHHHhccCCCCCCcEEEeccccccccccchhhhhhhhccceEEEecCCccccccCCc
Q 008280          485 EFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYISAIEKREIIVRDTTRFHHFKDGT  564 (571)
Q Consensus       485 ~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~h~~~~g~  564 (571)
                      ...+ ++++++|+..++.||||||++|||+++|+|.||||+||||+|+|||+++|+||++.+|+|||||.+|||||+||+
T Consensus       774 ~~~~-~~~~~~k~~~~~~hse~la~a~~l~~~~~~~~i~i~knlr~c~dch~~~k~~s~~~~r~i~~rd~~rfh~f~~g~  852 (857)
T PLN03077        774 SSSM-DEIEVSKDDIFCGHSERLAIAFGLINTVPGMPIWVTKNLYMCENCHNTVKFISKIVRREISVRDTEQFHHFKDGE  852 (857)
T ss_pred             chhc-cccHHHHHHHHHhccHHHHHHHhhhcCCCCCeEEEeCCCEeCccHHHHHHHHHHHhCeEEEEecCCcceeCCCCc
Confidence            9877 557788999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCC
Q 008280          565 CSCGD  569 (571)
Q Consensus       565 ~s~~~  569 (571)
                      |||+|
T Consensus       853 csc~d  857 (857)
T PLN03077        853 CSCGD  857 (857)
T ss_pred             ccCCC
Confidence            99998

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=1.2e-66  Score=573.36  Aligned_cols=536  Identities=24%  Similarity=0.346  Sum_probs=441.2

Q ss_pred             CCCcchHHHHHHHHHhCCCCHHHHHHHHhhCCCCChhhHHHHHHHHHcCCCCHHHHHHHHhhCC----C-----------
Q 008280            3 VKTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQRLP----I-----------   67 (571)
Q Consensus         3 ~~~~~~~~~l~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~ll~~~~~~~g~~~~A~~~~~~m~----~-----------   67 (571)
                      .+++.++|+|+.+|+++| +++.|.++|++|++||+++||+||.+|++. |++++|+++|++|.    .           
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 SLGVRLGNAMLSMFVRFG-ELVHAWYVFGKMPERDLFSWNVLVGGYAKA-GYFDEALCLYHRMLWAGVRPDVYTFPCVLR  195 (857)
T ss_pred             CCCchHHHHHHHHHHhCC-ChHHHHHHHhcCCCCCeeEHHHHHHHHHhC-CCHHHHHHHHHHHHHcCCCCChhHHHHHHH
Confidence            456777788888888887 888888888888888888888888888887 88888888887774    1           


Q ss_pred             ------------------------CChhhHHHHHHHHHcCCCHHHHHHHHhhCCCCCcchHHHHHHHHHHcCChHHHHHH
Q 008280           68 ------------------------KDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVEL  123 (571)
Q Consensus        68 ------------------------~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~~  123 (571)
                                              +|+.++|+||.+|+++|++++|.++|++|+++|.++||++|.+|++.|++++|+++
T Consensus       196 ~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~d~~s~n~li~~~~~~g~~~eAl~l  275 (857)
T PLN03077        196 TCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLEL  275 (857)
T ss_pred             HhCCccchhhHHHHHHHHHHcCCCcccchHhHHHHHHhcCCCHHHHHHHHhcCCCCCcchhHHHHHHHHhCCCHHHHHHH
Confidence                                    24555677777778888888888888888878888888888888888888888888


Q ss_pred             HhhCC---------------------------------------CCChhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCHH
Q 008280          124 FKVAP---------------------------------------VKSVVAWTAMISGYMKFGKVDLAEKLFDEMPTKNLV  164 (571)
Q Consensus       124 ~~~~~---------------------------------------~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~  164 (571)
                      |++|.                                       .+|+.+||+|+.+|+++|++++|.++|++|..||++
T Consensus       276 f~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~  355 (857)
T PLN03077        276 FFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAV  355 (857)
T ss_pred             HHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCee
Confidence            77763                                       467889999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHH
Q 008280          165 TWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYC  244 (571)
Q Consensus       165 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~  244 (571)
                      +||+||.+|.+.|++++|+++|++|.+.|+.||..||+.++.+|++.|+++.|.++|+.+.+.|+.++..++++|+++|+
T Consensus       356 s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~  435 (857)
T PLN03077        356 SWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYS  435 (857)
T ss_pred             eHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hcCCHHHHHHHHHhhCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHH
Q 008280          245 KCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDS  324 (571)
Q Consensus       245 ~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~  324 (571)
                      ++|++++|.++|++|.++|+++||+||.+|++.|+.++|+.+|++|.. ++.||..||+.++.+|++.|+++.+.+++..
T Consensus       436 k~g~~~~A~~vf~~m~~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~  514 (857)
T PLN03077        436 KCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAH  514 (857)
T ss_pred             HcCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHH
Confidence            999999999999999999999999999999999999999999999986 5999999999999999999999999999999


Q ss_pred             hHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhc--cCCCCCc
Q 008280          325 MVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFN--LNPANAA  402 (571)
Q Consensus       325 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--~~p~~~~  402 (571)
                      +.+. |+.++..++++|+++|+++|++++|.++|+++  .||..+|++|+.+|.++|+.++|+++|++|.+  ..|+.. 
T Consensus       515 ~~~~-g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~--~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~-  590 (857)
T PLN03077        515 VLRT-GIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH--EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEV-  590 (857)
T ss_pred             HHHh-CCCccceechHHHHHHHHcCCHHHHHHHHHhc--CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcc-
Confidence            9886 99999999999999999999999999999999  69999999999999999999999999999987  457765 


Q ss_pred             hhHHHHHHHHhhccChhHHHHHHHHHH-hCCCccCCceeEEEECCEEEEEecCCCCCcccHHHH---HHHHHHHHHHHHc
Q 008280          403 GCYVQLANIYAAMKKWDDVARIRLSMK-ENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIH---EKLKELEKRMKLA  478 (571)
Q Consensus       403 ~~~~~l~~~~~~~g~~~~a~~~~~~m~-~~~~~~~~~~s~~~~~~~~~~f~~~~~~~~~~~~~~---~~l~~~~~~m~~~  478 (571)
                       +|..++.+|++.|++++|.++|+.|. +.|+.|....                  +....+.+   ..++++.+.++++
T Consensus       591 -T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~------------------y~~lv~~l~r~G~~~eA~~~~~~m  651 (857)
T PLN03077        591 -TFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKH------------------YACVVDLLGRAGKLTEAYNFINKM  651 (857)
T ss_pred             -cHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHH------------------HHHHHHHHHhCCCHHHHHHHHHHC
Confidence             89999999999999999999999998 6787754310                  11112222   1256667777777


Q ss_pred             CcccCCcccccccchhhhhhhhhhchHHHH-HHHhccCCCCCCcEEEeccccccccccchhhhhhhhccc--------eE
Q 008280          479 GYVPDLEFALHAVGEEVKEQLLLFHSEKLA-IAFGLIKVPLGTPIRVFKNLRVCGDCHRATKYISAIEKR--------EI  549 (571)
Q Consensus       479 g~~pd~~~~~~~~~~~~~~~~~~~~~~~~a-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~  549 (571)
                      +..||...|...+..+.....+- ..+..+ ..+.+.+...+..+.+..-....|+..++.++...|..+        ..
T Consensus       652 ~~~pd~~~~~aLl~ac~~~~~~e-~~e~~a~~l~~l~p~~~~~y~ll~n~ya~~g~~~~a~~vr~~M~~~g~~k~~g~s~  730 (857)
T PLN03077        652 PITPDPAVWGALLNACRIHRHVE-LGELAAQHIFELDPNSVGYYILLCNLYADAGKWDEVARVRKTMRENGLTVDPGCSW  730 (857)
T ss_pred             CCCCCHHHHHHHHHHHHHcCChH-HHHHHHHHHHhhCCCCcchHHHHHHHHHHCCChHHHHHHHHHHHHcCCCCCCCccE
Confidence            89999999865554443211110 011111 122333333333322223335678888888888777655        22


Q ss_pred             EEecCCccccccCCccC
Q 008280          550 IVRDTTRFHHFKDGTCS  566 (571)
Q Consensus       550 ~~~~~~~~h~~~~g~~s  566 (571)
                      |.- .+..|-|..|--|
T Consensus       731 ie~-~~~~~~f~~~d~~  746 (857)
T PLN03077        731 VEV-KGKVHAFLTDDES  746 (857)
T ss_pred             EEE-CCEEEEEecCCCC
Confidence            222 3567788655443

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=2.3e-59  Score=506.26  Aligned_cols=432  Identities=18%  Similarity=0.251  Sum_probs=399.0

Q ss_pred             CCCCCcchHHHHHHHHHhCCCCHHHHHHHHhhCCC----CChhhHHHHHHHHHcCCCCHHHHHHHHhhCC----CCChhh
Q 008280            1 MNVKTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQ----PDVVSYNIMLSCILLNSDDVVAAFDFFQRLP----IKDTAS   72 (571)
Q Consensus         1 ~~~~~~~~~~~l~~~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~ll~~~~~~~g~~~~A~~~~~~m~----~~d~~~   72 (571)
                      |+.||..+|+.|+++|++.| ++++|.++|+.|.+    ||..+||+||.+|++. |++++|.++|++|.    .||..+
T Consensus       432 M~~pd~~Tyn~LL~a~~k~g-~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~-G~vd~A~~vf~eM~~~Gv~PdvvT  509 (1060)
T PLN03218        432 IRNPTLSTFNMLMSVCASSQ-DIDGALRVLRLVQEAGLKADCKLYTTLISTCAKS-GKVDAMFEVFHEMVNAGVEANVHT  509 (1060)
T ss_pred             cCCCCHHHHHHHHHHHHhCc-CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhC-cCHHHHHHHHHHHHHcCCCCCHHH
Confidence            46699999999999999999 99999999999974    8999999999999999 99999999999998    589999


Q ss_pred             HHHHHHHHHcCCCHHHHHHHHhhCC----CCCcchHHHHHHHHHHcCChHHHHHHHhhCC------CCChhHHHHHHHHH
Q 008280           73 WNTMISGFVQKKNMAKARDLFLAMP----EKNSVSWSAMISGYIECGQLDKAVELFKVAP------VKSVVAWTAMISGY  142 (571)
Q Consensus        73 ~~~li~~~~~~g~~~~A~~~~~~m~----~~d~~~~~~li~~~~~~g~~~~A~~~~~~~~------~~~~~~~~~li~~~  142 (571)
                      ||+||.+|++.|++++|.++|+.|.    .||..+|+.+|.+|++.|++++|.++|++|.      .+|..+|++|+.+|
T Consensus       510 ynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay  589 (1060)
T PLN03218        510 FGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKAC  589 (1060)
T ss_pred             HHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHH
Confidence            9999999999999999999999995    4899999999999999999999999999884      57889999999999


Q ss_pred             HhcCCHHHHHHHHhhCCC----CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHH
Q 008280          143 MKFGKVDLAEKLFDEMPT----KNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGK  218 (571)
Q Consensus       143 ~~~g~~~~A~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~  218 (571)
                      +++|++++|.++|++|.+    ++..+||.+|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|++++|.
T Consensus       590 ~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~  669 (1060)
T PLN03218        590 ANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAF  669 (1060)
T ss_pred             HHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHH
Confidence            999999999999999985    6779999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhC----CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcC
Q 008280          219 QVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQ----RKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEG  294 (571)
Q Consensus       219 ~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  294 (571)
                      ++++.|.+.|+.|+..+|++||.+|+++|++++|.++|++|.    .||+.+||+||.+|++.|++++|+++|++|...|
T Consensus       670 ~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~G  749 (1060)
T PLN03218        670 EILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLG  749 (1060)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC
Confidence            999999999999999999999999999999999999999995    5899999999999999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHH----HcC-------------------CH
Q 008280          295 MKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLG----RAG-------------------KL  351 (571)
Q Consensus       295 ~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~----~~g-------------------~~  351 (571)
                      +.||..||+.++.+|.+.|++++|.++|..|.+. |+.||..+|++++.++.    +++                   ..
T Consensus       750 i~Pd~~Ty~sLL~a~~k~G~le~A~~l~~~M~k~-Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w~  828 (1060)
T PLN03218        750 LCPNTITYSILLVASERKDDADVGLDLLSQAKED-GIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWT  828 (1060)
T ss_pred             CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccchH
Confidence            9999999999999999999999999999999886 99999999999998743    222                   24


Q ss_pred             HHHHHHHHhC---CCCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhc-cCCCCCchhHHHHHHHHhhccChhHHHHHHHH
Q 008280          352 VEAVDLIKKM---PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFN-LNPANAAGCYVQLANIYAAMKKWDDVARIRLS  427 (571)
Q Consensus       352 ~~A~~~~~~~---~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  427 (571)
                      ++|..+|++|   ++.||..+|+.++.++...+..+.+..+++.+.. -.+.+.. +|..|++++.+.  .++|..++++
T Consensus       829 ~~Al~lf~eM~~~Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~~~~~-~y~~Li~g~~~~--~~~A~~l~~e  905 (1060)
T PLN03218        829 SWALMVYRETISAGTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQS-NLSTLVDGFGEY--DPRAFSLLEE  905 (1060)
T ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHhcccccHHHHHHHHHHhccCCCCcchh-hhHHHHHhhccC--hHHHHHHHHH
Confidence            6799999999   7899999999999888888889988888887743 2333344 899999988432  3689999999


Q ss_pred             HHhCCCccCCc
Q 008280          428 MKENNVVKMPG  438 (571)
Q Consensus       428 m~~~~~~~~~~  438 (571)
                      |.+.|+.|...
T Consensus       906 m~~~Gi~p~~~  916 (1060)
T PLN03218        906 AASLGVVPSVS  916 (1060)
T ss_pred             HHHcCCCCCcc
Confidence            99999987654

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=1.7e-59  Score=507.35  Aligned_cols=514  Identities=14%  Similarity=0.237  Sum_probs=415.9

Q ss_pred             CCCcchHHHHHHHHHhCCCCHHHHHHHHhhCCCCCh-----hhHHHHHHHHHcCCCCHHHHHHHHhhCCCCChhhHHHHH
Q 008280            3 VKTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQPDV-----VSYNIMLSCILLNSDDVVAAFDFFQRLPIKDTASWNTMI   77 (571)
Q Consensus         3 ~~~~~~~~~l~~~~~~~~g~~~~A~~~~~~~~~~~~-----~~~~~ll~~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li   77 (571)
                      .++...|..++..++++| ++++|.++|+.|++++.     .+++.++..|.+. |.+++|..+|+.|..||..+||.+|
T Consensus       367 ~~~~~~~~~~y~~l~r~G-~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~-g~~~eAl~lf~~M~~pd~~Tyn~LL  444 (1060)
T PLN03218        367 KRKSPEYIDAYNRLLRDG-RIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQ-RAVKEAFRFAKLIRNPTLSTFNMLM  444 (1060)
T ss_pred             CCCchHHHHHHHHHHHCc-CHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHC-CCHHHHHHHHHHcCCCCHHHHHHHH
Confidence            356677888888889998 99999999999986444     4556677778888 9999999999999999999999999


Q ss_pred             HHHHcCCCHHHHHHHHhhCC----CCCcchHHHHHHHHHHcCChHHHHHHHhhCC----CCChhHHHHHHHHHHhcCCHH
Q 008280           78 SGFVQKKNMAKARDLFLAMP----EKNSVSWSAMISGYIECGQLDKAVELFKVAP----VKSVVAWTAMISGYMKFGKVD  149 (571)
Q Consensus        78 ~~~~~~g~~~~A~~~~~~m~----~~d~~~~~~li~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~g~~~  149 (571)
                      .+|++.|++++|.++|+.|.    .||..+|+++|.+|++.|++++|.++|++|.    .+|..+|++||.+|++.|+++
T Consensus       445 ~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~e  524 (1060)
T PLN03218        445 SVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVA  524 (1060)
T ss_pred             HHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHH
Confidence            99999999999999999985    4788999999999999999999999999886    678899999999999999999


Q ss_pred             HHHHHHhhCC----CCCHHHHHHHHHHHHHcCChhHHHHHHHHHHH--CCCCCCHhHHHHHHHHHhccCchHHHHHHHHH
Q 008280          150 LAEKLFDEMP----TKNLVTWNAMIAGYVENSWAEDGLKLLRMMIG--LGIRPNASSLSSVLLGCSHLSSLQLGKQVHQL  223 (571)
Q Consensus       150 ~A~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~  223 (571)
                      +|.++|++|.    .||.++||.||.+|++.|++++|.++|.+|..  .|+.||..||++++.+|++.|++++|.++|+.
T Consensus       525 eAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~  604 (1060)
T PLN03218        525 KAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQM  604 (1060)
T ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            9999999986    48899999999999999999999999999976  57899999999999999999999999999999


Q ss_pred             HHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCC----CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCH
Q 008280          224 VFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR----KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDS  299 (571)
Q Consensus       224 ~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  299 (571)
                      |.+.|+.|+..+|+.+|.+|++.|++++|.++|++|.+    ||..+|+.+|.+|++.|+.++|.++|++|.+.|+.||.
T Consensus       605 M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~  684 (1060)
T PLN03218        605 IHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGT  684 (1060)
T ss_pred             HHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCH
Confidence            99999999999999999999999999999999999874    68899999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC---CCCCCHhHHHHHHHH
Q 008280          300 ITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM---PFKPQPAIFGTLLSA  376 (571)
Q Consensus       300 ~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~---~~~p~~~~~~~l~~~  376 (571)
                      .+|+.++.+|++.|++++|.++|++|.+. ++.|+..+|++||.+|++.|++++|.++|++|   ++.||..+|++++.+
T Consensus       685 ~tynsLI~ay~k~G~~eeA~~lf~eM~~~-g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~a  763 (1060)
T PLN03218        685 VSYSSLMGACSNAKNWKKALELYEDIKSI-KLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVA  763 (1060)
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence            99999999999999999999999999775 89999999999999999999999999999988   678999999999999


Q ss_pred             HHhcCCHhHHHHHHHHHhccC--CCCCchhHHHHHHHHhhccChhHHHHHHHHHHhCCCc-cCCceeEEEECCEEEEEec
Q 008280          377 CRVHKRLDLAEFAAMNLFNLN--PANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVV-KMPGYSWIEVGTVVHEFRS  453 (571)
Q Consensus       377 ~~~~g~~~~a~~~~~~~~~~~--p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~-~~~~~s~~~~~~~~~~f~~  453 (571)
                      |.+.|++++|.+++.+|.+.+  |+. . +|..|+.+|.  ++++++.++.+.+..-+.. .....+|            
T Consensus       764 ~~k~G~le~A~~l~~~M~k~Gi~pd~-~-tynsLIglc~--~~y~ka~~l~~~v~~f~~g~~~~~n~w------------  827 (1060)
T PLN03218        764 SERKDDADVGLDLLSQAKEDGIKPNL-V-MCRCITGLCL--RRFEKACALGEPVVSFDSGRPQIENKW------------  827 (1060)
T ss_pred             HHHCCCHHHHHHHHHHHHHcCCCCCH-H-HHHHHHHHHH--HHHHHHhhhhhhhhhhhccccccccch------------
Confidence            999999999999999998754  543 3 7888877654  2456665554443321100 0000011            


Q ss_pred             CCCCCcccHHHHHHHHHHHHHHHHcCcccCCcccccccchhhhhhhhhhchHHHHHHHhccCCCCCCcE--EEecccccc
Q 008280          454 GDRVHPELVSIHEKLKELEKRMKLAGYVPDLEFALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPLGTPI--RVFKNLRVC  531 (571)
Q Consensus       454 ~~~~~~~~~~~~~~l~~~~~~m~~~g~~pd~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~~~  531 (571)
                                 ..+...++++|.+.|+.||..++...+....+... ......+--.++..+.+++...  .+++.+  |
T Consensus       828 -----------~~~Al~lf~eM~~~Gi~Pd~~T~~~vL~cl~~~~~-~~~~~~m~~~m~~~~~~~~~~~y~~Li~g~--~  893 (1060)
T PLN03218        828 -----------TSWALMVYRETISAGTLPTMEVLSQVLGCLQLPHD-ATLRNRLIENLGISADSQKQSNLSTLVDGF--G  893 (1060)
T ss_pred             -----------HHHHHHHHHHHHHCCCCCCHHHHHHHHHHhccccc-HHHHHHHHHHhccCCCCcchhhhHHHHHhh--c
Confidence                       13366889999999999999888655421111111 1223344445666655554332  233332  1


Q ss_pred             ccccchhhhhhhhccceE
Q 008280          532 GDCHRATKYISAIEKREI  549 (571)
Q Consensus       532 ~~~~~~~~~~~~~~~~~~  549 (571)
                      ..-++|+.++..|..+.|
T Consensus       894 ~~~~~A~~l~~em~~~Gi  911 (1060)
T PLN03218        894 EYDPRAFSLLEEAASLGV  911 (1060)
T ss_pred             cChHHHHHHHHHHHHcCC
Confidence            112468888887776644

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

Probab=100.00  E-value=3e-56  Score=479.61  Aligned_cols=475  Identities=22%  Similarity=0.322  Sum_probs=407.1

Q ss_pred             CChhhHHHHHHHHHcCCCHHHHHHHHhhCC-----CCCcchHHHHHHHHHHcCChHHHHHHHhhCC----CCChhHHHHH
Q 008280           68 KDTASWNTMISGFVQKKNMAKARDLFLAMP-----EKNSVSWSAMISGYIECGQLDKAVELFKVAP----VKSVVAWTAM  138 (571)
Q Consensus        68 ~d~~~~~~li~~~~~~g~~~~A~~~~~~m~-----~~d~~~~~~li~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~l  138 (571)
                      ++..+|+++|..|.+.|++++|+++|+.|.     .||..+|+.++.+|++.++++.|.+++..|.    .+|+.++|.|
T Consensus        85 ~~~~~~~~~i~~l~~~g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~L  164 (697)
T PLN03081         85 KSGVSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRV  164 (697)
T ss_pred             CCceeHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHHH
Confidence            467799999999999999999999999995     3688999999999999999999999998774    6889999999


Q ss_pred             HHHHHhcCCHHHHHHHHhhCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHH
Q 008280          139 ISGYMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGK  218 (571)
Q Consensus       139 i~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~  218 (571)
                      +++|+++|++++|.++|++|++||+++||++|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|+..|..+.++
T Consensus       165 i~~y~k~g~~~~A~~lf~~m~~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~  244 (697)
T PLN03081        165 LLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQ  244 (697)
T ss_pred             HHHHhcCCCHHHHHHHHhcCCCCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCC
Q 008280          219 QVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPD  298 (571)
Q Consensus       219 ~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  298 (571)
                      ++|..+.+.|+.+|..++++|+++|+++|++++|.++|++|.++|+++||+||.+|++.|+.++|+++|++|.+.|+.||
T Consensus       245 ~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd  324 (697)
T PLN03081        245 QLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSID  324 (697)
T ss_pred             HHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHH
Q 008280          299 SITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACR  378 (571)
Q Consensus       299 ~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~  378 (571)
                      ..||+.++.+|++.|++++|.+++..|.+. |+.|+..+|++|+++|+++|++++|.++|++|. +||..+|++|+.+|.
T Consensus       325 ~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~-g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~-~~d~~t~n~lI~~y~  402 (697)
T PLN03081        325 QFTFSIMIRIFSRLALLEHAKQAHAGLIRT-GFPLDIVANTALVDLYSKWGRMEDARNVFDRMP-RKNLISWNALIAGYG  402 (697)
T ss_pred             HHHHHHHHHHHHhccchHHHHHHHHHHHHh-CCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCC-CCCeeeHHHHHHHHH
Confidence            999999999999999999999999999986 999999999999999999999999999999997 589999999999999


Q ss_pred             hcCCHhHHHHHHHHHhc--cCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHh-CCCccCCceeEEEECCEEEEEecCC
Q 008280          379 VHKRLDLAEFAAMNLFN--LNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKE-NNVVKMPGYSWIEVGTVVHEFRSGD  455 (571)
Q Consensus       379 ~~g~~~~a~~~~~~~~~--~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~-~~~~~~~~~s~~~~~~~~~~f~~~~  455 (571)
                      ++|+.++|.++|++|.+  ..|+..  +|..++.+|.+.|++++|.++|+.|.+ .|+.|... .|..       ++.+.
T Consensus       403 ~~G~~~~A~~lf~~M~~~g~~Pd~~--T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~-~y~~-------li~~l  472 (697)
T PLN03081        403 NHGRGTKAVEMFERMIAEGVAPNHV--TFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAM-HYAC-------MIELL  472 (697)
T ss_pred             HcCCHHHHHHHHHHHHHhCCCCCHH--HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCcc-chHh-------HHHHH
Confidence            99999999999999976  457654  999999999999999999999999986 57765431 1100       11111


Q ss_pred             CCCcccHHHHHHHHHHHHHHHHcCcccCCcccccccchhhhhhhhh---hchHHHHHHHhccCCCCCCcEEEeccccccc
Q 008280          456 RVHPELVSIHEKLKELEKRMKLAGYVPDLEFALHAVGEEVKEQLLL---FHSEKLAIAFGLIKVPLGTPIRVFKNLRVCG  532 (571)
Q Consensus       456 ~~~~~~~~~~~~l~~~~~~m~~~g~~pd~~~~~~~~~~~~~~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  532 (571)
                      ...+       .++++.+.+++.++.||..+|...+..+.+...+-   ...++   .+++.+...+..+.+.+-...+|
T Consensus       473 ~r~G-------~~~eA~~~~~~~~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~---l~~~~p~~~~~y~~L~~~y~~~G  542 (697)
T PLN03081        473 GREG-------LLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEK---LYGMGPEKLNNYVVLLNLYNSSG  542 (697)
T ss_pred             HhcC-------CHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcHHHHHHHHH---HhCCCCCCCcchHHHHHHHHhCC
Confidence            1111       25566677778899999998855444433322210   11111   13333333334444556678899


Q ss_pred             cccchhhhhhhhccceEE-------EecCCccccccCCc
Q 008280          533 DCHRATKYISAIEKREII-------VRDTTRFHHFKDGT  564 (571)
Q Consensus       533 ~~~~~~~~~~~~~~~~~~-------~~~~~~~h~~~~g~  564 (571)
                      +..+|.+++..|..+.+.       +.-.+..|.|-.|-
T Consensus       543 ~~~~A~~v~~~m~~~g~~k~~g~s~i~~~~~~~~f~~~d  581 (697)
T PLN03081        543 RQAEAAKVVETLKRKGLSMHPACTWIEVKKQDHSFFSGD  581 (697)
T ss_pred             CHHHHHHHHHHHHHcCCccCCCeeEEEECCeEEEEccCC
Confidence            999999999988877442       11234567775553

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

Probab=99.97  E-value=1.3e-27  Score=268.36  Aligned_cols=418  Identities=13%  Similarity=0.091  Sum_probs=302.6

Q ss_pred             cchHHHHHHHHHhCCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHcCCCCHHHHHHHHhhCCC---CChhhHHHHHHH
Q 008280            6 TVNWNSVLAGFAKQRGKLKDAQELFDKIPQ---PDVVSYNIMLSCILLNSDDVVAAFDFFQRLPI---KDTASWNTMISG   79 (571)
Q Consensus         6 ~~~~~~l~~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~ll~~~~~~~g~~~~A~~~~~~m~~---~d~~~~~~li~~   79 (571)
                      ......++..|.+.| ++++|.++++.+..   ++..+|+.+...+... |++++|.+.|+++..   .+...+..+...
T Consensus       431 ~~~~~~l~~~~~~~~-~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~A~~~~~~a~~~~~~~~~~~~~la~~  508 (899)
T TIGR02917       431 GRADLLLILSYLRSG-QFDKALAAAKKLEKKQPDNASLHNLLGAIYLGK-GDLAKAREAFEKALSIEPDFFPAAANLARI  508 (899)
T ss_pred             hhhHHHHHHHHHhcC-CHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHhC-CCHHHHHHHHHHHHhhCCCcHHHHHHHHHH
Confidence            345566777777887 88888888877754   4556777777778777 888888888877542   345567777778


Q ss_pred             HHcCCCHHHHHHHHhhCCC---CCcchHHHHHHHHHHcCChHHHHHHHhhCC---CCChhHHHHHHHHHHhcCCHHHHHH
Q 008280           80 FVQKKNMAKARDLFLAMPE---KNSVSWSAMISGYIECGQLDKAVELFKVAP---VKSVVAWTAMISGYMKFGKVDLAEK  153 (571)
Q Consensus        80 ~~~~g~~~~A~~~~~~m~~---~d~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~  153 (571)
                      +...|++++|.+.|+++.+   .+..++..+...+.+.|+.++|...++++.   +.+...+..++..|.+.|++++|..
T Consensus       509 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  588 (899)
T TIGR02917       509 DIQEGNPDDAIQRFEKVLTIDPKNLRAILALAGLYLRTGNEEEAVAWLEKAAELNPQEIEPALALAQYYLGKGQLKKALA  588 (899)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchhHHHHHHHHHHHCCCHHHHHH
Confidence            8888888888888877743   355677777778888888888888877664   3344666777778888888888888


Q ss_pred             HHhhCCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCC
Q 008280          154 LFDEMPT---KNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLC  230 (571)
Q Consensus       154 ~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~  230 (571)
                      +++.+..   .+...|..++.+|...|++++|+..|+++.+.. +.+...+..+...+...|++++|..+++.+.+.. +
T Consensus       589 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~  666 (899)
T TIGR02917       589 ILNEAADAAPDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLKRALELK-P  666 (899)
T ss_pred             HHHHHHHcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-C
Confidence            8877653   456677888888888888888888888777643 3345566677777777888888888887777654 4


Q ss_pred             CCcchHHHHHHHHHhcCCHHHHHHHHHhhCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 008280          231 KDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLL  307 (571)
Q Consensus       231 ~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~  307 (571)
                      .+...+..++..+...|++++|.++++.+.+   .+...|..+...+...|++++|+..|+++...+  |+..++..+..
T Consensus       667 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~l~~  744 (899)
T TIGR02917       667 DNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQHPKAALGFELEGDLYLRQKDYPAAIQAYRKALKRA--PSSQNAIKLHR  744 (899)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCchHHHHHHH
Confidence            4566777777788888888888888777754   345567777777777888888888887777643  44456666777


Q ss_pred             HHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC--CCCCCHhHHHHHHHHHHhcCCHhH
Q 008280          308 ACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM--PFKPQPAIFGTLLSACRVHKRLDL  385 (571)
Q Consensus       308 a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~g~~~~  385 (571)
                      ++.+.|++++|.+.++.+.+  ..+.+...+..+...|.+.|++++|.+.|+++  ..++++.+++.+...+...|+ ++
T Consensus       745 ~~~~~g~~~~A~~~~~~~l~--~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~-~~  821 (899)
T TIGR02917       745 ALLASGNTAEAVKTLEAWLK--THPNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKAPDNAVVLNNLAWLYLELKD-PR  821 (899)
T ss_pred             HHHHCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCc-HH
Confidence            77777777777777777765  33555677777777777777887777777776  222456677777777777777 66


Q ss_pred             HHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhCCC
Q 008280          386 AEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNV  433 (571)
Q Consensus       386 a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  433 (571)
                      |+..++++++..|+++. .+..++.+|...|++++|.++++++.+.+.
T Consensus       822 A~~~~~~~~~~~~~~~~-~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~  868 (899)
T TIGR02917       822 ALEYAEKALKLAPNIPA-ILDTLGWLLVEKGEADRALPLLRKAVNIAP  868 (899)
T ss_pred             HHHHHHHHHhhCCCCcH-HHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            77777777777777776 777777777777777777777777776554

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

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

Probab=99.97  E-value=3.2e-27  Score=265.28  Aligned_cols=419  Identities=14%  Similarity=0.083  Sum_probs=321.0

Q ss_pred             CCCcchHHHHHHHHHhCCCCHHHHHHHHhhCCC--C-ChhhHHHHHHHHHcCCCCHHHHHHHHhhCCC---CChhhHHHH
Q 008280            3 VKTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQ--P-DVVSYNIMLSCILLNSDDVVAAFDFFQRLPI---KDTASWNTM   76 (571)
Q Consensus         3 ~~~~~~~~~l~~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~ll~~~~~~~g~~~~A~~~~~~m~~---~d~~~~~~l   76 (571)
                      +.+...+..+...+...| +.++|.+.|+.+.+  | +...+..++..+.+. |++++|.++++.+..   ++..+|+.+
T Consensus       394 ~~~~~~~~~l~~~~~~~~-~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~-~~~~~A~~~~~~~~~~~~~~~~~~~~l  471 (899)
T TIGR02917       394 PENAAARTQLGISKLSQG-DPSEAIADLETAAQLDPELGRADLLLILSYLRS-GQFDKALAAAKKLEKKQPDNASLHNLL  471 (899)
T ss_pred             CCCHHHHHHHHHHHHhCC-ChHHHHHHHHHHHhhCCcchhhHHHHHHHHHhc-CCHHHHHHHHHHHHHhCCCCcHHHHHH
Confidence            345566777777888887 88888888877654  2 234555667777777 888888888887653   456778888


Q ss_pred             HHHHHcCCCHHHHHHHHhhCCC---CCcchHHHHHHHHHHcCChHHHHHHHhhCC---CCChhHHHHHHHHHHhcCCHHH
Q 008280           77 ISGFVQKKNMAKARDLFLAMPE---KNSVSWSAMISGYIECGQLDKAVELFKVAP---VKSVVAWTAMISGYMKFGKVDL  150 (571)
Q Consensus        77 i~~~~~~g~~~~A~~~~~~m~~---~d~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~  150 (571)
                      ...|...|++++|...|+++.+   .+...+..+...+...|++++|.+.|+.+.   +.+..++..+...|.+.|+.++
T Consensus       472 ~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  551 (899)
T TIGR02917       472 GAIYLGKGDLAKAREAFEKALSIEPDFFPAAANLARIDIQEGNPDDAIQRFEKVLTIDPKNLRAILALAGLYLRTGNEEE  551 (899)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHcCCHHH
Confidence            8888888888888888887643   345567777788888888888888887764   3456777788888888888888


Q ss_pred             HHHHHhhCCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhC
Q 008280          151 AEKLFDEMPT---KNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKS  227 (571)
Q Consensus       151 A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~  227 (571)
                      |...|+++..   .+...+..++..|...|++++|+.+++++.... +.+..++..+...+...|++++|...++.+.+.
T Consensus       552 A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  630 (899)
T TIGR02917       552 AVAWLEKAAELNPQEIEPALALAQYYLGKGQLKKALAILNEAADAA-PDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLAL  630 (899)
T ss_pred             HHHHHHHHHHhCccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            8888887753   345677778888888888888888888887643 456677888888888888888888888888776


Q ss_pred             CCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHH
Q 008280          228 PLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVA  304 (571)
Q Consensus       228 g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~  304 (571)
                      . +.+...+..++.+|.+.|++++|..+|+++.+   .+..+|..++..+...|++++|..+++.+...+ +++...+..
T Consensus       631 ~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~  708 (899)
T TIGR02917       631 Q-PDSALALLLLADAYAVMKNYAKAITSLKRALELKPDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQH-PKAALGFEL  708 (899)
T ss_pred             C-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCChHHHHH
Confidence            4 45566777888888888888888888887653   356778888888888888888888888887764 445666777


Q ss_pred             HHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC--CCCCCHhHHHHHHHHHHhcCC
Q 008280          305 LLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM--PFKPQPAIFGTLLSACRVHKR  382 (571)
Q Consensus       305 ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~g~  382 (571)
                      +...+...|++++|...|+.+...   .|+..++..++.++.+.|++++|.+.++++  ..+.+...+..+...|...|+
T Consensus       709 ~~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~g~  785 (899)
T TIGR02917       709 EGDLYLRQKDYPAAIQAYRKALKR---APSSQNAIKLHRALLASGNTAEAVKTLEAWLKTHPNDAVLRTALAELYLAQKD  785 (899)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhh---CCCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCcC
Confidence            777888888888888888887753   455577777888888888888888888776  223456777788888888888


Q ss_pred             HhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhC
Q 008280          383 LDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKEN  431 (571)
Q Consensus       383 ~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  431 (571)
                      .++|...|+++++..|+++. ++..++.++...|+ ++|..++++..+.
T Consensus       786 ~~~A~~~~~~~~~~~p~~~~-~~~~l~~~~~~~~~-~~A~~~~~~~~~~  832 (899)
T TIGR02917       786 YDKAIKHYRTVVKKAPDNAV-VLNNLAWLYLELKD-PRALEYAEKALKL  832 (899)
T ss_pred             HHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHhcCc-HHHHHHHHHHHhh
Confidence            88888888888888888877 88888888888888 7788888877654

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=99.96  E-value=1.7e-29  Score=201.14  Aligned_cols=106  Identities=67%  Similarity=1.053  Sum_probs=95.8

Q ss_pred             ceeEEEECCEEEEEecCCCCCcccHHHHHHHHHHHHHHHHcCcccCCcccccccchhhh--------hhhhhhchHHHHH
Q 008280          438 GYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGYVPDLEFALHAVGEEVK--------EQLLLFHSEKLAI  509 (571)
Q Consensus       438 ~~s~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~~~~m~~~g~~pd~~~~~~~~~~~~~--------~~~~~~~~~~~a~  509 (571)
                      |+||+++    |.|++|+.+||+.        ++..++...||.|++..+.|++.++++        +..+..||||||+
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            6899986    9999999999987        456677888999999999888777655        5578999999999


Q ss_pred             HHhccCCCCCCcEEEeccc-cccccccchhhhhhhhccceEEEecCCcccccc
Q 008280          510 AFGLIKVPLGTPIRVFKNL-RVCGDCHRATKYISAIEKREIIVRDTTRFHHFK  561 (571)
Q Consensus       510 ~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~h~~~  561 (571)
                      +||++++      +|+||+ |+|+|||+|+|+||++++|+|+|||++|||||+
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            9999998      899998 999999999999999999999999999999996

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

Probab=99.90  E-value=1.9e-21  Score=187.80  Aligned_cols=358  Identities=16%  Similarity=0.192  Sum_probs=164.0

Q ss_pred             CCHHHHHHHHhhCCC---CChhhHHHHHHHHHcCCCHHHHHHHHhhCCC--CCcc-hHHHHHHHHHHcCChHHHHHHHhh
Q 008280           53 DDVVAAFDFFQRLPI---KDTASWNTMISGFVQKKNMAKARDLFLAMPE--KNSV-SWSAMISGYIECGQLDKAVELFKV  126 (571)
Q Consensus        53 g~~~~A~~~~~~m~~---~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~d~~-~~~~li~~~~~~g~~~~A~~~~~~  126 (571)
                      |++++|+.+++.+.+   ..+..|..+..++...|+.+.|...|....+  |+.+ ..+.+....-..|++++|...|.+
T Consensus       130 g~~~~al~~y~~aiel~p~fida~inla~al~~~~~~~~a~~~~~~alqlnP~l~ca~s~lgnLlka~Grl~ea~~cYlk  209 (966)
T KOG4626|consen  130 GQLQDALALYRAAIELKPKFIDAYINLAAALVTQGDLELAVQCFFEALQLNPDLYCARSDLGNLLKAEGRLEEAKACYLK  209 (966)
T ss_pred             chHHHHHHHHHHHHhcCchhhHHHhhHHHHHHhcCCCcccHHHHHHHHhcCcchhhhhcchhHHHHhhcccchhHHHHHH
Confidence            444555544444432   1233444444444445555544444444433  2211 111222223334444444444443


Q ss_pred             CCCCCh---hHHHHHHHHHHhcCCHHHHHHHHhhCCCCCH---HHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCC-Hh
Q 008280          127 APVKSV---VAWTAMISGYMKFGKVDLAEKLFDEMPTKNL---VTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPN-AS  199 (571)
Q Consensus       127 ~~~~~~---~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd-~~  199 (571)
                      ....++   ++|+.|...+-..|++-.|+.-|++...-|+   .+|-.|...|...+.+++|+..|.+....  .|+ ..
T Consensus       210 Ai~~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~l--rpn~A~  287 (966)
T KOG4626|consen  210 AIETQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPNFLDAYINLGNVYKEARIFDRAVSCYLRALNL--RPNHAV  287 (966)
T ss_pred             HHhhCCceeeeehhcchHHhhcchHHHHHHHHHHhhcCCCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhc--CCcchh
Confidence            332221   3444455555555555555555554443221   24444555555555555555555444432  232 23


Q ss_pred             HHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCC---CChhhHHHHHHHHHH
Q 008280          200 SLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQ  276 (571)
Q Consensus       200 t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~  276 (571)
                      .+..+...|-..|.++.|...|++.+... +.-...|+.|.+++-..|++.+|.+.+.+...   .-..+.+.|..+|..
T Consensus       288 a~gNla~iYyeqG~ldlAI~~Ykral~~~-P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p~hadam~NLgni~~E  366 (966)
T KOG4626|consen  288 AHGNLACIYYEQGLLDLAIDTYKRALELQ-PNFPDAYNNLANALKDKGSVTEAVDCYNKALRLCPNHADAMNNLGNIYRE  366 (966)
T ss_pred             hccceEEEEeccccHHHHHHHHHHHHhcC-CCchHHHhHHHHHHHhccchHHHHHHHHHHHHhCCccHHHHHHHHHHHHH
Confidence            34444444444555555555555554442 22344455555555555555555555554432   123344455555555


Q ss_pred             cCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCC-hHhHHHHHHHHHHcCCHHHH
Q 008280          277 HGKGEKALRLFDKMKDEGMKPDS-ITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAK-PDHYTCMVDLLGRAGKLVEA  354 (571)
Q Consensus       277 ~g~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~A  354 (571)
                      .|.+++|..+|....+  +.|.- ..++.|...|.+.|++++|...|++.+   .+.|+ ...|+.+...|-..|+.+.|
T Consensus       367 ~~~~e~A~~ly~~al~--v~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykeal---rI~P~fAda~~NmGnt~ke~g~v~~A  441 (966)
T KOG4626|consen  367 QGKIEEATRLYLKALE--VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEAL---RIKPTFADALSNMGNTYKEMGDVSAA  441 (966)
T ss_pred             hccchHHHHHHHHHHh--hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHH---hcCchHHHHHHhcchHHHHhhhHHHH
Confidence            5555555555554443  22222 234445555555555555555555444   23444 34455555555555555555


Q ss_pred             HHHHHhC-CCCCC-HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChh
Q 008280          355 VDLIKKM-PFKPQ-PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWD  419 (571)
Q Consensus       355 ~~~~~~~-~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~  419 (571)
                      ++.+.+. .+.|. ....+.|...|...|+..+|++.++.++++.|+.+. +|-.|+.+.---.+|.
T Consensus       442 ~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkPDfpd-A~cNllh~lq~vcdw~  507 (966)
T KOG4626|consen  442 IQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKPDFPD-AYCNLLHCLQIVCDWT  507 (966)
T ss_pred             HHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCCCCch-hhhHHHHHHHHHhccc
Confidence            5555444 33333 234445555555555555555555555555555554 5544444443333333

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.90  E-value=7.9e-20  Score=207.04  Aligned_cols=409  Identities=10%  Similarity=0.030  Sum_probs=320.1

Q ss_pred             HHHHHhCCCCHHHHHHHHhhCCC--C-ChhhHHHHHHHHHcCCCCHHHHHHHHhhCCC--CCh---hhHHH---------
Q 008280           13 LAGFAKQRGKLKDAQELFDKIPQ--P-DVVSYNIMLSCILLNSDDVVAAFDFFQRLPI--KDT---ASWNT---------   75 (571)
Q Consensus        13 ~~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~ll~~~~~~~g~~~~A~~~~~~m~~--~d~---~~~~~---------   75 (571)
                      ...+...| ++++|...|++..+  | +...+..|...|.+. |++++|+..|++..+  |+.   ..|..         
T Consensus       276 G~~~~~~g-~~~~A~~~l~~aL~~~P~~~~a~~~Lg~~~~~~-g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~  353 (1157)
T PRK11447        276 GLAAVDSG-QGGKAIPELQQAVRANPKDSEALGALGQAYSQQ-GDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWL  353 (1157)
T ss_pred             HHHHHHCC-CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHH
Confidence            45566777 99999999998765  4 567788888889999 999999999988754  221   12322         


Q ss_pred             ---HHHHHHcCCCHHHHHHHHhhCCC---CCcchHHHHHHHHHHcCChHHHHHHHhhCC---CCChhHHHHHHHHHHhcC
Q 008280           76 ---MISGFVQKKNMAKARDLFLAMPE---KNSVSWSAMISGYIECGQLDKAVELFKVAP---VKSVVAWTAMISGYMKFG  146 (571)
Q Consensus        76 ---li~~~~~~g~~~~A~~~~~~m~~---~d~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g  146 (571)
                         +...+.+.|++++|+..|+++.+   .+...+..+...+...|++++|++.|++..   +.+...+..+...|. .+
T Consensus       354 ~~~~g~~~~~~g~~~eA~~~~~~Al~~~P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~~~~a~~~L~~l~~-~~  432 (1157)
T PRK11447        354 LIQQGDAALKANNLAQAERLYQQARQVDNTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPGNTNAVRGLANLYR-QQ  432 (1157)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH-hc
Confidence               23467789999999999998854   355677888899999999999999999876   344566777777775 46


Q ss_pred             CHHHHHHHHhhCCCCC------------HHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCch
Q 008280          147 KVDLAEKLFDEMPTKN------------LVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSL  214 (571)
Q Consensus       147 ~~~~A~~~~~~~~~~~------------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~  214 (571)
                      +.++|..+++.++...            ...+..+...+...|++++|++.|++..+.. +-+...+..+...+...|++
T Consensus       433 ~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~-P~~~~~~~~LA~~~~~~G~~  511 (1157)
T PRK11447        433 SPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALD-PGSVWLTYRLAQDLRQAGQR  511 (1157)
T ss_pred             CHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCH
Confidence            7899999998876421            1245567788889999999999999998863 22455677788889999999


Q ss_pred             HHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCCCC----h---------hhHHHHHHHHHHcCChH
Q 008280          215 QLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKD----V---------VTWNAMISGYAQHGKGE  281 (571)
Q Consensus       215 ~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~----~---------~~~~~li~~~~~~g~~~  281 (571)
                      ++|...++.+++.. +.+...+..+...+.+.|+.++|...++.+....    .         ..+..+...+...|+.+
T Consensus       512 ~~A~~~l~~al~~~-P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~  590 (1157)
T PRK11447        512 SQADALMRRLAQQK-PNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEA  590 (1157)
T ss_pred             HHHHHHHHHHHHcC-CCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHH
Confidence            99999999998764 4455566666677788999999999999886421    1         11234567788999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC
Q 008280          282 KALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM  361 (571)
Q Consensus       282 ~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~  361 (571)
                      +|+.+++.     .+++...+..+...+.+.|++++|...|+.+.+.  -+.++..+..++.+|...|++++|++.++..
T Consensus       591 eA~~~l~~-----~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~--~P~~~~a~~~la~~~~~~g~~~eA~~~l~~l  663 (1157)
T PRK11447        591 EAEALLRQ-----QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTR--EPGNADARLGLIEVDIAQGDLAAARAQLAKL  663 (1157)
T ss_pred             HHHHHHHh-----CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            99999872     2345556777888999999999999999999873  3455888999999999999999999999987


Q ss_pred             C-CCCC-HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCc-----hhHHHHHHHHhhccChhHHHHHHHHHH-hCCC
Q 008280          362 P-FKPQ-PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA-----GCYVQLANIYAAMKKWDDVARIRLSMK-ENNV  433 (571)
Q Consensus       362 ~-~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~-----~~~~~l~~~~~~~g~~~~a~~~~~~m~-~~~~  433 (571)
                      . ..|+ ...+..+..++...|++++|...++++++..|+++.     ..+..++.++...|++++|.+.++... ..|+
T Consensus       664 l~~~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al~~~~~  743 (1157)
T PRK11447        664 PATANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDAMVASGI  743 (1157)
T ss_pred             hccCCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhcCC
Confidence            3 3344 567777888899999999999999999988765432     145567899999999999999998775 3444

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.90  E-value=1.8e-19  Score=204.08  Aligned_cols=410  Identities=15%  Similarity=0.109  Sum_probs=246.6

Q ss_pred             HHHHHHHHhCCCCHHHHHHHHhhCCC--CChhhHH-HHHHHHHcCCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHcC
Q 008280           10 NSVLAGFAKQRGKLKDAQELFDKIPQ--PDVVSYN-IMLSCILLNSDDVVAAFDFFQRLPI---KDTASWNTMISGFVQK   83 (571)
Q Consensus        10 ~~l~~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~-~ll~~~~~~~g~~~~A~~~~~~m~~---~d~~~~~~li~~~~~~   83 (571)
                      ..+...+.+.| ++++|.+.|+++.+  |+..... ..........|+.++|++.|+++..   .+...+..+...+...
T Consensus       116 l~~A~ll~~~g-~~~eA~~~~~~~l~~~p~~~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~P~~~~~~~~LA~ll~~~  194 (1157)
T PRK11447        116 LQQARLLATTG-RTEEALASYDKLFNGAPPELDLAVEYWRLVAKLPAQRPEAINQLQRLNADYPGNTGLRNTLALLLFSS  194 (1157)
T ss_pred             HHHHHHHHhCC-CHHHHHHHHHHHccCCCCChHHHHHHHHHHhhCCccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHcc
Confidence            34455778888 99999999998875  3222211 1112222223899999999998864   3556788889999999


Q ss_pred             CCHHHHHHHHhhCCCCCc------ch-----------------HH----------------------------------H
Q 008280           84 KNMAKARDLFLAMPEKNS------VS-----------------WS----------------------------------A  106 (571)
Q Consensus        84 g~~~~A~~~~~~m~~~d~------~~-----------------~~----------------------------------~  106 (571)
                      |+.++|+..|+++.+...      ..                 +.                                  .
T Consensus       195 g~~~eAl~~l~~~~~~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~dp~~~~~~  274 (1157)
T PRK11447        195 GRRDEGFAVLEQMAKSPAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLADPAFRARA  274 (1157)
T ss_pred             CCHHHHHHHHHHHhhCCCchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccCcchHHHH
Confidence            999999999987632110      00                 00                                  1


Q ss_pred             HHHHHHHcCChHHHHHHHhhCC---CCChhHHHHHHHHHHhcCCHHHHHHHHhhCCC--CCH---HHHHH----------
Q 008280          107 MISGYIECGQLDKAVELFKVAP---VKSVVAWTAMISGYMKFGKVDLAEKLFDEMPT--KNL---VTWNA----------  168 (571)
Q Consensus       107 li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~---~~~~~----------  168 (571)
                      ....+...|++++|+..|++..   +.+..++..|...|.+.|++++|+..|++..+  |+.   ..|..          
T Consensus       275 ~G~~~~~~g~~~~A~~~l~~aL~~~P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~  354 (1157)
T PRK11447        275 QGLAAVDSGQGGKAIPELQQAVRANPKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLL  354 (1157)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHH
Confidence            1234556788888888887664   34567778888888888888888888877653  221   12222          


Q ss_pred             --HHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhc
Q 008280          169 --MIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKC  246 (571)
Q Consensus       169 --li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~  246 (571)
                        +...+.+.|++++|+..|+++.+.. +.+...+..+...+...|++++|.+.++.+++.. +.+...+..+...|. .
T Consensus       355 ~~~g~~~~~~g~~~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~-p~~~~a~~~L~~l~~-~  431 (1157)
T PRK11447        355 IQQGDAALKANNLAQAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMD-PGNTNAVRGLANLYR-Q  431 (1157)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH-h
Confidence              2345667888888888888887753 2345566667777788888888888888887754 333444444444442 2


Q ss_pred             CCHHHHHHHHHhhCCCC------------hhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcC
Q 008280          247 GDLEDACKLFLEIQRKD------------VVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPD-SITFVALLLACNHAG  313 (571)
Q Consensus       247 g~~~~A~~~~~~~~~~~------------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g  313 (571)
                      ++.++|..+++.+....            ...+..+...+...|++++|++.|++..+..  |+ ...+..+...+.+.|
T Consensus       432 ~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~--P~~~~~~~~LA~~~~~~G  509 (1157)
T PRK11447        432 QSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALD--PGSVWLTYRLAQDLRQAG  509 (1157)
T ss_pred             cCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcC
Confidence            33444444444332110            1122233344444555555555555554432  22 233344444555555


Q ss_pred             cHHHHHHHHHHhHHhcCCCCChHhH--------------------------------------------HHHHHHHHHcC
Q 008280          314 LVDLGIQYFDSMVNDYGIAAKPDHY--------------------------------------------TCMVDLLGRAG  349 (571)
Q Consensus       314 ~~~~a~~~~~~~~~~~~~~~~~~~~--------------------------------------------~~li~~~~~~g  349 (571)
                      ++++|...++.+.+..  +.++..+                                            ..+.+.+...|
T Consensus       510 ~~~~A~~~l~~al~~~--P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G  587 (1157)
T PRK11447        510 QRSQADALMRRLAQQK--PNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSG  587 (1157)
T ss_pred             CHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCC
Confidence            5555555555544321  1111111                                            12234455556


Q ss_pred             CHHHHHHHHHhCCCCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHH
Q 008280          350 KLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMK  429 (571)
Q Consensus       350 ~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  429 (571)
                      +.++|+++++.-|  ++...+..+...+...|++++|+..++++++.+|+++. ++..++.+|...|++++|.+.++...
T Consensus       588 ~~~eA~~~l~~~p--~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~P~~~~-a~~~la~~~~~~g~~~eA~~~l~~ll  664 (1157)
T PRK11447        588 KEAEAEALLRQQP--PSTRIDLTLADWAQQRGDYAAARAAYQRVLTREPGNAD-ARLGLIEVDIAQGDLAAARAQLAKLP  664 (1157)
T ss_pred             CHHHHHHHHHhCC--CCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHHCCCHHHHHHHHHHHh
Confidence            6666666665432  33445566666777777777777777777777777776 77777777777777777777777655


Q ss_pred             h
Q 008280          430 E  430 (571)
Q Consensus       430 ~  430 (571)
                      +
T Consensus       665 ~  665 (1157)
T PRK11447        665 A  665 (1157)
T ss_pred             c
Confidence            4

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

Probab=99.89  E-value=6.6e-21  Score=184.03  Aligned_cols=356  Identities=12%  Similarity=0.109  Sum_probs=309.3

Q ss_pred             hhhHHHHHHHHHcCCCHHHHHHHHhhCCC--C-CcchHHHHHHHHHHcCChHHHHHHHhhCCCCChhH---HHHHHHHHH
Q 008280           70 TASWNTMISGFVQKKNMAKARDLFLAMPE--K-NSVSWSAMISGYIECGQLDKAVELFKVAPVKSVVA---WTAMISGYM  143 (571)
Q Consensus        70 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~-d~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~---~~~li~~~~  143 (571)
                      ..+|..+.+.+-..|++++|+.+++.+.+  | .+..|..+..++...|+.+.|.+.|.+.+.-++..   .+.+.....
T Consensus       116 ae~ysn~aN~~kerg~~~~al~~y~~aiel~p~fida~inla~al~~~~~~~~a~~~~~~alqlnP~l~ca~s~lgnLlk  195 (966)
T KOG4626|consen  116 AEAYSNLANILKERGQLQDALALYRAAIELKPKFIDAYINLAAALVTQGDLELAVQCFFEALQLNPDLYCARSDLGNLLK  195 (966)
T ss_pred             HHHHHHHHHHHHHhchHHHHHHHHHHHHhcCchhhHHHhhHHHHHHhcCCCcccHHHHHHHHhcCcchhhhhcchhHHHH
Confidence            45788899999999999999999999865  3 56799999999999999999999999887666533   344666777


Q ss_pred             hcCCHHHHHHHHhhCCC--CC-HHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCC-HhHHHHHHHHHhccCchHHHHH
Q 008280          144 KFGKVDLAEKLFDEMPT--KN-LVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPN-ASSLSSVLLGCSHLSSLQLGKQ  219 (571)
Q Consensus       144 ~~g~~~~A~~~~~~~~~--~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd-~~t~~~ll~~~~~~~~~~~a~~  219 (571)
                      ..|++.+|...+.+..+  |. .+.|+.|...+..+|+.-+|+..|++....  .|+ ...|..+...+...+.++.|..
T Consensus       196 a~Grl~ea~~cYlkAi~~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkl--dP~f~dAYiNLGnV~ke~~~~d~Avs  273 (966)
T KOG4626|consen  196 AEGRLEEAKACYLKAIETQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKL--DPNFLDAYINLGNVYKEARIFDRAVS  273 (966)
T ss_pred             hhcccchhHHHHHHHHhhCCceeeeehhcchHHhhcchHHHHHHHHHHhhcC--CCcchHHHhhHHHHHHHHhcchHHHH
Confidence            78999999999988765  43 368999999999999999999999999875  454 3578889999999999999999


Q ss_pred             HHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCCC---ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCC
Q 008280          220 VHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRK---DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMK  296 (571)
Q Consensus       220 ~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  296 (571)
                      .|..+.... +....++..|...|-..|.++.|+..+++..+.   -...|+.|..++-..|+..+|...+.+....  .
T Consensus       274 ~Y~rAl~lr-pn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l--~  350 (966)
T KOG4626|consen  274 CYLRALNLR-PNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQPNFPDAYNNLANALKDKGSVTEAVDCYNKALRL--C  350 (966)
T ss_pred             HHHHHHhcC-CcchhhccceEEEEeccccHHHHHHHHHHHHhcCCCchHHHhHHHHHHHhccchHHHHHHHHHHHHh--C
Confidence            999888764 455677888889999999999999999998753   3578999999999999999999999998875  4


Q ss_pred             CC-HHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCC-hHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCH-hHHHH
Q 008280          297 PD-SITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAK-PDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQP-AIFGT  372 (571)
Q Consensus       297 p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~-~~~~~  372 (571)
                      |+ ..+.+.|...+...|.+++|..+|....+   +.|. ....+.|...|-..|++++|+..|++. .++|+. ..++.
T Consensus       351 p~hadam~NLgni~~E~~~~e~A~~ly~~al~---v~p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI~P~fAda~~N  427 (966)
T KOG4626|consen  351 PNHADAMNNLGNIYREQGKIEEATRLYLKALE---VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALRIKPTFADALSN  427 (966)
T ss_pred             CccHHHHHHHHHHHHHhccchHHHHHHHHHHh---hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhcCchHHHHHHh
Confidence            44 45788999999999999999999998875   4555 667889999999999999999999887 788885 78999


Q ss_pred             HHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhCCCc
Q 008280          373 LLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVV  434 (571)
Q Consensus       373 l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  434 (571)
                      +...|...|+.+.|.+.+.+++..+|.-.. ++..|+.+|-.+|++.+|+.-++...+....
T Consensus       428 mGnt~ke~g~v~~A~q~y~rAI~~nPt~Ae-AhsNLasi~kDsGni~~AI~sY~~aLklkPD  488 (966)
T KOG4626|consen  428 MGNTYKEMGDVSAAIQCYTRAIQINPTFAE-AHSNLASIYKDSGNIPEAIQSYRTALKLKPD  488 (966)
T ss_pred             cchHHHHhhhHHHHHHHHHHHHhcCcHHHH-HHhhHHHHhhccCCcHHHHHHHHHHHccCCC
Confidence            999999999999999999999999999988 9999999999999999999999988765544

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.88  E-value=3.7e-20  Score=187.12  Aligned_cols=292  Identities=11%  Similarity=0.096  Sum_probs=208.8

Q ss_pred             HHHhcCCHHHHHHHHhhCCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCC---HhHHHHHHHHHhccCch
Q 008280          141 GYMKFGKVDLAEKLFDEMPT---KNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPN---ASSLSSVLLGCSHLSSL  214 (571)
Q Consensus       141 ~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd---~~t~~~ll~~~~~~~~~  214 (571)
                      .+...|++++|...|+++.+   .+..+|..+...+...|++++|+.+++.+...+..++   ...+..+...+...|++
T Consensus        44 ~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~  123 (389)
T PRK11788         44 NFLLNEQPDKAIDLFIEMLKVDPETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLL  123 (389)
T ss_pred             HHHhcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCH
Confidence            34455666666666666653   2334566666666666666666666666665321111   13445556666666677


Q ss_pred             HHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCCCC--------hhhHHHHHHHHHHcCChHHHHHH
Q 008280          215 QLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKD--------VVTWNAMISGYAQHGKGEKALRL  286 (571)
Q Consensus       215 ~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~--------~~~~~~li~~~~~~g~~~~A~~~  286 (571)
                      +.|..++..+.+.. +.+..+++.++.+|.+.|++++|.+.|+.+.+.+        ...|..++..+.+.|++++|...
T Consensus       124 ~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~  202 (389)
T PRK11788        124 DRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARAL  202 (389)
T ss_pred             HHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHH
Confidence            77777776666543 3455666777777777777777777777765321        12355677778888999999999


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCC--hHhHHHHHHHHHHcCCHHHHHHHHHhC-CC
Q 008280          287 FDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAK--PDHYTCMVDLLGRAGKLVEAVDLIKKM-PF  363 (571)
Q Consensus       287 ~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~A~~~~~~~-~~  363 (571)
                      |+++.+.. +.+...+..+...+.+.|++++|.++++++.+.   .|+  ...+..++.+|.+.|++++|.+.++++ ..
T Consensus       203 ~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~---~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~  278 (389)
T PRK11788        203 LKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQ---DPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEE  278 (389)
T ss_pred             HHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH---ChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            99887653 223456777778888899999999999988753   333  456788889999999999999999887 34


Q ss_pred             CCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhh---ccChhHHHHHHHHHHhCCCccCCce
Q 008280          364 KPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAA---MKKWDDVARIRLSMKENNVVKMPGY  439 (571)
Q Consensus       364 ~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~---~g~~~~a~~~~~~m~~~~~~~~~~~  439 (571)
                      .|+...+..++..+...|++++|...++++++..|+++  .+..+...+..   .|+.+++..++++|.++++.+.|.+
T Consensus       279 ~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~P~~~--~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p~~  355 (389)
T PRK11788        279 YPGADLLLALAQLLEEQEGPEAAQALLREQLRRHPSLR--GFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKPRY  355 (389)
T ss_pred             CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcCHH--HHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCCCE
Confidence            57777778888999999999999999999999999876  56666655553   5689999999999999999988864

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

Probab=99.88  E-value=7.4e-19  Score=187.12  Aligned_cols=251  Identities=14%  Similarity=0.091  Sum_probs=205.6

Q ss_pred             cCChhHHHHHHHHHHHCC-CCC-CHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHH
Q 008280          176 NSWAEDGLKLLRMMIGLG-IRP-NASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDAC  253 (571)
Q Consensus       176 ~g~~~~A~~~~~~m~~~g-~~p-d~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~  253 (571)
                      .+++++|++.|++....+ ..| +...+..+...+...|++++|...++.+++.. +.+...+..+...|...|++++|.
T Consensus       307 ~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~  385 (615)
T TIGR00990       307 DESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELD-PRVTQSYIKRASMNLELGDPDKAE  385 (615)
T ss_pred             hhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHCCCHHHHH
Confidence            468999999999998764 234 34566777777788999999999999998874 444667888999999999999999


Q ss_pred             HHHHhhCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcC
Q 008280          254 KLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYG  330 (571)
Q Consensus       254 ~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~  330 (571)
                      ..|++..+   .+...|..+...+...|++++|+..|++..+.. +.+...+..+..++.+.|++++|...|+...+.  
T Consensus       386 ~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~--  462 (615)
T TIGR00990       386 EDFDKALKLNSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVTQYKEGSIASSMATFRRCKKN--  462 (615)
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--
Confidence            99998754   467889999999999999999999999998753 234566777888999999999999999998863  


Q ss_pred             CCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCH--------hHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCC
Q 008280          331 IAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQP--------AIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANA  401 (571)
Q Consensus       331 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~--------~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~  401 (571)
                      .+.++..+..+..++...|++++|++.|++. ...|+.        ..++..+..+...|++++|+..++++++++|++.
T Consensus       463 ~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~p~~~  542 (615)
T TIGR00990       463 FPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIIDPECD  542 (615)
T ss_pred             CCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcH
Confidence            4555888999999999999999999999886 333321        1122222334457999999999999999999998


Q ss_pred             chhHHHHHHHHhhccChhHHHHHHHHHHhC
Q 008280          402 AGCYVQLANIYAAMKKWDDVARIRLSMKEN  431 (571)
Q Consensus       402 ~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  431 (571)
                      . .+..++.+|...|++++|.+.|++..+.
T Consensus       543 ~-a~~~la~~~~~~g~~~eAi~~~e~A~~l  571 (615)
T TIGR00990       543 I-AVATMAQLLLQQGDVDEALKLFERAAEL  571 (615)
T ss_pred             H-HHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            7 8999999999999999999999987653

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.86  E-value=5.7e-19  Score=178.42  Aligned_cols=279  Identities=16%  Similarity=0.157  Sum_probs=185.4

Q ss_pred             HHHcCCCHHHHHHHHhhCCC--C-CcchHHHHHHHHHHcCChHHHHHHHhhCCCCC-------hhHHHHHHHHHHhcCCH
Q 008280           79 GFVQKKNMAKARDLFLAMPE--K-NSVSWSAMISGYIECGQLDKAVELFKVAPVKS-------VVAWTAMISGYMKFGKV  148 (571)
Q Consensus        79 ~~~~~g~~~~A~~~~~~m~~--~-d~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-------~~~~~~li~~~~~~g~~  148 (571)
                      .+...|++++|+..|.++.+  | +..++..+...+...|++++|..+++.+....       ..++..+...|.+.|++
T Consensus        44 ~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~  123 (389)
T PRK11788         44 NFLLNEQPDKAIDLFIEMLKVDPETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLL  123 (389)
T ss_pred             HHHhcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCH
Confidence            34455666666666666543  2 23345555555555566666655555543211       12334444445555555


Q ss_pred             HHHHHHHhhCCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHH
Q 008280          149 DLAEKLFDEMPT---KNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVF  225 (571)
Q Consensus       149 ~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~  225 (571)
                      ++|..+|+++.+   .+..+++.++..+.+.|++++|++.++++.                                   
T Consensus       124 ~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~-----------------------------------  168 (389)
T PRK11788        124 DRAEELFLQLVDEGDFAEGALQQLLEIYQQEKDWQKAIDVAERLE-----------------------------------  168 (389)
T ss_pred             HHHHHHHHHHHcCCcchHHHHHHHHHHHHHhchHHHHHHHHHHHH-----------------------------------
Confidence            555555544433   233344444455555555555555554444                                   


Q ss_pred             hCCCCCC----cchHHHHHHHHHhcCCHHHHHHHHHhhCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCC
Q 008280          226 KSPLCKD----TTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPD  298 (571)
Q Consensus       226 ~~g~~~~----~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  298 (571)
                      +.+..+.    ...+..++..+.+.|++++|...|+++.+   .+...+..++..|.+.|++++|.++|+++...+..+.
T Consensus       169 ~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~  248 (389)
T PRK11788        169 KLGGDSLRVEIAHFYCELAQQALARGDLDAARALLKKALAADPQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYL  248 (389)
T ss_pred             HhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhH
Confidence            4321111    11345577778888999999988888764   2456788888999999999999999999987543222


Q ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCHhHHHHHHHHH
Q 008280          299 SITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQPAIFGTLLSAC  377 (571)
Q Consensus       299 ~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~  377 (571)
                      ..++..+..++...|++++|...++.+.+.   .|+...+..++..+.+.|++++|..+++++ ...|+...++.++..+
T Consensus       249 ~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~---~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~P~~~~~~~l~~~~  325 (389)
T PRK11788        249 SEVLPKLMECYQALGDEAEGLEFLRRALEE---YPGADLLLALAQLLEEQEGPEAAQALLREQLRRHPSLRGFHRLLDYH  325 (389)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcCHHHHHHHHHHh
Confidence            456788889999999999999999998763   567677788999999999999999999876 5568988998888876


Q ss_pred             Hh---cCCHhHHHHHHHHHhc
Q 008280          378 RV---HKRLDLAEFAAMNLFN  395 (571)
Q Consensus       378 ~~---~g~~~~a~~~~~~~~~  395 (571)
                      ..   +|+.+++...++++++
T Consensus       326 ~~~~~~g~~~~a~~~~~~~~~  346 (389)
T PRK11788        326 LAEAEEGRAKESLLLLRDLVG  346 (389)
T ss_pred             hhccCCccchhHHHHHHHHHH
Confidence            64   5688899999988875

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.85  E-value=8.2e-18  Score=178.61  Aligned_cols=345  Identities=11%  Similarity=0.038  Sum_probs=252.9

Q ss_pred             CCHHHHHHHHhhCCCC------ChhhHHHHHHHHHcCCCHHHHHHHHhhCCC---CCcchHHHHHHHHHHcCChHHHHHH
Q 008280           53 DDVVAAFDFFQRLPIK------DTASWNTMISGFVQKKNMAKARDLFLAMPE---KNSVSWSAMISGYIECGQLDKAVEL  123 (571)
Q Consensus        53 g~~~~A~~~~~~m~~~------d~~~~~~li~~~~~~g~~~~A~~~~~~m~~---~d~~~~~~li~~~~~~g~~~~A~~~  123 (571)
                      .+++.-.-.|...++.      +..-..-++..+.+.|++++|+.+++....   .+...+..++.+....|++++|++.
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            5555555555544431      222233456667788888888888887743   3455666777777788888888888


Q ss_pred             HhhCC---CCChhHHHHHHHHHHhcCCHHHHHHHHhhCCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCC
Q 008280          124 FKVAP---VKSVVAWTAMISGYMKFGKVDLAEKLFDEMPT---KNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPN  197 (571)
Q Consensus       124 ~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd  197 (571)
                      ++++.   +.+...+..+...+.+.|++++|...|++..+   .+...|..++..+...|++++|...++++....  |+
T Consensus        99 l~~~l~~~P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~--P~  176 (656)
T PRK15174         99 VNKLLAVNVCQPEDVLLVASVLLKSKQYATVADLAEQAWLAFSGNSQIFALHLRTLVLMDKELQAISLARTQAQEV--PP  176 (656)
T ss_pred             HHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhC--CC
Confidence            88775   44557788888888888999999888888764   345678888888899999999998888876643  33


Q ss_pred             HhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCC---CChhhHHHHHHHH
Q 008280          198 ASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGY  274 (571)
Q Consensus       198 ~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~  274 (571)
                      .......+..+...|++++|...++.+++....++......+...+.+.|++++|...|++..+   .+...+..+...|
T Consensus       177 ~~~a~~~~~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p~~~~~~~~Lg~~l  256 (656)
T PRK15174        177 RGDMIATCLSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARGLDGAALRRSLGLAY  256 (656)
T ss_pred             CHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHH
Confidence            3222222334677889999988888887764333444455567788889999999999888764   3567788888889


Q ss_pred             HHcCChHH----HHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCC
Q 008280          275 AQHGKGEK----ALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGK  350 (571)
Q Consensus       275 ~~~g~~~~----A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  350 (571)
                      ...|++++    |+..|++..... +.+...+..+...+...|++++|...+++..+.  -+.+...+..+..+|.+.|+
T Consensus       257 ~~~G~~~eA~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l--~P~~~~a~~~La~~l~~~G~  333 (656)
T PRK15174        257 YQSGRSREAKLQAAEHWRHALQFN-SDNVRIVTLYADALIRTGQNEKAIPLLQQSLAT--HPDLPYVRAMYARALRQVGQ  333 (656)
T ss_pred             HHcCCchhhHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCC
Confidence            99998885    788898888753 224557778888899999999999999988763  23346677788889999999


Q ss_pred             HHHHHHHHHhC-CCCCCHhH-HHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCc
Q 008280          351 LVEAVDLIKKM-PFKPQPAI-FGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA  402 (571)
Q Consensus       351 ~~~A~~~~~~~-~~~p~~~~-~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~  402 (571)
                      +++|++.|+++ ...|+... +..+..++...|+.++|...|+++++..|++..
T Consensus       334 ~~eA~~~l~~al~~~P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~~P~~~~  387 (656)
T PRK15174        334 YTAASDEFVQLAREKGVTSKWNRYAAAALLQAGKTSEAESVFEHYIQARASHLP  387 (656)
T ss_pred             HHHHHHHHHHHHHhCccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhChhhch
Confidence            99999999887 23455433 344566788999999999999999999888654

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.85  E-value=1.8e-17  Score=179.80  Aligned_cols=374  Identities=10%  Similarity=0.038  Sum_probs=207.8

Q ss_pred             CCHHHHHHHHhhCCC---CChhhHHHHHHHHHcCCCHHHHHHHHhhCCC---CCcchHHHHHHHHHHcCChHHHHHHHhh
Q 008280           53 DDVVAAFDFFQRLPI---KDTASWNTMISGFVQKKNMAKARDLFLAMPE---KNSVSWSAMISGYIECGQLDKAVELFKV  126 (571)
Q Consensus        53 g~~~~A~~~~~~m~~---~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~---~d~~~~~~li~~~~~~g~~~~A~~~~~~  126 (571)
                      |+.++|++++.+...   .+...+..+..++.+.|++++|..+|++..+   .+...+..++..+...|++++|+..+++
T Consensus        29 g~~~~A~~~~~~~~~~~~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~l~~~g~~~eA~~~l~~  108 (765)
T PRK10049         29 GQDAEVITVYNRYRVHMQLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLEPQNDDYQRGLILTLADAGQYDEALVKAKQ  108 (765)
T ss_pred             CCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            566666666555432   2223355555566666666666666665421   2334455555555666666666666555


Q ss_pred             CC---CCChhHHHHHHHHHHhcCCHHHHHHHHhhCCC--C-CHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCH--
Q 008280          127 AP---VKSVVAWTAMISGYMKFGKVDLAEKLFDEMPT--K-NLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNA--  198 (571)
Q Consensus       127 ~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~--  198 (571)
                      ..   +.+.. +..+..++...|+.++|...++++.+  | +...+..+...+...|..++|++.+++...   .|+.  
T Consensus       109 ~l~~~P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P~~~~~~~~la~~l~~~~~~e~Al~~l~~~~~---~p~~~~  184 (765)
T PRK10049        109 LVSGAPDKAN-LLALAYVYKRAGRHWDELRAMTQALPRAPQTQQYPTEYVQALRNNRLSAPALGAIDDANL---TPAEKR  184 (765)
T ss_pred             HHHhCCCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCChHHHHHHHHhCCC---CHHHHH
Confidence            43   22334 55555566666666666666655543  2 333444555555555666666655554332   2221  


Q ss_pred             ----hHHHHHHHHH-----hccCch---HHHHHHHHHHHhC-CCCCCcc-hH-HH---HHHHHHhcCCHHHHHHHHHhhC
Q 008280          199 ----SSLSSVLLGC-----SHLSSL---QLGKQVHQLVFKS-PLCKDTT-AL-TP---LISMYCKCGDLEDACKLFLEIQ  260 (571)
Q Consensus       199 ----~t~~~ll~~~-----~~~~~~---~~a~~~~~~~~~~-g~~~~~~-~~-~~---li~~y~~~g~~~~A~~~~~~~~  260 (571)
                          .....++...     ...+.+   ++|...++.+++. ...|+.. .+ ..   .+.++...|++++|+..|+.+.
T Consensus       185 ~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll  264 (765)
T PRK10049        185 DLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLK  264 (765)
T ss_pred             HHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhh
Confidence                0011111111     111122   4555566655543 1122211 11 01   1223345577777777777766


Q ss_pred             CCC--hh--hHHHHHHHHHHcCChHHHHHHHHHHHHcCCCC---CHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcC---
Q 008280          261 RKD--VV--TWNAMISGYAQHGKGEKALRLFDKMKDEGMKP---DSITFVALLLACNHAGLVDLGIQYFDSMVNDYG---  330 (571)
Q Consensus       261 ~~~--~~--~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p---~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~---  330 (571)
                      +.+  ..  .-..+...|...|++++|+.+|+++.......   .......+..++...|++++|.++++.+.....   
T Consensus       265 ~~~~~~P~~a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~  344 (765)
T PRK10049        265 AEGQIIPPWAQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFL  344 (765)
T ss_pred             ccCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceE
Confidence            432  11  11224556777777777777777765532111   123344555566777777777777777664210   


Q ss_pred             -------CCCC---hHhHHHHHHHHHHcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCC
Q 008280          331 -------IAAK---PDHYTCMVDLLGRAGKLVEAVDLIKKM-PFK-PQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNP  398 (571)
Q Consensus       331 -------~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p  398 (571)
                             -.|+   ...+..+..++...|++++|+++++++ ... .+...+..+...+...|++++|+..++++++++|
T Consensus       345 ~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~P  424 (765)
T PRK10049        345 RLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNAPGNQGLRIDYASVLQARGWPRAAENELKKAEVLEP  424 (765)
T ss_pred             eecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhCC
Confidence                   0112   224455667777778888888887776 222 3356777777777788888888888888888888


Q ss_pred             CCCchhHHHHHHHHhhccChhHHHHHHHHHHhC
Q 008280          399 ANAAGCYVQLANIYAAMKKWDDVARIRLSMKEN  431 (571)
Q Consensus       399 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  431 (571)
                      +++. .+..++..+...|++++|.++++.+.+.
T Consensus       425 d~~~-l~~~~a~~al~~~~~~~A~~~~~~ll~~  456 (765)
T PRK10049        425 RNIN-LEVEQAWTALDLQEWRQMDVLTDDVVAR  456 (765)
T ss_pred             CChH-HHHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence            8777 7777777778888888888888777654

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.84  E-value=7.5e-17  Score=174.94  Aligned_cols=388  Identities=9%  Similarity=-0.027  Sum_probs=297.3

Q ss_pred             HHHHHHHHHhCCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHcCCCCHHHHHHHHhhC---CCCChhhHHHHHHHHHc
Q 008280            9 WNSVLAGFAKQRGKLKDAQELFDKIPQ---PDVVSYNIMLSCILLNSDDVVAAFDFFQRL---PIKDTASWNTMISGFVQ   82 (571)
Q Consensus         9 ~~~l~~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~ll~~~~~~~g~~~~A~~~~~~m---~~~d~~~~~~li~~~~~   82 (571)
                      ..-.+......| +.++|.+++.+...   .+...+..+...+... |++++|.++|++.   ...+...+..+..++..
T Consensus        18 ~~d~~~ia~~~g-~~~~A~~~~~~~~~~~~~~a~~~~~lA~~~~~~-g~~~~A~~~~~~al~~~P~~~~a~~~la~~l~~   95 (765)
T PRK10049         18 IADWLQIALWAG-QDAEVITVYNRYRVHMQLPARGYAAVAVAYRNL-KQWQNSLTLWQKALSLEPQNDDYQRGLILTLAD   95 (765)
T ss_pred             HHHHHHHHHHcC-CHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            344566667788 99999999998764   3344578888888888 9999999999994   34567778889999999


Q ss_pred             CCCHHHHHHHHhhCCC--C-CcchHHHHHHHHHHcCChHHHHHHHhhCC---CCChhHHHHHHHHHHhcCCHHHHHHHHh
Q 008280           83 KKNMAKARDLFLAMPE--K-NSVSWSAMISGYIECGQLDKAVELFKVAP---VKSVVAWTAMISGYMKFGKVDLAEKLFD  156 (571)
Q Consensus        83 ~g~~~~A~~~~~~m~~--~-d~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~  156 (571)
                      .|++++|+..+++..+  | +.. +..+..++...|+.++|+..++++.   +.+...+..+..++...+..+.|...++
T Consensus        96 ~g~~~eA~~~l~~~l~~~P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P~~~~~~~~la~~l~~~~~~e~Al~~l~  174 (765)
T PRK10049         96 AGQYDEALVKAKQLVSGAPDKAN-LLALAYVYKRAGRHWDELRAMTQALPRAPQTQQYPTEYVQALRNNRLSAPALGAID  174 (765)
T ss_pred             CCCHHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCChHHHHHHHH
Confidence            9999999999998854  3 455 8888899999999999999999875   4455677788889999999999999999


Q ss_pred             hCCCCCHH--------HHHHHHHHHHH-----cCCh---hHHHHHHHHHHHC-CCCCCHh-HHHH----HHHHHhccCch
Q 008280          157 EMPTKNLV--------TWNAMIAGYVE-----NSWA---EDGLKLLRMMIGL-GIRPNAS-SLSS----VLLGCSHLSSL  214 (571)
Q Consensus       157 ~~~~~~~~--------~~~~li~~~~~-----~g~~---~~A~~~~~~m~~~-g~~pd~~-t~~~----ll~~~~~~~~~  214 (571)
                      .... ++.        ....++..+..     .+++   ++|++.++.+.+. ...|+.. .+..    .+.++...|+.
T Consensus       175 ~~~~-~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~  253 (765)
T PRK10049        175 DANL-TPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRY  253 (765)
T ss_pred             hCCC-CHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhH
Confidence            8876 211        22222332221     2234   7789999988864 2233321 1211    13445677999


Q ss_pred             HHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCCCC-------hhhHHHHHHHHHHcCChHHHHHHH
Q 008280          215 QLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKD-------VVTWNAMISGYAQHGKGEKALRLF  287 (571)
Q Consensus       215 ~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~-------~~~~~~li~~~~~~g~~~~A~~~~  287 (571)
                      ++|+..|+.+.+.+.+........+...|...|++++|+..|+++.+.+       ...+..+..++.+.|++++|..++
T Consensus       254 ~eA~~~~~~ll~~~~~~P~~a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l  333 (765)
T PRK10049        254 KDVISEYQRLKAEGQIIPPWAQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVT  333 (765)
T ss_pred             HHHHHHHHHhhccCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHH
Confidence            9999999999987632111223336789999999999999999886432       234666777889999999999999


Q ss_pred             HHHHHcCC-----------CCCH---HHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHH
Q 008280          288 DKMKDEGM-----------KPDS---ITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVE  353 (571)
Q Consensus       288 ~~m~~~g~-----------~p~~---~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  353 (571)
                      +++.....           .|+.   ..+..+...+...|+.++|...++++..  ..+.+...+..++.++...|++++
T Consensus       334 ~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~--~~P~n~~l~~~lA~l~~~~g~~~~  411 (765)
T PRK10049        334 AHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAY--NAPGNQGLRIDYASVLQARGWPRA  411 (765)
T ss_pred             HHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHhcCCHHH
Confidence            99987521           1332   2445667788899999999999999986  345668899999999999999999


Q ss_pred             HHHHHHhC-CCCCC-HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCc
Q 008280          354 AVDLIKKM-PFKPQ-PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA  402 (571)
Q Consensus       354 A~~~~~~~-~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~  402 (571)
                      |++.+++. ...|+ ...+..++..+...|++++|+..++++++..|+++.
T Consensus       412 A~~~l~~al~l~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~~Pd~~~  462 (765)
T PRK10049        412 AENELKKAEVLEPRNINLEVEQAWTALDLQEWRQMDVLTDDVVAREPQDPG  462 (765)
T ss_pred             HHHHHHHHHhhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCHH
Confidence            99999988 44566 567777777889999999999999999999999974

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.84  E-value=1.7e-17  Score=176.29  Aligned_cols=347  Identities=10%  Similarity=0.003  Sum_probs=278.8

Q ss_pred             HHcCCCHHHHHHHHhhCCC------CCcchHHHHHHHHHHcCChHHHHHHHhhCC---CCChhHHHHHHHHHHhcCCHHH
Q 008280           80 FVQKKNMAKARDLFLAMPE------KNSVSWSAMISGYIECGQLDKAVELFKVAP---VKSVVAWTAMISGYMKFGKVDL  150 (571)
Q Consensus        80 ~~~~g~~~~A~~~~~~m~~------~d~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~  150 (571)
                      +.+..+++.-.-+|..-++      .+......++..+.+.|++++|..+++...   +.+......++......|++++
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~~~~~l~~l~~~~l~~g~~~~   94 (656)
T PRK15174         15 LLKQEDWEGLCLYFSQHPEKVRDSAGNEQNIILFAIACLRKDETDVGLTLLSDRVLTAKNGRDLLRRWVISPLASSQPDA   94 (656)
T ss_pred             hhhhhchhhHhHHhhcccHhhhhhcccccCHHHHHHHHHhcCCcchhHHHhHHHHHhCCCchhHHHHHhhhHhhcCCHHH
Confidence            3456677766666666553      234456667888999999999999998774   4455677777788888999999


Q ss_pred             HHHHHhhCCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhC
Q 008280          151 AEKLFDEMPT---KNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKS  227 (571)
Q Consensus       151 A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~  227 (571)
                      |...|+++..   .+...|..+...+.+.|++++|+..|+++.... +.+...+..+...+...|+.++|...+..+...
T Consensus        95 A~~~l~~~l~~~P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~  173 (656)
T PRK15174         95 VLQVVNKLLAVNVCQPEDVLLVASVLLKSKQYATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKELQAISLARTQAQE  173 (656)
T ss_pred             HHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHh
Confidence            9999999875   355689999999999999999999999998752 334567788888899999999999999988776


Q ss_pred             CCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCCC----ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHH
Q 008280          228 PLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRK----DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFV  303 (571)
Q Consensus       228 g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~  303 (571)
                      . +.+...+..+ ..+.+.|++++|...++.+.+.    +...+..+...+...|++++|+..|++..... +.+...+.
T Consensus       174 ~-P~~~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~  250 (656)
T PRK15174        174 V-PPRGDMIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALRR  250 (656)
T ss_pred             C-CCCHHHHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHH
Confidence            5 2333344334 3478899999999999987653    23344556778899999999999999998764 33456777


Q ss_pred             HHHHHHHhcCcHHH----HHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-HhHHHHHHHHH
Q 008280          304 ALLLACNHAGLVDL----GIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQ-PAIFGTLLSAC  377 (571)
Q Consensus       304 ~ll~a~~~~g~~~~----a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~  377 (571)
                      .+..++...|++++    |...|++..+.  .+.+...+..+..++.+.|++++|+..+++. ...|+ ...+..+..++
T Consensus       251 ~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l--~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~~~~a~~~La~~l  328 (656)
T PRK15174        251 SLGLAYYQSGRSREAKLQAAEHWRHALQF--NSDNVRIVTLYADALIRTGQNEKAIPLLQQSLATHPDLPYVRAMYARAL  328 (656)
T ss_pred             HHHHHHHHcCCchhhHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            88899999999986    89999998863  3445778999999999999999999999887 33344 56778888999


Q ss_pred             HhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhCCC
Q 008280          378 RVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNV  433 (571)
Q Consensus       378 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  433 (571)
                      ...|++++|+..++++++.+|+++. .+..++.++...|++++|...++...+...
T Consensus       329 ~~~G~~~eA~~~l~~al~~~P~~~~-~~~~~a~al~~~G~~deA~~~l~~al~~~P  383 (656)
T PRK15174        329 RQVGQYTAASDEFVQLAREKGVTSK-WNRYAAAALLQAGKTSEAESVFEHYIQARA  383 (656)
T ss_pred             HHCCCHHHHHHHHHHHHHhCccchH-HHHHHHHHHHHCCCHHHHHHHHHHHHHhCh
Confidence            9999999999999999999999876 677788999999999999999998876543

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.83  E-value=4.5e-16  Score=169.18  Aligned_cols=418  Identities=13%  Similarity=0.107  Sum_probs=298.5

Q ss_pred             CCcchHHHH-HHHHHhCCCCHHHHHHHHhhCCC--C-ChhhHHHHHHHHHcCCCCHHHHHHHHhhCCCCChhhHHHHHHH
Q 008280            4 KTTVNWNSV-LAGFAKQRGKLKDAQELFDKIPQ--P-DVVSYNIMLSCILLNSDDVVAAFDFFQRLPIKDTASWNTMISG   79 (571)
Q Consensus         4 ~~~~~~~~l-~~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~ll~~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~   79 (571)
                      |+..+.... .+.|.+.+ ++++|.+++.++.+  | +..-+..|-..|....++ ++|..+++...+.|+..+..++..
T Consensus       179 ~~~~vL~L~~~rlY~~l~-dw~~Ai~lL~~L~k~~pl~~~~~~~L~~ay~q~l~~-~~a~al~~~~lk~d~~l~~ala~~  256 (987)
T PRK09782        179 PEGKTLRTDLLQRAIYLK-QWSQADTLYNEARQQNTLSAAERRQWFDVLLAGQLD-DRLLALQSQGIFTDPQSRITYATA  256 (987)
T ss_pred             CCcHHHHHHHHHHHHHHh-CHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhhCH-HHHHHHhchhcccCHHHHHHHHHH
Confidence            344444444 88888888 99999999988875  2 333355566677763255 888888776666788899999999


Q ss_pred             HHcCCCHHHHHHHHhhCCC-----CCcchHH------------------------------HHHHHHHHcCChHHHHHHH
Q 008280           80 FVQKKNMAKARDLFLAMPE-----KNSVSWS------------------------------AMISGYIECGQLDKAVELF  124 (571)
Q Consensus        80 ~~~~g~~~~A~~~~~~m~~-----~d~~~~~------------------------------~li~~~~~~g~~~~A~~~~  124 (571)
                      |.+.|+.++|.+++++++.     |+..+|.                              .++..+.+.++++.+.++.
T Consensus       257 yi~~G~~~~A~~~L~~~~~~~~~~~~~~~~~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  336 (987)
T PRK09782        257 LAYRGEKARLQHYLIENKPLFTTDAQEKSWLYLLSKYSANPVQALANYTVQFADNRQYVVGATLPVLLKEGQYDAAQKLL  336 (987)
T ss_pred             HHHCCCHHHHHHHHHhCcccccCCCccHHHHHHHHhccCchhhhccchhhhhHHHHHHHHHHHHHHHHhccHHHHHHHHh
Confidence            9999999999999988852     2222221                              1245556667777666653


Q ss_pred             hhCC--------------------------------CCChhHHHHHHHHHHhcCCHHHHHHHHhhCCC--C----CHHHH
Q 008280          125 KVAP--------------------------------VKSVVAWTAMISGYMKFGKVDLAEKLFDEMPT--K----NLVTW  166 (571)
Q Consensus       125 ~~~~--------------------------------~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~----~~~~~  166 (571)
                      ..-.                                +.+.....-+.-...+.|+.++|.++|+....  +    +...-
T Consensus       337 ~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~y~~~~~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~  416 (987)
T PRK09782        337 ATLPANEMLEERYAVSVATRNKAEALRLARLLYQQEPANLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLM  416 (987)
T ss_pred             cCCCcchHHHHHHhhccccCchhHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHH
Confidence            2111                                11222223333345667889999999887654  1    23344


Q ss_pred             HHHHHHHHHcCC---hhHHHHH----------------------HHHHHH-CCC-CC--CHhHHHHHHHHHhccCchHHH
Q 008280          167 NAMIAGYVENSW---AEDGLKL----------------------LRMMIG-LGI-RP--NASSLSSVLLGCSHLSSLQLG  217 (571)
Q Consensus       167 ~~li~~~~~~g~---~~~A~~~----------------------~~~m~~-~g~-~p--d~~t~~~ll~~~~~~~~~~~a  217 (571)
                      +-++..|.+.+.   ..+++.+                      +..... .+. ++  +...+..+..++.. ++.++|
T Consensus       417 ~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~~~~eA  495 (987)
T PRK09782        417 ARLASLLESHPYLATPAKVAILSKPLPLAEQRQWQSQLPGIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-TLPGVA  495 (987)
T ss_pred             HHHHHHHHhCCcccchHHHHHhccccccchhHHHHhhhhhhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHh-CCcHHH
Confidence            467777777765   3334333                      111111 112 22  44555555555555 788889


Q ss_pred             HHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCC--CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCC
Q 008280          218 KQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR--KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGM  295 (571)
Q Consensus       218 ~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  295 (571)
                      ...+.......  |+......+...+...|++++|...|+++..  ++...+..+...+.+.|+.++|...|++..... 
T Consensus       496 i~a~~~Al~~~--Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~-  572 (987)
T PRK09782        496 LYAWLQAEQRQ--PDAWQHRAVAYQAYQVEDYATALAAWQKISLHDMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRG-  572 (987)
T ss_pred             HHHHHHHHHhC--CchHHHHHHHHHHHHCCCHHHHHHHHHHHhccCCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-
Confidence            99777777654  4444444455556789999999999998764  445567778888999999999999999998764 


Q ss_pred             CCCH-HHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-HhHHHH
Q 008280          296 KPDS-ITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQ-PAIFGT  372 (571)
Q Consensus       296 ~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~  372 (571)
                       |+. ..+..+.......|++++|...+++..+   ..|+...+..+..++.+.|++++|++.+++. ...|+ ...++.
T Consensus       573 -P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~---l~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~Pd~~~a~~n  648 (987)
T PRK09782        573 -LGDNALYWWLHAQRYIPGQPELALNDLTRSLN---IAPSANAYVARATIYRQRHNVPAAVSDLRAALELEPNNSNYQAA  648 (987)
T ss_pred             -CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHH---hCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHH
Confidence             443 3333444455567999999999999985   4677889999999999999999999999888 34454 567888


Q ss_pred             HHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhCC
Q 008280          373 LLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENN  432 (571)
Q Consensus       373 l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  432 (571)
                      +..++...|++++|+..++++++.+|+++. .+..++.+|...|++++|...+++..+..
T Consensus       649 LG~aL~~~G~~eeAi~~l~~AL~l~P~~~~-a~~nLA~al~~lGd~~eA~~~l~~Al~l~  707 (987)
T PRK09782        649 LGYALWDSGDIAQSREMLERAHKGLPDDPA-LIRQLAYVNQRLDDMAATQHYARLVIDDI  707 (987)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            888999999999999999999999999998 99999999999999999999999987644

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.80  E-value=2.2e-15  Score=160.52  Aligned_cols=414  Identities=12%  Similarity=0.029  Sum_probs=293.4

Q ss_pred             HHhCCCCHHHHHHHHhhCCC--CChh-hHHHHHHHHHcCCCCHHHHHHHHhhCCCCChhhHHH-H--HHHHHcCCCHHHH
Q 008280           16 FAKQRGKLKDAQELFDKIPQ--PDVV-SYNIMLSCILLNSDDVVAAFDFFQRLPIKDTASWNT-M--ISGFVQKKNMAKA   89 (571)
Q Consensus        16 ~~~~~g~~~~A~~~~~~~~~--~~~~-~~~~ll~~~~~~~g~~~~A~~~~~~m~~~d~~~~~~-l--i~~~~~~g~~~~A   89 (571)
                      ..+.| +++.|+..|++..+  |+.. ....++..+... |+.++|+..+++...|+...+.. +  ...|...|++++|
T Consensus        44 ~~r~G-d~~~Al~~L~qaL~~~P~~~~av~dll~l~~~~-G~~~~A~~~~eka~~p~n~~~~~llalA~ly~~~gdyd~A  121 (822)
T PRK14574         44 RARAG-DTAPVLDYLQEESKAGPLQSGQVDDWLQIAGWA-GRDQEVIDVYERYQSSMNISSRGLASAARAYRNEKRWDQA  121 (822)
T ss_pred             HHhCC-CHHHHHHHHHHHHhhCccchhhHHHHHHHHHHc-CCcHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHH
Confidence            34667 89999999988876  4431 233777777788 99999999999887764443333 3  4577778999999


Q ss_pred             HHHHhhCCC--C-CcchHHHHHHHHHHcCChHHHHHHHhhCCCCChhHHHHHHHH--HHhcCCHHHHHHHHhhCCC--C-
Q 008280           90 RDLFLAMPE--K-NSVSWSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISG--YMKFGKVDLAEKLFDEMPT--K-  161 (571)
Q Consensus        90 ~~~~~~m~~--~-d~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~--~~~~g~~~~A~~~~~~~~~--~-  161 (571)
                      +++|+++.+  | |+..+..++..+...++.++|++.++++.+.++.....+..+  +...++..+|+..++++.+  | 
T Consensus       122 iely~kaL~~dP~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~dp~~~~~l~layL~~~~~~~~~AL~~~ekll~~~P~  201 (822)
T PRK14574        122 LALWQSSLKKDPTNPDLISGMIMTQADAGRGGVVLKQATELAERDPTVQNYMTLSYLNRATDRNYDALQASSEAVRLAPT  201 (822)
T ss_pred             HHHHHHHHhhCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHhcccCcchHHHHHHHHHHHhcchHHHHHHHHHHHHHhCCC
Confidence            999998864  3 456677778888889999999999988876555433334334  4445566568888888874  3 


Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHH------HHHHHHH---h--ccCc---hHHHHHHHHHHHhC
Q 008280          162 NLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSL------SSVLLGC---S--HLSS---LQLGKQVHQLVFKS  227 (571)
Q Consensus       162 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~------~~ll~~~---~--~~~~---~~~a~~~~~~~~~~  227 (571)
                      +...+..+..++.+.|-...|+++..+-... +.+...-.      ...+..-   .  ...+   .+.|..-++.+...
T Consensus       202 n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~-f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~~~l~~~  280 (822)
T PRK14574        202 SEEVLKNHLEILQRNRIVEPALRLAKENPNL-VSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKALADYQNLLTR  280 (822)
T ss_pred             CHHHHHHHHHHHHHcCCcHHHHHHHHhCccc-cCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHHHHHHhh
Confidence            4567778888888889888888776542211 11111101      1111100   0  1112   34444555555542


Q ss_pred             -C-CCCCcchH-HH---HHHHHHhcCCHHHHHHHHHhhCCCC----hhhHHHHHHHHHHcCChHHHHHHHHHHHHcCC--
Q 008280          228 -P-LCKDTTAL-TP---LISMYCKCGDLEDACKLFLEIQRKD----VVTWNAMISGYAQHGKGEKALRLFDKMKDEGM--  295 (571)
Q Consensus       228 -g-~~~~~~~~-~~---li~~y~~~g~~~~A~~~~~~~~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~--  295 (571)
                       + .++....+ .+   .+-++.+.|+..++++.|+.+....    ..+--...++|...+++++|+.+|+++.....  
T Consensus       281 ~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~  360 (822)
T PRK14574        281 WGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKT  360 (822)
T ss_pred             ccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccc
Confidence             1 12222222 22   3456778899999999999998432    23556788999999999999999999866431  


Q ss_pred             ---CCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcC----------CCCC---hHhHHHHHHHHHHcCCHHHHHHHHH
Q 008280          296 ---KPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYG----------IAAK---PDHYTCMVDLLGRAGKLVEAVDLIK  359 (571)
Q Consensus       296 ---~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~----------~~~~---~~~~~~li~~~~~~g~~~~A~~~~~  359 (571)
                         .++......|..++...+++++|..+++.+.+...          -.|+   ...+..++..+...|++.+|++.++
T Consensus       361 ~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le  440 (822)
T PRK14574        361 FRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLE  440 (822)
T ss_pred             cCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence               22333457889999999999999999999986311          0122   2345567888899999999999999


Q ss_pred             hC--CCCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhCCC
Q 008280          360 KM--PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNV  433 (571)
Q Consensus       360 ~~--~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  433 (571)
                      ++  ..+-|...+..+...+...|++.+|+..++.+..++|++.. +...++..+...|+|++|.++.+.+.+...
T Consensus       441 ~l~~~aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l~P~~~~-~~~~~~~~al~l~e~~~A~~~~~~l~~~~P  515 (822)
T PRK14574        441 DLSSTAPANQNLRIALASIYLARDLPRKAEQELKAVESLAPRSLI-LERAQAETAMALQEWHQMELLTDDVISRSP  515 (822)
T ss_pred             HHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhCCccHH-HHHHHHHHHHhhhhHHHHHHHHHHHHhhCC
Confidence            88  22356788999999999999999999999999999999988 999999999999999999999988776443

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.79  E-value=6.4e-15  Score=160.24  Aligned_cols=323  Identities=10%  Similarity=0.025  Sum_probs=249.9

Q ss_pred             chHHHHHHHHHHcCChHHHHHHHhhCCCC------ChhHHHHHHHHHHhcCC---HHHHHHH------------------
Q 008280          102 VSWSAMISGYIECGQLDKAVELFKVAPVK------SVVAWTAMISGYMKFGK---VDLAEKL------------------  154 (571)
Q Consensus       102 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~------~~~~~~~li~~~~~~g~---~~~A~~~------------------  154 (571)
                      ...-.+.-...+.|+.++|.++|+...+.      +....+-|+..|.+.+.   ...|..+                  
T Consensus       377 ~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~  456 (987)
T PRK09782        377 TRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPAKVAILSKPLPLAEQRQWQSQLPG  456 (987)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchHHHHHhccccccchhHHHHhhhhh
Confidence            33334444567789999999999888652      22355578888888776   3333222                  


Q ss_pred             -------HhhCCC---C--CHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHH
Q 008280          155 -------FDEMPT---K--NLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQ  222 (571)
Q Consensus       155 -------~~~~~~---~--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~  222 (571)
                             +.....   +  +...|..+..++.. +++++|+..|.+....  .|+......+..++...|++++|...++
T Consensus       457 ~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~--~Pd~~~~L~lA~al~~~Gr~eeAi~~~r  533 (987)
T PRK09782        457 IADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQR--QPDAWQHRAVAYQAYQVEDYATALAAWQ  533 (987)
T ss_pred             hhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHh--CCchHHHHHHHHHHHHCCCHHHHHHHHH
Confidence                   111111   2  56788888888877 8999999988887765  4776554445555678999999999999


Q ss_pred             HHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCCCChhhHHHHH---HHHHHcCChHHHHHHHHHHHHcCCCCCH
Q 008280          223 LVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMI---SGYAQHGKGEKALRLFDKMKDEGMKPDS  299 (571)
Q Consensus       223 ~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li---~~~~~~g~~~~A~~~~~~m~~~g~~p~~  299 (571)
                      .+...  +|+...+..+...+.+.|+.++|...|++..+.++..++...   ......|++++|+..|++..+.  .|+.
T Consensus       534 ka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l--~P~~  609 (987)
T PRK09782        534 KISLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRGLGDNALYWWLHAQRYIPGQPELALNDLTRSLNI--APSA  609 (987)
T ss_pred             HHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCCH
Confidence            88665  444556677888999999999999999988765444333333   3334459999999999999875  5677


Q ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHH
Q 008280          300 ITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSAC  377 (571)
Q Consensus       300 ~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~  377 (571)
                      ..+..+..++.+.|++++|...+++..+.  -+.+...+..+...+...|++++|++.+++. ...| +...+..+..++
T Consensus       610 ~a~~~LA~~l~~lG~~deA~~~l~~AL~l--~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P~~~~a~~nLA~al  687 (987)
T PRK09782        610 NAYVARATIYRQRHNVPAAVSDLRAALEL--EPNNSNYQAALGYALWDSGDIAQSREMLERAHKGLPDDPALIRQLAYVN  687 (987)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            88999999999999999999999999863  3445778889999999999999999999987 3334 467899999999


Q ss_pred             HhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhCCCc
Q 008280          378 RVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVV  434 (571)
Q Consensus       378 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  434 (571)
                      ...|++++|+..++++++++|++.. +....+....+..+++.|.+-+++--..++.
T Consensus       688 ~~lGd~~eA~~~l~~Al~l~P~~a~-i~~~~g~~~~~~~~~~~a~~~~~r~~~~~~~  743 (987)
T PRK09782        688 QRLDDMAATQHYARLVIDDIDNQAL-ITPLTPEQNQQRFNFRRLHEEVGRRWTFSFD  743 (987)
T ss_pred             HHCCCHHHHHHHHHHHHhcCCCCch-hhhhhhHHHHHHHHHHHHHHHHHHHhhcCcc
Confidence            9999999999999999999999988 8889999999999999998888766554443

>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=99.78  E-value=8.5e-16  Score=163.73  Aligned_cols=352  Identities=11%  Similarity=0.013  Sum_probs=240.2

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHhhCC--CCCcchHHHHHHHHHHcCChHHHHHHHhhCCC---CChhHHHHHHHHHHhcCC
Q 008280           73 WNTMISGFVQKKNMAKARDLFLAMP--EKNSVSWSAMISGYIECGQLDKAVELFKVAPV---KSVVAWTAMISGYMKFGK  147 (571)
Q Consensus        73 ~~~li~~~~~~g~~~~A~~~~~~m~--~~d~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~  147 (571)
                      +......|.+.|++++|+..|++..  .|+...|..+..+|.+.|++++|++.++..+.   .+...+..+..+|...|+
T Consensus       130 ~k~~G~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~a~a~~~lg~  209 (615)
T TIGR00990       130 LKEKGNKAYRNKDFNKAIKLYSKAIECKPDPVYYSNRAACHNALGDWEKVVEDTTAALELDPDYSKALNRRANAYDGLGK  209 (615)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCC
Confidence            3345566777777777777777654  35666677777777777777777777766542   334566667777777777


Q ss_pred             HHHHHHHHhhCCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHC-------------------------------C
Q 008280          148 VDLAEKLFDEMPT---KNLVTWNAMIAGYVENSWAEDGLKLLRMMIGL-------------------------------G  193 (571)
Q Consensus       148 ~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-------------------------------g  193 (571)
                      +++|...|.....   .+......++..+..    ..+..........                               .
T Consensus       210 ~~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~----~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  285 (615)
T TIGR00990       210 YADALLDLTASCIIDGFRNEQSAQAVERLLK----KFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPAGLEDSNE  285 (615)
T ss_pred             HHHHHHHHHHHHHhCCCccHHHHHHHHHHHH----HHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchhhhhcccc
Confidence            7777766544321   111111111111100    0111111111110                               0


Q ss_pred             CCCCH-hHHHHHHHH---HhccCchHHHHHHHHHHHhCC--CCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCC--C-Ch
Q 008280          194 IRPNA-SSLSSVLLG---CSHLSSLQLGKQVHQLVFKSP--LCKDTTALTPLISMYCKCGDLEDACKLFLEIQR--K-DV  264 (571)
Q Consensus       194 ~~pd~-~t~~~ll~~---~~~~~~~~~a~~~~~~~~~~g--~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~-~~  264 (571)
                      ..|+. ..+..+...   ....+.+++|...++.+++.+  .+.....++.+...|...|++++|...|++..+  | +.
T Consensus       286 ~~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~P~~~  365 (615)
T TIGR00990       286 LDEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELDPRVT  365 (615)
T ss_pred             cccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcH
Confidence            01100 001111000   123467889999999998865  233456788889999999999999999998764  3 35


Q ss_pred             hhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHH
Q 008280          265 VTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDL  344 (571)
Q Consensus       265 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~  344 (571)
                      .+|..+...+...|++++|+..|++..+.. +.+...+..+...+...|++++|...|+...+.  .+.+...+..+..+
T Consensus       366 ~~~~~la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l--~P~~~~~~~~la~~  442 (615)
T TIGR00990       366 QSYIKRASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDL--DPDFIFSHIQLGVT  442 (615)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CccCHHHHHHHHHH
Confidence            688889999999999999999999998753 335678888889999999999999999999862  34457778889999


Q ss_pred             HHHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHH-------HHHHhhc
Q 008280          345 LGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQL-------ANIYAAM  415 (571)
Q Consensus       345 ~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l-------~~~~~~~  415 (571)
                      +.+.|++++|+..|++. ...| +...|+.+...+...|++++|+..|++++++.|+... .+..+       +..+...
T Consensus       443 ~~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~-~~~~~~~l~~~a~~~~~~~  521 (615)
T TIGR00990       443 QYKEGSIASSMATFRRCKKNFPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKP-MYMNVLPLINKALALFQWK  521 (615)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCcccc-ccccHHHHHHHHHHHHHHh
Confidence            99999999999999987 3334 4678899999999999999999999999999987543 33221       2233457


Q ss_pred             cChhHHHHHHHHHHhCC
Q 008280          416 KKWDDVARIRLSMKENN  432 (571)
Q Consensus       416 g~~~~a~~~~~~m~~~~  432 (571)
                      |++++|.+++++..+..
T Consensus       522 ~~~~eA~~~~~kAl~l~  538 (615)
T TIGR00990       522 QDFIEAENLCEKALIID  538 (615)
T ss_pred             hhHHHHHHHHHHHHhcC
Confidence            99999999999877643

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.75  E-value=2e-14  Score=153.37  Aligned_cols=380  Identities=12%  Similarity=0.058  Sum_probs=278.1

Q ss_pred             HHcCCCCHHHHHHHHhhCCCCChhh---HHHHHHHHHcCCCHHHHHHHHhhCCCCCcch-HHHH--HHHHHHcCChHHHH
Q 008280           48 ILLNSDDVVAAFDFFQRLPIKDTAS---WNTMISGFVQKKNMAKARDLFLAMPEKNSVS-WSAM--ISGYIECGQLDKAV  121 (571)
Q Consensus        48 ~~~~~g~~~~A~~~~~~m~~~d~~~---~~~li~~~~~~g~~~~A~~~~~~m~~~d~~~-~~~l--i~~~~~~g~~~~A~  121 (571)
                      .++. |+++.|+..|++..+.++..   ...++..+...|+.++|+..+++...|+... +..+  ...|...|++++|+
T Consensus        44 ~~r~-Gd~~~Al~~L~qaL~~~P~~~~av~dll~l~~~~G~~~~A~~~~eka~~p~n~~~~~llalA~ly~~~gdyd~Ai  122 (822)
T PRK14574         44 RARA-GDTAPVLDYLQEESKAGPLQSGQVDDWLQIAGWAGRDQEVIDVYERYQSSMNISSRGLASAARAYRNEKRWDQAL  122 (822)
T ss_pred             HHhC-CCHHHHHHHHHHHHhhCccchhhHHHHHHHHHHcCCcHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHH
Confidence            4677 99999999999988644432   3388888999999999999999998764443 3333  55788889999999


Q ss_pred             HHHhhCC---CCChhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCH--HHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCC
Q 008280          122 ELFKVAP---VKSVVAWTAMISGYMKFGKVDLAEKLFDEMPTKNL--VTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRP  196 (571)
Q Consensus       122 ~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~--~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  196 (571)
                      ++|+++.   +.++.++..++..|...++.++|++.++++...+.  ..+-.++..+...++..+|++.++++.... +-
T Consensus       123 ely~kaL~~dP~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~dp~~~~~l~layL~~~~~~~~~AL~~~ekll~~~-P~  201 (822)
T PRK14574        123 ALWQSSLKKDPTNPDLISGMIMTQADAGRGGVVLKQATELAERDPTVQNYMTLSYLNRATDRNYDALQASSEAVRLA-PT  201 (822)
T ss_pred             HHHHHHHhhCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHhcccCcchHHHHHHHHHHHhcchHHHHHHHHHHHHHhC-CC
Confidence            9999886   34567778888999999999999999999986444  344333333434566667999999999874 33


Q ss_pred             CHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcch------HHHHHHH---HH--hcC---CHHHHHHHHHhhCC-
Q 008280          197 NASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTA------LTPLISM---YC--KCG---DLEDACKLFLEIQR-  261 (571)
Q Consensus       197 d~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~------~~~li~~---y~--~~g---~~~~A~~~~~~~~~-  261 (571)
                      +...+.....+..+.|-...|.++...-... +.+....      ...++..   ..  ...   -.+.|+.-++.+.. 
T Consensus       202 n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~-f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~~~l~~~  280 (822)
T PRK14574        202 SEEVLKNHLEILQRNRIVEPALRLAKENPNL-VSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKALADYQNLLTR  280 (822)
T ss_pred             CHHHHHHHHHHHHHcCCcHHHHHHHHhCccc-cCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHHHHHHhh
Confidence            5666788888889999888888766542211 0111000      0011100   00  111   23445544555443 


Q ss_pred             --CCh---hhH----HHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcC--
Q 008280          262 --KDV---VTW----NAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYG--  330 (571)
Q Consensus       262 --~~~---~~~----~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~--  330 (571)
                        +++   ..|    --.+-++...|+..++++.|+.|...|.+....+-..+..+|...+.+++|..++..+....+  
T Consensus       281 ~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~  360 (822)
T PRK14574        281 WGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKT  360 (822)
T ss_pred             ccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccc
Confidence              211   112    234567888999999999999999888654455778899999999999999999999876422  


Q ss_pred             --CCCChHhHHHHHHHHHHcCCHHHHHHHHHhCCC--------------CCCH---hHHHHHHHHHHhcCCHhHHHHHHH
Q 008280          331 --IAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPF--------------KPQP---AIFGTLLSACRVHKRLDLAEFAAM  391 (571)
Q Consensus       331 --~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--------------~p~~---~~~~~l~~~~~~~g~~~~a~~~~~  391 (571)
                        .+++......|.-+|...+++++|..+++++..              .|+.   .....++..+.-.|++.+|++.++
T Consensus       361 ~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le  440 (822)
T PRK14574        361 FRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLE  440 (822)
T ss_pred             cCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence              233454567899999999999999999998811              1222   234456677889999999999999


Q ss_pred             HHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhC
Q 008280          392 NLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKEN  431 (571)
Q Consensus       392 ~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  431 (571)
                      +++...|.++. ....+++++...|...+|.+.++.....
T Consensus       441 ~l~~~aP~n~~-l~~~~A~v~~~Rg~p~~A~~~~k~a~~l  479 (822)
T PRK14574        441 DLSSTAPANQN-LRIALASIYLARDLPRKAEQELKAVESL  479 (822)
T ss_pred             HHHHhCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHhhh
Confidence            99999999998 9999999999999999999999776654

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

Probab=99.73  E-value=9.9e-15  Score=149.12  Aligned_cols=427  Identities=12%  Similarity=0.088  Sum_probs=311.9

Q ss_pred             CCCCcchHHHHHHHHHhCCCCHHHHHHHHhhCCCCC------hhhHHHHHHHHHcCCCCHHHHHHHHhhCCC--CC--hh
Q 008280            2 NVKTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQPD------VVSYNIMLSCILLNSDDVVAAFDFFQRLPI--KD--TA   71 (571)
Q Consensus         2 ~~~~~~~~~~l~~~~~~~~g~~~~A~~~~~~~~~~~------~~~~~~ll~~~~~~~g~~~~A~~~~~~m~~--~d--~~   71 (571)
                      ++.++.+.+.|.+.|.--| ++..+..+...+...+      ..+|-.+..+|-.. |++++|...|.+...  +|  +.
T Consensus       266 n~~nP~~l~~LAn~fyfK~-dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~-Gd~ekA~~yY~~s~k~~~d~~~l  343 (1018)
T KOG2002|consen  266 NNENPVALNHLANHFYFKK-DYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQ-GDFEKAFKYYMESLKADNDNFVL  343 (1018)
T ss_pred             cCCCcHHHHHHHHHHhhcc-cHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhh-ccHHHHHHHHHHHHccCCCCccc
Confidence            4567888888888888877 8988888887765422      23567778888888 999999999887654  23  33


Q ss_pred             hHHHHHHHHHcCCCHHHHHHHHhhCCC--C-CcchHHHHHHHHHHcC----ChHHHHHHHhhCC---CCChhHHHHHHHH
Q 008280           72 SWNTMISGFVQKKNMAKARDLFLAMPE--K-NSVSWSAMISGYIECG----QLDKAVELFKVAP---VKSVVAWTAMISG  141 (571)
Q Consensus        72 ~~~~li~~~~~~g~~~~A~~~~~~m~~--~-d~~~~~~li~~~~~~g----~~~~A~~~~~~~~---~~~~~~~~~li~~  141 (571)
                      .+--|..+|.+.|+++.|...|+...+  | +..+...|...|+..+    ..+.|..++.+..   +.|...|-.+..+
T Consensus       344 ~~~GlgQm~i~~~dle~s~~~fEkv~k~~p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~~~d~~a~l~laql  423 (1018)
T KOG2002|consen  344 PLVGLGQMYIKRGDLEESKFCFEKVLKQLPNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQTPVDSEAWLELAQL  423 (1018)
T ss_pred             cccchhHHHHHhchHHHHHHHHHHHHHhCcchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcccccHHHHHHHHHH
Confidence            455678899999999999999998854  3 4567777777777765    5567777776665   3455677777777


Q ss_pred             HHhcCCH------HHHHHHHhhC-CCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHC---CCCCCHh------HHHHHH
Q 008280          142 YMKFGKV------DLAEKLFDEM-PTKNLVTWNAMIAGYVENSWAEDGLKLLRMMIGL---GIRPNAS------SLSSVL  205 (571)
Q Consensus       142 ~~~~g~~------~~A~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~---g~~pd~~------t~~~ll  205 (571)
                      |-...-+      ..|..++..- ....+...|.+...+...|++.+|...|.+....   ...+|..      +--.+.
T Consensus       424 ~e~~d~~~sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNla  503 (1018)
T KOG2002|consen  424 LEQTDPWASLDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLA  503 (1018)
T ss_pred             HHhcChHHHHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHH
Confidence            7655443      3344333322 2356678899999999999999999999988764   2233331      222333


Q ss_pred             HHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCC---CChhhHHHHHHHHHHcCChHH
Q 008280          206 LGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEK  282 (571)
Q Consensus       206 ~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~  282 (571)
                      ...-..++.+.|.+.|..+++.. +.-+..|..|+-+....++..+|...++....   .++..|+.+...+....++..
T Consensus       504 rl~E~l~~~~~A~e~Yk~Ilkeh-p~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d~~np~arsl~G~~~l~k~~~~~  582 (1018)
T KOG2002|consen  504 RLLEELHDTEVAEEMYKSILKEH-PGYIDAYLRLGCMARDKNNLYEASLLLKDALNIDSSNPNARSLLGNLHLKKSEWKP  582 (1018)
T ss_pred             HHHHhhhhhhHHHHHHHHHHHHC-chhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcccCCcHHHHHHHHHHHhhhhhcc
Confidence            44456779999999999999864 33233344444444445677888888887763   578889888889999999999


Q ss_pred             HHHHHHHHHHc-CCCCCHHHHHHHHHHHHh------------cCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcC
Q 008280          283 ALRLFDKMKDE-GMKPDSITFVALLLACNH------------AGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAG  349 (571)
Q Consensus       283 A~~~~~~m~~~-g~~p~~~t~~~ll~a~~~------------~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  349 (571)
                      |.+-|+..... ...+|..+..+|.+.|..            .+..++|.++|.++++  ..+.+...-+.+.-.++..|
T Consensus       583 a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~--~dpkN~yAANGIgiVLA~kg  660 (1018)
T KOG2002|consen  583 AKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLR--NDPKNMYAANGIGIVLAEKG  660 (1018)
T ss_pred             cccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHh--cCcchhhhccchhhhhhhcc
Confidence            99877776543 234677777777776643            2456788889888876  45667788888889999999


Q ss_pred             CHHHHHHHHHhCC--CCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhc-cCCCCCchhHHHHHHHHhhccChhHHHHHHH
Q 008280          350 KLVEAVDLIKKMP--FKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFN-LNPANAAGCYVQLANIYAAMKKWDDVARIRL  426 (571)
Q Consensus       350 ~~~~A~~~~~~~~--~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~  426 (571)
                      ++.+|..+|.+..  ......+|..+...|...|++..|++.|+..++ ..+.+.......|+.++.+.|++.+|.+...
T Consensus       661 ~~~~A~dIFsqVrEa~~~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll  740 (1018)
T KOG2002|consen  661 RFSEARDIFSQVREATSDFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALL  740 (1018)
T ss_pred             CchHHHHHHHHHHHHHhhCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHH
Confidence            9999999999882  223456899999999999999999999998876 3455444488899999999999999999887


Q ss_pred             HHHhCCC
Q 008280          427 SMKENNV  433 (571)
Q Consensus       427 ~m~~~~~  433 (571)
                      ......+
T Consensus       741 ~a~~~~p  747 (1018)
T KOG2002|consen  741 KARHLAP  747 (1018)
T ss_pred             HHHHhCC
Confidence            6665443

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

Probab=99.72  E-value=2.6e-15  Score=140.62  Aligned_cols=204  Identities=12%  Similarity=0.116  Sum_probs=165.5

Q ss_pred             ccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhC---CCChhhHHHHHHHHHHcCChHHHHHH
Q 008280          210 HLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQ---RKDVVTWNAMISGYAQHGKGEKALRL  286 (571)
Q Consensus       210 ~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~  286 (571)
                      ..|++++|...|.+.+...-.... ....+.-.+-+.|++++|++.|-++.   ..++...-.+.+.|-...++.+|+++
T Consensus       502 ~ngd~dka~~~ykeal~ndasc~e-alfniglt~e~~~~ldeald~f~klh~il~nn~evl~qianiye~led~aqaie~  580 (840)
T KOG2003|consen  502 ANGDLDKAAEFYKEALNNDASCTE-ALFNIGLTAEALGNLDEALDCFLKLHAILLNNAEVLVQIANIYELLEDPAQAIEL  580 (840)
T ss_pred             ecCcHHHHHHHHHHHHcCchHHHH-HHHHhcccHHHhcCHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhCHHHHHHH
Confidence            458899999999888865422222 22234556778899999999998765   46777888888999999999999999


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCC
Q 008280          287 FDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP  365 (571)
Q Consensus       287 ~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p  365 (571)
                      +.+.... ++.|+..+..|...|-+.|+-.+|.+.+-.--+  -++.+.++..-|..-|....-+++|+.+|++. -++|
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 455667788888999999999999888755433  46777888888999999999999999999988 4789


Q ss_pred             CHhHHHHHHHHH-HhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccCh
Q 008280          366 QPAIFGTLLSAC-RVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKW  418 (571)
Q Consensus       366 ~~~~~~~l~~~~-~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~  418 (571)
                      +..-|..++..| ++.|++.+|..+++..-...|.+.. .+..|..++...|..
T Consensus       658 ~~~kwqlmiasc~rrsgnyqka~d~yk~~hrkfpedld-clkflvri~~dlgl~  710 (840)
T KOG2003|consen  658 NQSKWQLMIASCFRRSGNYQKAFDLYKDIHRKFPEDLD-CLKFLVRIAGDLGLK  710 (840)
T ss_pred             cHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCccchH-HHHHHHHHhccccch
Confidence            999999998876 7899999999999999999999988 888999999888853

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

Probab=99.70  E-value=8e-14  Score=142.60  Aligned_cols=412  Identities=14%  Similarity=0.108  Sum_probs=293.6

Q ss_pred             HHHHhCCCCHHHHHHHHhhCCCCChhhHHHHHHHHH-----cCCCCHHHHHHHHhhCC---CCChhhHHHHHHHHHcCCC
Q 008280           14 AGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCIL-----LNSDDVVAAFDFFQRLP---IKDTASWNTMISGFVQKKN   85 (571)
Q Consensus        14 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~ll~~~~-----~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~g~   85 (571)
                      -++.+++ +.+.|+..|....+.|+...++++.-..     .....+..+..++....   ..|+++.+.|.+.|.-.|+
T Consensus       207 ~Cf~kl~-~~~~a~~a~~ralqLdp~~v~alv~L~~~~l~~~d~~s~~~~~~ll~~ay~~n~~nP~~l~~LAn~fyfK~d  285 (1018)
T KOG2002|consen  207 HCFWKLG-MSEKALLAFERALQLDPTCVSALVALGEVDLNFNDSDSYKKGVQLLQRAYKENNENPVALNHLANHFYFKKD  285 (1018)
T ss_pred             hHHHhcc-chhhHHHHHHHHHhcChhhHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhhcCCCcHHHHHHHHHHhhccc
Confidence            3445666 7777777777777655544444443211     11123445555555432   3588899999999999999


Q ss_pred             HHHHHHHHhhCCCCC------cchHHHHHHHHHHcCChHHHHHHHhhCCCCC----hhHHHHHHHHHHhcCCHHHHHHHH
Q 008280           86 MAKARDLFLAMPEKN------SVSWSAMISGYIECGQLDKAVELFKVAPVKS----VVAWTAMISGYMKFGKVDLAEKLF  155 (571)
Q Consensus        86 ~~~A~~~~~~m~~~d------~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~----~~~~~~li~~~~~~g~~~~A~~~~  155 (571)
                      ++.+..+...+....      ..+|-.+..+|-..|++++|...|-+....+    +..+..|..+|.+.|+++.|...|
T Consensus       286 y~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~~~GlgQm~i~~~dle~s~~~f  365 (1018)
T KOG2002|consen  286 YERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNFVLPLVGLGQMYIKRGDLEESKFCF  365 (1018)
T ss_pred             HHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCccccccchhHHHHHhchHHHHHHHH
Confidence            999999988875432      3468889999999999999999997765332    345667899999999999999999


Q ss_pred             hhCCC--C-CHHHHHHHHHHHHHcC----ChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHH----
Q 008280          156 DEMPT--K-NLVTWNAMIAGYVENS----WAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLV----  224 (571)
Q Consensus       156 ~~~~~--~-~~~~~~~li~~~~~~g----~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~----  224 (571)
                      +.+..  | +..+...|...|+..+    ..+.|..++.+....- +.|...|..+...+-. ++...+..++..+    
T Consensus       366 Ekv~k~~p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~laql~e~-~d~~~sL~~~~~A~d~L  443 (1018)
T KOG2002|consen  366 EKVLKQLPNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELAQLLEQ-TDPWASLDAYGNALDIL  443 (1018)
T ss_pred             HHHHHhCcchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHHHHHHh-cChHHHHHHHHHHHHHH
Confidence            99874  3 4467777777787775    4566666666665542 3456666666655543 3333335555443    


Q ss_pred             HhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCCC-------Ch------hhHHHHHHHHHHcCChHHHHHHHHHHH
Q 008280          225 FKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRK-------DV------VTWNAMISGYAQHGKGEKALRLFDKMK  291 (571)
Q Consensus       225 ~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~-------~~------~~~~~li~~~~~~g~~~~A~~~~~~m~  291 (571)
                      ...+-++.+.+.|.+...+...|++++|...|+.....       |.      .+--.+...+-..++.+.|.+.|....
T Consensus       444 ~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Il  523 (1018)
T KOG2002|consen  444 ESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSIL  523 (1018)
T ss_pred             HHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHH
Confidence            34555677889999999999999999999999876532       22      122335556667788999999999988


Q ss_pred             HcCCCCCHH-HHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC----CCCCC
Q 008280          292 DEGMKPDSI-TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM----PFKPQ  366 (571)
Q Consensus       292 ~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~----~~~p~  366 (571)
                      ..  .|+.+ .|..++......+...+|...++....  ....++..++.+...+.+...+..|.+-|+..    ...+|
T Consensus       524 ke--hp~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~--~d~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D  599 (1018)
T KOG2002|consen  524 KE--HPGYIDAYLRLGCMARDKNNLYEASLLLKDALN--IDSSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTD  599 (1018)
T ss_pred             HH--CchhHHHHHHhhHHHHhccCcHHHHHHHHHHHh--cccCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCc
Confidence            75  46655 455555444456788889888888876  55667777777888888888888887744443    34477


Q ss_pred             HhHHHHHHHHHHh------------cCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhCCC
Q 008280          367 PAIFGTLLSACRV------------HKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNV  433 (571)
Q Consensus       367 ~~~~~~l~~~~~~------------~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  433 (571)
                      +.+..+|.+.|..            .+..++|++.|.+++..+|.|.- +-..++-+++..|++.+|..+|.++++...
T Consensus       600 ~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~dpkN~y-AANGIgiVLA~kg~~~~A~dIFsqVrEa~~  677 (1018)
T KOG2002|consen  600 AYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRNDPKNMY-AANGIGIVLAEKGRFSEARDIFSQVREATS  677 (1018)
T ss_pred             hhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcCcchhh-hccchhhhhhhccCchHHHHHHHHHHHHHh
Confidence            7777778776642            34578888999999999998866 667888889999999999999999887655

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

Probab=99.63  E-value=1.2e-15  Score=146.27  Aligned_cols=256  Identities=17%  Similarity=0.163  Sum_probs=112.0

Q ss_pred             HHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHH-HHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhc
Q 008280          168 AMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSS-VLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKC  246 (571)
Q Consensus       168 ~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~-ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~  246 (571)
                      .+...+.+.|++++|++++++......+|+...|.. +...+...++.+.|...++.+...+ +.++..+..++.. ...
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~-~~~~~~~~~l~~l-~~~   90 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASD-KANPQDYERLIQL-LQD   90 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccccc-ccc
Confidence            346667777888888888765444322344444443 3334456778888888888887765 3356667777777 688


Q ss_pred             CCHHHHHHHHHhhCC--CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHHhcCcHHHHHHHHH
Q 008280          247 GDLEDACKLFLEIQR--KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEG-MKPDSITFVALLLACNHAGLVDLGIQYFD  323 (571)
Q Consensus       247 g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~t~~~ll~a~~~~g~~~~a~~~~~  323 (571)
                      +++++|.++++..-+  ++...+..++..+...++++++..++++..... .+++...|..+...+.+.|+.++|.+.++
T Consensus        91 ~~~~~A~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~  170 (280)
T PF13429_consen   91 GDPEEALKLAEKAYERDGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYR  170 (280)
T ss_dssp             ---------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHH
T ss_pred             ccccccccccccccccccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            999999988876643  466778888889999999999999999977543 34566677788888999999999999999


Q ss_pred             HhHHhcCCCC-ChHhHHHHHHHHHHcCCHHHHHHHHHhC--CCCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCC
Q 008280          324 SMVNDYGIAA-KPDHYTCMVDLLGRAGKLVEAVDLIKKM--PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPAN  400 (571)
Q Consensus       324 ~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~  400 (571)
                      +..+.   .| +......++..+...|+.+++.++++..  ..+.|+..|..+..++...|+.++|...++++.+.+|++
T Consensus       171 ~al~~---~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p~d  247 (280)
T PF13429_consen  171 KALEL---DPDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNPDD  247 (280)
T ss_dssp             HHHHH----TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHSTT-
T ss_pred             HHHHc---CCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHHhccccccccccccccccccccccc
Confidence            99874   45 5778889999999999999988777666  123566788999999999999999999999999999999


Q ss_pred             CchhHHHHHHHHhhccChhHHHHHHHHHH
Q 008280          401 AAGCYVQLANIYAAMKKWDDVARIRLSMK  429 (571)
Q Consensus       401 ~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  429 (571)
                      +. ....+++++...|+.++|.+++++..
T Consensus       248 ~~-~~~~~a~~l~~~g~~~~A~~~~~~~~  275 (280)
T PF13429_consen  248 PL-WLLAYADALEQAGRKDEALRLRRQAL  275 (280)
T ss_dssp             HH-HHHHHHHHHT----------------
T ss_pred             cc-cccccccccccccccccccccccccc
Confidence            98 99999999999999999999987653

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

Probab=99.62  E-value=1e-11  Score=121.94  Aligned_cols=421  Identities=13%  Similarity=0.120  Sum_probs=310.6

Q ss_pred             HHHHHHhCCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHcCCCCHHHHHHHHhhCCC---------------------
Q 008280           12 VLAGFAKQRGKLKDAQELFDKIPQ---PDVVSYNIMLSCILLNSDDVVAAFDFFQRLPI---------------------   67 (571)
Q Consensus        12 l~~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~ll~~~~~~~g~~~~A~~~~~~m~~---------------------   67 (571)
                      |.-+|++.. .++.|++++.+..+   .+...|.+-...=-.+ |..+...++.++-..                     
T Consensus       412 LwlAlarLe-tYenAkkvLNkaRe~iptd~~IWitaa~LEE~n-gn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~  489 (913)
T KOG0495|consen  412 LWLALARLE-TYENAKKVLNKAREIIPTDREIWITAAKLEEAN-GNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEAC  489 (913)
T ss_pred             HHHHHHHHH-HHHHHHHHHHHHHhhCCCChhHHHHHHHHHHhc-CCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHH
Confidence            455667777 78888888877654   4566665544433455 666666666654320                     


Q ss_pred             ------------------------CChhhHHHHHHHHHcCCCHHHHHHHHhhCCC---CCcchHHHHHHHHHHcCChHHH
Q 008280           68 ------------------------KDTASWNTMISGFVQKKNMAKARDLFLAMPE---KNSVSWSAMISGYIECGQLDKA  120 (571)
Q Consensus        68 ------------------------~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~---~d~~~~~~li~~~~~~g~~~~A  120 (571)
                                              .-..+|+.-...|.+.+.++-|..+|....+   .+...|......--..|..++-
T Consensus       490 e~agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqvfp~k~slWlra~~~ek~hgt~Esl  569 (913)
T KOG0495|consen  490 EDAGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQVFPCKKSLWLRAAMFEKSHGTRESL  569 (913)
T ss_pred             hhcCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhhccchhHHHHHHHHHHHhcCcHHHH
Confidence                                    0123566666667777777777777776654   3455676666666666777777


Q ss_pred             HHHHhhCC---CCChhHHHHHHHHHHhcCCHHHHHHHHhhCCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCC
Q 008280          121 VELFKVAP---VKSVVAWTAMISGYMKFGKVDLAEKLFDEMPT---KNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGI  194 (571)
Q Consensus       121 ~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  194 (571)
                      ..+|++..   +.....|-....-+-..|++..|+.++.+..+   .+...|-+-+..-..+.++++|..+|.+....  
T Consensus       570 ~Allqkav~~~pkae~lwlM~ake~w~agdv~~ar~il~~af~~~pnseeiwlaavKle~en~e~eraR~llakar~~--  647 (913)
T KOG0495|consen  570 EALLQKAVEQCPKAEILWLMYAKEKWKAGDVPAARVILDQAFEANPNSEEIWLAAVKLEFENDELERARDLLAKARSI--  647 (913)
T ss_pred             HHHHHHHHHhCCcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCcHHHHHHHHHHhhccccHHHHHHHHHHHhcc--
Confidence            77777664   34456677777777788888888888877654   24567888888888888889998888887764  


Q ss_pred             CCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCC---CChhhHHHHH
Q 008280          195 RPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMI  271 (571)
Q Consensus       195 ~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li  271 (571)
                      .|+...|..-+..---.+..++|.++++..++. ++.-...|-.+...+-+.++++.|.+.|..-.+   ..+..|-.+.
T Consensus       648 sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~-fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~cP~~ipLWllLa  726 (913)
T KOG0495|consen  648 SGTERVWMKSANLERYLDNVEEALRLLEEALKS-FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKKCPNSIPLWLLLA  726 (913)
T ss_pred             CCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh-CCchHHHHHHHhHHHHHHHHHHHHHHHHHhccccCCCCchHHHHHH
Confidence            455555555555555567888888888888776 355566788888888888888888888876554   2456788888


Q ss_pred             HHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCH
Q 008280          272 SGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKL  351 (571)
Q Consensus       272 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  351 (571)
                      ..--+.|..-.|..+|++.+..+ +-|...|...+..-.+.|+.++|..+..+.++  ..+.+...|..-|.+..+.++-
T Consensus       727 kleEk~~~~~rAR~ildrarlkN-Pk~~~lwle~Ir~ElR~gn~~~a~~lmakALQ--ecp~sg~LWaEaI~le~~~~rk  803 (913)
T KOG0495|consen  727 KLEEKDGQLVRARSILDRARLKN-PKNALLWLESIRMELRAGNKEQAELLMAKALQ--ECPSSGLLWAEAIWLEPRPQRK  803 (913)
T ss_pred             HHHHHhcchhhHHHHHHHHHhcC-CCcchhHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCccchhHHHHHHhccCcccc
Confidence            77778888888999998887665 33667788888888889999999888888877  4566777888888888888887


Q ss_pred             HHHHHHHHhCCCCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhC
Q 008280          352 VEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKEN  431 (571)
Q Consensus       352 ~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  431 (571)
                      ..+.+.+++..  .|+.+..++...+....+++.|..-|.++++.+|++-. +|..+...+...|.-++-.++++.....
T Consensus       804 Tks~DALkkce--~dphVllaia~lfw~e~k~~kar~Wf~Ravk~d~d~GD-~wa~fykfel~hG~eed~kev~~~c~~~  880 (913)
T KOG0495|consen  804 TKSIDALKKCE--HDPHVLLAIAKLFWSEKKIEKAREWFERAVKKDPDNGD-AWAWFYKFELRHGTEEDQKEVLKKCETA  880 (913)
T ss_pred             hHHHHHHHhcc--CCchhHHHHHHHHHHHHHHHHHHHHHHHHHccCCccch-HHHHHHHHHHHhCCHHHHHHHHHHHhcc
Confidence            77777777763  56777778888888999999999999999999999988 9999999999999999988888877653


Q ss_pred             CCccCCceeEEEEC
Q 008280          432 NVVKMPGYSWIEVG  445 (571)
Q Consensus       432 ~~~~~~~~s~~~~~  445 (571)
                      .  |..|..|..+.
T Consensus       881 E--P~hG~~W~avS  892 (913)
T KOG0495|consen  881 E--PTHGELWQAVS  892 (913)
T ss_pred             C--CCCCcHHHHHh
Confidence            2  34566776543

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

Probab=99.60  E-value=2.6e-12  Score=130.94  Aligned_cols=348  Identities=13%  Similarity=0.174  Sum_probs=210.4

Q ss_pred             CCCHHHHHHHHhhCCC---CCcchHHHHHHHHHHcCChHHHHHHHh---hCCCCChhHHHHHHHHHHhcCCHHHHHHHHh
Q 008280           83 KKNMAKARDLFLAMPE---KNSVSWSAMISGYIECGQLDKAVELFK---VAPVKSVVAWTAMISGYMKFGKVDLAEKLFD  156 (571)
Q Consensus        83 ~g~~~~A~~~~~~m~~---~d~~~~~~li~~~~~~g~~~~A~~~~~---~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  156 (571)
                      .|++++|.+++.++.+   .+...|.+|...|-+.|+.+++...+-   .+.+.|...|..+.+...+.|.++.|.-.|.
T Consensus       152 rg~~eeA~~i~~EvIkqdp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~d~e~W~~ladls~~~~~i~qA~~cy~  231 (895)
T KOG2076|consen  152 RGDLEEAEEILMEVIKQDPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPKDYELWKRLADLSEQLGNINQARYCYS  231 (895)
T ss_pred             hCCHHHHHHHHHHHHHhCccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcccHHHHHHHHH
Confidence            3778888888777754   245677777778888887777776542   3446666777777777777777888777777


Q ss_pred             hCCCCCH---HHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHH----HHHHHhccCchHHHHHHHHHHHhCC-
Q 008280          157 EMPTKNL---VTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSS----VLLGCSHLSSLQLGKQVHQLVFKSP-  228 (571)
Q Consensus       157 ~~~~~~~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~----ll~~~~~~~~~~~a~~~~~~~~~~g-  228 (571)
                      +..+.++   ...---+..|-+.|+...|.+-|.++.....+.|..-+..    ++..+...++-+.|.+.+......+ 
T Consensus       232 rAI~~~p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s~~~  311 (895)
T KOG2076|consen  232 RAIQANPSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGALSKEK  311 (895)
T ss_pred             HHHhcCCcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhcc
Confidence            7765333   2333345667777777777777777776532112211222    2233333444455555444444321 


Q ss_pred             CCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCC----CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHH
Q 008280          229 LCKDTTALTPLISMYCKCGDLEDACKLFLEIQR----KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVA  304 (571)
Q Consensus       229 ~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~  304 (571)
                      -..+...++.++.+|.+...++.|......+..    +|..-|.+-     ..++. +-..++.  ...++.++...+ -
T Consensus       312 ~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~-----~~~~~-~~~~~~~--~~~~~s~~l~v~-r  382 (895)
T KOG2076|consen  312 DEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTD-----ERRRE-EPNALCE--VGKELSYDLRVI-R  382 (895)
T ss_pred             ccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhh-----hhccc-ccccccc--CCCCCCccchhH-h
Confidence            122333444555555555555555444433322    121111000     00000 0000000  001122222221 1


Q ss_pred             HHHHHHhcCcHHHHHHHHHHhHHhcC--CCCChHhHHHHHHHHHHcCCHHHHHHHHHhC---CCCCCHhHHHHHHHHHHh
Q 008280          305 LLLACNHAGLVDLGIQYFDSMVNDYG--IAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM---PFKPQPAIFGTLLSACRV  379 (571)
Q Consensus       305 ll~a~~~~g~~~~a~~~~~~~~~~~~--~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~---~~~p~~~~~~~l~~~~~~  379 (571)
                      +.-+..+....+...-+...+... .  ..-++..|.-+.++|...|++.+|+++|..+   +...+...|--+...|..
T Consensus       383 l~icL~~L~~~e~~e~ll~~l~~~-n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~  461 (895)
T KOG2076|consen  383 LMICLVHLKERELLEALLHFLVED-NVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYME  461 (895)
T ss_pred             HhhhhhcccccchHHHHHHHHHHh-cCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHH
Confidence            222233344434333344444432 4  3334778999999999999999999999988   223457899999999999


Q ss_pred             cCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhCCCccCCceeE
Q 008280          380 HKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVVKMPGYSW  441 (571)
Q Consensus       380 ~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~s~  441 (571)
                      .|.+++|.+.+++++.+.|++.. +-..|+.+|.+.|+.++|.+.+..|..-+....+++.|
T Consensus       462 l~e~e~A~e~y~kvl~~~p~~~D-~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~  522 (895)
T KOG2076|consen  462 LGEYEEAIEFYEKVLILAPDNLD-ARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAW  522 (895)
T ss_pred             HhhHHHHHHHHHHHHhcCCCchh-hhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccc
Confidence            99999999999999999999999 99999999999999999999999887444333455555

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.57  E-value=2.9e-12  Score=128.54  Aligned_cols=274  Identities=12%  Similarity=0.063  Sum_probs=184.5

Q ss_pred             cCCHHHHHHHHhhCCCC--CHHHHHHH-HHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHH--HHHHHHhccCchHHHHH
Q 008280          145 FGKVDLAEKLFDEMPTK--NLVTWNAM-IAGYVENSWAEDGLKLLRMMIGLGIRPNASSLS--SVLLGCSHLSSLQLGKQ  219 (571)
Q Consensus       145 ~g~~~~A~~~~~~~~~~--~~~~~~~l-i~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~--~ll~~~~~~~~~~~a~~  219 (571)
                      .|+++.|++.+...++.  ++..+..+ .....+.|+++.|.+.|.++.+.  .|+.....  .....+...|+.+.|..
T Consensus        97 eGd~~~A~k~l~~~~~~~~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~Al~  174 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHAEQPVVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAARH  174 (398)
T ss_pred             CCCHHHHHHHHHHHHhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHHHH
Confidence            57777777777765542  22333223 34446778888888888877653  45543332  22445667788888888


Q ss_pred             HHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCCCCh-----------hhHHHHHHHHHHcCChHHHHHHHH
Q 008280          220 VHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDV-----------VTWNAMISGYAQHGKGEKALRLFD  288 (571)
Q Consensus       220 ~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~-----------~~~~~li~~~~~~g~~~~A~~~~~  288 (571)
                      .++.+.+.. +.++.+...+...|.+.|++++|.+++..+.+...           .+|..++.......+.+...++++
T Consensus       175 ~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~  253 (398)
T PRK10747        175 GVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWK  253 (398)
T ss_pred             HHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            888877766 55677777788888888888888888877764321           133333333334444555556666


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-
Q 008280          289 KMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQ-  366 (571)
Q Consensus       289 ~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-  366 (571)
                      .+.+. .+.+......+..++...|+.++|..++++..+.   +|+....  ++......++.+++++..++. ...|+ 
T Consensus       254 ~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~---~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~~P~~  327 (398)
T PRK10747        254 NQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR---QYDERLV--LLIPRLKTNNPEQLEKVLRQQIKQHGDT  327 (398)
T ss_pred             hCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc---CCCHHHH--HHHhhccCCChHHHHHHHHHHHhhCCCC
Confidence            55332 2345667777888888888888888888877652   4554322  222233458888888888776 33344 


Q ss_pred             HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHH
Q 008280          367 PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMK  429 (571)
Q Consensus       367 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  429 (571)
                      +....++...|...+++++|...|+++++..|++.  .+..|+.++.+.|+.++|.+++++-.
T Consensus       328 ~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~~~--~~~~La~~~~~~g~~~~A~~~~~~~l  388 (398)
T PRK10747        328 PLLWSTLGQLLMKHGEWQEASLAFRAALKQRPDAY--DYAWLADALDRLHKPEEAAAMRRDGL  388 (398)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCHH--HHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            55677888888899999999999999998888875  67889999999999999988887553

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

Probab=99.55  E-value=4.8e-11  Score=112.95  Aligned_cols=327  Identities=14%  Similarity=0.099  Sum_probs=244.4

Q ss_pred             CCcchHHHHHHHHHHcCChHHHHHHHhhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCHHHHH-HHHHHHHHcC
Q 008280           99 KNSVSWSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGKVDLAEKLFDEMPTKNLVTWN-AMIAGYVENS  177 (571)
Q Consensus        99 ~d~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~-~li~~~~~~g  177 (571)
                      .|...+-.....+.+.|..+.|+..|......-+..|.+.+....-.-+.+.+..+....+..+...-. -+..++....
T Consensus       162 ~D~fllYL~Gvv~k~~~~~s~A~~sfv~~v~~~P~~W~AWleL~~lit~~e~~~~l~~~l~~~~h~M~~~F~~~a~~el~  241 (559)
T KOG1155|consen  162 KDEFLLYLYGVVLKELGLLSLAIDSFVEVVNRYPWFWSAWLELSELITDIEILSILVVGLPSDMHWMKKFFLKKAYQELH  241 (559)
T ss_pred             chhHHHHHHHHHHHhhchHHHHHHHHHHHHhcCCcchHHHHHHHHhhchHHHHHHHHhcCcccchHHHHHHHHHHHHHHH
Confidence            355455555556677888888998888877666777777766666666777776666555554322211 2345666667


Q ss_pred             ChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCC--CCCcchHHHHHHHHHhcCCHHH-HHH
Q 008280          178 WAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPL--CKDTTALTPLISMYCKCGDLED-ACK  254 (571)
Q Consensus       178 ~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~--~~~~~~~~~li~~y~~~g~~~~-A~~  254 (571)
                      +.++++.-.......|++-+...-+....+.-...++++|+.+|+.+++...  -.|..+|+.++-.--.+..+.- |..
T Consensus       242 q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skLs~LA~~  321 (559)
T KOG1155|consen  242 QHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKLSYLAQN  321 (559)
T ss_pred             HHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHHHHHHHH
Confidence            8888888888888888655555555555556678899999999999998741  1245566665543333222222 222


Q ss_pred             HHHhhCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCC
Q 008280          255 LFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAK  334 (571)
Q Consensus       255 ~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~  334 (571)
                      ++ .+.+--+.|...+.+-|...++.++|...|++..+.+. .....|+.+..-|....+...|.+-++..++  -.+.|
T Consensus       322 v~-~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp-~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvd--i~p~D  397 (559)
T KOG1155|consen  322 VS-NIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLNP-KYLSAWTLMGHEYVEMKNTHAAIESYRRAVD--INPRD  397 (559)
T ss_pred             HH-HhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcCc-chhHHHHHhhHHHHHhcccHHHHHHHHHHHh--cCchh
Confidence            22 23333466777788889999999999999999988642 2345677788899999999999999999986  34567


Q ss_pred             hHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHH
Q 008280          335 PDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIY  412 (571)
Q Consensus       335 ~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~  412 (571)
                      -..|-.|.++|.-.+...-|+-.|++. ..+| |...|.+|...|.+.++.++|+..|++++..+-.+.. .+..|+.+|
T Consensus       398 yRAWYGLGQaYeim~Mh~YaLyYfqkA~~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~-~l~~LakLy  476 (559)
T KOG1155|consen  398 YRAWYGLGQAYEIMKMHFYALYYFQKALELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGS-ALVRLAKLY  476 (559)
T ss_pred             HHHHhhhhHHHHHhcchHHHHHHHHHHHhcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchH-HHHHHHHHH
Confidence            889999999999999999999999988 3444 5799999999999999999999999999998777666 999999999


Q ss_pred             hhccChhHHHHHHHHHHh
Q 008280          413 AAMKKWDDVARIRLSMKE  430 (571)
Q Consensus       413 ~~~g~~~~a~~~~~~m~~  430 (571)
                      .+.++.++|...|++-.+
T Consensus       477 e~l~d~~eAa~~yek~v~  494 (559)
T KOG1155|consen  477 EELKDLNEAAQYYEKYVE  494 (559)
T ss_pred             HHHHhHHHHHHHHHHHHH
Confidence            999999999999987664

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

Probab=99.55  E-value=2.6e-11  Score=115.47  Aligned_cols=213  Identities=15%  Similarity=0.143  Sum_probs=174.9

Q ss_pred             ccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCC---CChhhHHHHHHHHHHcCChHHHHHH
Q 008280          210 HLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRL  286 (571)
Q Consensus       210 ~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~  286 (571)
                      -.|+.-.+..-++.+++.. +.+...|--+..+|....+.++..+.|+...+   .|+.+|..-...+.-.+++++|..-
T Consensus       338 L~g~~~~a~~d~~~~I~l~-~~~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~n~dvYyHRgQm~flL~q~e~A~aD  416 (606)
T KOG0547|consen  338 LKGDSLGAQEDFDAAIKLD-PAFNSLYIKRAAAYADENQSEKMWKDFNKAEDLDPENPDVYYHRGQMRFLLQQYEEAIAD  416 (606)
T ss_pred             hcCCchhhhhhHHHHHhcC-cccchHHHHHHHHHhhhhccHHHHHHHHHHHhcCCCCCchhHhHHHHHHHHHHHHHHHHH
Confidence            4578888888999888876 33444577788899999999999999998764   4677888888888889999999999


Q ss_pred             HHHHHHcCCCC-CHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCC
Q 008280          287 FDKMKDEGMKP-DSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFK  364 (571)
Q Consensus       287 ~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~  364 (571)
                      |++.+..  .| +...|..+..+..+.+.++++...|++.++  .++..+++|+.....+...+++++|.+.|+.. ...
T Consensus       417 F~Kai~L--~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kk--kFP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE  492 (606)
T KOG0547|consen  417 FQKAISL--DPENAYAYIQLCCALYRQHKIAESMKTFEEAKK--KFPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELE  492 (606)
T ss_pred             HHHHhhc--ChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH--hCCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhc
Confidence            9999875  44 445777787788889999999999999988  46777999999999999999999999999876 222


Q ss_pred             CC---------HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHH
Q 008280          365 PQ---------PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMK  429 (571)
Q Consensus       365 p~---------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  429 (571)
                      |+         +.+-.+++..- =.+++..|+.+++++++++|.... +|..|+..-.+.|+.++|+++|++-.
T Consensus       493 ~~~~~~~v~~~plV~Ka~l~~q-wk~d~~~a~~Ll~KA~e~Dpkce~-A~~tlaq~~lQ~~~i~eAielFEksa  564 (606)
T KOG0547|consen  493 PREHLIIVNAAPLVHKALLVLQ-WKEDINQAENLLRKAIELDPKCEQ-AYETLAQFELQRGKIDEAIELFEKSA  564 (606)
T ss_pred             cccccccccchhhhhhhHhhhc-hhhhHHHHHHHHHHHHccCchHHH-HHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            32         22222333222 238999999999999999999988 99999999999999999999998653

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.55  E-value=2e-10  Score=107.72  Aligned_cols=410  Identities=19%  Similarity=0.185  Sum_probs=267.7

Q ss_pred             CcchHHHHHHHHHhCCCCHHHHHHHHhhCCCCChhh----HHHH--HHHHHcCCCCHHHHHHHHhhCCC---CChhhHHH
Q 008280            5 TTVNWNSVLAGFAKQRGKLKDAQELFDKIPQPDVVS----YNIM--LSCILLNSDDVVAAFDFFQRLPI---KDTASWNT   75 (571)
Q Consensus         5 ~~~~~~~l~~~~~~~~g~~~~A~~~~~~~~~~~~~~----~~~l--l~~~~~~~g~~~~A~~~~~~m~~---~d~~~~~~   75 (571)
                      .+.+-|.|+++.+. | .+.++.-+++.|.+.++..    --.|  +..|..+.+-+-.-.+.|-.|..   .+..+|  
T Consensus       115 ~V~~E~nL~kmIS~-~-EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S~~sW--  190 (625)
T KOG4422|consen  115 QVETENNLLKMISS-R-EVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDSTSSW--  190 (625)
T ss_pred             hhcchhHHHHHHhh-c-ccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhcccccccccccc--
Confidence            34566777776554 3 6777777777776533221    1111  11233331222222344555543   333444  


Q ss_pred             HHHHHHcCCCHHHHHHHHhhCCCCCcchHHHHHHHHHHcCChHHHHHHHhhCC----CCChhHHHHHHHHHHhcCCHHHH
Q 008280           76 MISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAP----VKSVVAWTAMISGYMKFGKVDLA  151 (571)
Q Consensus        76 li~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~A  151 (571)
                            +.|.+.+   ++-+...+...++..||.+.++--..+.|.+++++..    +.+..++|.+|.+-+-...    
T Consensus       191 ------K~G~vAd---L~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~----  257 (625)
T KOG4422|consen  191 ------KSGAVAD---LLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVG----  257 (625)
T ss_pred             ------ccccHHH---HHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhcc----
Confidence                  3354433   4444444567899999999999999999999998775    3456778888765443333    


Q ss_pred             HHHHhhCC----CCCHHHHHHHHHHHHHcCChhH----HHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHH-HHHHHH
Q 008280          152 EKLFDEMP----TKNLVTWNAMIAGYVENSWAED----GLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQL-GKQVHQ  222 (571)
Q Consensus       152 ~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~----A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~-a~~~~~  222 (571)
                      .++..+|.    .||..|+|+++++..+.|+++.    |++++.+|++.|+.|...+|..++....+.++..+ +..+..
T Consensus       258 K~Lv~EMisqkm~Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~  337 (625)
T KOG4422|consen  258 KKLVAEMISQKMTPNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWIN  337 (625)
T ss_pred             HHHHHHHHHhhcCCchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHH
Confidence            55666665    5999999999999999998865    45678899999999999999999998888877644 444444


Q ss_pred             HHHh----CCCC----CCcchHHHHHHHHHhcCCHHHHHHHHHhhCCC-----------ChhhHHHHHHHHHHcCChHHH
Q 008280          223 LVFK----SPLC----KDTTALTPLISMYCKCGDLEDACKLFLEIQRK-----------DVVTWNAMISGYAQHGKGEKA  283 (571)
Q Consensus       223 ~~~~----~g~~----~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~-----------~~~~~~~li~~~~~~g~~~~A  283 (571)
                      .+..    ..+.    .|...+...++.+.+..+.+-|.++-.-+...           ...-|..+....++....+.-
T Consensus       338 dI~N~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~  417 (625)
T KOG4422|consen  338 DIQNSLTGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVT  417 (625)
T ss_pred             HHHHhhccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4433    2233    34555667778888889999998887665532           123456677778888889999


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcC-CH--------HH-
Q 008280          284 LRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAG-KL--------VE-  353 (571)
Q Consensus       284 ~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-~~--------~~-  353 (571)
                      +..|+.|.-.-.-|+..+...+++|..-.|.++-..+++..++. +|.........-+...+++.. +.        .. 
T Consensus       418 ~~~Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~-~ght~r~~l~eeil~~L~~~k~hp~tp~r~Ql~~~  496 (625)
T KOG4422|consen  418 LKWYEDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKE-YGHTFRSDLREEILMLLARDKLHPLTPEREQLQVA  496 (625)
T ss_pred             HHHHHHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHH-hhhhhhHHHHHHHHHHHhcCCCCCCChHHHHHHHH
Confidence            99999998877889999999999999999998888888887765 354444444444444444433 11        10 


Q ss_pred             ----HHHHHH-------hC-CCCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccC---CCCCchhHH---HHHHHHhhc
Q 008280          354 ----AVDLIK-------KM-PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLN---PANAAGCYV---QLANIYAAM  415 (571)
Q Consensus       354 ----A~~~~~-------~~-~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~---p~~~~~~~~---~l~~~~~~~  415 (571)
                          |..+++       ++ ..+......+..+-.+.+.|..++|-+++....+.+   |..+  ...   .|.+.-...
T Consensus       497 ~ak~aad~~e~~e~~~~R~r~~~~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p--~lnAm~El~d~a~~~  574 (625)
T KOG4422|consen  497 FAKCAADIKEAYESQPIRQRAQDWPATSLNCIAILLLRAGRTQKAWEMLGLFLRKHNKIPRSP--LLNAMAELMDSAKVS  574 (625)
T ss_pred             HHHHHHHHHHHHHhhHHHHHhccCChhHHHHHHHHHHHcchHHHHHHHHHHHHhcCCcCCCCc--chhhHHHHHHHHHhc
Confidence                111111       11 122334556666666788899999998888875532   4444  334   334444456


Q ss_pred             cChhHHHHHHHHHHhCCCc
Q 008280          416 KKWDDVARIRLSMKENNVV  434 (571)
Q Consensus       416 g~~~~a~~~~~~m~~~~~~  434 (571)
                      ....+|..+++-|...+..
T Consensus       575 ~spsqA~~~lQ~a~~~n~~  593 (625)
T KOG4422|consen  575 NSPSQAIEVLQLASAFNLP  593 (625)
T ss_pred             CCHHHHHHHHHHHHHcCch
Confidence            6777788888888765554

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

Probab=99.54  E-value=1.6e-10  Score=109.57  Aligned_cols=353  Identities=14%  Similarity=0.100  Sum_probs=253.4

Q ss_pred             CChhhHHHHHHHHHcCCCHHHHHHHHhhCCCCCcchHHHHHHHHHHcCChHHHHHHHhhCCCCCh-hHHHHHHHHHHhcC
Q 008280           68 KDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAPVKSV-VAWTAMISGYMKFG  146 (571)
Q Consensus        68 ~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~li~~~~~~g  146 (571)
                      .|.+..-...-.+-+.|..+.|+..|......-+..|.+-+....-.-+.+.+..+...+...+. ..---+..+|-...
T Consensus       162 ~D~fllYL~Gvv~k~~~~~s~A~~sfv~~v~~~P~~W~AWleL~~lit~~e~~~~l~~~l~~~~h~M~~~F~~~a~~el~  241 (559)
T KOG1155|consen  162 KDEFLLYLYGVVLKELGLLSLAIDSFVEVVNRYPWFWSAWLELSELITDIEILSILVVGLPSDMHWMKKFFLKKAYQELH  241 (559)
T ss_pred             chhHHHHHHHHHHHhhchHHHHHHHHHHHHhcCCcchHHHHHHHHhhchHHHHHHHHhcCcccchHHHHHHHHHHHHHHH
Confidence            35544444445566788999999999888766666676666554444455544443333332211 11223445566666


Q ss_pred             CHHHHHHHHhhCCC---C-CHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCC--CCCHhHHHHHHHHHhccCchH-HHHH
Q 008280          147 KVDLAEKLFDEMPT---K-NLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGI--RPNASSLSSVLLGCSHLSSLQ-LGKQ  219 (571)
Q Consensus       147 ~~~~A~~~~~~~~~---~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~--~pd~~t~~~ll~~~~~~~~~~-~a~~  219 (571)
                      +.+++..-.+....   + +...-+....+.-...++++|+.+|+++.+...  --|..+|+.++-.-.....+. .|..
T Consensus       242 q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skLs~LA~~  321 (559)
T KOG1155|consen  242 QHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKLSYLAQN  321 (559)
T ss_pred             HHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHHHHHHHH
Confidence            77777665555443   2 233334444556677899999999999998631  126678888775543322221 1111


Q ss_pred             HHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCC
Q 008280          220 VHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMK  296 (571)
Q Consensus       220 ~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  296 (571)
                      ++ .+-    +--+.++..+.+-|+-.++.++|...|++..+   +....|+.|..-|....+...|++-++...+-+ +
T Consensus       322 v~-~id----KyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~-p  395 (559)
T KOG1155|consen  322 VS-NID----KYRPETCCIIANYYSLRSEHEKAVMYFKRALKLNPKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDIN-P  395 (559)
T ss_pred             HH-Hhc----cCCccceeeehhHHHHHHhHHHHHHHHHHHHhcCcchhHHHHHhhHHHHHhcccHHHHHHHHHHHhcC-c
Confidence            11 111    23456777888999999999999999998875   346789999999999999999999999998864 4


Q ss_pred             CCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC--CCCCCHhHHHHHH
Q 008280          297 PDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM--PFKPQPAIFGTLL  374 (571)
Q Consensus       297 p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l~  374 (571)
                      -|...|..|.++|.-.+...-|+-+|++..+  --+.|...|.+|.+.|.+.+++++|++.|.+.  .-+.+...+..|.
T Consensus       396 ~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~--~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~~l~~La  473 (559)
T KOG1155|consen  396 RDYRAWYGLGQAYEIMKMHFYALYYFQKALE--LKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGSALVRLA  473 (559)
T ss_pred             hhHHHHhhhhHHHHHhcchHHHHHHHHHHHh--cCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchHHHHHHH
Confidence            4778999999999999999999999999875  34556899999999999999999999999988  2123457899999


Q ss_pred             HHHHhcCCHhHHHHHHHHHhc-------cCCCCCchhHHHHHHHHhhccChhHHHHHHHHHH
Q 008280          375 SACRVHKRLDLAEFAAMNLFN-------LNPANAAGCYVQLANIYAAMKKWDDVARIRLSMK  429 (571)
Q Consensus       375 ~~~~~~g~~~~a~~~~~~~~~-------~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  429 (571)
                      ..|-+.++.++|...+++-++       .+|+-.. +..-|+.-+.+.+++++|..+-....
T Consensus       474 kLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~k-a~~fLA~~f~k~~~~~~As~Ya~~~~  534 (559)
T KOG1155|consen  474 KLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIK-ARLFLAEYFKKMKDFDEASYYATLVL  534 (559)
T ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHH-HHHHHHHHHHhhcchHHHHHHHHHHh
Confidence            999999999999999998876       3444333 56678888999999999987665443

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.54  E-value=7.1e-12  Score=125.77  Aligned_cols=281  Identities=12%  Similarity=0.050  Sum_probs=173.1

Q ss_pred             CCCHHHHHHHHhhCCCC--Ccch-HHHHHHHHHHcCChHHHHHHHhhCCCCC--hhHHH--HHHHHHHhcCCHHHHHHHH
Q 008280           83 KKNMAKARDLFLAMPEK--NSVS-WSAMISGYIECGQLDKAVELFKVAPVKS--VVAWT--AMISGYMKFGKVDLAEKLF  155 (571)
Q Consensus        83 ~g~~~~A~~~~~~m~~~--d~~~-~~~li~~~~~~g~~~~A~~~~~~~~~~~--~~~~~--~li~~~~~~g~~~~A~~~~  155 (571)
                      .|+++.|.+.+....+.  ++.. +.....+..+.|+++.|.+.+.++.+.+  .....  .....+...|+++.|...+
T Consensus        97 eGd~~~A~k~l~~~~~~~~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~~~~~~~~~~l~~a~l~l~~g~~~~Al~~l  176 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHAEQPVVNYLLAAEAAQQRGDEARANQHLERAAELADNDQLPVEITRVRIQLARNENHAARHGV  176 (398)
T ss_pred             CCCHHHHHHHHHHHHhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            46666666666554332  1222 2222233355666666666665554322  11111  2244555666666666666


Q ss_pred             hhCCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCC
Q 008280          156 DEMPT---KNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKD  232 (571)
Q Consensus       156 ~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~  232 (571)
                      +++.+   .++.....+...|.+.|++++|++++..+.+.+..+ ......+-                           
T Consensus       177 ~~~~~~~P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~-~~~~~~l~---------------------------  228 (398)
T PRK10747        177 DKLLEVAPRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGD-EEHRAMLE---------------------------  228 (398)
T ss_pred             HHHHhcCCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCC-HHHHHHHH---------------------------
Confidence            65543   234455556666666666666666666666544321 11111000                           


Q ss_pred             cchHHHHHHHHHhcCCHHHHHHHHHhhCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 008280          233 TTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLAC  309 (571)
Q Consensus       233 ~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~  309 (571)
                      ..++..++....+..+.+...++++.+++   .++.....+...+...|+.++|.+++++..+.  .|+...  .++.+.
T Consensus       229 ~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l--~~l~~~  304 (398)
T PRK10747        229 QQAWIGLMDQAMADQGSEGLKRWWKNQSRKTRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERL--VLLIPR  304 (398)
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHhCCHHHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHH--HHHHhh
Confidence            01222233333334455666666666653   46777888888888889999999888888763  445422  123344


Q ss_pred             HhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCHhHHHHHHHHHHhcCCHhHHHH
Q 008280          310 NHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQPAIFGTLLSACRVHKRLDLAEF  388 (571)
Q Consensus       310 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~g~~~~a~~  388 (571)
                      ...++.+++.+..+...++  .+-|+..+.++..++.+.|++++|.+.|+.. ...|+...+..+...+...|+.++|..
T Consensus       305 l~~~~~~~al~~~e~~lk~--~P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~~~~~~~La~~~~~~g~~~~A~~  382 (398)
T PRK10747        305 LKTNNPEQLEKVLRQQIKQ--HGDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQRPDAYDYAWLADALDRLHKPEEAAA  382 (398)
T ss_pred             ccCCChHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            4558888888888888764  4555777888889999999999999999887 566888888888888999999999999


Q ss_pred             HHHHHhccC
Q 008280          389 AAMNLFNLN  397 (571)
Q Consensus       389 ~~~~~~~~~  397 (571)
                      ++++.+.+-
T Consensus       383 ~~~~~l~~~  391 (398)
T PRK10747        383 MRRDGLMLT  391 (398)
T ss_pred             HHHHHHhhh
Confidence            998887643

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

Probab=99.53  E-value=6.5e-11  Score=112.26  Aligned_cols=382  Identities=12%  Similarity=0.160  Sum_probs=287.3

Q ss_pred             CCHHHHHHHHhhCCC---CChhhHHHHHHHHHcCCCHHHHHHHHhhCCC--CC-cchHHHHHHHHHHcCChHHHHHHHhh
Q 008280           53 DDVVAAFDFFQRLPI---KDTASWNTMISGFVQKKNMAKARDLFLAMPE--KN-SVSWSAMISGYIECGQLDKAVELFKV  126 (571)
Q Consensus        53 g~~~~A~~~~~~m~~---~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~d-~~~~~~li~~~~~~g~~~~A~~~~~~  126 (571)
                      ++...|+++|++...   .+...|--.+.+=.++..+..|..+|+....  |- ...|-..+-.--..|+...|.++|+.
T Consensus        87 ~e~~RARSv~ERALdvd~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVdqlWyKY~ymEE~LgNi~gaRqifer  166 (677)
T KOG1915|consen   87 KEIQRARSVFERALDVDYRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVDQLWYKYIYMEEMLGNIAGARQIFER  166 (677)
T ss_pred             HHHHHHHHHHHHHHhcccccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHHHHHHHHHHHHHHhcccHHHHHHHHH
Confidence            778889999998775   5677888888999999999999999998753  32 23566666666678999999999987


Q ss_pred             CC--CCChhHHHHHHHHHHhcCCHHHHHHHHhhCC--CCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHH
Q 008280          127 AP--VKSVVAWTAMISGYMKFGKVDLAEKLFDEMP--TKNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLS  202 (571)
Q Consensus       127 ~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~  202 (571)
                      ..  +|+...|++.|+.=.+-+.++.|+.++++..  .|++.+|--....=.+.|+...|..+|....+.  -.|...--
T Consensus       167 W~~w~P~eqaW~sfI~fElRykeieraR~IYerfV~~HP~v~~wikyarFE~k~g~~~~aR~VyerAie~--~~~d~~~e  244 (677)
T KOG1915|consen  167 WMEWEPDEQAWLSFIKFELRYKEIERARSIYERFVLVHPKVSNWIKYARFEEKHGNVALARSVYERAIEF--LGDDEEAE  244 (677)
T ss_pred             HHcCCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHheecccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH--hhhHHHHH
Confidence            64  7888999999999999999999999999865  689999988888888999999999999887763  12333333


Q ss_pred             HHHHHH----hccCchHHHHHHHHHHHhCCCCCC--cchHHHHHHHHHhcCCHHHHHHH--------HHhhCCC---Chh
Q 008280          203 SVLLGC----SHLSSLQLGKQVHQLVFKSPLCKD--TTALTPLISMYCKCGDLEDACKL--------FLEIQRK---DVV  265 (571)
Q Consensus       203 ~ll~~~----~~~~~~~~a~~~~~~~~~~g~~~~--~~~~~~li~~y~~~g~~~~A~~~--------~~~~~~~---~~~  265 (571)
                      .+..++    .+...++.|..+|..++..= +.+  ...|..+...=-+-|+.....+.        ++.+...   |..
T Consensus       245 ~lfvaFA~fEe~qkE~ERar~iykyAld~~-pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~~np~nYD  323 (677)
T KOG1915|consen  245 ILFVAFAEFEERQKEYERARFIYKYALDHI-PKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEVSKNPYNYD  323 (677)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhc-CcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHHHhCCCCch
Confidence            333333    45667888999999888763 333  44566666665666776554443        2333332   556


Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHH-------HHHHHHHHH---HhcCcHHHHHHHHHHhHHhcCCCCCh
Q 008280          266 TWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSI-------TFVALLLAC---NHAGLVDLGIQYFDSMVNDYGIAAKP  335 (571)
Q Consensus       266 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-------t~~~ll~a~---~~~g~~~~a~~~~~~~~~~~~~~~~~  335 (571)
                      +|--.+..-...|+.+...++|++.+.. ++|-..       .|.-+=.+|   ....+++.+.++|+..++  -++...
T Consensus       324 sWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~--lIPHkk  400 (677)
T KOG1915|consen  324 SWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACLD--LIPHKK  400 (677)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHh--hcCccc
Confidence            7777777777889999999999998864 566331       222222222   356788999999998886  455566


Q ss_pred             HhHHHHHHHH----HHcCCHHHHHHHHHhC-CCCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHH
Q 008280          336 DHYTCMVDLL----GRAGKLVEAVDLIKKM-PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLAN  410 (571)
Q Consensus       336 ~~~~~li~~~----~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~  410 (571)
                      .++.-+--+|    .|+.++..|.+++... |.-|...++...|..-.+.++++....++++.++.+|.+.. ++...+.
T Consensus       401 FtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~Pe~c~-~W~kyaE  479 (677)
T KOG1915|consen  401 FTFAKIWLMYAQFEIRQLNLTGARKILGNAIGKCPKDKLFKGYIELELQLREFDRCRKLYEKFLEFSPENCY-AWSKYAE  479 (677)
T ss_pred             chHHHHHHHHHHHHHHHcccHHHHHHHHHHhccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcChHhhH-HHHHHHH
Confidence            6655544444    5788999999998766 77788888988888888999999999999999999999988 8999999


Q ss_pred             HHhhccChhHHHHHHHHHHhCCCccCCceeE
Q 008280          411 IYAAMKKWDDVARIRLSMKENNVVKMPGYSW  441 (571)
Q Consensus       411 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~s~  441 (571)
                      .-...|+++.|..+|+-..+......|..-|
T Consensus       480 lE~~LgdtdRaRaifelAi~qp~ldmpellw  510 (677)
T KOG1915|consen  480 LETSLGDTDRARAIFELAISQPALDMPELLW  510 (677)
T ss_pred             HHHHhhhHHHHHHHHHHHhcCcccccHHHHH
Confidence            8899999999999999888766555555544

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

Probab=99.53  E-value=4e-12  Score=119.53  Aligned_cols=255  Identities=13%  Similarity=0.098  Sum_probs=185.2

Q ss_pred             HHHHcCChhHHHHHHHHHHHCCCCCCHhHHH--HHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCH
Q 008280          172 GYVENSWAEDGLKLLRMMIGLGIRPNASSLS--SVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDL  249 (571)
Q Consensus       172 ~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~--~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~  249 (571)
                      .|.++|+++.|+++++-..+..-+.-...-+  .++.......++..|.++-+..+... .-+......-.+.-...|++
T Consensus       428 ~~lk~~d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d-ryn~~a~~nkgn~~f~ngd~  506 (840)
T KOG2003|consen  428 ELLKNGDIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNID-RYNAAALTNKGNIAFANGDL  506 (840)
T ss_pred             HHHhccCHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc-ccCHHHhhcCCceeeecCcH
Confidence            4678889999988888776543222222222  22222233446777777777666543 22222222223334457999


Q ss_pred             HHHHHHHHhhCCCChhhHHHHH---HHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhH
Q 008280          250 EDACKLFLEIQRKDVVTWNAMI---SGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMV  326 (571)
Q Consensus       250 ~~A~~~~~~~~~~~~~~~~~li---~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~  326 (571)
                      ++|...|++....|...-.+|.   -.+-..|+.++|++.|-++..- +..+...+..+.+.|....+..+|.+++.+..
T Consensus       507 dka~~~ykeal~ndasc~ealfniglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~q~~  585 (840)
T KOG2003|consen  507 DKAAEFYKEALNNDASCTEALFNIGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLMQAN  585 (840)
T ss_pred             HHHHHHHHHHHcCchHHHHHHHHhcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhc
Confidence            9999999999887766544443   3467789999999999887543 23466677888899999999999999998876


Q ss_pred             HhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHh-CC-CCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchh
Q 008280          327 NDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKK-MP-FKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGC  404 (571)
Q Consensus       327 ~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~-~~-~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~  404 (571)
                      .  -++.|+...+-|.+.|-+.|+-.+|.+.+-+ .. ++-+..+..-|..-|....-.++++..|+++--+.|+... .
T Consensus       586 s--lip~dp~ilskl~dlydqegdksqafq~~ydsyryfp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~~k-w  662 (840)
T KOG2003|consen  586 S--LIPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRYFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQSK-W  662 (840)
T ss_pred             c--cCCCCHHHHHHHHHHhhcccchhhhhhhhhhcccccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccHHH-H
Confidence            4  5677899999999999999999999987543 32 2345566666777788888899999999999999998875 5


Q ss_pred             HHHHHHHHhhccChhHHHHHHHHHHhC
Q 008280          405 YVQLANIYAAMKKWDDVARIRLSMKEN  431 (571)
Q Consensus       405 ~~~l~~~~~~~g~~~~a~~~~~~m~~~  431 (571)
                      ...++.++.+.|++..|..+++....+
T Consensus       663 qlmiasc~rrsgnyqka~d~yk~~hrk  689 (840)
T KOG2003|consen  663 QLMIASCFRRSGNYQKAFDLYKDIHRK  689 (840)
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHHh
Confidence            556677778999999999999988654

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

Probab=99.53  E-value=2.1e-12  Score=127.61  Aligned_cols=276  Identities=13%  Similarity=0.065  Sum_probs=217.6

Q ss_pred             CCHHHHHHHHhhCCC--CCHH-HHHHHHHHHHHcCChhHHHHHHHHHHHCC--CCCCHhHHHHHHHHHhccCchHHHHHH
Q 008280          146 GKVDLAEKLFDEMPT--KNLV-TWNAMIAGYVENSWAEDGLKLLRMMIGLG--IRPNASSLSSVLLGCSHLSSLQLGKQV  220 (571)
Q Consensus       146 g~~~~A~~~~~~~~~--~~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~g--~~pd~~t~~~ll~~~~~~~~~~~a~~~  220 (571)
                      -+..+|...|..+++  +|.. ....+..+|...+++++|.++|+.+.+..  ..-+..+|++.+--+-+.    -+..+
T Consensus       333 y~~~~A~~~~~klp~h~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~----v~Ls~  408 (638)
T KOG1126|consen  333 YNCREALNLFEKLPSHHYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDE----VALSY  408 (638)
T ss_pred             HHHHHHHHHHHhhHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhh----HHHHH
Confidence            356889999999764  4443 44567889999999999999999998742  122566788877655432    22222


Q ss_pred             HH-HHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCCC---ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCC
Q 008280          221 HQ-LVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRK---DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMK  296 (571)
Q Consensus       221 ~~-~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  296 (571)
                      +. .+++. -+..+.+|.++.+.|.-+++.+.|++.|++..+-   ...+|+.+..-+.....+|.|...|+....  +.
T Consensus       409 Laq~Li~~-~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~--~~  485 (638)
T KOG1126|consen  409 LAQDLIDT-DPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPRFAYAYTLLGHESIATEEFDKAMKSFRKALG--VD  485 (638)
T ss_pred             HHHHHHhh-CCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCccchhhhhcCChhhhhHHHHhHHHHHHhhhc--CC
Confidence            22 22332 2567899999999999999999999999998864   457888888888899999999999998875  34


Q ss_pred             CCH-HHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCC-hHhHHHHHHHHHHcCCHHHHHHHHHhC-CCC-CCHhHHHH
Q 008280          297 PDS-ITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAK-PDHYTCMVDLLGRAGKLVEAVDLIKKM-PFK-PQPAIFGT  372 (571)
Q Consensus       297 p~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~  372 (571)
                      |.. -.|..+...|.+.++++.|.-.|+...+   +.|. .....++...+-+.|+.++|+++++++ ... .|+..---
T Consensus       486 ~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~---INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~  562 (638)
T KOG1126|consen  486 PRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVE---INPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYH  562 (638)
T ss_pred             chhhHHHHhhhhheeccchhhHHHHHHHhhhc---CCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHH
Confidence            444 4777888999999999999999998874   4554 667778889999999999999999998 222 34444444


Q ss_pred             HHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhCC
Q 008280          373 LLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENN  432 (571)
Q Consensus       373 l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  432 (571)
                      .+..+...+++++|+..++++.++-|++.. +|..++.+|-+.|+.+.|..-|--+.+..
T Consensus       563 ~~~il~~~~~~~eal~~LEeLk~~vP~es~-v~~llgki~k~~~~~~~Al~~f~~A~~ld  621 (638)
T KOG1126|consen  563 RASILFSLGRYVEALQELEELKELVPQESS-VFALLGKIYKRLGNTDLALLHFSWALDLD  621 (638)
T ss_pred             HHHHHHhhcchHHHHHHHHHHHHhCcchHH-HHHHHHHHHHHHccchHHHHhhHHHhcCC
Confidence            566677899999999999999999999998 99999999999999999998887665533

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

Probab=99.51  E-value=1.8e-10  Score=111.88  Aligned_cols=402  Identities=14%  Similarity=0.081  Sum_probs=283.7

Q ss_pred             CHHHHHHHHhhCCC--CChhhHHHHHHHHHcCCCCHHHHHHHHhh--CCCCChhhHHHHHHHHHcCCCHHHHHHHHhhCC
Q 008280           22 KLKDAQELFDKIPQ--PDVVSYNIMLSCILLNSDDVVAAFDFFQR--LPIKDTASWNTMISGFVQKKNMAKARDLFLAMP   97 (571)
Q Consensus        22 ~~~~A~~~~~~~~~--~~~~~~~~ll~~~~~~~g~~~~A~~~~~~--m~~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~   97 (571)
                      ++.-|.-+-+++..  .|+...--+...+.-. |+.+.|..+...  +...|.........++.+..++++|+.++....
T Consensus        31 ~y~~a~f~adkV~~l~~dp~d~~~~aq~l~~~-~~y~ra~~lit~~~le~~d~~cryL~~~~l~~lk~~~~al~vl~~~~  109 (611)
T KOG1173|consen   31 RYKTALFWADKVAGLTNDPADIYWLAQVLYLG-RQYERAAHLITTYKLEKRDIACRYLAAKCLVKLKEWDQALLVLGRGH  109 (611)
T ss_pred             hhhHHHHHHHHHHhccCChHHHHHHHHHHHhh-hHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            44444444444422  4444444566667777 888888877654  567888888888999999999999999998321


Q ss_pred             ----C-----CC-------cchH----HH--------HHHHHHHcCChHHHHHHHhhCCCCChhHHHHHHHHHHh-----
Q 008280           98 ----E-----KN-------SVSW----SA--------MISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMK-----  144 (571)
Q Consensus        98 ----~-----~d-------~~~~----~~--------li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~-----  144 (571)
                          .     .|       ...+    ..        -...|....+.++|...|.+....|+..+.++...-..     
T Consensus       110 ~~~~~f~yy~~~~~~~l~~n~~~~~~~~~~essic~lRgk~y~al~n~~~ar~~Y~~Al~~D~~c~Ea~~~lvs~~mlt~  189 (611)
T KOG1173|consen  110 VETNPFSYYEKDAANTLELNSAGEDLMINLESSICYLRGKVYVALDNREEARDKYKEALLADAKCFEAFEKLVSAHMLTA  189 (611)
T ss_pred             hhhcchhhcchhhhceeccCcccccccccchhceeeeeeehhhhhccHHHHHHHHHHHHhcchhhHHHHHHHHHHHhcch
Confidence                0     11       0011    00        11345666778888888887775555444333221111     


Q ss_pred             ---------------c-CCHHHHHHHHhhC----C----------------CCCHHHHHHHHHHHHHcCChhHHHHHHHH
Q 008280          145 ---------------F-GKVDLAEKLFDEM----P----------------TKNLVTWNAMIAGYVENSWAEDGLKLLRM  188 (571)
Q Consensus       145 ---------------~-g~~~~A~~~~~~~----~----------------~~~~~~~~~li~~~~~~g~~~~A~~~~~~  188 (571)
                                     + .+.+.-+.+|+-.    .                +.|+.....-..-+...+++.+..+++..
T Consensus       190 ~Ee~~ll~~l~~a~~~~ed~e~l~~lyel~~~k~~n~~~~~r~~~~sl~~l~~~~dll~~~ad~~y~~c~f~~c~kit~~  269 (611)
T KOG1173|consen  190 QEEFELLESLDLAMLTKEDVERLEILYELKLCKNRNEESLTRNEDESLIGLAENLDLLAEKADRLYYGCRFKECLKITEE  269 (611)
T ss_pred             hHHHHHHhcccHHhhhhhHHHHHHHHHHhhhhhhccccccccCchhhhhhhhhcHHHHHHHHHHHHHcChHHHHHHHhHH
Confidence                           0 0111112222211    0                12344445555667788999999999999


Q ss_pred             HHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCCCC---hh
Q 008280          189 MIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKD---VV  265 (571)
Q Consensus       189 m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~---~~  265 (571)
                      ..+.. ++....+..=|..+...|+..+-.-+=..+++. .|....+|-++.--|.-.|+..+|++.|.+...-|   ..
T Consensus       270 lle~d-pfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~-yP~~a~sW~aVg~YYl~i~k~seARry~SKat~lD~~fgp  347 (611)
T KOG1173|consen  270 LLEKD-PFHLPCLPLHIACLYELGKSNKLFLLSHKLVDL-YPSKALSWFAVGCYYLMIGKYSEARRYFSKATTLDPTFGP  347 (611)
T ss_pred             HHhhC-CCCcchHHHHHHHHHHhcccchHHHHHHHHHHh-CCCCCcchhhHHHHHHHhcCcHHHHHHHHHHhhcCccccH
Confidence            88753 455555555555667777766665555566655 36778899999999999999999999999876543   46


Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHH
Q 008280          266 TWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLL  345 (571)
Q Consensus       266 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~  345 (571)
                      .|-.....|+-.|..++|+..+...-+. ++-....+.-+..-|.+.++.+.|.++|.+...  -.+.|+...+-+.-+.
T Consensus       348 aWl~fghsfa~e~EhdQAmaaY~tAarl-~~G~hlP~LYlgmey~~t~n~kLAe~Ff~~A~a--i~P~Dplv~~Elgvva  424 (611)
T KOG1173|consen  348 AWLAFGHSFAGEGEHDQAMAAYFTAARL-MPGCHLPSLYLGMEYMRTNNLKLAEKFFKQALA--IAPSDPLVLHELGVVA  424 (611)
T ss_pred             HHHHHhHHhhhcchHHHHHHHHHHHHHh-ccCCcchHHHHHHHHHHhccHHHHHHHHHHHHh--cCCCcchhhhhhhhee
Confidence            8999999999999999999998887553 222233344455678889999999999998874  2344577788888778


Q ss_pred             HHcCCHHHHHHHHHhC--------CCCC-CHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhcc
Q 008280          346 GRAGKLVEAVDLIKKM--------PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMK  416 (571)
Q Consensus       346 ~~~g~~~~A~~~~~~~--------~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g  416 (571)
                      ...+.+.+|...|+..        +..+ -..+++.|..+|++.+.+++|+..+++++.+.|.++. +|..++-+|...|
T Consensus       425 y~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~~k~~~-~~asig~iy~llg  503 (611)
T KOG1173|consen  425 YTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLLSPKDAS-THASIGYIYHLLG  503 (611)
T ss_pred             ehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHcCCCchh-HHHHHHHHHHHhc
Confidence            8889999999999876        1111 2356888999999999999999999999999999999 9999999999999


Q ss_pred             ChhHHHHHHHHHHh
Q 008280          417 KWDDVARIRLSMKE  430 (571)
Q Consensus       417 ~~~~a~~~~~~m~~  430 (571)
                      +++.|...|.+...
T Consensus       504 nld~Aid~fhKaL~  517 (611)
T KOG1173|consen  504 NLDKAIDHFHKALA  517 (611)
T ss_pred             ChHHHHHHHHHHHh
Confidence            99999999987653

>TIGR00540 hemY_coli hemY protein

Probab=99.50  E-value=6.5e-11  Score=119.51  Aligned_cols=129  Identities=11%  Similarity=0.001  Sum_probs=62.4

Q ss_pred             ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHH--H-HHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHH
Q 008280          263 DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSIT--F-VALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYT  339 (571)
Q Consensus       263 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t--~-~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  339 (571)
                      +...+..++..+...|+.++|.+++++..+..  ||...  + ..........++.+.+.+.++...+...-.|+.....
T Consensus       262 ~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~--pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~p~~~~~~ll~  339 (409)
T TIGR00540       262 NIALKIALAEHLIDCDDHDSAQEIIFDGLKKL--GDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKNVDDKPKCCINR  339 (409)
T ss_pred             CHHHHHHHHHHHHHCCChHHHHHHHHHHHhhC--CCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHhCCCChhHHHHH
Confidence            55666666666666666666666666666532  33321  0 1111111223445555555555444211111113344


Q ss_pred             HHHHHHHHcCCHHHHHHHHHh--C-CCCCCHhHHHHHHHHHHhcCCHhHHHHHHHHH
Q 008280          340 CMVDLLGRAGKLVEAVDLIKK--M-PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNL  393 (571)
Q Consensus       340 ~li~~~~~~g~~~~A~~~~~~--~-~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~  393 (571)
                      ++...+.+.|++++|.+.|+.  . ...|+...+..+...+.+.|+.++|.+++++.
T Consensus       340 sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~  396 (409)
T TIGR00540       340 ALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQDS  396 (409)
T ss_pred             HHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            555555555555555555552  1 33455554555555555555555555555544

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

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

Probab=99.50  E-value=1.7e-13  Score=131.26  Aligned_cols=250  Identities=16%  Similarity=0.168  Sum_probs=92.4

Q ss_pred             HHHHHHHcCCCHHHHHHHHhhC-C----CCCcchHHHHHHHHHHcCChHHHHHHHhhCCCCC---hhHHHHHHHHHHhcC
Q 008280           75 TMISGFVQKKNMAKARDLFLAM-P----EKNSVSWSAMISGYIECGQLDKAVELFKVAPVKS---VVAWTAMISGYMKFG  146 (571)
Q Consensus        75 ~li~~~~~~g~~~~A~~~~~~m-~----~~d~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~li~~~~~~g  146 (571)
                      .+...+.+.|++++|++++++. .    ..|...|..+...+...++++.|++.++++...+   +..+..++.. ...+
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~~~~~~~~l~~l-~~~~   91 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKANPQDYERLIQL-LQDG   91 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-cccc
Confidence            3456677778888888887432 2    1245556666666667778888888887776433   3455556655 5777


Q ss_pred             CHHHHHHHHhhCCC--CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCC-CCCCHhHHHHHHHHHhccCchHHHHHHHHH
Q 008280          147 KVDLAEKLFDEMPT--KNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLG-IRPNASSLSSVLLGCSHLSSLQLGKQVHQL  223 (571)
Q Consensus       147 ~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~  223 (571)
                      ++++|.+++...-+  ++...+..++..+.+.++++++.++++++.... .+++...|......+.+.|+.++|...++.
T Consensus        92 ~~~~A~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~  171 (280)
T PF13429_consen   92 DPEEALKLAEKAYERDGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRK  171 (280)
T ss_dssp             --------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHH
T ss_pred             cccccccccccccccccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            78888777766533  455667777777888888888888888766532 234555666667777777888888888887


Q ss_pred             HHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhC---CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHH
Q 008280          224 VFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQ---RKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSI  300 (571)
Q Consensus       224 ~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~  300 (571)
                      +++.. |.|..+.+.++.++...|+.+++.++++...   ..|...|..+..+|...|+.++|+..|++..... +.|..
T Consensus       172 al~~~-P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~-p~d~~  249 (280)
T PF13429_consen  172 ALELD-PDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN-PDDPL  249 (280)
T ss_dssp             HHHH--TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS-TT-HH
T ss_pred             HHHcC-CCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHHhcccccccccccccccccccc-ccccc
Confidence            77765 4456677777888888888777666665543   3466677777888888888888888888876643 33566


Q ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHhHH
Q 008280          301 TFVALLLACNHAGLVDLGIQYFDSMVN  327 (571)
Q Consensus       301 t~~~ll~a~~~~g~~~~a~~~~~~~~~  327 (571)
                      ....+..++...|+.++|.++..++.+
T Consensus       250 ~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  250 WLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             HHHHHHHHHT-----------------
T ss_pred             ccccccccccccccccccccccccccc
Confidence            666777777888888888777766543

>TIGR00540 hemY_coli hemY protein

Probab=99.49  E-value=3.9e-11  Score=121.07  Aligned_cols=278  Identities=10%  Similarity=-0.018  Sum_probs=190.1

Q ss_pred             hcCCHHHHHHHHhhCCC--CCH-HHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHh--HHHHHHHHHhccCchHHHH
Q 008280          144 KFGKVDLAEKLFDEMPT--KNL-VTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNAS--SLSSVLLGCSHLSSLQLGK  218 (571)
Q Consensus       144 ~~g~~~~A~~~~~~~~~--~~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~--t~~~ll~~~~~~~~~~~a~  218 (571)
                      ..|+++.|++.+.+..+  |+. ..+-....++.+.|+++.|.+.|.+..+.  .|+..  ........+...|+++.|.
T Consensus        96 ~~g~~~~A~~~l~~~~~~~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~--~p~~~l~~~~~~a~l~l~~~~~~~Al  173 (409)
T TIGR00540        96 AEGDYAKAEKLIAKNADHAAEPVLNLIKAAEAAQQRGDEARANQHLEEAAEL--AGNDNILVEIARTRILLAQNELHAAR  173 (409)
T ss_pred             hCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCcCchHHHHHHHHHHHHCCCHHHHH
Confidence            46788888887776654  332 33344456677778888888888877654  34432  2333455666778888888


Q ss_pred             HHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCCC---ChhhHH----HHHHHHHHcCChHHHHHHHHHHH
Q 008280          219 QVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRK---DVVTWN----AMISGYAQHGKGEKALRLFDKMK  291 (571)
Q Consensus       219 ~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~---~~~~~~----~li~~~~~~g~~~~A~~~~~~m~  291 (571)
                      ..++.+.+.. |.+..+...+..+|.+.|++++|.+.+..+.+.   +...+.    ....+....+..+++.+.+..+.
T Consensus       174 ~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~  252 (409)
T TIGR00540       174 HGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEGIDGLLNWW  252 (409)
T ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHH
Confidence            8888888776 556677788888888888888888888877743   222221    11112233333334444555555


Q ss_pred             HcCC---CCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHh-HHHHHHHH--HHcCCHHHHHHHHHhC-CCC
Q 008280          292 DEGM---KPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDH-YTCMVDLL--GRAGKLVEAVDLIKKM-PFK  364 (571)
Q Consensus       292 ~~g~---~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~-~~~li~~~--~~~g~~~~A~~~~~~~-~~~  364 (571)
                      ....   +.+...+..+...+...|+.++|.+.+++..+.   .|+... ...++..+  ...++.+.+.+.+++. ...
T Consensus       253 ~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~---~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~  329 (409)
T TIGR00540       253 KNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKK---LGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKNV  329 (409)
T ss_pred             HHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhh---CCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHhC
Confidence            4321   136777888889999999999999999999874   344321 10122222  3357788888888776 223


Q ss_pred             CC-H--hHHHHHHHHHHhcCCHhHHHHHHH--HHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHH
Q 008280          365 PQ-P--AIFGTLLSACRVHKRLDLAEFAAM--NLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMK  429 (571)
Q Consensus       365 p~-~--~~~~~l~~~~~~~g~~~~a~~~~~--~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  429 (571)
                      |+ +  ....++...|.+.|++++|.+.|+  ...+..|++.  .+..++..+.+.|+.++|.+++++-.
T Consensus       330 p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~--~~~~La~ll~~~g~~~~A~~~~~~~l  397 (409)
T TIGR00540       330 DDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDAN--DLAMAADAFDQAGDKAEAAAMRQDSL  397 (409)
T ss_pred             CCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHH--HHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            33 3  567789999999999999999999  5777889875  67799999999999999999998653

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=99.47  E-value=5.2e-10  Score=110.24  Aligned_cols=388  Identities=10%  Similarity=0.053  Sum_probs=287.6

Q ss_pred             ChhhHHHHHHHHHcCCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHcCCCHHHHHHHHhhCCC---CCcchHHHHHHH
Q 008280           37 DVVSYNIMLSCILLNSDDVVAAFDFFQRLPI---KDTASWNTMISGFVQKKNMAKARDLFLAMPE---KNSVSWSAMISG  110 (571)
Q Consensus        37 ~~~~~~~ll~~~~~~~g~~~~A~~~~~~m~~---~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~---~d~~~~~~li~~  110 (571)
                      ++..|...+.    - .+.++|+-++.+..+   .+...|.    +|++...++.|..++++..+   .+...|.+....
T Consensus       379 sv~LWKaAVe----l-E~~~darilL~rAveccp~s~dLwl----AlarLetYenAkkvLNkaRe~iptd~~IWitaa~L  449 (913)
T KOG0495|consen  379 SVRLWKAAVE----L-EEPEDARILLERAVECCPQSMDLWL----ALARLETYENAKKVLNKAREIIPTDREIWITAAKL  449 (913)
T ss_pred             hHHHHHHHHh----c-cChHHHHHHHHHHHHhccchHHHHH----HHHHHHHHHHHHHHHHHHHhhCCCChhHHHHHHHH
Confidence            3445554443    2 455557777766544   2333344    45556677888888777653   577888888777


Q ss_pred             HHHcCChHHHHHHHhhCC--------CCChhHHHHHHHHHHhcCCHHHHHHHHhhCCC-----C-CHHHHHHHHHHHHHc
Q 008280          111 YIECGQLDKAVELFKVAP--------VKSVVAWTAMISGYMKFGKVDLAEKLFDEMPT-----K-NLVTWNAMIAGYVEN  176 (571)
Q Consensus       111 ~~~~g~~~~A~~~~~~~~--------~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~-~~~~~~~li~~~~~~  176 (571)
                      --++|+.+...++..+..        .-+...|-.=...+-..|..-.+..+......     . --.+|+.-...|.+.
T Consensus       450 EE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e~agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~  529 (913)
T KOG0495|consen  450 EEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEACEDAGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKR  529 (913)
T ss_pred             HHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHHhhcCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhc
Confidence            778888888888776553        22334454444555555555555555444431     1 235888888889999


Q ss_pred             CChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHH
Q 008280          177 SWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLF  256 (571)
Q Consensus       177 g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~  256 (571)
                      +.++-|..+|...++. .+.+...|......--..|..+.-..+++.++..- +.....|.....-+...|++..|+.++
T Consensus       530 ~~~~carAVya~alqv-fp~k~slWlra~~~ek~hgt~Esl~Allqkav~~~-pkae~lwlM~ake~w~agdv~~ar~il  607 (913)
T KOG0495|consen  530 PAIECARAVYAHALQV-FPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQC-PKAEILWLMYAKEKWKAGDVPAARVIL  607 (913)
T ss_pred             chHHHHHHHHHHHHhh-ccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHhcCCcHHHHHHH
Confidence            9999999999888774 23455667666666667788899999999888764 445566777777788899999999998


Q ss_pred             HhhCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCC
Q 008280          257 LEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAA  333 (571)
Q Consensus       257 ~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~  333 (571)
                      ....+   .+...|.+-+..-..+.+++.|..+|.+...  ..|+...|..-+..-.-.++.++|.+++++.++.  ++.
T Consensus       608 ~~af~~~pnseeiwlaavKle~en~e~eraR~llakar~--~sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~--fp~  683 (913)
T KOG0495|consen  608 DQAFEANPNSEEIWLAAVKLEFENDELERARDLLAKARS--ISGTERVWMKSANLERYLDNVEEALRLLEEALKS--FPD  683 (913)
T ss_pred             HHHHHhCCCcHHHHHHHHHHhhccccHHHHHHHHHHHhc--cCCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh--CCc
Confidence            87764   3567898889999999999999999999876  4567777776666667789999999999999874  344


Q ss_pred             ChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHH
Q 008280          334 KPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQ-PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANI  411 (571)
Q Consensus       334 ~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~  411 (571)
                      -...|..+.+.+-+.++++.|.+.|..- ..-|+ +..|..|...--+.|+.-+|..++++..-.+|++.. .|...+.+
T Consensus       684 f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~cP~~ipLWllLakleEk~~~~~rAR~ildrarlkNPk~~~-lwle~Ir~  762 (913)
T KOG0495|consen  684 FHKLWLMLGQIEEQMENIEMAREAYLQGTKKCPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKNPKNAL-LWLESIRM  762 (913)
T ss_pred             hHHHHHHHhHHHHHHHHHHHHHHHHHhccccCCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcCCCcch-hHHHHHHH
Confidence            4678889999999999999999998776 32344 578988888888999999999999999999999998 99999999


Q ss_pred             HhhccChhHHHHHHHHHHhCCCccCCceeEE
Q 008280          412 YAAMKKWDDVARIRLSMKENNVVKMPGYSWI  442 (571)
Q Consensus       412 ~~~~g~~~~a~~~~~~m~~~~~~~~~~~s~~  442 (571)
                      -.+.|+.++|..+..+..+.-  |..|.-|.
T Consensus       763 ElR~gn~~~a~~lmakALQec--p~sg~LWa  791 (913)
T KOG0495|consen  763 ELRAGNKEQAELLMAKALQEC--PSSGLLWA  791 (913)
T ss_pred             HHHcCCHHHHHHHHHHHHHhC--CccchhHH
Confidence            999999999998877666543  22455564

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

Probab=99.47  E-value=1.5e-09  Score=103.16  Aligned_cols=415  Identities=12%  Similarity=0.105  Sum_probs=308.5

Q ss_pred             CCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHcCCCCHHHHHHHHhhCCC--CCh-hhHHHHHHHHHcCCCHHHHHHH
Q 008280           19 QRGKLKDAQELFDKIPQ---PDVVSYNIMLSCILLNSDDVVAAFDFFQRLPI--KDT-ASWNTMISGFVQKKNMAKARDL   92 (571)
Q Consensus        19 ~~g~~~~A~~~~~~~~~---~~~~~~~~ll~~~~~~~g~~~~A~~~~~~m~~--~d~-~~~~~li~~~~~~g~~~~A~~~   92 (571)
                      .+ .+..|+.+|+....   .+...|-.-+.+=.++ ..+..|+.++++...  |.+ ..|--.+-+=-..|++..|.++
T Consensus        86 q~-e~~RARSv~ERALdvd~r~itLWlkYae~Emkn-k~vNhARNv~dRAvt~lPRVdqlWyKY~ymEE~LgNi~gaRqi  163 (677)
T KOG1915|consen   86 QK-EIQRARSVFERALDVDYRNITLWLKYAEFEMKN-KQVNHARNVWDRAVTILPRVDQLWYKYIYMEEMLGNIAGARQI  163 (677)
T ss_pred             HH-HHHHHHHHHHHHHhcccccchHHHHHHHHHHhh-hhHhHHHHHHHHHHHhcchHHHHHHHHHHHHHHhcccHHHHHH
Confidence            44 78889999998875   6777788888888888 999999999998643  222 3455566566667999999999


Q ss_pred             HhhCC--CCCcchHHHHHHHHHHcCChHHHHHHHhhCC--CCChhHHHHHHHHHHhcCCHHHHHHHHhhCCC--C----C
Q 008280           93 FLAMP--EKNSVSWSAMISGYIECGQLDKAVELFKVAP--VKSVVAWTAMISGYMKFGKVDLAEKLFDEMPT--K----N  162 (571)
Q Consensus        93 ~~~m~--~~d~~~~~~li~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~----~  162 (571)
                      |++-.  +||...|.+.|+.-.+...++.|..+|+...  .|++..|--....=.++|++..|+.+|+...+  .    +
T Consensus       164 ferW~~w~P~eqaW~sfI~fElRykeieraR~IYerfV~~HP~v~~wikyarFE~k~g~~~~aR~VyerAie~~~~d~~~  243 (677)
T KOG1915|consen  164 FERWMEWEPDEQAWLSFIKFELRYKEIERARSIYERFVLVHPKVSNWIKYARFEEKHGNVALARSVYERAIEFLGDDEEA  243 (677)
T ss_pred             HHHHHcCCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHheecccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhhHHHH
Confidence            98754  6999999999999999999999999999764  78888888889999999999999999998764  2    2


Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCC--HhHHHHHHHHHhccCchHHHHH--------HHHHHHhCCCCCC
Q 008280          163 LVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPN--ASSLSSVLLGCSHLSSLQLGKQ--------VHQLVFKSPLCKD  232 (571)
Q Consensus       163 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd--~~t~~~ll~~~~~~~~~~~a~~--------~~~~~~~~g~~~~  232 (571)
                      ...+++...-=.++..++.|.-+|+-.+.. ++.+  ...|......=-+-|+......        -++..++.+ +.|
T Consensus       244 e~lfvaFA~fEe~qkE~ERar~iykyAld~-~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~~n-p~n  321 (677)
T KOG1915|consen  244 EILFVAFAEFEERQKEYERARFIYKYALDH-IPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEVSKN-PYN  321 (677)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-cCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHHHhC-CCC
Confidence            234555555555677889999999887764 2323  2334333333233454433322        234445444 567


Q ss_pred             cchHHHHHHHHHhcCCHHHHHHHHHhhCCCC-----hhhHHHHHHH--------HHHcCChHHHHHHHHHHHHcCCCCCH
Q 008280          233 TTALTPLISMYCKCGDLEDACKLFLEIQRKD-----VVTWNAMISG--------YAQHGKGEKALRLFDKMKDEGMKPDS  299 (571)
Q Consensus       233 ~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~-----~~~~~~li~~--------~~~~g~~~~A~~~~~~m~~~g~~p~~  299 (571)
                      -.+|--.+..-...|+.+...++|++....-     -..|...|-.        -....+.+.+.++|+...+. ++...
T Consensus       322 YDsWfdylrL~e~~g~~~~Ire~yErAIanvpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~l-IPHkk  400 (677)
T KOG1915|consen  322 YDSWFDYLRLEESVGDKDRIRETYERAIANVPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACLDL-IPHKK  400 (677)
T ss_pred             chHHHHHHHHHHhcCCHHHHHHHHHHHHccCCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh-cCccc
Confidence            7778888888888999999999999876421     1223322221        13467899999999998873 45556


Q ss_pred             HHHHHHHHHH----HhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHhHHHHH
Q 008280          300 ITFVALLLAC----NHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTL  373 (571)
Q Consensus       300 ~t~~~ll~a~----~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l  373 (571)
                      +||..+--.|    .++.++..|.+++...+   |.-|...++...|+.=.+.+.++.+..++++. ...| |..+|...
T Consensus       401 FtFaKiWlmyA~feIRq~~l~~ARkiLG~AI---G~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~Pe~c~~W~ky  477 (677)
T KOG1915|consen  401 FTFAKIWLMYAQFEIRQLNLTGARKILGNAI---GKCPKDKLFKGYIELELQLREFDRCRKLYEKFLEFSPENCYAWSKY  477 (677)
T ss_pred             chHHHHHHHHHHHHHHHcccHHHHHHHHHHh---ccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcChHhhHHHHHH
Confidence            7777654444    46788999999999887   88999999999999999999999999999987 3344 45899998


Q ss_pred             HHHHHhcCCHhHHHHHHHHHhccCC-CCCchhHHHHHHHHhhccChhHHHHHHHHHHhCCCccCCceeEEEE
Q 008280          374 LSACRVHKRLDLAEFAAMNLFNLNP-ANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVVKMPGYSWIEV  444 (571)
Q Consensus       374 ~~~~~~~g~~~~a~~~~~~~~~~~p-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~s~~~~  444 (571)
                      ...-...|+.+.|..+|+-++.... +-|.-.+-..++.-...|.++.|..+++.+.++.-...   +||..
T Consensus       478 aElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~rt~h~k---vWisF  546 (677)
T KOG1915|consen  478 AELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDRTQHVK---VWISF  546 (677)
T ss_pred             HHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHhcccch---HHHhH
Confidence            8888999999999999999887432 22221555666667789999999999999987653311   67653

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

Probab=99.45  E-value=1.1e-09  Score=112.22  Aligned_cols=334  Identities=17%  Similarity=0.256  Sum_probs=246.8

Q ss_pred             CCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHcCCCCHHHHHHHHhh---CCCCChhhHHHHHHHHHcCCCHHHHHHH
Q 008280           19 QRGKLKDAQELFDKIPQ---PDVVSYNIMLSCILLNSDDVVAAFDFFQR---LPIKDTASWNTMISGFVQKKNMAKARDL   92 (571)
Q Consensus        19 ~~g~~~~A~~~~~~~~~---~~~~~~~~ll~~~~~~~g~~~~A~~~~~~---m~~~d~~~~~~li~~~~~~g~~~~A~~~   92 (571)
                      .| ++++|.+++.++.+   .+...|.+|...|-+. |+.+++...+--   ..+.|..-|-.+.....+.|.+++|.-.
T Consensus       152 rg-~~eeA~~i~~EvIkqdp~~~~ay~tL~~IyEqr-Gd~eK~l~~~llAAHL~p~d~e~W~~ladls~~~~~i~qA~~c  229 (895)
T KOG2076|consen  152 RG-DLEEAEEILMEVIKQDPRNPIAYYTLGEIYEQR-GDIEKALNFWLLAAHLNPKDYELWKRLADLSEQLGNINQARYC  229 (895)
T ss_pred             hC-CHHHHHHHHHHHHHhCccchhhHHHHHHHHHHc-ccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcccHHHHHHH
Confidence            36 99999999998865   4557889999998888 999999876543   4566888999999999999999999999


Q ss_pred             HhhCCCCCcchH---HHHHHHHHHcCChHHHHHHHhhCCCCCh--------hHHHHHHHHHHhcCCHHHHHHHHhhCCC-
Q 008280           93 FLAMPEKNSVSW---SAMISGYIECGQLDKAVELFKVAPVKSV--------VAWTAMISGYMKFGKVDLAEKLFDEMPT-  160 (571)
Q Consensus        93 ~~~m~~~d~~~~---~~li~~~~~~g~~~~A~~~~~~~~~~~~--------~~~~~li~~~~~~g~~~~A~~~~~~~~~-  160 (571)
                      |.+..+.++.-|   ---+..|-+.|+...|...|.++...++        ..--..+..|...++-+.|.+.++.... 
T Consensus       230 y~rAI~~~p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s~  309 (895)
T KOG2076|consen  230 YSRAIQANPSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGALSK  309 (895)
T ss_pred             HHHHHhcCCcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhh
Confidence            998876433333   3446788899999999999988864444        1222345667777877889888887764 


Q ss_pred             -C---CHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhH----------------------H----HHHHHHHhc
Q 008280          161 -K---NLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASS----------------------L----SSVLLGCSH  210 (571)
Q Consensus       161 -~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t----------------------~----~~ll~~~~~  210 (571)
                       .   +...++.++..|.+...++.|......+.....++|..-                      |    ..+.-++.+
T Consensus       310 ~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~rl~icL~~  389 (895)
T KOG2076|consen  310 EKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVIRLMICLVH  389 (895)
T ss_pred             ccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhHhHhhhhhc
Confidence             2   334788899999999999999988888776222222111                      1    122334456


Q ss_pred             cCchHHHHHHHHHHHhCC--CCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCC----CChhhHHHHHHHHHHcCChHHHH
Q 008280          211 LSSLQLGKQVHQLVFKSP--LCKDTTALTPLISMYCKCGDLEDACKLFLEIQR----KDVVTWNAMISGYAQHGKGEKAL  284 (571)
Q Consensus       211 ~~~~~~a~~~~~~~~~~g--~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~A~  284 (571)
                      ....+....+........  ...+...+.-+.++|...|++.+|..+|..+..    .+...|-.+..+|...|..++|.
T Consensus       390 L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A~  469 (895)
T KOG2076|consen  390 LKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEEAI  469 (895)
T ss_pred             ccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHHHH
Confidence            666677777777777766  344567788899999999999999999998875    35678999999999999999999


Q ss_pred             HHHHHHHHcCCCCCHH-HHHHHHHHHHhcCcHHHHHHHHHHhHH-------hcCCCCChHhHHHHHHHHHHcCCHHHHHH
Q 008280          285 RLFDKMKDEGMKPDSI-TFVALLLACNHAGLVDLGIQYFDSMVN-------DYGIAAKPDHYTCMVDLLGRAGKLVEAVD  356 (571)
Q Consensus       285 ~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~-------~~~~~~~~~~~~~li~~~~~~g~~~~A~~  356 (571)
                      +.|+.....  .|+.. .-..|...+.+.|+.++|.+.+..+..       ..+..|+........+.|...|+.++=+.
T Consensus       470 e~y~kvl~~--~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~~gk~E~fi~  547 (895)
T KOG2076|consen  470 EFYEKVLIL--APDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQVGKREEFIN  547 (895)
T ss_pred             HHHHHHHhc--CCCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHHhhhHHHHHH
Confidence            999998874  45443 455666778899999999999887531       11344555555566677777777766433

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

Probab=99.45  E-value=9.1e-12  Score=123.25  Aligned_cols=192  Identities=15%  Similarity=0.075  Sum_probs=88.2

Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCC-CHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHH
Q 008280          163 LVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRP-NASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLIS  241 (571)
Q Consensus       163 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-d~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~  241 (571)
                      +.+|-++..+|..+++.+.|++.|++..+.  .| ...+|+.+..-+.....+|.|...|+.++... +.+-..|..|..
T Consensus       421 PesWca~GNcfSLQkdh~~Aik~f~RAiQl--dp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~-~rhYnAwYGlG~  497 (638)
T KOG1126|consen  421 PESWCALGNCFSLQKDHDTAIKCFKRAIQL--DPRFAYAYTLLGHESIATEEFDKAMKSFRKALGVD-PRHYNAWYGLGT  497 (638)
T ss_pred             cHHHHHhcchhhhhhHHHHHHHHHHHhhcc--CCccchhhhhcCChhhhhHHHHhHHHHHHhhhcCC-chhhHHHHhhhh
Confidence            345555555555555555555555544432  22 33444444444444444555555554444322 122223333455


Q ss_pred             HHHhcCCHHHHHHHHHhhCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHH
Q 008280          242 MYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLG  318 (571)
Q Consensus       242 ~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a  318 (571)
                      .|.|.++++.|+-.|++..+   .+.+....+...+.+.|+.++|+.+|++......+ |..+-..-...+...++.++|
T Consensus       498 vy~Kqek~e~Ae~~fqkA~~INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~k-n~l~~~~~~~il~~~~~~~ea  576 (638)
T KOG1126|consen  498 VYLKQEKLEFAEFHFQKAVEINPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPK-NPLCKYHRASILFSLGRYVEA  576 (638)
T ss_pred             heeccchhhHHHHHHHhhhcCCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCC-CchhHHHHHHHHHhhcchHHH
Confidence            55555555555555555443   23334444444455555555555555555443221 222222233334444555555


Q ss_pred             HHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHh
Q 008280          319 IQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKK  360 (571)
Q Consensus       319 ~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  360 (571)
                      .+.++++++  -.+.+..++..++..|.+.|+.+.|+.-|.-
T Consensus       577 l~~LEeLk~--~vP~es~v~~llgki~k~~~~~~~Al~~f~~  616 (638)
T KOG1126|consen  577 LQELEELKE--LVPQESSVFALLGKIYKRLGNTDLALLHFSW  616 (638)
T ss_pred             HHHHHHHHH--hCcchHHHHHHHHHHHHHHccchHHHHhhHH
Confidence            555555543  2222344455555555555555555554433

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

Probab=99.44  E-value=1.7e-10  Score=104.53  Aligned_cols=278  Identities=15%  Similarity=0.182  Sum_probs=148.9

Q ss_pred             CCCHHHHHHHHhhCCCCCcchH---HHHHHHHHHcCChHHHHHHHhhCCCC-Ch------hHHHHHHHHHHhcCCHHHHH
Q 008280           83 KKNMAKARDLFLAMPEKNSVSW---SAMISGYIECGQLDKAVELFKVAPVK-SV------VAWTAMISGYMKFGKVDLAE  152 (571)
Q Consensus        83 ~g~~~~A~~~~~~m~~~d~~~~---~~li~~~~~~g~~~~A~~~~~~~~~~-~~------~~~~~li~~~~~~g~~~~A~  152 (571)
                      .++.++|.++|-+|.+.|+.|+   -+|.+.|-+.|..+.|+.+++.+..+ |.      .+...|..-|...|-+|.|+
T Consensus        48 s~Q~dKAvdlF~e~l~~d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRAE  127 (389)
T COG2956          48 SNQPDKAVDLFLEMLQEDPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRAE  127 (389)
T ss_pred             hcCcchHHHHHHHHHhcCchhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHHH
Confidence            4577788888877776555544   45677788888888888887766533 22      23445667788888888888


Q ss_pred             HHHhhCCCCC---HHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHh----HHHHHHHHHhccCchHHHHHHHHHHH
Q 008280          153 KLFDEMPTKN---LVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNAS----SLSSVLLGCSHLSSLQLGKQVHQLVF  225 (571)
Q Consensus       153 ~~~~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~----t~~~ll~~~~~~~~~~~a~~~~~~~~  225 (571)
                      ++|..+.+.+   ..+...|+..|.+..+|++|++.-+++.+.+-++..+    .|.-+........+++.|...+..+.
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            8888877532   2356677888888888888888888887765444322    12223333333344555555555444


Q ss_pred             hCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHH
Q 008280          226 KSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVAL  305 (571)
Q Consensus       226 ~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~l  305 (571)
                      +.+ +..+.+--.+.+.+                               ...|+++.|.+.++...+.+..--..+...|
T Consensus       208 qa~-~~cvRAsi~lG~v~-------------------------------~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L  255 (389)
T COG2956         208 QAD-KKCVRASIILGRVE-------------------------------LAKGDYQKAVEALERVLEQNPEYLSEVLEML  255 (389)
T ss_pred             hhC-ccceehhhhhhHHH-------------------------------HhccchHHHHHHHHHHHHhChHHHHHHHHHH
Confidence            443 22333333344444                               4455555555555554444322222334444


Q ss_pred             HHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHH-HHHhCCCCCCHhHHHHHHHHHH---hcC
Q 008280          306 LLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVD-LIKKMPFKPQPAIFGTLLSACR---VHK  381 (571)
Q Consensus       306 l~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~-~~~~~~~~p~~~~~~~l~~~~~---~~g  381 (571)
                      ..+|.+.|+.+++...+..+.+.   .+.+..-..+.+......-.+.|.. +.+.+..+|+...+..|+..-.   .-|
T Consensus       256 ~~~Y~~lg~~~~~~~fL~~~~~~---~~g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r~Pt~~gf~rl~~~~l~daeeg  332 (389)
T COG2956         256 YECYAQLGKPAEGLNFLRRAMET---NTGADAELMLADLIELQEGIDAAQAYLTRQLRRKPTMRGFHRLMDYHLADAEEG  332 (389)
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHc---cCCccHHHHHHHHHHHhhChHHHHHHHHHHHhhCCcHHHHHHHHHhhhcccccc
Confidence            45555555555555555544432   2222333333333322222333332 2333344556555555555432   223


Q ss_pred             CHhHHHHHHHHHhc
Q 008280          382 RLDLAEFAAMNLFN  395 (571)
Q Consensus       382 ~~~~a~~~~~~~~~  395 (571)
                      ...+....++.|+.
T Consensus       333 ~~k~sL~~lr~mvg  346 (389)
T COG2956         333 RAKESLDLLRDMVG  346 (389)
T ss_pred             chhhhHHHHHHHHH
Confidence            34444445555543

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

Probab=99.41  E-value=3.6e-10  Score=102.45  Aligned_cols=297  Identities=11%  Similarity=0.118  Sum_probs=192.9

Q ss_pred             cCChHHHHHHHhhCCCCChhH---HHHHHHHHHhcCCHHHHHHHHhhCCC-CCHH------HHHHHHHHHHHcCChhHHH
Q 008280          114 CGQLDKAVELFKVAPVKSVVA---WTAMISGYMKFGKVDLAEKLFDEMPT-KNLV------TWNAMIAGYVENSWAEDGL  183 (571)
Q Consensus       114 ~g~~~~A~~~~~~~~~~~~~~---~~~li~~~~~~g~~~~A~~~~~~~~~-~~~~------~~~~li~~~~~~g~~~~A~  183 (571)
                      ..+.++|+++|-+|.+.|+.+   .-+|.+.|-+.|.+|.|+++-+.+.+ ||..      +...|..-|...|-++.|.
T Consensus        48 s~Q~dKAvdlF~e~l~~d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRAE  127 (389)
T COG2956          48 SNQPDKAVDLFLEMLQEDPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRAE  127 (389)
T ss_pred             hcCcchHHHHHHHHHhcCchhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHHH
Confidence            356677777777666554433   34566677777777777777666553 3322      3344555566667777777


Q ss_pred             HHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCCCC
Q 008280          184 KLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKD  263 (571)
Q Consensus       184 ~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~  263 (571)
                      .+|..+.+.| .--......++..|....+|++|..+-..+.+.+-.+...   .+.                       
T Consensus       128 ~~f~~L~de~-efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~---eIA-----------------------  180 (389)
T COG2956         128 DIFNQLVDEG-EFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRV---EIA-----------------------  180 (389)
T ss_pred             HHHHHHhcch-hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchh---HHH-----------------------
Confidence            7776666543 1223344445555555555555555554444443111100   011                       


Q ss_pred             hhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHH-HHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHH
Q 008280          264 VVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITF-VALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMV  342 (571)
Q Consensus       264 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~-~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li  342 (571)
                       ..|.-+...+....+.+.|..++.+..+.+  |+.+-- ..+.......|+++.|.+.++.+.+. +..--+.+...|.
T Consensus       181 -qfyCELAq~~~~~~~~d~A~~~l~kAlqa~--~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQ-n~~yl~evl~~L~  256 (389)
T COG2956         181 -QFYCELAQQALASSDVDRARELLKKALQAD--KKCVRASIILGRVELAKGDYQKAVEALERVLEQ-NPEYLSEVLEMLY  256 (389)
T ss_pred             -HHHHHHHHHHhhhhhHHHHHHHHHHHHhhC--ccceehhhhhhHHHHhccchHHHHHHHHHHHHh-ChHHHHHHHHHHH
Confidence             134445555666778889999999988754  443322 34557888999999999999999875 3333367888999


Q ss_pred             HHHHHcCCHHHHHHHHHhC-CCCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHh---hccCh
Q 008280          343 DLLGRAGKLVEAVDLIKKM-PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYA---AMKKW  418 (571)
Q Consensus       343 ~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~---~~g~~  418 (571)
                      .+|...|+.++...++.++ ...+....-..+...-....-.+.|...+.+-+...|.--  .+..|+....   .-|++
T Consensus       257 ~~Y~~lg~~~~~~~fL~~~~~~~~g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r~Pt~~--gf~rl~~~~l~daeeg~~  334 (389)
T COG2956         257 ECYAQLGKPAEGLNFLRRAMETNTGADAELMLADLIELQEGIDAAQAYLTRQLRRKPTMR--GFHRLMDYHLADAEEGRA  334 (389)
T ss_pred             HHHHHhCCHHHHHHHHHHHHHccCCccHHHHHHHHHHHhhChHHHHHHHHHHHhhCCcHH--HHHHHHHhhhccccccch
Confidence            9999999999999998877 3445555556666665666667888888888888899765  4556655542   34668


Q ss_pred             hHHHHHHHHHHhCCCccCCceeEEE
Q 008280          419 DDVARIRLSMKENNVVKMPGYSWIE  443 (571)
Q Consensus       419 ~~a~~~~~~m~~~~~~~~~~~s~~~  443 (571)
                      .+..-.++.|....++..|.|....
T Consensus       335 k~sL~~lr~mvge~l~~~~~YRC~~  359 (389)
T COG2956         335 KESLDLLRDMVGEQLRRKPRYRCQN  359 (389)
T ss_pred             hhhHHHHHHHHHHHHhhcCCceecc
Confidence            8888889999988777777665443

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.41  E-value=9.9e-10  Score=103.13  Aligned_cols=335  Identities=17%  Similarity=0.209  Sum_probs=232.1

Q ss_pred             CCHHHHHHHHhhCCCCChhhHHHHHHHHHcCCCHHHHHHHHhhCCC----CCcchHHHHHHHHHHcCChHHHHHHHhhC-
Q 008280           53 DDVVAAFDFFQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPE----KNSVSWSAMISGYIECGQLDKAVELFKVA-  127 (571)
Q Consensus        53 g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~----~d~~~~~~li~~~~~~g~~~~A~~~~~~~-  127 (571)
                      |++.+   ++-+...+...++..||.+.++-...+.|.+++++-..    -+..+||.+|.+-.-..    ..++..+| 
T Consensus       193 G~vAd---L~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~----~K~Lv~EMi  265 (625)
T KOG4422|consen  193 GAVAD---LLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSV----GKKLVAEMI  265 (625)
T ss_pred             ccHHH---HHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhc----cHHHHHHHH
Confidence            66554   66666667778999999999999999999999988753    36778888887754433    35555555 


Q ss_pred             ---CCCChhHHHHHHHHHHhcCCHHHHHHHH----hhCC----CCCHHHHHHHHHHHHHcCChhH-HHHHHHHHHH----
Q 008280          128 ---PVKSVVAWTAMISGYMKFGKVDLAEKLF----DEMP----TKNLVTWNAMIAGYVENSWAED-GLKLLRMMIG----  191 (571)
Q Consensus       128 ---~~~~~~~~~~li~~~~~~g~~~~A~~~~----~~~~----~~~~~~~~~li~~~~~~g~~~~-A~~~~~~m~~----  191 (571)
                         ..||..++|++++..++.|+++.|++.+    .+|.    +|...+|..+|..+.+.+++.+ |..++.+.+.    
T Consensus       266 sqkm~Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltG  345 (625)
T KOG4422|consen  266 SQKMTPNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTG  345 (625)
T ss_pred             HhhcCCchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhcc
Confidence               4789999999999999999998876655    4444    4888999999999999888755 5555555543    


Q ss_pred             CCCC---C-CHhHHHHHHHHHhccCchHHHHHHHHHHHhCC----CCCC---cchHHHHHHHHHhcCCHHHHHHHHHhhC
Q 008280          192 LGIR---P-NASSLSSVLLGCSHLSSLQLGKQVHQLVFKSP----LCKD---TTALTPLISMYCKCGDLEDACKLFLEIQ  260 (571)
Q Consensus       192 ~g~~---p-d~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g----~~~~---~~~~~~li~~y~~~g~~~~A~~~~~~~~  260 (571)
                      ..++   | |...|...+..|.+..+.+.|.+++.......    +.++   ..-|..+..+.+....++.-...|+.|.
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            2222   3 55678889999999999999999998765431    2232   2345567778888888999999999887


Q ss_pred             C----CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC--------------------cHH
Q 008280          261 R----KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAG--------------------LVD  316 (571)
Q Consensus       261 ~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g--------------------~~~  316 (571)
                      .    ++..+-..++.+....|+++-.-+++..++..|..-+...-.-++.-.++..                    ++.
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            4    4566666677777778888777778877777664444433333333333222                    111


Q ss_pred             HHHH-HHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-------CCCCCHhHHHHHHHHHHhcCCHhHHHH
Q 008280          317 LGIQ-YFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-------PFKPQPAIFGTLLSACRVHKRLDLAEF  388 (571)
Q Consensus       317 ~a~~-~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-------~~~p~~~~~~~l~~~~~~~g~~~~a~~  388 (571)
                      ++.+ .-.++.   .........++..-.+.|.|+.++|.+++.-.       |..|......-++..-.+.+....|..
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            1111 111122   23445667788888999999999999988655       333443344455566677778888888


Q ss_pred             HHHHHhccC
Q 008280          389 AAMNLFNLN  397 (571)
Q Consensus       389 ~~~~~~~~~  397 (571)
                      +++-+...+
T Consensus       583 ~lQ~a~~~n  591 (625)
T KOG4422|consen  583 VLQLASAFN  591 (625)
T ss_pred             HHHHHHHcC
Confidence            888775543

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.40  E-value=1e-10  Score=108.70  Aligned_cols=197  Identities=16%  Similarity=0.084  Sum_probs=162.4

Q ss_pred             CcchHHHHHHHHHhcCCHHHHHHHHHhhCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 008280          232 DTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLA  308 (571)
Q Consensus       232 ~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a  308 (571)
                      ....+..+...|...|++++|...|++..+   .+...+..+...+...|++++|.+.+++..+.. +.+...+..+...
T Consensus        30 ~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~  108 (234)
T TIGR02521        30 AAKIRVQLALGYLEQGDLEVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTF  108 (234)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHH
Confidence            345677788899999999999999987653   346778888899999999999999999988764 3355677778888


Q ss_pred             HHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHhHH
Q 008280          309 CNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLA  386 (571)
Q Consensus       309 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a  386 (571)
                      +...|++++|.+.++........+.....+..+...+.+.|++++|.+.+++. ...| +...+..+...+...|++++|
T Consensus       109 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A  188 (234)
T TIGR02521       109 LCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRPESLLELAELYYLRGQYKDA  188 (234)
T ss_pred             HHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCChHHHHHHHHHHHHcCCHHHH
Confidence            99999999999999998764222334567778889999999999999999887 2233 456788888999999999999


Q ss_pred             HHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHh
Q 008280          387 EFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  430 (571)
Q Consensus       387 ~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  430 (571)
                      ...++++++..|.++. .+..++.++...|+.++|..+.+.+..
T Consensus       189 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       189 RAYLERYQQTYNQTAE-SLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHHHhCCCCHH-HHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            9999999988888777 888899999999999999999887754

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.

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

Probab=99.36  E-value=1.2e-09  Score=102.15  Aligned_cols=274  Identities=12%  Similarity=0.124  Sum_probs=188.8

Q ss_pred             cCCHHHHHHHHhhCCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHH
Q 008280          145 FGKVDLAEKLFDEMPT---KNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVH  221 (571)
Q Consensus       145 ~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~  221 (571)
                      .|++..|+++..+-.+   .....|..-+.+.-+.|+.+.+-.++.+.-+.--.++.....+........|+.+.|..-.
T Consensus        97 eG~~~qAEkl~~rnae~~e~p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~v  176 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQPVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARENV  176 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcchHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHHH
Confidence            6888888888876543   2233455555666777888888888887776422344445555556667778888888887


Q ss_pred             HHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCCCC-----------hhhHHHHHHHHHHcCChHHHHHHHHHH
Q 008280          222 QLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKD-----------VVTWNAMISGYAQHGKGEKALRLFDKM  290 (571)
Q Consensus       222 ~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~-----------~~~~~~li~~~~~~g~~~~A~~~~~~m  290 (571)
                      ..+.+.+ +.++.+.......|.+.|++.....+...+.+..           ..+|+.++.-....+..+.-...++..
T Consensus       177 ~~ll~~~-pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~  255 (400)
T COG3071         177 DQLLEMT-PRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKNQ  255 (400)
T ss_pred             HHHHHhC-cCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHhc
Confidence            7777776 5567777778888888888888888888877532           235666666555555555544555554


Q ss_pred             HHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHH----hCCCCCC
Q 008280          291 KDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIK----KMPFKPQ  366 (571)
Q Consensus       291 ~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~----~~~~~p~  366 (571)
                      -.. .+-+...-.+++.-+...|+.++|.++..+..++ +..|..   ..++ ...+-++.+.-++..+    ..|.  +
T Consensus       256 pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~-~~D~~L---~~~~-~~l~~~d~~~l~k~~e~~l~~h~~--~  327 (400)
T COG3071         256 PRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKR-QWDPRL---CRLI-PRLRPGDPEPLIKAAEKWLKQHPE--D  327 (400)
T ss_pred             cHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHh-ccChhH---HHHH-hhcCCCCchHHHHHHHHHHHhCCC--C
Confidence            332 3444555566777777888888888888777765 445441   1111 1233444444333333    3343  3


Q ss_pred             HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHH
Q 008280          367 PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMK  429 (571)
Q Consensus       367 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  429 (571)
                      +..+.+|...|.+++.+.+|...|+.+++..|+..  .|..++.++.+.|+.++|.+++++..
T Consensus       328 p~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s~~--~~~~la~~~~~~g~~~~A~~~r~e~L  388 (400)
T COG3071         328 PLLLSTLGRLALKNKLWGKASEALEAALKLRPSAS--DYAELADALDQLGEPEEAEQVRREAL  388 (400)
T ss_pred             hhHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCChh--hHHHHHHHHHHcCChHHHHHHHHHHH
Confidence            47889999999999999999999999999999875  89999999999999999999988765

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

Probab=99.31  E-value=1.1e-08  Score=95.88  Aligned_cols=279  Identities=12%  Similarity=0.078  Sum_probs=167.8

Q ss_pred             CCCHHHHHHHHhhCCC---CCcchHHHHHHHHHHcCChHHHHHHHhhCCCC----ChhHHHHHHHHHHhcCCHHHHHHHH
Q 008280           83 KKNMAKARDLFLAMPE---KNSVSWSAMISGYIECGQLDKAVELFKVAPVK----SVVAWTAMISGYMKFGKVDLAEKLF  155 (571)
Q Consensus        83 ~g~~~~A~~~~~~m~~---~d~~~~~~li~~~~~~g~~~~A~~~~~~~~~~----~~~~~~~li~~~~~~g~~~~A~~~~  155 (571)
                      .|++.+|.++..+-.+   .....|..-+.+.-+.|+.+.+-..+.+..+.    +..+.-+........|+.+.|+.-.
T Consensus        97 eG~~~qAEkl~~rnae~~e~p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~v  176 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQPVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARENV  176 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcchHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHHH
Confidence            4566666655554332   11223333344444555555555555544322    2234444445555555555555444


Q ss_pred             hhCC---CCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCC
Q 008280          156 DEMP---TKNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKD  232 (571)
Q Consensus       156 ~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~  232 (571)
                      +++.   .+++........+|.+.|++.+...++.+|.+.|+-.|+..-.                            ..
T Consensus       177 ~~ll~~~pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~----------------------------le  228 (400)
T COG3071         177 DQLLEMTPRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAAR----------------------------LE  228 (400)
T ss_pred             HHHHHhCcCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHH----------------------------HH
Confidence            4432   2444555555555555555555555555555555433221100                            01


Q ss_pred             cchHHHHHHHHHhcCCHHHHHHHHHhhCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 008280          233 TTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLAC  309 (571)
Q Consensus       233 ~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~  309 (571)
                      ..+++.+++=....+..+.-...++..++   .++..-.+++.-+.+.|+.++|.++..+..+.+..|+-    ..+-.+
T Consensus       229 ~~a~~glL~q~~~~~~~~gL~~~W~~~pr~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L----~~~~~~  304 (400)
T COG3071         229 QQAWEGLLQQARDDNGSEGLKTWWKNQPRKLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRL----CRLIPR  304 (400)
T ss_pred             HHHHHHHHHHHhccccchHHHHHHHhccHHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhH----HHHHhh
Confidence            12344444444444444444456666653   35666677777788888888888888887777666652    223356


Q ss_pred             HhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCHhHHHHHHHHHHhcCCHhHHHH
Q 008280          310 NHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQPAIFGTLLSACRVHKRLDLAEF  388 (571)
Q Consensus       310 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~g~~~~a~~  388 (571)
                      .+.++...-.+..+.-.+.++.  ++..+.+|...|.+.+.+.+|.+.|+.. +.+|+..+|+-+..++.+.|+.++|.+
T Consensus       305 l~~~d~~~l~k~~e~~l~~h~~--~p~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s~~~~~~la~~~~~~g~~~~A~~  382 (400)
T COG3071         305 LRPGDPEPLIKAAEKWLKQHPE--DPLLLSTLGRLALKNKLWGKASEALEAALKLRPSASDYAELADALDQLGEPEEAEQ  382 (400)
T ss_pred             cCCCCchHHHHHHHHHHHhCCC--ChhHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCChhhHHHHHHHHHHcCChHHHHH
Confidence            6677777766766666664333  4477888888888999999999888866 677888899999999999999999988


Q ss_pred             HHHHHhc
Q 008280          389 AAMNLFN  395 (571)
Q Consensus       389 ~~~~~~~  395 (571)
                      ..++.+.
T Consensus       383 ~r~e~L~  389 (400)
T COG3071         383 VRREALL  389 (400)
T ss_pred             HHHHHHH
Confidence            8888764

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.31  E-value=2.4e-08  Score=97.85  Aligned_cols=408  Identities=11%  Similarity=0.085  Sum_probs=237.1

Q ss_pred             HHHHHHhCCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHcCCCCHHHHHHHHhhCCCCChhhHHHHHHHH--HcCCCH
Q 008280           12 VLAGFAKQRGKLKDAQELFDKIPQ---PDVVSYNIMLSCILLNSDDVVAAFDFFQRLPIKDTASWNTMISGF--VQKKNM   86 (571)
Q Consensus        12 l~~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~ll~~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~--~~~g~~   86 (571)
                      =++.+.+.| .+++|.+.-.++..   .|...+..-+.+..+. +.+++|+.+.+.-...+....-.+=.+|  .+.+..
T Consensus        18 ~ln~~~~~~-e~e~a~k~~~Kil~~~pdd~~a~~cKvValIq~-~ky~~ALk~ikk~~~~~~~~~~~fEKAYc~Yrlnk~   95 (652)
T KOG2376|consen   18 DLNRHGKNG-EYEEAVKTANKILSIVPDDEDAIRCKVVALIQL-DKYEDALKLIKKNGALLVINSFFFEKAYCEYRLNKL   95 (652)
T ss_pred             HHHHhccch-HHHHHHHHHHHHHhcCCCcHhhHhhhHhhhhhh-hHHHHHHHHHHhcchhhhcchhhHHHHHHHHHcccH
Confidence            355667777 99999999998875   3455667777778888 9999999877765432221111123444  478999


Q ss_pred             HHHHHHHhhCCCCCcchHHHHHHHHHHcCChHHHHHHHhhCCCCChhHHHHHHHH-HHhcCCHHHHHHHHhhCCCCCH--
Q 008280           87 AKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISG-YMKFGKVDLAEKLFDEMPTKNL--  163 (571)
Q Consensus        87 ~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~-~~~~g~~~~A~~~~~~~~~~~~--  163 (571)
                      ++|+..++-..+.|..+...-...+-+.|++++|.++|+.+...+...+...+.+ +...+-.-.+. +.+..+....  
T Consensus        96 Dealk~~~~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l~~~-~~q~v~~v~e~s  174 (652)
T KOG2376|consen   96 DEALKTLKGLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAALQVQ-LLQSVPEVPEDS  174 (652)
T ss_pred             HHHHHHHhcccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhhhHH-HHHhccCCCcch
Confidence            9999999966555666777778889999999999999998854433222222211 00111111111 2333333212  


Q ss_pred             -HHHHHHHHHHHHcCChhHHHHHHHHHHHCC-------CCC------CHh-HHHHHHHHHhccCchHHHHHHHHHHHhCC
Q 008280          164 -VTWNAMIAGYVENSWAEDGLKLLRMMIGLG-------IRP------NAS-SLSSVLLGCSHLSSLQLGKQVHQLVFKSP  228 (571)
Q Consensus       164 -~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-------~~p------d~~-t~~~ll~~~~~~~~~~~a~~~~~~~~~~g  228 (571)
                       ..+......++..|++.+|+++++...+.+       -..      +.. .-..+.-.+...|+.++|..++..+++..
T Consensus       175 yel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy~~~i~~~  254 (652)
T KOG2376|consen  175 YELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSIYVDIIKRN  254 (652)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhc
Confidence             222223444556666666666666652111       000      000 11223334455666666666666666554


Q ss_pred             CCCCcc----hHHHHHHHHHh---------------------------------------------cCCHHHHHHHHHhh
Q 008280          229 LCKDTT----ALTPLISMYCK---------------------------------------------CGDLEDACKLFLEI  259 (571)
Q Consensus       229 ~~~~~~----~~~~li~~y~~---------------------------------------------~g~~~~A~~~~~~~  259 (571)
                       ++|..    ..|.|+.+-..                                             .+..+.+.++-..+
T Consensus       255 -~~D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~tnk~~q~r~~~a~l  333 (652)
T KOG2376|consen  255 -PADEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALFTNKMDQVRELSASL  333 (652)
T ss_pred             -CCCchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHhC
Confidence             22221    11222221111                                             12223333333333


Q ss_pred             CCCC-hhhHHHHHHHHH--HcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHH--------HhHHh
Q 008280          260 QRKD-VVTWNAMISGYA--QHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFD--------SMVND  328 (571)
Q Consensus       260 ~~~~-~~~~~~li~~~~--~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~--------~~~~~  328 (571)
                      +... ...+..++....  +...+.+|.+++...-+....-........+......|+++.|.+++.        .+.+ 
T Consensus       334 p~~~p~~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~~~~ss~~~-  412 (652)
T KOG2376|consen  334 PGMSPESLFPILLQEATKVREKKHKKAIELLLQFADGHPEKSKVVLLLRAQLKISQGNPEVALEILSLFLESWKSSILE-  412 (652)
T ss_pred             CccCchHHHHHHHHHHHHHHHHHHhhhHHHHHHHhccCCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhhhhh-
Confidence            3211 223333333322  222467777777777654222223344555667788999999999998        4443 


Q ss_pred             cCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC--------CCCCC-HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCC
Q 008280          329 YGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM--------PFKPQ-PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPA  399 (571)
Q Consensus       329 ~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~--------~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~  399 (571)
                        +.-.+.+-.+++.+|.+.++-+-|..++.+.        +..+. ..+|.-+...-.++|+-++|...++++++.+|+
T Consensus       413 --~~~~P~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~leel~k~n~~  490 (652)
T KOG2376|consen  413 --AKHLPGTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSLLEELVKFNPN  490 (652)
T ss_pred             --hccChhHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHHHHHHHHhCCc
Confidence              2334555667888899988877777776655        21222 133444444456789999999999999999999


Q ss_pred             CCchhHHHHHHHHhhccChhHHHHHHHHH
Q 008280          400 NAAGCYVQLANIYAAMKKWDDVARIRLSM  428 (571)
Q Consensus       400 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  428 (571)
                      +.. +...+..+|++. +.+.|..+-+.+
T Consensus       491 d~~-~l~~lV~a~~~~-d~eka~~l~k~L  517 (652)
T KOG2376|consen  491 DTD-LLVQLVTAYARL-DPEKAESLSKKL  517 (652)
T ss_pred             hHH-HHHHHHHHHHhc-CHHHHHHHhhcC
Confidence            988 999999999877 466676665433

>PRK12370 invasion protein regulator; Provisional

Probab=99.30  E-value=2.2e-09  Score=112.72  Aligned_cols=258  Identities=14%  Similarity=0.046  Sum_probs=188.9

Q ss_pred             CCHHHHHHHHHHHHH-----cCChhHHHHHHHHHHHCCCCCCH-hHHHHHHHHHh---------ccCchHHHHHHHHHHH
Q 008280          161 KNLVTWNAMIAGYVE-----NSWAEDGLKLLRMMIGLGIRPNA-SSLSSVLLGCS---------HLSSLQLGKQVHQLVF  225 (571)
Q Consensus       161 ~~~~~~~~li~~~~~-----~g~~~~A~~~~~~m~~~g~~pd~-~t~~~ll~~~~---------~~~~~~~a~~~~~~~~  225 (571)
                      .+...|...+.+-..     .+..++|+.+|++..+.  .|+. ..+..+..++.         ..++.++|...++.++
T Consensus       254 ~~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~l--dP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al  331 (553)
T PRK12370        254 NSIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNM--SPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKAT  331 (553)
T ss_pred             CChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHH
Confidence            355666666666422     13467999999999875  4544 34444443332         2345889999999999


Q ss_pred             hCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCC--C-ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHH-H
Q 008280          226 KSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR--K-DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSI-T  301 (571)
Q Consensus       226 ~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t  301 (571)
                      +.. +.+...+..+..++...|++++|...|++..+  | +...|..+...+...|++++|+..+++..+..  |+.. .
T Consensus       332 ~ld-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~--P~~~~~  408 (553)
T PRK12370        332 ELD-HNNPQALGLLGLINTIHSEYIVGSLLFKQANLLSPISADIKYYYGWNLFMAGQLEEALQTINECLKLD--PTRAAA  408 (553)
T ss_pred             hcC-CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCChhh
Confidence            886 66778888899999999999999999998764  3 45688889999999999999999999998864  4432 3


Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCC-ChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCH-hHHHHHHHHHH
Q 008280          302 FVALLLACNHAGLVDLGIQYFDSMVNDYGIAA-KPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQP-AIFGTLLSACR  378 (571)
Q Consensus       302 ~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~-~~~~~l~~~~~  378 (571)
                      +..++..+...|++++|...++++.+.  .+| ++..+..+..+|...|+.++|...++++ +..|+. ..++.+...+.
T Consensus       409 ~~~~~~~~~~~g~~eeA~~~~~~~l~~--~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~~~~~l~~~~~  486 (553)
T PRK12370        409 GITKLWITYYHTGIDDAIRLGDELRSQ--HLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLIAVNLLYAEYC  486 (553)
T ss_pred             HHHHHHHHHhccCHHHHHHHHHHHHHh--ccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHHHHHHHHHHHh
Confidence            333444566689999999999988763  234 4566778889999999999999999887 334553 44555666667


Q ss_pred             hcCCHhHHHHHHHHHhc---cCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhCC
Q 008280          379 VHKRLDLAEFAAMNLFN---LNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENN  432 (571)
Q Consensus       379 ~~g~~~~a~~~~~~~~~---~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  432 (571)
                      ..|  +.|...++++++   ..|.++.    .+...|.-.|+-+.+..+ +++.+.+
T Consensus       487 ~~g--~~a~~~l~~ll~~~~~~~~~~~----~~~~~~~~~g~~~~~~~~-~~~~~~~  536 (553)
T PRK12370        487 QNS--ERALPTIREFLESEQRIDNNPG----LLPLVLVAHGEAIAEKMW-NKFKNED  536 (553)
T ss_pred             ccH--HHHHHHHHHHHHHhhHhhcCch----HHHHHHHHHhhhHHHHHH-HHhhccc
Confidence            777  478877777765   4455543    377777788888888777 7777654

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=99.28  E-value=1.2e-07  Score=93.89  Aligned_cols=418  Identities=13%  Similarity=0.129  Sum_probs=274.8

Q ss_pred             chHHHHHHHHHhCCCCHHHHHHHHhhCCC-----CChhhHHHHHHHHHcCCCCHHHHHHHHhhCCCCChhhHHHHHHHHH
Q 008280            7 VNWNSVLAGFAKQRGKLKDAQELFDKIPQ-----PDVVSYNIMLSCILLNSDDVVAAFDFFQRLPIKDTASWNTMISGFV   81 (571)
Q Consensus         7 ~~~~~l~~~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~ll~~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~   81 (571)
                      ..|-.-++...+.| ++..-+.+|+....     .....|...+...-+. |-++-+..+|++-.+-++..-+-.|..++
T Consensus       103 RIwl~Ylq~l~~Q~-~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~-~lPets~rvyrRYLk~~P~~~eeyie~L~  180 (835)
T KOG2047|consen  103 RIWLDYLQFLIKQG-LITRTRRTFDRALRALPVTQHDRIWDLYLKFVESH-GLPETSIRVYRRYLKVAPEAREEYIEYLA  180 (835)
T ss_pred             HHHHHHHHHHHhcc-hHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhC-CChHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            45666677777888 89999999987653     3445788888877777 88999999999988888888889999999


Q ss_pred             cCCCHHHHHHHHhhCCCC----------CcchHHHHHHHHHHcCChH---HHHHHHhhCCCC--C--hhHHHHHHHHHHh
Q 008280           82 QKKNMAKARDLFLAMPEK----------NSVSWSAMISGYIECGQLD---KAVELFKVAPVK--S--VVAWTAMISGYMK  144 (571)
Q Consensus        82 ~~g~~~~A~~~~~~m~~~----------d~~~~~~li~~~~~~g~~~---~A~~~~~~~~~~--~--~~~~~~li~~~~~  144 (571)
                      +.+++++|.+.+......          +...|.-+-...+++.+.-   ....+++.+...  |  -..|++|.+-|.+
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            999999999999888542          4456777777666654432   233456666532  2  2789999999999


Q ss_pred             cCCHHHHHHHHhhCCCC--CHHHHHHHHHHHHHc----------------CC------hhHHHHHHHHHHHCCC------
Q 008280          145 FGKVDLAEKLFDEMPTK--NLVTWNAMIAGYVEN----------------SW------AEDGLKLLRMMIGLGI------  194 (571)
Q Consensus       145 ~g~~~~A~~~~~~~~~~--~~~~~~~li~~~~~~----------------g~------~~~A~~~~~~m~~~g~------  194 (571)
                      .|.++.|.++|++....  .+.-++.+.++|++-                |+      ++-.+.-|+.+...+.      
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            99999999999886642  222344444444331                11      1222333333332210      


Q ss_pred             -----CCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCC-----CCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCCCCh
Q 008280          195 -----RPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSP-----LCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDV  264 (571)
Q Consensus       195 -----~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g-----~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~  264 (571)
                           +.+..+|..-..  ...|+..+-...+.++++.-     ...-...|..+...|-..|+++.|+.+|++..+-+-
T Consensus       341 lLRQn~~nV~eW~kRV~--l~e~~~~~~i~tyteAv~~vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V~y  418 (835)
T KOG2047|consen  341 LLRQNPHNVEEWHKRVK--LYEGNAAEQINTYTEAVKTVDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATKVPY  418 (835)
T ss_pred             HHhcCCccHHHHHhhhh--hhcCChHHHHHHHHHHHHccCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCc
Confidence                 111112221111  12355666677777777642     112245688999999999999999999999876432


Q ss_pred             -------hhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCC-----------------CHHHHHHHHHHHHhcCcHHHHHH
Q 008280          265 -------VTWNAMISGYAQHGKGEKALRLFDKMKDEGMKP-----------------DSITFVALLLACNHAGLVDLGIQ  320 (571)
Q Consensus       265 -------~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-----------------~~~t~~~ll~a~~~~g~~~~a~~  320 (571)
                             .+|..-...-.++.+++.|+++.+......-.|                 +...|...+..-...|-++....
T Consensus       419 ~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtfestk~  498 (835)
T KOG2047|consen  419 KTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGTFESTKA  498 (835)
T ss_pred             cchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccHHHHHH
Confidence                   356666666677889999999888765422111                 11234444444556677888888


Q ss_pred             HHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-C-C-CCCH-hHHHHHHHHHHh---cCCHhHHHHHHHHH
Q 008280          321 YFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-P-F-KPQP-AIFGTLLSACRV---HKRLDLAEFAAMNL  393 (571)
Q Consensus       321 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~-~-~p~~-~~~~~l~~~~~~---~g~~~~a~~~~~~~  393 (571)
                      +|+.++.-.-..|...  ......+-...-++++.+++++- + + .|++ ..|++.+.-+.+   ....+.|..+|+++
T Consensus       499 vYdriidLriaTPqii--~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEraRdLFEqa  576 (835)
T KOG2047|consen  499 VYDRIIDLRIATPQII--INYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERARDLFEQA  576 (835)
T ss_pred             HHHHHHHHhcCCHHHH--HHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHH
Confidence            8888876433334322  22333455667799999999987 2 1 2554 588888776643   34689999999999


Q ss_pred             hccCCC-CCchhHHHHHHHHhhccChhHHHHHHHHHHh
Q 008280          394 FNLNPA-NAAGCYVQLANIYAAMKKWDDVARIRLSMKE  430 (571)
Q Consensus       394 ~~~~p~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  430 (571)
                      ++.-|. .....|...+..-.+-|.-..|..++++...
T Consensus       577 L~~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat~  614 (835)
T KOG2047|consen  577 LDGCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERATS  614 (835)
T ss_pred             HhcCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh
Confidence            997663 2322344444455566888889999887643

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

Probab=99.28  E-value=1.1e-08  Score=99.84  Aligned_cols=269  Identities=13%  Similarity=0.037  Sum_probs=133.0

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHhhCCCCCh---hHHHHHHHHHHhcCCHHHHHHHHhhCCC---CCHHHHHHHHHHHHHc
Q 008280          103 SWSAMISGYIECGQLDKAVELFKVAPVKSV---VAWTAMISGYMKFGKVDLAEKLFDEMPT---KNLVTWNAMIAGYVEN  176 (571)
Q Consensus       103 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~  176 (571)
                      .......-|...+++.+..++.+...+.++   ..+..-|..+...|+..+-..+=.++.+   ...++|-++..-|.-.
T Consensus       246 ll~~~ad~~y~~c~f~~c~kit~~lle~dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~yP~~a~sW~aVg~YYl~i  325 (611)
T KOG1173|consen  246 LLAEKADRLYYGCRFKECLKITEELLEKDPFHLPCLPLHIACLYELGKSNKLFLLSHKLVDLYPSKALSWFAVGCYYLMI  325 (611)
T ss_pred             HHHHHHHHHHHcChHHHHHHHhHHHHhhCCCCcchHHHHHHHHHHhcccchHHHHHHHHHHhCCCCCcchhhHHHHHHHh
Confidence            333344444455555555555555443332   2222333344444443322222222221   1234555555555555


Q ss_pred             CChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHH
Q 008280          177 SWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLF  256 (571)
Q Consensus       177 g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~  256 (571)
                      |...+|.+.|.+..... +.-...|.....+++..|..++|...+..+-+.= +...--+--+.--|.+.++++-|.++|
T Consensus       326 ~k~seARry~SKat~lD-~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~-~G~hlP~LYlgmey~~t~n~kLAe~Ff  403 (611)
T KOG1173|consen  326 GKYSEARRYFSKATTLD-PTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLM-PGCHLPSLYLGMEYMRTNNLKLAEKFF  403 (611)
T ss_pred             cCcHHHHHHHHHHhhcC-ccccHHHHHHhHHhhhcchHHHHHHHHHHHHHhc-cCCcchHHHHHHHHHHhccHHHHHHHH
Confidence            55555555555544321 1112344455555555555555555555444421 001111112333355556666666666


Q ss_pred             HhhC---CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHc----C--CCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHH
Q 008280          257 LEIQ---RKDVVTWNAMISGYAQHGKGEKALRLFDKMKDE----G--MKPDSITFVALLLACNHAGLVDLGIQYFDSMVN  327 (571)
Q Consensus       257 ~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g--~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~  327 (571)
                      .+..   ..|+...+-+.-.....+.+.+|..+|+.....    +  ...-..+++.|..+|.+.+.+++|+..++..+.
T Consensus       404 ~~A~ai~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~  483 (611)
T KOG1173|consen  404 KQALAIAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALL  483 (611)
T ss_pred             HHHHhcCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHH
Confidence            5543   235555555555555556666666666654310    0  011334566667777777777777777776664


Q ss_pred             hcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCHhHHHHHHH
Q 008280          328 DYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQPAIFGTLLS  375 (571)
Q Consensus       328 ~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~  375 (571)
                        -.+.+..++.++.-.|...|+++.|.+.|.+. .++|+..+-..++.
T Consensus       484 --l~~k~~~~~asig~iy~llgnld~Aid~fhKaL~l~p~n~~~~~lL~  530 (611)
T KOG1173|consen  484 --LSPKDASTHASIGYIYHLLGNLDKAIDHFHKALALKPDNIFISELLK  530 (611)
T ss_pred             --cCCCchhHHHHHHHHHHHhcChHHHHHHHHHHHhcCCccHHHHHHHH
Confidence              34455666666666666666666666666555 45566555444444

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

Probab=99.25  E-value=1.1e-07  Score=89.38  Aligned_cols=292  Identities=12%  Similarity=0.040  Sum_probs=202.9

Q ss_pred             HHHHHHHHH--cCChHHHHHHHh-----hCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCHHHHHHH---HHHHH
Q 008280          105 SAMISGYIE--CGQLDKAVELFK-----VAPVKSVVAWTAMISGYMKFGKVDLAEKLFDEMPTKNLVTWNAM---IAGYV  174 (571)
Q Consensus       105 ~~li~~~~~--~g~~~~A~~~~~-----~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l---i~~~~  174 (571)
                      ..-+.++++  .++-..|.+++-     .....|+....++.+.|...|+.++|+..|++...-|+.+...|   .-.+.
T Consensus       198 s~wika~Aq~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dpy~i~~MD~Ya~LL~  277 (564)
T KOG1174|consen  198 SKWIKALAQMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCANPDNVEAMDLYAVLLG  277 (564)
T ss_pred             HHHHHHHHHHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCChhhhhhHHHHHHHHH
Confidence            334555544  355455555442     22366788899999999999999999999998776555443332   34456


Q ss_pred             HcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHH
Q 008280          175 ENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACK  254 (571)
Q Consensus       175 ~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~  254 (571)
                      +.|+.++...+...+.... +-....|..-+...-...+++.|..+-+..++.. +.++..+-.-..++...|+.++|.-
T Consensus       278 ~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~-~r~~~alilKG~lL~~~~R~~~A~I  355 (564)
T KOG1174|consen  278 QEGGCEQDSALMDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVEKCIDSE-PRNHEALILKGRLLIALERHTQAVI  355 (564)
T ss_pred             hccCHhhHHHHHHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccC-cccchHHHhccHHHHhccchHHHHH
Confidence            7888888888777776531 1222233333333345667777877777777665 4455555555677788899999998


Q ss_pred             HHHhhC--C-CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHH-HHHH-hcCcHHHHHHHHHHhHHhc
Q 008280          255 LFLEIQ--R-KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALL-LACN-HAGLVDLGIQYFDSMVNDY  329 (571)
Q Consensus       255 ~~~~~~--~-~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll-~a~~-~~g~~~~a~~~~~~~~~~~  329 (571)
                      .|....  . -+..+|.-|+..|...|++.+|...-+...+. ..-+..++..+. ..|. ....-++|..++++-.   
T Consensus       356 aFR~Aq~Lap~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L---  431 (564)
T KOG1174|consen  356 AFRTAQMLAPYRLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSL---  431 (564)
T ss_pred             HHHHHHhcchhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHHHHhhh---
Confidence            898654  3 47789999999999999999988877665432 233444444332 2222 2223467888887765   


Q ss_pred             CCCCC-hHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCc
Q 008280          330 GIAAK-PDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA  402 (571)
Q Consensus       330 ~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~  402 (571)
                      .+.|+ ...-+.+.+.+.+.|..++++.++++. ...||...-+.|...++..+.+.+|...|..++.++|++..
T Consensus       432 ~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~dP~~~~  506 (564)
T KOG1174|consen  432 KINPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLIIFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQDPKSKR  506 (564)
T ss_pred             ccCCccHHHHHHHHHHHHhhCccchHHHHHHHHHhhccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCccchH
Confidence            34666 556677888889999999999999876 56688888999999999999999999999999999998764

>PF13041 PPR_2: PPR repeat family

Probab=99.25  E-value=2.1e-11  Score=82.27  Aligned_cols=50  Identities=30%  Similarity=0.571  Sum_probs=48.0

Q ss_pred             CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhc
Q 008280          161 KNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSH  210 (571)
Q Consensus       161 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~  210 (571)
                      ||+++||++|.+|++.|++++|+++|++|.+.|++||..||+.++.+|++
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            78999999999999999999999999999999999999999999999874

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.23  E-value=4.6e-09  Score=97.55  Aligned_cols=160  Identities=13%  Similarity=0.097  Sum_probs=71.7

Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHH
Q 008280          164 VTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMY  243 (571)
Q Consensus       164 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y  243 (571)
                      ..+..+...|...|++++|++.+++..+.. +.+...+..+...+...|+++.|...++...+.. +.+...+..+...|
T Consensus        32 ~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~  109 (234)
T TIGR02521        32 KIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTFL  109 (234)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHH
Confidence            445555666666666666666666655432 1223344444444445555555555555444432 22233344444444


Q ss_pred             HhcCCHHHHHHHHHhhCCC-----ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHH
Q 008280          244 CKCGDLEDACKLFLEIQRK-----DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLG  318 (571)
Q Consensus       244 ~~~g~~~~A~~~~~~~~~~-----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a  318 (571)
                      ...|++++|.+.|++....     ....+..+...+...|++++|...|.+..... +.+...+..+...+...|++++|
T Consensus       110 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A  188 (234)
T TIGR02521       110 CQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID-PQRPESLLELAELYYLRGQYKDA  188 (234)
T ss_pred             HHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHHHcCCHHHH
Confidence            4455555555554443321     12233334444444444444444444443321 11222333344444444444444


Q ss_pred             HHHHHHhH
Q 008280          319 IQYFDSMV  326 (571)
Q Consensus       319 ~~~~~~~~  326 (571)
                      ..++++..
T Consensus       189 ~~~~~~~~  196 (234)
T TIGR02521       189 RAYLERYQ  196 (234)
T ss_pred             HHHHHHHH
Confidence            44444443

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.

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.22  E-value=1.8e-09  Score=108.26  Aligned_cols=230  Identities=17%  Similarity=0.180  Sum_probs=164.6

Q ss_pred             hHHHHHHHHHhccCchHHHHHHHHHHHhC-----CC-CCCcc-hHHHHHHHHHhcCCHHHHHHHHHhhCC-------C--
Q 008280          199 SSLSSVLLGCSHLSSLQLGKQVHQLVFKS-----PL-CKDTT-ALTPLISMYCKCGDLEDACKLFLEIQR-------K--  262 (571)
Q Consensus       199 ~t~~~ll~~~~~~~~~~~a~~~~~~~~~~-----g~-~~~~~-~~~~li~~y~~~g~~~~A~~~~~~~~~-------~--  262 (571)
                      .+...+...|...|+++.|..+++..++.     |. .+.+. ..+.+..+|...+++.+|..+|+++..       +  
T Consensus       200 ~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h  279 (508)
T KOG1840|consen  200 RTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDH  279 (508)
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCC
Confidence            35555666677777777777777666543     21 11211 233466788888888888888887652       1  


Q ss_pred             --ChhhHHHHHHHHHHcCChHHHHHHHHHHHH-----cCCCCCH--HHHHHHHHHHHhcCcHHHHHHHHHHhHHhcC--C
Q 008280          263 --DVVTWNAMISGYAQHGKGEKALRLFDKMKD-----EGMKPDS--ITFVALLLACNHAGLVDLGIQYFDSMVNDYG--I  331 (571)
Q Consensus       263 --~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~g~~p~~--~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~--~  331 (571)
                        -..+++.|...|.+.|++++|...+++..+     .|..+..  ..++.+...|...+.+++|..+++...+.+.  +
T Consensus       280 ~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~  359 (508)
T KOG1840|consen  280 PAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAP  359 (508)
T ss_pred             HHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhc
Confidence              235677888888999998888887776532     1222222  2466677789999999999999887765433  2


Q ss_pred             CCC----hHhHHHHHHHHHHcCCHHHHHHHHHhC---------CCCCC-HhHHHHHHHHHHhcCCHhHHHHHHHHHhc--
Q 008280          332 AAK----PDHYTCMVDLLGRAGKLVEAVDLIKKM---------PFKPQ-PAIFGTLLSACRVHKRLDLAEFAAMNLFN--  395 (571)
Q Consensus       332 ~~~----~~~~~~li~~~~~~g~~~~A~~~~~~~---------~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--  395 (571)
                      .++    ..+++.|...|...|++++|.++++++         +..+. ...++.|...|.+.+++++|.++|.+...  
T Consensus       360 g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~  439 (508)
T KOG1840|consen  360 GEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIM  439 (508)
T ss_pred             cccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHH
Confidence            222    457899999999999999999999887         11222 35678888999999999999999987754  


Q ss_pred             --cCCCC---CchhHHHHHHHHhhccChhHHHHHHHHHH
Q 008280          396 --LNPAN---AAGCYVQLANIYAAMKKWDDVARIRLSMK  429 (571)
Q Consensus       396 --~~p~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  429 (571)
                        .+|+.   .. +|..|+..|.+.|++++|.++.+.+.
T Consensus       440 ~~~g~~~~~~~~-~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  440 KLCGPDHPDVTY-TYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             HHhCCCCCchHH-HHHHHHHHHHHcccHHHHHHHHHHHH
Confidence              34443   44 78899999999999999999988775

>PF13041 PPR_2: PPR repeat family

Probab=99.22  E-value=3.3e-11  Score=81.29  Aligned_cols=50  Identities=50%  Similarity=0.789  Sum_probs=47.0

Q ss_pred             CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 008280          262 KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNH  311 (571)
Q Consensus       262 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~  311 (571)
                      ||+++||++|.+|++.|++++|.++|++|.+.|+.||..||+.++++|++
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            68899999999999999999999999999999999999999999999874

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=99.22  E-value=1.4e-07  Score=93.41  Aligned_cols=154  Identities=10%  Similarity=0.110  Sum_probs=94.4

Q ss_pred             HcCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHH---hcCcHHHHHHHHHHhHHhcCCCCChH--hHHHHHHHHHHcC
Q 008280          276 QHGKGEKALRLFDKMKDEGMKPDSI-TFVALLLACN---HAGLVDLGIQYFDSMVNDYGIAAKPD--HYTCMVDLLGRAG  349 (571)
Q Consensus       276 ~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~---~~g~~~~a~~~~~~~~~~~~~~~~~~--~~~~li~~~~~~g  349 (571)
                      .+.-++++.+++++-+..=..|+.. .|+..+.-+.   ....++.|+.+|++.++  +.+|...  .|......=-+.|
T Consensus       523 eh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEraRdLFEqaL~--~Cpp~~aKtiyLlYA~lEEe~G  600 (835)
T KOG2047|consen  523 EHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERARDLFEQALD--GCPPEHAKTIYLLYAKLEEEHG  600 (835)
T ss_pred             hhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHh--cCCHHHHHHHHHHHHHHHHHhh
Confidence            3445666666666544432334432 3444443332   23467889999998886  6665522  2222223334568


Q ss_pred             CHHHHHHHHHhC--CCCCC--HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCc-hhHHHHHHHHhhccChhHHHHH
Q 008280          350 KLVEAVDLIKKM--PFKPQ--PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA-GCYVQLANIYAAMKKWDDVARI  424 (571)
Q Consensus       350 ~~~~A~~~~~~~--~~~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~-~~~~~l~~~~~~~g~~~~a~~~  424 (571)
                      ....|+.++++.  .+++.  ...|+..|.--...=-+.....+|+++++.-|+... ......+++-.+.|..+.|..+
T Consensus       601 Lar~amsiyerat~~v~~a~~l~myni~I~kaae~yGv~~TR~iYekaIe~Lp~~~~r~mclrFAdlEtklGEidRARaI  680 (835)
T KOG2047|consen  601 LARHAMSIYERATSAVKEAQRLDMYNIYIKKAAEIYGVPRTREIYEKAIESLPDSKAREMCLRFADLETKLGEIDRARAI  680 (835)
T ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhCCcccHHHHHHHHHhCChHHHHHHHHHHHHHhhhhhhHHHHHHH
Confidence            888889999887  23333  257777776554444456667888888888777542 1334566777889999999999


Q ss_pred             HHHHHhC
Q 008280          425 RLSMKEN  431 (571)
Q Consensus       425 ~~~m~~~  431 (571)
                      +..-.+-
T Consensus       681 ya~~sq~  687 (835)
T KOG2047|consen  681 YAHGSQI  687 (835)
T ss_pred             HHhhhhc
Confidence            8765543

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

Probab=99.21  E-value=9.9e-10  Score=111.91  Aligned_cols=263  Identities=15%  Similarity=0.162  Sum_probs=192.6

Q ss_pred             HHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCCCC
Q 008280          184 KLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKD  263 (571)
Q Consensus       184 ~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~  263 (571)
                      .++-.+...|+.|+.+||..++.-|+..|+.+.|- +|..|.-..++.+..+++.++......++.+.+.       .|.
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            45667888999999999999999999999999999 9999998888899999999999999999888775       678


Q ss_pred             hhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHH
Q 008280          264 VVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVD  343 (571)
Q Consensus       264 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~  343 (571)
                      ..+|+.|..+|.++|+..-    |+...+        -...+...++..|.-..-..++..+.-..+.-||..   ..+.
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            8899999999999999765    333322        233445566666666666666655432223445543   3555


Q ss_pred             HHHHcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHHhcC-CHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHH
Q 008280          344 LLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHK-RLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVA  422 (571)
Q Consensus       344 ~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g-~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~  422 (571)
                      ...-.|.++.++++...+|...-.......++-+.... .+++-....+...+ .|+. . +|..+...-..+|+.+.|.
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-APTS-E-TLHAVLKRALAAGDVDGAK  224 (1088)
T ss_pred             HHHHHHHHHHHHHHHhhCCcccccchHHHHHHHhccCCchHHHHHHHHHHhhc-CCCh-H-HHHHHHHHHHhcCchhhHH
Confidence            66777889999999998864321112222344443333 34444444444455 6655 4 8999999999999999999


Q ss_pred             HHHHHHHhCCCccCCceeEEEECCEEEEEecCCCCCcccHHHHHHHHHHHHHHHHcCcccCCccc
Q 008280          423 RIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGYVPDLEFA  487 (571)
Q Consensus       423 ~~~~~m~~~~~~~~~~~s~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~~~~m~~~g~~pd~~~~  487 (571)
                      .+..+|+++|.+..+.+-|-.+-        |...       ..-++.+.+-|++.|+.||+.+.
T Consensus       225 ~ll~emke~gfpir~HyFwpLl~--------g~~~-------~q~~e~vlrgmqe~gv~p~seT~  274 (1088)
T KOG4318|consen  225 NLLYEMKEKGFPIRAHYFWPLLL--------GINA-------AQVFEFVLRGMQEKGVQPGSETQ  274 (1088)
T ss_pred             HHHHHHHHcCCCcccccchhhhh--------cCcc-------chHHHHHHHHHHHhcCCCCcchh
Confidence            99999999999988888875432        2111       12266788999999999999986

>PRK12370 invasion protein regulator; Provisional

Probab=99.21  E-value=3.6e-09  Score=111.09  Aligned_cols=242  Identities=13%  Similarity=0.025  Sum_probs=172.0

Q ss_pred             CCHHHHHHHHhhCCC--C-CHHHHHHHHHHHHH---------cCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCc
Q 008280          146 GKVDLAEKLFDEMPT--K-NLVTWNAMIAGYVE---------NSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSS  213 (571)
Q Consensus       146 g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~---------~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~  213 (571)
                      +.+++|...|++..+  | +...|..+..+|..         .+++++|...+++..+.. +-+...+..+...+...|+
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            346789999988775  3 34566666655542         234789999999998764 3356677777777888999


Q ss_pred             hHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCCCCh---hhHHHHHHHHHHcCChHHHHHHHHHH
Q 008280          214 LQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDV---VTWNAMISGYAQHGKGEKALRLFDKM  290 (571)
Q Consensus       214 ~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~A~~~~~~m  290 (571)
                      +++|...++++++.+ +.+...+..+...|...|++++|...+++..+.++   ..+..++..+...|++++|+..+++.
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            999999999999886 55677888899999999999999999999865322   23344455577789999999999998


Q ss_pred             HHcCCCCC-HHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCC-hHhHHHHHHHHHHcCCHHHHHHHHHhC----CCC
Q 008280          291 KDEGMKPD-SITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAK-PDHYTCMVDLLGRAGKLVEAVDLIKKM----PFK  364 (571)
Q Consensus       291 ~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~~----~~~  364 (571)
                      .... .|+ ...+..+..++...|+.++|...+.++...   .|+ ....+.+...|.+.|  ++|...++.+    ...
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 343 444666777888999999999999887642   343 444556666777777  4676666655    223


Q ss_pred             CCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCC
Q 008280          365 PQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNP  398 (571)
Q Consensus       365 p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p  398 (571)
                      +....+  +-..+.-+|+.+.+... +++.+.+.
T Consensus       507 ~~~~~~--~~~~~~~~g~~~~~~~~-~~~~~~~~  537 (553)
T PRK12370        507 DNNPGL--LPLVLVAHGEAIAEKMW-NKFKNEDN  537 (553)
T ss_pred             hcCchH--HHHHHHHHhhhHHHHHH-HHhhccch
Confidence            333344  33445567777777666 77766543

>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=2.2e-07  Score=87.33  Aligned_cols=262  Identities=8%  Similarity=-0.064  Sum_probs=184.7

Q ss_pred             CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHH-HHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHH
Q 008280          161 KNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSL-SSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPL  239 (571)
Q Consensus       161 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~-~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l  239 (571)
                      .|+.....+...+...|+.++|+..|++.+..  .|+..+- -.-.-.+...|+.+....+...+.... ..+...|..-
T Consensus       230 ~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~--dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~  306 (564)
T KOG1174|consen  230 CNEHLMMALGKCLYYNGDYFQAEDIFSSTLCA--NPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWFVH  306 (564)
T ss_pred             ccHHHHHHHhhhhhhhcCchHHHHHHHHHhhC--ChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhhhh
Confidence            46778888899999999999999999887754  3433221 111122356677777777766665432 1222233333


Q ss_pred             HHHHHhcCCHHHHHHHHHhhCCC---ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHH
Q 008280          240 ISMYCKCGDLEDACKLFLEIQRK---DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVD  316 (571)
Q Consensus       240 i~~y~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~  316 (571)
                      +.......+++.|+.+-++..+-   ++..+-.-...+.+.|++++|.-.|+..+... +-+...|..|+..|...|.+.
T Consensus       307 ~~~l~~~K~~~rAL~~~eK~I~~~~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~La-p~rL~~Y~GL~hsYLA~~~~k  385 (564)
T KOG1174|consen  307 AQLLYDEKKFERALNFVEKCIDSEPRNHEALILKGRLLIALERHTQAVIAFRTAQMLA-PYRLEIYRGLFHSYLAQKRFK  385 (564)
T ss_pred             hhhhhhhhhHHHHHHHHHHHhccCcccchHHHhccHHHHhccchHHHHHHHHHHHhcc-hhhHHHHHHHHHHHHhhchHH
Confidence            34445567888888888877654   44455545567788899999999999887642 235668999999999999999


Q ss_pred             HHHHHHHHhHHhcCCCCChHhHHHHH-HHHH-HcCCHHHHHHHHHhC-CCCCCH-hHHHHHHHHHHhcCCHhHHHHHHHH
Q 008280          317 LGIQYFDSMVNDYGIAAKPDHYTCMV-DLLG-RAGKLVEAVDLIKKM-PFKPQP-AIFGTLLSACRVHKRLDLAEFAAMN  392 (571)
Q Consensus       317 ~a~~~~~~~~~~~~~~~~~~~~~~li-~~~~-~~g~~~~A~~~~~~~-~~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~  392 (571)
                      +|.-.-+...+  -++.+..+...+. ..+. ...--++|.+++++. .+.|+- ...+.+...|...|..+.++.++++
T Consensus       386 EA~~~An~~~~--~~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~  463 (564)
T KOG1174|consen  386 EANALANWTIR--LFQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKINPIYTPAVNLIAELCQVEGPTKDIIKLLEK  463 (564)
T ss_pred             HHHHHHHHHHH--HhhcchhhhhhhcceeeccCchhHHHHHHHHHhhhccCCccHHHHHHHHHHHHhhCccchHHHHHHH
Confidence            98877776665  3444555544442 2222 122347788888876 666773 5677788889999999999999999


Q ss_pred             HhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHh
Q 008280          393 LFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  430 (571)
Q Consensus       393 ~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  430 (571)
                      .+...|+..  .+..|++.+...+.+++|...|.....
T Consensus       464 ~L~~~~D~~--LH~~Lgd~~~A~Ne~Q~am~~y~~ALr  499 (564)
T KOG1174|consen  464 HLIIFPDVN--LHNHLGDIMRAQNEPQKAMEYYYKALR  499 (564)
T ss_pred             HHhhccccH--HHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            999999886  799999999999999999998876654

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

Probab=99.19  E-value=7.5e-08  Score=98.61  Aligned_cols=99  Identities=12%  Similarity=0.083  Sum_probs=78.9

Q ss_pred             HhHHHHHHHHHHcCCHHHHHHHHHhCC-----CCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhcc---CCCCCchhHHH
Q 008280          336 DHYTCMVDLLGRAGKLVEAVDLIKKMP-----FKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNL---NPANAAGCYVQ  407 (571)
Q Consensus       336 ~~~~~li~~~~~~g~~~~A~~~~~~~~-----~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~p~~~~~~~~~  407 (571)
                      ..|..||+.+......+.|..+.++..     +.-|..-+..+.+...+.+....+..+++++.+.   .|.... .+..
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            568889999999999999999998883     2334456777888889999999999999888663   333334 6677


Q ss_pred             HHHHHhhccChhHHHHHHHHHHhCCCcc
Q 008280          408 LANIYAAMKKWDDVARIRLSMKENNVVK  435 (571)
Q Consensus       408 l~~~~~~~g~~~~a~~~~~~m~~~~~~~  435 (571)
                      +.+.-...|+.+...++++-+...|+..
T Consensus       571 ~lns~a~agqqe~Lkkl~d~lvslgl~e  598 (1088)
T KOG4318|consen  571 LLNSGAPAGQQEKLKKLADILVSLGLSE  598 (1088)
T ss_pred             HHhhhhhccCHHHHHHHHHHHHHhhhhh
Confidence            8888889999999999999998888765

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

Probab=99.16  E-value=1.1e-09  Score=99.23  Aligned_cols=231  Identities=16%  Similarity=0.115  Sum_probs=164.7

Q ss_pred             HHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhc
Q 008280          167 NAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKC  246 (571)
Q Consensus       167 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~  246 (571)
                      +.|..+|.+.|.+.+|.+.|+..+..  .|-..||..+-.+|.+..++..|..++.+-++. ++.++.........+-..
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~-fP~~VT~l~g~ARi~eam  303 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS-FPFDVTYLLGQARIHEAM  303 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc-CCchhhhhhhhHHHHHHH
Confidence            56788889999999999888887765  566667777888888888888888888777765 355555556666777777


Q ss_pred             CCHHHHHHHHHhhCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHH
Q 008280          247 GDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFD  323 (571)
Q Consensus       247 g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~  323 (571)
                      ++.++|.++++...+   .++.+...+..+|.-.++++-|+..++++.+.|+. +...|..+.-+|.-.+++|-++.-|.
T Consensus       304 ~~~~~a~~lYk~vlk~~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~sf~  382 (478)
T KOG1129|consen  304 EQQEDALQLYKLVLKLHPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLPSFQ  382 (478)
T ss_pred             HhHHHHHHHHHHHHhcCCccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHHHHH
Confidence            777777777776654   24555566666777777777777777777777754 55666666666666666666665555


Q ss_pred             HhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCch
Q 008280          324 SMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAG  403 (571)
Q Consensus       324 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~  403 (571)
                      +....                   ..+.++            -..+|..|.......|++..|.+.|+-++..+|++.. 
T Consensus       383 RAlst-------------------at~~~~------------aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~h~e-  430 (478)
T KOG1129|consen  383 RALST-------------------ATQPGQ------------AADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQHGE-  430 (478)
T ss_pred             HHHhh-------------------ccCcch------------hhhhhhccceeEEeccchHHHHHHHHHHhccCcchHH-
Confidence            44331                   111111            1245666666667788888888888888888888877 


Q ss_pred             hHHHHHHHHhhccChhHHHHHHHHHHhCCC
Q 008280          404 CYVQLANIYAAMKKWDDVARIRLSMKENNV  433 (571)
Q Consensus       404 ~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  433 (571)
                      +++.|+-.-.+.|++++|..++........
T Consensus       431 alnNLavL~~r~G~i~~Arsll~~A~s~~P  460 (478)
T KOG1129|consen  431 ALNNLAVLAARSGDILGARSLLNAAKSVMP  460 (478)
T ss_pred             HHHhHHHHHhhcCchHHHHHHHHHhhhhCc
Confidence            888888888888888888888887766443

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

Probab=99.16  E-value=2.3e-07  Score=89.11  Aligned_cols=378  Identities=12%  Similarity=0.029  Sum_probs=249.6

Q ss_pred             HHHHHHHHhCCCCHHHHHHHHhhCCC--CC-hhhHHHHHHHHHcCCCCHHHHHHHHhhCCCCCh---hhHHHHHHHHHcC
Q 008280           10 NSVLAGFAKQRGKLKDAQELFDKIPQ--PD-VVSYNIMLSCILLNSDDVVAAFDFFQRLPIKDT---ASWNTMISGFVQK   83 (571)
Q Consensus        10 ~~l~~~~~~~~g~~~~A~~~~~~~~~--~~-~~~~~~ll~~~~~~~g~~~~A~~~~~~m~~~d~---~~~~~li~~~~~~   83 (571)
                      ....+-|-+.+ ++++|++.+.+..+  || ++-|...-.+|... |++++..+--....+-++   ..+.--.+++-+.
T Consensus       119 K~~GN~~f~~k-kY~eAIkyY~~AI~l~p~epiFYsNraAcY~~l-gd~~~Vied~TkALEl~P~Y~KAl~RRA~A~E~l  196 (606)
T KOG0547|consen  119 KTKGNKFFRNK-KYDEAIKYYTQAIELCPDEPIFYSNRAACYESL-GDWEKVIEDCTKALELNPDYVKALLRRASAHEQL  196 (606)
T ss_pred             Hhhhhhhhhcc-cHHHHHHHHHHHHhcCCCCchhhhhHHHHHHHH-hhHHHHHHHHHHHhhcCcHHHHHHHHHHHHHHhh
Confidence            34455677788 99999999998875  77 77788888888888 999999887776665443   3444445667777


Q ss_pred             CCHHHHHHHHhhC--CC--CCcchHHHHHHHHHHcCChHHHHHHHhhCCC------------------------------
Q 008280           84 KNMAKARDLFLAM--PE--KNSVSWSAMISGYIECGQLDKAVELFKVAPV------------------------------  129 (571)
Q Consensus        84 g~~~~A~~~~~~m--~~--~d~~~~~~li~~~~~~g~~~~A~~~~~~~~~------------------------------  129 (571)
                      |++++|+.=..-.  .+  .|. +-..++.-..+.--...+.+-+..-.+                              
T Consensus       197 g~~~eal~D~tv~ci~~~F~n~-s~~~~~eR~Lkk~a~~ka~e~~k~nr~p~lPS~~fi~syf~sF~~~~~~~~~~~~~k  275 (606)
T KOG0547|consen  197 GKFDEALFDVTVLCILEGFQNA-SIEPMAERVLKKQAMKKAKEKLKENRPPVLPSATFIASYFGSFHADPKPLFDNKSDK  275 (606)
T ss_pred             ccHHHHHHhhhHHHHhhhcccc-hhHHHHHHHHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHhhccccccccccCCCcc
Confidence            8877775311100  00  010 001111111110011222222221111                              


Q ss_pred             CChhHHHHHHHHHHhc-CCHHHHHHHHhhC-------CCCC---------HHHHHHHHHHHHHcCChhHHHHHHHHHHHC
Q 008280          130 KSVVAWTAMISGYMKF-GKVDLAEKLFDEM-------PTKN---------LVTWNAMIAGYVENSWAEDGLKLLRMMIGL  192 (571)
Q Consensus       130 ~~~~~~~~li~~~~~~-g~~~~A~~~~~~~-------~~~~---------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  192 (571)
                      .|...-..+=..|... ..+..|...+.+-       ...+         ..+...-...+.-.|+...|...|+..+..
T Consensus       276 sDa~l~~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~al~~~gtF~fL~g~~~~a~~d~~~~I~l  355 (606)
T KOG0547|consen  276 SDAALAEALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAELEYMAEALLLRGTFHFLKGDSLGAQEDFDAAIKL  355 (606)
T ss_pred             chhhHHHHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhHHHHHHHHHHhhhhhhhcCCchhhhhhHHHHHhc
Confidence            1111111111111111 1233333333221       1122         223333333456678999999999999987


Q ss_pred             CCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCCC---ChhhHHH
Q 008280          193 GIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRK---DVVTWNA  269 (571)
Q Consensus       193 g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~---~~~~~~~  269 (571)
                      .-.++. .|..+...|....+.++....|..+.+.+ +.++.+|..-..++.-.+++++|..=|++...-   ++..|-.
T Consensus       356 ~~~~~~-lyI~~a~~y~d~~~~~~~~~~F~~A~~ld-p~n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L~pe~~~~~iQ  433 (606)
T KOG0547|consen  356 DPAFNS-LYIKRAAAYADENQSEKMWKDFNKAEDLD-PENPDVYYHRGQMRFLLQQYEEAIADFQKAISLDPENAYAYIQ  433 (606)
T ss_pred             Ccccch-HHHHHHHHHhhhhccHHHHHHHHHHHhcC-CCCCchhHhHHHHHHHHHHHHHHHHHHHHHhhcChhhhHHHHH
Confidence            533332 37777888999999999999999999987 677888888899999999999999999988753   5567777


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCC---------hHhHHH
Q 008280          270 MISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAK---------PDHYTC  340 (571)
Q Consensus       270 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~---------~~~~~~  340 (571)
                      +..+.-+.+++++++..|++.++. ++.-...|+.....+...++++.|.+.|+..++   +.|+         +.+.-+
T Consensus       434 l~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~---LE~~~~~~~v~~~plV~Ka  509 (606)
T KOG0547|consen  434 LCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIE---LEPREHLIIVNAAPLVHKA  509 (606)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHh---hccccccccccchhhhhhh
Confidence            777777889999999999999875 455567888889999999999999999998874   3444         222222


Q ss_pred             HHHHHHHcCCHHHHHHHHHhC-CCCCC-HhHHHHHHHHHHhcCCHhHHHHHHHHHhccC
Q 008280          341 MVDLLGRAGKLVEAVDLIKKM-PFKPQ-PAIFGTLLSACRVHKRLDLAEFAAMNLFNLN  397 (571)
Q Consensus       341 li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  397 (571)
                      ++..- =.+++..|.+++++. .+.|. ...+.+|...-.+.|+.++|+++|++...+-
T Consensus       510 ~l~~q-wk~d~~~a~~Ll~KA~e~Dpkce~A~~tlaq~~lQ~~~i~eAielFEksa~lA  567 (606)
T KOG0547|consen  510 LLVLQ-WKEDINQAENLLRKAIELDPKCEQAYETLAQFELQRGKIDEAIELFEKSAQLA  567 (606)
T ss_pred             Hhhhc-hhhhHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence            22222 238999999999988 44454 4688999999999999999999999986654

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.16  E-value=7.9e-09  Score=99.32  Aligned_cols=212  Identities=15%  Similarity=0.070  Sum_probs=149.4

Q ss_pred             CchHHHHHHHHHHHhCC-CCC--CcchHHHHHHHHHhcCCHHHHHHHHHhhCC---CChhhHHHHHHHHHHcCChHHHHH
Q 008280          212 SSLQLGKQVHQLVFKSP-LCK--DTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALR  285 (571)
Q Consensus       212 ~~~~~a~~~~~~~~~~g-~~~--~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~  285 (571)
                      +..+.+..-+.+++... ..|  ....+..+...|.+.|+.++|...|++..+   .+...|+.+...+...|++++|..
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            45566666666676542 122  235577888889999999999999988764   357889999999999999999999


Q ss_pred             HHHHHHHcCCCCC-HHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-C-
Q 008280          286 LFDKMKDEGMKPD-SITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-P-  362 (571)
Q Consensus       286 ~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~-  362 (571)
                      .|++..+.  .|+ ..++..+..++...|++++|.+.|+...+.   .|+..........+...++.++|.+.|++. . 
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            99999874  444 567778888888999999999999988763   444322222223345678899999999664 2 


Q ss_pred             CCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHh-------ccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhCCC
Q 008280          363 FKPQPAIFGTLLSACRVHKRLDLAEFAAMNLF-------NLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNV  433 (571)
Q Consensus       363 ~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~-------~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  433 (571)
                      ..|+  .|.. .......|+...+ ..++.+.       ++.|+.+. +|..|+.+|...|++++|...|++..+.++
T Consensus       195 ~~~~--~~~~-~~~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~e-a~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~  267 (296)
T PRK11189        195 LDKE--QWGW-NIVEFYLGKISEE-TLMERLKAGATDNTELAERLCE-TYFYLAKYYLSLGDLDEAAALFKLALANNV  267 (296)
T ss_pred             CCcc--ccHH-HHHHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHH-HHHHHHHHHHHCCCHHHHHHHHHHHHHhCC
Confidence            2233  2321 2223345555444 2344333       34566666 899999999999999999999998887654

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.15  E-value=7.4e-07  Score=82.18  Aligned_cols=379  Identities=12%  Similarity=0.103  Sum_probs=222.8

Q ss_pred             HHHcCCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHcCCCHHHHHHHHhhCCCCCcchHHHHHHHHHHcCChHHHHHH
Q 008280           47 CILLNSDDVVAAFDFFQRLPI---KDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVEL  123 (571)
Q Consensus        47 ~~~~~~g~~~~A~~~~~~m~~---~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~~  123 (571)
                      ++.+- |++++|...|..+..   ++...|-.|.-++.-.|.+.+|..+-.+.++ ++---..|+..-.+.++-++-..+
T Consensus        66 C~fhL-gdY~~Al~~Y~~~~~~~~~~~el~vnLAcc~FyLg~Y~eA~~~~~ka~k-~pL~~RLlfhlahklndEk~~~~f  143 (557)
T KOG3785|consen   66 CYFHL-GDYEEALNVYTFLMNKDDAPAELGVNLACCKFYLGQYIEAKSIAEKAPK-TPLCIRLLFHLAHKLNDEKRILTF  143 (557)
T ss_pred             HHHhh-ccHHHHHHHHHHHhccCCCCcccchhHHHHHHHHHHHHHHHHHHhhCCC-ChHHHHHHHHHHHHhCcHHHHHHH
Confidence            34444 777777777665432   3445555565555556667777666555433 222223344444555665555554


Q ss_pred             HhhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCC--CCHHHHHH-HHHHHHHcCChhHHHHHHHHHHHCCCCCCHhH
Q 008280          124 FKVAPVKSVVAWTAMISGYMKFGKVDLAEKLFDEMPT--KNLVTWNA-MIAGYVENSWAEDGLKLLRMMIGLGIRPNASS  200 (571)
Q Consensus       124 ~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~-li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t  200 (571)
                      .+.+.+ ...-.-+|..+....-.+++|++++.++..  |+....|. |.-+|.+..-++-+.+++.--.+.  .||+. 
T Consensus       144 h~~LqD-~~EdqLSLAsvhYmR~HYQeAIdvYkrvL~dn~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q--~pdSt-  219 (557)
T KOG3785|consen  144 HSSLQD-TLEDQLSLASVHYMRMHYQEAIDVYKRVLQDNPEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQ--FPDST-  219 (557)
T ss_pred             HHHHhh-hHHHHHhHHHHHHHHHHHHHHHHHHHHHHhcChhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHh--CCCcH-
Confidence            444432 234445666665556678999999999875  44445554 445677888888888888776664  45543 


Q ss_pred             HHHHHHHHh--c--cCchHH--HHH----------HHHHHHhCCC-------------C----CCcchHHHHHHHHHhcC
Q 008280          201 LSSVLLGCS--H--LSSLQL--GKQ----------VHQLVFKSPL-------------C----KDTTALTPLISMYCKCG  247 (571)
Q Consensus       201 ~~~ll~~~~--~--~~~~~~--a~~----------~~~~~~~~g~-------------~----~~~~~~~~li~~y~~~g  247 (571)
                      +..=+.+|.  +  .|+..+  -..          ..+.+.+.++             +    .-+.....|+--|.+.+
T Consensus       220 iA~NLkacn~fRl~ngr~ae~E~k~ladN~~~~~~f~~~l~rHNLVvFrngEgALqVLP~L~~~IPEARlNL~iYyL~q~  299 (557)
T KOG3785|consen  220 IAKNLKACNLFRLINGRTAEDEKKELADNIDQEYPFIEYLCRHNLVVFRNGEGALQVLPSLMKHIPEARLNLIIYYLNQN  299 (557)
T ss_pred             HHHHHHHHHHhhhhccchhHHHHHHHHhcccccchhHHHHHHcCeEEEeCCccHHHhchHHHhhChHhhhhheeeecccc
Confidence            222233332  1  111111  111          1112222211             0    01223345666789999


Q ss_pred             CHHHHHHHHHhhCCCChhhHHHHHHHHHHcC-------ChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHHhcCcHHHHH
Q 008280          248 DLEDACKLFLEIQRKDVVTWNAMISGYAQHG-------KGEKALRLFDKMKDEGMKPDSI-TFVALLLACNHAGLVDLGI  319 (571)
Q Consensus       248 ~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g-------~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~  319 (571)
                      ++.+|..+.+++..-.+.-|-.-.-.++..|       +..-|.+.|+-.-.++..-|.. .--++.+++--..++++..
T Consensus       300 dVqeA~~L~Kdl~PttP~EyilKgvv~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl  379 (557)
T KOG3785|consen  300 DVQEAISLCKDLDPTTPYEYILKGVVFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVL  379 (557)
T ss_pred             cHHHHHHHHhhcCCCChHHHHHHHHHHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHH
Confidence            9999999998886544444433333333333       3445666666554444433332 1223444555556788899


Q ss_pred             HHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhCC--CCCCHhHHHHHH-HHHHhcCCHhHHHHHHHHHhcc
Q 008280          320 QYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMP--FKPQPAIFGTLL-SACRVHKRLDLAEFAAMNLFNL  396 (571)
Q Consensus       320 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~-~~~~~~g~~~~a~~~~~~~~~~  396 (571)
                      .+++++.. +=...|...+ .+..++...|.+.+|+++|-++.  .-.|..+|.+++ +.|.+.+..+.|-.++-++  -
T Consensus       380 ~YlnSi~s-YF~NdD~Fn~-N~AQAk~atgny~eaEelf~~is~~~ikn~~~Y~s~LArCyi~nkkP~lAW~~~lk~--~  455 (557)
T KOG3785|consen  380 TYLNSIES-YFTNDDDFNL-NLAQAKLATGNYVEAEELFIRISGPEIKNKILYKSMLARCYIRNKKPQLAWDMMLKT--N  455 (557)
T ss_pred             HHHHHHHH-HhcCcchhhh-HHHHHHHHhcChHHHHHHHhhhcChhhhhhHHHHHHHHHHHHhcCCchHHHHHHHhc--C
Confidence            99888865 3333344444 57899999999999999998873  113556666555 5568889988887665443  2


Q ss_pred             CCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhCCCcc
Q 008280          397 NPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVVK  435 (571)
Q Consensus       397 ~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~  435 (571)
                      .|.+.......+++-|.+++.+--|.+.|+.+......|
T Consensus       456 t~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lDP~p  494 (557)
T KOG3785|consen  456 TPSERFSLLQLIANDCYKANEFYYAAKAFDELEILDPTP  494 (557)
T ss_pred             CchhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccCCCc
Confidence            344333244567788999999999999999887765543

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.13  E-value=1.3e-07  Score=95.67  Aligned_cols=127  Identities=15%  Similarity=0.061  Sum_probs=106.1

Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-HhHHHHHHHHHHh
Q 008280          302 FVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQ-PAIFGTLLSACRV  379 (571)
Q Consensus       302 ~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~  379 (571)
                      |......+...+..+++...+.+..+  ..+.....|......+...|.+++|.+.|... .+.|+ +.+..++...+.+
T Consensus       653 wllaa~~~~~~~~~~~a~~CL~Ea~~--~~~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~ldP~hv~s~~Ala~~lle  730 (799)
T KOG4162|consen  653 WLLAADLFLLSGNDDEARSCLLEASK--IDPLSASVYYLRGLLLEVKGQLEEAKEAFLVALALDPDHVPSMTALAELLLE  730 (799)
T ss_pred             HHHHHHHHHhcCCchHHHHHHHHHHh--cchhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHhcCCCCcHHHHHHHHHHHH
Confidence            34455677788888888877777754  34455777888888899999999999998776 55666 4678889999999


Q ss_pred             cCCHhHHHH--HHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhC
Q 008280          380 HKRLDLAEF--AAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKEN  431 (571)
Q Consensus       380 ~g~~~~a~~--~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  431 (571)
                      .|+...|..  ++..+++.+|.++. .|..|+.++.+.|+.++|...|....+.
T Consensus       731 ~G~~~la~~~~~L~dalr~dp~n~e-aW~~LG~v~k~~Gd~~~Aaecf~aa~qL  783 (799)
T KOG4162|consen  731 LGSPRLAEKRSLLSDALRLDPLNHE-AWYYLGEVFKKLGDSKQAAECFQAALQL  783 (799)
T ss_pred             hCCcchHHHHHHHHHHHhhCCCCHH-HHHHHHHHHHHccchHHHHHHHHHHHhh
Confidence            999988888  99999999999999 9999999999999999999999877653

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.10  E-value=1.7e-08  Score=101.33  Aligned_cols=231  Identities=14%  Similarity=0.115  Sum_probs=168.1

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHHHC-----C-CCCCHhHH-HHHHHHHhccCchHHHHHHHHHHHhC-----CC--C
Q 008280          165 TWNAMIAGYVENSWAEDGLKLLRMMIGL-----G-IRPNASSL-SSVLLGCSHLSSLQLGKQVHQLVFKS-----PL--C  230 (571)
Q Consensus       165 ~~~~li~~~~~~g~~~~A~~~~~~m~~~-----g-~~pd~~t~-~~ll~~~~~~~~~~~a~~~~~~~~~~-----g~--~  230 (571)
                      +...+...|...|+++.|+.+++...+.     | ..|...+. ..+...|...+++++|..+|+.++..     |-  +
T Consensus       201 ~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~  280 (508)
T KOG1840|consen  201 TLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDHP  280 (508)
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCH
Confidence            4444778888888888888888776653     2 12333332 23555677888888888888877652     21  1


Q ss_pred             CCcchHHHHHHHHHhcCCHHHHHHHHHhhCC----------CCh-hhHHHHHHHHHHcCChHHHHHHHHHHHHc---CCC
Q 008280          231 KDTTALTPLISMYCKCGDLEDACKLFLEIQR----------KDV-VTWNAMISGYAQHGKGEKALRLFDKMKDE---GMK  296 (571)
Q Consensus       231 ~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~----------~~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~---g~~  296 (571)
                      .-..+++.|..+|.+.|++++|...+++..+          +.+ ..++.++..+...+++++|..+++...+.   -+.
T Consensus       281 ~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g  360 (508)
T KOG1840|consen  281 AVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPG  360 (508)
T ss_pred             HHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhcc
Confidence            1234566777789999999988888776542          122 24667788889999999999999876431   233


Q ss_pred             CCH----HHHHHHHHHHHhcCcHHHHHHHHHHhHHhc---CC--CCC-hHhHHHHHHHHHHcCCHHHHHHHHHhC-----
Q 008280          297 PDS----ITFVALLLACNHAGLVDLGIQYFDSMVNDY---GI--AAK-PDHYTCMVDLLGRAGKLVEAVDLIKKM-----  361 (571)
Q Consensus       297 p~~----~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~---~~--~~~-~~~~~~li~~~~~~g~~~~A~~~~~~~-----  361 (571)
                      ++.    .++..+...+.+.|++++|.++|++++...   +.  .+. ...++.|...|.+.++..+|.++|.+.     
T Consensus       361 ~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~  440 (508)
T KOG1840|consen  361 EDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMK  440 (508)
T ss_pred             ccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHH
Confidence            443    478899999999999999999999887642   11  122 446778889999999999999998876     


Q ss_pred             ---CCCCCH-hHHHHHHHHHHhcCCHhHHHHHHHHHhc
Q 008280          362 ---PFKPQP-AIFGTLLSACRVHKRLDLAEFAAMNLFN  395 (571)
Q Consensus       362 ---~~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~  395 (571)
                         +..|+. .+|..|..+|...|+++.|+++.+++..
T Consensus       441 ~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~  478 (508)
T KOG1840|consen  441 LCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVLN  478 (508)
T ss_pred             HhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence               344564 6899999999999999999999988863

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

Probab=99.10  E-value=4.3e-09  Score=95.54  Aligned_cols=191  Identities=13%  Similarity=0.131  Sum_probs=161.9

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhhC--CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHH-HHHHHHHhcC
Q 008280          237 TPLISMYCKCGDLEDACKLFLEIQ--RKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFV-ALLLACNHAG  313 (571)
Q Consensus       237 ~~li~~y~~~g~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~-~ll~a~~~~g  313 (571)
                      +-+...|.+.|.+.+|.+.|+.-.  .+-+.+|..|-..|.+..+++.|+.+|.+-.+.  .|-.+||. .....+...+
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q~~~~dTfllLskvY~ridQP~~AL~~~~~gld~--fP~~VT~l~g~ARi~eam~  304 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQFPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS--FPFDVTYLLGQARIHEAME  304 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhcCCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc--CCchhhhhhhhHHHHHHHH
Confidence            568889999999999999998765  367889999999999999999999999998764  57777764 4667888899


Q ss_pred             cHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC---CCCCCHhHHHHHHHHHHhcCCHhHHHHHH
Q 008280          314 LVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM---PFKPQPAIFGTLLSACRVHKRLDLAEFAA  390 (571)
Q Consensus       314 ~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~---~~~p~~~~~~~l~~~~~~~g~~~~a~~~~  390 (571)
                      +.++|.++|+...+  ..+.+++...++...|.-.++++-|+.+++++   ++ .++..|+.+.-.|.-.++++.++..|
T Consensus       305 ~~~~a~~lYk~vlk--~~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~-~speLf~NigLCC~yaqQ~D~~L~sf  381 (478)
T KOG1129|consen  305 QQEDALQLYKLVLK--LHPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGA-QSPELFCNIGLCCLYAQQIDLVLPSF  381 (478)
T ss_pred             hHHHHHHHHHHHHh--cCCccceeeeeeeeccccCCChHHHHHHHHHHHHhcC-CChHHHhhHHHHHHhhcchhhhHHHH
Confidence            99999999999987  34566888889999999999999999999876   64 57788999998999999999999999


Q ss_pred             HHHhcc--CCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhCC
Q 008280          391 MNLFNL--NPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENN  432 (571)
Q Consensus       391 ~~~~~~--~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  432 (571)
                      ++++..  +|+...-+|..|+.+....|++.-|.+.|+-....+
T Consensus       382 ~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d  425 (478)
T KOG1129|consen  382 QRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSD  425 (478)
T ss_pred             HHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccC
Confidence            999874  355433389999999999999999999998776544

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.07  E-value=5.6e-08  Score=93.45  Aligned_cols=227  Identities=12%  Similarity=-0.016  Sum_probs=148.0

Q ss_pred             CChhHHHHHHHHHHHCC-CCCC--HhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHH
Q 008280          177 SWAEDGLKLLRMMIGLG-IRPN--ASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDAC  253 (571)
Q Consensus       177 g~~~~A~~~~~~m~~~g-~~pd--~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~  253 (571)
                      +..+.++.-+.++.... ..|+  ...|......+...|+.++|...+..+++.. +.+...++.+...|...|++++|.
T Consensus        40 ~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~~A~  118 (296)
T PRK11189         40 LQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFDAAY  118 (296)
T ss_pred             hHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHHHHH
Confidence            35566666666666431 2222  2345555666777788888888887777765 456778888888899999999999


Q ss_pred             HHHHhhCC--C-ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcC
Q 008280          254 KLFLEIQR--K-DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYG  330 (571)
Q Consensus       254 ~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~  330 (571)
                      ..|++..+  | +..+|..+...+...|++++|++.|++..+.  .|+..........+...++.++|...|.....  .
T Consensus       119 ~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~--~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~--~  194 (296)
T PRK11189        119 EAFDSVLELDPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQD--DPNDPYRALWLYLAESKLDPKQAKENLKQRYE--K  194 (296)
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHccCCHHHHHHHHHHHHh--h
Confidence            98888754  3 4567888888888899999999999988775  34433222222234556788999999976554  2


Q ss_pred             CCCChHhHHHHHHHHHHcCCHHH--HHHHHHhC-CC----CC-CHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCc
Q 008280          331 IAAKPDHYTCMVDLLGRAGKLVE--AVDLIKKM-PF----KP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA  402 (571)
Q Consensus       331 ~~~~~~~~~~li~~~~~~g~~~~--A~~~~~~~-~~----~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~  402 (571)
                      ..|+...+ .++..  ..|+..+  +.+.+.+. ..    .| ....|..+...+...|++++|+..|+++++.+|.+..
T Consensus       195 ~~~~~~~~-~~~~~--~lg~~~~~~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~~~~~  271 (296)
T PRK11189        195 LDKEQWGW-NIVEF--YLGKISEETLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNVYNFV  271 (296)
T ss_pred             CCccccHH-HHHHH--HccCCCHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCchHH
Confidence            33332222 23333  3454433  33333221 11    11 2358899999999999999999999999999974433


Q ss_pred             hhHHHHHHH
Q 008280          403 GCYVQLANI  411 (571)
Q Consensus       403 ~~~~~l~~~  411 (571)
                      ..-..++..
T Consensus       272 e~~~~~~e~  280 (296)
T PRK11189        272 EHRYALLEL  280 (296)
T ss_pred             HHHHHHHHH
Confidence            133344443

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

Probab=99.02  E-value=3.6e-08  Score=85.72  Aligned_cols=164  Identities=14%  Similarity=0.123  Sum_probs=136.2

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHH
Q 008280          266 TWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLL  345 (571)
Q Consensus       266 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~  345 (571)
                      +...|.-+|.+.|+...|..-+++..+.. +.+..++..+...|.+.|..+.|.+.|+...+  --+.+..+.|....-+
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAls--l~p~~GdVLNNYG~FL  113 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALS--LAPNNGDVLNNYGAFL  113 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHh--cCCCccchhhhhhHHH
Confidence            34557778999999999999999988853 22445788888899999999999999998875  2334477888888889


Q ss_pred             HHcCCHHHHHHHHHhCCCCCC----HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHH
Q 008280          346 GRAGKLVEAVDLIKKMPFKPQ----PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDV  421 (571)
Q Consensus       346 ~~~g~~~~A~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a  421 (571)
                      +..|++++|...|++.-..|+    ..+|..+.-+..+.|+++.|...+++.++.+|+.+. +...+.....+.|++-+|
T Consensus       114 C~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~~~~-~~l~~a~~~~~~~~y~~A  192 (250)
T COG3063         114 CAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQFPP-ALLELARLHYKAGDYAPA  192 (250)
T ss_pred             HhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcCCCh-HHHHHHHHHHhcccchHH
Confidence            999999999999988832232    358888887788999999999999999999999998 999999999999999999


Q ss_pred             HHHHHHHHhCCC
Q 008280          422 ARIRLSMKENNV  433 (571)
Q Consensus       422 ~~~~~~m~~~~~  433 (571)
                      ...++.....+.
T Consensus       193 r~~~~~~~~~~~  204 (250)
T COG3063         193 RLYLERYQQRGG  204 (250)
T ss_pred             HHHHHHHHhccc
Confidence            999988876654

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.01  E-value=8.5e-07  Score=89.97  Aligned_cols=391  Identities=10%  Similarity=0.023  Sum_probs=238.9

Q ss_pred             CCcchHHHHHHHHHhCCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHcCCCCHHHHHHHHhhCCCC-----ChhhHHH
Q 008280            4 KTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQ---PDVVSYNIMLSCILLNSDDVVAAFDFFQRLPIK-----DTASWNT   75 (571)
Q Consensus         4 ~~~~~~~~l~~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~ll~~~~~~~g~~~~A~~~~~~m~~~-----d~~~~~~   75 (571)
                      -|..+|..|.-+...+| +++.+.+.|++...   .....|+.+-..|... |.-..|..+++.-..+     |+..+-.
T Consensus       321 nd~ai~d~Lt~al~~~g-~f~~lae~fE~~~~~~~~~~e~w~~~als~saa-g~~s~Av~ll~~~~~~~~~ps~~s~~Lm  398 (799)
T KOG4162|consen  321 NDAAIFDHLTFALSRCG-QFEVLAEQFEQALPFSFGEHERWYQLALSYSAA-GSDSKAVNLLRESLKKSEQPSDISVLLM  398 (799)
T ss_pred             chHHHHHHHHHHHHHHH-HHHHHHHHHHHHhHhhhhhHHHHHHHHHHHHHh-ccchHHHHHHHhhcccccCCCcchHHHH
Confidence            35677788888888888 88888888887654   3445688887788887 8888888888765432     2222222


Q ss_pred             HHHHHH-cCCCHHHHHHHHhhCCC--------CCcchHHHHHHHHHHcC-----------ChHHHHHHHhhCC---CCCh
Q 008280           76 MISGFV-QKKNMAKARDLFLAMPE--------KNSVSWSAMISGYIECG-----------QLDKAVELFKVAP---VKSV  132 (571)
Q Consensus        76 li~~~~-~~g~~~~A~~~~~~m~~--------~d~~~~~~li~~~~~~g-----------~~~~A~~~~~~~~---~~~~  132 (571)
                      .-..|. +-+..++++.+-.+...        -....+..+.-+|...-           ...++++.+++..   +.|+
T Consensus       399 asklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d~~dp  478 (799)
T KOG4162|consen  399 ASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFDPTDP  478 (799)
T ss_pred             HHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcCCCCc
Confidence            222232 33556666555544421        13344555544443321           1235555566553   3455


Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhhCC----CCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCC-HhHHHHHHHH
Q 008280          133 VAWTAMISGYMKFGKVDLAEKLFDEMP----TKNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPN-ASSLSSVLLG  207 (571)
Q Consensus       133 ~~~~~li~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd-~~t~~~ll~~  207 (571)
                      .+...+.--|+-.++++.|.+...+..    ..+...|..+.-.+...+++.+|+.+.+.....-  |+ ......-+..
T Consensus       479 ~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~--~~N~~l~~~~~~i  556 (799)
T KOG4162|consen  479 LVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEF--GDNHVLMDGKIHI  556 (799)
T ss_pred             hHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHh--hhhhhhchhhhhh
Confidence            555555556778888888888777654    3567889999989999999999999887766531  11 0000000111


Q ss_pred             HhccCchHHHHHHHHHHH---------------------hCCC-------CCCcchHHHHHHHHHhcC---CHHHHHHHH
Q 008280          208 CSHLSSLQLGKQVHQLVF---------------------KSPL-------CKDTTALTPLISMYCKCG---DLEDACKLF  256 (571)
Q Consensus       208 ~~~~~~~~~a~~~~~~~~---------------------~~g~-------~~~~~~~~~li~~y~~~g---~~~~A~~~~  256 (571)
                      -...++.+++......++                     +.|+       ...+.++..+.......+   ..+.....+
T Consensus       557 ~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~~~~~se~~Lp~s  636 (799)
T KOG4162|consen  557 ELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQLKSAGSELKLPSS  636 (799)
T ss_pred             hhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhhhhcccccccCcc
Confidence            111222222221111111                     0110       011122222222111111   111111112


Q ss_pred             HhhCCCC------hhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcC
Q 008280          257 LEIQRKD------VVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYG  330 (571)
Q Consensus       257 ~~~~~~~------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~  330 (571)
                      ...+.++      ...|......+.+.++.++|...+.+..... +-....|......+...|..++|.+.|....   .
T Consensus       637 ~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~~-~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al---~  712 (799)
T KOG4162|consen  637 TVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKID-PLSASVYYLRGLLLEVKGQLEEAKEAFLVAL---A  712 (799)
T ss_pred             cccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhcc-hhhHHHHHHhhHHHHHHHhhHHHHHHHHHHH---h
Confidence            2222222      2357777788889999999998888876542 3344566666677888899999999998776   4


Q ss_pred             CCCC-hHhHHHHHHHHHHcCCHHHHHH--HHHhC-CCCC-CHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCc
Q 008280          331 IAAK-PDHYTCMVDLLGRAGKLVEAVD--LIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA  402 (571)
Q Consensus       331 ~~~~-~~~~~~li~~~~~~g~~~~A~~--~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~  402 (571)
                      +.|+ +....++..++.+.|+..-|..  ++..+ .+.| +...|..+...+.+.|+.+.|.+.|..+.++++.+|.
T Consensus       713 ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qLe~S~PV  789 (799)
T KOG4162|consen  713 LDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLGDSKQAAECFQAALQLEESNPV  789 (799)
T ss_pred             cCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccchHHHHHHHHHHHhhccCCCc
Confidence            5665 7788899999999998777777  77666 4444 4689999999999999999999999999999887764

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=99.01  E-value=3.9e-07  Score=91.41  Aligned_cols=216  Identities=15%  Similarity=0.181  Sum_probs=117.3

Q ss_pred             HHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHH
Q 008280          172 GYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLED  251 (571)
Q Consensus       172 ~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~  251 (571)
                      .+.+.|+++.|+..|-+..         .....+.+......+.+|..+++.+.....  -..-|-.+.+-|+..|+++-
T Consensus       715 hl~~~~q~daainhfiea~---------~~~kaieaai~akew~kai~ildniqdqk~--~s~yy~~iadhyan~~dfe~  783 (1636)
T KOG3616|consen  715 HLEQIGQLDAAINHFIEAN---------CLIKAIEAAIGAKEWKKAISILDNIQDQKT--ASGYYGEIADHYANKGDFEI  783 (1636)
T ss_pred             HHHHHHhHHHHHHHHHHhh---------hHHHHHHHHhhhhhhhhhHhHHHHhhhhcc--ccccchHHHHHhccchhHHH
Confidence            3444555555555543322         122233444455566666666666655432  22334556666777777777


Q ss_pred             HHHHHHhhCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCC
Q 008280          252 ACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGI  331 (571)
Q Consensus       252 A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~  331 (571)
                      |+++|-+..     .++-.|..|.+.|++++|.++-++..  |.......|..-..-....|.+.+|.++|-.+.     
T Consensus       784 ae~lf~e~~-----~~~dai~my~k~~kw~da~kla~e~~--~~e~t~~~yiakaedldehgkf~eaeqlyiti~-----  851 (1636)
T KOG3616|consen  784 AEELFTEAD-----LFKDAIDMYGKAGKWEDAFKLAEECH--GPEATISLYIAKAEDLDEHGKFAEAEQLYITIG-----  851 (1636)
T ss_pred             HHHHHHhcc-----hhHHHHHHHhccccHHHHHHHHHHhc--CchhHHHHHHHhHHhHHhhcchhhhhheeEEcc-----
Confidence            777765432     34445666777777777766655442  222233344444445556666666666654332     


Q ss_pred             CCChHhHHHHHHHHHHcCCHHHHHHHHHhCCCCCC--HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHH
Q 008280          332 AAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQ--PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLA  409 (571)
Q Consensus       332 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~  409 (571)
                      .|+     .-|.+|-+.|..++.+++.++-.  |+  ..|-.-+..-+-..|+...|+..|-++        . -|..-.
T Consensus       852 ~p~-----~aiqmydk~~~~ddmirlv~k~h--~d~l~dt~~~f~~e~e~~g~lkaae~~flea--------~-d~kaav  915 (1636)
T KOG3616|consen  852 EPD-----KAIQMYDKHGLDDDMIRLVEKHH--GDHLHDTHKHFAKELEAEGDLKAAEEHFLEA--------G-DFKAAV  915 (1636)
T ss_pred             Cch-----HHHHHHHhhCcchHHHHHHHHhC--hhhhhHHHHHHHHHHHhccChhHHHHHHHhh--------h-hHHHHH
Confidence            233     23566666666666666666552  23  234445555566666666666655443        2 345556


Q ss_pred             HHHhhccChhHHHHHHH
Q 008280          410 NIYAAMKKWDDVARIRL  426 (571)
Q Consensus       410 ~~~~~~g~~~~a~~~~~  426 (571)
                      ++|...+.|++|.++-+
T Consensus       916 nmyk~s~lw~dayriak  932 (1636)
T KOG3616|consen  916 NMYKASELWEDAYRIAK  932 (1636)
T ss_pred             HHhhhhhhHHHHHHHHh
Confidence            66666666666665543

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

Probab=99.00  E-value=5.4e-07  Score=82.77  Aligned_cols=191  Identities=12%  Similarity=0.095  Sum_probs=101.4

Q ss_pred             HHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhh---CCCChhhHHHHHHHHHHcCChH
Q 008280          205 LLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEI---QRKDVVTWNAMISGYAQHGKGE  281 (571)
Q Consensus       205 l~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~---~~~~~~~~~~li~~~~~~g~~~  281 (571)
                      +..+...|+...++.....+++.. +.|...+..-..+|...|++..|+.=+...   ...+....--+-..+...|+.+
T Consensus       162 l~s~~~~GD~~~ai~~i~~llEi~-~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs~DnTe~~ykis~L~Y~vgd~~  240 (504)
T KOG0624|consen  162 LKSASGSGDCQNAIEMITHLLEIQ-PWDASLRQARAKCYIAEGEPKKAIHDLKQASKLSQDNTEGHYKISQLLYTVGDAE  240 (504)
T ss_pred             HHHHhcCCchhhHHHHHHHHHhcC-cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhccccchHHHHHHHHHHHhhhhHH
Confidence            334455677777777777777654 556667777777777777777776555443   3455666666666677777777


Q ss_pred             HHHHHHHHHHHcCCCCCHHH----HHHH---------HHHHHhcCcHHHHHHHHHHhHHhcCCCCC-----hHhHHHHHH
Q 008280          282 KALRLFDKMKDEGMKPDSIT----FVAL---------LLACNHAGLVDLGIQYFDSMVNDYGIAAK-----PDHYTCMVD  343 (571)
Q Consensus       282 ~A~~~~~~m~~~g~~p~~~t----~~~l---------l~a~~~~g~~~~a~~~~~~~~~~~~~~~~-----~~~~~~li~  343 (571)
                      .++...++-.+  +.||...    |..|         +......+.+.++.+-.+...+.   .|.     ...+..+-.
T Consensus       241 ~sL~~iRECLK--ldpdHK~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~---ep~~~~ir~~~~r~~c~  315 (504)
T KOG0624|consen  241 NSLKEIRECLK--LDPDHKLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKN---EPEETMIRYNGFRVLCT  315 (504)
T ss_pred             HHHHHHHHHHc--cCcchhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhc---CCcccceeeeeeheeee
Confidence            77777777665  3566532    1111         01112233444444444443331   222     111222333


Q ss_pred             HHHHcCCHHHHHHHHHhC-CCCCC-HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCC
Q 008280          344 LLGRAGKLVEAVDLIKKM-PFKPQ-PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANA  401 (571)
Q Consensus       344 ~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~  401 (571)
                      .+...|++.+|++...+. .+.|| +.++.--..+|.....++.|+.-|+++.+.+|++.
T Consensus       316 C~~~d~~~~eAiqqC~evL~~d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~n~sn~  375 (504)
T KOG0624|consen  316 CYREDEQFGEAIQQCKEVLDIDPDDVQVLCDRAEAYLGDEMYDDAIHDYEKALELNESNT  375 (504)
T ss_pred             cccccCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCcccH
Confidence            344455555555554443 23333 44444445555555555555555555555555543

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

Probab=98.97  E-value=1.5e-08  Score=99.16  Aligned_cols=216  Identities=15%  Similarity=0.138  Sum_probs=174.5

Q ss_pred             HhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCC---CChhhHHHHHHHHHHcCChHHHH
Q 008280          208 CSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKAL  284 (571)
Q Consensus       208 ~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~  284 (571)
                      +.+.|++..|.-.|+..++.. |.+...|.-|....+..++-..|+..+.+..+   .|....-+|.-.|...|.-.+|+
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            356788889988999888886 67788999999999999998999998888775   35667777888899999999999


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHH-----------HHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHH
Q 008280          285 RLFDKMKDEGMKPDSITFVALL-----------LACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVE  353 (571)
Q Consensus       285 ~~~~~m~~~g~~p~~~t~~~ll-----------~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  353 (571)
                      ..|+.-+...  |...   .+.           ........+....++|-.+....+..+|++++.+|.-.|.-.|.+++
T Consensus       374 ~~L~~Wi~~~--p~y~---~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdr  448 (579)
T KOG1125|consen  374 KMLDKWIRNK--PKYV---HLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDR  448 (579)
T ss_pred             HHHHHHHHhC--ccch---hccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHH
Confidence            9999876543  1111   111           11222233445566676666655666899999999999999999999


Q ss_pred             HHHHHHhC-CCCCC-HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHh
Q 008280          354 AVDLIKKM-PFKPQ-PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  430 (571)
Q Consensus       354 A~~~~~~~-~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  430 (571)
                      |.+.|+.+ ..+|+ ..+||.|...++...+.++|+..|.+++++.|..+. +.+.|+-.|...|.+++|.+.|-....
T Consensus       449 aiDcf~~AL~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR-~RyNlgIS~mNlG~ykEA~~hlL~AL~  526 (579)
T KOG1125|consen  449 AVDCFEAALQVKPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVR-VRYNLGISCMNLGAYKEAVKHLLEALS  526 (579)
T ss_pred             HHHHHHHHHhcCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeee-eehhhhhhhhhhhhHHHHHHHHHHHHH
Confidence            99999988 55565 689999999999999999999999999999999988 999999999999999999999866553

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.93  E-value=1.7e-05  Score=73.38  Aligned_cols=375  Identities=12%  Similarity=0.073  Sum_probs=223.6

Q ss_pred             HHHHHHhCCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHcCCCCHHHHHHHHhhCCCCChhhHHHHHHHHHcCCCHHH
Q 008280           12 VLAGFAKQRGKLKDAQELFDKIPQ---PDVVSYNIMLSCILLNSDDVVAAFDFFQRLPIKDTASWNTMISGFVQKKNMAK   88 (571)
Q Consensus        12 l~~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~ll~~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~   88 (571)
                      +.-+|-+.| ++++|..++.-+.+   ++...|-.|.-.+.-- |.+.+|..+-...++ ++..-..|...--+.|+-++
T Consensus        63 ia~C~fhLg-dY~~Al~~Y~~~~~~~~~~~el~vnLAcc~FyL-g~Y~eA~~~~~ka~k-~pL~~RLlfhlahklndEk~  139 (557)
T KOG3785|consen   63 IAHCYFHLG-DYEEALNVYTFLMNKDDAPAELGVNLACCKFYL-GQYIEAKSIAEKAPK-TPLCIRLLFHLAHKLNDEKR  139 (557)
T ss_pred             HHHHHHhhc-cHHHHHHHHHHHhccCCCCcccchhHHHHHHHH-HHHHHHHHHHhhCCC-ChHHHHHHHHHHHHhCcHHH
Confidence            345566788 99999999987764   5556666666666666 889999988777654 22223334444445566555


Q ss_pred             HHHHHhhCCCCCcchHHHHHHHHHHcCChHHHHHHHhhCCCCCh--hHHHH-HHHHHHhcCCHHHHHHHHhhCCC--CC-
Q 008280           89 ARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAPVKSV--VAWTA-MISGYMKFGKVDLAEKLFDEMPT--KN-  162 (571)
Q Consensus        89 A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~--~~~~~-li~~~~~~g~~~~A~~~~~~~~~--~~-  162 (571)
                      -..+-..+.+. ..---+|.+..-..-.+.+|++++.+.+..++  ...|. +.-.|.|..-++-+.++++.-.+  || 
T Consensus       140 ~~~fh~~LqD~-~EdqLSLAsvhYmR~HYQeAIdvYkrvL~dn~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q~pdS  218 (557)
T KOG3785|consen  140 ILTFHSSLQDT-LEDQLSLASVHYMRMHYQEAIDVYKRVLQDNPEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQFPDS  218 (557)
T ss_pred             HHHHHHHHhhh-HHHHHhHHHHHHHHHHHHHHHHHHHHHHhcChhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHhCCCc
Confidence            55544444321 12223344443344467778888877765544  22222 23355666666666555544331  22 


Q ss_pred             HHHHHHHHHHHHHc--CC---------------------------------hhHHHHHHHHHHHCCCCCCHhHHHHHHHH
Q 008280          163 LVTWNAMIAGYVEN--SW---------------------------------AEDGLKLLRMMIGLGIRPNASSLSSVLLG  207 (571)
Q Consensus       163 ~~~~~~li~~~~~~--g~---------------------------------~~~A~~~~~~m~~~g~~pd~~t~~~ll~~  207 (571)
                      +.+-|.......+.  |+                                 -+.|++++--+.+.  -|  ..-..++--
T Consensus       219 tiA~NLkacn~fRl~ngr~ae~E~k~ladN~~~~~~f~~~l~rHNLVvFrngEgALqVLP~L~~~--IP--EARlNL~iY  294 (557)
T KOG3785|consen  219 TIAKNLKACNLFRLINGRTAEDEKKELADNIDQEYPFIEYLCRHNLVVFRNGEGALQVLPSLMKH--IP--EARLNLIIY  294 (557)
T ss_pred             HHHHHHHHHHHhhhhccchhHHHHHHHHhcccccchhHHHHHHcCeEEEeCCccHHHhchHHHhh--Ch--Hhhhhheee
Confidence            23333333332221  11                                 12233332222211  11  122233334


Q ss_pred             HhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcC-------CHHHHHHHHHhhCC-----CChhhHHHHHHHHH
Q 008280          208 CSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCG-------DLEDACKLFLEIQR-----KDVVTWNAMISGYA  275 (571)
Q Consensus       208 ~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g-------~~~~A~~~~~~~~~-----~~~~~~~~li~~~~  275 (571)
                      +.+.+++.+|..+...+.    +.++.-|-.-.-.++..|       .+.-|.+.|+-.-.     ..+.--.+|.+.+.
T Consensus       295 yL~q~dVqeA~~L~Kdl~----PttP~EyilKgvv~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fF  370 (557)
T KOG3785|consen  295 YLNQNDVQEAISLCKDLD----PTTPYEYILKGVVFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASYFF  370 (557)
T ss_pred             ecccccHHHHHHHHhhcC----CCChHHHHHHHHHHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHHHH
Confidence            667788888877765442    222222222222233333       35567777765543     23445667888888


Q ss_pred             HcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhH-HHHHHHHHHcCCHHHH
Q 008280          276 QHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHY-TCMVDLLGRAGKLVEA  354 (571)
Q Consensus       276 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~-~~li~~~~~~g~~~~A  354 (571)
                      -..++++.+-.+.....-= ..|..--..+..|....|++.+|.++|-.+... .++ +..+| ..|...|.++|.++-|
T Consensus       371 L~~qFddVl~YlnSi~sYF-~NdD~Fn~N~AQAk~atgny~eaEelf~~is~~-~ik-n~~~Y~s~LArCyi~nkkP~lA  447 (557)
T KOG3785|consen  371 LSFQFDDVLTYLNSIESYF-TNDDDFNLNLAQAKLATGNYVEAEELFIRISGP-EIK-NKILYKSMLARCYIRNKKPQLA  447 (557)
T ss_pred             HHHHHHHHHHHHHHHHHHh-cCcchhhhHHHHHHHHhcChHHHHHHHhhhcCh-hhh-hhHHHHHHHHHHHHhcCCchHH
Confidence            8888999999888877653 334444446788999999999999999877531 223 34444 4667889999999999


Q ss_pred             HHHHHhCCCCCCHhHHHHH-HHHHHhcCCHhHHHHHHHHHhccCCCCC
Q 008280          355 VDLIKKMPFKPQPAIFGTL-LSACRVHKRLDLAEFAAMNLFNLNPANA  401 (571)
Q Consensus       355 ~~~~~~~~~~p~~~~~~~l-~~~~~~~g~~~~a~~~~~~~~~~~p~~~  401 (571)
                      -+++-++....+..+...+ .+-|.+.+.+--|-+.|..+..++|...
T Consensus       448 W~~~lk~~t~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lDP~pE  495 (557)
T KOG3785|consen  448 WDMMLKTNTPSERFSLLQLIANDCYKANEFYYAAKAFDELEILDPTPE  495 (557)
T ss_pred             HHHHHhcCCchhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccCCCcc
Confidence            9999988644445555444 4568899999999999999999998754

>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=98.91  E-value=2.6e-06  Score=86.84  Aligned_cols=278  Identities=16%  Similarity=0.138  Sum_probs=160.2

Q ss_pred             HHHHHcCChHHHHHHHhhCC---CCChhHHHHHHHHHHhcCCHHHHHHHHhhCCC--CCHHHH-HHHHHHHHHc-----C
Q 008280          109 SGYIECGQLDKAVELFKVAP---VKSVVAWTAMISGYMKFGKVDLAEKLFDEMPT--KNLVTW-NAMIAGYVEN-----S  177 (571)
Q Consensus       109 ~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~~~~-~~li~~~~~~-----g  177 (571)
                      ..+...|++++|++.+..-.   .............|.+.|+.++|..+|..+.+  |+...| ..+..+....     .
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            34455666666666665432   12223444555666666666666666666664  322333 3333333111     1


Q ss_pred             ChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCc-hHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHH
Q 008280          178 WAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSS-LQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLF  256 (571)
Q Consensus       178 ~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~-~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~  256 (571)
                      +.+...++|+++...  -|.......+.-.+..... -..+..++...++.|+|+   +++.|-..|....+.+-..+++
T Consensus        92 ~~~~~~~~y~~l~~~--yp~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPs---lF~~lk~Ly~d~~K~~~i~~l~  166 (517)
T PF12569_consen   92 DVEKLLELYDELAEK--YPRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVPS---LFSNLKPLYKDPEKAAIIESLV  166 (517)
T ss_pred             cHHHHHHHHHHHHHh--CccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCch---HHHHHHHHHcChhHHHHHHHHH
Confidence            345556666666543  2333322222212222112 234455556666666543   5666666666555544444444


Q ss_pred             HhhC------------------CCChhhH--HHHHHHHHHcCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHhcCcH
Q 008280          257 LEIQ------------------RKDVVTW--NAMISGYAQHGKGEKALRLFDKMKDEGMKPDS-ITFVALLLACNHAGLV  315 (571)
Q Consensus       257 ~~~~------------------~~~~~~~--~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~a~~~~g~~  315 (571)
                      ....                  .|....|  .-+...|-..|++++|++++++.++.  .|+. ..|..-...+-+.|++
T Consensus       167 ~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~h--tPt~~ely~~KarilKh~G~~  244 (517)
T PF12569_consen  167 EEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEH--TPTLVELYMTKARILKHAGDL  244 (517)
T ss_pred             HHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHCCCH
Confidence            4431                  1122234  55567788889999999999988875  4554 4666677888899999


Q ss_pred             HHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhCCC---CC--C----HhHH--HHHHHHHHhcCCHh
Q 008280          316 DLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPF---KP--Q----PAIF--GTLLSACRVHKRLD  384 (571)
Q Consensus       316 ~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~p--~----~~~~--~~l~~~~~~~g~~~  384 (571)
                      ++|.+.++....  --.-|-..-+-.+..+.|+|++++|.+++.....   .|  |    ...|  .....+|.+.|++.
T Consensus       245 ~~Aa~~~~~Ar~--LD~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~  322 (517)
T PF12569_consen  245 KEAAEAMDEARE--LDLADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYG  322 (517)
T ss_pred             HHHHHHHHHHHh--CChhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHH
Confidence            999988888764  2233444555667777899999999888776621   11  1    1234  33456788889999


Q ss_pred             HHHHHHHHHhc
Q 008280          385 LAEFAAMNLFN  395 (571)
Q Consensus       385 ~a~~~~~~~~~  395 (571)
                      .|+..|..+.+
T Consensus       323 ~ALk~~~~v~k  333 (517)
T PF12569_consen  323 LALKRFHAVLK  333 (517)
T ss_pred             HHHHHHHHHHH
Confidence            88887776644

N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].

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

Probab=98.90  E-value=8.5e-07  Score=77.36  Aligned_cols=188  Identities=12%  Similarity=0.055  Sum_probs=113.2

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHH
Q 008280          165 TWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYC  244 (571)
Q Consensus       165 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~  244 (571)
                      +...|.-+|.+.|++..|..-+++.++.. +.+..++..+...|.+.|..+.|.+.|+.+++.. +.+-.+.|.....+|
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FLC  114 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFLC  114 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHHH
Confidence            44556667777777777777777777653 2234466666666677777777777777766654 445566666777777


Q ss_pred             hcCCHHHHHHHHHhhCC-C----ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHH
Q 008280          245 KCGDLEDACKLFLEIQR-K----DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGI  319 (571)
Q Consensus       245 ~~g~~~~A~~~~~~~~~-~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~  319 (571)
                      ..|++++|...|++... |    -..+|..+.-+..+.|+.+.|.+.|++..+.. +-...+...+.......|++-.|.
T Consensus       115 ~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~d-p~~~~~~l~~a~~~~~~~~y~~Ar  193 (250)
T COG3063         115 AQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELD-PQFPPALLELARLHYKAGDYAPAR  193 (250)
T ss_pred             hCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhC-cCCChHHHHHHHHHHhcccchHHH
Confidence            77777777777766542 3    23456666666666666666666666665543 112334555555556666666666


Q ss_pred             HHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHH
Q 008280          320 QYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDL  357 (571)
Q Consensus       320 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  357 (571)
                      .+++.....  ..++.++.-..|..-.+.|+-+.|-+.
T Consensus       194 ~~~~~~~~~--~~~~A~sL~L~iriak~~gd~~~a~~Y  229 (250)
T COG3063         194 LYLERYQQR--GGAQAESLLLGIRIAKRLGDRAAAQRY  229 (250)
T ss_pred             HHHHHHHhc--ccccHHHHHHHHHHHHHhccHHHHHHH
Confidence            666655542  235555554555555555555544443

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

Probab=98.89  E-value=4.2e-06  Score=83.40  Aligned_cols=296  Identities=11%  Similarity=-0.053  Sum_probs=158.2

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhhCCC---C--CH-HHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHH
Q 008280          133 VAWTAMISGYMKFGKVDLAEKLFDEMPT---K--NL-VTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLL  206 (571)
Q Consensus       133 ~~~~~li~~~~~~g~~~~A~~~~~~~~~---~--~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~  206 (571)
                      ..+..+...|...|+.+.+.+.+....+   +  +. .........+...|++++|.+.+++..... +.|...+.. ..
T Consensus         7 ~a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~-~~   84 (355)
T cd05804           7 LGHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDY-PRDLLALKL-HL   84 (355)
T ss_pred             HHHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHH-hH
Confidence            3444555555555665555444444321   1  11 122223344566777777777777766542 223323321 11


Q ss_pred             HHh----ccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCC---CChhhHHHHHHHHHHcCC
Q 008280          207 GCS----HLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGK  279 (571)
Q Consensus       207 ~~~----~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~  279 (571)
                      .+.    ..+..+.+.+.+... ....+........+...+...|++++|...+++..+   .+...+..+...|...|+
T Consensus        85 ~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~p~~~~~~~~la~i~~~~g~  163 (355)
T cd05804          85 GAFGLGDFSGMRDHVARVLPLW-APENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELNPDDAWAVHAVAHVLEMQGR  163 (355)
T ss_pred             HHHHhcccccCchhHHHHHhcc-CcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCC
Confidence            121    233344444444331 111122223334455677778888888888877653   345566777777888888


Q ss_pred             hHHHHHHHHHHHHcCC-CCCH--HHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhH-H--HHHHHHHHcCCHHH
Q 008280          280 GEKALRLFDKMKDEGM-KPDS--ITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHY-T--CMVDLLGRAGKLVE  353 (571)
Q Consensus       280 ~~~A~~~~~~m~~~g~-~p~~--~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~-~--~li~~~~~~g~~~~  353 (571)
                      +++|...+++...... .|+.  ..+..+...+...|++++|..++++........+..... +  .++.-+...|....
T Consensus       164 ~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~  243 (355)
T cd05804         164 FKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDV  243 (355)
T ss_pred             HHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCCh
Confidence            8888888877765422 1222  234456667778888888888887764321111111111 1  22333333443222


Q ss_pred             HHHH---HHhC----CCCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccC-C--------CCCchhHHHHHHHHhhccC
Q 008280          354 AVDL---IKKM----PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLN-P--------ANAAGCYVQLANIYAAMKK  417 (571)
Q Consensus       354 A~~~---~~~~----~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-p--------~~~~~~~~~l~~~~~~~g~  417 (571)
                      +.+.   ....    +.............++...|+.+.|...++.+.... .        .... .....+.++...|+
T Consensus       244 ~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~~~~~~~~~~~~~~~~-~~~l~A~~~~~~g~  322 (355)
T cd05804         244 GDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALKGRASSADDNKQPARDVG-LPLAEALYAFAEGN  322 (355)
T ss_pred             HHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhccCchhhhHHhhh-HHHHHHHHHHHcCC
Confidence            2222   1111    111111222345566778888999998888775421 1        1233 55677778889999


Q ss_pred             hhHHHHHHHHHHhCC
Q 008280          418 WDDVARIRLSMKENN  432 (571)
Q Consensus       418 ~~~a~~~~~~m~~~~  432 (571)
                      +++|.+.+.......
T Consensus       323 ~~~A~~~L~~al~~a  337 (355)
T cd05804         323 YATALELLGPVRDDL  337 (355)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            999999998876543

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=98.89  E-value=3.4e-06  Score=86.03  Aligned_cols=285  Identities=14%  Similarity=0.116  Sum_probs=193.2

Q ss_pred             HHHHHhcCCHHHHHHHHhhCCC--CCHH-HHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHh----c-
Q 008280          139 ISGYMKFGKVDLAEKLFDEMPT--KNLV-TWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCS----H-  210 (571)
Q Consensus       139 i~~~~~~g~~~~A~~~~~~~~~--~~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~----~-  210 (571)
                      ...+...|++++|++.++.-..  .|.. ........+.+.|+.++|...|+.+++.+  |+...|...+..|.    . 
T Consensus        11 ~~il~e~g~~~~AL~~L~~~~~~I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN--Pdn~~Yy~~L~~~~g~~~~~   88 (517)
T PF12569_consen   11 NSILEEAGDYEEALEHLEKNEKQILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN--PDNYDYYRGLEEALGLQLQL   88 (517)
T ss_pred             HHHHHHCCCHHHHHHHHHhhhhhCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHhhhccc
Confidence            4566789999999999987654  4554 45566788999999999999999999874  67777666665554    1 


Q ss_pred             -cCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCH-HHHHHHHHhhCCCCh-hhHHHHHHHHHHcCChHHHHHHH
Q 008280          211 -LSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDL-EDACKLFLEIQRKDV-VTWNAMISGYAQHGKGEKALRLF  287 (571)
Q Consensus       211 -~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~-~~A~~~~~~~~~~~~-~~~~~li~~~~~~g~~~~A~~~~  287 (571)
                       ..+.+.-..+++.+...-  |.......+.-.+.....+ ..+..++..+..+.+ .+++.+-..|....+..-...++
T Consensus        89 ~~~~~~~~~~~y~~l~~~y--p~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPslF~~lk~Ly~d~~K~~~i~~l~  166 (517)
T PF12569_consen   89 SDEDVEKLLELYDELAEKY--PRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVPSLFSNLKPLYKDPEKAAIIESLV  166 (517)
T ss_pred             ccccHHHHHHHHHHHHHhC--ccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHcChhHHHHHHHHH
Confidence             235677788888776553  2222222222112211122 233444455555555 55666666676555555556666


Q ss_pred             HHHHHc----C----------CCCCHH--HHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCC-hHhHHHHHHHHHHcCC
Q 008280          288 DKMKDE----G----------MKPDSI--TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAK-PDHYTCMVDLLGRAGK  350 (571)
Q Consensus       288 ~~m~~~----g----------~~p~~~--t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~  350 (571)
                      ......    +          -.|...  ++..+...|...|++++|.++.+..++.   .|+ ++.|..-...|-+.|+
T Consensus       167 ~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~h---tPt~~ely~~KarilKh~G~  243 (517)
T PF12569_consen  167 EEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEH---TPTLVELYMTKARILKHAGD  243 (517)
T ss_pred             HHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc---CCCcHHHHHHHHHHHHHCCC
Confidence            665432    1          123332  4456677888999999999999998863   455 8899999999999999


Q ss_pred             HHHHHHHHHhCC-CC-CCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccC--CCCCc----h--hHHHHHHHHhhccChhH
Q 008280          351 LVEAVDLIKKMP-FK-PQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLN--PANAA----G--CYVQLANIYAAMKKWDD  420 (571)
Q Consensus       351 ~~~A~~~~~~~~-~~-p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~--p~~~~----~--~~~~l~~~~~~~g~~~~  420 (571)
                      +.+|.+.++... .. .|-..-+-.+..+.+.|+.++|+..+...-..+  |....    -  .....+.+|.+.|++..
T Consensus       244 ~~~Aa~~~~~Ar~LD~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~  323 (517)
T PF12569_consen  244 LKEAAEAMDEARELDLADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGL  323 (517)
T ss_pred             HHHHHHHHHHHHhCChhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHH
Confidence            999999998872 22 344455556666789999999999988775543  32210    0  12467888999999999


Q ss_pred             HHHHHHHHHh
Q 008280          421 VARIRLSMKE  430 (571)
Q Consensus       421 a~~~~~~m~~  430 (571)
                      |++-|..+.+
T Consensus       324 ALk~~~~v~k  333 (517)
T PF12569_consen  324 ALKRFHAVLK  333 (517)
T ss_pred             HHHHHHHHHH
Confidence            9998876654

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 [], [].

>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=98.89  E-value=7e-08  Score=91.44  Aligned_cols=80  Identities=15%  Similarity=0.173  Sum_probs=52.6

Q ss_pred             CHHHHHHHHHhC--CCCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccCh-hHHHHHHH
Q 008280          350 KLVEAVDLIKKM--PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKW-DDVARIRL  426 (571)
Q Consensus       350 ~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~-~~a~~~~~  426 (571)
                      .+.+|..+|+++  ...+++.+.+.+..++...|++++|+.+++++++.+|+++. +...++-+....|+. +.+.+++.
T Consensus       182 ~~~~A~y~f~El~~~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~~~d-~LaNliv~~~~~gk~~~~~~~~l~  260 (290)
T PF04733_consen  182 KYQDAFYIFEELSDKFGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPNDPD-TLANLIVCSLHLGKPTEAAERYLS  260 (290)
T ss_dssp             CCCHHHHHHHHHHCCS--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CCHHH-HHHHHHHHHHHTT-TCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccCCHH-HHHHHHHHHHHhCCChhHHHHHHH
Confidence            466666666666  22355666777777777777777777777777777777777 777777777777777 44666666


Q ss_pred             HHHh
Q 008280          427 SMKE  430 (571)
Q Consensus       427 ~m~~  430 (571)
                      +++.
T Consensus       261 qL~~  264 (290)
T PF04733_consen  261 QLKQ  264 (290)
T ss_dssp             HCHH
T ss_pred             HHHH
Confidence            6655

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.

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

Probab=98.86  E-value=1.5e-07  Score=89.29  Aligned_cols=246  Identities=13%  Similarity=0.093  Sum_probs=150.5

Q ss_pred             hcCCHHHHHHHHhhCCC--C--CHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHH
Q 008280          144 KFGKVDLAEKLFDEMPT--K--NLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQ  219 (571)
Q Consensus       144 ~~g~~~~A~~~~~~~~~--~--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~  219 (571)
                      -.|++..++.-.+ ...  +  +......+.++|...|+++.++.-   ..... .|.......+...+....+-+.+..
T Consensus        13 y~G~Y~~~i~e~~-~~~~~~~~~~e~~~~~~Rs~iAlg~~~~vl~e---i~~~~-~~~l~av~~la~y~~~~~~~e~~l~   87 (290)
T PF04733_consen   13 YLGNYQQCINEAS-LKSFSPENKLERDFYQYRSYIALGQYDSVLSE---IKKSS-SPELQAVRLLAEYLSSPSDKESALE   87 (290)
T ss_dssp             CTT-HHHHCHHHH-CHTSTCHHHHHHHHHHHHHHHHTT-HHHHHHH---S-TTS-SCCCHHHHHHHHHHCTSTTHHCHHH
T ss_pred             HhhhHHHHHHHhh-ccCCCchhHHHHHHHHHHHHHHcCChhHHHHH---hccCC-ChhHHHHHHHHHHHhCccchHHHHH
Confidence            3566666654333 111  1  223444556667777766654432   22222 4544444444444433333344433


Q ss_pred             HHHHHHhCCCC-CCcchHHHHHHHHHhcCCHHHHHHHHHhhCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCC
Q 008280          220 VHQLVFKSPLC-KDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPD  298 (571)
Q Consensus       220 ~~~~~~~~g~~-~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  298 (571)
                      -+...+..... .+..+......+|...|++++|++++...  .+.......+..|.+.++++.|.+.++.|.+.  ..|
T Consensus        88 ~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~--~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~--~eD  163 (290)
T PF04733_consen   88 ELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG--GSLELLALAVQILLKMNRPDLAEKELKNMQQI--DED  163 (290)
T ss_dssp             HHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT--TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCC--SCC
T ss_pred             HHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc--CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCc
Confidence            33333322222 23333344456677789999998888765  56667777888899999999999999999864  334


Q ss_pred             HHHHHHHHHHHHh----cCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHhHHHH
Q 008280          299 SITFVALLLACNH----AGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGT  372 (571)
Q Consensus       299 ~~t~~~ll~a~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~  372 (571)
                       .+...+..++..    .+.+.+|..+|+++..  ...+++.+.+.+..+....|++++|.+++++. ...| ++.+...
T Consensus       164 -~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~--~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~~~d~LaN  240 (290)
T PF04733_consen  164 -SILTQLAEAWVNLATGGEKYQDAFYIFEELSD--KFGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPNDPDTLAN  240 (290)
T ss_dssp             -HHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHC--CS--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CCHHHHHHH
T ss_pred             -HHHHHHHHHHHHHHhCchhHHHHHHHHHHHHh--ccCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccCCHHHHHH
Confidence             344445554432    3468899999999876  45678888889999999999999999998876 3233 3567777


Q ss_pred             HHHHHHhcCCH-hHHHHHHHHHhccCCCCC
Q 008280          373 LLSACRVHKRL-DLAEFAAMNLFNLNPANA  401 (571)
Q Consensus       373 l~~~~~~~g~~-~~a~~~~~~~~~~~p~~~  401 (571)
                      ++......|+. +.+.+.+.++....|+.+
T Consensus       241 liv~~~~~gk~~~~~~~~l~qL~~~~p~h~  270 (290)
T PF04733_consen  241 LIVCSLHLGKPTEAAERYLSQLKQSNPNHP  270 (290)
T ss_dssp             HHHHHHHTT-TCHHHHHHHHHCHHHTTTSH
T ss_pred             HHHHHHHhCCChhHHHHHHHHHHHhCCCCh
Confidence            77777788887 677888889888999875

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=98.85  E-value=2.1e-05  Score=78.71  Aligned_cols=421  Identities=12%  Similarity=0.068  Sum_probs=233.6

Q ss_pred             CCCCcchHHHHHHHHHhCCCCHHHHHHHHhhCCC--CCh-hhHHHHHHHHHcCCCCHHHHHHHHhhCCCC---ChhhHHH
Q 008280            2 NVKTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQ--PDV-VSYNIMLSCILLNSDDVVAAFDFFQRLPIK---DTASWNT   75 (571)
Q Consensus         2 ~~~~~~~~~~l~~~~~~~~g~~~~A~~~~~~~~~--~~~-~~~~~ll~~~~~~~g~~~~A~~~~~~m~~~---d~~~~~~   75 (571)
                      |+.....+..++..|-.  +++....+..+.+..  |.- .|. +|-.--..+.|+.++|......-...   +.+.|..
T Consensus         4 ~~KE~~lF~~~lk~yE~--kQYkkgLK~~~~iL~k~~eHgesl-AmkGL~L~~lg~~~ea~~~vr~glr~d~~S~vCwHv   80 (700)
T KOG1156|consen    4 SPKENALFRRALKCYET--KQYKKGLKLIKQILKKFPEHGESL-AMKGLTLNCLGKKEEAYELVRLGLRNDLKSHVCWHV   80 (700)
T ss_pred             ChHHHHHHHHHHHHHHH--HHHHhHHHHHHHHHHhCCccchhH-HhccchhhcccchHHHHHHHHHHhccCcccchhHHH
Confidence            33444556666676643  255555555555543  111 111 11111112227778887777665543   4566887


Q ss_pred             HHHHHHcCCCHHHHHHHHhhCCC---CCcchHHHHHHHHHHcCChHHHHHHHhhCC---CCChhHHHHHHHHHHhcCCHH
Q 008280           76 MISGFVQKKNMAKARDLFLAMPE---KNSVSWSAMISGYIECGQLDKAVELFKVAP---VKSVVAWTAMISGYMKFGKVD  149 (571)
Q Consensus        76 li~~~~~~g~~~~A~~~~~~m~~---~d~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~  149 (571)
                      +.-.+-...++++|++.|.....   .|...|.-+.-.-++.|+++.....-.+..   +.....|..+.-++.-.|+..
T Consensus        81 ~gl~~R~dK~Y~eaiKcy~nAl~~~~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~~~~ra~w~~~Avs~~L~g~y~  160 (700)
T KOG1156|consen   81 LGLLQRSDKKYDEAIKCYRNALKIEKDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLRPSQRASWIGFAVAQHLLGEYK  160 (700)
T ss_pred             HHHHHhhhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHH
Confidence            77777777888888888876642   356667766666677777776666544443   334466777777777778888


Q ss_pred             HHHHHHhhCCC-----CCHHHHHHH------HHHHHHcCChhHHHHHHHHHHHCCCCCCHhHH-HHHHHHHhccCchHHH
Q 008280          150 LAEKLFDEMPT-----KNLVTWNAM------IAGYVENSWAEDGLKLLRMMIGLGIRPNASSL-SSVLLGCSHLSSLQLG  217 (571)
Q Consensus       150 ~A~~~~~~~~~-----~~~~~~~~l------i~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~-~~ll~~~~~~~~~~~a  217 (571)
                      .|..+.+...+     ++...+.-.      .......|..++|++.+..-...  ..|...+ .+-...+.+.+++++|
T Consensus       161 ~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~--i~Dkla~~e~ka~l~~kl~~lEeA  238 (700)
T KOG1156|consen  161 MALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQ--IVDKLAFEETKADLLMKLGQLEEA  238 (700)
T ss_pred             HHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH--HHHHHHHhhhHHHHHHHHhhHHhH
Confidence            88777766542     333322222      23455667777777766543322  1233322 2333445677788888


Q ss_pred             HHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHH-HHHHhhCCCChh-hHHHHHHH-HHHcCCh-HHHHHHHHHHHHc
Q 008280          218 KQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDAC-KLFLEIQRKDVV-TWNAMISG-YAQHGKG-EKALRLFDKMKDE  293 (571)
Q Consensus       218 ~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~-~~~~~~~~~~~~-~~~~li~~-~~~~g~~-~~A~~~~~~m~~~  293 (571)
                      ..++..++... +.+...+-.+..++.+-.+.-++. .+|....+.-.. ..-.-+.. ....... +..-.++..+.+.
T Consensus       239 ~~~y~~Ll~rn-Pdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~r~e~p~Rlplsvl~~eel~~~vdkyL~~~l~K  317 (700)
T KOG1156|consen  239 VKVYRRLLERN-PDNLDYYEGLEKALGKIKDMLEALKALYAILSEKYPRHECPRRLPLSVLNGEELKEIVDKYLRPLLSK  317 (700)
T ss_pred             HHHHHHHHhhC-chhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcCcccccchhccHHHhCcchhHHHHHHHHHHHhhc
Confidence            88888777764 333333444445554333333333 555544321000 00000000 1111122 2333445555666


Q ss_pred             CCCCCHHHHHHHHHHHHhcCcHH----HHHHHHHHhHHh--c-------CCCCChHh--HHHHHHHHHHcCCHHHHHHHH
Q 008280          294 GMKPDSITFVALLLACNHAGLVD----LGIQYFDSMVND--Y-------GIAAKPDH--YTCMVDLLGRAGKLVEAVDLI  358 (571)
Q Consensus       294 g~~p~~~t~~~ll~a~~~~g~~~----~a~~~~~~~~~~--~-------~~~~~~~~--~~~li~~~~~~g~~~~A~~~~  358 (571)
                      |++|--.   .+.+.+-.-...+    .+..+...+...  +       .-+|....  +-.++..+-+.|+++.|...+
T Consensus       318 g~p~vf~---dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~laqh~D~~g~~~~A~~yI  394 (700)
T KOG1156|consen  318 GVPSVFK---DLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQHYDKLGDYEVALEYI  394 (700)
T ss_pred             CCCchhh---hhHHHHhchhHhHHHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHHHHHHHHHcccHHHHHHHH
Confidence            6654322   3332222211111    111122221110  0       01455443  446778888999999999999


Q ss_pred             HhC-CCCCCH-hHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhCC
Q 008280          359 KKM-PFKPQP-AIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENN  432 (571)
Q Consensus       359 ~~~-~~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  432 (571)
                      +.. ...|+. ..|..=.+.+...|+.++|...++++.+++-.|.. .-..-+.-..++.+.++|.++.......|
T Consensus       395 d~AIdHTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD~aDR~-INsKcAKYmLrAn~i~eA~~~~skFTr~~  469 (700)
T KOG1156|consen  395 DLAIDHTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELDTADRA-INSKCAKYMLRANEIEEAEEVLSKFTREG  469 (700)
T ss_pred             HHHhccCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhccchhHH-HHHHHHHHHHHccccHHHHHHHHHhhhcc
Confidence            877 445664 45666667788899999999999999998865542 22245566678899999999887776655

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.85  E-value=2e-05  Score=82.26  Aligned_cols=153  Identities=14%  Similarity=0.199  Sum_probs=122.8

Q ss_pred             ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHH
Q 008280          263 DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMV  342 (571)
Q Consensus       263 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li  342 (571)
                      .+..|..+..+-.+.|...+|++-|-+.      -|+..|..++.++++.|.+++-.+++....++ .-+|.++  +.|+
T Consensus      1103 ~p~vWsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk-~~E~~id--~eLi 1173 (1666)
T KOG0985|consen 1103 EPAVWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKK-VREPYID--SELI 1173 (1666)
T ss_pred             ChHHHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHh-hcCccch--HHHH
Confidence            3557999999999999999999877543      36778999999999999999999999877665 5566555  4789


Q ss_pred             HHHHHcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHH
Q 008280          343 DLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVA  422 (571)
Q Consensus       343 ~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~  422 (571)
                      -+|++.+++.+-++++.    -||..-...+..-|...|.++.|.-+|...        . .|..|+..+...|.++.|.
T Consensus      1174 ~AyAkt~rl~elE~fi~----gpN~A~i~~vGdrcf~~~~y~aAkl~y~~v--------S-N~a~La~TLV~LgeyQ~AV 1240 (1666)
T KOG0985|consen 1174 FAYAKTNRLTELEEFIA----GPNVANIQQVGDRCFEEKMYEAAKLLYSNV--------S-NFAKLASTLVYLGEYQGAV 1240 (1666)
T ss_pred             HHHHHhchHHHHHHHhc----CCCchhHHHHhHHHhhhhhhHHHHHHHHHh--------h-hHHHHHHHHHHHHHHHHHH
Confidence            99999999999887765    378888888999999999999998888654        4 7888999999999998887


Q ss_pred             HHHHHHHhCCCccCC
Q 008280          423 RIRLSMKENNVVKMP  437 (571)
Q Consensus       423 ~~~~~m~~~~~~~~~  437 (571)
                      ..-++.......++.
T Consensus      1241 D~aRKAns~ktWK~V 1255 (1666)
T KOG0985|consen 1241 DAARKANSTKTWKEV 1255 (1666)
T ss_pred             HHhhhccchhHHHHH
Confidence            766555443333333

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.84  E-value=6e-06  Score=84.25  Aligned_cols=355  Identities=15%  Similarity=0.150  Sum_probs=224.6

Q ss_pred             CCCChhhHHHHHH--HHHcCCCCHHHHHHHHhhCCCCChhhHHHHHHHHHcCCCHHHHHHHHhhCCC-----------CC
Q 008280           34 PQPDVVSYNIMLS--CILLNSDDVVAAFDFFQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPE-----------KN  100 (571)
Q Consensus        34 ~~~~~~~~~~ll~--~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----------~d  100 (571)
                      ..=|..|-.+++.  .|+.. |+.+.|.+-.+-+.  +..+|..|.+++.+.++++-|.-.+..|..           .|
T Consensus       722 e~Cd~~TRkaml~FSfyvti-G~MD~AfksI~~Ik--S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~  798 (1416)
T KOG3617|consen  722 ENCDESTRKAMLDFSFYVTI-GSMDAAFKSIQFIK--SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQN  798 (1416)
T ss_pred             cccCHHHHHhhhceeEEEEe-ccHHHHHHHHHHHh--hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhC
Confidence            3456667777765  35566 99998887766654  456899999999999999988888877742           12


Q ss_pred             c-chHHHHHHHHHHcCChHHHHHHHhhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCCCC-HHHHHHHHHHHHHcCC
Q 008280          101 S-VSWSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGKVDLAEKLFDEMPTKN-LVTWNAMIAGYVENSW  178 (571)
Q Consensus       101 ~-~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~li~~~~~~g~  178 (571)
                      . .+=........+.|.+++|+.+|++-..     |..|=..|-..|.+++|.++-+.-..-. -.||.....-+-..++
T Consensus       799 ~~e~eakvAvLAieLgMlEeA~~lYr~ckR-----~DLlNKlyQs~g~w~eA~eiAE~~DRiHLr~Tyy~yA~~Lear~D  873 (1416)
T KOG3617|consen  799 GEEDEAKVAVLAIELGMLEEALILYRQCKR-----YDLLNKLYQSQGMWSEAFEIAETKDRIHLRNTYYNYAKYLEARRD  873 (1416)
T ss_pred             CcchhhHHHHHHHHHhhHHHHHHHHHHHHH-----HHHHHHHHHhcccHHHHHHHHhhccceehhhhHHHHHHHHHhhcc
Confidence            2 2223333445678999999999987653     3345567778899999988765432211 1256666666666778


Q ss_pred             hhHHHHHHHHH----------HHCC---------CCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHH
Q 008280          179 AEDGLKLLRMM----------IGLG---------IRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPL  239 (571)
Q Consensus       179 ~~~A~~~~~~m----------~~~g---------~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l  239 (571)
                      .+.|++.|++.          +...         -..|...|.....-.-..|+.+.|..+|..+..         |-++
T Consensus       874 i~~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D---------~fs~  944 (1416)
T KOG3617|consen  874 IEAALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD---------YFSM  944 (1416)
T ss_pred             HHHHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh---------hhhh
Confidence            88888777643          1111         022344444455555667778888777776553         4456


Q ss_pred             HHHHHhcCCHHHHHHHHHhhCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC------
Q 008280          240 ISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAG------  313 (571)
Q Consensus       240 i~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g------  313 (571)
                      +...+-.|+.++|-++-++  ..|..+...+...|-..|++.+|...|.+.+.         |...|+.|-..+      
T Consensus       945 VrI~C~qGk~~kAa~iA~e--sgd~AAcYhlaR~YEn~g~v~~Av~FfTrAqa---------fsnAIRlcKEnd~~d~L~ 1013 (1416)
T KOG3617|consen  945 VRIKCIQGKTDKAARIAEE--SGDKAACYHLARMYENDGDVVKAVKFFTRAQA---------FSNAIRLCKENDMKDRLA 1013 (1416)
T ss_pred             eeeEeeccCchHHHHHHHh--cccHHHHHHHHHHhhhhHHHHHHHHHHHHHHH---------HHHHHHHHHhcCHHHHHH
Confidence            6666777888888777665  34666677788889999999999999987642         334444443333      


Q ss_pred             ---------cHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-------------CCCCCHhHHH
Q 008280          314 ---------LVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-------------PFKPQPAIFG  371 (571)
Q Consensus       314 ---------~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-------------~~~p~~~~~~  371 (571)
                               +.-.|.++|++.    |.     -...-+..|-++|.+.+|+++--+-             ....|+...+
T Consensus      1014 nlal~s~~~d~v~aArYyEe~----g~-----~~~~AVmLYHkAGm~~kALelAF~tqQf~aL~lIa~DLd~~sDp~ll~ 1084 (1416)
T KOG3617|consen 1014 NLALMSGGSDLVSAARYYEEL----GG-----YAHKAVMLYHKAGMIGKALELAFRTQQFSALDLIAKDLDAGSDPKLLR 1084 (1416)
T ss_pred             HHHhhcCchhHHHHHHHHHHc----ch-----hhhHHHHHHHhhcchHHHHHHHHhhcccHHHHHHHHhcCCCCCHHHHH
Confidence                     233344444433    11     1223456788899988888763221             1223455555


Q ss_pred             HHHHHHHhcCCHhHHHHHHHHHhc----------------------cCCCC------C--chhHHHHHHHHhhccChhHH
Q 008280          372 TLLSACRVHKRLDLAEFAAMNLFN----------------------LNPAN------A--AGCYVQLANIYAAMKKWDDV  421 (571)
Q Consensus       372 ~l~~~~~~~g~~~~a~~~~~~~~~----------------------~~p~~------~--~~~~~~l~~~~~~~g~~~~a  421 (571)
                      .-..-+..+.++++|..++-.+.+                      +.|..      .  ...+..++..|.++|.+..|
T Consensus      1085 RcadFF~~~~qyekAV~lL~~ar~~~~AlqlC~~~nv~vtee~aE~mTp~Kd~~~~e~~R~~vLeqvae~c~qQG~Yh~A 1164 (1416)
T KOG3617|consen 1085 RCADFFENNQQYEKAVNLLCLAREFSGALQLCKNRNVRVTEEFAELMTPTKDDMPNEQERKQVLEQVAELCLQQGAYHAA 1164 (1416)
T ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhcCCCchhHHHHHhcCcCcCCCccHHHHHHHHHHHHHHHHhccchHHH
Confidence            555566677777777665533211                      11211      1  12566889999999998887


Q ss_pred             HHHH
Q 008280          422 ARIR  425 (571)
Q Consensus       422 ~~~~  425 (571)
                      .+-|
T Consensus      1165 tKKf 1168 (1416)
T KOG3617|consen 1165 TKKF 1168 (1416)
T ss_pred             HHHH
Confidence            7655

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.83  E-value=4.7e-06  Score=83.88  Aligned_cols=375  Identities=17%  Similarity=0.151  Sum_probs=186.5

Q ss_pred             HHHHHHHhCCCCHHHHHHHHhhCCCCChhhHHHHHHHHHcCCCCHHHHHHHHhh--CCCCChhhHHHHHHHHHcCCCHHH
Q 008280           11 SVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQR--LPIKDTASWNTMISGFVQKKNMAK   88 (571)
Q Consensus        11 ~l~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~ll~~~~~~~g~~~~A~~~~~~--m~~~d~~~~~~li~~~~~~g~~~~   88 (571)
                      +.++++...| +-+.|.++-    ..+.... +.|+.|.+. |.+..|.+.-..  ....|......+..++.+..-+++
T Consensus       594 sy~q~l~dt~-qd~ka~elk----~sdgd~l-aaiqlyika-~~p~~a~~~a~n~~~l~~de~il~~ia~alik~elydk  666 (1636)
T KOG3616|consen  594 SYLQALMDTG-QDEKAAELK----ESDGDGL-AAIQLYIKA-GKPAKAARAALNDEELLADEEILEHIAAALIKGELYDK  666 (1636)
T ss_pred             HHHHHHHhcC-chhhhhhhc----cccCccH-HHHHHHHHc-CCchHHHHhhcCHHHhhccHHHHHHHHHHHHhhHHHHh
Confidence            3445555555 555555432    2233322 346677777 777777655422  233455555556666666666777


Q ss_pred             HHHHHhhCCCCCcchHHHHHHHHHHcCChHHHHHHHhhCCCCChhH-HHHHHHHHHhcCCHHHHHHHHhhCCCCCHHHHH
Q 008280           89 ARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAPVKSVVA-WTAMISGYMKFGKVDLAEKLFDEMPTKNLVTWN  167 (571)
Q Consensus        89 A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~-~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~  167 (571)
                      |-.+|+++..+|     ..+..|-+-.-+.+|+++-+-..+..++. -.....-+...|+++.|...|-+...     .-
T Consensus       667 agdlfeki~d~d-----kale~fkkgdaf~kaielarfafp~evv~lee~wg~hl~~~~q~daainhfiea~~-----~~  736 (1636)
T KOG3616|consen  667 AGDLFEKIHDFD-----KALECFKKGDAFGKAIELARFAFPEEVVKLEEAWGDHLEQIGQLDAAINHFIEANC-----LI  736 (1636)
T ss_pred             hhhHHHHhhCHH-----HHHHHHHcccHHHHHHHHHHhhCcHHHhhHHHHHhHHHHHHHhHHHHHHHHHHhhh-----HH
Confidence            777777765543     22333333333555665555444333222 12223333444555555544433210     11


Q ss_pred             HHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcC
Q 008280          168 AMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCG  247 (571)
Q Consensus       168 ~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g  247 (571)
                      --|.+......|.+|+.+++.++....  -.--|..+...|+..|+++.|+++|-..         ..++-.|+||.+.|
T Consensus       737 kaieaai~akew~kai~ildniqdqk~--~s~yy~~iadhyan~~dfe~ae~lf~e~---------~~~~dai~my~k~~  805 (1636)
T KOG3616|consen  737 KAIEAAIGAKEWKKAISILDNIQDQKT--ASGYYGEIADHYANKGDFEIAEELFTEA---------DLFKDAIDMYGKAG  805 (1636)
T ss_pred             HHHHHHhhhhhhhhhHhHHHHhhhhcc--ccccchHHHHHhccchhHHHHHHHHHhc---------chhHHHHHHHhccc
Confidence            122334444555555555555444321  1223444445555555555555554322         12333455555555


Q ss_pred             CHHHHHHHHHhhCCCC--hhhHHHHH--------------------------HHHHHcCChHHHHHHHHHHHHcCCCCC-
Q 008280          248 DLEDACKLFLEIQRKD--VVTWNAMI--------------------------SGYAQHGKGEKALRLFDKMKDEGMKPD-  298 (571)
Q Consensus       248 ~~~~A~~~~~~~~~~~--~~~~~~li--------------------------~~~~~~g~~~~A~~~~~~m~~~g~~p~-  298 (571)
                      ++++|.++-++...|.  ++.|-+-.                          ..|-++|..++.+++.++-     .|+ 
T Consensus       806 kw~da~kla~e~~~~e~t~~~yiakaedldehgkf~eaeqlyiti~~p~~aiqmydk~~~~ddmirlv~k~-----h~d~  880 (1636)
T KOG3616|consen  806 KWEDAFKLAEECHGPEATISLYIAKAEDLDEHGKFAEAEQLYITIGEPDKAIQMYDKHGLDDDMIRLVEKH-----HGDH  880 (1636)
T ss_pred             cHHHHHHHHHHhcCchhHHHHHHHhHHhHHhhcchhhhhheeEEccCchHHHHHHHhhCcchHHHHHHHHh-----Chhh
Confidence            5555555555444332  22333333                          3344444444444333322     122 


Q ss_pred             -HHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhCCCCCC-----HhHHHH
Q 008280          299 -SITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQ-----PAIFGT  372 (571)
Q Consensus       299 -~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~-----~~~~~~  372 (571)
                       ..|-..+..-+...|++..|...|-+..          -|.+-+++|...+.+++|.++-+.-+- .|     ...|..
T Consensus       881 l~dt~~~f~~e~e~~g~lkaae~~flea~----------d~kaavnmyk~s~lw~dayriaktegg-~n~~k~v~flwak  949 (1636)
T KOG3616|consen  881 LHDTHKHFAKELEAEGDLKAAEEHFLEAG----------DFKAAVNMYKASELWEDAYRIAKTEGG-ANAEKHVAFLWAK  949 (1636)
T ss_pred             hhHHHHHHHHHHHhccChhHHHHHHHhhh----------hHHHHHHHhhhhhhHHHHHHHHhcccc-ccHHHHHHHHHHH
Confidence             2244445555566666666666554332          245667778888888888877765421 11     233432


Q ss_pred             HH------HHHHhcCCHhHHHHH-------------HHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhCC
Q 008280          373 LL------SACRVHKRLDLAEFA-------------AMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENN  432 (571)
Q Consensus       373 l~------~~~~~~g~~~~a~~~-------------~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  432 (571)
                      -+      ..+.++|-.+.|+..             .+-..+  ...+. ++..++.-+...|++++|.+-+-+..+.+
T Consensus       950 siggdaavkllnk~gll~~~id~a~d~~afd~afdlari~~k--~k~~~-vhlk~a~~ledegk~edaskhyveaikln 1025 (1636)
T KOG3616|consen  950 SIGGDAAVKLLNKHGLLEAAIDFAADNCAFDFAFDLARIAAK--DKMGE-VHLKLAMFLEDEGKFEDASKHYVEAIKLN 1025 (1636)
T ss_pred             hhCcHHHHHHHHhhhhHHHHhhhhhcccchhhHHHHHHHhhh--ccCcc-chhHHhhhhhhccchhhhhHhhHHHhhcc
Confidence            22      223455555555443             222211  22233 77888888899999999988776666544

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.81  E-value=6.1e-06  Score=74.58  Aligned_cols=402  Identities=14%  Similarity=0.113  Sum_probs=203.8

Q ss_pred             HHHHHHHHhCCCCHHHHHHHHhhCCCC---ChhhHHHHHHHHHcCCCCHHHHHHHHhhCCC--CChhhHHH-HHHHHHcC
Q 008280           10 NSVLAGFAKQRGKLKDAQELFDKIPQP---DVVSYNIMLSCILLNSDDVVAAFDFFQRLPI--KDTASWNT-MISGFVQK   83 (571)
Q Consensus        10 ~~l~~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~ll~~~~~~~g~~~~A~~~~~~m~~--~d~~~~~~-li~~~~~~   83 (571)
                      ++.+..+.+.. ++.+|++++..-.+.   +....+.|..+|... .++..|...|+++..  |...-|.. -...+-+.
T Consensus        14 taviy~lI~d~-ry~DaI~~l~s~~Er~p~~rAgLSlLgyCYY~~-Q~f~~AA~CYeQL~ql~P~~~qYrlY~AQSLY~A   91 (459)
T KOG4340|consen   14 TAVVYRLIRDA-RYADAIQLLGSELERSPRSRAGLSLLGYCYYRL-QEFALAAECYEQLGQLHPELEQYRLYQAQSLYKA   91 (459)
T ss_pred             HHHHHHHHHHh-hHHHHHHHHHHHHhcCccchHHHHHHHHHHHHH-HHHHHHHHHHHHHHhhChHHHHHHHHHHHHHHHh
Confidence            44555555565 677777777655542   333445555566666 677777777766543  22222211 12334455


Q ss_pred             CCHHHHHHHHhhCCCC-CcchHHHHHH--HHHHcCChHHHHHHHhhCC-CCChhHHHHHHHHHHhcCCHHHHHHHHhhCC
Q 008280           84 KNMAKARDLFLAMPEK-NSVSWSAMIS--GYIECGQLDKAVELFKVAP-VKSVVAWTAMISGYMKFGKVDLAEKLFDEMP  159 (571)
Q Consensus        84 g~~~~A~~~~~~m~~~-d~~~~~~li~--~~~~~g~~~~A~~~~~~~~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~  159 (571)
                      +.+.+|+++...|.+. +...-..-+.  ..-..+++..+..+.++.. +.+..+.+...-...+.|+.+.|.+-|+...
T Consensus        92 ~i~ADALrV~~~~~D~~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en~Ad~~in~gCllykegqyEaAvqkFqaAl  171 (459)
T KOG4340|consen   92 CIYADALRVAFLLLDNPALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSENEADGQINLGCLLYKEGQYEAAVQKFQAAL  171 (459)
T ss_pred             cccHHHHHHHHHhcCCHHHHHHHHHHHHHHhcccccCcchHHHHHhccCCCccchhccchheeeccccHHHHHHHHHHHH
Confidence            6666777776666542 2111111111  1223456666666666665 3444555555555556666666666666554


Q ss_pred             C----CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcch
Q 008280          160 T----KNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTA  235 (571)
Q Consensus       160 ~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~  235 (571)
                      +    .....||.-+ +..+.|+++.|+++..+....|++-.+..-.-+..--.....+..-..++...+       +..
T Consensus       172 qvsGyqpllAYniAL-aHy~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal-------~eA  243 (459)
T KOG4340|consen  172 QVSGYQPLLAYNLAL-AHYSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSAL-------VEA  243 (459)
T ss_pred             hhcCCCchhHHHHHH-HHHhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHHHH-------HHH
Confidence            3    2334454333 333456666666666666666653221100000000000000000001111000       112


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhhCCC-----ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 008280          236 LTPLISMYCKCGDLEDACKLFLEIQRK-----DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACN  310 (571)
Q Consensus       236 ~~~li~~y~~~g~~~~A~~~~~~~~~~-----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~  310 (571)
                      +|.-...+.+.|+.+.|.+.+-.|+.+     |++|...+.-.- ..+++.+..+-+.-+...+. ....||..++-.|+
T Consensus       244 fNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n-~~~~p~~g~~KLqFLL~~nP-fP~ETFANlLllyC  321 (459)
T KOG4340|consen  244 FNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMN-MDARPTEGFEKLQFLLQQNP-FPPETFANLLLLYC  321 (459)
T ss_pred             hhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhc-ccCCccccHHHHHHHHhcCC-CChHHHHHHHHHHh
Confidence            333344567889999999999999854     677766654322 23455555555555555543 34678999999999


Q ss_pred             hcCcHHHHHHHHHHhHHhcCC-CCChHhHHHHHHHHHH-cCCHHHHHHHHHhCCCCCC--HhHHHHHHHHHHhcCCHh--
Q 008280          311 HAGLVDLGIQYFDSMVNDYGI-AAKPDHYTCMVDLLGR-AGKLVEAVDLIKKMPFKPQ--PAIFGTLLSACRVHKRLD--  384 (571)
Q Consensus       311 ~~g~~~~a~~~~~~~~~~~~~-~~~~~~~~~li~~~~~-~g~~~~A~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~--  384 (571)
                      +..-++.|..++.+-... .. -.+...|+ |++++.- .-..++|++-++.+...-.  .....+-+.- .++.+-+  
T Consensus       322 KNeyf~lAADvLAEn~~l-Tyk~L~~Yly~-LLdaLIt~qT~pEea~KKL~~La~~l~~kLRklAi~vQe-~r~~~dd~a  398 (459)
T KOG4340|consen  322 KNEYFDLAADVLAENAHL-TYKFLTPYLYD-LLDALITCQTAPEEAFKKLDGLAGMLTEKLRKLAIQVQE-ARHNRDDEA  398 (459)
T ss_pred             hhHHHhHHHHHHhhCcch-hHHHhhHHHHH-HHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHhcccHHH
Confidence            999999988887643211 00 11233333 3444443 3456666665554410000  0000011111 1222222  


Q ss_pred             --HHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHh
Q 008280          385 --LAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  430 (571)
Q Consensus       385 --~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  430 (571)
                        .++.-+++.+++--  |  +...-+..|.+..++..+.++|+.-.+
T Consensus       399 ~R~ai~~Yd~~LE~YL--P--VlMa~AkiyW~~~Dy~~vEk~Fr~Sve  442 (459)
T KOG4340|consen  399 IRKAVNEYDETLEKYL--P--VLMAQAKIYWNLEDYPMVEKIFRKSVE  442 (459)
T ss_pred             HHHHHHHHHHHHHHHH--H--HHHHHHHhhccccccHHHHHHHHHHHh
Confidence              22333344444321  1  566777888899999999999986654

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=98.80  E-value=1.8e-05  Score=79.06  Aligned_cols=385  Identities=12%  Similarity=0.090  Sum_probs=240.4

Q ss_pred             hhHHHHHHHHHcCCCCHHHHHHHHhhCCCCChhhHHHHH---HHHHcCCCHHHHHHHHhhCCCC---CcchHHHHHHHHH
Q 008280           39 VSYNIMLSCILLNSDDVVAAFDFFQRLPIKDTASWNTMI---SGFVQKKNMAKARDLFLAMPEK---NSVSWSAMISGYI  112 (571)
Q Consensus        39 ~~~~~ll~~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li---~~~~~~g~~~~A~~~~~~m~~~---d~~~~~~li~~~~  112 (571)
                      ..+..++..|-.  +++...+++.+.+....+....+|.   -.+...|+-++|..........   +.+.|..+.-.+-
T Consensus         9 ~lF~~~lk~yE~--kQYkkgLK~~~~iL~k~~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d~~S~vCwHv~gl~~R   86 (700)
T KOG1156|consen    9 ALFRRALKCYET--KQYKKGLKLIKQILKKFPEHGESLAMKGLTLNCLGKKEEAYELVRLGLRNDLKSHVCWHVLGLLQR   86 (700)
T ss_pred             HHHHHHHHHHHH--HHHHhHHHHHHHHHHhCCccchhHHhccchhhcccchHHHHHHHHHHhccCcccchhHHHHHHHHh
Confidence            345555665543  4666666666655544333322221   2234568899999888877653   5677998888888


Q ss_pred             HcCChHHHHHHHhhCC---CCChhHHHHHHHHHHhcCCHHHHHHHHhhCCC---CCHHHHHHHHHHHHHcCChhHHHHHH
Q 008280          113 ECGQLDKAVELFKVAP---VKSVVAWTAMISGYMKFGKVDLAEKLFDEMPT---KNLVTWNAMIAGYVENSWAEDGLKLL  186 (571)
Q Consensus       113 ~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~  186 (571)
                      ...++++|++.|+...   +.|...+.-|.-.-++.|+++.....-....+   .....|...+.++.-.|++..|..++
T Consensus        87 ~dK~Y~eaiKcy~nAl~~~~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~~~~ra~w~~~Avs~~L~g~y~~A~~il  166 (700)
T KOG1156|consen   87 SDKKYDEAIKCYRNALKIEKDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLRPSQRASWIGFAVAQHLLGEYKMALEIL  166 (700)
T ss_pred             hhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            8899999999998765   45567777776677778888777766665554   34568999999999999999999999


Q ss_pred             HHHHHCC-CCCCHhHHHHHHH------HHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhh
Q 008280          187 RMMIGLG-IRPNASSLSSVLL------GCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEI  259 (571)
Q Consensus       187 ~~m~~~g-~~pd~~t~~~ll~------~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~  259 (571)
                      ++..+.. -.|+...+.....      .....|.++.|.+.+...... +......-..-.+.+.+.+++++|..++..+
T Consensus       167 ~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~-i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~L  245 (700)
T KOG1156|consen  167 EEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQ-IVDKLAFEETKADLLMKLGQLEEAVKVYRRL  245 (700)
T ss_pred             HHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH-HHHHHHHhhhHHHHHHHHhhHHhHHHHHHHH
Confidence            9888754 2456555543332      234567777776665543322 1122233345577889999999999999988


Q ss_pred             CCC--ChhhHHH-HHHHHHHcCChHHHH-HHHHHHHHcCCCCCHHHHH-HHHHHHHhcCcHHHHHHHHHHhHHhcCCCCC
Q 008280          260 QRK--DVVTWNA-MISGYAQHGKGEKAL-RLFDKMKDEGMKPDSITFV-ALLLACNHAGLVDLGIQYFDSMVNDYGIAAK  334 (571)
Q Consensus       260 ~~~--~~~~~~~-li~~~~~~g~~~~A~-~~~~~m~~~g~~p~~~t~~-~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~  334 (571)
                      ..+  |...|.. +..++.+-.+.-+++ .+|....+.  .|-...-. .=++........+..-.++..+.++ |+++-
T Consensus       246 l~rnPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~--y~r~e~p~Rlplsvl~~eel~~~vdkyL~~~l~K-g~p~v  322 (700)
T KOG1156|consen  246 LERNPDNLDYYEGLEKALGKIKDMLEALKALYAILSEK--YPRHECPRRLPLSVLNGEELKEIVDKYLRPLLSK-GVPSV  322 (700)
T ss_pred             HhhCchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhc--CcccccchhccHHHhCcchhHHHHHHHHHHHhhc-CCCch
Confidence            764  4444444 344443333334444 666665443  12111111 1111112222223333444555443 55543


Q ss_pred             hHhHHHHHHHHHHcCCHHH----HHHHHHhC-C------------CCCCHhHHHH--HHHHHHhcCCHhHHHHHHHHHhc
Q 008280          335 PDHYTCMVDLLGRAGKLVE----AVDLIKKM-P------------FKPQPAIFGT--LLSACRVHKRLDLAEFAAMNLFN  395 (571)
Q Consensus       335 ~~~~~~li~~~~~~g~~~~----A~~~~~~~-~------------~~p~~~~~~~--l~~~~~~~g~~~~a~~~~~~~~~  395 (571)
                      .   ..+...|-.-...+-    +..+...+ +            .+|....|..  ++..+-..|+++.|+...+.++.
T Consensus       323 f---~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~laqh~D~~g~~~~A~~yId~AId  399 (700)
T KOG1156|consen  323 F---KDLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAID  399 (700)
T ss_pred             h---hhhHHHHhchhHhHHHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHHHHHHHHHcccHHHHHHHHHHHhc
Confidence            2   223333322111111    11122222 0            2466666654  56668899999999999999999


Q ss_pred             cCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhCCC
Q 008280          396 LNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNV  433 (571)
Q Consensus       396 ~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  433 (571)
                      --|.-+. .|..=+.++.+.|.+++|..++++..+...
T Consensus       400 HTPTliE-ly~~KaRI~kH~G~l~eAa~~l~ea~elD~  436 (700)
T KOG1156|consen  400 HTPTLIE-LYLVKARIFKHAGLLDEAAAWLDEAQELDT  436 (700)
T ss_pred             cCchHHH-HHHHHHHHHHhcCChHHHHHHHHHHHhccc
Confidence            9998887 888889999999999999999998876543

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.80  E-value=1.2e-05  Score=90.66  Aligned_cols=354  Identities=11%  Similarity=0.009  Sum_probs=222.9

Q ss_pred             HHHHcCCCHHHHHHHHhhCCCCCcch--HHHHHHHHHHcCChHHHHHHHhhCC----CCChhHHHHHHHHHHhcCCHHHH
Q 008280           78 SGFVQKKNMAKARDLFLAMPEKNSVS--WSAMISGYIECGQLDKAVELFKVAP----VKSVVAWTAMISGYMKFGKVDLA  151 (571)
Q Consensus        78 ~~~~~~g~~~~A~~~~~~m~~~d~~~--~~~li~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~A  151 (571)
                      ..+...|++.+|..........+...  ...........|+++.+...++.+.    ..++.........+...|++++|
T Consensus       349 ~~~~~~g~~~~Al~~a~~a~d~~~~~~ll~~~a~~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~a  428 (903)
T PRK04841        349 EAWLAQGFPSEAIHHALAAGDAQLLRDILLQHGWSLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSEV  428 (903)
T ss_pred             HHHHHCCCHHHHHHHHHHCCCHHHHHHHHHHhHHHHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHHH
Confidence            34555666666666655554332111  1122234455688888877777663    22333344455566778999998


Q ss_pred             HHHHhhCCC----C----C--H--HHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCH----hHHHHHHHHHhccCchH
Q 008280          152 EKLFDEMPT----K----N--L--VTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNA----SSLSSVLLGCSHLSSLQ  215 (571)
Q Consensus       152 ~~~~~~~~~----~----~--~--~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~----~t~~~ll~~~~~~~~~~  215 (571)
                      ...+.....    .    +  .  .....+...+...|++++|...+++....--..+.    ...+.+...+...|+++
T Consensus       429 ~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~  508 (903)
T PRK04841        429 NTLLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELA  508 (903)
T ss_pred             HHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHH
Confidence            888875421    1    1  1  12222344566899999999999988763111222    23344455567789999


Q ss_pred             HHHHHHHHHHhCCC---CC--CcchHHHHHHHHHhcCCHHHHHHHHHhhCC-------CC----hhhHHHHHHHHHHcCC
Q 008280          216 LGKQVHQLVFKSPL---CK--DTTALTPLISMYCKCGDLEDACKLFLEIQR-------KD----VVTWNAMISGYAQHGK  279 (571)
Q Consensus       216 ~a~~~~~~~~~~g~---~~--~~~~~~~li~~y~~~g~~~~A~~~~~~~~~-------~~----~~~~~~li~~~~~~g~  279 (571)
                      .|...+.......-   .+  .......+...+...|++++|...+++...       ++    ...+..+...+...|+
T Consensus       509 ~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~  588 (903)
T PRK04841        509 RALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWAR  588 (903)
T ss_pred             HHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcC
Confidence            99999888765311   11  123455667788899999999998876542       11    1234455666777899


Q ss_pred             hHHHHHHHHHHHHc--CCCCC--HHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhH-----HHHHHHHHHcCC
Q 008280          280 GEKALRLFDKMKDE--GMKPD--SITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHY-----TCMVDLLGRAGK  350 (571)
Q Consensus       280 ~~~A~~~~~~m~~~--g~~p~--~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~-----~~li~~~~~~g~  350 (571)
                      +++|...+++....  ...+.  ...+..+.......|+.++|.+.+.....-.........+     ...+..+...|+
T Consensus       589 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~  668 (903)
T PRK04841        589 LDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGD  668 (903)
T ss_pred             HHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCC
Confidence            99999999887542  11122  2344445667788999999999988875421111111111     112244566899


Q ss_pred             HHHHHHHHHhCCCC--CCH----hHHHHHHHHHHhcCCHhHHHHHHHHHhccC------CCCCchhHHHHHHHHhhccCh
Q 008280          351 LVEAVDLIKKMPFK--PQP----AIFGTLLSACRVHKRLDLAEFAAMNLFNLN------PANAAGCYVQLANIYAAMKKW  418 (571)
Q Consensus       351 ~~~A~~~~~~~~~~--p~~----~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~------p~~~~~~~~~l~~~~~~~g~~  418 (571)
                      .+.|.+.+......  ...    ..+..+..++...|++++|...+++++...      +.... ++..++.+|.+.|+.
T Consensus       669 ~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~-~~~~la~a~~~~G~~  747 (903)
T PRK04841        669 KEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDLNR-NLILLNQLYWQQGRK  747 (903)
T ss_pred             HHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHH-HHHHHHHHHHHcCCH
Confidence            99999998776211  111    124556677889999999999999987642      12223 677888999999999


Q ss_pred             hHHHHHHHHHHhCC
Q 008280          419 DDVARIRLSMKENN  432 (571)
Q Consensus       419 ~~a~~~~~~m~~~~  432 (571)
                      ++|...+.+..+..
T Consensus       748 ~~A~~~L~~Al~la  761 (903)
T PRK04841        748 SEAQRVLLEALKLA  761 (903)
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999998887643

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.78  E-value=3e-05  Score=76.72  Aligned_cols=338  Identities=11%  Similarity=0.060  Sum_probs=194.0

Q ss_pred             HHHHHcCCCHHHHHHHHhhCCC---CCcchHHHHHHHHHHcCChHHHHHHHhhCCCCChhHH--HHHHHHHHhcCCHHHH
Q 008280           77 ISGFVQKKNMAKARDLFLAMPE---KNSVSWSAMISGYIECGQLDKAVELFKVAPVKSVVAW--TAMISGYMKFGKVDLA  151 (571)
Q Consensus        77 i~~~~~~g~~~~A~~~~~~m~~---~d~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~--~~li~~~~~~g~~~~A  151 (571)
                      ++.+.+.|++++|.....++..   .|...+..-+-+..+.+++++|+.+.+.-........  ..-..+..+.+..|+|
T Consensus        19 ln~~~~~~e~e~a~k~~~Kil~~~pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~~~~~~~~fEKAYc~Yrlnk~Dea   98 (652)
T KOG2376|consen   19 LNRHGKNGEYEEAVKTANKILSIVPDDEDAIRCKVVALIQLDKYEDALKLIKKNGALLVINSFFFEKAYCEYRLNKLDEA   98 (652)
T ss_pred             HHHhccchHHHHHHHHHHHHHhcCCCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchhhhcchhhHHHHHHHHHcccHHHH
Confidence            4567778888888888877753   3556677777788888888888877655432222111  1223334468888999


Q ss_pred             HHHHhhCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCC-CHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCC
Q 008280          152 EKLFDEMPTKNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRP-NASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLC  230 (571)
Q Consensus       152 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-d~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~  230 (571)
                      ...++.....|..+...-...+.+.|++++|+++|+.+.+.+.+- |...-..++.+-..    -.+.    .+......
T Consensus        99 lk~~~~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~----l~~~----~~q~v~~v  170 (652)
T KOG2376|consen   99 LKTLKGLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAA----LQVQ----LLQSVPEV  170 (652)
T ss_pred             HHHHhcccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHh----hhHH----HHHhccCC
Confidence            888886555555566666777888899999999999887765322 11111222211111    1111    11111112


Q ss_pred             C--CcchHHHHHHHHHhcCCHHHHHHHHHhhC--------CCCh----------hhHHHHHHHHHHcCChHHHHHHHHHH
Q 008280          231 K--DTTALTPLISMYCKCGDLEDACKLFLEIQ--------RKDV----------VTWNAMISGYAQHGKGEKALRLFDKM  290 (571)
Q Consensus       231 ~--~~~~~~~li~~y~~~g~~~~A~~~~~~~~--------~~~~----------~~~~~li~~~~~~g~~~~A~~~~~~m  290 (571)
                      |  +...+....-.+...|++.+|+++++...        +.|.          ..--.|.-.+...|+.++|..++...
T Consensus       171 ~e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy~~~  250 (652)
T KOG2376|consen  171 PEDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSIYVDI  250 (652)
T ss_pred             CcchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHH
Confidence            2  11222234455677899999999888762        1111          12334556677899999999999998


Q ss_pred             HHcCCCCCHHH----HHHHHHHHHhcCcHHH--HHHHHHHhHHhc----------CCCCChHhHHHHHHHHHHcCCHHHH
Q 008280          291 KDEGMKPDSIT----FVALLLACNHAGLVDL--GIQYFDSMVNDY----------GIAAKPDHYTCMVDLLGRAGKLVEA  354 (571)
Q Consensus       291 ~~~g~~p~~~t----~~~ll~a~~~~g~~~~--a~~~~~~~~~~~----------~~~~~~~~~~~li~~~~~~g~~~~A  354 (571)
                      +... .+|...    -|.|+ +...-.++-.  .+..++......          .-.....--++++.+|  .+..+.+
T Consensus       251 i~~~-~~D~~~~Av~~NNLv-a~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~--tnk~~q~  326 (652)
T KOG2376|consen  251 IKRN-PADEPSLAVAVNNLV-ALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALF--TNKMDQV  326 (652)
T ss_pred             HHhc-CCCchHHHHHhcchh-hhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH--hhhHHHH
Confidence            8875 445432    22222 2222222111  111222111100          0000111122334443  4566777


Q ss_pred             HHHHHhCCCCCCHhHHHHHHHHH-H-hcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHH
Q 008280          355 VDLIKKMPFKPQPAIFGTLLSAC-R-VHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRL  426 (571)
Q Consensus       355 ~~~~~~~~~~p~~~~~~~l~~~~-~-~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~  426 (571)
                      .++-...|..--...+.+++..+ . +......+..++....+-+|.....+....+......|+|+.|.+++.
T Consensus       327 r~~~a~lp~~~p~~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~~p~~s~~v~L~~aQl~is~gn~~~A~~il~  400 (652)
T KOG2376|consen  327 RELSASLPGMSPESLFPILLQEATKVREKKHKKAIELLLQFADGHPEKSKVVLLLRAQLKISQGNPEVALEILS  400 (652)
T ss_pred             HHHHHhCCccCchHHHHHHHHHHHHHHHHHHhhhHHHHHHHhccCCchhHHHHHHHHHHHHhcCCHHHHHHHHH
Confidence            77777775332234444454443 2 222577888888888888998843255566777889999999999998

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.75  E-value=7.2e-06  Score=85.54  Aligned_cols=412  Identities=13%  Similarity=0.085  Sum_probs=233.1

Q ss_pred             hHHHHHHHHHhCCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHcCCCCHHHHHHHHhhCCCCC-----hhhHHHHHHH
Q 008280            8 NWNSVLAGFAKQRGKLKDAQELFDKIPQ---PDVVSYNIMLSCILLNSDDVVAAFDFFQRLPIKD-----TASWNTMISG   79 (571)
Q Consensus         8 ~~~~l~~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~ll~~~~~~~g~~~~A~~~~~~m~~~d-----~~~~~~li~~   79 (571)
                      .|..|..-|.... +...|.+.|+..-+   .|...+..+...|+.. .+++.|..+.-...+.+     ...|-..--.
T Consensus       494 af~~LG~iYrd~~-Dm~RA~kCf~KAFeLDatdaeaaaa~adtyae~-~~we~a~~I~l~~~qka~a~~~k~nW~~rG~y  571 (1238)
T KOG1127|consen  494 AFAFLGQIYRDSD-DMKRAKKCFDKAFELDATDAEAAAASADTYAEE-STWEEAFEICLRAAQKAPAFACKENWVQRGPY  571 (1238)
T ss_pred             HHHHHHHHHHHHH-HHHHHHHHHHHHhcCCchhhhhHHHHHHHhhcc-ccHHHHHHHHHHHhhhchHHHHHhhhhhcccc
Confidence            4666666666666 66777777776654   4455667777777777 77777777643333221     1223333334


Q ss_pred             HHcCCCHHHHHHHHhhCCC---CCcchHHHHHHHHHHcCChHHHHHHHhhCCCCCh---hHHHHHHHHHHhcCCHHHHHH
Q 008280           80 FVQKKNMAKARDLFLAMPE---KNSVSWSAMISGYIECGQLDKAVELFKVAPVKSV---VAWTAMISGYMKFGKVDLAEK  153 (571)
Q Consensus        80 ~~~~g~~~~A~~~~~~m~~---~d~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~A~~  153 (571)
                      |.+.++..+|..-|+...+   .|...|..+..+|.+.|.+..|.++|.+....++   ....-..-+-+..|.+.+|..
T Consensus       572 yLea~n~h~aV~~fQsALR~dPkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~LrP~s~y~~fk~A~~ecd~GkYkeald  651 (1238)
T KOG1127|consen  572 YLEAHNLHGAVCEFQSALRTDPKDYNLWLGLGEAYPESGRYSHALKVFTKASLLRPLSKYGRFKEAVMECDNGKYKEALD  651 (1238)
T ss_pred             ccCccchhhHHHHHHHHhcCCchhHHHHHHHHHHHHhcCceehHHHhhhhhHhcCcHhHHHHHHHHHHHHHhhhHHHHHH
Confidence            5566666666666665543   2555666677777777777777777755543332   222223334455566666666


Q ss_pred             HHhhCCC---------CCH-HHHHHHHHHHHHcCChh-------HHHHHHHHHHHCCCCCCHhHHHHHHHHH--------
Q 008280          154 LFDEMPT---------KNL-VTWNAMIAGYVENSWAE-------DGLKLLRMMIGLGIRPNASSLSSVLLGC--------  208 (571)
Q Consensus       154 ~~~~~~~---------~~~-~~~~~li~~~~~~g~~~-------~A~~~~~~m~~~g~~pd~~t~~~ll~~~--------  208 (571)
                      .+..+..         .+. .++--+...+.-.|-..       ++++.|.-........+...|..+-.+|        
T Consensus       652 ~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~l~h~~~~~~~~Wi~asdac~~f~q~e~  731 (1238)
T KOG1127|consen  652 ALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSLIHSLQSDRLQWIVASDACYIFSQEEP  731 (1238)
T ss_pred             HHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHhhhhhHHHHHHHhHHHHHHHHhcc
Confidence            6655431         111 12222222222222222       2222222222111111111111111111        


Q ss_pred             ---------------hccCch---H---HHHHHHHHHHhCCCCCCcchHHHHHHHHHh----cC----CHHHHHHHHHhh
Q 008280          209 ---------------SHLSSL---Q---LGKQVHQLVFKSPLCKDTTALTPLISMYCK----CG----DLEDACKLFLEI  259 (571)
Q Consensus       209 ---------------~~~~~~---~---~a~~~~~~~~~~g~~~~~~~~~~li~~y~~----~g----~~~~A~~~~~~~  259 (571)
                                     -..+..   +   .|-+.+-  ....+..+...|..|+.-|.+    +|    +...|...+...
T Consensus       732 ~~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~--~hlsl~~~~~~WyNLGinylr~f~~l~et~~~~~~Ai~c~Kka  809 (1238)
T KOG1127|consen  732 SIVNMHYLIILSKQLEKTGALKKNDLLFLGYECGI--AHLSLAIHMYPWYNLGINYLRYFLLLGETMKDACTAIRCCKKA  809 (1238)
T ss_pred             cchHHHHHHHHHHHHHhcccCcchhHHHHHHHHhh--HHHHHhhccchHHHHhHHHHHHHHHcCCcchhHHHHHHHHHHH
Confidence                           111111   1   0111110  011112234555556555544    22    234566667654


Q ss_pred             C---CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCC-Ch
Q 008280          260 Q---RKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAA-KP  335 (571)
Q Consensus       260 ~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~-~~  335 (571)
                      .   ..+...||.|.-. ...|.+.-|...|-+-.... +....+|..+...|....+++.|...|.....   +.| +.
T Consensus       810 V~L~ann~~~WnaLGVl-sg~gnva~aQHCfIks~~se-p~~~~~W~NlgvL~l~n~d~E~A~~af~~~qS---LdP~nl  884 (1238)
T KOG1127|consen  810 VSLCANNEGLWNALGVL-SGIGNVACAQHCFIKSRFSE-PTCHCQWLNLGVLVLENQDFEHAEPAFSSVQS---LDPLNL  884 (1238)
T ss_pred             HHHhhccHHHHHHHHHh-hccchhhhhhhhhhhhhhcc-ccchhheeccceeEEecccHHHhhHHHHhhhh---cCchhh
Confidence            4   3577888887765 55677777777776665543 34667888888888999999999999988763   444 45


Q ss_pred             HhHHHHHHHHHHcCCHHHHHHHHHhC-------CCCCCHhHHHHHHHHHHhcCCHhHHHHH----------HHHHhccCC
Q 008280          336 DHYTCMVDLLGRAGKLVEAVDLIKKM-------PFKPQPAIFGTLLSACRVHKRLDLAEFA----------AMNLFNLNP  398 (571)
Q Consensus       336 ~~~~~li~~~~~~g~~~~A~~~~~~~-------~~~p~~~~~~~l~~~~~~~g~~~~a~~~----------~~~~~~~~p  398 (571)
                      ..|..........|+.-++..+|..-       +-.|+...|.....-...+|+.++-+..          +++.+.-.|
T Consensus       885 ~~WlG~Ali~eavG~ii~~~~lfaHs~el~~~~gka~~f~Yw~c~te~h~~Ng~~e~~I~t~~ki~sAs~al~~yf~~~p  964 (1238)
T KOG1127|consen  885 VQWLGEALIPEAVGRIIERLILFAHSDELCSKEGKAKKFQYWLCATEIHLQNGNIEESINTARKISSASLALSYYFLGHP  964 (1238)
T ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHhhHHhhccccccchhhHHHHHHHHHHhccchHHHHHHhhhhhhhHHHHHHHHhcCc
Confidence            66666555566788888888888652       3346666666665566677776655443          444566789


Q ss_pred             CCCchhHHHHHHHHhhccChhHHHHHHHHHH
Q 008280          399 ANAAGCYVQLANIYAAMKKWDDVARIRLSMK  429 (571)
Q Consensus       399 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  429 (571)
                      +... +|...+....+.+.+.+|.+...+..
T Consensus       965 ~~~f-Ay~~~gstlEhL~ey~~a~ela~Rli  994 (1238)
T KOG1127|consen  965 QLCF-AYAANGSTLEHLEEYRAALELATRLI  994 (1238)
T ss_pred             chhH-HHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence            9888 99999999999999999888776553

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

Probab=98.74  E-value=1.2e-06  Score=94.20  Aligned_cols=200  Identities=12%  Similarity=0.116  Sum_probs=169.3

Q ss_pred             CCCcchHHHHHHHHHhcCCHHHHHHHHHhhCCC--------ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHH
Q 008280          230 CKDTTALTPLISMYCKCGDLEDACKLFLEIQRK--------DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSIT  301 (571)
Q Consensus       230 ~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~--------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t  301 (571)
                      |.....|-..|......+++++|++++++....        -...|.++++.-...|.-+...++|++..+..  -....
T Consensus      1455 PNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqyc--d~~~V 1532 (1710)
T KOG1070|consen 1455 PNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYC--DAYTV 1532 (1710)
T ss_pred             CCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhc--chHHH
Confidence            556677888888999999999999999987631        34578888888888888889999999998742  22456


Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC----CCCCCHhHHHHHHHHH
Q 008280          302 FVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM----PFKPQPAIFGTLLSAC  377 (571)
Q Consensus       302 ~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~----~~~p~~~~~~~l~~~~  377 (571)
                      |..|...|.+.+.+++|.++++.|.++++  .....|...++.+.+..+-++|..++.++    |-+.........+..-
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            88899999999999999999999999766  67789999999999999999999999876    3222344555566666


Q ss_pred             HhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhCCCc
Q 008280          378 RVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVV  434 (571)
Q Consensus       378 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  434 (571)
                      .+.|+.+++..+|+..+...|.... .|..+++.-.+.|..+.++.+|++....++.
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            7999999999999999999999988 9999999999999999999999999988775

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

Probab=98.74  E-value=1.8e-05  Score=78.93  Aligned_cols=57  Identities=9%  Similarity=-0.166  Sum_probs=31.4

Q ss_pred             HHHHHHHHcCCHHHHHHHHHhCC--CCC---C------HhHHHHHHHHHHhcCCHhHHHHHHHHHhcc
Q 008280          340 CMVDLLGRAGKLVEAVDLIKKMP--FKP---Q------PAIFGTLLSACRVHKRLDLAEFAAMNLFNL  396 (571)
Q Consensus       340 ~li~~~~~~g~~~~A~~~~~~~~--~~p---~------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  396 (571)
                      ..+..+...|+.++|..+++.+.  ...   .      +.......-++...|+.++|...+..++..
T Consensus       269 ~~a~~~~~~~~~~~a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~~  336 (355)
T cd05804         269 HAALALAGAGDKDALDKLLAALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYATALELLGPVRDD  336 (355)
T ss_pred             HHHHHHhcCCCHHHHHHHHHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            34555566677777777766651  001   1      111112222356778888888888777553

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.

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.74  E-value=1.3e-05  Score=78.59  Aligned_cols=382  Identities=14%  Similarity=0.083  Sum_probs=235.0

Q ss_pred             HHHhCCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHcCCCCHHHHHHHHhhCCC--CC-hhhHHHHHHHHHcCCCHHH
Q 008280           15 GFAKQRGKLKDAQELFDKIPQ---PDVVSYNIMLSCILLNSDDVVAAFDFFQRLPI--KD-TASWNTMISGFVQKKNMAK   88 (571)
Q Consensus        15 ~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~ll~~~~~~~g~~~~A~~~~~~m~~--~d-~~~~~~li~~~~~~g~~~~   88 (571)
                      +....| +++.|...|-....   +|.+.|+.=..+|++. |++++|++=-.+-.+  |+ ..-|+-...++.-.|++++
T Consensus        11 aa~s~~-d~~~ai~~~t~ai~l~p~nhvlySnrsaa~a~~-~~~~~al~da~k~~~l~p~w~kgy~r~Gaa~~~lg~~~e   88 (539)
T KOG0548|consen   11 AAFSSG-DFETAIRLFTEAIMLSPTNHVLYSNRSAAYASL-GSYEKALKDATKTRRLNPDWAKGYSRKGAALFGLGDYEE   88 (539)
T ss_pred             hhcccc-cHHHHHHHHHHHHccCCCccchhcchHHHHHHH-hhHHHHHHHHHHHHhcCCchhhHHHHhHHHHHhcccHHH
Confidence            334556 99999999976543   6778888888899999 999999876655443  33 3468888888888999999


Q ss_pred             HHHHHhhCCCC---CcchHHHHHHHHHHcCChHHHHHHHhhC-----CCCCh--------hHHHHHHHH----------H
Q 008280           89 ARDLFLAMPEK---NSVSWSAMISGYIECGQLDKAVELFKVA-----PVKSV--------VAWTAMISG----------Y  142 (571)
Q Consensus        89 A~~~~~~m~~~---d~~~~~~li~~~~~~g~~~~A~~~~~~~-----~~~~~--------~~~~~li~~----------~  142 (571)
                      |+.-|.+-.+.   |...++-+..++...  . .+.+.|..-     +..++        ..|..++..          |
T Consensus        89 A~~ay~~GL~~d~~n~~L~~gl~~a~~~~--~-~~~~~~~~p~~~~~l~~~p~t~~~~~~~~~~~~l~~~~~~p~~l~~~  165 (539)
T KOG0548|consen   89 AILAYSEGLEKDPSNKQLKTGLAQAYLED--Y-AADQLFTKPYFHEKLANLPLTNYSLSDPAYVKILEIIQKNPTSLKLY  165 (539)
T ss_pred             HHHHHHHHhhcCCchHHHHHhHHHhhhHH--H-HhhhhccCcHHHHHhhcChhhhhhhccHHHHHHHHHhhcCcHhhhcc
Confidence            99999987653   445566666665111  0 011111100     00010        112222211          1


Q ss_pred             HhcCCHHHHHHHHhhC----------------CCC------------CH----------HHHHHHHHHHHHcCChhHHHH
Q 008280          143 MKFGKVDLAEKLFDEM----------------PTK------------NL----------VTWNAMIAGYVENSWAEDGLK  184 (571)
Q Consensus       143 ~~~g~~~~A~~~~~~~----------------~~~------------~~----------~~~~~li~~~~~~g~~~~A~~  184 (571)
                      ..-.++..|.-.+...                ..|            |.          .-.-.+.++..+..++..|++
T Consensus       166 l~d~r~m~a~~~l~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~d~~ee~~~k~~a~~ek~lgnaaykkk~f~~a~q  245 (539)
T KOG0548|consen  166 LNDPRLMKADGQLKGVDELLFYASGIEILASMAEPCKQEHNGFPIIEDNTEERRVKEKAHKEKELGNAAYKKKDFETAIQ  245 (539)
T ss_pred             cccHHHHHHHHHHhcCccccccccccccCCCCCCcccccCCCCCccchhHHHHHHHHhhhHHHHHHHHHHHhhhHHHHHH
Confidence            1111122222222111                001            11          135567888888889999999


Q ss_pred             HHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCC--C----cchHHHHHHHHHhcCCHHHHHHHHHh
Q 008280          185 LLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCK--D----TTALTPLISMYCKCGDLEDACKLFLE  258 (571)
Q Consensus       185 ~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~--~----~~~~~~li~~y~~~g~~~~A~~~~~~  258 (571)
                      -+.......  -+..-++....++...|........-...++.|...  +    ......+..+|.+.++++.|...|.+
T Consensus       246 ~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre~rad~klIak~~~r~g~a~~k~~~~~~ai~~~~k  323 (539)
T KOG0548|consen  246 HYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRELRADYKLIAKALARLGNAYTKREDYEGAIKYYQK  323 (539)
T ss_pred             HHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHHHHHHHHHHHHHHHHhhhhhhhHHhHHHHHHHHHH
Confidence            998888754  333344555566777777777766666655554211  0    11122244577788889999999987


Q ss_pred             hCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHh
Q 008280          259 IQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSI-TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDH  337 (571)
Q Consensus       259 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  337 (571)
                      ...+...     -....+....++++...+...-.  .|... -...-.+.+.+.|++..|...|.++++.  .+.|...
T Consensus       324 aLte~Rt-----~~~ls~lk~~Ek~~k~~e~~a~~--~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAIkr--~P~Da~l  394 (539)
T KOG0548|consen  324 ALTEHRT-----PDLLSKLKEAEKALKEAERKAYI--NPEKAEEEREKGNEAFKKGDYPEAVKHYTEAIKR--DPEDARL  394 (539)
T ss_pred             HhhhhcC-----HHHHHHHHHHHHHHHHHHHHHhh--ChhHHHHHHHHHHHHHhccCHHHHHHHHHHHHhc--CCchhHH
Confidence            5432111     11122333455555555544432  33332 1222356677889999999999998874  3666889


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHh
Q 008280          338 YTCMVDLLGRAGKLVEAVDLIKKM-PFKPQ-PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYA  413 (571)
Q Consensus       338 ~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~  413 (571)
                      |....-+|.+.|.+..|++-.+.. ...|+ ...|..=..++....+++.|...|.+.++.+|++.. ....+..++.
T Consensus       395 YsNRAac~~kL~~~~~aL~Da~~~ieL~p~~~kgy~RKg~al~~mk~ydkAleay~eale~dp~~~e-~~~~~~rc~~  471 (539)
T KOG0548|consen  395 YSNRAACYLKLGEYPEALKDAKKCIELDPNFIKAYLRKGAALRAMKEYDKALEAYQEALELDPSNAE-AIDGYRRCVE  471 (539)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCchhHH-HHHHHHHHHH
Confidence            999999999999999988766555 23344 345555566677778999999999999999998875 5555555544

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

Probab=98.73  E-value=7.1e-06  Score=75.61  Aligned_cols=280  Identities=12%  Similarity=0.085  Sum_probs=168.3

Q ss_pred             HHHHHcCCCHHHHHHHHhhCCCCCcchHHHHH---HHHHHcCChHHHHHHHhhCCCCChhHHHHH---HHHHHhcCCHHH
Q 008280           77 ISGFVQKKNMAKARDLFLAMPEKNSVSWSAMI---SGYIECGQLDKAVELFKVAPVKSVVAWTAM---ISGYMKFGKVDL  150 (571)
Q Consensus        77 i~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li---~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l---i~~~~~~g~~~~  150 (571)
                      -+.+...|++.+|+.-|....+-|+..|.++.   ..|...|+-..|+.-+...++.-+..+.+-   ...+.+.|.++.
T Consensus        45 Gk~lla~~Q~sDALt~yHaAve~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlelKpDF~~ARiQRg~vllK~Gele~  124 (504)
T KOG0624|consen   45 GKELLARGQLSDALTHYHAAVEGDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLELKPDFMAARIQRGVVLLKQGELEQ  124 (504)
T ss_pred             HHHHHHhhhHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhcCCccchhhHHHHHhcCccHHHHHHHhchhhhhcccHHH
Confidence            33444445555555555555554444444332   234445555445444444432222222221   234455556666


Q ss_pred             HHHHHhhCCCCCH----------------HHH--HHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccC
Q 008280          151 AEKLFDEMPTKNL----------------VTW--NAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLS  212 (571)
Q Consensus       151 A~~~~~~~~~~~~----------------~~~--~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~  212 (571)
                      |..-|+.+.+.++                ..|  ...+..+...|+...|+.....+++.. +.|...+..-..+|...|
T Consensus       125 A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~-~Wda~l~~~Rakc~i~~~  203 (504)
T KOG0624|consen  125 AEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQ-PWDASLRQARAKCYIAEG  203 (504)
T ss_pred             HHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcC-cchhHHHHHHHHHHHhcC
Confidence            5555555442111                011  223444556777778887777777642 346666666667777778


Q ss_pred             chHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCCCChh------hHHHH---------HHHHHHc
Q 008280          213 SLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVV------TWNAM---------ISGYAQH  277 (571)
Q Consensus       213 ~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~------~~~~l---------i~~~~~~  277 (571)
                      .+..|..=+..+-+.. ..+....--+-..+...|+.+.++....+..+-|+.      .|..+         +......
T Consensus       204 e~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKldpdHK~Cf~~YKklkKv~K~les~e~~ie~  282 (504)
T KOG0624|consen  204 EPKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAENSLKEIRECLKLDPDHKLCFPFYKKLKKVVKSLESAEQAIEE  282 (504)
T ss_pred             cHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHHHHHHHHHHHHccCcchhhHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            8887777777666654 334445555667777788888887777776643221      22211         2234567


Q ss_pred             CChHHHHHHHHHHHHcCCCCCHHHHH---HHHHHHHhcCcHHHHHHHHHHhHHhcCCCCC-hHhHHHHHHHHHHcCCHHH
Q 008280          278 GKGEKALRLFDKMKDEGMKPDSITFV---ALLLACNHAGLVDLGIQYFDSMVNDYGIAAK-PDHYTCMVDLLGRAGKLVE  353 (571)
Q Consensus       278 g~~~~A~~~~~~m~~~g~~p~~~t~~---~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~  353 (571)
                      +++.++++-.+...+.......++++   .+-.++...|++.+|++...+++.   +.|+ +.++.--.++|.-...+++
T Consensus       283 ~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~---~d~~dv~~l~dRAeA~l~dE~YD~  359 (504)
T KOG0624|consen  283 KHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLD---IDPDDVQVLCDRAEAYLGDEMYDD  359 (504)
T ss_pred             hhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHHHHHh---cCchHHHHHHHHHHHHhhhHHHHH
Confidence            88888888888877654332334443   344566778999999999998874   5665 8888888899999999999


Q ss_pred             HHHHHHhC
Q 008280          354 AVDLIKKM  361 (571)
Q Consensus       354 A~~~~~~~  361 (571)
                      |+.-|+..
T Consensus       360 AI~dye~A  367 (504)
T KOG0624|consen  360 AIHDYEKA  367 (504)
T ss_pred             HHHHHHHH
Confidence            99999887

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.72  E-value=4.4e-06  Score=75.46  Aligned_cols=302  Identities=13%  Similarity=0.156  Sum_probs=186.1

Q ss_pred             HHHHHHHHHHcCChHHHHHHHhhCCCC---ChhHHHHHHHHHHhcCCHHHHHHHHhhCCC--CCHHHHHH-HHHHHHHcC
Q 008280          104 WSAMISGYIECGQLDKAVELFKVAPVK---SVVAWTAMISGYMKFGKVDLAEKLFDEMPT--KNLVTWNA-MIAGYVENS  177 (571)
Q Consensus       104 ~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~-li~~~~~~g  177 (571)
                      +++.+..+.+..++++|++++..-.+.   +......|..+|....++..|-..++++..  |...-|.. -...+.+.+
T Consensus        13 ftaviy~lI~d~ry~DaI~~l~s~~Er~p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~P~~~qYrlY~AQSLY~A~   92 (459)
T KOG4340|consen   13 FTAVVYRLIRDARYADAIQLLGSELERSPRSRAGLSLLGYCYYRLQEFALAAECYEQLGQLHPELEQYRLYQAQSLYKAC   92 (459)
T ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHHHHHHHHhc
Confidence            566666677788888888887655433   345566777888888889999888888764  33333332 245667788


Q ss_pred             ChhHHHHHHHHHHHCCCCCCHhHHHHHHHH--HhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHH
Q 008280          178 WAEDGLKLLRMMIGLGIRPNASSLSSVLLG--CSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKL  255 (571)
Q Consensus       178 ~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~--~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~  255 (571)
                      .+.+|+++...|...   |+...-..-+.+  ..+.+++..++.+.++....|   +..+.+...-...+.|+++.|.+-
T Consensus        93 i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en---~Ad~~in~gCllykegqyEaAvqk  166 (459)
T KOG4340|consen   93 IYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSEN---EADGQINLGCLLYKEGQYEAAVQK  166 (459)
T ss_pred             ccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCC---ccchhccchheeeccccHHHHHHH
Confidence            888898888877642   222221111222  234566667766666654322   333444455555677777777777


Q ss_pred             HHhhCC----CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHH-----HHHHHHhcCcHHHHHHHHHHhH
Q 008280          256 FLEIQR----KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVA-----LLLACNHAGLVDLGIQYFDSMV  326 (571)
Q Consensus       256 ~~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~-----ll~a~~~~g~~~~a~~~~~~~~  326 (571)
                      |+...+    .....||.-+. ..+.|+++.|+++..++++.|++-.+. ++.     .+.+ ...|+   ...+..+. 
T Consensus       167 FqaAlqvsGyqpllAYniALa-Hy~~~qyasALk~iSEIieRG~r~HPE-lgIGm~tegiDv-rsvgN---t~~lh~Sa-  239 (459)
T KOG4340|consen  167 FQAALQVSGYQPLLAYNLALA-HYSSRQYASALKHISEIIERGIRQHPE-LGIGMTTEGIDV-RSVGN---TLVLHQSA-  239 (459)
T ss_pred             HHHHHhhcCCCchhHHHHHHH-HHhhhhHHHHHHHHHHHHHhhhhcCCc-cCccceeccCch-hcccc---hHHHHHHH-
Confidence            776654    24455665444 334567777777777777777652221 110     0000 00000   00001000 


Q ss_pred             HhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhCC----CCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCc
Q 008280          327 NDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMP----FKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA  402 (571)
Q Consensus       327 ~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~----~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~  402 (571)
                             -+..++.-...+.+.|+++.|.+.+..||    ...|++|...+.-. -..+++..+.+-+.-+++++|-++.
T Consensus       240 -------l~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~-n~~~~p~~g~~KLqFLL~~nPfP~E  311 (459)
T KOG4340|consen  240 -------LVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALM-NMDARPTEGFEKLQFLLQQNPFPPE  311 (459)
T ss_pred             -------HHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHh-cccCCccccHHHHHHHHhcCCCChH
Confidence                   01223333445678899999999999995    23566776654322 2456677777778888899997777


Q ss_pred             hhHHHHHHHHhhccChhHHHHHHHH
Q 008280          403 GCYVQLANIYAAMKKWDDVARIRLS  427 (571)
Q Consensus       403 ~~~~~l~~~~~~~g~~~~a~~~~~~  427 (571)
                       +|..++-.|++..-++-|..++.+
T Consensus       312 -TFANlLllyCKNeyf~lAADvLAE  335 (459)
T KOG4340|consen  312 -TFANLLLLYCKNEYFDLAADVLAE  335 (459)
T ss_pred             -HHHHHHHHHhhhHHHhHHHHHHhh
Confidence             999999999999999999888754

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.69  E-value=6.9e-05  Score=84.66  Aligned_cols=345  Identities=10%  Similarity=-0.039  Sum_probs=218.3

Q ss_pred             CCHHHHHHHHhhCCCCChhh--HHHHHHHHHcCCCHHHHHHHHhhCCC----CCcchHHHHHHHHHHcCChHHHHHHHhh
Q 008280           53 DDVVAAFDFFQRLPIKDTAS--WNTMISGFVQKKNMAKARDLFLAMPE----KNSVSWSAMISGYIECGQLDKAVELFKV  126 (571)
Q Consensus        53 g~~~~A~~~~~~m~~~d~~~--~~~li~~~~~~g~~~~A~~~~~~m~~----~d~~~~~~li~~~~~~g~~~~A~~~~~~  126 (571)
                      |++.+|..........+...  ...........|+++.+..+++.++.    .+..........+...|++++|...+..
T Consensus       355 g~~~~Al~~a~~a~d~~~~~~ll~~~a~~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~a~~~l~~  434 (903)
T PRK04841        355 GFPSEAIHHALAAGDAQLLRDILLQHGWSLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSEVNTLLAR  434 (903)
T ss_pred             CCHHHHHHHHHHCCCHHHHHHHHHHhHHHHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHHHHHHHHH
Confidence            55555555554444332211  11122344567888888888887742    2344444455566778999999888765


Q ss_pred             CC----CC----Ch----hHHHHHHHHHHhcCCHHHHHHHHhhCCC----CCH----HHHHHHHHHHHHcCChhHHHHHH
Q 008280          127 AP----VK----SV----VAWTAMISGYMKFGKVDLAEKLFDEMPT----KNL----VTWNAMIAGYVENSWAEDGLKLL  186 (571)
Q Consensus       127 ~~----~~----~~----~~~~~li~~~~~~g~~~~A~~~~~~~~~----~~~----~~~~~li~~~~~~g~~~~A~~~~  186 (571)
                      ..    ..    +.    .....+...+...|++++|...+++...    .+.    ..++.+...+...|++++|...+
T Consensus       435 a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~  514 (903)
T PRK04841        435 AEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMM  514 (903)
T ss_pred             HHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            42    11    11    1222334566789999999998877532    222    34566777788899999999999


Q ss_pred             HHHHHCCC---CCC--HhHHHHHHHHHhccCchHHHHHHHHHHHhC----CCCC---CcchHHHHHHHHHhcCCHHHHHH
Q 008280          187 RMMIGLGI---RPN--ASSLSSVLLGCSHLSSLQLGKQVHQLVFKS----PLCK---DTTALTPLISMYCKCGDLEDACK  254 (571)
Q Consensus       187 ~~m~~~g~---~pd--~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~----g~~~---~~~~~~~li~~y~~~g~~~~A~~  254 (571)
                      .+.....-   .+.  ..++..+...+...|+++.|...++.....    +...   ....+..+...+...|++++|..
T Consensus       515 ~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~  594 (903)
T PRK04841        515 QQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQ  594 (903)
T ss_pred             HHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHH
Confidence            88765211   111  224445566678899999999998876652    2211   12234456677778899999998


Q ss_pred             HHHhhCC------C--ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCC-CCHHHH-----HHHHHHHHhcCcHHHHHH
Q 008280          255 LFLEIQR------K--DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMK-PDSITF-----VALLLACNHAGLVDLGIQ  320 (571)
Q Consensus       255 ~~~~~~~------~--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~~~t~-----~~ll~a~~~~g~~~~a~~  320 (571)
                      .+++...      +  ....+..+...+...|++++|...+.+....... .....+     ...+..+...|+.+.+.+
T Consensus       595 ~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~  674 (903)
T PRK04841        595 CARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAAN  674 (903)
T ss_pred             HHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHH
Confidence            8887532      1  1334555667788899999999999887542111 111111     111234455789999999


Q ss_pred             HHHHhHHhcCCCCCh----HhHHHHHHHHHHcCCHHHHHHHHHhC-------CCCCC-HhHHHHHHHHHHhcCCHhHHHH
Q 008280          321 YFDSMVNDYGIAAKP----DHYTCMVDLLGRAGKLVEAVDLIKKM-------PFKPQ-PAIFGTLLSACRVHKRLDLAEF  388 (571)
Q Consensus       321 ~~~~~~~~~~~~~~~----~~~~~li~~~~~~g~~~~A~~~~~~~-------~~~p~-~~~~~~l~~~~~~~g~~~~a~~  388 (571)
                      .+......  .....    ..+..+..++...|+.++|...+++.       +..++ ..+...+..++...|+.++|..
T Consensus       675 ~l~~~~~~--~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~  752 (903)
T PRK04841        675 WLRQAPKP--EFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQR  752 (903)
T ss_pred             HHHhcCCC--CCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            87765431  11111    11346677888999999999988876       22222 2456667778899999999999


Q ss_pred             HHHHHhccCCC
Q 008280          389 AAMNLFNLNPA  399 (571)
Q Consensus       389 ~~~~~~~~~p~  399 (571)
                      .+.+++++...
T Consensus       753 ~L~~Al~la~~  763 (903)
T PRK04841        753 VLLEALKLANR  763 (903)
T ss_pred             HHHHHHHHhCc
Confidence            99999886543

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.65  E-value=3.6e-06  Score=78.37  Aligned_cols=181  Identities=10%  Similarity=0.017  Sum_probs=120.8

Q ss_pred             CcchHHHHHHHHHhcCCHHHHHHHHHhhCC--CC-h---hhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCH--HHHH
Q 008280          232 DTTALTPLISMYCKCGDLEDACKLFLEIQR--KD-V---VTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDS--ITFV  303 (571)
Q Consensus       232 ~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~~-~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~t~~  303 (571)
                      ....+..++..|.+.|++++|...|+++..  |+ .   .+|..+..++...|++++|+..++++.+.......  .++.
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            344566677778888888888888887654  22 1   35677788888888888888888888764322111  1344


Q ss_pred             HHHHHHHhc--------CcHHHHHHHHHHhHHhcCCCCCh-HhHHHHHHHHHHcCCHHHHHHHHHhCCCCCCHhHHHHHH
Q 008280          304 ALLLACNHA--------GLVDLGIQYFDSMVNDYGIAAKP-DHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLL  374 (571)
Q Consensus       304 ~ll~a~~~~--------g~~~~a~~~~~~~~~~~~~~~~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~  374 (571)
                      .+..++...        |+.++|.+.|+.+.+.   .|+. ..+..+...    +......           ......+.
T Consensus       112 ~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~---~p~~~~~~~a~~~~----~~~~~~~-----------~~~~~~~a  173 (235)
T TIGR03302       112 LRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR---YPNSEYAPDAKKRM----DYLRNRL-----------AGKELYVA  173 (235)
T ss_pred             HHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH---CCCChhHHHHHHHH----HHHHHHH-----------HHHHHHHH
Confidence            444445443        6788888888888764   3332 222222111    1111100           01122456


Q ss_pred             HHHHhcCCHhHHHHHHHHHhccCCCCC---chhHHHHHHHHhhccChhHHHHHHHHHHhC
Q 008280          375 SACRVHKRLDLAEFAAMNLFNLNPANA---AGCYVQLANIYAAMKKWDDVARIRLSMKEN  431 (571)
Q Consensus       375 ~~~~~~g~~~~a~~~~~~~~~~~p~~~---~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  431 (571)
                      ..+...|++++|+..++++++..|+.+   . .+..++.+|.+.|++++|..+++.+..+
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   5 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).

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.64  E-value=1.8e-05  Score=77.51  Aligned_cols=365  Identities=13%  Similarity=0.132  Sum_probs=216.2

Q ss_pred             HHcCCCCHHHHHHHHhhCC---CCChhhHHHHHHHHHcCCCHHHHHHHHhhCCC--CC-cchHHHHHHHHHHcCChHHHH
Q 008280           48 ILLNSDDVVAAFDFFQRLP---IKDTASWNTMISGFVQKKNMAKARDLFLAMPE--KN-SVSWSAMISGYIECGQLDKAV  121 (571)
Q Consensus        48 ~~~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~d-~~~~~~li~~~~~~g~~~~A~  121 (571)
                      .+.. |+++.|+..|.+..   ++|-+.|..-..+|++.|++++|++=-.+-.+  |+ ...|+-...++.-.|++++|+
T Consensus        12 a~s~-~d~~~ai~~~t~ai~l~p~nhvlySnrsaa~a~~~~~~~al~da~k~~~l~p~w~kgy~r~Gaa~~~lg~~~eA~   90 (539)
T KOG0548|consen   12 AFSS-GDFETAIRLFTEAIMLSPTNHVLYSNRSAAYASLGSYEKALKDATKTRRLNPDWAKGYSRKGAALFGLGDYEEAI   90 (539)
T ss_pred             hccc-ccHHHHHHHHHHHHccCCCccchhcchHHHHHHHhhHHHHHHHHHHHHhcCCchhhHHHHhHHHHHhcccHHHHH
Confidence            3455 99999999998743   45788899999999999999999886665543  44 357999999999999999999


Q ss_pred             HHHhhCCCC---ChhHHHHHHHHHHhcCCHHHHHHHHhh------CCCCCH--------HHHHHHHHHHHHcC-------
Q 008280          122 ELFKVAPVK---SVVAWTAMISGYMKFGKVDLAEKLFDE------MPTKNL--------VTWNAMIAGYVENS-------  177 (571)
Q Consensus       122 ~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~------~~~~~~--------~~~~~li~~~~~~g-------  177 (571)
                      ..|.+.+..   +....+.|.+++....   .+.+.|..      +. .++        ..|..++..+-++.       
T Consensus        91 ~ay~~GL~~d~~n~~L~~gl~~a~~~~~---~~~~~~~~p~~~~~l~-~~p~t~~~~~~~~~~~~l~~~~~~p~~l~~~l  166 (539)
T KOG0548|consen   91 LAYSEGLEKDPSNKQLKTGLAQAYLEDY---AADQLFTKPYFHEKLA-NLPLTNYSLSDPAYVKILEIIQKNPTSLKLYL  166 (539)
T ss_pred             HHHHHHhhcCCchHHHHHhHHHhhhHHH---HhhhhccCcHHHHHhh-cChhhhhhhccHHHHHHHHHhhcCcHhhhccc
Confidence            999998744   4477888888871110   11111111      00 011        12333333322211       


Q ss_pred             C---hhHHHHHHH-----HHHHCC-------CCC------------C----------HhHHHHHHHHHhccCchHHHHHH
Q 008280          178 W---AEDGLKLLR-----MMIGLG-------IRP------------N----------ASSLSSVLLGCSHLSSLQLGKQV  220 (571)
Q Consensus       178 ~---~~~A~~~~~-----~m~~~g-------~~p------------d----------~~t~~~ll~~~~~~~~~~~a~~~  220 (571)
                      +   ...|.-.+.     .+...|       ..|            |          ..-...+.++..+..+++.+.+-
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            0   111111110     000001       011            0          01122334444444555555555


Q ss_pred             HHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCCCCh----------hhHHHHHHHHHHcCChHHHHHHHHHH
Q 008280          221 HQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDV----------VTWNAMISGYAQHGKGEKALRLFDKM  290 (571)
Q Consensus       221 ~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~----------~~~~~li~~~~~~g~~~~A~~~~~~m  290 (571)
                      +.......  .++.-++....+|...|.+......-+...+...          .+...+..+|.+.++++.|+..|.+.
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            55555543  4455555566666666666655555444332211          11222333455556666666666665


Q ss_pred             HHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChH-hHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CH
Q 008280          291 KDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPD-HYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QP  367 (571)
Q Consensus       291 ~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~-~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~  367 (571)
                      ...-..|+..+         +....+++........   -+.|... -...-..-+.+.|++..|++.|.++ ...| |.
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            44333332211         1122233333332221   1223211 1111245577889999999999887 2234 56


Q ss_pred             hHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhCC
Q 008280          368 AIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENN  432 (571)
Q Consensus       368 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  432 (571)
                      ..|....-+|.+.|++..|+.-.+..++++|+... .|..=+.++....+|++|.+.|.+-.+..
T Consensus       393 ~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~~~k-gy~RKg~al~~mk~ydkAleay~eale~d  456 (539)
T KOG0548|consen  393 RLYSNRAACYLKLGEYPEALKDAKKCIELDPNFIK-AYLRKGAALRAMKEYDKALEAYQEALELD  456 (539)
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHhcCchHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            78888888899999999999999999999999888 88888889999999999999998776644

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.64  E-value=5.3e-05  Score=77.61  Aligned_cols=341  Identities=11%  Similarity=0.111  Sum_probs=179.6

Q ss_pred             cchHHHHHHHHHhCCCCHHHHHHHHhhCCC-----------CChhhHHHHHHHHHcCCCCHHHHHHHHhhCCCCChhhHH
Q 008280            6 TVNWNSVLAGFAKQRGKLKDAQELFDKIPQ-----------PDVVSYNIMLSCILLNSDDVVAAFDFFQRLPIKDTASWN   74 (571)
Q Consensus         6 ~~~~~~l~~~~~~~~g~~~~A~~~~~~~~~-----------~~~~~~~~ll~~~~~~~g~~~~A~~~~~~m~~~d~~~~~   74 (571)
                      -.+|..+.++|.+.. +++-|.-.+..|..           .|..--.+-+..++-..|-+++|..+|++-..     |.
T Consensus       757 ~~vW~nmA~McVkT~-RLDVAkVClGhm~~aRgaRAlR~a~q~~~e~eakvAvLAieLgMlEeA~~lYr~ckR-----~D  830 (1416)
T KOG3617|consen  757 DSVWDNMASMCVKTR-RLDVAKVCLGHMKNARGARALRRAQQNGEEDEAKVAVLAIELGMLEEALILYRQCKR-----YD  830 (1416)
T ss_pred             hHHHHHHHHHhhhhc-cccHHHHhhhhhhhhhhHHHHHHHHhCCcchhhHHHHHHHHHhhHHHHHHHHHHHHH-----HH
Confidence            457888888888888 88888777776642           11111111122222222777777777776543     33


Q ss_pred             HHHHHHHcCCCHHHHHHHHhhCCCC-CcchHHHHHHHHHHcCChHHHHHHHhhCC-----------------------CC
Q 008280           75 TMISGFVQKKNMAKARDLFLAMPEK-NSVSWSAMISGYIECGQLDKAVELFKVAP-----------------------VK  130 (571)
Q Consensus        75 ~li~~~~~~g~~~~A~~~~~~m~~~-d~~~~~~li~~~~~~g~~~~A~~~~~~~~-----------------------~~  130 (571)
                      .|=..|-..|.+++|.++-+.=.+- =..||..-..-+-..++.+.|++.|++..                       ..
T Consensus       831 LlNKlyQs~g~w~eA~eiAE~~DRiHLr~Tyy~yA~~Lear~Di~~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~  910 (1416)
T KOG3617|consen  831 LLNKLYQSQGMWSEAFEIAETKDRIHLRNTYYNYAKYLEARRDIEAALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKR  910 (1416)
T ss_pred             HHHHHHHhcccHHHHHHHHhhccceehhhhHHHHHHHHHhhccHHHHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhcc
Confidence            3444555666777776665432211 12245555555555666666666665543                       11


Q ss_pred             ChhHHHHHHHHHHhcCCHHHHHHHHhhCC------------------------CCCHHHHHHHHHHHHHcCChhHHHHHH
Q 008280          131 SVVAWTAMISGYMKFGKVDLAEKLFDEMP------------------------TKNLVTWNAMIAGYVENSWAEDGLKLL  186 (571)
Q Consensus       131 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~------------------------~~~~~~~~~li~~~~~~g~~~~A~~~~  186 (571)
                      |...|.-.....-..|+++.|+.+|....                        ..|..+...|...|-..|++.+|..+|
T Consensus       911 d~~L~~WWgqYlES~GemdaAl~~Y~~A~D~fs~VrI~C~qGk~~kAa~iA~esgd~AAcYhlaR~YEn~g~v~~Av~Ff  990 (1416)
T KOG3617|consen  911 DESLYSWWGQYLESVGEMDAALSFYSSAKDYFSMVRIKCIQGKTDKAARIAEESGDKAACYHLARMYENDGDVVKAVKFF  990 (1416)
T ss_pred             chHHHHHHHHHHhcccchHHHHHHHHHhhhhhhheeeEeeccCchHHHHHHHhcccHHHHHHHHHHhhhhHHHHHHHHHH
Confidence            22222222223333455555555554432                        235556667777787888888888877


Q ss_pred             HHHHHCCCCCCHhHHHHHHHHHhcc---------------CchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHH
Q 008280          187 RMMIGLGIRPNASSLSSVLLGCSHL---------------SSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLED  251 (571)
Q Consensus       187 ~~m~~~g~~pd~~t~~~ll~~~~~~---------------~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~  251 (571)
                      .+.+.         |...|..|-..               .+.-.|-++|++.   |.     -..-.+..|-|.|.+.+
T Consensus       991 TrAqa---------fsnAIRlcKEnd~~d~L~nlal~s~~~d~v~aArYyEe~---g~-----~~~~AVmLYHkAGm~~k 1053 (1416)
T KOG3617|consen  991 TRAQA---------FSNAIRLCKENDMKDRLANLALMSGGSDLVSAARYYEEL---GG-----YAHKAVMLYHKAGMIGK 1053 (1416)
T ss_pred             HHHHH---------HHHHHHHHHhcCHHHHHHHHHhhcCchhHHHHHHHHHHc---ch-----hhhHHHHHHHhhcchHH
Confidence            76542         33333332221               1222233333322   10     11224456677777777


Q ss_pred             HHHHHHhhC--------------CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHH
Q 008280          252 ACKLFLEIQ--------------RKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDL  317 (571)
Q Consensus       252 A~~~~~~~~--------------~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~  317 (571)
                      |+++-=+-.              ..|+...+.-..-+..+.++++|..++-..++         |...+..|...|- .-
T Consensus      1054 ALelAF~tqQf~aL~lIa~DLd~~sDp~ll~RcadFF~~~~qyekAV~lL~~ar~---------~~~AlqlC~~~nv-~v 1123 (1416)
T KOG3617|consen 1054 ALELAFRTQQFSALDLIAKDLDAGSDPKLLRRCADFFENNQQYEKAVNLLCLARE---------FSGALQLCKNRNV-RV 1123 (1416)
T ss_pred             HHHHHHhhcccHHHHHHHHhcCCCCCHHHHHHHHHHHHhHHHHHHHHHHHHHHHH---------HHHHHHHHhcCCC-ch
Confidence            765521111              12455555556666677777777777765543         3445555554432 22


Q ss_pred             HHHHHHHhHHhcCCCCC----hHhHHHHHHHHHHcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHHhcCCHhH
Q 008280          318 GIQYFDSMVNDYGIAAK----PDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDL  385 (571)
Q Consensus       318 a~~~~~~~~~~~~~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~  385 (571)
                      ..++-+.|.-...-.|+    ......+.+.+.++|.+..|.+-|.+.+.+  .    .-++++.+.|+.++
T Consensus      1124 tee~aE~mTp~Kd~~~~e~~R~~vLeqvae~c~qQG~Yh~AtKKfTQAGdK--l----~AMraLLKSGdt~K 1189 (1416)
T KOG3617|consen 1124 TEEFAELMTPTKDDMPNEQERKQVLEQVAELCLQQGAYHAATKKFTQAGDK--L----SAMRALLKSGDTQK 1189 (1416)
T ss_pred             hHHHHHhcCcCcCCCccHHHHHHHHHHHHHHHHhccchHHHHHHHhhhhhH--H----HHHHHHHhcCCcce
Confidence            22333333211112222    335566778888999999998888887532  1    22344556666554

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.64  E-value=0.00013  Score=76.59  Aligned_cols=288  Identities=16%  Similarity=0.187  Sum_probs=153.8

Q ss_pred             HHHHHcCChHHHHHHHhhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCHHHHHHHHHHHHHcCChhHHHHHHHH
Q 008280          109 SGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAEDGLKLLRM  188 (571)
Q Consensus       109 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  188 (571)
                      ..+...+-+++|..+|+... .+....+.|+.   .-+.++.|.+.-++..+  +..|..+..+-.+.|...+|++-|-+
T Consensus      1056 ~iai~~~LyEEAF~ifkkf~-~n~~A~~VLie---~i~~ldRA~efAe~~n~--p~vWsqlakAQL~~~~v~dAieSyik 1129 (1666)
T KOG0985|consen 1056 EIAIENQLYEEAFAIFKKFD-MNVSAIQVLIE---NIGSLDRAYEFAERCNE--PAVWSQLAKAQLQGGLVKDAIESYIK 1129 (1666)
T ss_pred             HHHhhhhHHHHHHHHHHHhc-ccHHHHHHHHH---HhhhHHHHHHHHHhhCC--hHHHHHHHHHHHhcCchHHHHHHHHh
Confidence            33444555666666665442 12222222222   12344444444444333  23566666666666666666655532


Q ss_pred             HHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCC-------
Q 008280          189 MIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR-------  261 (571)
Q Consensus       189 m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~-------  261 (571)
                      .      .|+..|..++..+.+.|.+++-..++..+++..-+|.  +-+.|+-+|++.+++.+-+++...-.-       
T Consensus      1130 a------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~--id~eLi~AyAkt~rl~elE~fi~gpN~A~i~~vG 1201 (1666)
T KOG0985|consen 1130 A------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPY--IDSELIFAYAKTNRLTELEEFIAGPNVANIQQVG 1201 (1666)
T ss_pred             c------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCcc--chHHHHHHHHHhchHHHHHHHhcCCCchhHHHHh
Confidence            1      2445566666666666666666666665555543333  334566666666665555444321100       


Q ss_pred             ----------------CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHh
Q 008280          262 ----------------KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSM  325 (571)
Q Consensus       262 ----------------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~  325 (571)
                                      .++.-|..|...+...|++..|.+.-++.      .+..||..+-.+|...+.+..|     +|
T Consensus      1202 drcf~~~~y~aAkl~y~~vSN~a~La~TLV~LgeyQ~AVD~aRKA------ns~ktWK~VcfaCvd~~EFrlA-----Qi 1270 (1666)
T KOG0985|consen 1202 DRCFEEKMYEAAKLLYSNVSNFAKLASTLVYLGEYQGAVDAARKA------NSTKTWKEVCFACVDKEEFRLA-----QI 1270 (1666)
T ss_pred             HHHhhhhhhHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhc------cchhHHHHHHHHHhchhhhhHH-----Hh
Confidence                            14456777888888888888887665543      2566888888888877766544     23


Q ss_pred             HHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHHHHhcCCHhHHHHHHHHHhc-cC-CC--
Q 008280          326 VNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFK-PQPAIFGTLLSACRVHKRLDLAEFAAMNLFN-LN-PA--  399 (571)
Q Consensus       326 ~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~-p~--  399 (571)
                      .- .++-...+-..-|+.-|-..|.+++-+.+++.. +.+ .....|.-|.-.|.+-+ +++..+.++-... ++ |.  
T Consensus      1271 CG-L~iivhadeLeeli~~Yq~rGyFeElIsl~Ea~LGLERAHMgmfTELaiLYskyk-p~km~EHl~LFwsRvNipKvi 1348 (1666)
T KOG0985|consen 1271 CG-LNIIVHADELEELIEYYQDRGYFEELISLLEAGLGLERAHMGMFTELAILYSKYK-PEKMMEHLKLFWSRVNIPKVI 1348 (1666)
T ss_pred             cC-ceEEEehHhHHHHHHHHHhcCcHHHHHHHHHhhhchhHHHHHHHHHHHHHHHhcC-HHHHHHHHHHHHHhcchHHHH
Confidence            21 123334555667888888999999988888765 322 22344555544444332 2222222221111 00 10  


Q ss_pred             ---CCchhHHHHHHHHhhccChhHHHH
Q 008280          400 ---NAAGCYVQLANIYAAMKKWDDVAR  423 (571)
Q Consensus       400 ---~~~~~~~~l~~~~~~~g~~~~a~~  423 (571)
                         +..+.|..|...|.+-..|+.|.-
T Consensus      1349 RA~eqahlW~ElvfLY~~y~eyDNAa~ 1375 (1666)
T KOG0985|consen 1349 RAAEQAHLWSELVFLYDKYEEYDNAAL 1375 (1666)
T ss_pred             HHHHHHHHHHHHHHHHHhhhhhhHHHH
Confidence               011256666666766666666543

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

Probab=98.62  E-value=2.7e-06  Score=76.19  Aligned_cols=119  Identities=6%  Similarity=0.063  Sum_probs=97.5

Q ss_pred             cCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHH-HhcCC--HhHH
Q 008280          312 AGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSAC-RVHKR--LDLA  386 (571)
Q Consensus       312 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~-~~~g~--~~~a  386 (571)
                      .++.+++...++...+  .-+.+...|..+...|...|++++|...|++. ...| +...+..+..++ ...|+  .++|
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            5566777777777665  34667888999999999999999999999887 3334 467777777764 67777  5999


Q ss_pred             HHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhCCC
Q 008280          387 EFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNV  433 (571)
Q Consensus       387 ~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  433 (571)
                      ..+++++++.+|+++. ++..|+..+...|++++|...++++.+...
T Consensus       130 ~~~l~~al~~dP~~~~-al~~LA~~~~~~g~~~~Ai~~~~~aL~l~~  175 (198)
T PRK10370        130 REMIDKALALDANEVT-ALMLLASDAFMQADYAQAIELWQKVLDLNS  175 (198)
T ss_pred             HHHHHHHHHhCCCChh-HHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            9999999999999998 999999999999999999999999987544

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.62  E-value=2.4e-05  Score=81.81  Aligned_cols=421  Identities=14%  Similarity=0.091  Sum_probs=213.8

Q ss_pred             CCCcchHHHHHHHHHhCCCCHHHHHHHHhhCCCCCh---hhHHHH--HHHHHcCCCCHHHHHHHHhhCCC---CChhhHH
Q 008280            3 VKTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQPDV---VSYNIM--LSCILLNSDDVVAAFDFFQRLPI---KDTASWN   74 (571)
Q Consensus         3 ~~~~~~~~~l~~~~~~~~g~~~~A~~~~~~~~~~~~---~~~~~l--l~~~~~~~g~~~~A~~~~~~m~~---~d~~~~~   74 (571)
                      +.|...+..+...|+... .++.|..+.-...+.+.   ..||..  --.|... ++...|..-|+...+   .|...|.
T Consensus       523 atdaeaaaa~adtyae~~-~we~a~~I~l~~~qka~a~~~k~nW~~rG~yyLea-~n~h~aV~~fQsALR~dPkD~n~W~  600 (1238)
T KOG1127|consen  523 ATDAEAAAASADTYAEES-TWEEAFEICLRAAQKAPAFACKENWVQRGPYYLEA-HNLHGAVCEFQSALRTDPKDYNLWL  600 (1238)
T ss_pred             chhhhhHHHHHHHhhccc-cHHHHHHHHHHHhhhchHHHHHhhhhhccccccCc-cchhhHHHHHHHHhcCCchhHHHHH
Confidence            445667778888888888 88888877433333211   223322  2234445 778888877776554   4667788


Q ss_pred             HHHHHHHcCCCHHHHHHHHhhCCCCCcch-HHH--HHHHHHHcCChHHHHHHHhhCC-----------------------
Q 008280           75 TMISGFVQKKNMAKARDLFLAMPEKNSVS-WSA--MISGYIECGQLDKAVELFKVAP-----------------------  128 (571)
Q Consensus        75 ~li~~~~~~g~~~~A~~~~~~m~~~d~~~-~~~--li~~~~~~g~~~~A~~~~~~~~-----------------------  128 (571)
                      .+..+|..+|++..|+++|.+...-++.. |..  ....-+..|.+.+|+..+....                       
T Consensus       601 gLGeAY~~sGry~~AlKvF~kAs~LrP~s~y~~fk~A~~ecd~GkYkeald~l~~ii~~~s~e~~~q~gLaE~~ir~akd  680 (1238)
T KOG1127|consen  601 GLGEAYPESGRYSHALKVFTKASLLRPLSKYGRFKEAVMECDNGKYKEALDALGLIIYAFSLERTGQNGLAESVIRDAKD  680 (1238)
T ss_pred             HHHHHHHhcCceehHHHhhhhhHhcCcHhHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHH
Confidence            88888888888888888887764422221 111  1122334566666655554332                       


Q ss_pred             -----------------------------CCChhHHHH-------------------HHHHHHh----cCCH---H---H
Q 008280          129 -----------------------------VKSVVAWTA-------------------MISGYMK----FGKV---D---L  150 (571)
Q Consensus       129 -----------------------------~~~~~~~~~-------------------li~~~~~----~g~~---~---~  150 (571)
                                                   ..+...|-.                   ++..+.+    .+..   |   -
T Consensus       681 ~~~~gf~~kavd~~eksie~f~~~l~h~~~~~~~~Wi~asdac~~f~q~e~~~vn~h~l~il~~q~e~~~~l~~~d~l~L  760 (1238)
T KOG1127|consen  681 SAITGFQKKAVDFFEKSIESFIVSLIHSLQSDRLQWIVASDACYIFSQEEPSIVNMHYLIILSKQLEKTGALKKNDLLFL  760 (1238)
T ss_pred             HHHHHHhhhhhHHHHHHHHHHHHHHHHhhhhhHHHHHHHhHHHHHHHHhcccchHHHHHHHHHHHHHhcccCcchhHHHH
Confidence                                         001111111                   1111111    0000   0   0


Q ss_pred             HHHHHhhCC--CCCHHHHHHHHHHHHH----cC----ChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHH
Q 008280          151 AEKLFDEMP--TKNLVTWNAMIAGYVE----NS----WAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQV  220 (571)
Q Consensus       151 A~~~~~~~~--~~~~~~~~~li~~~~~----~g----~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~  220 (571)
                      +.+.+-.-.  ..+..+|..++..|.+    .|    +...|+..+.+..+.  ..+...+-..+...+..|++.-+..-
T Consensus       761 g~~c~~~hlsl~~~~~~WyNLGinylr~f~~l~et~~~~~~Ai~c~KkaV~L--~ann~~~WnaLGVlsg~gnva~aQHC  838 (1238)
T KOG1127|consen  761 GYECGIAHLSLAIHMYPWYNLGINYLRYFLLLGETMKDACTAIRCCKKAVSL--CANNEGLWNALGVLSGIGNVACAQHC  838 (1238)
T ss_pred             HHHHhhHHHHHhhccchHHHHhHHHHHHHHHcCCcchhHHHHHHHHHHHHHH--hhccHHHHHHHHHhhccchhhhhhhh
Confidence            000000000  0234567777766655    22    234677888877764  33334344444445666677666665


Q ss_pred             HHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCC---CChhhHHHHHHHHHHcCChHHHHHHHHHH--H--Hc
Q 008280          221 HQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKM--K--DE  293 (571)
Q Consensus       221 ~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m--~--~~  293 (571)
                      |-..+... +....+|..+.-.+.+..+++-|...|.....   .|...|-.+....-..|+.-+++.+|..-  .  ..
T Consensus       839 fIks~~se-p~~~~~W~NlgvL~l~n~d~E~A~~af~~~qSLdP~nl~~WlG~Ali~eavG~ii~~~~lfaHs~el~~~~  917 (1238)
T KOG1127|consen  839 FIKSRFSE-PTCHCQWLNLGVLVLENQDFEHAEPAFSSVQSLDPLNLVQWLGEALIPEAVGRIIERLILFAHSDELCSKE  917 (1238)
T ss_pred             hhhhhhcc-ccchhheeccceeEEecccHHHhhHHHHhhhhcCchhhHHHHHHHHhHHHHHHHHHHHHHHHhhHHhhccc
Confidence            55544443 55677888888888888899999888887764   24556655555455555555555555441  1  11


Q ss_pred             CCCCCH--------------------------------------------HHHHHHHHHHHhcCcHHHHHHHHHHhHHhc
Q 008280          294 GMKPDS--------------------------------------------ITFVALLLACNHAGLVDLGIQYFDSMVNDY  329 (571)
Q Consensus       294 g~~p~~--------------------------------------------~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~  329 (571)
                      |-.|+-                                            ..|........+.+.+..|.....+...-.
T Consensus       918 gka~~f~Yw~c~te~h~~Ng~~e~~I~t~~ki~sAs~al~~yf~~~p~~~fAy~~~gstlEhL~ey~~a~ela~RliglL  997 (1238)
T KOG1127|consen  918 GKAKKFQYWLCATEIHLQNGNIEESINTARKISSASLALSYYFLGHPQLCFAYAANGSTLEHLEEYRAALELATRLIGLL  997 (1238)
T ss_pred             cccchhhHHHHHHHHHHhccchHHHHHHhhhhhhhHHHHHHHHhcCcchhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence            112222                                            233333333333333333333333222110


Q ss_pred             CCCCChHhHHH----HHHHHHHcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCc--h
Q 008280          330 GIAAKPDHYTC----MVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA--G  403 (571)
Q Consensus       330 ~~~~~~~~~~~----li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~--~  403 (571)
                      ..+-+...|+.    +...+...|.++.|..-+...+..-+..+-.+-+.. .-.++++++.+.|++++.+.-++..  .
T Consensus       998 e~k~d~sqynvak~~~gRL~lslgefe~A~~a~~~~~~evdEdi~gt~l~l-Ffkndf~~sl~~fe~aLsis~se~d~vv 1076 (1238)
T KOG1127|consen  998 ELKLDESQYNVAKPDAGRLELSLGEFESAKKASWKEWMEVDEDIRGTDLTL-FFKNDFFSSLEFFEQALSISNSESDKVV 1076 (1238)
T ss_pred             HHHHhhhhhhhhhhhhhhhhhhhcchhhHhhhhcccchhHHHHHhhhhHHH-HHHhHHHHHHHHHHHHhhhcccccchhh
Confidence            11122222221    222333344555444444433322222222222222 3467889999999999875433322  1


Q ss_pred             hHHHHHHHHhhccChhHHHHHHHHHH
Q 008280          404 CYVQLANIYAAMKKWDDVARIRLSMK  429 (571)
Q Consensus       404 ~~~~l~~~~~~~g~~~~a~~~~~~m~  429 (571)
                      ....++.....++.-+.|...+-+..
T Consensus      1077 Ll~kva~~~g~~~~k~~A~~lLfe~~ 1102 (1238)
T KOG1127|consen 1077 LLCKVAVCMGLARQKNDAQFLLFEVK 1102 (1238)
T ss_pred             hhHHHHHHHhhcccchHHHHHHHHHH
Confidence            33345555566777777777654444

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.56  E-value=0.00037  Score=68.52  Aligned_cols=208  Identities=13%  Similarity=0.098  Sum_probs=139.8

Q ss_pred             hhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhcc---CchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHH
Q 008280          179 AEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHL---SSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKL  255 (571)
Q Consensus       179 ~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~---~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~  255 (571)
                      .+++..+++.....-..-+..+|..+...--..   ...+....+++.++..-...-..+|..+++.-.|..-+..|+.+
T Consensus       309 t~e~~~~yEr~I~~l~~~~~~Ly~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~i  388 (656)
T KOG1914|consen  309 TDEAASIYERAIEGLLKENKLLYFALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKI  388 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHH
Confidence            456666777665533333445554444322111   23566667777776654444456778888888888889999999


Q ss_pred             HHhhCCC-----ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHHhcCcHHHHHHHHHHhHHhc
Q 008280          256 FLEIQRK-----DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSI-TFVALLLACNHAGLVDLGIQYFDSMVNDY  329 (571)
Q Consensus       256 ~~~~~~~-----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~  329 (571)
                      |.+..+.     ++...++++.-|+. ++.+-|.++|+--.+.  -+|.. -....+.-+++.++-..++.+|++.... 
T Consensus       389 F~kaR~~~r~~hhVfVa~A~mEy~cs-kD~~~AfrIFeLGLkk--f~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s-  464 (656)
T KOG1914|consen  389 FKKAREDKRTRHHVFVAAALMEYYCS-KDKETAFRIFELGLKK--FGDSPEYVLKYLDFLSHLNDDNNARALFERVLTS-  464 (656)
T ss_pred             HHHHhhccCCcchhhHHHHHHHHHhc-CChhHHHHHHHHHHHh--cCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhc-
Confidence            9988742     67788888887764 6778999999875443  23433 3345677778889999999999999886 


Q ss_pred             CCCCC--hHhHHHHHHHHHHcCCHHHHHHHHHhC----C--CCCCHhHHHHHHHHHHhcCCHhHHHHHH
Q 008280          330 GIAAK--PDHYTCMVDLLGRAGKLVEAVDLIKKM----P--FKPQPAIFGTLLSACRVHKRLDLAEFAA  390 (571)
Q Consensus       330 ~~~~~--~~~~~~li~~~~~~g~~~~A~~~~~~~----~--~~p~~~~~~~l~~~~~~~g~~~~a~~~~  390 (571)
                      +++|+  ...|..+++-=..-|++..+.++-+++    +  ..+....-..+++-|...+.+.--..-+
T Consensus       465 ~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~af~~~qe~~~~~~~~~v~RY~~~d~~~c~~~el  533 (656)
T KOG1914|consen  465 VLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFTAFPADQEYEGNETALFVDRYGILDLYPCSLDEL  533 (656)
T ss_pred             cCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHHhcchhhcCCCChHHHHHHHHhhcccccccHHHH
Confidence            66666  678999999889999999998887766    2  2222233444556666666554433333

>PLN02789 farnesyltranstransferase

Probab=98.55  E-value=3.4e-05  Score=74.25  Aligned_cols=163  Identities=9%  Similarity=0.093  Sum_probs=87.5

Q ss_pred             HHHHHHHHHhhCC---CChhhHHHHHHHHHHcCCh--HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHH
Q 008280          249 LEDACKLFLEIQR---KDVVTWNAMISGYAQHGKG--EKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFD  323 (571)
Q Consensus       249 ~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~--~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~  323 (571)
                      +++++..++++.+   ++..+|+.....+.+.|+.  ++++.+++++.+... -|..+|.....++.+.|+++++++.+.
T Consensus        88 l~eeL~~~~~~i~~npknyqaW~~R~~~l~~l~~~~~~~el~~~~kal~~dp-kNy~AW~~R~w~l~~l~~~~eeL~~~~  166 (320)
T PLN02789         88 LEEELDFAEDVAEDNPKNYQIWHHRRWLAEKLGPDAANKELEFTRKILSLDA-KNYHAWSHRQWVLRTLGGWEDELEYCH  166 (320)
T ss_pred             HHHHHHHHHHHHHHCCcchHHhHHHHHHHHHcCchhhHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHhhhHHHHHHHHH
Confidence            4444444444332   2333444443333334432  344555555554331 234455555555555555555555555


Q ss_pred             HhHHhcCCCCChHhHHHHHHHHHHc---CC----HHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhc----CCHhHHHHHH
Q 008280          324 SMVNDYGIAAKPDHYTCMVDLLGRA---GK----LVEAVDLIKKM-PFKP-QPAIFGTLLSACRVH----KRLDLAEFAA  390 (571)
Q Consensus       324 ~~~~~~~~~~~~~~~~~li~~~~~~---g~----~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~----g~~~~a~~~~  390 (571)
                      ++++.  -+.+...|+.....+.+.   |.    .++++++..++ ...| |...|+.+...+...    ++..+|...+
T Consensus       167 ~~I~~--d~~N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y~~~aI~~~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~  244 (320)
T PLN02789        167 QLLEE--DVRNNSAWNQRYFVITRSPLLGGLEAMRDSELKYTIDAILANPRNESPWRYLRGLFKDDKEALVSDPEVSSVC  244 (320)
T ss_pred             HHHHH--CCCchhHHHHHHHHHHhccccccccccHHHHHHHHHHHHHhCCCCcCHHHHHHHHHhcCCcccccchhHHHHH
Confidence            55542  122334444433333332   21    23445554333 3233 457888888887763    3456688888


Q ss_pred             HHHhccCCCCCchhHHHHHHHHhhc
Q 008280          391 MNLFNLNPANAAGCYVQLANIYAAM  415 (571)
Q Consensus       391 ~~~~~~~p~~~~~~~~~l~~~~~~~  415 (571)
                      .++...+|+.+. ++..|+++|...
T Consensus       245 ~~~~~~~~~s~~-al~~l~d~~~~~  268 (320)
T PLN02789        245 LEVLSKDSNHVF-ALSDLLDLLCEG  268 (320)
T ss_pred             HHhhcccCCcHH-HHHHHHHHHHhh
Confidence            888888888877 888999999864

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.55  E-value=2.5e-06  Score=72.19  Aligned_cols=122  Identities=11%  Similarity=0.024  Sum_probs=82.8

Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CC
Q 008280          285 RLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PF  363 (571)
Q Consensus       285 ~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~  363 (571)
                      .+|++..+.  .|+.  +.....++...|++++|...|.....  --+.+...|..+..++.+.|++++|...|++. ..
T Consensus        14 ~~~~~al~~--~p~~--~~~~g~~~~~~g~~~~A~~~~~~al~--~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l   87 (144)
T PRK15359         14 DILKQLLSV--DPET--VYASGYASWQEGDYSRAVIDFSWLVM--AQPWSWRAHIALAGTWMMLKEYTTAINFYGHALML   87 (144)
T ss_pred             HHHHHHHHc--CHHH--HHHHHHHHHHcCCHHHHHHHHHHHHH--cCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            344554442  3443  44456667777777777777777764  23445667777777777788888888777776 22


Q ss_pred             C-CCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHh
Q 008280          364 K-PQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYA  413 (571)
Q Consensus       364 ~-p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~  413 (571)
                      . .+...|..+..++...|++++|+..++++++..|+++. .+...+.+..
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            2 34567777777788888888888888888888888876 6666665543

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

Probab=98.55  E-value=4.1e-06  Score=82.61  Aligned_cols=247  Identities=13%  Similarity=0.078  Sum_probs=171.2

Q ss_pred             HHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHH
Q 008280          171 AGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLE  250 (571)
Q Consensus       171 ~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~  250 (571)
                      .-+.+.|+..+|.-.|+...+.. +-+...|..|....+..++-..|+..+.+.++.. +.+..+.-+|.-.|...|.-.
T Consensus       293 ~~lm~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~Ld-P~NleaLmaLAVSytNeg~q~  370 (579)
T KOG1125|consen  293 CNLMKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELD-PTNLEALMALAVSYTNEGLQN  370 (579)
T ss_pred             HHHHhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcC-CccHHHHHHHHHHHhhhhhHH
Confidence            34567778888877777777653 3355677777777777777777888777777765 556677777778888888888


Q ss_pred             HHHHHHHhhCCCC-hhhHHHHH---------HHHHHcCChHHHHHHHHHHH-HcCCCCCHHHHHHHHHHHHhcCcHHHHH
Q 008280          251 DACKLFLEIQRKD-VVTWNAMI---------SGYAQHGKGEKALRLFDKMK-DEGMKPDSITFVALLLACNHAGLVDLGI  319 (571)
Q Consensus       251 ~A~~~~~~~~~~~-~~~~~~li---------~~~~~~g~~~~A~~~~~~m~-~~g~~p~~~t~~~ll~a~~~~g~~~~a~  319 (571)
                      .|.+.++.-.... ...|....         ..+..........++|-++. ..+..+|......|.-.|--.|.+++|.
T Consensus       371 ~Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdrai  450 (579)
T KOG1125|consen  371 QALKMLDKWIRNKPKYVHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAV  450 (579)
T ss_pred             HHHHHHHHHHHhCccchhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHH
Confidence            8888877643110 00000000         11111223345556666664 4454467777777777788899999999


Q ss_pred             HHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-HhHHHHHHHHHHhcCCHhHHHHHHHHHhccC
Q 008280          320 QYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQ-PAIFGTLLSACRVHKRLDLAEFAAMNLFNLN  397 (571)
Q Consensus       320 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  397 (571)
                      ..|+..+..  -+.|...|+.|...++...+.++|+..|++. ..+|+ +.++..|.-+|...|.+++|...|-.++.+.
T Consensus       451 Dcf~~AL~v--~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~mq  528 (579)
T KOG1125|consen  451 DCFEAALQV--KPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALSMQ  528 (579)
T ss_pred             HHHHHHHhc--CCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHHhh
Confidence            999999863  3445779999999999999999999999988 67788 4688889999999999999999999888765


Q ss_pred             CCCC---------chhHHHHHHHHhhccChhHH
Q 008280          398 PANA---------AGCYVQLANIYAAMKKWDDV  421 (571)
Q Consensus       398 p~~~---------~~~~~~l~~~~~~~g~~~~a  421 (571)
                      +...         ...|..|=.++.-.++.|-+
T Consensus       529 ~ks~~~~~~~~~se~iw~tLR~als~~~~~D~l  561 (579)
T KOG1125|consen  529 RKSRNHNKAPMASENIWQTLRLALSAMNRSDLL  561 (579)
T ss_pred             hcccccccCCcchHHHHHHHHHHHHHcCCchHH
Confidence            5411         11445555555555554433

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.51  E-value=4e-06  Score=70.98  Aligned_cols=96  Identities=10%  Similarity=-0.125  Sum_probs=86.0

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhh
Q 008280          337 HYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAA  414 (571)
Q Consensus       337 ~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~  414 (571)
                      .+..+...+...|++++|...|+.. ...| +...|..+..++...|++++|...|+++++++|+++. ++..++.++..
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            4666788899999999999999987 3334 5789999999999999999999999999999999999 99999999999


Q ss_pred             ccChhHHHHHHHHHHhCCC
Q 008280          415 MKKWDDVARIRLSMKENNV  433 (571)
Q Consensus       415 ~g~~~~a~~~~~~m~~~~~  433 (571)
                      .|+.++|...++...+...
T Consensus       105 ~g~~~eAi~~~~~Al~~~p  123 (144)
T PRK15359        105 MGEPGLAREAFQTAIKMSY  123 (144)
T ss_pred             cCCHHHHHHHHHHHHHhCC
Confidence            9999999999998876443

>PF12854 PPR_1: PPR repeat

Probab=98.45  E-value=2.9e-07  Score=55.66  Aligned_cols=33  Identities=33%  Similarity=0.587  Sum_probs=23.9

Q ss_pred             CCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhC
Q 008280          228 PLCKDTTALTPLISMYCKCGDLEDACKLFLEIQ  260 (571)
Q Consensus       228 g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~  260 (571)
                      |+.||..+|++||++|++.|++++|.++|++|+
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            566777777777777777777777777777763

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.44  E-value=0.001  Score=65.63  Aligned_cols=388  Identities=12%  Similarity=0.139  Sum_probs=220.2

Q ss_pred             CChhhHHHHHHHHHcCCCCHHHHHHHHhhCCCC---ChhhHHHHHHHHHcCCCHHHHHHHHhhCCC--CCcchHHHHHHH
Q 008280           36 PDVVSYNIMLSCILLNSDDVVAAFDFFQRLPIK---DTASWNTMISGFVQKKNMAKARDLFLAMPE--KNSVSWSAMISG  110 (571)
Q Consensus        36 ~~~~~~~~ll~~~~~~~g~~~~A~~~~~~m~~~---d~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~d~~~~~~li~~  110 (571)
                      -|+.+|+.||.-+ +. ...+++++.++++..+   ....|..-|..-....+++....+|.+-..  -+...|..-+.-
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 YDIDSWSQLIREA-QT-QPIDKVRETYEQLVNVFPSSPRAWKLYIERELASKDFESVEKLFSRCLVKVLNLDLWKLYLSY   95 (656)
T ss_pred             ccHHHHHHHHHHH-cc-CCHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhhHhHHHHHHHH
Confidence            4788999999964 44 5899999999998753   566799999999999999999999987643  467777776654


Q ss_pred             HHH-cCChHHHH----HHHhhC------CCCChhHHHHHHHH---------HHhcCCHHHHHHHHhhCCC----------
Q 008280          111 YIE-CGQLDKAV----ELFKVA------PVKSVVAWTAMISG---------YMKFGKVDLAEKLFDEMPT----------  160 (571)
Q Consensus       111 ~~~-~g~~~~A~----~~~~~~------~~~~~~~~~~li~~---------~~~~g~~~~A~~~~~~~~~----------  160 (571)
                      --+ .|+...++    +.|+-.      ...+-..|+..+..         |..+.+++..+++++++..          
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            333 23333322    222221      22333456665543         4445577788888888763          


Q ss_pred             CCHHHHHHHHHHHH-------HcCChhHHHHHHHHHHH--CCCCCCHhH---------------HHHHHHH---------
Q 008280          161 KNLVTWNAMIAGYV-------ENSWAEDGLKLLRMMIG--LGIRPNASS---------------LSSVLLG---------  207 (571)
Q Consensus       161 ~~~~~~~~li~~~~-------~~g~~~~A~~~~~~m~~--~g~~pd~~t---------------~~~ll~~---------  207 (571)
                      +|-..|..=|+...       +...+..|.++++++..  .|+.....+               |..+|.-         
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            12222222222111       12234455555555532  232111111               1111110         


Q ss_pred             ----------------------------------------HhccCc-------hHHHHHHHHHHHhCCCCCCcchHHHHH
Q 008280          208 ----------------------------------------CSHLSS-------LQLGKQVHQLVFKSPLCKDTTALTPLI  240 (571)
Q Consensus       208 ----------------------------------------~~~~~~-------~~~a~~~~~~~~~~g~~~~~~~~~~li  240 (571)
                                                              +...|+       .+++..+++..+..-...+..+|.++.
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                                                    000111       122223333222211111222222211


Q ss_pred             HHHHhcC---CHHHHHHHHHhhCC----CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHhc
Q 008280          241 SMYCKCG---DLEDACKLFLEIQR----KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKP-DSITFVALLLACNHA  312 (571)
Q Consensus       241 ~~y~~~g---~~~~A~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~  312 (571)
                      +.--..-   ..+.....++++..    .-..+|-..+..-.+..-.+.|..+|.+..+.+..+ +.....+++.-+ ..
T Consensus       336 ~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~-cs  414 (656)
T KOG1914|consen  336 DYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYY-CS  414 (656)
T ss_pred             hhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHH-hc
Confidence            1100000   12222223333221    123456667776667777888888999988887777 444555555544 45


Q ss_pred             CcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC---CCCCC--HhHHHHHHHHHHhcCCHhHHH
Q 008280          313 GLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM---PFKPQ--PAIFGTLLSACRVHKRLDLAE  387 (571)
Q Consensus       313 g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~---~~~p~--~~~~~~l~~~~~~~g~~~~a~  387 (571)
                      ++.+-|.++|+.=.+++|  .++.--...++-+...++-..|..+|++.   ...|+  ..+|..++.--..-|+...+.
T Consensus       415 kD~~~AfrIFeLGLkkf~--d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~  492 (656)
T KOG1914|consen  415 KDKETAFRIFELGLKKFG--DSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSIL  492 (656)
T ss_pred             CChhHHHHHHHHHHHhcC--CChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHH
Confidence            788888999988777543  34455567788888888888888888887   12333  478999988888889988888


Q ss_pred             HHHHHHhccCCC--C-CchhHHHHHHHHhhccChhHHHHHHHHH
Q 008280          388 FAAMNLFNLNPA--N-AAGCYVQLANIYAAMKKWDDVARIRLSM  428 (571)
Q Consensus       388 ~~~~~~~~~~p~--~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m  428 (571)
                      .+-++....-|.  . +...-..+.+-|.=.+.+..-..-++.|
T Consensus       493 ~lekR~~~af~~~qe~~~~~~~~~v~RY~~~d~~~c~~~elk~l  536 (656)
T KOG1914|consen  493 KLEKRRFTAFPADQEYEGNETALFVDRYGILDLYPCSLDELKFL  536 (656)
T ss_pred             HHHHHHHHhcchhhcCCCChHHHHHHHHhhcccccccHHHHHhh
Confidence            888877665551  1 1113456666676666665544444444

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.43  E-value=8.4e-06  Score=72.84  Aligned_cols=127  Identities=17%  Similarity=0.085  Sum_probs=93.3

Q ss_pred             HHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC--CCCCCHhHHHHHHHHHHhc
Q 008280          303 VALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM--PFKPQPAIFGTLLSACRVH  380 (571)
Q Consensus       303 ~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~  380 (571)
                      ..+-.++...|+-+.+..+......  ..+.+......++....+.|++.+|...|++.  +-++|...|+.+..+|.+.
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~--~~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~p~d~~~~~~lgaaldq~  147 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAI--AYPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLAPTDWEAWNLLGAALDQL  147 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhc--cCcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccCCCChhhhhHHHHHHHHc
Confidence            4555666667777777666666543  33445556666777788888888888888777  4456678888888888888


Q ss_pred             CCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhCC
Q 008280          381 KRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENN  432 (571)
Q Consensus       381 g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  432 (571)
                      |++++|...|.+++++.|+++. ....|+..|.-.|+.+.|..++......+
T Consensus       148 Gr~~~Ar~ay~qAl~L~~~~p~-~~nNlgms~~L~gd~~~A~~lll~a~l~~  198 (257)
T COG5010         148 GRFDEARRAYRQALELAPNEPS-IANNLGMSLLLRGDLEDAETLLLPAYLSP  198 (257)
T ss_pred             cChhHHHHHHHHHHHhccCCch-hhhhHHHHHHHcCCHHHHHHHHHHHHhCC
Confidence            8888888888888888888877 88888888888888888888877665433

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.43  E-value=7e-06  Score=68.39  Aligned_cols=118  Identities=10%  Similarity=0.032  Sum_probs=95.9

Q ss_pred             hHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHH
Q 008280          335 PDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIY  412 (571)
Q Consensus       335 ~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~  412 (571)
                      .+..-.+...+...|++++|..+|+-. ...| +..-|..|...|...|++++|+..|.++..++|+++. ++..++.+|
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            444556677778899999999999887 2334 4678999999999999999999999999999999999 999999999


Q ss_pred             hhccChhHHHHHHHHHHhCCCccCCceeEEEECCEEEEEecCCCCCcccHHHHHHHHHHHHHHH
Q 008280          413 AAMKKWDDVARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMK  476 (571)
Q Consensus       413 ~~~g~~~~a~~~~~~m~~~~~~~~~~~s~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~~~~m~  476 (571)
                      ...|+.+.|.+.|+......-                       .+|+..++..+.+.....+.
T Consensus       114 L~lG~~~~A~~aF~~Ai~~~~-----------------------~~~~~~~l~~~A~~~L~~l~  154 (157)
T PRK15363        114 LACDNVCYAIKALKAVVRICG-----------------------EVSEHQILRQRAEKMLQQLS  154 (157)
T ss_pred             HHcCCHHHHHHHHHHHHHHhc-----------------------cChhHHHHHHHHHHHHHHhh
Confidence            999999999999998775221                       24566666666666655554

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

Probab=98.42  E-value=4e-05  Score=82.92  Aligned_cols=214  Identities=16%  Similarity=0.198  Sum_probs=170.4

Q ss_pred             cchHHHHHHHHHHcCChHHHHHHHhhCCCC--------ChhHHHHHHHHHHhcCCHHHHHHHHhhCCC-CC-HHHHHHHH
Q 008280          101 SVSWSAMISGYIECGQLDKAVELFKVAPVK--------SVVAWTAMISGYMKFGKVDLAEKLFDEMPT-KN-LVTWNAMI  170 (571)
Q Consensus       101 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~--------~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-~~-~~~~~~li  170 (571)
                      ...|...|.-..+.++.++|++++++++..        -...|.+++++-..-|.-+...++|++.-+ -| ...|..|.
T Consensus      1458 Si~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqycd~~~V~~~L~ 1537 (1710)
T KOG1070|consen 1458 SILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYCDAYTVHLKLL 1537 (1710)
T ss_pred             chHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhcchHHHHHHHH
Confidence            467888899999999999999999887622        236788888888888888888999999876 23 35788899


Q ss_pred             HHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCC-CCCcchHHHHHHHHHhcCCH
Q 008280          171 AGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPL-CKDTTALTPLISMYCKCGDL  249 (571)
Q Consensus       171 ~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~-~~~~~~~~~li~~y~~~g~~  249 (571)
                      ..|.+.+.+++|.++|+.|.+. ..-....|...+..+.+..+-+.|+.++.++++.-. ...+....-.+.+-.++|+.
T Consensus      1538 ~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEFk~GDa 1616 (1710)
T KOG1070|consen 1538 GIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEFKYGDA 1616 (1710)
T ss_pred             HHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHhhcCCc
Confidence            9999999999999999999874 224556788888888888888999999998887631 22456677778888999999


Q ss_pred             HHHHHHHHhhCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHH--HHHHHHHHHHhcCcH
Q 008280          250 EDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSI--TFVALLLACNHAGLV  315 (571)
Q Consensus       250 ~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~--t~~~ll~a~~~~g~~  315 (571)
                      +.++.+|+....   +-...|+..|..-.++|+.+.+..+|++....++.|-..  .|...+..=.+.|+-
T Consensus      1617 eRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde 1687 (1710)
T KOG1070|consen 1617 ERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDE 1687 (1710)
T ss_pred             hhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCch
Confidence            999999998874   346789999999999999999999999999988877654  444455444444543

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.42  E-value=2.9e-05  Score=82.42  Aligned_cols=140  Identities=10%  Similarity=0.075  Sum_probs=110.5

Q ss_pred             ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHH
Q 008280          263 DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSI-TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCM  341 (571)
Q Consensus       263 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l  341 (571)
                      ++..+-.|.....+.|.+++|+.+++...+.  .|+.. ....+...+.+.+.+++|....++...  .-+-+......+
T Consensus        85 ~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~--~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~--~~p~~~~~~~~~  160 (694)
T PRK15179         85 TELFQVLVARALEAAHRSDEGLAVWRGIHQR--FPDSSEAFILMLRGVKRQQGIEAGRAEIELYFS--GGSSSAREILLE  160 (694)
T ss_pred             cHHHHHHHHHHHHHcCCcHHHHHHHHHHHhh--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhh--cCCCCHHHHHHH
Confidence            5778888888888999999999999988874  56655 566777888999999999999988876  334457777888


Q ss_pred             HHHHHHcCCHHHHHHHHHhCC-CCCC-HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHH
Q 008280          342 VDLLGRAGKLVEAVDLIKKMP-FKPQ-PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQ  407 (571)
Q Consensus       342 i~~~~~~g~~~~A~~~~~~~~-~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~  407 (571)
                      ..++.+.|++++|.++|+++- ..|+ ..+|..+..++...|+.++|...|+++++...+-.. .|..
T Consensus       161 a~~l~~~g~~~~A~~~y~~~~~~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~~~~~-~~~~  227 (694)
T PRK15179        161 AKSWDEIGQSEQADACFERLSRQHPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAIGDGAR-KLTR  227 (694)
T ss_pred             HHHHHHhcchHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhCcchH-HHHH
Confidence            888999999999999998882 2344 678888888899999999999999999886554433 4443

>PLN02789 farnesyltranstransferase

Probab=98.42  E-value=0.00017  Score=69.47  Aligned_cols=208  Identities=13%  Similarity=0.087  Sum_probs=125.7

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHh-HHHHHHHHHhccC-chHHHHHHHHHHHhCCCCCCcchHHHHHHHH
Q 008280          166 WNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNAS-SLSSVLLGCSHLS-SLQLGKQVHQLVFKSPLCKDTTALTPLISMY  243 (571)
Q Consensus       166 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~-t~~~ll~~~~~~~-~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y  243 (571)
                      +..+-..+...+..++|+.++.++++.  .|+.. .|..--..+...| +++++...++.+++.. +.+..+|+...-++
T Consensus        40 ~~~~ra~l~~~e~serAL~lt~~aI~l--nP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~n-pknyqaW~~R~~~l  116 (320)
T PLN02789         40 MDYFRAVYASDERSPRALDLTADVIRL--NPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDN-PKNYQIWHHRRWLA  116 (320)
T ss_pred             HHHHHHHHHcCCCCHHHHHHHHHHHHH--CchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHC-CcchHHhHHHHHHH
Confidence            334444455566677777777776654  34332 3333333444445 4567777777766654 44455566555555


Q ss_pred             HhcCCH--HHHHHHHHhhCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc---Cc-
Q 008280          244 CKCGDL--EDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHA---GL-  314 (571)
Q Consensus       244 ~~~g~~--~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~---g~-  314 (571)
                      .+.|+.  +++..+++.+.+   +|..+|+....++...|+++++++.++++++.++. |...|+.....+.+.   |. 
T Consensus       117 ~~l~~~~~~~el~~~~kal~~dpkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~-N~sAW~~R~~vl~~~~~l~~~  195 (320)
T PLN02789        117 EKLGPDAANKELEFTRKILSLDAKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVR-NNSAWNQRYFVITRSPLLGGL  195 (320)
T ss_pred             HHcCchhhHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCC-chhHHHHHHHHHHhccccccc
Confidence            555542  566777766653   46778888888888888888888888888876644 455555555444443   22 


Q ss_pred             ---HHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHc----CCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHh
Q 008280          315 ---VDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRA----GKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRV  379 (571)
Q Consensus       315 ---~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~----g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~  379 (571)
                         .++...+...++.  ..+-+...|+.+..+|...    ++..+|.+++.+. ...| +......|+..|..
T Consensus       196 ~~~~e~el~y~~~aI~--~~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~~~s~~al~~l~d~~~~  267 (320)
T PLN02789        196 EAMRDSELKYTIDAIL--ANPRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKDSNHVFALSDLLDLLCE  267 (320)
T ss_pred             cccHHHHHHHHHHHHH--hCCCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhcccCCcHHHHHHHHHHHHh
Confidence               2456666656654  2345577787777777763    3446677777665 2233 35566667777654

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

Probab=98.41  E-value=3.5e-05  Score=68.98  Aligned_cols=152  Identities=12%  Similarity=0.108  Sum_probs=111.4

Q ss_pred             HHHHHhcCCHHHHHHHHHhhCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHH
Q 008280          240 ISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGI  319 (571)
Q Consensus       240 i~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~  319 (571)
                      +.+|...|+++......+.+..+. .       .+...++.++++..+++..... +.|...|..+...+...|++++|.
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~~~-~-------~~~~~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A~   93 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLADPL-H-------QFASQQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNAL   93 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhCcc-c-------cccCchhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHH
Confidence            456777888777655544332221 0       1122566677887787776654 446778888888999999999999


Q ss_pred             HHHHHhHHhcCCCCChHhHHHHHHHH-HHcCC--HHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHhHHHHHHHHHh
Q 008280          320 QYFDSMVNDYGIAAKPDHYTCMVDLL-GRAGK--LVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLF  394 (571)
Q Consensus       320 ~~~~~~~~~~~~~~~~~~~~~li~~~-~~~g~--~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  394 (571)
                      ..|++..+-  .+.+...+..+..++ .+.|+  .++|.+++++. ...| +...+..+...+...|++++|+..+++++
T Consensus        94 ~a~~~Al~l--~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL  171 (198)
T PRK10370         94 LAYRQALQL--RGENAELYAALATVLYYQAGQHMTPQTREMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQKVL  171 (198)
T ss_pred             HHHHHHHHh--CCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            999988752  344577888888864 67777  58999999887 3334 46788888888999999999999999999


Q ss_pred             ccCCCCCc
Q 008280          395 NLNPANAA  402 (571)
Q Consensus       395 ~~~p~~~~  402 (571)
                      ++.|.+..
T Consensus       172 ~l~~~~~~  179 (198)
T PRK10370        172 DLNSPRVN  179 (198)
T ss_pred             hhCCCCcc
Confidence            98887765

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.39  E-value=4.5e-05  Score=70.98  Aligned_cols=57  Identities=16%  Similarity=0.145  Sum_probs=31.9

Q ss_pred             HHHHHHhcCcHHHHHHHHHHhHHhcCCCC-ChHhHHHHHHHHHHcCCHHHHHHHHHhC
Q 008280          305 LLLACNHAGLVDLGIQYFDSMVNDYGIAA-KPDHYTCMVDLLGRAGKLVEAVDLIKKM  361 (571)
Q Consensus       305 ll~a~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~~  361 (571)
                      +...+.+.|++++|...+....+.+.-.| ....+..++.++...|++++|...++.+
T Consensus       172 ~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l  229 (235)
T TIGR03302       172 VARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVL  229 (235)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            33445566666666666666655432222 2455556666666666666666665554

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).

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.36  E-value=0.00016  Score=70.41  Aligned_cols=177  Identities=18%  Similarity=0.122  Sum_probs=125.4

Q ss_pred             CHHHHHHHHHhhCC------CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHH
Q 008280          248 DLEDACKLFLEIQR------KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQY  321 (571)
Q Consensus       248 ~~~~A~~~~~~~~~------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~  321 (571)
                      ++.+++..-+.++.      ++.......+.+.........+..++.+-.+  ..-...-|.. .-.....|.+++|+..
T Consensus       252 RIa~lr~ra~q~p~~~~~d~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~--~~~~aa~YG~-A~~~~~~~~~d~A~~~  328 (484)
T COG4783         252 RIADLRNRAEQSPPYNKLDSPDFQLARARIRAKYEALPNQQAADLLAKRSK--RGGLAAQYGR-ALQTYLAGQYDEALKL  328 (484)
T ss_pred             HHHHHHHHHHhCCCCCCCCCccHHHHHHHHHHHhccccccchHHHHHHHhC--ccchHHHHHH-HHHHHHhcccchHHHH
Confidence            44555555556553      2444555555544333333333333322222  1112223333 3345667899999999


Q ss_pred             HHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCC
Q 008280          322 FDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQ-PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPA  399 (571)
Q Consensus       322 ~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~  399 (571)
                      +..+.+  ..+.|+..+....+.+.+.++.++|.+.++++ ...|+ ...+..+..++.+.|++.+|+..+......+|+
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            999887  45566777788889999999999999999888 44566 577888889999999999999999999999999


Q ss_pred             CCchhHHHHHHHHhhccChhHHHHHHHHHHh
Q 008280          400 NAAGCYVQLANIYAAMKKWDDVARIRLSMKE  430 (571)
Q Consensus       400 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  430 (571)
                      ++. .|..|+.+|...|+..++...+.++..
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            999 999999999999999998888876653

>PF12854 PPR_1: PPR repeat

Probab=98.35  E-value=7.9e-07  Score=53.74  Aligned_cols=32  Identities=28%  Similarity=0.484  Sum_probs=23.8

Q ss_pred             CCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC
Q 008280          330 GIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM  361 (571)
Q Consensus       330 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~  361 (571)
                      |+.||..+|++||++|++.|++++|.++|++|
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            66777777777777777777777777777776

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

Probab=98.35  E-value=2.6e-05  Score=79.10  Aligned_cols=192  Identities=13%  Similarity=0.075  Sum_probs=112.9

Q ss_pred             CCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 008280          229 LCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLA  308 (571)
Q Consensus       229 ~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a  308 (571)
                      ++|--..-..+...+..+|-...|..+|+++     ..|...|.+|...|+..+|..+..+-.+  -+||+.-|..+...
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            3444444445555555555555555555543     2344555555555555555555555444  24455555444444


Q ss_pred             HHhc----------------------------CcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHh
Q 008280          309 CNHA----------------------------GLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKK  360 (571)
Q Consensus       309 ~~~~----------------------------g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  360 (571)
                      ....                            ++++++.+.|+.-.+-  .+....+|-.+.-+..+.++++.|.+.|..
T Consensus       467 ~~d~s~yEkawElsn~~sarA~r~~~~~~~~~~~fs~~~~hle~sl~~--nplq~~~wf~~G~~ALqlek~q~av~aF~r  544 (777)
T KOG1128|consen  467 LHDPSLYEKAWELSNYISARAQRSLALLILSNKDFSEADKHLERSLEI--NPLQLGTWFGLGCAALQLEKEQAAVKAFHR  544 (777)
T ss_pred             ccChHHHHHHHHHhhhhhHHHHHhhccccccchhHHHHHHHHHHHhhc--CccchhHHHhccHHHHHHhhhHHHHHHHHH
Confidence            3333                            4455555555444331  123355666666666677777777777765


Q ss_pred             C-CCCCC-HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHh
Q 008280          361 M-PFKPQ-PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  430 (571)
Q Consensus       361 ~-~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  430 (571)
                      . ...|| ...||.+-.+|.+.|+..+|...+.++++-+-++.. .+....-.-.+.|.|++|.+.+.++.+
T Consensus       545 cvtL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~~~w~-iWENymlvsvdvge~eda~~A~~rll~  615 (777)
T KOG1128|consen  545 CVTLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNYQHWQ-IWENYMLVSVDVGEFEDAIKAYHRLLD  615 (777)
T ss_pred             HhhcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCCCCCe-eeechhhhhhhcccHHHHHHHHHHHHH
Confidence            5 34455 467777777777777777777777777776655555 666666666677777777777777654

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.35  E-value=0.00012  Score=78.72  Aligned_cols=166  Identities=13%  Similarity=0.066  Sum_probs=91.6

Q ss_pred             CcchHHHHHHHHHHcCChHHHHHHHhhCCC---CChhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCHHHHHHHHHHHHHc
Q 008280          100 NSVSWSAMISGYIECGQLDKAVELFKVAPV---KSVVAWTAMISGYMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVEN  176 (571)
Q Consensus       100 d~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~  176 (571)
                      +...|..|+..+...+++++|.++.+....   .....|..+...|.+.++.+++..+             .++......
T Consensus        30 n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~P~~i~~yy~~G~l~~q~~~~~~~~lv-------------~~l~~~~~~   96 (906)
T PRK14720         30 KFKELDDLIDAYKSENLTDEAKDICEEHLKEHKKSISALYISGILSLSRRPLNDSNLL-------------NLIDSFSQN   96 (906)
T ss_pred             hHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCcceehHHHHHHHHHhhcchhhhhhh-------------hhhhhcccc
Confidence            445566666666666677776666654432   2223343444455555554444333             233333333


Q ss_pred             CChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHH
Q 008280          177 SWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLF  256 (571)
Q Consensus       177 g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~  256 (571)
                      .++.-...+...|...  .-+...+..+..+|.+.|+.+++..+++.+++.. +.|+.+.|.+...|+.. ++++|++++
T Consensus        97 ~~~~~ve~~~~~i~~~--~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~  172 (906)
T PRK14720         97 LKWAIVEHICDKILLY--GENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYL  172 (906)
T ss_pred             cchhHHHHHHHHHHhh--hhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHH
Confidence            3443333333344332  2233455666666666777777777777776666 55666666677766666 677776666


Q ss_pred             HhhCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHc
Q 008280          257 LEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDE  293 (571)
Q Consensus       257 ~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  293 (571)
                      .+..           ..|...+++.++.++|.++...
T Consensus       173 ~KAV-----------~~~i~~kq~~~~~e~W~k~~~~  198 (906)
T PRK14720        173 KKAI-----------YRFIKKKQYVGIEEIWSKLVHY  198 (906)
T ss_pred             HHHH-----------HHHHhhhcchHHHHHHHHHHhc
Confidence            5532           2355556666666666666654

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.30  E-value=0.00014  Score=77.38  Aligned_cols=142  Identities=11%  Similarity=0.063  Sum_probs=116.5

Q ss_pred             CCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCC--C-ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCH-HHHHH
Q 008280          229 LCKDTTALTPLISMYCKCGDLEDACKLFLEIQR--K-DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDS-ITFVA  304 (571)
Q Consensus       229 ~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~t~~~  304 (571)
                      .+.++..+..|.......|.+++|+.+++...+  | +...+..++.++.+.+++++|+..+++....  .|+. .....
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            456688889999999999999999999999874  3 5667888999999999999999999999875  4555 45666


Q ss_pred             HHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC--CCCCCHhHHHHHH
Q 008280          305 LLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM--PFKPQPAIFGTLL  374 (571)
Q Consensus       305 ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l~  374 (571)
                      +..++.+.|++++|..+|+++..  ..+-+...+..+...+...|+.++|...|++.  ...|....|+.++
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            77888999999999999999986  33444788999999999999999999999988  2234455555444

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.29  E-value=0.00015  Score=65.10  Aligned_cols=155  Identities=14%  Similarity=0.140  Sum_probs=109.1

Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHH
Q 008280          268 NAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGR  347 (571)
Q Consensus       268 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~  347 (571)
                      ..+-..+...|+.+....+....... ..-|.......+....+.|++.+|...+++...  .-++|...|+.+.-+|.+
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            44556666677777777766664432 122333444566777778888888888877765  566777888888888888


Q ss_pred             cCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHH
Q 008280          348 AGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIR  425 (571)
Q Consensus       348 ~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~  425 (571)
                      .|++++|..-|.+. ...| ++...+.|...+.-.|+++.|+.++.......+.++. +-..|+.+....|++++|..+.
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            88888887777665 2223 3566777777788888888888888888777777766 7778888888888888887664


Q ss_pred             H
Q 008280          426 L  426 (571)
Q Consensus       426 ~  426 (571)
                      .
T Consensus       226 ~  226 (257)
T COG5010         226 V  226 (257)
T ss_pred             c
Confidence            3

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

Probab=98.26  E-value=3.3e-05  Score=78.38  Aligned_cols=155  Identities=18%  Similarity=0.161  Sum_probs=123.2

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHH
Q 008280          267 WNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLG  346 (571)
Q Consensus       267 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~  346 (571)
                      -..+...+...|-...|+.+|++...         +..++..|...|+..+|..+..+..++   +|++..|..+.+...
T Consensus       401 q~~laell~slGitksAl~I~Erlem---------w~~vi~CY~~lg~~~kaeei~~q~lek---~~d~~lyc~LGDv~~  468 (777)
T KOG1128|consen  401 QRLLAELLLSLGITKSALVIFERLEM---------WDPVILCYLLLGQHGKAEEINRQELEK---DPDPRLYCLLGDVLH  468 (777)
T ss_pred             HHHHHHHHHHcchHHHHHHHHHhHHH---------HHHHHHHHHHhcccchHHHHHHHHhcC---CCcchhHHHhhhhcc
Confidence            34567788899999999999998653         455777888899999999988777653   788888888887655


Q ss_pred             HcCCHHHHHHHHHhC-----------------------------CCCC-CHhHHHHHHHHHHhcCCHhHHHHHHHHHhcc
Q 008280          347 RAGKLVEAVDLIKKM-----------------------------PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNL  396 (571)
Q Consensus       347 ~~g~~~~A~~~~~~~-----------------------------~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  396 (571)
                      ..--+++|.++++..                             .+.| ...+|-.+..+..+.++.+.|.+.|...+.+
T Consensus       469 d~s~yEkawElsn~~sarA~r~~~~~~~~~~~fs~~~~hle~sl~~nplq~~~wf~~G~~ALqlek~q~av~aF~rcvtL  548 (777)
T KOG1128|consen  469 DPSLYEKAWELSNYISARAQRSLALLILSNKDFSEADKHLERSLEINPLQLGTWFGLGCAALQLEKEQAAVKAFHRCVTL  548 (777)
T ss_pred             ChHHHHHHHHHhhhhhHHHHHhhccccccchhHHHHHHHHHHHhhcCccchhHHHhccHHHHHHhhhHHHHHHHHHHhhc
Confidence            544455555544332                             2222 2457888878888999999999999999999


Q ss_pred             CCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhCCCc
Q 008280          397 NPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVV  434 (571)
Q Consensus       397 ~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  434 (571)
                      +|++.. .|+.+.-+|.+.|+-.+|...+++..+.+..
T Consensus       549 ~Pd~~e-aWnNls~ayi~~~~k~ra~~~l~EAlKcn~~  585 (777)
T KOG1128|consen  549 EPDNAE-AWNNLSTAYIRLKKKKRAFRKLKEALKCNYQ  585 (777)
T ss_pred             CCCchh-hhhhhhHHHHHHhhhHHHHHHHHHHhhcCCC
Confidence            999998 9999999999999999999999999887643

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.26  E-value=1.4e-05  Score=67.19  Aligned_cols=97  Identities=18%  Similarity=0.184  Sum_probs=73.2

Q ss_pred             hHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHH
Q 008280          335 PDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIY  412 (571)
Q Consensus       335 ~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~  412 (571)
                      ......+...+...|++++|.+.|+.. ...| +...|..+...+...|++++|...++++++.+|+++. .+..++.+|
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            445566677777778888888777776 2223 4567777777888888888888888888888888877 888888888


Q ss_pred             hhccChhHHHHHHHHHHhCC
Q 008280          413 AAMKKWDDVARIRLSMKENN  432 (571)
Q Consensus       413 ~~~g~~~~a~~~~~~m~~~~  432 (571)
                      ...|++++|.+.++...+..
T Consensus        96 ~~~g~~~~A~~~~~~al~~~  115 (135)
T TIGR02552        96 LALGEPESALKALDLAIEIC  115 (135)
T ss_pred             HHcCCHHHHHHHHHHHHHhc
Confidence            88888888888887776643

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.22  E-value=0.00047  Score=67.29  Aligned_cols=147  Identities=14%  Similarity=0.119  Sum_probs=117.2

Q ss_pred             ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHH-HHHHHHhcCcHHHHHHHHHHhHHhcCCCCC-hHhHHH
Q 008280          263 DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVA-LLLACNHAGLVDLGIQYFDSMVNDYGIAAK-PDHYTC  340 (571)
Q Consensus       263 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~-ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~  340 (571)
                      ....+.-..-.+...|++++|+..++.+...  .|+...|.. ....+...++.++|.+.++.+..   ..|+ ....-.
T Consensus       305 ~~aa~YG~A~~~~~~~~~d~A~~~l~~L~~~--~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~---l~P~~~~l~~~  379 (484)
T COG4783         305 GLAAQYGRALQTYLAGQYDEALKLLQPLIAA--QPDNPYYLELAGDILLEANKAKEAIERLKKALA---LDPNSPLLQLN  379 (484)
T ss_pred             chHHHHHHHHHHHHhcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHh---cCCCccHHHHH
Confidence            3344444555667789999999999998875  566655554 45788999999999999999986   3555 667778


Q ss_pred             HHHHHHHcCCHHHHHHHHHhC--CCCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccCh
Q 008280          341 MVDLLGRAGKLVEAVDLIKKM--PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKW  418 (571)
Q Consensus       341 li~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~  418 (571)
                      +.++|.+.|++.+|+.++++.  ..+.|+..|..|..+|...|+..++.                  ...+..|.-.|+|
T Consensus       380 ~a~all~~g~~~eai~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~------------------~A~AE~~~~~G~~  441 (484)
T COG4783         380 LAQALLKGGKPQEAIRILNRYLFNDPEDPNGWDLLAQAYAELGNRAEAL------------------LARAEGYALAGRL  441 (484)
T ss_pred             HHHHHHhcCChHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCchHHHH------------------HHHHHHHHhCCCH
Confidence            899999999999999999887  33456789999999999999977654                  4556678889999


Q ss_pred             hHHHHHHHHHHhCC
Q 008280          419 DDVARIRLSMKENN  432 (571)
Q Consensus       419 ~~a~~~~~~m~~~~  432 (571)
                      ++|........++.
T Consensus       442 ~~A~~~l~~A~~~~  455 (484)
T COG4783         442 EQAIIFLMRASQQV  455 (484)
T ss_pred             HHHHHHHHHHHHhc
Confidence            99999988887654

>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=8.1e-05  Score=73.13  Aligned_cols=128  Identities=13%  Similarity=0.129  Sum_probs=101.5

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHhhCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCc
Q 008280          235 ALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGL  314 (571)
Q Consensus       235 ~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~  314 (571)
                      ...+|+..+...++++.|..+|+++.+.++..+..++..+...++-.+|++++.+..... +-+...+..-...|...++
T Consensus       171 Lv~~Ll~~l~~t~~~~~ai~lle~L~~~~pev~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl~k~~  249 (395)
T PF09295_consen  171 LVDTLLKYLSLTQRYDEAIELLEKLRERDPEVAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLLSKKK  249 (395)
T ss_pred             HHHHHHHHHhhcccHHHHHHHHHHHHhcCCcHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCC
Confidence            344566667778899999999999988887777788888888888889999999888653 2345555555667888999


Q ss_pred             HHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhCCCCC
Q 008280          315 VDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKP  365 (571)
Q Consensus       315 ~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p  365 (571)
                      ++.|..+.+++.+  -.+.+..+|..|+.+|.+.|+++.|+-.++.+|.-+
T Consensus       250 ~~lAL~iAk~av~--lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~Pm~~  298 (395)
T PF09295_consen  250 YELALEIAKKAVE--LSPSEFETWYQLAECYIQLGDFENALLALNSCPMLT  298 (395)
T ss_pred             HHHHHHHHHHHHH--hCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCcCCC
Confidence            9999999998875  234446689999999999999999999999987544

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=98.16  E-value=0.0013  Score=70.81  Aligned_cols=234  Identities=9%  Similarity=0.056  Sum_probs=136.6

Q ss_pred             CChhhHHHHHHHHHcCCCHHHHHHHHhhCCC--CCc-chHHHHHHHHHHcCChHHHHHHHhhCCCCChhHHHHHHHHHHh
Q 008280           68 KDTASWNTMISGFVQKKNMAKARDLFLAMPE--KNS-VSWSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMK  144 (571)
Q Consensus        68 ~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~d~-~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~  144 (571)
                      .+...|..|+..|...+++++|.++.+...+  |+. ..|-.+...+.+.++..++..+             .+++....
T Consensus        29 ~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~P~~i~~yy~~G~l~~q~~~~~~~~lv-------------~~l~~~~~   95 (906)
T PRK14720         29 SKFKELDDLIDAYKSENLTDEAKDICEEHLKEHKKSISALYISGILSLSRRPLNDSNLL-------------NLIDSFSQ   95 (906)
T ss_pred             chHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCcceehHHHHHHHHHhhcchhhhhhh-------------hhhhhccc
Confidence            3556777788888788888888888775543  332 3344444466666665555443             22222223


Q ss_pred             cCCHHHHHHHHhhCCC--CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHH
Q 008280          145 FGKVDLAEKLFDEMPT--KNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQ  222 (571)
Q Consensus       145 ~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~  222 (571)
                      ..++.-...+.+.|..  .+..++..+..+|-+.|+.++|...++++.+.. +-|....+.+...++.. ++++|.+++.
T Consensus        96 ~~~~~~ve~~~~~i~~~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~  173 (906)
T PRK14720         96 NLKWAIVEHICDKILLYGENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLK  173 (906)
T ss_pred             ccchhHHHHHHHHHHhhhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHH
Confidence            3333222233333322  233466677788888888888888888887765 44666777777777777 8888887777


Q ss_pred             HHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHc-CCCCCHHH
Q 008280          223 LVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDE-GMKPDSIT  301 (571)
Q Consensus       223 ~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-g~~p~~~t  301 (571)
                      .++..               |....++..+.+++.++...++.-.             +.-+.+.+.+... |..--..+
T Consensus       174 KAV~~---------------~i~~kq~~~~~e~W~k~~~~~~~d~-------------d~f~~i~~ki~~~~~~~~~~~~  225 (906)
T PRK14720        174 KAIYR---------------FIKKKQYVGIEEIWSKLVHYNSDDF-------------DFFLRIERKVLGHREFTRLVGL  225 (906)
T ss_pred             HHHHH---------------HHhhhcchHHHHHHHHHHhcCcccc-------------hHHHHHHHHHHhhhccchhHHH
Confidence            66543               5556677777777777765443322             2222233333222 22223345


Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHH
Q 008280          302 FVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLG  346 (571)
Q Consensus       302 ~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~  346 (571)
                      +.-+-..|...++++++..+++.+.+.  -+.+.....-+++.|.
T Consensus       226 ~~~l~~~y~~~~~~~~~i~iLK~iL~~--~~~n~~a~~~l~~~y~  268 (906)
T PRK14720        226 LEDLYEPYKALEDWDEVIYILKKILEH--DNKNNKAREELIRFYK  268 (906)
T ss_pred             HHHHHHHHhhhhhhhHHHHHHHHHHhc--CCcchhhHHHHHHHHH
Confidence            555566677777788888888877752  2233444444555443

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.16  E-value=0.0017  Score=58.44  Aligned_cols=69  Identities=12%  Similarity=0.137  Sum_probs=30.9

Q ss_pred             HHHHHHHHHhC--CCCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhH
Q 008280          351 LVEAVDLIKKM--PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDD  420 (571)
Q Consensus       351 ~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~  420 (571)
                      +.+|.-+|+++  +..|+..+.+....++...|++++|+.+++.++..+|+++. +...++-.--..|+-.+
T Consensus       189 ~qdAfyifeE~s~k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~dpe-tL~Nliv~a~~~Gkd~~  259 (299)
T KOG3081|consen  189 IQDAFYIFEELSEKTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAKDPE-TLANLIVLALHLGKDAE  259 (299)
T ss_pred             hhhHHHHHHHHhcccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCCCHH-HHHHHHHHHHHhCCChH
Confidence            33444444444  12344444444444444444445554444444444444444 44444444444444433

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.14  E-value=0.0012  Score=59.30  Aligned_cols=154  Identities=14%  Similarity=0.136  Sum_probs=70.7

Q ss_pred             HHHHhcCCHHHHHHHHHhhCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----cCcHH
Q 008280          241 SMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNH----AGLVD  316 (571)
Q Consensus       241 ~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~----~g~~~  316 (571)
                      ..|...|++++|.+.......-+....  =...+.+..+.+-|.+.+++|.+-   -+..|.+.|..++.+    .+.+.
T Consensus       116 ~i~~~~~~~deAl~~~~~~~~lE~~Al--~VqI~lk~~r~d~A~~~lk~mq~i---ded~tLtQLA~awv~la~ggek~q  190 (299)
T KOG3081|consen  116 IIYMHDGDFDEALKALHLGENLEAAAL--NVQILLKMHRFDLAEKELKKMQQI---DEDATLTQLAQAWVKLATGGEKIQ  190 (299)
T ss_pred             HHhhcCCChHHHHHHHhccchHHHHHH--HHHHHHHHHHHHHHHHHHHHHHcc---chHHHHHHHHHHHHHHhccchhhh
Confidence            344555555555555554221122222  223334444555555555555542   134444444444332    23445


Q ss_pred             HHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC--CCCCCHhHHHHHHHHHHhcCC-HhHHHHHHHHH
Q 008280          317 LGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM--PFKPQPAIFGTLLSACRVHKR-LDLAEFAAMNL  393 (571)
Q Consensus       317 ~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~g~-~~~a~~~~~~~  393 (571)
                      .|.-+|++|.+  ..+|++.+.+....+....|++++|..++++.  ....++.+...++..-...|. .+.-.+...++
T Consensus       191 dAfyifeE~s~--k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~dpetL~Nliv~a~~~Gkd~~~~~r~l~QL  268 (299)
T KOG3081|consen  191 DAFYIFEELSE--KTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAKDPETLANLIVLALHLGKDAEVTERNLSQL  268 (299)
T ss_pred             hHHHHHHHHhc--ccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCCChHHHHHHHHHH
Confidence            55555555543  24555555555555555555555555555554  112233344333333333333 33344555566


Q ss_pred             hccCCCCC
Q 008280          394 FNLNPANA  401 (571)
Q Consensus       394 ~~~~p~~~  401 (571)
                      ....|+.+
T Consensus       269 k~~~p~h~  276 (299)
T KOG3081|consen  269 KLSHPEHP  276 (299)
T ss_pred             HhcCCcch
Confidence            66666554

>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=98.14  E-value=5e-05  Score=74.57  Aligned_cols=122  Identities=16%  Similarity=0.151  Sum_probs=95.4

Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC--CCCCCHhHHHHHHHHHHh
Q 008280          302 FVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM--PFKPQPAIFGTLLSACRV  379 (571)
Q Consensus       302 ~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~  379 (571)
                      ...++..+...++++.|..+|+++.+.   .|+  ....++..+...++-.+|.+++++.  ..+.+...+......|..
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            345566667777888888888887754   244  4445777777778888888887766  222355666666777889


Q ss_pred             cCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHH
Q 008280          380 HKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMK  429 (571)
Q Consensus       380 ~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  429 (571)
                      .++++.|+.+++++.+..|++.. +|..|+.+|.+.|++++|+..++.+-
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 99999999999999999999888764

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=98.14  E-value=9.5e-05  Score=62.00  Aligned_cols=113  Identities=12%  Similarity=0.053  Sum_probs=87.1

Q ss_pred             HHHHHHHcCCCCCH-HHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CC
Q 008280          286 LFDKMKDEGMKPDS-ITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PF  363 (571)
Q Consensus       286 ~~~~m~~~g~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~  363 (571)
                      +|++....  .|+. .....+...+...|++++|.+.++.+...  .+.+...+..+...|.+.|++++|...+++. ..
T Consensus         5 ~~~~~l~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~   80 (135)
T TIGR02552         5 TLKDLLGL--DSEQLEQIYALAYNLYQQGRYDEALKLFQLLAAY--DPYNSRYWLGLAACCQMLKEYEEAIDAYALAAAL   80 (135)
T ss_pred             hHHHHHcC--ChhhHHHHHHHHHHHHHcccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            44555443  3433 44556677788889999999999888763  3456788888899999999999999988877 23


Q ss_pred             CC-CHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCc
Q 008280          364 KP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA  402 (571)
Q Consensus       364 ~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~  402 (571)
                      .| +...+..+...+...|++++|...++++++++|++..
T Consensus        81 ~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~  120 (135)
T TIGR02552        81 DPDDPRPYFHAAECLLALGEPESALKALDLAIEICGENPE  120 (135)
T ss_pred             CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccch
Confidence            33 4677788888899999999999999999999998864

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.12  E-value=4.5e-06  Score=51.16  Aligned_cols=35  Identities=34%  Similarity=0.677  Sum_probs=32.1

Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCH
Q 008280          164 VTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNA  198 (571)
Q Consensus       164 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~  198 (571)
                      ++||++|.+|++.|++++|.++|++|.+.|++||.
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            37999999999999999999999999999999973

This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.11  E-value=5.7e-06  Score=50.70  Aligned_cols=34  Identities=44%  Similarity=0.859  Sum_probs=31.2

Q ss_pred             hhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCC
Q 008280          265 VTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPD  298 (571)
Q Consensus       265 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  298 (571)
                      .+||++|.+|++.|++++|.++|++|.+.|+.||
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            4799999999999999999999999999999987

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.

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.08  E-value=0.0014  Score=58.56  Aligned_cols=186  Identities=14%  Similarity=0.146  Sum_probs=101.5

Q ss_pred             CchHHHHHHHHHHHh---CC-CCCCcc-hHHHHHHHHHhcCCHHHHHHHHHhhCCCChhhHHHH---HHHHHHcCChHHH
Q 008280          212 SSLQLGKQVHQLVFK---SP-LCKDTT-ALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAM---ISGYAQHGKGEKA  283 (571)
Q Consensus       212 ~~~~~a~~~~~~~~~---~g-~~~~~~-~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~l---i~~~~~~g~~~~A  283 (571)
                      .+.++..++...++.   .| ..++.. ++.-++-+...+|+.+.|..+++.+..+-+.++...   ..-+-..|++++|
T Consensus        26 rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~fp~S~RV~~lkam~lEa~~~~~~A  105 (289)
T KOG3060|consen   26 RNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRFPGSKRVGKLKAMLLEATGNYKEA  105 (289)
T ss_pred             cCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhCCCChhHHHHHHHHHHHhhchhhH
Confidence            455666666655543   23 334433 234445555566777777777766554222221111   1123345667777


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-C
Q 008280          284 LRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-P  362 (571)
Q Consensus       284 ~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~  362 (571)
                      +++++...+.+ +.|.+++.-=+...-..|..-+|++-+....+  .+..|.+.|.-+.+.|...|++++|.-.++++ -
T Consensus       106 ~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~--~F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll  182 (289)
T KOG3060|consen  106 IEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLD--KFMNDQEAWHELAEIYLSEGDFEKAAFCLEELLL  182 (289)
T ss_pred             HHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHH--HhcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHH
Confidence            77777766654 33445555444444455555566666666665  35666667777777777777777776666666 1


Q ss_pred             CCC-CHhHHHHHHHHHHh---cCCHhHHHHHHHHHhccCCCC
Q 008280          363 FKP-QPAIFGTLLSACRV---HKRLDLAEFAAMNLFNLNPAN  400 (571)
Q Consensus       363 ~~p-~~~~~~~l~~~~~~---~g~~~~a~~~~~~~~~~~p~~  400 (571)
                      +.| ++..+..+...+.-   ..+.+.+...|.+++++.|.+
T Consensus       183 ~~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~~~~  224 (289)
T KOG3060|consen  183 IQPFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLNPKN  224 (289)
T ss_pred             cCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhChHh
Confidence            222 33444555544322   235556666667777666644

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.07  E-value=0.00084  Score=59.85  Aligned_cols=159  Identities=16%  Similarity=0.234  Sum_probs=90.4

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHH-HHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHH
Q 008280          269 AMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVAL-LLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGR  347 (571)
Q Consensus       269 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~l-l~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~  347 (571)
                      .++-+....|+.+-|...++++...-  |.+.-...+ ..-+...|++++|.++++.+.++  -+.|..++-.-+.+.-.
T Consensus        57 qV~IAAld~~~~~lAq~C~~~L~~~f--p~S~RV~~lkam~lEa~~~~~~A~e~y~~lL~d--dpt~~v~~KRKlAilka  132 (289)
T KOG3060|consen   57 QVFIAALDTGRDDLAQKCINQLRDRF--PGSKRVGKLKAMLLEATGNYKEAIEYYESLLED--DPTDTVIRKRKLAILKA  132 (289)
T ss_pred             HHHHHHHHhcchHHHHHHHHHHHHhC--CCChhHHHHHHHHHHHhhchhhHHHHHHHHhcc--CcchhHHHHHHHHHHHH
Confidence            33444455666666766666665542  333211111 11234456666777777766653  24445555555555555


Q ss_pred             cCCHHHHHHHHHhC--CCCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhcc---ChhHHH
Q 008280          348 AGKLVEAVDLIKKM--PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMK---KWDDVA  422 (571)
Q Consensus       348 ~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g---~~~~a~  422 (571)
                      .|+--+|++-+.+.  .+..|...|.-|...|...|+++.|...+++++=..|-++. .|..+++.+.-.|   +.+-|.
T Consensus       133 ~GK~l~aIk~ln~YL~~F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll~~P~n~l-~f~rlae~~Yt~gg~eN~~~ar  211 (289)
T KOG3060|consen  133 QGKNLEAIKELNEYLDKFMNDQEAWHELAEIYLSEGDFEKAAFCLEELLLIQPFNPL-YFQRLAEVLYTQGGAENLELAR  211 (289)
T ss_pred             cCCcHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHHcCCCcHH-HHHHHHHHHHHHhhHHHHHHHH
Confidence            66655666555444  23356667777777777777777777777777767776666 6666666655444   333466


Q ss_pred             HHHHHHHhCC
Q 008280          423 RIRLSMKENN  432 (571)
Q Consensus       423 ~~~~~m~~~~  432 (571)
                      +++.+..+.+
T Consensus       212 kyy~~alkl~  221 (289)
T KOG3060|consen  212 KYYERALKLN  221 (289)
T ss_pred             HHHHHHHHhC
Confidence            6666555443

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=97.98  E-value=1.3e-05  Score=48.76  Aligned_cols=33  Identities=24%  Similarity=0.448  Sum_probs=29.7

Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCC
Q 008280          164 VTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRP  196 (571)
Q Consensus       164 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  196 (571)
                      .+||.++.+|++.|+++.|.++|++|.+.|++|
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            589999999999999999999999999988887

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=97.96  E-value=1.6e-05  Score=48.29  Aligned_cols=33  Identities=45%  Similarity=0.836  Sum_probs=27.6

Q ss_pred             hhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCC
Q 008280          265 VTWNAMISGYAQHGKGEKALRLFDKMKDEGMKP  297 (571)
Q Consensus       265 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  297 (571)
                      .+|+.++.+|++.|+++.|.++|++|.+.|++|
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            578888888888888888888888888888776

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=97.95  E-value=0.00035  Score=59.31  Aligned_cols=85  Identities=18%  Similarity=0.092  Sum_probs=38.5

Q ss_pred             HHHHHHHcCCHHHHHHHHHhCC-CCCCH----hHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhc
Q 008280          341 MVDLLGRAGKLVEAVDLIKKMP-FKPQP----AIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAM  415 (571)
Q Consensus       341 li~~~~~~g~~~~A~~~~~~~~-~~p~~----~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~  415 (571)
                      +...+...|++++|...|+... ..||.    .....|...+...|++++|+..++... ..+-.+. .+..++++|.+.
T Consensus        54 lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d~Al~~L~~~~-~~~~~~~-~~~~~Gdi~~~~  131 (145)
T PF09976_consen   54 LAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYDEALATLQQIP-DEAFKAL-AAELLGDIYLAQ  131 (145)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHhcc-CcchHHH-HHHHHHHHHHHC
Confidence            3344444555555555554441 11221    223334444555555555555554421 1111222 445555666666


Q ss_pred             cChhHHHHHHHH
Q 008280          416 KKWDDVARIRLS  427 (571)
Q Consensus       416 g~~~~a~~~~~~  427 (571)
                      |++++|...|+.
T Consensus       132 g~~~~A~~~y~~  143 (145)
T PF09976_consen  132 GDYDEARAAYQK  143 (145)
T ss_pred             CCHHHHHHHHHH
Confidence            666666655543

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=97.94  E-value=0.041  Score=58.02  Aligned_cols=399  Identities=16%  Similarity=0.113  Sum_probs=203.5

Q ss_pred             CHHHHHHHHhhCCC--CChhhHHHHHHHH--HcCCCCHHHHHHHHhhCC---CCChhhHHHHHHHHHcCCCHHHHHHHHh
Q 008280           22 KLKDAQELFDKIPQ--PDVVSYNIMLSCI--LLNSDDVVAAFDFFQRLP---IKDTASWNTMISGFVQKKNMAKARDLFL   94 (571)
Q Consensus        22 ~~~~A~~~~~~~~~--~~~~~~~~ll~~~--~~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~g~~~~A~~~~~   94 (571)
                      ++..|.+..++..+  ||.. |...+.++  .+. |..++|..+++...   ..|..|...+-.+|...|+.++|..+|+
T Consensus        24 qfkkal~~~~kllkk~Pn~~-~a~vLkaLsl~r~-gk~~ea~~~Le~~~~~~~~D~~tLq~l~~~y~d~~~~d~~~~~Ye  101 (932)
T KOG2053|consen   24 QFKKALAKLGKLLKKHPNAL-YAKVLKALSLFRL-GKGDEALKLLEALYGLKGTDDLTLQFLQNVYRDLGKLDEAVHLYE  101 (932)
T ss_pred             HHHHHHHHHHHHHHHCCCcH-HHHHHHHHHHHHh-cCchhHHHHHhhhccCCCCchHHHHHHHHHHHHHhhhhHHHHHHH
Confidence            66666666666654  4443 33333333  355 77788887776653   2467777778888888888888888888


Q ss_pred             hCCC--CCcchHHHHHHHHHHcCChH----HHHHHHhhCCCCChhHHHHHHHHHHhcC----------CHHHHHHHHhhC
Q 008280           95 AMPE--KNSVSWSAMISGYIECGQLD----KAVELFKVAPVKSVVAWTAMISGYMKFG----------KVDLAEKLFDEM  158 (571)
Q Consensus        95 ~m~~--~d~~~~~~li~~~~~~g~~~----~A~~~~~~~~~~~~~~~~~li~~~~~~g----------~~~~A~~~~~~~  158 (571)
                      +..+  |+......+..+|++.+++.    .|+++++.. +.+++.+=+.++.+.+.-          -+.-|.+.++.+
T Consensus       102 ~~~~~~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~~-pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA~~m~~~~  180 (932)
T KOG2053|consen  102 RANQKYPSEELLYHLFMAYVREKSYKKQQKAALQLYKNF-PKRAYYFWSVISLILQSIFSENELLDPILLALAEKMVQKL  180 (932)
T ss_pred             HHHhhCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC-CcccchHHHHHHHHHHhccCCcccccchhHHHHHHHHHHH
Confidence            8765  44445555666777766554    345555533 333433333444433321          123455566655


Q ss_pred             CCCC-H----HHHHHHHHHHHHcCChhHHHHHHHHHH-HCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCC
Q 008280          159 PTKN-L----VTWNAMIAGYVENSWAEDGLKLLRMMI-GLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKD  232 (571)
Q Consensus       159 ~~~~-~----~~~~~li~~~~~~g~~~~A~~~~~~m~-~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~  232 (571)
                      .+.+ .    .-...-...+-..|.+++|++++..=. +.-...+...-+.-+..+...+++.+..++-.+++..|.. |
T Consensus       181 l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll~k~~D-d  259 (932)
T KOG2053|consen  181 LEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLLEKGND-D  259 (932)
T ss_pred             hccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHHHhCCc-c
Confidence            5433 1    111112233445677888887773322 2212223333345555566677777777777777776622 2


Q ss_pred             cchHHHHHHHHHh----------------cCCHHHHHHHHHhhCC-CChhhHHHHHHHHH---HcCChHHHHHHHHHHHH
Q 008280          233 TTALTPLISMYCK----------------CGDLEDACKLFLEIQR-KDVVTWNAMISGYA---QHGKGEKALRLFDKMKD  292 (571)
Q Consensus       233 ~~~~~~li~~y~~----------------~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~---~~g~~~~A~~~~~~m~~  292 (571)
                         |...++.+.+                .+.++...+..++... +....|-+-+.++.   .-|+.++++..|-+-  
T Consensus       260 ---y~~~~~sv~klLe~~~~~~a~~~~s~~~~l~~~~ek~~~~i~~~~Rgp~LA~lel~kr~~~~gd~ee~~~~y~~k--  334 (932)
T KOG2053|consen  260 ---YKIYTDSVFKLLELLNKEPAEAAHSLSKSLDECIEKAQKNIGSKSRGPYLARLELDKRYKLIGDSEEMLSYYFKK--  334 (932)
T ss_pred             ---hHHHHHHHHHHHHhcccccchhhhhhhhhHHHHHHHHHHhhcccccCcHHHHHHHHHHhcccCChHHHHHHHHHH--
Confidence               3333332221                1222222222222221 11222333333333   346666655443321  


Q ss_pred             cCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChH-------hHHHHHHHHHHcCCH-----HHHHHHHHh
Q 008280          293 EGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPD-------HYTCMVDLLGRAGKL-----VEAVDLIKK  360 (571)
Q Consensus       293 ~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~-------~~~~li~~~~~~g~~-----~~A~~~~~~  360 (571)
                      -|-.|   .+..=+..|...=..++-..++.....   ..++..       -+.+.+....-.|.+     +.-..++.+
T Consensus       335 fg~kp---cc~~Dl~~yl~~l~~~q~~~l~~~l~~---~~~~~s~~~k~l~~h~c~l~~~rl~G~~~~l~ad~i~a~~~k  408 (932)
T KOG2053|consen  335 FGDKP---CCAIDLNHYLGHLNIDQLKSLMSKLVL---ADDDSSGDEKVLQQHLCVLLLLRLLGLYEKLPADSILAYVRK  408 (932)
T ss_pred             hCCCc---HhHhhHHHhhccCCHHHHHHHHHHhhc---cCCcchhhHHHHHHHHHHHHHHHHhhccccCChHHHHHHHHH
Confidence            12222   111111122221122222223222221   111111       122223222233321     111112211


Q ss_pred             C------C------CCCC---------HhHHHHHHHHHHhcCCHh---HHHHHHHHHhccCCCCCchhHHHHHHHHhhcc
Q 008280          361 M------P------FKPQ---------PAIFGTLLSACRVHKRLD---LAEFAAMNLFNLNPANAAGCYVQLANIYAAMK  416 (571)
Q Consensus       361 ~------~------~~p~---------~~~~~~l~~~~~~~g~~~---~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g  416 (571)
                      .      |      .-|.         ..+.+.|+..+++.++..   +|+-+++..+...|.+.. +-..|+.+|+-.|
T Consensus       409 l~~~ye~gls~~K~ll~TE~~~g~~~llLav~~Lid~~rktnd~~~l~eaI~LLE~glt~s~hnf~-~KLlLiriY~~lG  487 (932)
T KOG2053|consen  409 LKLTYEKGLSLSKDLLPTEYSFGDELLLLAVNHLIDLWRKTNDLTDLFEAITLLENGLTKSPHNFQ-TKLLLIRIYSYLG  487 (932)
T ss_pred             HHHHHhccccccccccccccccHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhcCCccHH-HHHHHHHHHHHhc
Confidence            1      1      1112         125567888898888755   677777888888999987 8889999999999


Q ss_pred             ChhHHHHHHHHHHhCCCccC
Q 008280          417 KWDDVARIRLSMKENNVVKM  436 (571)
Q Consensus       417 ~~~~a~~~~~~m~~~~~~~~  436 (571)
                      -+..|.+.++.+--++|..+
T Consensus       488 a~p~a~~~y~tLdIK~IQ~D  507 (932)
T KOG2053|consen  488 AFPDAYELYKTLDIKNIQTD  507 (932)
T ss_pred             CChhHHHHHHhcchHHhhhc
Confidence            99999999998876666543

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.91  E-value=0.02  Score=58.38  Aligned_cols=180  Identities=16%  Similarity=0.170  Sum_probs=92.3

Q ss_pred             HHHHHHHHhhCCCCChhhHHHHHHHHHcCCCCHHHHHHHHhhCCC-CC------------hhhHHHHHHHHHcCCCHHHH
Q 008280           23 LKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQRLPI-KD------------TASWNTMISGFVQKKNMAKA   89 (571)
Q Consensus        23 ~~~A~~~~~~~~~~~~~~~~~ll~~~~~~~g~~~~A~~~~~~m~~-~d------------~~~~~~li~~~~~~g~~~~A   89 (571)
                      +++|.+..+.-  |.+..|..|....... -.++-|...|-+... +.            .....+=|.+|  -|++++|
T Consensus       679 ledA~qfiEdn--PHprLWrllAe~Al~K-l~l~tAE~AFVrc~dY~Gik~vkrl~~i~s~~~q~aei~~~--~g~feea  753 (1189)
T KOG2041|consen  679 LEDAIQFIEDN--PHPRLWRLLAEYALFK-LALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRAEISAF--YGEFEEA  753 (1189)
T ss_pred             hHHHHHHHhcC--CchHHHHHHHHHHHHH-HhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhHhHhhh--hcchhHh
Confidence            66666655533  4455666665554444 556666665554432 11            11112222232  2666777


Q ss_pred             HHHHhhCCCCCcchHHHHHHHHHHcCChHHHHHHHhhCCCCC-----hhHHHHHHH-------------HHHhcC-----
Q 008280           90 RDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAPVKS-----VVAWTAMIS-------------GYMKFG-----  146 (571)
Q Consensus        90 ~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-----~~~~~~li~-------------~~~~~g-----  146 (571)
                      .+++-+|.++|.     .|..+.+.|+|-...++++..-..+     ...++.+.+             .|.++|     
T Consensus       754 ek~yld~drrDL-----Aielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~~~e~~  828 (1189)
T KOG2041|consen  754 EKLYLDADRRDL-----AIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCGDTENQ  828 (1189)
T ss_pred             hhhhhccchhhh-----hHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccchHhH
Confidence            777666655542     3444555556655555555432111     022333332             233333     


Q ss_pred             --------CHHHHHHHHhhCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHH
Q 008280          147 --------KVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGK  218 (571)
Q Consensus       147 --------~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~  218 (571)
                              ++++-+.+-..+++ |....-.|...+...|.-++|.+.|-+--    .|     ...+..|..++++.+|.
T Consensus       829 ~ecly~le~f~~LE~la~~Lpe-~s~llp~~a~mf~svGMC~qAV~a~Lr~s----~p-----kaAv~tCv~LnQW~~av  898 (1189)
T KOG2041|consen  829 IECLYRLELFGELEVLARTLPE-DSELLPVMADMFTSVGMCDQAVEAYLRRS----LP-----KAAVHTCVELNQWGEAV  898 (1189)
T ss_pred             HHHHHHHHhhhhHHHHHHhcCc-ccchHHHHHHHHHhhchHHHHHHHHHhcc----Cc-----HHHHHHHHHHHHHHHHH
Confidence                    33333333333333 44456678888888999898888775432    22     23455677777777776


Q ss_pred             HHHH
Q 008280          219 QVHQ  222 (571)
Q Consensus       219 ~~~~  222 (571)
                      ++-+
T Consensus       899 elaq  902 (1189)
T KOG2041|consen  899 ELAQ  902 (1189)
T ss_pred             HHHH
Confidence            6544

>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=97.91  E-value=0.00012  Score=56.42  Aligned_cols=92  Identities=20%  Similarity=0.244  Sum_probs=69.2

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhc
Q 008280          338 YTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAM  415 (571)
Q Consensus       338 ~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~  415 (571)
                      +..+...+...|++++|.+.+++. ...| +...+..+...+...|++++|...+++.....|.++. .+..++.++...
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~~~~~~~   81 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAK-AYYNLGLAYYKL   81 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchh-HHHHHHHHHHHH
Confidence            445666677778888888887765 2223 3356777777778888888888888888888888776 788888888888


Q ss_pred             cChhHHHHHHHHHHh
Q 008280          416 KKWDDVARIRLSMKE  430 (571)
Q Consensus       416 g~~~~a~~~~~~m~~  430 (571)
                      |++++|...++...+
T Consensus        82 ~~~~~a~~~~~~~~~   96 (100)
T cd00189          82 GKYEEALEAYEKALE   96 (100)
T ss_pred             HhHHHHHHHHHHHHc
Confidence            888888888877654

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=97.89  E-value=0.00093  Score=56.69  Aligned_cols=125  Identities=14%  Similarity=0.122  Sum_probs=78.0

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCC--hHhHHHHH
Q 008280          267 WNAMISGYAQHGKGEKALRLFDKMKDEGMKPD--SITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAK--PDHYTCMV  342 (571)
Q Consensus       267 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~--~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~--~~~~~~li  342 (571)
                      |..++..+ ..++...+...++.+........  ......+...+...|++++|...|+.+... ...|.  ......|.
T Consensus        15 y~~~~~~~-~~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~-~~d~~l~~~a~l~LA   92 (145)
T PF09976_consen   15 YEQALQAL-QAGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALAN-APDPELKPLARLRLA   92 (145)
T ss_pred             HHHHHHHH-HCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh-CCCHHHHHHHHHHHH
Confidence            33344444 46777777777777776532111  123333456677778888888888887764 21222  22344567


Q ss_pred             HHHHHcCCHHHHHHHHHhCCC-CCCHhHHHHHHHHHHhcCCHhHHHHHHHHH
Q 008280          343 DLLGRAGKLVEAVDLIKKMPF-KPQPAIFGTLLSACRVHKRLDLAEFAAMNL  393 (571)
Q Consensus       343 ~~~~~~g~~~~A~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~  393 (571)
                      ..+...|++++|+..++..+. ......+..+...+...|+.++|...|+++
T Consensus        93 ~~~~~~~~~d~Al~~L~~~~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen   93 RILLQQGQYDEALATLQQIPDEAFKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHcCCHHHHHHHHHhccCcchHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            777788888888888877532 123455666677788888888888888765

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.87  E-value=1.4e-05  Score=60.66  Aligned_cols=77  Identities=18%  Similarity=0.254  Sum_probs=42.4

Q ss_pred             CCHHHHHHHHHhC----CCCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHH
Q 008280          349 GKLVEAVDLIKKM----PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARI  424 (571)
Q Consensus       349 g~~~~A~~~~~~~----~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~  424 (571)
                      |++++|+.+++++    |..|+...|..+..++.+.|++++|..++++ .+.+|.++. ....++.+|.+.|++++|+++
T Consensus         3 ~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~~~~~-~~~l~a~~~~~l~~y~eAi~~   80 (84)
T PF12895_consen    3 GNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDPSNPD-IHYLLARCLLKLGKYEEAIKA   80 (84)
T ss_dssp             T-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHHCHHH-HHHHHHHHHHHTT-HHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCCCCHH-HHHHHHHHHHHhCCHHHHHHH
Confidence            4555555555554    2111334444456666666666666666666 555555444 555556667777777777666


Q ss_pred             HHH
Q 008280          425 RLS  427 (571)
Q Consensus       425 ~~~  427 (571)
                      +++
T Consensus        81 l~~   83 (84)
T PF12895_consen   81 LEK   83 (84)
T ss_dssp             HHH
T ss_pred             Hhc
Confidence            653

>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=97.83  E-value=3.6e-05  Score=55.86  Aligned_cols=64  Identities=14%  Similarity=0.105  Sum_probs=58.5

Q ss_pred             CHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhcc-ChhHHHHHHHHHHh
Q 008280          366 QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMK-KWDDVARIRLSMKE  430 (571)
Q Consensus       366 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g-~~~~a~~~~~~m~~  430 (571)
                      ++.+|..+...+...|++++|+..|+++++.+|+++. +|..++.+|...| ++++|.+.+++..+
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            5678899999999999999999999999999999988 9999999999999 79999999987765

...

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.83  E-value=0.00028  Score=57.49  Aligned_cols=92  Identities=13%  Similarity=0.100  Sum_probs=44.6

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHhC-CCCCC----HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCC---CchhHHHHHH
Q 008280          339 TCMVDLLGRAGKLVEAVDLIKKM-PFKPQ----PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPAN---AAGCYVQLAN  410 (571)
Q Consensus       339 ~~li~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~---~~~~~~~l~~  410 (571)
                      ..++..+.+.|++++|.+.|+++ ...|+    ...+..+..++...|+++.|...++++....|++   +. ++..++.
T Consensus         6 ~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~-~~~~~~~   84 (119)
T TIGR02795         6 YDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPD-ALLKLGM   84 (119)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccH-HHHHHHH
Confidence            33444444555555555555444 11111    1233444555555555555555555555554443   22 4455555


Q ss_pred             HHhhccChhHHHHHHHHHHhC
Q 008280          411 IYAAMKKWDDVARIRLSMKEN  431 (571)
Q Consensus       411 ~~~~~g~~~~a~~~~~~m~~~  431 (571)
                      ++.+.|++++|.+.++.+.+.
T Consensus        85 ~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        85 SLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHhCChHHHHHHHHHHHHH
Confidence            555555555555555555443

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.80  E-value=0.00045  Score=56.22  Aligned_cols=102  Identities=17%  Similarity=0.176  Sum_probs=65.8

Q ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCC-ChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC----HhHHHHHH
Q 008280          301 TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAA-KPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQ----PAIFGTLL  374 (571)
Q Consensus       301 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~l~  374 (571)
                      ++..+...+...|++++|...|..+...+.-.+ ....+..+..++.+.|++++|.+.|+.+ ...|+    ..++..+.
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            344555566666777777777776665321111 1344555677777777777777777765 11222    35667777


Q ss_pred             HHHHhcCCHhHHHHHHHHHhccCCCCCc
Q 008280          375 SACRVHKRLDLAEFAAMNLFNLNPANAA  402 (571)
Q Consensus       375 ~~~~~~g~~~~a~~~~~~~~~~~p~~~~  402 (571)
                      .++...|+.++|...++++++..|+++.
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~~p~~~~  111 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKRYPGSSA  111 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHHCcCChh
Confidence            7788888888888888888888887754

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.

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.79  E-value=0.00085  Score=63.95  Aligned_cols=269  Identities=12%  Similarity=0.030  Sum_probs=163.2

Q ss_pred             HHHHHHHhcCCHHHHHHHHhhCCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCC-HhHHHHHHHHHhccC
Q 008280          137 AMISGYMKFGKVDLAEKLFDEMPT---KNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPN-ASSLSSVLLGCSHLS  212 (571)
Q Consensus       137 ~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd-~~t~~~ll~~~~~~~  212 (571)
                      ...+.+.+..++.+|++.+....+   .+..-|..-...+...|++++|+--.++-.+.  +|. .....-.-..+...+
T Consensus        54 ~~gn~~yk~k~Y~nal~~yt~Ai~~~pd~a~yy~nRAa~~m~~~~~~~a~~dar~~~r~--kd~~~k~~~r~~~c~~a~~  131 (486)
T KOG0550|consen   54 EEGNAFYKQKTYGNALKNYTFAIDMCPDNASYYSNRAATLMMLGRFEEALGDARQSVRL--KDGFSKGQLREGQCHLALS  131 (486)
T ss_pred             hhcchHHHHhhHHHHHHHHHHHHHhCccchhhhchhHHHHHHHHhHhhcccchhhheec--CCCccccccchhhhhhhhH
Confidence            344566667777777777766553   34455666777777778888777666555442  222 223444444455555


Q ss_pred             chHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCC-----CChhhHHHH-HHHHHHcCChHHHHHH
Q 008280          213 SLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR-----KDVVTWNAM-ISGYAQHGKGEKALRL  286 (571)
Q Consensus       213 ~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~-----~~~~~~~~l-i~~~~~~g~~~~A~~~  286 (571)
                      +..+|.+.++.         ...+           ....|+..++.+..     |.-.+|..+ ..++...|+.++|...
T Consensus       132 ~~i~A~~~~~~---------~~~~-----------~~anal~~~~~~~~s~s~~pac~~a~~lka~cl~~~~~~~~a~~e  191 (486)
T KOG0550|consen  132 DLIEAEEKLKS---------KQAY-----------KAANALPTLEKLAPSHSREPACFKAKLLKAECLAFLGDYDEAQSE  191 (486)
T ss_pred             HHHHHHHHhhh---------hhhh-----------HHhhhhhhhhcccccccCCchhhHHHHhhhhhhhhcccchhHHHH
Confidence            55555555441         0000           11122222222221     122333333 2345567777777776


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHh-------------HHHHHHHHHHcCCHHH
Q 008280          287 FDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDH-------------YTCMVDLLGRAGKLVE  353 (571)
Q Consensus       287 ~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~-------------~~~li~~~~~~g~~~~  353 (571)
                      --...+... .+......-..++-..++.+.+...|++.++   +.|+-..             +.-=.+...+.|++.+
T Consensus       192 a~~ilkld~-~n~~al~vrg~~~yy~~~~~ka~~hf~qal~---ldpdh~~sk~~~~~~k~le~~k~~gN~~fk~G~y~~  267 (486)
T KOG0550|consen  192 AIDILKLDA-TNAEALYVRGLCLYYNDNADKAINHFQQALR---LDPDHQKSKSASMMPKKLEVKKERGNDAFKNGNYRK  267 (486)
T ss_pred             HHHHHhccc-chhHHHHhcccccccccchHHHHHHHhhhhc---cChhhhhHHhHhhhHHHHHHHHhhhhhHhhccchhH
Confidence            655554321 1111111111233445677777777776652   3444221             1112344567899999


Q ss_pred             HHHHHHhC-C-----CCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHH
Q 008280          354 AVDLIKKM-P-----FKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLS  427 (571)
Q Consensus       354 A~~~~~~~-~-----~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  427 (571)
                      |.+.|.+. .     .+|++..|.....+..+.|+.++|+.--+.+++++|.... .|..-++++...++|++|.+-++.
T Consensus       268 A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD~syik-all~ra~c~l~le~~e~AV~d~~~  346 (486)
T KOG0550|consen  268 AYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKIDSSYIK-ALLRRANCHLALEKWEEAVEDYEK  346 (486)
T ss_pred             HHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcCHHHHH-HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999877 3     3455667777777888999999999999999999999887 999999999999999999999988


Q ss_pred             HHhCC
Q 008280          428 MKENN  432 (571)
Q Consensus       428 m~~~~  432 (571)
                      ..+..
T Consensus       347 a~q~~  351 (486)
T KOG0550|consen  347 AMQLE  351 (486)
T ss_pred             HHhhc
Confidence            76543

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.77  E-value=0.00038  Score=68.66  Aligned_cols=95  Identities=15%  Similarity=0.132  Sum_probs=54.5

Q ss_pred             HHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCH
Q 008280          306 LLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRL  383 (571)
Q Consensus       306 l~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~  383 (571)
                      ...+...|++++|...|.++++.  .+.+...|..+..+|.+.|++++|+..++++ ...| +...|..+..+|...|++
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            33445556666666666666542  2333555555666666666666666666555 2223 344555556666666666


Q ss_pred             hHHHHHHHHHhccCCCCCc
Q 008280          384 DLAEFAAMNLFNLNPANAA  402 (571)
Q Consensus       384 ~~a~~~~~~~~~~~p~~~~  402 (571)
                      ++|+..|+++++++|+++.
T Consensus        87 ~eA~~~~~~al~l~P~~~~  105 (356)
T PLN03088         87 QTAKAALEKGASLAPGDSR  105 (356)
T ss_pred             HHHHHHHHHHHHhCCCCHH
Confidence            6666666666666666654

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.75  E-value=6.6e-05  Score=53.68  Aligned_cols=59  Identities=19%  Similarity=0.143  Sum_probs=48.3

Q ss_pred             HHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhCC
Q 008280          373 LLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENN  432 (571)
Q Consensus       373 l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  432 (571)
                      +...+...|++++|+..|+++++.+|+++. .+..++.++...|++++|...+++..+..
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~-a~~~lg~~~~~~g~~~~A~~~~~~a~~~~   61 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPDNPE-AWYLLGRILYQQGRYDEALAYYERALELD   61 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTTHHH-HHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHH-HHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            455677888888999999988888888887 88888888888899999888888876543

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.74  E-value=0.07  Score=54.64  Aligned_cols=187  Identities=15%  Similarity=0.133  Sum_probs=114.0

Q ss_pred             CCHHHHHHHHhhCCCCChhhHHHHHHHHHcCCCHHHHHHHHhhCCC-CCcc------------hHHHHHHHHHHcCChHH
Q 008280           53 DDVVAAFDFFQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPE-KNSV------------SWSAMISGYIECGQLDK  119 (571)
Q Consensus        53 g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~-~d~~------------~~~~li~~~~~~g~~~~  119 (571)
                      =.+++|.+..+.-  |.+..|..|...-.+.-.++.|...|-+... +.+.            .-.+=+.+  --|++++
T Consensus       677 vgledA~qfiEdn--PHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY~Gik~vkrl~~i~s~~~q~aei~~--~~g~fee  752 (1189)
T KOG2041|consen  677 VGLEDAIQFIEDN--PHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRAEISA--FYGEFEE  752 (1189)
T ss_pred             hchHHHHHHHhcC--CchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhHhHhh--hhcchhH
Confidence            3567788877764  4556788887777777777777777766543 1111            01111222  3589999


Q ss_pred             HHHHHhhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCCC--C---HHHHHHHHHHHHHcCChhHHHHHHHHHHHCCC
Q 008280          120 AVELFKVAPVKSVVAWTAMISGYMKFGKVDLAEKLFDEMPTK--N---LVTWNAMIAGYVENSWAEDGLKLLRMMIGLGI  194 (571)
Q Consensus       120 A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~--~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  194 (571)
                      |.++|-.+..+|.     .+.++.+.|++-...++++.-...  |   ..+|+.+...++....|++|.+.|..-..   
T Consensus       753 aek~yld~drrDL-----Aielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~~---  824 (1189)
T KOG2041|consen  753 AEKLYLDADRRDL-----AIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCGD---  824 (1189)
T ss_pred             hhhhhhccchhhh-----hHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc---
Confidence            9999988866654     466778888888888887654321  1   24788888888888888888887765321   


Q ss_pred             CCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCCC
Q 008280          195 RPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRK  262 (571)
Q Consensus       195 ~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~  262 (571)
                         .   ...+.++.+..++++-+.+-.     .++.+....-.+.+|+.+.|.-++|.+.|-+...|
T Consensus       825 ---~---e~~~ecly~le~f~~LE~la~-----~Lpe~s~llp~~a~mf~svGMC~qAV~a~Lr~s~p  881 (1189)
T KOG2041|consen  825 ---T---ENQIECLYRLELFGELEVLAR-----TLPEDSELLPVMADMFTSVGMCDQAVEAYLRRSLP  881 (1189)
T ss_pred             ---h---HhHHHHHHHHHhhhhHHHHHH-----hcCcccchHHHHHHHHHhhchHHHHHHHHHhccCc
Confidence               1   112333333333333322222     13445555666667777777777776666655443

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.71  E-value=4.7e-05  Score=45.02  Aligned_cols=31  Identities=48%  Similarity=0.939  Sum_probs=23.8

Q ss_pred             hhHHHHHHHHHHcCChHHHHHHHHHHHHcCC
Q 008280          265 VTWNAMISGYAQHGKGEKALRLFDKMKDEGM  295 (571)
Q Consensus       265 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  295 (571)
                      ++||.|+++|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            4678888888888888888888888877653

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.

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.69  E-value=4.3e-05  Score=45.19  Aligned_cols=31  Identities=35%  Similarity=0.588  Sum_probs=23.9

Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHHHHCCC
Q 008280          164 VTWNAMIAGYVENSWAEDGLKLLRMMIGLGI  194 (571)
Q Consensus       164 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  194 (571)
                      ++||+|+++|.+.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            3678888888888888888888888877663

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.

>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=97.66  E-value=0.00071  Score=51.95  Aligned_cols=89  Identities=15%  Similarity=0.162  Sum_probs=39.8

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHH
Q 008280          267 WNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLG  346 (571)
Q Consensus       267 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~  346 (571)
                      |..+...+...|++++|...|++..+.. +.+...+..+...+...|++++|.+.++.....  .+.+...+..+...+.
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~   79 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALEL--DPDNAKAYYNLGLAYY   79 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC--CCcchhHHHHHHHHHH
Confidence            3444555555555555555555554432 112233444444455555555555555544431  1222233334444444


Q ss_pred             HcCCHHHHHHHH
Q 008280          347 RAGKLVEAVDLI  358 (571)
Q Consensus       347 ~~g~~~~A~~~~  358 (571)
                      ..|+.++|...+
T Consensus        80 ~~~~~~~a~~~~   91 (100)
T cd00189          80 KLGKYEEALEAY   91 (100)
T ss_pred             HHHhHHHHHHHH
Confidence            444444444433

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.63  E-value=0.00062  Score=59.73  Aligned_cols=82  Identities=16%  Similarity=0.077  Sum_probs=62.2

Q ss_pred             hHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC----HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHH
Q 008280          335 PDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQ----PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLA  409 (571)
Q Consensus       335 ~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~  409 (571)
                      ...+..+...|.+.|++++|...|++. ...|+    ...+..+...+...|++++|+..++++++..|+++. .+..++
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            345566667777777777777777765 11122    357778888888999999999999999999998877 888888


Q ss_pred             HHHhhccC
Q 008280          410 NIYAAMKK  417 (571)
Q Consensus       410 ~~~~~~g~  417 (571)
                      .+|...|+
T Consensus       114 ~~~~~~g~  121 (172)
T PRK02603        114 VIYHKRGE  121 (172)
T ss_pred             HHHHHcCC
Confidence            88888776

>PRK15331 chaperone protein SicA; Provisional

Probab=97.62  E-value=0.0015  Score=54.88  Aligned_cols=89  Identities=16%  Similarity=0.038  Sum_probs=76.9

Q ss_pred             HHHHHHHcCCHHHHHHHHHhC--CCCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccCh
Q 008280          341 MVDLLGRAGKLVEAVDLIKKM--PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKW  418 (571)
Q Consensus       341 li~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~  418 (571)
                      ..--+...|++++|..+|+-+  --.-+..-|..|..+|...+++++|+..|..+..+++++|. ++...+.+|...|+.
T Consensus        43 ~Ay~~y~~Gk~~eA~~~F~~L~~~d~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~dp~-p~f~agqC~l~l~~~  121 (165)
T PRK15331         43 HAYEFYNQGRLDEAETFFRFLCIYDFYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKNDYR-PVFFTGQCQLLMRKA  121 (165)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCC-ccchHHHHHHHhCCH
Confidence            344456789999999999877  11245667899999999999999999999999999999998 999999999999999


Q ss_pred             hHHHHHHHHHHh
Q 008280          419 DDVARIRLSMKE  430 (571)
Q Consensus       419 ~~a~~~~~~m~~  430 (571)
                      +.|...|....+
T Consensus       122 ~~A~~~f~~a~~  133 (165)
T PRK15331        122 AKARQCFELVNE  133 (165)
T ss_pred             HHHHHHHHHHHh
Confidence            999999998776

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.62  E-value=0.00066  Score=62.22  Aligned_cols=100  Identities=14%  Similarity=0.115  Sum_probs=77.1

Q ss_pred             HHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-HhHHHHHHHHHHhcCCHhHH
Q 008280          309 CNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQ-PAIFGTLLSACRVHKRLDLA  386 (571)
Q Consensus       309 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~g~~~~a  386 (571)
                      ..+.+++.+|+..|...++  -.+-++..|..-..+|.+.|.++.|.+-.+.. .+.|. ..+|..|..+|...|++++|
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            4567788888888888875  23445666777788888889888888877766 55555 46899999999999999999


Q ss_pred             HHHHHHHhccCCCCCchhHHHHHHH
Q 008280          387 EFAAMNLFNLNPANAAGCYVQLANI  411 (571)
Q Consensus       387 ~~~~~~~~~~~p~~~~~~~~~l~~~  411 (571)
                      ++.|+++++++|++.. ....|-.+
T Consensus       169 ~~aykKaLeldP~Ne~-~K~nL~~A  192 (304)
T KOG0553|consen  169 IEAYKKALELDPDNES-YKSNLKIA  192 (304)
T ss_pred             HHHHHhhhccCCCcHH-HHHHHHHH
Confidence            9999999999999975 44444433

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.61  E-value=0.0039  Score=64.39  Aligned_cols=61  Identities=20%  Similarity=0.112  Sum_probs=32.1

Q ss_pred             hHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHh
Q 008280          368 AIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  430 (571)
Q Consensus       368 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  430 (571)
                      ..+.++.-.....|++++|...++++++++|+ .. +|..++.+|...|+.++|.+.+++...
T Consensus       421 ~~~~ala~~~~~~g~~~~A~~~l~rAl~L~ps-~~-a~~~lG~~~~~~G~~~eA~~~~~~A~~  481 (517)
T PRK10153        421 RIYEILAVQALVKGKTDEAYQAINKAIDLEMS-WL-NYVLLGKVYELKGDNRLAADAYSTAFN  481 (517)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-HH-HHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            44444444444455555555555555555553 33 555555555555555555555555443

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.60  E-value=0.0012  Score=65.27  Aligned_cols=103  Identities=11%  Similarity=0.020  Sum_probs=81.6

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHc
Q 008280          269 AMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRA  348 (571)
Q Consensus       269 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~  348 (571)
                      .....+...|++++|+.+|++.++.. +-+...|..+..++...|++++|...++.+++.  -+.+...|..+..+|...
T Consensus         7 ~~a~~a~~~~~~~~Ai~~~~~Al~~~-P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l--~P~~~~a~~~lg~~~~~l   83 (356)
T PLN03088          7 DKAKEAFVDDDFALAVDLYTQAIDLD-PNNAELYADRAQANIKLGNFTEAVADANKAIEL--DPSLAKAYLRKGTACMKL   83 (356)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHh
Confidence            34556778899999999999998864 235667888889999999999999999999863  344577888999999999


Q ss_pred             CCHHHHHHHHHhC-CCCCCHhHHHHHH
Q 008280          349 GKLVEAVDLIKKM-PFKPQPAIFGTLL  374 (571)
Q Consensus       349 g~~~~A~~~~~~~-~~~p~~~~~~~l~  374 (571)
                      |++++|+..|++. ...|+.......+
T Consensus        84 g~~~eA~~~~~~al~l~P~~~~~~~~l  110 (356)
T PLN03088         84 EEYQTAKAALEKGASLAPGDSRFTKLI  110 (356)
T ss_pred             CCHHHHHHHHHHHHHhCCCCHHHHHHH
Confidence            9999999999887 4445544444433

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.60  E-value=0.00063  Score=59.43  Aligned_cols=94  Identities=11%  Similarity=-0.080  Sum_probs=74.2

Q ss_pred             ChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC----HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHH
Q 008280          334 KPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQ----PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQL  408 (571)
Q Consensus       334 ~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l  408 (571)
                      ....|..++..+...|++++|+..|++. ...|+    ..+|..+...+...|++++|+..+++++...|.... .+..+
T Consensus        34 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~~~~-~~~~l  112 (168)
T CHL00033         34 EAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPFLPQ-ALNNM  112 (168)
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHH-HHHHH
Confidence            3556667777788888899988888776 22222    357888889999999999999999999999999887 88888


Q ss_pred             HHHHh-------hccChhHHHHHHHHH
Q 008280          409 ANIYA-------AMKKWDDVARIRLSM  428 (571)
Q Consensus       409 ~~~~~-------~~g~~~~a~~~~~~m  428 (571)
                      +.+|.       ..|++++|...+++.
T Consensus       113 a~i~~~~~~~~~~~g~~~~A~~~~~~a  139 (168)
T CHL00033        113 AVICHYRGEQAIEQGDSEIAEAWFDQA  139 (168)
T ss_pred             HHHHHHhhHHHHHcccHHHHHHHHHHH
Confidence            88888       778888776666544

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=97.55  E-value=0.085  Score=50.46  Aligned_cols=271  Identities=17%  Similarity=0.172  Sum_probs=174.2

Q ss_pred             cCCHHHHHHHHhhCC---CCCHHHHHHHH--HHHHHcCChhHHHHHHHHHHHCCCCCCHh--HHHHHHHHHhccCchHHH
Q 008280          145 FGKVDLAEKLFDEMP---TKNLVTWNAMI--AGYVENSWAEDGLKLLRMMIGLGIRPNAS--SLSSVLLGCSHLSSLQLG  217 (571)
Q Consensus       145 ~g~~~~A~~~~~~~~---~~~~~~~~~li--~~~~~~g~~~~A~~~~~~m~~~g~~pd~~--t~~~ll~~~~~~~~~~~a  217 (571)
                      .|+-..|++.-.+..   ..|....-.++  ++-.-.|+++.|.+-|+.|...   |...  -+..+.-...+.|+.+.|
T Consensus        97 AGda~lARkmt~~~~~llssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~d---PEtRllGLRgLyleAqr~GareaA  173 (531)
T COG3898          97 AGDASLARKMTARASKLLSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDD---PETRLLGLRGLYLEAQRLGAREAA  173 (531)
T ss_pred             cCchHHHHHHHHHHHhhhhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcC---hHHHHHhHHHHHHHHHhcccHHHH
Confidence            455666665554432   23333322333  2334468888888888888752   2211  122333334567888888


Q ss_pred             HHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhC-----CCChh--hHHHHHHHHHH---cCChHHHHHHH
Q 008280          218 KQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQ-----RKDVV--TWNAMISGYAQ---HGKGEKALRLF  287 (571)
Q Consensus       218 ~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~-----~~~~~--~~~~li~~~~~---~g~~~~A~~~~  287 (571)
                      +++-+..-..- +.-...+.+.+...+..|+++.|+++++.-.     ++++.  .-..|+.+-+.   .-+...|...-
T Consensus       174 r~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A  252 (531)
T COG3898         174 RHYAERAAEKA-PQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDA  252 (531)
T ss_pred             HHHHHHHHhhc-cCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHH
Confidence            88877766553 3445677888899999999999999988654     34432  22223332221   23455666655


Q ss_pred             HHHHHcCCCCCHHH-HHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHH--H--HHHHhCC
Q 008280          288 DKMKDEGMKPDSIT-FVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEA--V--DLIKKMP  362 (571)
Q Consensus       288 ~~m~~~g~~p~~~t-~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A--~--~~~~~~~  362 (571)
                      .+..+  +.||-+. -.....++.+.|++.++-.+++.+-+.   .|.+..+...+  +.|.|+....  .  +-++.| 
T Consensus       253 ~~a~K--L~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~---ePHP~ia~lY~--~ar~gdta~dRlkRa~~L~sl-  324 (531)
T COG3898         253 LEANK--LAPDLVPAAVVAARALFRDGNLRKGSKILETAWKA---EPHPDIALLYV--RARSGDTALDRLKRAKKLESL-  324 (531)
T ss_pred             HHHhh--cCCccchHHHHHHHHHHhccchhhhhhHHHHHHhc---CCChHHHHHHH--HhcCCCcHHHHHHHHHHHHhc-
Confidence            55443  5677653 334457889999999999999998753   67776654333  3455553221  1  123334 


Q ss_pred             CCCC-HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhh-ccChhHHHHHHHHHHh
Q 008280          363 FKPQ-PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAA-MKKWDDVARIRLSMKE  430 (571)
Q Consensus       363 ~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~-~g~~~~a~~~~~~m~~  430 (571)
                       +|| ..+..++..+-...|++..|..-.+.+....|...  .|..|+++-.. .|+-.++...+.+-.+
T Consensus       325 -k~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r~~pres--~~lLlAdIeeAetGDqg~vR~wlAqav~  391 (531)
T COG3898         325 -KPNNAESSLAVAEAALDAGEFSAARAKAEAAAREAPRES--AYLLLADIEEAETGDQGKVRQWLAQAVK  391 (531)
T ss_pred             -CccchHHHHHHHHHHHhccchHHHHHHHHHHhhhCchhh--HHHHHHHHHhhccCchHHHHHHHHHHhc
Confidence             454 57778888888899999999999999999999876  89999998765 4999998888766553

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.55  E-value=0.0019  Score=59.66  Aligned_cols=105  Identities=13%  Similarity=0.066  Sum_probs=88.4

Q ss_pred             CCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHHHHhc---CCHhHHHHHHHHHhccCCCCCchhH
Q 008280          331 IAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFK-PQPAIFGTLLSACRVH---KRLDLAEFAAMNLFNLNPANAAGCY  405 (571)
Q Consensus       331 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~~~---g~~~~a~~~~~~~~~~~p~~~~~~~  405 (571)
                      -+-|.+.|-.|...|.+.|++..|..-|.+. ... +++..+..+..++..+   ....++..+++++++++|+++. +.
T Consensus       152 nP~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~ir-al  230 (287)
T COG4235         152 NPGDAEGWDLLGRAYMALGRASDALLAYRNALRLAGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIR-AL  230 (287)
T ss_pred             CCCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHH-HH
Confidence            3667999999999999999999999999887 222 4567777777775433   3467899999999999999998 99


Q ss_pred             HHHHHHHhhccChhHHHHHHHHHHhCCCccC
Q 008280          406 VQLANIYAAMKKWDDVARIRLSMKENNVVKM  436 (571)
Q Consensus       406 ~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~  436 (571)
                      ..|+..+...|++.+|...++.|.+......
T Consensus       231 ~lLA~~afe~g~~~~A~~~Wq~lL~~lp~~~  261 (287)
T COG4235         231 SLLAFAAFEQGDYAEAAAAWQMLLDLLPADD  261 (287)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcCCCCC
Confidence            9999999999999999999999998666433

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.48  E-value=0.057  Score=51.59  Aligned_cols=97  Identities=12%  Similarity=0.168  Sum_probs=58.0

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHHcCCC-----CCHH-HHHHHHHHHHhcCcHHHHHHHHHHhHHhc-CCCCC--hH
Q 008280          266 TWNAMISGYAQHGKGEKALRLFDKMKDEGMK-----PDSI-TFVALLLACNHAGLVDLGIQYFDSMVNDY-GIAAK--PD  336 (571)
Q Consensus       266 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-----p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~-~~~~~--~~  336 (571)
                      .+..++..+.+.|++++|.++|++....-..     ++.. .|...+-.+...|++..|.+.++...... ++..+  ..
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            3455677788888888888888887654322     1111 23334445666788888888888776421 22222  33


Q ss_pred             hHHHHHHHHHH--cCCHHHHHHHHHhCC
Q 008280          337 HYTCMVDLLGR--AGKLVEAVDLIKKMP  362 (571)
Q Consensus       337 ~~~~li~~~~~--~g~~~~A~~~~~~~~  362 (571)
                      ....|++++-.  ...+++|..-|+.+.
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            44556666643  345777777777774

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.48  E-value=0.006  Score=53.25  Aligned_cols=81  Identities=14%  Similarity=0.115  Sum_probs=51.2

Q ss_pred             hhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHH
Q 008280          264 VVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPD--SITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCM  341 (571)
Q Consensus       264 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~--~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l  341 (571)
                      ...|..++..+...|++++|+..|++.......|.  ..++..+...+...|++++|...++.....  .+.....+..+
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            34566667777777888888888887765432221  236667777777788888888887777642  22224445555


Q ss_pred             HHHHH
Q 008280          342 VDLLG  346 (571)
Q Consensus       342 i~~~~  346 (571)
                      ...|.
T Consensus       113 a~i~~  117 (168)
T CHL00033        113 AVICH  117 (168)
T ss_pred             HHHHH
Confidence            55555

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.47  E-value=0.00043  Score=52.37  Aligned_cols=80  Identities=21%  Similarity=0.341  Sum_probs=44.6

Q ss_pred             cCChHHHHHHHHHHHHcCCC-CCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCC-hHhHHHHHHHHHHcCCHHHH
Q 008280          277 HGKGEKALRLFDKMKDEGMK-PDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAK-PDHYTCMVDLLGRAGKLVEA  354 (571)
Q Consensus       277 ~g~~~~A~~~~~~m~~~g~~-p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~A  354 (571)
                      .|++++|+.+|+++.+.... |+...+..+..++.+.|++++|..+++. .   ...|. ......+..+|.+.|++++|
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~---~~~~~~~~~~~l~a~~~~~l~~y~eA   77 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-L---KLDPSNPDIHYLLARCLLKLGKYEEA   77 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-H---THHHCHHHHHHHHHHHHHHTT-HHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-h---CCCCCCHHHHHHHHHHHHHhCCHHHH
Confidence            46677777777777664321 2333444466667777777777777765 2   11222 23333446666677777777


Q ss_pred             HHHHHh
Q 008280          355 VDLIKK  360 (571)
Q Consensus       355 ~~~~~~  360 (571)
                      ++.+++
T Consensus        78 i~~l~~   83 (84)
T PF12895_consen   78 IKALEK   83 (84)
T ss_dssp             HHHHHH
T ss_pred             HHHHhc
Confidence            766654

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.46  E-value=0.12  Score=49.92  Aligned_cols=121  Identities=18%  Similarity=0.193  Sum_probs=86.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhhCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcH
Q 008280          236 LTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLV  315 (571)
Q Consensus       236 ~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~  315 (571)
                      .+.-+.-+...|+...|.++-.+..=||-..|-..+.+++..++|++-..+-..    .  -.++.|.-++.+|...|+.
T Consensus       180 l~~Ti~~li~~~~~k~A~kl~k~Fkv~dkrfw~lki~aLa~~~~w~eL~~fa~s----k--KsPIGyepFv~~~~~~~~~  253 (319)
T PF04840_consen  180 LNDTIRKLIEMGQEKQAEKLKKEFKVPDKRFWWLKIKALAENKDWDELEKFAKS----K--KSPIGYEPFVEACLKYGNK  253 (319)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCCHHHHHHHHhC----C--CCCCChHHHHHHHHHCCCH
Confidence            344455566788888898888888878888899999999999998877665332    1  2346788888888889998


Q ss_pred             HHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhCCCCCCHhHHHHHHHH
Q 008280          316 DLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSA  376 (571)
Q Consensus       316 ~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~  376 (571)
                      .+|..+...+.           +..-+.+|.++|++.+|.+.--+.   .|...+..+...
T Consensus       254 ~eA~~yI~k~~-----------~~~rv~~y~~~~~~~~A~~~A~~~---kd~~~L~~i~~~  300 (319)
T PF04840_consen  254 KEASKYIPKIP-----------DEERVEMYLKCGDYKEAAQEAFKE---KDIDLLKQILKR  300 (319)
T ss_pred             HHHHHHHHhCC-----------hHHHHHHHHHCCCHHHHHHHHHHc---CCHHHHHHHHHH
Confidence            88888776531           145678888999998888775554   244444444433

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

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.46  E-value=0.0085  Score=57.23  Aligned_cols=168  Identities=14%  Similarity=0.156  Sum_probs=77.7

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHHHC----CCCCCH-hHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHH
Q 008280          166 WNAMIAGYVENSWAEDGLKLLRMMIGL----GIRPNA-SSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLI  240 (571)
Q Consensus       166 ~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~pd~-~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li  240 (571)
                      |......|-..|++++|.+.|.+....    +-+.+. ..|......+ +..+++.|...+..               .+
T Consensus        38 y~~Aa~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~-k~~~~~~Ai~~~~~---------------A~  101 (282)
T PF14938_consen   38 YEKAANCFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCY-KKGDPDEAIECYEK---------------AI  101 (282)
T ss_dssp             HHHHHHHHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHH-HHTTHHHHHHHHHH---------------HH
T ss_pred             HHHHHHHHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH-HhhCHHHHHHHHHH---------------HH
Confidence            344566677777777777777665431    100000 1111111122 22244444443332               33


Q ss_pred             HHHHhcCCHHHHHHHHHhhCCCChhhHHHHHHHHHHc-CChHHHHHHHHHHHH----cCCCCC--HHHHHHHHHHHHhcC
Q 008280          241 SMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQH-GKGEKALRLFDKMKD----EGMKPD--SITFVALLLACNHAG  313 (571)
Q Consensus       241 ~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~-g~~~~A~~~~~~m~~----~g~~p~--~~t~~~ll~a~~~~g  313 (571)
                      ..|...|++..|-+++..           +...|... |++++|++.|++..+    .| .+.  ...+..+...+.+.|
T Consensus       102 ~~y~~~G~~~~aA~~~~~-----------lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~~~~a~~~~~~~A~l~~~l~  169 (282)
T PF14938_consen  102 EIYREAGRFSQAAKCLKE-----------LAEIYEEQLGDYEKAIEYYQKAAELYEQEG-SPHSAAECLLKAADLYARLG  169 (282)
T ss_dssp             HHHHHCT-HHHHHHHHHH-----------HHHHHCCTT--HHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHhcCcHHHHHHHHHH-----------HHHHHHHHcCCHHHHHHHHHHHHHHHHHCC-ChhhHHHHHHHHHHHHHHhC
Confidence            455666666666555444           34455555 666677666666432    12 111  123445556666677


Q ss_pred             cHHHHHHHHHHhHHhcCC----CCCh-HhHHHHHHHHHHcCCHHHHHHHHHhC
Q 008280          314 LVDLGIQYFDSMVNDYGI----AAKP-DHYTCMVDLLGRAGKLVEAVDLIKKM  361 (571)
Q Consensus       314 ~~~~a~~~~~~~~~~~~~----~~~~-~~~~~li~~~~~~g~~~~A~~~~~~~  361 (571)
                      ++++|.++|+++....--    ..+. ..+...+-.+...|++..|.+.+++.
T Consensus       170 ~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~  222 (282)
T PF14938_consen  170 RYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERY  222 (282)
T ss_dssp             -HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            777777777666543111    1111 12223333445566666666666654

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.45  E-value=0.00032  Score=50.05  Aligned_cols=61  Identities=21%  Similarity=0.217  Sum_probs=47.2

Q ss_pred             HHHHHHHcCCHHHHHHHHHhC-CCCCC-HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCC
Q 008280          341 MVDLLGRAGKLVEAVDLIKKM-PFKPQ-PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANA  401 (571)
Q Consensus       341 li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~  401 (571)
                      +...+.+.|++++|++.|++. ...|+ ...|..+..++...|++++|...++++++..|+++
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~P~~p   65 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALELDPDNP   65 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-H
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCC
Confidence            456677888888888888887 33354 57888888888899999999999999999888764

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.43  E-value=0.066  Score=51.62  Aligned_cols=108  Identities=15%  Similarity=0.113  Sum_probs=70.7

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHH
Q 008280          165 TWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYC  244 (571)
Q Consensus       165 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~  244 (571)
                      +.+..|.-+...|+...|.++-.+..    .||..-|...+.+++..+++++-..+-..      ..++.-|..++..+.
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~  248 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACL  248 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHH
Confidence            44455666667777777776655442    46777777777788777877766654321      123456777777777


Q ss_pred             hcCCHHHHHHHHHhhCCCChhhHHHHHHHHHHcCChHHHHHHHH
Q 008280          245 KCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFD  288 (571)
Q Consensus       245 ~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  288 (571)
                      +.|+..+|..+..++.      +..-+..|.+.|++.+|.+.-.
T Consensus       249 ~~~~~~eA~~yI~k~~------~~~rv~~y~~~~~~~~A~~~A~  286 (319)
T PF04840_consen  249 KYGNKKEASKYIPKIP------DEERVEMYLKCGDYKEAAQEAF  286 (319)
T ss_pred             HCCCHHHHHHHHHhCC------hHHHHHHHHHCCCHHHHHHHHH
Confidence            7888888877777633      3555666777777777766543

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

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.43  E-value=0.0033  Score=59.84  Aligned_cols=143  Identities=14%  Similarity=0.198  Sum_probs=103.3

Q ss_pred             hhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH-HHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHH
Q 008280          265 VTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLA-CNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVD  343 (571)
Q Consensus       265 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a-~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~  343 (571)
                      .+|-.++...-+.+..+.|..+|.+.++.+ ..+...|...... +...++.+.|..+|+...+.  +..+...|...++
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            367777887778888888889998887543 2234445444443 33457777799999999885  4667788889999


Q ss_pred             HHHHcCCHHHHHHHHHhC-CCCCC----HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHH
Q 008280          344 LLGRAGKLVEAVDLIKKM-PFKPQ----PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIY  412 (571)
Q Consensus       344 ~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~  412 (571)
                      .+.+.|+.+.|..+|++. ..-|.    ...|...+.--...|+.+....+.+++.+.-|++.  .+..+.+-|
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            999999999999999887 22233    35899999999999999999999999999888865  455555544

The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.42  E-value=0.00096  Score=61.20  Aligned_cols=87  Identities=17%  Similarity=0.216  Sum_probs=76.8

Q ss_pred             HHHHHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhH
Q 008280          343 DLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDD  420 (571)
Q Consensus       343 ~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~  420 (571)
                      .-+.+.+++++|+..|.+. .+.| |++.|..-..+|.+.|.++.|++-.+.++.++|.... +|..|+.+|...|++++
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 4444 5677788889999999999999999999999999988 99999999999999999


Q ss_pred             HHHHHHHHHh
Q 008280          421 VARIRLSMKE  430 (571)
Q Consensus       421 a~~~~~~m~~  430 (571)
                      |++.|++..+
T Consensus       168 A~~aykKaLe  177 (304)
T KOG0553|consen  168 AIEAYKKALE  177 (304)
T ss_pred             HHHHHHhhhc
Confidence            9999987665

>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=97.42  E-value=0.00015  Score=52.26  Aligned_cols=52  Identities=17%  Similarity=0.172  Sum_probs=42.4

Q ss_pred             HhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHh
Q 008280          378 RVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  430 (571)
Q Consensus       378 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  430 (571)
                      ...|++++|+..++++++.+|+++. ....++.+|.+.|++++|.++++.+..
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            4678888888888888888888887 888888888888888888888877665

...

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.38  E-value=0.0012  Score=62.75  Aligned_cols=256  Identities=11%  Similarity=0.068  Sum_probs=152.5

Q ss_pred             HHHHcCChhHHHHHHHHHHHCCCCCCH----hHHHHHHHHHhccCchHHHHHHHHHHHh----CCC-CCCcchHHHHHHH
Q 008280          172 GYVENSWAEDGLKLLRMMIGLGIRPNA----SSLSSVLLGCSHLSSLQLGKQVHQLVFK----SPL-CKDTTALTPLISM  242 (571)
Q Consensus       172 ~~~~~g~~~~A~~~~~~m~~~g~~pd~----~t~~~ll~~~~~~~~~~~a~~~~~~~~~----~g~-~~~~~~~~~li~~  242 (571)
                      -+++.|+....+.+|+..++.| ..|.    ..|+.+-++|.-.+++++|.++|..=+.    .|- .-.......|.+.
T Consensus        26 RLck~gdcraGv~ff~aA~qvG-TeDl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdklGEAKssgNLGNt  104 (639)
T KOG1130|consen   26 RLCKMGDCRAGVDFFKAALQVG-TEDLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKLGEAKSSGNLGNT  104 (639)
T ss_pred             HHHhccchhhhHHHHHHHHHhc-chHHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchhccccccccccch
Confidence            4667777777777777777766 2333    3455556666777777777777653211    110 0111222234445


Q ss_pred             HHhcCCHHHHHHHHHhhCC-------C--ChhhHHHHHHHHHHcCC--------------------hHHHHHHHHHH---
Q 008280          243 YCKCGDLEDACKLFLEIQR-------K--DVVTWNAMISGYAQHGK--------------------GEKALRLFDKM---  290 (571)
Q Consensus       243 y~~~g~~~~A~~~~~~~~~-------~--~~~~~~~li~~~~~~g~--------------------~~~A~~~~~~m---  290 (571)
                      +--.|.+++|.-.-.+-..       +  ...++..+...|...|+                    ++.|.++|.+-   
T Consensus       105 lKv~G~fdeA~~cc~rhLd~areLgDrv~e~RAlYNlgnvYhakGk~~g~~~pee~g~f~~ev~~al~~Av~fy~eNL~l  184 (639)
T KOG1130|consen  105 LKVKGAFDEALTCCFRHLDFARELGDRVLESRALYNLGNVYHAKGKCTGLEAPEEKGAFNAEVTSALENAVKFYMENLEL  184 (639)
T ss_pred             hhhhcccchHHHHHHHHhHHHHHHhHHHhhhHHHhhhhhhhhhcccccCCCChhhcccccHHHHHHHHHHHHHHHHHHHH
Confidence            5556666666554332211       1  12344445555544332                    23344444432   


Q ss_pred             -HHcCCC-CCHHHHHHHHHHHHhcCcHHHHHHHHHH---hHHhcCCCCC-hHhHHHHHHHHHHcCCHHHHHHHHHhC---
Q 008280          291 -KDEGMK-PDSITFVALLLACNHAGLVDLGIQYFDS---MVNDYGIAAK-PDHYTCMVDLLGRAGKLVEAVDLIKKM---  361 (571)
Q Consensus       291 -~~~g~~-p~~~t~~~ll~a~~~~g~~~~a~~~~~~---~~~~~~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~~---  361 (571)
                       .+.|-. .....|..|.+.|.-.|+++.|+..++.   +.+.+|-... ...+..+..++.-.|+++.|.+.|+..   
T Consensus       185 ~~~lgDr~aqGRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~L  264 (639)
T KOG1130|consen  185 SEKLGDRLAQGRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNL  264 (639)
T ss_pred             HHHhhhHHhhcchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHH
Confidence             122200 0112455566666667889999877653   2233443332 446778888899999999999988765   


Q ss_pred             ----CC-CCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhcc----C--CCCCchhHHHHHHHHhhccChhHHHHHHHHHH
Q 008280          362 ----PF-KPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNL----N--PANAAGCYVQLANIYAAMKKWDDVARIRLSMK  429 (571)
Q Consensus       362 ----~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~--p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  429 (571)
                          +. .....+..+|.++|.....++.|+.++.+-+.+    +  ..... ++..|+++|...|..++|..+.+.-.
T Consensus       265 Aielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~R-acwSLgna~~alg~h~kAl~fae~hl  342 (639)
T KOG1130|consen  265 AIELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELR-ACWSLGNAFNALGEHRKALYFAELHL  342 (639)
T ss_pred             HHHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHH-HHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence                21 123457778899999999999999988876542    1  22233 88899999999999999988776554

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.36  E-value=0.00059  Score=50.00  Aligned_cols=59  Identities=10%  Similarity=0.063  Sum_probs=50.3

Q ss_pred             HHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhCCC
Q 008280          374 LSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNV  433 (571)
Q Consensus       374 ~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  433 (571)
                      ...|.+.++++.|..+++++++++|+++. .+...+.+|.+.|++++|.+.++...+.+.
T Consensus         2 ~~~~~~~~~~~~A~~~~~~~l~~~p~~~~-~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p   60 (73)
T PF13371_consen    2 KQIYLQQEDYEEALEVLERALELDPDDPE-LWLQRARCLFQLGRYEEALEDLERALELSP   60 (73)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhCcccch-hhHHHHHHHHHhccHHHHHHHHHHHHHHCC
Confidence            35677889999999999999999999888 888999999999999999999988876443

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.34  E-value=0.035  Score=47.33  Aligned_cols=133  Identities=10%  Similarity=0.036  Sum_probs=101.5

Q ss_pred             CCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhCC----CCCCHhHH
Q 008280          295 MKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMP----FKPQPAIF  370 (571)
Q Consensus       295 ~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~----~~p~~~~~  370 (571)
                      ..|+...-..|..+....|+..+|...|++...- -+.-|......+..+....+++.+|...++++.    ...++.+-
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            3566666667888889999999999999888762 355667778888888888999999998888771    11122344


Q ss_pred             HHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHh
Q 008280          371 GTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  430 (571)
Q Consensus       371 ~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  430 (571)
                      ..+.+++...|.++.|+..|+.++.--|+..  .-...+..+.++|+.+++..-+..+.+
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            5567788899999999999999999888764  566677788899988888776655543

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.32  E-value=0.0057  Score=51.25  Aligned_cols=93  Identities=10%  Similarity=-0.024  Sum_probs=45.1

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHH
Q 008280          165 TWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYC  244 (571)
Q Consensus       165 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~  244 (571)
                      ....+..-+.+.|++++|..+|+.+.... +-+..-|-.+...|...|++++|...|..+.... +.|+..+-.+..+|.
T Consensus        37 ~lY~~A~~ly~~G~l~~A~~~f~~L~~~D-p~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~-~ddp~~~~~ag~c~L  114 (157)
T PRK15363         37 TLYRYAMQLMEVKEFAGAARLFQLLTIYD-AWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAAAECYL  114 (157)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHH
Confidence            33344444445555555555555444321 1122233333334444455555555555554444 344555555566666


Q ss_pred             hcCCHHHHHHHHHhh
Q 008280          245 KCGDLEDACKLFLEI  259 (571)
Q Consensus       245 ~~g~~~~A~~~~~~~  259 (571)
                      +.|+.+.|++.|+..
T Consensus       115 ~lG~~~~A~~aF~~A  129 (157)
T PRK15363        115 ACDNVCYAIKALKAV  129 (157)
T ss_pred             HcCCHHHHHHHHHHH
Confidence            666666666666543

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.28  E-value=0.0069  Score=53.09  Aligned_cols=89  Identities=12%  Similarity=0.080  Sum_probs=48.0

Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCC--HhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHH
Q 008280          164 VTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPN--ASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLIS  241 (571)
Q Consensus       164 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd--~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~  241 (571)
                      ..+..+...+...|++++|+..|++.......+.  ...+..+...+...|+++.|...+..+++.. +.+...+..+..
T Consensus        36 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~  114 (172)
T PRK02603         36 FVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELN-PKQPSALNNIAV  114 (172)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHH
Confidence            3455556666666666666666666654322221  2344555555556666666666666655543 233444555556


Q ss_pred             HHHhcCCHHHHH
Q 008280          242 MYCKCGDLEDAC  253 (571)
Q Consensus       242 ~y~~~g~~~~A~  253 (571)
                      +|...|+...+.
T Consensus       115 ~~~~~g~~~~a~  126 (172)
T PRK02603        115 IYHKRGEKAEEA  126 (172)
T ss_pred             HHHHcCChHhHh
Confidence            666655544443

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.23  E-value=0.0089  Score=48.23  Aligned_cols=106  Identities=12%  Similarity=0.104  Sum_probs=59.7

Q ss_pred             HHHHHHHHcCChhHHHHHHHHHHHCCCCCC--HhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCC---CcchHHHHHHH
Q 008280          168 AMIAGYVENSWAEDGLKLLRMMIGLGIRPN--ASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCK---DTTALTPLISM  242 (571)
Q Consensus       168 ~li~~~~~~g~~~~A~~~~~~m~~~g~~pd--~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~---~~~~~~~li~~  242 (571)
                      .+..++-..|+.++|+.+|++....|....  ...+..+.+.+...|++++|..+++...... +.   +..+...+..+
T Consensus         6 ~~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~-p~~~~~~~l~~f~Al~   84 (120)
T PF12688_consen    6 ELAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEF-PDDELNAALRVFLALA   84 (120)
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCccccHHHHHHHHHH
Confidence            345667777888888888888887775543  2244555566666777777777776666542 11   22222223344


Q ss_pred             HHhcCCHHHHHHHHHhhCCCChhhHHHHHHHH
Q 008280          243 YCKCGDLEDACKLFLEIQRKDVVTWNAMISGY  274 (571)
Q Consensus       243 y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~  274 (571)
                      +...|+.++|.+.+-....++...|..-|..|
T Consensus        85 L~~~gr~~eAl~~~l~~la~~~~~y~ra~~~y  116 (120)
T PF12688_consen   85 LYNLGRPKEALEWLLEALAETLPRYRRAIRFY  116 (120)
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45556666666655544433333444333333

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.18  E-value=0.018  Score=59.62  Aligned_cols=140  Identities=18%  Similarity=0.081  Sum_probs=102.4

Q ss_pred             CCChhhHHHHHHHHHHcC-----ChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHhc--------CcHHHHHHHHHHhH
Q 008280          261 RKDVVTWNAMISGYAQHG-----KGEKALRLFDKMKDEGMKPDS-ITFVALLLACNHA--------GLVDLGIQYFDSMV  326 (571)
Q Consensus       261 ~~~~~~~~~li~~~~~~g-----~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~a~~~~--------g~~~~a~~~~~~~~  326 (571)
                      ..|..+|...+.+.....     ...+|..+|++..+.  .|+. ..+..+..++...        .+...+.+......
T Consensus       334 ~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~l--dP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~  411 (517)
T PRK10153        334 PHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKS--EPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIV  411 (517)
T ss_pred             CCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhh
Confidence            357789999988865432     367899999999885  5664 3555544444322        12334444444433


Q ss_pred             HhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCc
Q 008280          327 NDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA  402 (571)
Q Consensus       327 ~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~  402 (571)
                      .....+.++..|..+.-.....|++++|...++++ ...|+...|..+...+...|+.++|...+++++.++|.++.
T Consensus       412 al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P~~pt  488 (517)
T PRK10153        412 ALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLEMSWLNYVLLGKVYELKGDNRLAADAYSTAFNLRPGENT  488 (517)
T ss_pred             hcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCch
Confidence            21123445678888877777889999999999988 56688889999999999999999999999999999999984

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.17  E-value=0.0053  Score=49.51  Aligned_cols=87  Identities=21%  Similarity=0.090  Sum_probs=58.8

Q ss_pred             HHHHHHHcCCHHHHHHHHHhC---CCCCC--HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCC---CCchhHHHHHHHH
Q 008280          341 MVDLLGRAGKLVEAVDLIKKM---PFKPQ--PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPA---NAAGCYVQLANIY  412 (571)
Q Consensus       341 li~~~~~~g~~~~A~~~~~~~---~~~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~---~~~~~~~~l~~~~  412 (571)
                      +..++-..|+.++|+.+|++.   +....  ...+-.+.+++...|++++|+.++++.....|+   +.. ....++.++
T Consensus         7 ~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~-l~~f~Al~L   85 (120)
T PF12688_consen    7 LAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAA-LRVFLALAL   85 (120)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHH-HHHHHHHHH
Confidence            445566667777777777665   21111  245556777788888888888888888777676   444 556667777


Q ss_pred             hhccChhHHHHHHHHH
Q 008280          413 AAMKKWDDVARIRLSM  428 (571)
Q Consensus       413 ~~~g~~~~a~~~~~~m  428 (571)
                      ...|+.++|.+.+-..
T Consensus        86 ~~~gr~~eAl~~~l~~  101 (120)
T PF12688_consen   86 YNLGRPKEALEWLLEA  101 (120)
T ss_pred             HHCCCHHHHHHHHHHH
Confidence            8888888888776543

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.15  E-value=0.0064  Score=57.87  Aligned_cols=130  Identities=8%  Similarity=0.081  Sum_probs=100.2

Q ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHH-cCCHHHHHHHHHhC--CCCCCHhHHHHHHHH
Q 008280          300 ITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGR-AGKLVEAVDLIKKM--PFKPQPAIFGTLLSA  376 (571)
Q Consensus       300 ~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~-~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~  376 (571)
                      .+|..++....+.+..+.|+.+|.+..+.  -..+..+|.....+-.+ .++.+.|.++|+..  .+..+...|...+.-
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            46888889999999999999999999753  33345666666666455 56666699999988  334677889999999


Q ss_pred             HHhcCCHhHHHHHHHHHhccCCCCC--chhHHHHHHHHhhccChhHHHHHHHHHHhC
Q 008280          377 CRVHKRLDLAEFAAMNLFNLNPANA--AGCYVQLANIYAAMKKWDDVARIRLSMKEN  431 (571)
Q Consensus       377 ~~~~g~~~~a~~~~~~~~~~~p~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  431 (571)
                      +...++.+.|..+|++.+..-|...  ...|...+..-.+.|+++.+.++.+++.+.
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            9999999999999999988655443  237888888889999999999999888753

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.

>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=97.14  E-value=0.00065  Score=48.94  Aligned_cols=49  Identities=16%  Similarity=0.308  Sum_probs=26.3

Q ss_pred             hcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC
Q 008280          311 HAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM  361 (571)
Q Consensus       311 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~  361 (571)
                      ..|++++|.++|+.+...  .+.+...+..++.+|.+.|++++|.++++++
T Consensus         3 ~~~~~~~A~~~~~~~l~~--~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~   51 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQR--NPDNPEARLLLAQCYLKQGQYDEAEELLERL   51 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHH--TTTSHHHHHHHHHHHHHTT-HHHHHHHHHCC
T ss_pred             hccCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            345666666666665542  2234455555555555555555555555555

...

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=97.12  E-value=0.31  Score=47.65  Aligned_cols=137  Identities=14%  Similarity=0.100  Sum_probs=104.8

Q ss_pred             CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHH
Q 008280          262 KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEG-MKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTC  340 (571)
Q Consensus       262 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~  340 (571)
                      +-...|...+..-.+..-.+.|..+|-+..+.| +.++...+++++.-++ .|+...|..+|+.-...  ++.++.--.-
T Consensus       395 k~t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~--f~d~~~y~~k  471 (660)
T COG5107         395 KLTFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLK--FPDSTLYKEK  471 (660)
T ss_pred             hhhhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHh--CCCchHHHHH
Confidence            445678888888888888889999999999888 6677778888876554 57888899999876653  2333333456


Q ss_pred             HHHHHHHcCCHHHHHHHHHhC--CCCCC--HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCC
Q 008280          341 MVDLLGRAGKLVEAVDLIKKM--PFKPQ--PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANA  401 (571)
Q Consensus       341 li~~~~~~g~~~~A~~~~~~~--~~~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~  401 (571)
                      .+.-+.+.++-+.|..+|+..  .+..+  ...|..+|.--..-|+...+..+-+++.++-|...
T Consensus       472 yl~fLi~inde~naraLFetsv~r~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~~pQen  536 (660)
T COG5107         472 YLLFLIRINDEENARALFETSVERLEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRELVPQEN  536 (660)
T ss_pred             HHHHHHHhCcHHHHHHHHHHhHHHHHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHHcCcHh
Confidence            677788899999999999855  22233  46888899888889999999988888888888763

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.11  E-value=0.17  Score=45.88  Aligned_cols=163  Identities=13%  Similarity=-0.018  Sum_probs=113.0

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhhCCC--CC--------HHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHH
Q 008280          132 VVAWTAMISGYMKFGKVDLAEKLFDEMPT--KN--------LVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSL  201 (571)
Q Consensus       132 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~--------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~  201 (571)
                      ...+++|...|.-..-+++-...|+.-..  ..        ...-+.++..+...|.+.-.+.++++.++...+.++...
T Consensus       136 gnpqesLdRl~~L~~~V~~ii~~~e~~~~~ESsv~lW~KRl~~Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~  215 (366)
T KOG2796|consen  136 GNPQESLDRLHKLKTVVSKILANLEQGLAEESSIRLWRKRLGRVMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLL  215 (366)
T ss_pred             CCcHHHHHHHHHHHHHHHHHHHHHHhccchhhHHHHHHHHHHHHHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHH
Confidence            34456666666555545555555443222  12        234566777777788888889999998886656677777


Q ss_pred             HHHHHHHhccCchHHHHHHHHHHHhCCCCC-----CcchHHHHHHHHHhcCCHHHHHHHHHhhCCC---ChhhHHHHHHH
Q 008280          202 SSVLLGCSHLSSLQLGKQVHQLVFKSPLCK-----DTTALTPLISMYCKCGDLEDACKLFLEIQRK---DVVTWNAMISG  273 (571)
Q Consensus       202 ~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~-----~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~  273 (571)
                      +.+.+...+.|+.+.|...++.+.+..-..     ...+.......|.-.+++..|...|.+++..   |++.-|.-.-+
T Consensus       216 s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALc  295 (366)
T KOG2796|consen  216 SGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSAFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALC  295 (366)
T ss_pred             HHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhhhheecccchHHHHHHHhhccccCCCchhhhchHHHH
Confidence            888888888999999999999777643233     3333344445566778899999999888753   55666666666


Q ss_pred             HHHcCChHHHHHHHHHHHHcC
Q 008280          274 YAQHGKGEKALRLFDKMKDEG  294 (571)
Q Consensus       274 ~~~~g~~~~A~~~~~~m~~~g  294 (571)
                      ..-.|+..+|++.++.|...-
T Consensus       296 llYlg~l~DAiK~~e~~~~~~  316 (366)
T KOG2796|consen  296 LLYLGKLKDALKQLEAMVQQD  316 (366)
T ss_pred             HHHHHHHHHHHHHHHHHhccC
Confidence            667789999999999998753

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.10  E-value=0.015  Score=57.81  Aligned_cols=120  Identities=13%  Similarity=0.088  Sum_probs=87.5

Q ss_pred             CCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhC--CCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCC----CChhh
Q 008280          193 GIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKS--PLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR----KDVVT  266 (571)
Q Consensus       193 g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~--g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~----~~~~~  266 (571)
                      +.+.+...+..+++.+....+++.+..++-.....  ....-..+..++|..|.+.|..+.+..+++.=..    +|..+
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            34556677777788888777888888777776665  2223345556888888888888888888776443    67888


Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Q 008280          267 WNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHA  312 (571)
Q Consensus       267 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~  312 (571)
                      +|.|+..+.+.|++..|.++..+|...+...+..|+...+.+|.+-
T Consensus       141 ~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  141 FNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            8888888888888888888888877766666777776666666654

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 [].

>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=97.08  E-value=0.0013  Score=47.51  Aligned_cols=65  Identities=15%  Similarity=0.185  Sum_probs=49.0

Q ss_pred             ChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcC-CHhHHHHHHHHHhccCC
Q 008280          334 KPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHK-RLDLAEFAAMNLFNLNP  398 (571)
Q Consensus       334 ~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g-~~~~a~~~~~~~~~~~p  398 (571)
                      ++..|..+...+.+.|++++|+..|++. ...| +...|..+..++...| ++++|+..++++++++|
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            3456777777778888888888887776 2234 4567888888888888 68888888888888877

...

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.08  E-value=0.12  Score=52.46  Aligned_cols=97  Identities=19%  Similarity=0.228  Sum_probs=56.4

Q ss_pred             HHHHHHhcCCHHHHHHHHHhhCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHH
Q 008280          239 LISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLG  318 (571)
Q Consensus       239 li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a  318 (571)
                      ...++...|+.++|..+                  ...+|-.+-+.++-+++-.    .+..+...+..-+.+...+..|
T Consensus       709 AAEmLiSaGe~~KAi~i------------------~~d~gW~d~lidI~rkld~----~ere~l~~~a~ylk~l~~~gLA  766 (1081)
T KOG1538|consen  709 AAEMLISAGEHVKAIEI------------------CGDHGWVDMLIDIARKLDK----AEREPLLLCATYLKKLDSPGLA  766 (1081)
T ss_pred             HHHHhhcccchhhhhhh------------------hhcccHHHHHHHHHhhcch----hhhhHHHHHHHHHhhccccchH
Confidence            34455556666666444                  2334444444444444322    2334555555555566667777


Q ss_pred             HHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhCC-CCCCH
Q 008280          319 IQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMP-FKPQP  367 (571)
Q Consensus       319 ~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~-~~p~~  367 (571)
                      .++|.+|-.          ...++++....+++++|..+-++.| ..||+
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            788877632          2356777788888888888888875 33443

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.07  E-value=0.1  Score=48.41  Aligned_cols=55  Identities=15%  Similarity=0.094  Sum_probs=29.2

Q ss_pred             HHHHHHhcCcHHHHHHHHHHhHHhcCCCCC-hHhHHHHHHHHHHcCCHHHHHHHHH
Q 008280          305 LLLACNHAGLVDLGIQYFDSMVNDYGIAAK-PDHYTCMVDLLGRAGKLVEAVDLIK  359 (571)
Q Consensus       305 ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~  359 (571)
                      +..-|.+.|.+..|..-++.+++++.-.|. .+....++.+|...|..++|.++..
T Consensus       181 ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~  236 (243)
T PRK10866        181 VAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAK  236 (243)
T ss_pred             HHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHH
Confidence            344455556666666666666554432222 3344455566666666666655443

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=97.03  E-value=0.00035  Score=42.07  Aligned_cols=33  Identities=30%  Similarity=0.525  Sum_probs=30.6

Q ss_pred             HHHHhccCCCCCchhHHHHHHHHhhccChhHHHH
Q 008280          390 AMNLFNLNPANAAGCYVQLANIYAAMKKWDDVAR  423 (571)
Q Consensus       390 ~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~  423 (571)
                      |+++++++|+++. +|..|+.+|...|++++|++
T Consensus         2 y~kAie~~P~n~~-a~~nla~~~~~~g~~~~A~~   34 (34)
T PF13431_consen    2 YKKAIELNPNNAE-AYNNLANLYLNQGDYEEAIA   34 (34)
T ss_pred             hHHHHHHCCCCHH-HHHHHHHHHHHCcCHHhhcC
Confidence            6889999999999 99999999999999999863

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.03  E-value=0.55  Score=48.98  Aligned_cols=75  Identities=20%  Similarity=0.247  Sum_probs=33.7

Q ss_pred             HHhcCCHHHHHHHHHhhCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHH
Q 008280          243 YCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYF  322 (571)
Q Consensus       243 y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~  322 (571)
                      +...|+..+|.++-.+..-+|-..|-.-+.+++..+++++-+++-+.++      .+..|.-...+|.+.|+.++|..++
T Consensus       694 li~~g~~k~a~ql~~~FkipdKr~~wLk~~aLa~~~kweeLekfAkskk------sPIGy~PFVe~c~~~~n~~EA~KYi  767 (829)
T KOG2280|consen  694 LILIGQNKRAEQLKSDFKIPDKRLWWLKLTALADIKKWEELEKFAKSKK------SPIGYLPFVEACLKQGNKDEAKKYI  767 (829)
T ss_pred             HHHccchHHHHHHHHhcCCcchhhHHHHHHHHHhhhhHHHHHHHHhccC------CCCCchhHHHHHHhcccHHHHhhhh
Confidence            3334455555555544444444444444445555555444433333221      1223333444455555555554444


Q ss_pred             H
Q 008280          323 D  323 (571)
Q Consensus       323 ~  323 (571)
                      .
T Consensus       768 p  768 (829)
T KOG2280|consen  768 P  768 (829)
T ss_pred             h
Confidence            3

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.02  E-value=0.0048  Score=57.66  Aligned_cols=94  Identities=12%  Similarity=0.099  Sum_probs=60.6

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC----HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCC---CchhHHHH
Q 008280          337 HYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQ----PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPAN---AAGCYVQL  408 (571)
Q Consensus       337 ~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~---~~~~~~~l  408 (571)
                      .|..-+..+.+.|++++|...|+.. ...|+    ...+.-+...|...|++++|...|+++++..|++   +. ++..+
T Consensus       145 ~Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~d-Al~kl  223 (263)
T PRK10803        145 DYNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAAD-AMFKV  223 (263)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhH-HHHHH
Confidence            3444444445567777777777665 11233    2355556677777788888888888777766654   33 45556


Q ss_pred             HHHHhhccChhHHHHHHHHHHhC
Q 008280          409 ANIYAAMKKWDDVARIRLSMKEN  431 (571)
Q Consensus       409 ~~~~~~~g~~~~a~~~~~~m~~~  431 (571)
                      +.+|...|++++|.++++.+.+.
T Consensus       224 g~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        224 GVIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHH
Confidence            77777778888888887777653

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=96.99  E-value=0.017  Score=44.94  Aligned_cols=80  Identities=10%  Similarity=0.177  Sum_probs=63.1

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHhcC--------cHHHHHHHHHHhHHhcCCCCChHh
Q 008280          267 WNAMISGYAQHGKGEKALRLFDKMKDEGM-KPDSITFVALLLACNHAG--------LVDLGIQYFDSMVNDYGIAAKPDH  337 (571)
Q Consensus       267 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~~t~~~ll~a~~~~g--------~~~~a~~~~~~~~~~~~~~~~~~~  337 (571)
                      -...|..+...+++.....+|+.+++.|+ -|+..+|+.++.+..+..        .+-+.+.+|+.|... +++|+.++
T Consensus        28 ~i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~-~lKP~~et  106 (120)
T PF08579_consen   28 QIDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSN-KLKPNDET  106 (120)
T ss_pred             HHHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHh-ccCCcHHH
Confidence            34456666777999999999999999999 899999999998876643        234566778888875 78888888


Q ss_pred             HHHHHHHHHH
Q 008280          338 YTCMVDLLGR  347 (571)
Q Consensus       338 ~~~li~~~~~  347 (571)
                      |+.++..+.+
T Consensus       107 Ynivl~~Llk  116 (120)
T PF08579_consen  107 YNIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHHH
Confidence            8888877654

Rpm2 is a protein subunit of the yeast mitochondrial RNase P. It has the ability to act as a transcriptional activator in the nucleus, where it plays a role in defining the steady-state levels of mRNAs for some nucleus-encoded mitochondrial components. Rpm2p is also involved in maturation of Rpm1 and in translation of mitochondrial mRNAs [, , ].

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=96.97  E-value=0.011  Score=46.06  Aligned_cols=81  Identities=19%  Similarity=0.065  Sum_probs=65.9

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHHHCCC-CCCHhHHHHHHHHHhccC--------chHHHHHHHHHHHhCCCCCCcch
Q 008280          165 TWNAMIAGYVENSWAEDGLKLLRMMIGLGI-RPNASSLSSVLLGCSHLS--------SLQLGKQVHQLVFKSPLCKDTTA  235 (571)
Q Consensus       165 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~pd~~t~~~ll~~~~~~~--------~~~~a~~~~~~~~~~g~~~~~~~  235 (571)
                      +....|..+...+++...-.+|+.+++.|+ .|+..+|+.++.+..+..        .+-....+|+.++..+++|+..+
T Consensus        27 t~i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~et  106 (120)
T PF08579_consen   27 TQIDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDET  106 (120)
T ss_pred             HHHHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHH
Confidence            445567777777999999999999999999 899999999999876542        34456778888888889999999


Q ss_pred             HHHHHHHHHh
Q 008280          236 LTPLISMYCK  245 (571)
Q Consensus       236 ~~~li~~y~~  245 (571)
                      |+.++..+.+
T Consensus       107 Ynivl~~Llk  116 (120)
T PF08579_consen  107 YNIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHHH
Confidence            9988887664

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 [, , ].

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=96.96  E-value=0.32  Score=45.16  Aligned_cols=54  Identities=17%  Similarity=0.187  Sum_probs=36.3

Q ss_pred             HHHHHHHHcCCHHHHHHHHHhC----CCCCC-HhHHHHHHHHHHhcCCHhHHHHHHHHH
Q 008280          340 CMVDLLGRAGKLVEAVDLIKKM----PFKPQ-PAIFGTLLSACRVHKRLDLAEFAAMNL  393 (571)
Q Consensus       340 ~li~~~~~~g~~~~A~~~~~~~----~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~  393 (571)
                      .+...|.+.|.+..|..-++.+    |..|. ......+..+|...|..++|......+
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            4566677788877777666665    32222 356667778888888888887766544

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.95  E-value=0.11  Score=50.74  Aligned_cols=160  Identities=20%  Similarity=0.137  Sum_probs=94.0

Q ss_pred             HHHHHHHhcCCHHHHHHHHHhhCCC-------ChhhHHHHHHHHHH---cCChHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 008280          238 PLISMYCKCGDLEDACKLFLEIQRK-------DVVTWNAMISGYAQ---HGKGEKALRLFDKMKDEGMKPDSITFVALLL  307 (571)
Q Consensus       238 ~li~~y~~~g~~~~A~~~~~~~~~~-------~~~~~~~li~~~~~---~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~  307 (571)
                      .|+-.|-...+++...++++.+...       ....-...+-++-+   .|+.++|++++..+......++..||..+..
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            4555677788888888888877653       12222233445555   7888888888888655555667777766665


Q ss_pred             HHHh---------cCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHH----HHHH---HhC-------CCC
Q 008280          308 ACNH---------AGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEA----VDLI---KKM-------PFK  364 (571)
Q Consensus       308 a~~~---------~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A----~~~~---~~~-------~~~  364 (571)
                      .|-.         ....++|...|.+.-   .+.|+..+--.++..+.-.|...+.    .++-   ...       .-.
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         223566666666543   4455544433344444444432221    2221   110       112


Q ss_pred             CCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCC
Q 008280          365 PQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPAN  400 (571)
Q Consensus       365 p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~  400 (571)
                      .|-..+.+++.++.-.|+.+.|.+.+++++++.|..
T Consensus       303 ~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~~~~  338 (374)
T PF13281_consen  303 QDYWDVATLLEASVLAGDYEKAIQAAEKAFKLKPPA  338 (374)
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCcc
Confidence            344455778888888888888888888888876643

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=96.93  E-value=0.0013  Score=42.45  Aligned_cols=42  Identities=26%  Similarity=0.253  Sum_probs=37.0

Q ss_pred             hHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHH
Q 008280          368 AIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLAN  410 (571)
Q Consensus       368 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~  410 (571)
                      .+|..+..+|...|++++|++.++++++.+|+++. .+..|+.
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            46788999999999999999999999999999987 7777654

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=96.93  E-value=0.18  Score=43.15  Aligned_cols=46  Identities=17%  Similarity=0.234  Sum_probs=19.1

Q ss_pred             HHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHH
Q 008280          306 LLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEA  354 (571)
Q Consensus       306 l~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  354 (571)
                      ...+...|...+|..-|+....   .-|+...-.....++.++|+.++|
T Consensus       167 aR~laa~g~~a~Aesafe~a~~---~ypg~~ar~~Y~e~La~qgr~~ea  212 (251)
T COG4700         167 ARTLAAQGKYADAESAFEVAIS---YYPGPQARIYYAEMLAKQGRLREA  212 (251)
T ss_pred             HHHHHhcCCchhHHHHHHHHHH---hCCCHHHHHHHHHHHHHhcchhHH
Confidence            3344444444444444444432   233333333334444444444443

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.92  E-value=0.0037  Score=61.47  Aligned_cols=64  Identities=16%  Similarity=-0.034  Sum_probs=35.3

Q ss_pred             HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCc--hhHHHHHHHHhhccChhHHHHHHHHHHh
Q 008280          367 PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA--GCYVQLANIYAAMKKWDDVARIRLSMKE  430 (571)
Q Consensus       367 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~--~~~~~l~~~~~~~g~~~~a~~~~~~m~~  430 (571)
                      ...|+.+..+|...|++++|+..|+++++++|++..  .+|..++.+|.+.|+.++|.+.+++..+
T Consensus        75 a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALe  140 (453)
T PLN03098         75 AEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALR  140 (453)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            345555555555555555555555555555555542  0255555555555555555555555544

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=96.81  E-value=0.019  Score=57.14  Aligned_cols=119  Identities=13%  Similarity=0.127  Sum_probs=94.5

Q ss_pred             CCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCCC------ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHH
Q 008280          229 LCKDTTALTPLISMYCKCGDLEDACKLFLEIQRK------DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITF  302 (571)
Q Consensus       229 ~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~  302 (571)
                      .+.+......+++......+++.+..++-+....      -..+..+++..|.+.|..++++.++..=...|+-||..|+
T Consensus        62 ~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~  141 (429)
T PF10037_consen   62 KPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSF  141 (429)
T ss_pred             CCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhH
Confidence            3445556666777777777888898888776532      1345569999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHc
Q 008280          303 VALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRA  348 (571)
Q Consensus       303 ~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~  348 (571)
                      +.|+..+.+.|++..|.++...|... ....++.++..-+.++.+.
T Consensus       142 n~Lmd~fl~~~~~~~A~~V~~~~~lQ-e~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  142 NLLMDHFLKKGNYKSAAKVATEMMLQ-EEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHHhhcccHHHHHHHHHHHHHh-hccCCchHHHHHHHHHHHh
Confidence            99999999999999999999888765 5556666665555555554

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 [].

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=96.75  E-value=0.25  Score=47.81  Aligned_cols=54  Identities=6%  Similarity=-0.108  Sum_probs=24.8

Q ss_pred             HHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHH--HhccCchHHHHHHHHHHHhCC
Q 008280          172 GYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLG--CSHLSSLQLGKQVHQLVFKSP  228 (571)
Q Consensus       172 ~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~--~~~~~~~~~a~~~~~~~~~~g  228 (571)
                      ++.-.|++++|...-...++..  +. ..+...+++  +-...+.+.+..-+++.++.+
T Consensus       178 cl~~~~~~~~a~~ea~~ilkld--~~-n~~al~vrg~~~yy~~~~~ka~~hf~qal~ld  233 (486)
T KOG0550|consen  178 CLAFLGDYDEAQSEAIDILKLD--AT-NAEALYVRGLCLYYNDNADKAINHFQQALRLD  233 (486)
T ss_pred             hhhhcccchhHHHHHHHHHhcc--cc-hhHHHHhcccccccccchHHHHHHHhhhhccC
Confidence            4455566666665554444432  11 112222222  223455566666666655543

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.73  E-value=0.96  Score=47.31  Aligned_cols=321  Identities=12%  Similarity=0.092  Sum_probs=187.7

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHhhCCCCC---cchHHHHHHHHHHcCC---hHHHHHHHhhCCC--CChhHHHHHHHHHHh
Q 008280           73 WNTMISGFVQKKNMAKARDLFLAMPEKN---SVSWSAMISGYIECGQ---LDKAVELFKVAPV--KSVVAWTAMISGYMK  144 (571)
Q Consensus        73 ~~~li~~~~~~g~~~~A~~~~~~m~~~d---~~~~~~li~~~~~~g~---~~~A~~~~~~~~~--~~~~~~~~li~~~~~  144 (571)
                      -..+|+-++..+.+..|+++-..+..|-   ...|.....-+.+..+   -+-+..+-+++..  ..-.+|..+..--..
T Consensus       440 ~~~vi~Rl~~r~~Y~vaIQva~~l~~p~~~~~~Vl~~Wa~~kI~~~d~~d~~vld~I~~kls~~~~~~iSy~~iA~~Ay~  519 (829)
T KOG2280|consen  440 EEVVIDRLVDRHLYSVAIQVAKLLNLPESQGDRVLLEWARRKIKQSDKMDEEVLDKIDEKLSAKLTPGISYAAIARRAYQ  519 (829)
T ss_pred             hhhhhHHHHhcchhHHHHHHHHHhCCccccccHHHHHHHHHHHhccCccchHHHHHHHHHhcccCCCceeHHHHHHHHHh
Confidence            3456777777888999999888886654   4556666666665532   2223333334433  344667777777778


Q ss_pred             cCCHHHHHHHHhhCCCC--------CHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHH
Q 008280          145 FGKVDLAEKLFDEMPTK--------NLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQL  216 (571)
Q Consensus       145 ~g~~~~A~~~~~~~~~~--------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~  216 (571)
                      +|+.+.|..+++.=+..        +..-+..-+.-..+.|+.+-...++..+...   .+...|...+      .+...
T Consensus       520 ~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllhlk~~---~~~s~l~~~l------~~~p~  590 (829)
T KOG2280|consen  520 EGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHLKNK---LNRSSLFMTL------RNQPL  590 (829)
T ss_pred             cCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHHHHH---HHHHHHHHHH------Hhchh
Confidence            89999999888765431        1122344455556667766666666555442   1111121111      23344


Q ss_pred             HHHHHHHHHhC-CCCCCcchHHHHHHHHHhcCCHHHHHHHH-Hhh-----CCCChhhHHHHHHHHHHcCC----------
Q 008280          217 GKQVHQLVFKS-PLCKDTTALTPLISMYCKCGDLEDACKLF-LEI-----QRKDVVTWNAMISGYAQHGK----------  279 (571)
Q Consensus       217 a~~~~~~~~~~-g~~~~~~~~~~li~~y~~~g~~~~A~~~~-~~~-----~~~~~~~~~~li~~~~~~g~----------  279 (571)
                      |..+|.+..+. +.       ..|-+.|-...+...+-.+- +..     ...-..........+++...          
T Consensus       591 a~~lY~~~~r~~~~-------~~l~d~y~q~dn~~~~a~~~~q~~~~~~~~~~r~~~lk~~a~~~a~sk~~s~e~ka~ed  663 (829)
T KOG2280|consen  591 ALSLYRQFMRHQDR-------ATLYDFYNQDDNHQALASFHLQASYAAETIEGRIPALKTAANAFAKSKEKSFEAKALED  663 (829)
T ss_pred             hhHHHHHHHHhhch-------hhhhhhhhcccchhhhhhhhhhhhhhhhhhcccchhHHHHHHHHhhhhhhhhHHHHHHH
Confidence            55555554442 21       12333333333332222111 110     01111122223333333322          


Q ss_pred             hHHHHHHHHHHHH-cCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHH
Q 008280          280 GEKALRLFDKMKD-EGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLI  358 (571)
Q Consensus       280 ~~~A~~~~~~m~~-~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~  358 (571)
                      ..+-+.+.+.+.. .|......|.+-.+.-+...|+..+|.++-.+..     -||...|-.-+.+++..+++++-+++-
T Consensus       664 ~~kLl~lQ~~Le~q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk-----ipdKr~~wLk~~aLa~~~kweeLekfA  738 (829)
T KOG2280|consen  664 QMKLLKLQRTLEDQFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFK-----IPDKRLWWLKLTALADIKKWEELEKFA  738 (829)
T ss_pred             HHHHHHHHHHHHHHhccccccCcHHHHHHHHHHccchHHHHHHHHhcC-----CcchhhHHHHHHHHHhhhhHHHHHHHH
Confidence            2222333333322 2334455566677777888899999988766553     478888888889999999999988888


Q ss_pred             HhCCCCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHH
Q 008280          359 KKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRL  426 (571)
Q Consensus       359 ~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~  426 (571)
                      ++..   .+.-|.-...+|.+.|+.++|.+++-+.       +  -+.....+|.+.|++.+|.++--
T Consensus       739 kskk---sPIGy~PFVe~c~~~~n~~EA~KYiprv-------~--~l~ekv~ay~~~~~~~eAad~A~  794 (829)
T KOG2280|consen  739 KSKK---SPIGYLPFVEACLKQGNKDEAKKYIPRV-------G--GLQEKVKAYLRVGDVKEAADLAA  794 (829)
T ss_pred             hccC---CCCCchhHHHHHHhcccHHHHhhhhhcc-------C--ChHHHHHHHHHhccHHHHHHHHH
Confidence            8763   2556777888999999999999888655       2  23367788999999999987643

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=96.71  E-value=0.7  Score=45.43  Aligned_cols=397  Identities=13%  Similarity=0.135  Sum_probs=202.7

Q ss_pred             HhCCCCHHHHHHHHhhCCC---CC------hhhHHHHHHHHHcCCCCHHHHHHHHhhCCCC-ChhhHHHHHHHH--HcCC
Q 008280           17 AKQRGKLKDAQELFDKIPQ---PD------VVSYNIMLSCILLNSDDVVAAFDFFQRLPIK-DTASWNTMISGF--VQKK   84 (571)
Q Consensus        17 ~~~~g~~~~A~~~~~~~~~---~~------~~~~~~ll~~~~~~~g~~~~A~~~~~~m~~~-d~~~~~~li~~~--~~~g   84 (571)
                      .+.+ ++++|.++|.++-+   .+      .+.-+.++++|..+  +.+.....+....+. ....|-.|..+.  -+.+
T Consensus        17 qkq~-~~~esEkifskI~~e~~~~~f~lkeEvl~grilnAffl~--nld~Me~~l~~l~~~~~~s~~l~LF~~L~~Y~~k   93 (549)
T PF07079_consen   17 QKQK-KFQESEKIFSKIYDEKESSPFLLKEEVLGGRILNAFFLN--NLDLMEKQLMELRQQFGKSAYLPLFKALVAYKQK   93 (549)
T ss_pred             HHHh-hhhHHHHHHHHHHHHhhcchHHHHHHHHhhHHHHHHHHh--hHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhh
Confidence            3566 99999999988854   22      23356788888876  444444443333221 123344444433  3678


Q ss_pred             CHHHHHHHHhhCCCC------------------CcchHHHHHHHHHHcCChHHHHHHHhhCC--------CCChhHHHHH
Q 008280           85 NMAKARDLFLAMPEK------------------NSVSWSAMISGYIECGQLDKAVELFKVAP--------VKSVVAWTAM  138 (571)
Q Consensus        85 ~~~~A~~~~~~m~~~------------------d~~~~~~li~~~~~~g~~~~A~~~~~~~~--------~~~~~~~~~l  138 (571)
                      ++.+|++.|..-...                  |...=+..+..+...|++.+++.+++++.        .-++.+|+.+
T Consensus        94 ~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~~  173 (549)
T PF07079_consen   94 EYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDRA  173 (549)
T ss_pred             hHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHHH
Confidence            888888877544211                  11122445677888899999998887764        2477888887


Q ss_pred             HHHHHhcCCHHHHHHHHhhCCCCCHHHHHHHHHHHHHcCC-------------------------------hhHHHHHHH
Q 008280          139 ISGYMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSW-------------------------------AEDGLKLLR  187 (571)
Q Consensus       139 i~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~-------------------------------~~~A~~~~~  187 (571)
                      +-++++.--++.-    +.+...=..-|.-||..|.+.=.                               ..--++++.
T Consensus       174 vlmlsrSYfLEl~----e~~s~dl~pdyYemilfY~kki~~~d~~~Y~k~~peeeL~s~imqhlfi~p~e~l~~~mq~l~  249 (549)
T PF07079_consen  174 VLMLSRSYFLELK----ESMSSDLYPDYYEMILFYLKKIHAFDQRPYEKFIPEEELFSTIMQHLFIVPKERLPPLMQILE  249 (549)
T ss_pred             HHHHhHHHHHHHH----HhcccccChHHHHHHHHHHHHHHHHhhchHHhhCcHHHHHHHHHHHHHhCCHhhccHHHHHHH
Confidence            7777654322211    11111111223344444433211                               111111222


Q ss_pred             HHHHCCCCCCHhH-HHHHHHHHhccCchHHHHHHHHHHHhCCCCC----CcchHHHHHHHHHhcCCHHHHHHHHHhhC--
Q 008280          188 MMIGLGIRPNASS-LSSVLLGCSHLSSLQLGKQVHQLVFKSPLCK----DTTALTPLISMYCKCGDLEDACKLFLEIQ--  260 (571)
Q Consensus       188 ~m~~~g~~pd~~t-~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~----~~~~~~~li~~y~~~g~~~~A~~~~~~~~--  260 (571)
                      .....-+.|+... ...+.....+  +.+++..+-+.+....+.+    -+.++..++....+.++...|.+.+.-+.  
T Consensus       250 ~We~~yv~p~~~LVi~~L~~~f~~--~~e~~~~~ce~ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~l  327 (549)
T PF07079_consen  250 NWENFYVHPNYDLVIEPLKQQFMS--DPEQVGHFCEAIASSKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYLALLKIL  327 (549)
T ss_pred             HHHhhccCCchhHHHHHHHHHHhc--ChHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhc
Confidence            2222223333221 1222222222  4455555544444332111    12234444555555666666666655443  


Q ss_pred             CCChh-------hHHHHHHHHHH----cCChHHHHHHHHHHHHcCCCCCHHHHH-HH---HHHHHhcCc-HHHHHHHHHH
Q 008280          261 RKDVV-------TWNAMISGYAQ----HGKGEKALRLFDKMKDEGMKPDSITFV-AL---LLACNHAGL-VDLGIQYFDS  324 (571)
Q Consensus       261 ~~~~~-------~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~t~~-~l---l~a~~~~g~-~~~a~~~~~~  324 (571)
                      +|+..       +-..+-+..+.    .-+..+=+.++++....++  |..-.. .+   ..-+-+.|. -++|.++++.
T Consensus       328 dp~~svs~Kllls~~~lq~Iv~~DD~~~Tklr~yL~lwe~~qs~Di--DrqQLvh~L~~~Ak~lW~~g~~dekalnLLk~  405 (549)
T PF07079_consen  328 DPRISVSEKLLLSPKVLQDIVCEDDESYTKLRDYLNLWEEIQSYDI--DRQQLVHYLVFGAKHLWEIGQCDEKALNLLKL  405 (549)
T ss_pred             CCcchhhhhhhcCHHHHHHHHhcchHHHHHHHHHHHHHHHHHhhcc--cHHHHHHHHHHHHHHHHhcCCccHHHHHHHHH
Confidence            22221       11112222221    1122233444444443322  221111 11   122334444 6777888877


Q ss_pred             hHHhcCCCCChHhHHHHHH----HHHHc---C---CHHHHHHHHHhCCCCC----CHhHHHHHHHH--HHhcCCHhHHHH
Q 008280          325 MVNDYGIAAKPDHYTCMVD----LLGRA---G---KLVEAVDLIKKMPFKP----QPAIFGTLLSA--CRVHKRLDLAEF  388 (571)
Q Consensus       325 ~~~~~~~~~~~~~~~~li~----~~~~~---g---~~~~A~~~~~~~~~~p----~~~~~~~l~~~--~~~~g~~~~a~~  388 (571)
                      +.+-  -+-|..+-+.+..    .|..+   .   ++-+-..++++.++.|    +...-|.|..|  +..+|++.++.-
T Consensus       406 il~f--t~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~~i~i~e~eian~LaDAEyLysqgey~kc~~  483 (549)
T PF07079_consen  406 ILQF--TNYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLTPITISEEEIANFLADAEYLYSQGEYHKCYL  483 (549)
T ss_pred             HHHh--ccccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCcccccHHHHHHHHHHHHHHHhcccHHHHHH
Confidence            7642  1223333332221    22211   1   1122233444555443    23456667666  578999999999


Q ss_pred             HHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHH
Q 008280          389 AAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSM  428 (571)
Q Consensus       389 ~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  428 (571)
                      .-.-+.+..| .+. +|..++.+.....++++|..++..+
T Consensus       484 ys~WL~~iaP-S~~-~~RLlGl~l~e~k~Y~eA~~~l~~L  521 (549)
T PF07079_consen  484 YSSWLTKIAP-SPQ-AYRLLGLCLMENKRYQEAWEYLQKL  521 (549)
T ss_pred             HHHHHHHhCC-cHH-HHHHHHHHHHHHhhHHHHHHHHHhC
Confidence            9999999999 556 9999999999999999999999754

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.69  E-value=0.033  Score=52.08  Aligned_cols=101  Identities=15%  Similarity=0.125  Sum_probs=68.9

Q ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCC-hHhHHHHHHHHHHcCCHHHHHHHHHhC----CCCCC-HhHHHHHH
Q 008280          301 TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAK-PDHYTCMVDLLGRAGKLVEAVDLIKKM----PFKPQ-PAIFGTLL  374 (571)
Q Consensus       301 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~~----~~~p~-~~~~~~l~  374 (571)
                      .|...+......|++++|...|+.+.+.+.-.+- +..+..+...|...|++++|...|+.+    |..|. ...+..+.
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            3444444445567888888888887765321111 345667778888888888888888777    22111 34555566


Q ss_pred             HHHHhcCCHhHHHHHHHHHhccCCCCC
Q 008280          375 SACRVHKRLDLAEFAAMNLFNLNPANA  401 (571)
Q Consensus       375 ~~~~~~g~~~~a~~~~~~~~~~~p~~~  401 (571)
                      ..+...|+.+.|...++++++..|+..
T Consensus       225 ~~~~~~g~~~~A~~~~~~vi~~yP~s~  251 (263)
T PRK10803        225 VIMQDKGDTAKAKAVYQQVIKKYPGTD  251 (263)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCcCCH
Confidence            777788999999999999999888864

>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=96.65  E-value=0.024  Score=50.02  Aligned_cols=97  Identities=23%  Similarity=0.333  Sum_probs=71.5

Q ss_pred             HHHHHhh--CCCChhhHHHHHHHHHHc-----CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC------------
Q 008280          253 CKLFLEI--QRKDVVTWNAMISGYAQH-----GKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAG------------  313 (571)
Q Consensus       253 ~~~~~~~--~~~~~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g------------  313 (571)
                      ...|+..  ..++-.+|..++..|.+.     |+.+=....+..|.+-|+.-|..+|+.||..+=+..            
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            4556665  457778888888888754     677777788889999999999999999998765421            


Q ss_pred             ----cHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCC
Q 008280          314 ----LVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGK  350 (571)
Q Consensus       314 ----~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  350 (571)
                          +.+-|++++++|.. +|+-||.+++..|++.+++.+.
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                33557777777765 4777887777777777766554

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=96.63  E-value=0.16  Score=45.98  Aligned_cols=165  Identities=7%  Similarity=-0.077  Sum_probs=90.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhhCC--CCh--------hhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHH
Q 008280          236 LTPLISMYCKCGDLEDACKLFLEIQR--KDV--------VTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVAL  305 (571)
Q Consensus       236 ~~~li~~y~~~g~~~~A~~~~~~~~~--~~~--------~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~l  305 (571)
                      +++|...|.-..-+++-...|+.-..  ..+        ..-+.++..+.-.|.+.-.+..+.+.++...+.+......|
T Consensus       139 qesLdRl~~L~~~V~~ii~~~e~~~~~ESsv~lW~KRl~~Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~L  218 (366)
T KOG2796|consen  139 QESLDRLHKLKTVVSKILANLEQGLAEESSIRLWRKRLGRVMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGL  218 (366)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhccchhhHHHHHHHHHHHHHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHH
Confidence            45566665554444444444443222  122        23345555555666777777777777776555566666667


Q ss_pred             HHHHHhcCcHHHHHHHHHHhHHhcCCCCChHh-----HHHHHHHHHHcCCHHHHHHHHHhCCCC--CCHhHHHHHHHHHH
Q 008280          306 LLACNHAGLVDLGIQYFDSMVNDYGIAAKPDH-----YTCMVDLLGRAGKLVEAVDLIKKMPFK--PQPAIFGTLLSACR  378 (571)
Q Consensus       306 l~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~-----~~~li~~~~~~g~~~~A~~~~~~~~~~--p~~~~~~~l~~~~~  378 (571)
                      .+.-.+.|+.+.|..+|+...+. .-..+...     .......|.-++++.+|...+.+.+..  .|+...|.-.-...
T Consensus       219 gr~~MQ~GD~k~a~~yf~~vek~-~~kL~~~q~~~~V~~n~a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcll  297 (366)
T KOG2796|consen  219 GRISMQIGDIKTAEKYFQDVEKV-TQKLDGLQGKIMVLMNSAFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLL  297 (366)
T ss_pred             HHHHHhcccHHHHHHHHHHHHHH-HhhhhccchhHHHHhhhhhheecccchHHHHHHHhhccccCCCchhhhchHHHHHH
Confidence            77777778877777777766543 22222222     222233344556666666666666322  12233333222334


Q ss_pred             hcCCHhHHHHHHHHHhccCCCCC
Q 008280          379 VHKRLDLAEFAAMNLFNLNPANA  401 (571)
Q Consensus       379 ~~g~~~~a~~~~~~~~~~~p~~~  401 (571)
                      -.|+...|++..+.+++..|...
T Consensus       298 Ylg~l~DAiK~~e~~~~~~P~~~  320 (366)
T KOG2796|consen  298 YLGKLKDALKQLEAMVQQDPRHY  320 (366)
T ss_pred             HHHHHHHHHHHHHHHhccCCccc
Confidence            45666667777777776666543

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=96.63  E-value=0.014  Score=55.88  Aligned_cols=127  Identities=12%  Similarity=0.027  Sum_probs=85.4

Q ss_pred             HHHHHHHHHhccCchHHHHHHHHHHHh----CCC-CCCcchHHHHHHHHHhcCCHHHHHHHHHhhC-------CCC--hh
Q 008280          200 SLSSVLLGCSHLSSLQLGKQVHQLVFK----SPL-CKDTTALTPLISMYCKCGDLEDACKLFLEIQ-------RKD--VV  265 (571)
Q Consensus       200 t~~~ll~~~~~~~~~~~a~~~~~~~~~----~g~-~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~-------~~~--~~  265 (571)
                      .|..+-+.|.-.|+++.|...|+.-+.    .|- ......+..|.++|.-.|+++.|.+.|+...       .+.  ..
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            344455555567889999888875432    221 1234567778888888999999998887543       232  34


Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHH----cC-CCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhH
Q 008280          266 TWNAMISGYAQHGKGEKALRLFDKMKD----EG-MKPDSITFVALLLACNHAGLVDLGIQYFDSMV  326 (571)
Q Consensus       266 ~~~~li~~~~~~g~~~~A~~~~~~m~~----~g-~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~  326 (571)
                      +..+|...|.-..++++|+.++.+-..    .+ ..-....+.+|..++...|..++|..+...-.
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            566778888888888899888766321    11 12234567788889999999888887765443

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.61  E-value=0.0075  Score=44.02  Aligned_cols=61  Identities=13%  Similarity=0.199  Sum_probs=49.3

Q ss_pred             HHHHHHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCc
Q 008280          342 VDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA  402 (571)
Q Consensus       342 i~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~  402 (571)
                      -.+|.+.+++++|.++++++ ...| ++..|......+...|++++|...++++++..|+++.
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            35678888899998888887 3333 4567778888889999999999999999999998764

>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=96.60  E-value=0.02  Score=50.43  Aligned_cols=95  Identities=13%  Similarity=0.150  Sum_probs=57.6

Q ss_pred             HHHHhhC--CCCCHHHHHHHHHHHHHc-----CChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhcc-------------
Q 008280          152 EKLFDEM--PTKNLVTWNAMIAGYVEN-----SWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHL-------------  211 (571)
Q Consensus       152 ~~~~~~~--~~~~~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~-------------  211 (571)
                      ...|++.  ..+|-.+|..++..|.+.     |..+=....++.|.+-|+.-|..+|+.||..+=+.             
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            3444444  345666666666666543     55565666677777777777777777777765331             


Q ss_pred             ---CchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhc
Q 008280          212 ---SSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKC  246 (571)
Q Consensus       212 ---~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~  246 (571)
                         .+.+-|..++++|...|+-||..++..|++.+++.
T Consensus       114 hyp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~  151 (228)
T PF06239_consen  114 HYPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRK  151 (228)
T ss_pred             cCcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccc
Confidence               23344566666666666666666666666665443

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=96.53  E-value=0.52  Score=42.42  Aligned_cols=50  Identities=12%  Similarity=0.138  Sum_probs=28.6

Q ss_pred             HHHHHHhcCcHHHHHHHHHHhHHhcCCCCC-hHhHHHHHHHHHHcCCHHHH
Q 008280          305 LLLACNHAGLVDLGIQYFDSMVNDYGIAAK-PDHYTCMVDLLGRAGKLVEA  354 (571)
Q Consensus       305 ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~A  354 (571)
                      +..-|.+.|.+..|..-++.+++++.-.+. ......++.+|.+.|..+.|
T Consensus       147 ia~~Y~~~~~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a  197 (203)
T PF13525_consen  147 IARFYYKRGKYKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAA  197 (203)
T ss_dssp             HHHHHHCTT-HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHH
T ss_pred             HHHHHHHcccHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHH
Confidence            455567777777777777777765422222 23445666666676666644

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.49  E-value=1.4  Score=46.31  Aligned_cols=67  Identities=9%  Similarity=0.205  Sum_probs=44.2

Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHHhc
Q 008280          302 FVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVH  380 (571)
Q Consensus       302 ~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~  380 (571)
                      ....+..|.+.|-+++-.-++.+|-         .++.+|.-+--+.+++++|+++.++-   .|...|..||.-+...
T Consensus       637 lekA~eiC~q~~~~~E~VYlLgrmG---------n~k~AL~lII~el~die~AIefvKeq---~D~eLWe~LI~~~ldk  703 (846)
T KOG2066|consen  637 LEKALEICSQKNFYEELVYLLGRMG---------NAKEALKLIINELRDIEKAIEFVKEQ---DDSELWEDLINYSLDK  703 (846)
T ss_pred             HHHHHHHHHhhCcHHHHHHHHHhhc---------chHHHHHHHHHHhhCHHHHHHHHHhc---CCHHHHHHHHHHhhcC
Confidence            4456666777777777776666662         23444555555667788888777763   5788888888776544

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=96.41  E-value=1.4  Score=45.15  Aligned_cols=376  Identities=12%  Similarity=0.073  Sum_probs=211.3

Q ss_pred             CChhhHHHHHHHHHcCCCCHHHHHHHHhhCCC--CChh-hHHHHHHHHHcCCCHHHHHHHHhhCCC---CCcchHHHHHH
Q 008280           36 PDVVSYNIMLSCILLNSDDVVAAFDFFQRLPI--KDTA-SWNTMISGFVQKKNMAKARDLFLAMPE---KNSVSWSAMIS  109 (571)
Q Consensus        36 ~~~~~~~~ll~~~~~~~g~~~~A~~~~~~m~~--~d~~-~~~~li~~~~~~g~~~~A~~~~~~m~~---~d~~~~~~li~  109 (571)
                      -+...|+.+|..--.. .+++.++.+++.+..  |-.. -|-.....=.+-|..+.+.++|++..+   ..+..|...+.
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            3445677766654444 555666666666654  3322 234444444566777777777776654   23445555444


Q ss_pred             HHH-HcCChHHHHHHHhhCCC------CChhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCHHHHHHHHHHHHH---c---
Q 008280          110 GYI-ECGQLDKAVELFKVAPV------KSVVAWTAMISGYMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVE---N---  176 (571)
Q Consensus       110 ~~~-~~g~~~~A~~~~~~~~~------~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~---~---  176 (571)
                      -+. ..|+.+.....|+.+..      .....|...+..-..++++.....+++++.+-....++..-.-|.+   .   
T Consensus       122 f~~n~~~d~~~lr~~fe~A~~~vG~dF~S~~lWdkyie~en~qks~k~v~~iyeRileiP~~~~~~~f~~f~~~l~~~~~  201 (577)
T KOG1258|consen  122 FLKNNNGDPETLRDLFERAKSYVGLDFLSDPLWDKYIEFENGQKSWKRVANIYERILEIPLHQLNRHFDRFKQLLNQNEE  201 (577)
T ss_pred             HHhccCCCHHHHHHHHHHHHHhcccchhccHHHHHHHHHHhccccHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhcCCh
Confidence            332 34666666666665531      1335566666666667777777777777665333333333222221   1   


Q ss_pred             ---CChhHHHHHHHHHH--------------------HCCCCCCHhHHH--HHHHHH-------hccCchHHHHHHHHHH
Q 008280          177 ---SWAEDGLKLLRMMI--------------------GLGIRPNASSLS--SVLLGC-------SHLSSLQLGKQVHQLV  224 (571)
Q Consensus       177 ---g~~~~A~~~~~~m~--------------------~~g~~pd~~t~~--~ll~~~-------~~~~~~~~a~~~~~~~  224 (571)
                         -..+++.++-....                    ..+-+.+..+..  .+...+       ...-.....+..++.-
T Consensus       202 ~~l~~~d~~~~l~~~~~~~~~~~~~~~~~e~~~~~v~~~~~~s~~l~~~~~~l~~~~~~~~~~~~~s~~~~~kr~~fE~~  281 (577)
T KOG1258|consen  202 KILLSIDELIQLRSDVAERSKITHSQEPLEELEIGVKDSTDPSKSLTEEKTILKRIVSIHEKVYQKSEEEEEKRWGFEEG  281 (577)
T ss_pred             hhhcCHHHHHHHhhhHHhhhhcccccChhHHHHHHHhhccCccchhhHHHHHHHHHHHHHHHHHHhhHhHHHHHHhhhhh
Confidence               11222222211111                    111011111111  111111       1111122222233333


Q ss_pred             HhCC---C----CCCcchHHHHHHHHHhcCCHHHHHHHHHhhCCC---ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcC
Q 008280          225 FKSP---L----CKDTTALTPLISMYCKCGDLEDACKLFLEIQRK---DVVTWNAMISGYAQHGKGEKALRLFDKMKDEG  294 (571)
Q Consensus       225 ~~~g---~----~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  294 (571)
                      ++..   +    +++..+|...++.-.+.|+.+...-+|++..-+   -...|-..+.-....|+.+-|..++....+--
T Consensus       282 IkrpYfhvkpl~~aql~nw~~yLdf~i~~g~~~~~~~l~ercli~cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~  361 (577)
T KOG1258|consen  282 IKRPYFHVKPLDQAQLKNWRYYLDFEITLGDFSRVFILFERCLIPCALYDEFWIKYARWMESSGDVSLANNVLARACKIH  361 (577)
T ss_pred             ccccccccCcccHHHHHHHHHHhhhhhhcccHHHHHHHHHHHHhHHhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhc
Confidence            3321   1    224567888888889999999999999998754   23456666655556688888888877765543


Q ss_pred             CCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCC-hHhHHHHHHHHHHcCCHHHHH---HHHHhC-CCCCCHhH
Q 008280          295 MKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAK-PDHYTCMVDLLGRAGKLVEAV---DLIKKM-PFKPQPAI  369 (571)
Q Consensus       295 ~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~A~---~~~~~~-~~~p~~~~  369 (571)
                      ++-.+.+-..-..-+...|+++.|..+++.+..+  . |+ ...-..-+....+.|..+.+.   +++... +.+-+..+
T Consensus       362 ~k~~~~i~L~~a~f~e~~~n~~~A~~~lq~i~~e--~-pg~v~~~l~~~~~e~r~~~~~~~~~~~~l~s~~~~~~~~~~i  438 (577)
T KOG1258|consen  362 VKKTPIIHLLEARFEESNGNFDDAKVILQRIESE--Y-PGLVEVVLRKINWERRKGNLEDANYKNELYSSIYEGKENNGI  438 (577)
T ss_pred             CCCCcHHHHHHHHHHHhhccHHHHHHHHHHHHhh--C-CchhhhHHHHHhHHHHhcchhhhhHHHHHHHHhcccccCcch
Confidence            3333332222223456778999999999999875  3 55 334344566778889999888   555444 22233333


Q ss_pred             HHHHHH-----HHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhcc
Q 008280          370 FGTLLS-----ACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMK  416 (571)
Q Consensus       370 ~~~l~~-----~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g  416 (571)
                      ...+.-     .+...++.+.|..++.++.+..|++.. .|..+.+.....+
T Consensus       439 ~~~l~~~~~r~~~~i~~d~~~a~~~l~~~~~~~~~~k~-~~~~~~~~~~~~~  489 (577)
T KOG1258|consen  439 LEKLYVKFARLRYKIREDADLARIILLEANDILPDCKV-LYLELIRFELIQP  489 (577)
T ss_pred             hHHHHHHHHHHHHHHhcCHHHHHHHHHHhhhcCCccHH-HHHHHHHHHHhCC
Confidence            333222     245678999999999999999999987 8888888876655

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.39  E-value=0.03  Score=53.96  Aligned_cols=108  Identities=16%  Similarity=0.152  Sum_probs=80.0

Q ss_pred             HHHHHcCCHHHHHHHHHhC--------CCC---------CCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhH
Q 008280          343 DLLGRAGKLVEAVDLIKKM--------PFK---------PQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCY  405 (571)
Q Consensus       343 ~~~~~~g~~~~A~~~~~~~--------~~~---------p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~  405 (571)
                      ..|.+.|++..|..-|++.        +..         .-..+++.|...|.+.+++..|+....++++++|+|+. ++
T Consensus       216 n~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~K-AL  294 (397)
T KOG0543|consen  216 NVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELDPNNVK-AL  294 (397)
T ss_pred             hHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchh-HH
Confidence            3455666666666655553        111         12345667777888999999999999999999999998 99


Q ss_pred             HHHHHHHhhccChhHHHHHHHHHHhCCCccCCceeEEEECCEEEEEecCCCCCcccHHHHHHHHHHHHHHHH
Q 008280          406 VQLANIYAAMKKWDDVARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKL  477 (571)
Q Consensus       406 ~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~s~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~~~~m~~  477 (571)
                      +.=+.+|...|.++.|+..|+++.+..                          |.+..|...|..+.+++++
T Consensus       295 yRrG~A~l~~~e~~~A~~df~ka~k~~--------------------------P~Nka~~~el~~l~~k~~~  340 (397)
T KOG0543|consen  295 YRRGQALLALGEYDLARDDFQKALKLE--------------------------PSNKAARAELIKLKQKIRE  340 (397)
T ss_pred             HHHHHHHHhhccHHHHHHHHHHHHHhC--------------------------CCcHHHHHHHHHHHHHHHH
Confidence            999999999999999999999987632                          4456666666666666654

>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=96.36  E-value=0.063  Score=45.46  Aligned_cols=61  Identities=16%  Similarity=0.128  Sum_probs=52.5

Q ss_pred             hHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHH
Q 008280          368 AIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMK  429 (571)
Q Consensus       368 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  429 (571)
                      .....++..+...|++++|...+++++..+|-+.. .|..++.+|...|+..+|.++|+.+.
T Consensus        63 ~~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~~E~-~~~~lm~~~~~~g~~~~A~~~Y~~~~  123 (146)
T PF03704_consen   63 DALERLAEALLEAGDYEEALRLLQRALALDPYDEE-AYRLLMRALAAQGRRAEALRVYERYR  123 (146)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-HH-HHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccCHHHHHHHHHHHHhcCCCCHH-HHHHHHHHHHHCcCHHHHHHHHHHHH
Confidence            35566777788999999999999999999999988 99999999999999999999998875

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=96.30  E-value=0.4  Score=43.15  Aligned_cols=167  Identities=13%  Similarity=0.109  Sum_probs=83.4

Q ss_pred             HHHHHHhcCCHHHHHHHHHhhCC--CC----hhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Q 008280          239 LISMYCKCGDLEDACKLFLEIQR--KD----VVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHA  312 (571)
Q Consensus       239 li~~y~~~g~~~~A~~~~~~~~~--~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~  312 (571)
                      ....+...|++++|.+.|+.+..  |+    ..+.-.++.++.+.|++++|...++++.+.-..-....+...+.+.+.-
T Consensus        11 ~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~~g~~~~   90 (203)
T PF13525_consen   11 KALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYMLGLSYY   90 (203)
T ss_dssp             HHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHH
Confidence            44455566777777777776653  11    2344455666677777777777777766542211112222222222211


Q ss_pred             Cc-------------HHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHHh
Q 008280          313 GL-------------VDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRV  379 (571)
Q Consensus       313 g~-------------~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~  379 (571)
                      ..             ..+|...|+.++++                |=......+|...+..+...- ..--..+..-|.+
T Consensus        91 ~~~~~~~~~~~D~~~~~~A~~~~~~li~~----------------yP~S~y~~~A~~~l~~l~~~l-a~~e~~ia~~Y~~  153 (203)
T PF13525_consen   91 KQIPGILRSDRDQTSTRKAIEEFEELIKR----------------YPNSEYAEEAKKRLAELRNRL-AEHELYIARFYYK  153 (203)
T ss_dssp             HHHHHHH-TT---HHHHHHHHHHHHHHHH-----------------TTSTTHHHHHHHHHHHHHHH-HHHHHHHHHHHHC
T ss_pred             HhCccchhcccChHHHHHHHHHHHHHHHH----------------CcCchHHHHHHHHHHHHHHHH-HHHHHHHHHHHHH
Confidence            11             11233333333332                222222333333222221000 0011124456788


Q ss_pred             cCCHhHHHHHHHHHhccCCCCCc--hhHHHHHHHHhhccChhHHH
Q 008280          380 HKRLDLAEFAAMNLFNLNPANAA--GCYVQLANIYAAMKKWDDVA  422 (571)
Q Consensus       380 ~g~~~~a~~~~~~~~~~~p~~~~--~~~~~l~~~~~~~g~~~~a~  422 (571)
                      .|.+..|..-++.+++.-|+.+.  .+...++.+|.+.|..+.+.
T Consensus       154 ~~~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a~  198 (203)
T PF13525_consen  154 RGKYKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAAD  198 (203)
T ss_dssp             TT-HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             cccHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHHH
Confidence            99999999999999998888642  14567888899999887543

>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=96.23  E-value=0.0068  Score=44.95  Aligned_cols=24  Identities=8%  Similarity=0.200  Sum_probs=10.9

Q ss_pred             hHHHHHHHHhhccChhHHHHHHHH
Q 008280          404 CYVQLANIYAAMKKWDDVARIRLS  427 (571)
Q Consensus       404 ~~~~l~~~~~~~g~~~~a~~~~~~  427 (571)
                      ++..++.+|...|++++|.+.+++
T Consensus        48 ~~~~lg~~~~~~g~~~~A~~~~~~   71 (78)
T PF13424_consen   48 TLNNLGECYYRLGDYEEALEYYQK   71 (78)
T ss_dssp             HHHHHHHHHHHTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHH
Confidence            344444444444444444444443

...

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=96.22  E-value=0.27  Score=45.77  Aligned_cols=103  Identities=17%  Similarity=0.114  Sum_probs=70.5

Q ss_pred             CCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcC---CHHHHHHHHHhC-CCCC-CHhHHH
Q 008280          297 PDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAG---KLVEAVDLIKKM-PFKP-QPAIFG  371 (571)
Q Consensus       297 p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g---~~~~A~~~~~~~-~~~p-~~~~~~  371 (571)
                      -|...|..|..+|...|+.+.|..-|....+  -..+++..+..+..++....   ...++.++|+++ ...| |+.+..
T Consensus       154 ~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~r--L~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~iral~  231 (287)
T COG4235         154 GDAEGWDLLGRAYMALGRASDALLAYRNALR--LAGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRALS  231 (287)
T ss_pred             CCchhHHHHHHHHHHhcchhHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHHHH
Confidence            3556777777777777777777777777765  23444666666666654432   345677777776 3334 345566


Q ss_pred             HHHHHHHhcCCHhHHHHHHHHHhccCCCCC
Q 008280          372 TLLSACRVHKRLDLAEFAAMNLFNLNPANA  401 (571)
Q Consensus       372 ~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~  401 (571)
                      -|...+...|++.+|...++.|++..|.+.
T Consensus       232 lLA~~afe~g~~~~A~~~Wq~lL~~lp~~~  261 (287)
T COG4235         232 LLAFAAFEQGDYAEAAAAWQMLLDLLPADD  261 (287)
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHhcCCCCC
Confidence            666778888888888888888888777665

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=96.20  E-value=0.084  Score=43.56  Aligned_cols=73  Identities=16%  Similarity=0.102  Sum_probs=53.7

Q ss_pred             HHHHHHcCCHHHHHHHHHhC----CCCCC-HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhh
Q 008280          342 VDLLGRAGKLVEAVDLIKKM----PFKPQ-PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAA  414 (571)
Q Consensus       342 i~~~~~~g~~~~A~~~~~~~----~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~  414 (571)
                      .....+.|++++|.+.|+.+    |..|- ...-..|+.+|...+++++|...+++.++++|.++...|.....+++.
T Consensus        17 a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~~   94 (142)
T PF13512_consen   17 AQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLSY   94 (142)
T ss_pred             HHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHHH
Confidence            34455678888888888877    32222 345666888999999999999999999999998876456555555443

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=96.11  E-value=1.4  Score=42.46  Aligned_cols=280  Identities=13%  Similarity=0.116  Sum_probs=147.3

Q ss_pred             HHHHHHHHH--cCCCHHHHHHHHhhCC---CCCcchHHHHHHHHH--HcCChHHHHHHHhhCCCCChhHH---HHHHHHH
Q 008280           73 WNTMISGFV--QKKNMAKARDLFLAMP---EKNSVSWSAMISGYI--ECGQLDKAVELFKVAPVKSVVAW---TAMISGY  142 (571)
Q Consensus        73 ~~~li~~~~--~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~--~~g~~~~A~~~~~~~~~~~~~~~---~~li~~~  142 (571)
                      |.+|-.++.  -.|+-..|.++-.+..   ..|......++.+-.  -.|+++.|.+-|+.|......-.   ..|.---
T Consensus        85 yqALStGliAagAGda~lARkmt~~~~~llssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~dPEtRllGLRgLyleA  164 (531)
T COG3898          85 YQALSTGLIAAGAGDASLARKMTARASKLLSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDDPETRLLGLRGLYLEA  164 (531)
T ss_pred             HHHHhhhhhhhccCchHHHHHHHHHHHhhhhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcChHHHHHhHHHHHHHH
Confidence            444444443  4577777777765543   345555666655443  35888889888888874322111   1222222


Q ss_pred             HhcCCHHHHHHHHhhCCC--C-CHHHHHHHHHHHHHcCChhHHHHHHHHHHHCC-CCCCHhH--HHHHHHHHh---ccCc
Q 008280          143 MKFGKVDLAEKLFDEMPT--K-NLVTWNAMIAGYVENSWAEDGLKLLRMMIGLG-IRPNASS--LSSVLLGCS---HLSS  213 (571)
Q Consensus       143 ~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~pd~~t--~~~ll~~~~---~~~~  213 (571)
                      -+.|..+.|+..-++.-.  | =.-.|.+.+...+..|+|+.|+++++.-+... +.++..-  -..++.+-+   -..+
T Consensus       165 qr~GareaAr~yAe~Aa~~Ap~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldad  244 (531)
T COG3898         165 QRLGAREAARHYAERAAEKAPQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDAD  244 (531)
T ss_pred             HhcccHHHHHHHHHHHHhhccCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCC
Confidence            356777777666655443  2 23477888888899999999999888766532 3444332  122332221   1224


Q ss_pred             hHHHHHHHHHHHhCCCCCCcc-hHHHHHHHHHhcCCHHHHHHHHHhhCCC--ChhhHHHHHHHHHHcCChHHHHHHHHHH
Q 008280          214 LQLGKQVHQLVFKSPLCKDTT-ALTPLISMYCKCGDLEDACKLFLEIQRK--DVVTWNAMISGYAQHGKGEKALRLFDKM  290 (571)
Q Consensus       214 ~~~a~~~~~~~~~~g~~~~~~-~~~~li~~y~~~g~~~~A~~~~~~~~~~--~~~~~~~li~~~~~~g~~~~A~~~~~~m  290 (571)
                      ...|+..-.+..+.  .||.. .-..-...|.+.|++.++-.+++.+-+.  .+..|  .+..+++.|+  .++.-+++.
T Consensus       245 p~~Ar~~A~~a~KL--~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~ePHP~ia--~lY~~ar~gd--ta~dRlkRa  318 (531)
T COG3898         245 PASARDDALEANKL--APDLVPAAVVAARALFRDGNLRKGSKILETAWKAEPHPDIA--LLYVRARSGD--TALDRLKRA  318 (531)
T ss_pred             hHHHHHHHHHHhhc--CCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCCChHHH--HHHHHhcCCC--cHHHHHHHH
Confidence            44555554444443  33322 2222345666777777777777766532  22222  2222333333  333333333


Q ss_pred             HH-cCCCCCH-HHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHc-CCHHHHHHHHHhC
Q 008280          291 KD-EGMKPDS-ITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRA-GKLVEAVDLIKKM  361 (571)
Q Consensus       291 ~~-~g~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~-g~~~~A~~~~~~~  361 (571)
                      .. ..++||. .+...+..+....|++..|..--+...   ...|....|..|.+.-... |+-.++...+-+.
T Consensus       319 ~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~---r~~pres~~lLlAdIeeAetGDqg~vR~wlAqa  389 (531)
T COG3898         319 KKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAA---REAPRESAYLLLADIEEAETGDQGKVRQWLAQA  389 (531)
T ss_pred             HHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHh---hhCchhhHHHHHHHHHhhccCchHHHHHHHHHH
Confidence            22 1134433 344455556666666666655544443   3456666666555554332 6666665555444

>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=96.09  E-value=0.0078  Score=44.62  Aligned_cols=62  Identities=15%  Similarity=0.150  Sum_probs=50.8

Q ss_pred             hHhHHHHHHHHHHcCCHHHHHHHHHhC-------C-CCCC-HhHHHHHHHHHHhcCCHhHHHHHHHHHhcc
Q 008280          335 PDHYTCMVDLLGRAGKLVEAVDLIKKM-------P-FKPQ-PAIFGTLLSACRVHKRLDLAEFAAMNLFNL  396 (571)
Q Consensus       335 ~~~~~~li~~~~~~g~~~~A~~~~~~~-------~-~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  396 (571)
                      ..+|+.+...|.+.|++++|++.|++.       + ..|+ ..++..+...+...|++++|+..+++++++
T Consensus         5 a~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~i   75 (78)
T PF13424_consen    5 ANAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALDI   75 (78)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            457889999999999999999999876       2 1133 467888999999999999999999998764

...

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=95.80  E-value=0.14  Score=41.84  Aligned_cols=51  Identities=14%  Similarity=0.265  Sum_probs=34.5

Q ss_pred             CCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHH
Q 008280          294 GMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDL  344 (571)
Q Consensus       294 g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~  344 (571)
                      ...|+..++.+++.+++..|++..|.++.+...+.|+++.+...|..|++=
T Consensus        47 pl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W   97 (126)
T PF12921_consen   47 PLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEW   97 (126)
T ss_pred             CCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence            355667777777777777777777777777777767666666666666543

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=95.71  E-value=1.5  Score=39.57  Aligned_cols=195  Identities=19%  Similarity=0.183  Sum_probs=117.8

Q ss_pred             cchHHHHHHHHHhcCCHHHHHHHHHhhCC-----CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 008280          233 TTALTPLISMYCKCGDLEDACKLFLEIQR-----KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLL  307 (571)
Q Consensus       233 ~~~~~~li~~y~~~g~~~~A~~~~~~~~~-----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~  307 (571)
                      ..........+...+++..+...+.....     .....+..+...+...++...+...+.........+. ........
T Consensus        59 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~  137 (291)
T COG0457          59 AGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDPD-LAEALLAL  137 (291)
T ss_pred             hHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCcc-hHHHHHHH
Confidence            34455556666666666666666655432     2334555555666666667777777776665433321 11112222


Q ss_pred             -HHHhcCcHHHHHHHHHHhHHhcCC--CCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC--HhHHHHHHHHHHhcC
Q 008280          308 -ACNHAGLVDLGIQYFDSMVNDYGI--AAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQ--PAIFGTLLSACRVHK  381 (571)
Q Consensus       308 -a~~~~g~~~~a~~~~~~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~--~~~~~~l~~~~~~~g  381 (571)
                       .+...|+++.+...+...... ..  ......+......+...++.++|...+.+. ...++  ...+..+...+...+
T Consensus       138 ~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  216 (291)
T COG0457         138 GALYELGDYEEALELYEKALEL-DPELNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLGLLYLKLG  216 (291)
T ss_pred             HHHHHcCCHHHHHHHHHHHHhc-CCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhCcccchHHHHHhhHHHHHcc
Confidence             566777777777777776431 11  112333444444466677777777777666 22233  466777777777777


Q ss_pred             CHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHh
Q 008280          382 RLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  430 (571)
Q Consensus       382 ~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  430 (571)
                      +++.|...+.......|.... .+..+...+...|.++++...+.....
T Consensus       217 ~~~~a~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~  264 (291)
T COG0457         217 KYEEALEYYEKALELDPDNAE-ALYNLALLLLELGRYEEALEALEKALE  264 (291)
T ss_pred             cHHHHHHHHHHHHhhCcccHH-HHhhHHHHHHHcCCHHHHHHHHHHHHH
Confidence            888888888888887776444 566666666666677777777766654

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=95.70  E-value=0.11  Score=42.29  Aligned_cols=78  Identities=17%  Similarity=0.255  Sum_probs=40.0

Q ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHhH--------------HhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC---
Q 008280          299 SITFVALLLACNHAGLVDLGIQYFDSMV--------------NDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM---  361 (571)
Q Consensus       299 ~~t~~~ll~a~~~~g~~~~a~~~~~~~~--------------~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~---  361 (571)
                      ..++..++.++++.|+++....+.+..-              ......|+..+..+++.+|+..|++..|+++.+..   
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            3445555555555555555554443321              11234455556666666666666666666655544   


Q ss_pred             -CCCCCHhHHHHHHHH
Q 008280          362 -PFKPQPAIFGTLLSA  376 (571)
Q Consensus       362 -~~~p~~~~~~~l~~~  376 (571)
                       +++-+..+|..|+.=
T Consensus        82 Y~I~i~~~~W~~Ll~W   97 (126)
T PF12921_consen   82 YPIPIPKEFWRRLLEW   97 (126)
T ss_pred             cCCCCCHHHHHHHHHH
Confidence             333345555555543

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=95.68  E-value=0.14  Score=49.52  Aligned_cols=95  Identities=14%  Similarity=0.123  Sum_probs=77.2

Q ss_pred             hHhHHHHHHHHHHcCCHHHHHHHHHhC-CC-CCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHH
Q 008280          335 PDHYTCMVDLLGRAGKLVEAVDLIKKM-PF-KPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIY  412 (571)
Q Consensus       335 ~~~~~~li~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~  412 (571)
                      ..++..|...|.+.+++.+|++..++. .. ++|+-..-.-..+|...|+++.|+..|+++++++|+|-. +-..|+.+-
T Consensus       257 ~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~P~Nka-~~~el~~l~  335 (397)
T KOG0543|consen  257 LACHLNLAACYLKLKEYKEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALKLEPSNKA-ARAELIKLK  335 (397)
T ss_pred             HHHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhCCCcHH-HHHHHHHHH
Confidence            345667888899999999999888776 22 356677777788999999999999999999999999987 888888887


Q ss_pred             hhccChhHH-HHHHHHHHh
Q 008280          413 AAMKKWDDV-ARIRLSMKE  430 (571)
Q Consensus       413 ~~~g~~~~a-~~~~~~m~~  430 (571)
                      .+.....+. .++|..|-.
T Consensus       336 ~k~~~~~~kekk~y~~mF~  354 (397)
T KOG0543|consen  336 QKIREYEEKEKKMYANMFA  354 (397)
T ss_pred             HHHHHHHHHHHHHHHHHhh
Confidence            777666654 778888864

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=95.66  E-value=1.6  Score=39.44  Aligned_cols=199  Identities=18%  Similarity=0.129  Sum_probs=122.4

Q ss_pred             hHHHHHHHHHhccCchHHHHHHHHHHHhC-CCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCCC--C-hhhHHHHHH-H
Q 008280          199 SSLSSVLLGCSHLSSLQLGKQVHQLVFKS-PLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRK--D-VVTWNAMIS-G  273 (571)
Q Consensus       199 ~t~~~ll~~~~~~~~~~~a~~~~~~~~~~-g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~--~-~~~~~~li~-~  273 (571)
                      ..+......+...+.+..+...+...... ........+..+...+...+++..+.+.+......  + ......... .
T Consensus        60 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  139 (291)
T COG0457          60 GLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDPDLAEALLALGA  139 (291)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCcchHHHHHHHHH
Confidence            33444444444555555555554444432 12333444455555566666666777766665542  1 122333333 6


Q ss_pred             HHHcCChHHHHHHHHHHHHcCC--CCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCC-ChHhHHHHHHHHHHcCC
Q 008280          274 YAQHGKGEKALRLFDKMKDEGM--KPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAA-KPDHYTCMVDLLGRAGK  350 (571)
Q Consensus       274 ~~~~g~~~~A~~~~~~m~~~g~--~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~  350 (571)
                      +...|++++|...|.+......  ......+......+...++.+.+...+......  .+. ....+..+...+...++
T Consensus       140 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~  217 (291)
T COG0457         140 LYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKL--NPDDDAEALLNLGLLYLKLGK  217 (291)
T ss_pred             HHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhh--CcccchHHHHHhhHHHHHccc
Confidence            7788888888888888754221  112334444444566778888888888888753  333 36777788888888888


Q ss_pred             HHHHHHHHHhC-CCCCC-HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCC
Q 008280          351 LVEAVDLIKKM-PFKPQ-PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPA  399 (571)
Q Consensus       351 ~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~  399 (571)
                      +++|...+... ...|+ ...+..+...+...+..+.+...+.+.....|.
T Consensus       218 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  268 (291)
T COG0457         218 YEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALELDPD  268 (291)
T ss_pred             HHHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHhCcc
Confidence            89988888776 33344 445555555555777799999999999888885

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.58  E-value=0.087  Score=48.32  Aligned_cols=89  Identities=13%  Similarity=0.223  Sum_probs=51.0

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHhC-------CCCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCC---CCchhHHH
Q 008280          338 YTCMVDLLGRAGKLVEAVDLIKKM-------PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPA---NAAGCYVQ  407 (571)
Q Consensus       338 ~~~li~~~~~~g~~~~A~~~~~~~-------~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~---~~~~~~~~  407 (571)
                      |+.-++. .+.|++.+|...|...       ...||...|  |..++...|+++.|...|..+.+-.|+   -|. .+.-
T Consensus       145 Y~~A~~~-~ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yW--LGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApd-allK  220 (262)
T COG1729         145 YNAALDL-YKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYW--LGESLYAQGDYEDAAYIFARVVKDYPKSPKAPD-ALLK  220 (262)
T ss_pred             HHHHHHH-HHcCCHHHHHHHHHHHHHcCCCCcccchhHHH--HHHHHHhcccchHHHHHHHHHHHhCCCCCCChH-HHHH
Confidence            4443332 3445566666555544       122444444  556666666666666666666654433   344 5666


Q ss_pred             HHHHHhhccChhHHHHHHHHHHh
Q 008280          408 LANIYAAMKKWDDVARIRLSMKE  430 (571)
Q Consensus       408 l~~~~~~~g~~~~a~~~~~~m~~  430 (571)
                      |+.+..+.|+.++|..+++++.+
T Consensus       221 lg~~~~~l~~~d~A~atl~qv~k  243 (262)
T COG1729         221 LGVSLGRLGNTDEACATLQQVIK  243 (262)
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHH
Confidence            67777777777777777766655

>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=95.54  E-value=1  Score=36.39  Aligned_cols=140  Identities=14%  Similarity=0.156  Sum_probs=83.4

Q ss_pred             HHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHH
Q 008280          275 AQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEA  354 (571)
Q Consensus       275 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  354 (571)
                      .-.|..++..++..+...+   .+..-++.++.-....-+-+-..+.++.+-+-|.+.              .+|++...
T Consensus        13 ildG~V~qGveii~k~v~S---sni~E~NWvICNiiDaa~C~yvv~~LdsIGkiFDis--------------~C~NlKrV   75 (161)
T PF09205_consen   13 ILDGDVKQGVEIIEKTVNS---SNIKEYNWVICNIIDAADCDYVVETLDSIGKIFDIS--------------KCGNLKRV   75 (161)
T ss_dssp             HHTT-HHHHHHHHHHHHHH---S-HHHHTHHHHHHHHH--HHHHHHHHHHHGGGS-GG--------------G-S-THHH
T ss_pred             HHhchHHHHHHHHHHHcCc---CCccccceeeeecchhhchhHHHHHHHHHhhhcCch--------------hhcchHHH
Confidence            3456777777777777653   244455656554444444455555555554422222              34555555


Q ss_pred             HHHHHhCCCCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhCCCc
Q 008280          355 VDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVV  434 (571)
Q Consensus       355 ~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  434 (571)
                      ...+-.++  .+.......+......|+-+.-.+++..+.+-+..+|. ....++.+|.+.|...++-+++++.-++|++
T Consensus        76 i~C~~~~n--~~se~vD~ALd~lv~~~kkDqLdki~~~l~kn~~~~p~-~L~kia~Ay~klg~~r~~~ell~~ACekG~k  152 (161)
T PF09205_consen   76 IECYAKRN--KLSEYVDLALDILVKQGKKDQLDKIYNELKKNEEINPE-FLVKIANAYKKLGNTREANELLKEACEKGLK  152 (161)
T ss_dssp             HHHHHHTT-----HHHHHHHHHHHHTT-HHHHHHHHHHH-----S-HH-HHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred             HHHHHHhc--chHHHHHHHHHHHHHhccHHHHHHHHHHHhhccCCCHH-HHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence            55554443  34455666777888999999988999888764444455 8899999999999999999999999998875

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=95.53  E-value=2.4  Score=43.71  Aligned_cols=94  Identities=12%  Similarity=0.047  Sum_probs=67.4

Q ss_pred             ChHhHHHHHHHHHHcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCc---------hh
Q 008280          334 KPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA---------GC  404 (571)
Q Consensus       334 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~---------~~  404 (571)
                      +.++...+..-+.+...+.-|-++|.+|+..      .+++......+++++|..+.++.-+.-|+-..         --
T Consensus       746 ere~l~~~a~ylk~l~~~gLAaeIF~k~gD~------ksiVqlHve~~~W~eAFalAe~hPe~~~dVy~pyaqwLAE~Dr  819 (1081)
T KOG1538|consen  746 EREPLLLCATYLKKLDSPGLAAEIFLKMGDL------KSLVQLHVETQRWDEAFALAEKHPEFKDDVYMPYAQWLAENDR  819 (1081)
T ss_pred             hhhHHHHHHHHHhhccccchHHHHHHHhccH------HHHhhheeecccchHhHhhhhhCccccccccchHHHHhhhhhh
Confidence            3455556666677788888999999999632      34566677889999999999988776665322         02


Q ss_pred             HHHHHHHHhhccChhHHHHHHHHHHhCCC
Q 008280          405 YVQLANIYAAMKKWDDVARIRLSMKENNV  433 (571)
Q Consensus       405 ~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  433 (571)
                      |..--.+|-++|+-.||.++++++....+
T Consensus       820 FeEAqkAfhkAGr~~EA~~vLeQLtnnav  848 (1081)
T KOG1538|consen  820 FEEAQKAFHKAGRQREAVQVLEQLTNNAV  848 (1081)
T ss_pred             HHHHHHHHHHhcchHHHHHHHHHhhhhhh
Confidence            33445678888999999999888865433

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=95.49  E-value=0.14  Score=41.05  Aligned_cols=91  Identities=15%  Similarity=0.089  Sum_probs=68.7

Q ss_pred             HHHHHcCCHHHHHHHHHhC-C-CCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccC-CCCCc--hhHHHHHHHHhhccC
Q 008280          343 DLLGRAGKLVEAVDLIKKM-P-FKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLN-PANAA--GCYVQLANIYAAMKK  417 (571)
Q Consensus       343 ~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-p~~~~--~~~~~l~~~~~~~g~  417 (571)
                      -+++..|+++.|++.|.+. . .+..+..||.-..+++-.|+.++|+.-+++++++. |....  .+|+.-+.+|...|+
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            3567788888888888776 1 22456788888899999999999999999888864 33111  256777888889999


Q ss_pred             hhHHHHHHHHHHhCCC
Q 008280          418 WDDVARIRLSMKENNV  433 (571)
Q Consensus       418 ~~~a~~~~~~m~~~~~  433 (571)
                      -+.|..-|+..-+.|-
T Consensus       131 dd~AR~DFe~AA~LGS  146 (175)
T KOG4555|consen  131 DDAARADFEAAAQLGS  146 (175)
T ss_pred             hHHHHHhHHHHHHhCC
Confidence            9999998888776654

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=95.43  E-value=0.8  Score=42.63  Aligned_cols=122  Identities=9%  Similarity=0.080  Sum_probs=84.1

Q ss_pred             HHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhCCCCCCHhHHHH---HHHHHHhcCCH
Q 008280          307 LACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGT---LLSACRVHKRL  383 (571)
Q Consensus       307 ~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~---l~~~~~~~g~~  383 (571)
                      ......|++.++...|......  .+-+...-..|++.|...|+.+.|..++..+|.+-...-|..   -+..+.+..+.
T Consensus       142 ~~~~~~e~~~~a~~~~~~al~~--~~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~  219 (304)
T COG3118         142 KELIEAEDFGEAAPLLKQALQA--APENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAAT  219 (304)
T ss_pred             hhhhhccchhhHHHHHHHHHHh--CcccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcC
Confidence            3456678888888888887763  333456667788888999999999999998865443333333   23333444433


Q ss_pred             hHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhCC
Q 008280          384 DLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENN  432 (571)
Q Consensus       384 ~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  432 (571)
                      .+.. .+++-...+|++.. .-..|+..|...|+.++|.+.+-.+.+++
T Consensus       220 ~~~~-~l~~~~aadPdd~~-aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d  266 (304)
T COG3118         220 PEIQ-DLQRRLAADPDDVE-AALALADQLHLVGRNEAALEHLLALLRRD  266 (304)
T ss_pred             CCHH-HHHHHHHhCCCCHH-HHHHHHHHHHHcCCHHHHHHHHHHHHHhc
Confidence            3332 23444567898888 88899999999999999998877766543

>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=95.33  E-value=0.21  Score=42.18  Aligned_cols=71  Identities=18%  Similarity=0.297  Sum_probs=39.7

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHH----hcCCCCChHh
Q 008280          266 TWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVN----DYGIAAKPDH  337 (571)
Q Consensus       266 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~----~~~~~~~~~~  337 (571)
                      +...++..+...|++++|+.+.+.+.... +.|...+..++.++...|+..+|.+.|+.+.+    ..|+.|++.+
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            34445556666777777777777766643 33556667777777777777777776655432    3466666554

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=95.29  E-value=3.4  Score=40.89  Aligned_cols=101  Identities=11%  Similarity=0.077  Sum_probs=59.9

Q ss_pred             HHHHHHHHHhCCCCHHHHHHHHhhCCC--CChhhHHHHHHH--HHcCCCCHHHHHHHHhhCCC-----------------
Q 008280            9 WNSVLAGFAKQRGKLKDAQELFDKIPQ--PDVVSYNIMLSC--ILLNSDDVVAAFDFFQRLPI-----------------   67 (571)
Q Consensus         9 ~~~l~~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~ll~~--~~~~~g~~~~A~~~~~~m~~-----------------   67 (571)
                      .+.++++|-..  +++.-........+  | ...|-.|..+  ..+. +++..|.+.+..-.+                 
T Consensus        49 ~grilnAffl~--nld~Me~~l~~l~~~~~-~s~~l~LF~~L~~Y~~-k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l  124 (549)
T PF07079_consen   49 GGRILNAFFLN--NLDLMEKQLMELRQQFG-KSAYLPLFKALVAYKQ-KEYRKALQALSVWKEQIKGTESPWLDTNIQQL  124 (549)
T ss_pred             hhHHHHHHHHh--hHHHHHHHHHHHHHhcC-CchHHHHHHHHHHHHh-hhHHHHHHHHHHHHhhhcccccchhhhhHHHH
Confidence            45566776653  46665555554443  3 2223333332  2355 788888877754321                 


Q ss_pred             -CChhhHHHHHHHHHcCCCHHHHHHHHhhCCC--------CCcchHHHHHHHHHH
Q 008280           68 -KDTASWNTMISGFVQKKNMAKARDLFLAMPE--------KNSVSWSAMISGYIE  113 (571)
Q Consensus        68 -~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~--------~d~~~~~~li~~~~~  113 (571)
                       +|-+.-+..+.++...|++.+++.++++|.+        -|..+|+.++-.+.+
T Consensus       125 ~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~~vlmlsr  179 (549)
T PF07079_consen  125 FSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDRAVLMLSR  179 (549)
T ss_pred             hhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHHHHHHHhH
Confidence             2333446677788888999999988888743        366777765544433

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.26  E-value=2.1  Score=38.69  Aligned_cols=87  Identities=14%  Similarity=0.088  Sum_probs=53.3

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHhCC-------CCCCH-hHHHHHHHHHHhcCCHhHHHHHHHHHhc----cCCCCCchh
Q 008280          337 HYTCMVDLLGRAGKLVEAVDLIKKMP-------FKPQP-AIFGTLLSACRVHKRLDLAEFAAMNLFN----LNPANAAGC  404 (571)
Q Consensus       337 ~~~~li~~~~~~g~~~~A~~~~~~~~-------~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~----~~p~~~~~~  404 (571)
                      .+..+...|.+..++++|-..|.+-+       --|+. ..+.+.|-.+.-..++..|+..++.-.+    ..|++.. +
T Consensus       152 l~gk~sr~lVrl~kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r-~  230 (308)
T KOG1585|consen  152 LYGKCSRVLVRLEKFTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSR-S  230 (308)
T ss_pred             HHHHhhhHhhhhHHhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHH-H
Confidence            34445556677777777766655441       11232 2344555556666788888888887544    3466665 7


Q ss_pred             HHHHHHHHhhccChhHHHHHH
Q 008280          405 YVQLANIYAAMKKWDDVARIR  425 (571)
Q Consensus       405 ~~~l~~~~~~~g~~~~a~~~~  425 (571)
                      ...|+.+| ..|+.+++.++.
T Consensus       231 lenLL~ay-d~gD~E~~~kvl  250 (308)
T KOG1585|consen  231 LENLLTAY-DEGDIEEIKKVL  250 (308)
T ss_pred             HHHHHHHh-ccCCHHHHHHHH
Confidence            77888777 456777766654

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=95.21  E-value=0.75  Score=38.06  Aligned_cols=19  Identities=16%  Similarity=-0.045  Sum_probs=13.8

Q ss_pred             HhHHHHHHHHHhccCCCCC
Q 008280          383 LDLAEFAAMNLFNLNPANA  401 (571)
Q Consensus       383 ~~~a~~~~~~~~~~~p~~~  401 (571)
                      ...|...|++++..-|++.
T Consensus       115 ~~~A~~~f~~lv~~yP~S~  133 (142)
T PF13512_consen  115 ARQAFRDFEQLVRRYPNSE  133 (142)
T ss_pred             HHHHHHHHHHHHHHCcCCh
Confidence            4567777788888888763

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=95.20  E-value=3.6  Score=40.65  Aligned_cols=400  Identities=11%  Similarity=0.097  Sum_probs=208.7

Q ss_pred             HHHHhhCCC--CChhhHHHHHHHHHcCCCCHHHHHHHHhhCCCCChh---hHHHHHHHHHcCCCHHHHHHHHhhCCC--C
Q 008280           27 QELFDKIPQ--PDVVSYNIMLSCILLNSDDVVAAFDFFQRLPIKDTA---SWNTMISGFVQKKNMAKARDLFLAMPE--K   99 (571)
Q Consensus        27 ~~~~~~~~~--~~~~~~~~ll~~~~~~~g~~~~A~~~~~~m~~~d~~---~~~~li~~~~~~g~~~~A~~~~~~m~~--~   99 (571)
                      .++-+++.+  .|..+|-.||.-|-.+ |..++-++++++|..|-+.   +|...+++=....++.....+|.+-..  -
T Consensus        29 lrLRerIkdNPtnI~S~fqLiq~~~tq-~s~~~~re~yeq~~~pfp~~~~aw~ly~s~ELA~~df~svE~lf~rCL~k~l  107 (660)
T COG5107          29 LRLRERIKDNPTNILSYFQLIQYLETQ-ESMDAEREMYEQLSSPFPIMEHAWRLYMSGELARKDFRSVESLFGRCLKKSL  107 (660)
T ss_pred             HHHHHHhhcCchhHHHHHHHHHHHhhh-hhHHHHHHHHHHhcCCCccccHHHHHHhcchhhhhhHHHHHHHHHHHHhhhc
Confidence            356666665  4667888888888888 8888888888888877543   577777766667788888888876643  3


Q ss_pred             CcchHHHHHHHHHHcCChH------HHHHHHhhCC------CCChhHHHHHHHHHH---------hcCCHHHHHHHHhhC
Q 008280          100 NSVSWSAMISGYIECGQLD------KAVELFKVAP------VKSVVAWTAMISGYM---------KFGKVDLAEKLFDEM  158 (571)
Q Consensus       100 d~~~~~~li~~~~~~g~~~------~A~~~~~~~~------~~~~~~~~~li~~~~---------~~g~~~~A~~~~~~~  158 (571)
                      +...|...+.--.+....-      ...+.|+-..      +.....|+..+...-         .+.++|..++.+.++
T Consensus       108 ~ldLW~lYl~YIRr~n~~~tGq~r~~i~~ayefv~~~~~~e~~s~~~W~ey~~fle~~~~~~kwEeQqrid~iR~~Y~ra  187 (660)
T COG5107         108 NLDLWMLYLEYIRRVNNLITGQKRFKIYEAYEFVLGCAIFEPQSENYWDEYGLFLEYIEELGKWEEQQRIDKIRNGYMRA  187 (660)
T ss_pred             cHhHHHHHHHHHHhhCcccccchhhhhHHHHHHHHhcccccccccchHHHHHHHHHhccccccHHHHHHHHHHHHHHHHH
Confidence            5666666665444433111      1112222221      223344555444321         234456667777776


Q ss_pred             CC----------CCHHHHHHHHHHHHH---cC----ChhHHHHHHHHHHH--CCCCC----CHhHHHHHHH---------
Q 008280          159 PT----------KNLVTWNAMIAGYVE---NS----WAEDGLKLLRMMIG--LGIRP----NASSLSSVLL---------  206 (571)
Q Consensus       159 ~~----------~~~~~~~~li~~~~~---~g----~~~~A~~~~~~m~~--~g~~p----d~~t~~~ll~---------  206 (571)
                      ..          +|-..|..=+.-...   .|    -+-.|...+++...  .|+..    +..|++.+-.         
T Consensus       188 l~tP~~nleklW~dy~~fE~e~N~~TarKfvge~sp~ym~ar~~yqe~~nlt~Gl~v~~~~~~Rt~nK~~r~s~S~WlNw  267 (660)
T COG5107         188 LQTPMGNLEKLWKDYENFELELNKITARKFVGETSPIYMSARQRYQEIQNLTRGLSVKNPINLRTANKAARTSDSNWLNW  267 (660)
T ss_pred             HcCccccHHHHHHHHHHHHHHHHHHHHHHHhcccCHHHHHHHHHHHHHHHHhccccccCchhhhhhccccccccchhhhH
Confidence            54          122222222221111   11    13455556665543  23321    1222222111         


Q ss_pred             --HHhcc-----C-ch-HHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCC--CCh-----------
Q 008280          207 --GCSHL-----S-SL-QLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR--KDV-----------  264 (571)
Q Consensus       207 --~~~~~-----~-~~-~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~~~-----------  264 (571)
                        -=...     | -. ...--+|++++.. +.....+|----.-+...++-+.|++..+.-.+  |+.           
T Consensus       268 IkwE~en~l~L~~~~~~qRi~y~~~q~~~y-~~~~~evw~dys~Y~~~isd~q~al~tv~rg~~~spsL~~~lse~yel~  346 (660)
T COG5107         268 IKWEMENGLKLGGRPHEQRIHYIHNQILDY-FYYAEEVWFDYSEYLIGISDKQKALKTVERGIEMSPSLTMFLSEYYELV  346 (660)
T ss_pred             hhHhhcCCcccCCCcHHHHHHHHHHHHHHH-hhhhHHHHHHHHHHHhhccHHHHHHHHHHhcccCCCchheeHHHHHhhc
Confidence              00000     0 00 1111122222221 111222232222233345666667666654332  110           


Q ss_pred             -------hhHHHHHHHHHH---cCChHHHHHH------HHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHh
Q 008280          265 -------VTWNAMISGYAQ---HGKGEKALRL------FDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVND  328 (571)
Q Consensus       265 -------~~~~~li~~~~~---~g~~~~A~~~------~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~  328 (571)
                             .+|..++..+.+   .++.+.+-..      ..+..-....--...|...+++-.+..-++.|+.+|-+..+.
T Consensus       347 nd~e~v~~~fdk~~q~L~r~ys~~~s~~~s~~D~N~e~~~Ell~kr~~k~t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~  426 (660)
T COG5107         347 NDEEAVYGCFDKCTQDLKRKYSMGESESASKVDNNFEYSKELLLKRINKLTFVFCVHLNYVLRKRGLEAARKLFIKLRKE  426 (660)
T ss_pred             ccHHHHhhhHHHHHHHHHHHHhhhhhhhhccccCCccccHHHHHHHHhhhhhHHHHHHHHHHHHhhHHHHHHHHHHHhcc
Confidence                   012222222211   1111111111      111100000111234556677777777888999999998775


Q ss_pred             cC-CCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCHh-HHHHHHHHHHhcCCHhHHHHHHHHHhcc-CCCCCchh
Q 008280          329 YG-IAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQPA-IFGTLLSACRVHKRLDLAEFAAMNLFNL-NPANAAGC  404 (571)
Q Consensus       329 ~~-~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~-~p~~~~~~  404 (571)
                       + ..+++..++++++-++ .|+..-|.++|+-- ..-||.. .-+..+.-+...++-+.|..+|+..++. ........
T Consensus       427 -~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~f~d~~~y~~kyl~fLi~inde~naraLFetsv~r~~~~q~k~i  504 (660)
T COG5107         427 -GIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLKFPDSTLYKEKYLLFLIRINDEENARALFETSVERLEKTQLKRI  504 (660)
T ss_pred             -CCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHhCCCchHHHHHHHHHHHHhCcHHHHHHHHHHhHHHHHHhhhhHH
Confidence             5 6778888999988664 68888899998764 2235543 3455666677888899999999966542 11111117


Q ss_pred             HHHHHHHHhhccChhHHHHHHHHHHh
Q 008280          405 YVQLANIYAAMKKWDDVARIRLSMKE  430 (571)
Q Consensus       405 ~~~l~~~~~~~g~~~~a~~~~~~m~~  430 (571)
                      |..++.--+.-|+...+..+=+.|.+
T Consensus       505 y~kmi~YEs~~G~lN~v~sLe~rf~e  530 (660)
T COG5107         505 YDKMIEYESMVGSLNNVYSLEERFRE  530 (660)
T ss_pred             HHHHHHHHHhhcchHHHHhHHHHHHH
Confidence            88888888888888877777666654

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=95.20  E-value=0.13  Score=50.88  Aligned_cols=62  Identities=11%  Similarity=0.067  Sum_probs=37.9

Q ss_pred             hHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCH----hHHHHHHHHHHhcCCHhHHHHHHHHHhcc
Q 008280          335 PDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQP----AIFGTLLSACRVHKRLDLAEFAAMNLFNL  396 (571)
Q Consensus       335 ~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~----~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  396 (571)
                      ...++.+..+|.+.|++++|+..|++. .+.|+.    .+|..+..+|...|+.++|+..+++++++
T Consensus        75 a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         75 AEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            455566666666666666666666553 344442    24666666666666666666666666664

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=95.08  E-value=0.49  Score=48.00  Aligned_cols=133  Identities=16%  Similarity=0.209  Sum_probs=86.8

Q ss_pred             HHHHcCChHHHHHHHHHHH-HcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCH
Q 008280          273 GYAQHGKGEKALRLFDKMK-DEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKL  351 (571)
Q Consensus       273 ~~~~~g~~~~A~~~~~~m~-~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  351 (571)
                      .....|+++++.+..+.-. -..+ | ..-...++.-+.+.|..+.|+++-..-..             -.+...++|++
T Consensus       270 ~av~~~d~~~v~~~i~~~~ll~~i-~-~~~~~~i~~fL~~~G~~e~AL~~~~D~~~-------------rFeLAl~lg~L  334 (443)
T PF04053_consen  270 TAVLRGDFEEVLRMIAASNLLPNI-P-KDQGQSIARFLEKKGYPELALQFVTDPDH-------------RFELALQLGNL  334 (443)
T ss_dssp             HHHHTT-HHH-----HHHHTGGG----HHHHHHHHHHHHHTT-HHHHHHHSS-HHH-------------HHHHHHHCT-H
T ss_pred             HHHHcCChhhhhhhhhhhhhcccC-C-hhHHHHHHHHHHHCCCHHHHHhhcCChHH-------------HhHHHHhcCCH
Confidence            3455778888776665211 1111 2 33466777778888888888776443222             24566788999


Q ss_pred             HHHHHHHHhCCCCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhC
Q 008280          352 VEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKEN  431 (571)
Q Consensus       352 ~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  431 (571)
                      +.|.++.++.   ++...|..|......+|+++.|+..|.+.        . -+..|+-.|.-.|+.+.-.++-+....+
T Consensus       335 ~~A~~~a~~~---~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~--------~-d~~~L~lLy~~~g~~~~L~kl~~~a~~~  402 (443)
T PF04053_consen  335 DIALEIAKEL---DDPEKWKQLGDEALRQGNIELAEECYQKA--------K-DFSGLLLLYSSTGDREKLSKLAKIAEER  402 (443)
T ss_dssp             HHHHHHCCCC---STHHHHHHHHHHHHHTTBHHHHHHHHHHC--------T--HHHHHHHHHHCT-HHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhc---CcHHHHHHHHHHHHHcCCHHHHHHHHHhh--------c-CccccHHHHHHhCCHHHHHHHHHHHHHc
Confidence            9999888776   47789999999999999999999999887        2 5778888888888887777776666655


Q ss_pred             C
Q 008280          432 N  432 (571)
Q Consensus       432 ~  432 (571)
                      |
T Consensus       403 ~  403 (443)
T PF04053_consen  403 G  403 (443)
T ss_dssp             T
T ss_pred             c
Confidence            5

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.

>PRK15331 chaperone protein SicA; Provisional

Probab=95.03  E-value=0.36  Score=40.90  Aligned_cols=87  Identities=9%  Similarity=0.021  Sum_probs=41.0

Q ss_pred             HHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHH
Q 008280          172 GYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLED  251 (571)
Q Consensus       172 ~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~  251 (571)
                      -+.+.|++++|..+|+-+.-.+ .-+..-+..+...+-..+.+++|...|......+ ..|+...--....|...|+.+.
T Consensus        46 ~~y~~Gk~~eA~~~F~~L~~~d-~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~-~~dp~p~f~agqC~l~l~~~~~  123 (165)
T PRK15331         46 EFYNQGRLDEAETFFRFLCIYD-FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLL-KNDYRPVFFTGQCQLLMRKAAK  123 (165)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc-cCCCCccchHHHHHHHhCCHHH
Confidence            3445555666655555544432 1122222333333344455555555555444433 2333333445555556666666


Q ss_pred             HHHHHHhhC
Q 008280          252 ACKLFLEIQ  260 (571)
Q Consensus       252 A~~~~~~~~  260 (571)
                      |+..|+...
T Consensus       124 A~~~f~~a~  132 (165)
T PRK15331        124 ARQCFELVN  132 (165)
T ss_pred             HHHHHHHHH
Confidence            666555544

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=94.98  E-value=0.055  Score=32.25  Aligned_cols=33  Identities=18%  Similarity=0.019  Sum_probs=24.8

Q ss_pred             hHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCC
Q 008280          368 AIFGTLLSACRVHKRLDLAEFAAMNLFNLNPAN  400 (571)
Q Consensus       368 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~  400 (571)
                      ..|..+...+...|++++|++.++++++++|++
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            356677777888888888888888888888764

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 ....

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=94.97  E-value=3  Score=38.95  Aligned_cols=174  Identities=14%  Similarity=0.077  Sum_probs=107.5

Q ss_pred             HHHHHHhhCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCC
Q 008280          252 ACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGI  331 (571)
Q Consensus       252 A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~  331 (571)
                      ..+.+++...+....--.-.......|++.+|..+|......... +...-..+..++...|+++.|..++..+..+. -
T Consensus       122 lr~~ld~~~~~~~e~~~~~~~~~~~~e~~~~a~~~~~~al~~~~~-~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~-~  199 (304)
T COG3118         122 LRQFLDKVLPAEEEEALAEAKELIEAEDFGEAAPLLKQALQAAPE-NSEAKLLLAECLLAAGDVEAAQAILAALPLQA-Q  199 (304)
T ss_pred             HHHHHHHhcChHHHHHHHHhhhhhhccchhhHHHHHHHHHHhCcc-cchHHHHHHHHHHHcCChHHHHHHHHhCcccc-h
Confidence            344445444432222223344567788899999999888765322 34455677888899999999999988775421 1


Q ss_pred             CCChHhHHHHHHHHHHcCCHHHHHHHHHhCCCCC-CHhHHHHHHHHHHhcCCHhHHHHHHHHHhcc--CCCCCchhHHHH
Q 008280          332 AAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNL--NPANAAGCYVQL  408 (571)
Q Consensus       332 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~--~p~~~~~~~~~l  408 (571)
                      .........-+..+.+.....+...+-.+....| |...-..+...+...|+.+.|...+-.++..  +-++.. .-..|
T Consensus       200 ~~~~~~l~a~i~ll~qaa~~~~~~~l~~~~aadPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~-~Rk~l  278 (304)
T COG3118         200 DKAAHGLQAQIELLEQAAATPEIQDLQRRLAADPDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGE-ARKTL  278 (304)
T ss_pred             hhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcH-HHHHH
Confidence            1111112234555666555555555555553345 5666777888888999999998888777664  344445 77788


Q ss_pred             HHHHhhccChhH-HHHHHHHH
Q 008280          409 ANIYAAMKKWDD-VARIRLSM  428 (571)
Q Consensus       409 ~~~~~~~g~~~~-a~~~~~~m  428 (571)
                      +..+.-.|.-+. +.+.+++|
T Consensus       279 le~f~~~g~~Dp~~~~~RRkL  299 (304)
T COG3118         279 LELFEAFGPADPLVLAYRRKL  299 (304)
T ss_pred             HHHHHhcCCCCHHHHHHHHHH
Confidence            888877775554 33334443

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=94.97  E-value=0.04  Score=32.98  Aligned_cols=32  Identities=16%  Similarity=0.012  Sum_probs=25.3

Q ss_pred             hHHHHHHHHHHhcCCHhHHHHHHHHHhccCCC
Q 008280          368 AIFGTLLSACRVHKRLDLAEFAAMNLFNLNPA  399 (571)
Q Consensus       368 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~  399 (571)
                      .+|..+...+...|++++|+..++++++++|+
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            46777888888888888888888888888886

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 ....

>PRK09687 putative lyase; Provisional

Probab=94.94  E-value=3.5  Score=39.15  Aligned_cols=79  Identities=11%  Similarity=0.007  Sum_probs=33.1

Q ss_pred             CCCChhhHHHHHHHHHcCCCHHHHHHHHhhCCCCCcchHHHHHHHHHHcCCh----HHHHHHHhhC--CCCChhHHHHHH
Q 008280           66 PIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQL----DKAVELFKVA--PVKSVVAWTAMI  139 (571)
Q Consensus        66 ~~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~----~~A~~~~~~~--~~~~~~~~~~li  139 (571)
                      ..+|..+....+.++.+.|..+-...+..-...+|...-...+.++.+.|+.    +++...+..+  .+++..+..+.+
T Consensus        33 ~d~d~~vR~~A~~aL~~~~~~~~~~~l~~ll~~~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~D~d~~VR~~A~  112 (280)
T PRK09687         33 DDHNSLKRISSIRVLQLRGGQDVFRLAIELCSSKNPIERDIGADILSQLGMAKRCQDNVFNILNNLALEDKSACVRASAI  112 (280)
T ss_pred             hCCCHHHHHHHHHHHHhcCcchHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhcCCCHHHHHHHH
Confidence            3444445444555554444332222222222233444444444455555542    2344444433  234444444444


Q ss_pred             HHHHh
Q 008280          140 SGYMK  144 (571)
Q Consensus       140 ~~~~~  144 (571)
                      .+++.
T Consensus       113 ~aLG~  117 (280)
T PRK09687        113 NATGH  117 (280)
T ss_pred             HHHhc
Confidence            44443

>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=94.92  E-value=1.2  Score=45.23  Aligned_cols=130  Identities=13%  Similarity=0.143  Sum_probs=70.0

Q ss_pred             HHHHHHHHHHcCChHHHHHHHhhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCHHHHHHHHHHHHHcCChhHHH
Q 008280          104 WSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAEDGL  183 (571)
Q Consensus       104 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  183 (571)
                      .+.++.-+.+.|..+.|+++-.     |+   ..-.+...++|+++.|.++-++..  +...|..|.....+.|+++-|.
T Consensus       298 ~~~i~~fL~~~G~~e~AL~~~~-----D~---~~rFeLAl~lg~L~~A~~~a~~~~--~~~~W~~Lg~~AL~~g~~~lAe  367 (443)
T PF04053_consen  298 GQSIARFLEKKGYPELALQFVT-----DP---DHRFELALQLGNLDIALEIAKELD--DPEKWKQLGDEALRQGNIELAE  367 (443)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHSS------H---HHHHHHHHHCT-HHHHHHHCCCCS--THHHHHHHHHHHHHTTBHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHhhcC-----Ch---HHHhHHHHhcCCHHHHHHHHHhcC--cHHHHHHHHHHHHHcCCHHHHH
Confidence            5555666666666666665432     22   223344556777777776665544  4557777777777777777777


Q ss_pred             HHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHh
Q 008280          184 KLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLE  258 (571)
Q Consensus       184 ~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~  258 (571)
                      +.|.+...         |..++-.|...|+.+.-.++.......|      -++....++...|+.++..+++.+
T Consensus       368 ~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~~~------~~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  368 ECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEERG------DINIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             HHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHTT-------HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             HHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHHcc------CHHHHHHHHHHcCCHHHHHHHHHH
Confidence            77665321         3444444555566666656555555554      133344444445666665555543

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.

>PRK11906 transcriptional regulator; Provisional

Probab=94.91  E-value=0.55  Score=46.76  Aligned_cols=63  Identities=8%  Similarity=-0.091  Sum_probs=37.2

Q ss_pred             CHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHH
Q 008280          366 QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMK  429 (571)
Q Consensus       366 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  429 (571)
                      |+.....+..+....++++.|...|+++..++|+.+. +|...+....-.|+.++|.+.+++..
T Consensus       337 Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~Pn~A~-~~~~~~~~~~~~G~~~~a~~~i~~al  399 (458)
T PRK11906        337 DGKILAIMGLITGLSGQAKVSHILFEQAKIHSTDIAS-LYYYRALVHFHNEKIEEARICIDKSL  399 (458)
T ss_pred             CHHHHHHHHHHHHhhcchhhHHHHHHHHhhcCCccHH-HHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            3444444555455555566666666666666666665 66666666666666666666655533

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=94.65  E-value=1.8  Score=44.55  Aligned_cols=159  Identities=11%  Similarity=0.075  Sum_probs=98.7

Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHcC-CCCCH-----HHHHHHHHHHH----hcCcHHHHHHHHHHhHHhcCCCCChHh
Q 008280          268 NAMISGYAQHGKGEKALRLFDKMKDEG-MKPDS-----ITFVALLLACN----HAGLVDLGIQYFDSMVNDYGIAAKPDH  337 (571)
Q Consensus       268 ~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~-----~t~~~ll~a~~----~~g~~~~a~~~~~~~~~~~~~~~~~~~  337 (571)
                      ..+++...-.|+-+.+++.+.+-.+.+ +.-..     .+|..++..+.    ...+.+.+.+++..+.++   -|+...
T Consensus       192 ~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~---yP~s~l  268 (468)
T PF10300_consen  192 LKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR---YPNSAL  268 (468)
T ss_pred             HHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh---CCCcHH
Confidence            344444555566666666666554422 22111     12222222222    245778899999988875   355444


Q ss_pred             HH-HHHHHHHHcCCHHHHHHHHHhCCC-C-----CCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHH-HHH
Q 008280          338 YT-CMVDLLGRAGKLVEAVDLIKKMPF-K-----PQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYV-QLA  409 (571)
Q Consensus       338 ~~-~li~~~~~~g~~~~A~~~~~~~~~-~-----p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~-~l~  409 (571)
                      |. .-...+...|++++|++.|++.-. +     .....+--+...+....++++|...|.++.+.+.-... .|. ..+
T Consensus       269 fl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s~WSka-~Y~Y~~a  347 (468)
T PF10300_consen  269 FLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKESKWSKA-FYAYLAA  347 (468)
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhccccHHH-HHHHHHH
Confidence            43 345667778999999999987521 1     11233444556678899999999999999987665544 444 445


Q ss_pred             HHHhhccCh-------hHHHHHHHHHHh
Q 008280          410 NIYAAMKKW-------DDVARIRLSMKE  430 (571)
Q Consensus       410 ~~~~~~g~~-------~~a~~~~~~m~~  430 (571)
                      -+|...|+.       ++|.++|++...
T Consensus       348 ~c~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  348 ACLLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHHHhhccchhhhhhHHHHHHHHHHHHH
Confidence            556678888       888888877653

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.

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=94.63  E-value=2.3  Score=35.53  Aligned_cols=64  Identities=17%  Similarity=0.277  Sum_probs=31.1

Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHc-CCHHHHHHHHHhCCCCCCHhHHHHHHHHHH
Q 008280          302 FVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRA-GKLVEAVDLIKKMPFKPQPAIFGTLLSACR  378 (571)
Q Consensus       302 ~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~-g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~  378 (571)
                      ...++..|.+.+.++++..++..+..          +...++.+... ++++.|.+++.+.   .+...|..++..+.
T Consensus        72 ~~~~~~~c~~~~l~~~~~~l~~k~~~----------~~~Al~~~l~~~~d~~~a~~~~~~~---~~~~lw~~~~~~~l  136 (140)
T smart00299       72 IEKVGKLCEKAKLYEEAVELYKKDGN----------FKDAIVTLIEHLGNYEKAIEYFVKQ---NNPELWAEVLKALL  136 (140)
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHhhcC----------HHHHHHHHHHcccCHHHHHHHHHhC---CCHHHHHHHHHHHH
Confidence            33455555555655555555554421          11122223333 5666666666653   24456665555543

>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=94.63  E-value=14  Score=44.58  Aligned_cols=309  Identities=11%  Similarity=0.086  Sum_probs=173.0

Q ss_pred             HHHHHHHHcCChHHHHHHHhhC----CCCCh--hHHHHHHHHHHhcCCHHHHHHHHhh-CCCCCHHHHHHHHHHHHHcCC
Q 008280          106 AMISGYIECGQLDKAVELFKVA----PVKSV--VAWTAMISGYMKFGKVDLAEKLFDE-MPTKNLVTWNAMIAGYVENSW  178 (571)
Q Consensus       106 ~li~~~~~~g~~~~A~~~~~~~----~~~~~--~~~~~li~~~~~~g~~~~A~~~~~~-~~~~~~~~~~~li~~~~~~g~  178 (571)
                      ++..+-.+++.+.+|...+++-    .+.+.  ..+..+...|+..+++|...-+... ...++.   ..-|.-....|+
T Consensus      1388 tLa~aSfrc~~y~RalmylEs~~~~ek~~~~~e~l~fllq~lY~~i~dpDgV~Gv~~~r~a~~sl---~~qil~~e~~g~ 1464 (2382)
T KOG0890|consen 1388 TLARASFRCKAYARALMYLESHRSTEKEKETEEALYFLLQNLYGSIHDPDGVEGVSARRFADPSL---YQQILEHEASGN 1464 (2382)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHHhcCCcchhhhHHHHhhcCccH---HHHHHHHHhhcc
Confidence            4455666788899999888873    22222  3344555589999998888877763 334432   234555667899


Q ss_pred             hhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHH-HHHHHhcCCHHHHHHHHH
Q 008280          179 AEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPL-ISMYCKCGDLEDACKLFL  257 (571)
Q Consensus       179 ~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l-i~~y~~~g~~~~A~~~~~  257 (571)
                      +..|..-|+++.+.+ ++...+++-++......+.++...-..+-.... ..+...-++++ +.+--+.++++.......
T Consensus      1465 ~~da~~Cye~~~q~~-p~~~~~~~g~l~sml~~~~l~t~i~~~dg~~~~-~se~~~~~~s~~~eaaW~l~qwD~~e~~l~ 1542 (2382)
T KOG0890|consen 1465 WADAAACYERLIQKD-PDKEKHHSGVLKSMLAIQHLSTEILHLDGLIIN-RSEEVDELNSLGVEAAWRLSQWDLLESYLS 1542 (2382)
T ss_pred             HHHHHHHHHHhhcCC-CccccchhhHHHhhhcccchhHHHhhhcchhhc-cCHHHHHHHHHHHHHHhhhcchhhhhhhhh
Confidence            999999999998764 333667777777776777776665533333222 22333333332 344466777777766655


Q ss_pred             hhCCCChhhHHHH-H-HHHHHcC--ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHH----------
Q 008280          258 EIQRKDVVTWNAM-I-SGYAQHG--KGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFD----------  323 (571)
Q Consensus       258 ~~~~~~~~~~~~l-i-~~~~~~g--~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~----------  323 (571)
                         ..+...|... + ....+..  +.-.-.+..+.+++.-+.        =+.+|+..|.+..+.++.-          
T Consensus      1543 ---~~n~e~w~~~~~g~~ll~~~~kD~~~~~~~i~~~r~~~i~--------~lsa~s~~~Sy~~~Y~~~~kLH~l~el~~ 1611 (2382)
T KOG0890|consen 1543 ---DRNIEYWSVESIGKLLLRNKKKDEIATLDLIENSRELVIE--------NLSACSIEGSYVRSYEILMKLHLLLELEN 1611 (2382)
T ss_pred             ---cccccchhHHHHHHHHHhhcccchhhHHHHHHHHHHHhhh--------hHHHhhccchHHHHHHHHHHHHHHHHHHH
Confidence               5566666655 2 2222221  111122233333322111        1122222222222211111          


Q ss_pred             HhHHhcCCCCCh------HhHHHHHHHHHHcCCHHHHHHHHHhC----CCCCC-----HhHHHHHHHHHHhcCCHhHHHH
Q 008280          324 SMVNDYGIAAKP------DHYTCMVDLLGRAGKLVEAVDLIKKM----PFKPQ-----PAIFGTLLSACRVHKRLDLAEF  388 (571)
Q Consensus       324 ~~~~~~~~~~~~------~~~~~li~~~~~~g~~~~A~~~~~~~----~~~p~-----~~~~~~l~~~~~~~g~~~~a~~  388 (571)
                      ......+..++.      .-|..-+..-....+..+-+--+++.    ..+|+     ..+|....+.++..|+++.|..
T Consensus      1612 ~~~~l~~~s~~~~s~~~sd~W~~Rl~~tq~s~~~~epILa~RRs~l~~~~~~~~~~~~ge~wLqsAriaR~aG~~q~A~n 1691 (2382)
T KOG0890|consen 1612 SIEELKKVSYDEDSANNSDNWKNRLERTQPSFRIKEPILAFRRSMLDLRMRSNLKSRLGECWLQSARIARLAGHLQRAQN 1691 (2382)
T ss_pred             HHHHhhccCccccccccchhHHHHHHHhchhHHHHhHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHhcccHHHHHH
Confidence            111111223321      12222222111111122211112211    11222     4689999999999999999999


Q ss_pred             HHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhCCC
Q 008280          389 AAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNV  433 (571)
Q Consensus       389 ~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  433 (571)
                      ..-++.+..+.  . .+...+......|+...|..++++-.+...
T Consensus      1692 all~A~e~r~~--~-i~~E~AK~lW~~gd~~~Al~~Lq~~l~~~~ 1733 (2382)
T KOG0890|consen 1692 ALLNAKESRLP--E-IVLERAKLLWQTGDELNALSVLQEILSKNF 1733 (2382)
T ss_pred             HHHhhhhcccc--h-HHHHHHHHHHhhccHHHHHHHHHHHHHhhc
Confidence            99888887743  4 899999999999999999999998876544

>PRK11906 transcriptional regulator; Provisional

Probab=94.58  E-value=2  Score=42.94  Aligned_cols=159  Identities=9%  Similarity=0.157  Sum_probs=104.4

Q ss_pred             hhH--HHHHHHHHHc-----CChHHHHHHHHHHHH-cCCCCCHH-HHHHHHHHHHh---------cCcHHHHHHHHHHhH
Q 008280          265 VTW--NAMISGYAQH-----GKGEKALRLFDKMKD-EGMKPDSI-TFVALLLACNH---------AGLVDLGIQYFDSMV  326 (571)
Q Consensus       265 ~~~--~~li~~~~~~-----g~~~~A~~~~~~m~~-~g~~p~~~-t~~~ll~a~~~---------~g~~~~a~~~~~~~~  326 (571)
                      ..|  ..++.+....     ...+.|+.+|.+... +...|+.. .|..+..++..         ..+..+|.+.-+...
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            456  5555554431     134578888888772 23456543 33333222211         234456667766666


Q ss_pred             HhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchh
Q 008280          327 NDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQ-PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGC  404 (571)
Q Consensus       327 ~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~  404 (571)
                      +  --+-|+.....+..++.-.|+++.|...|++. ...|| +.+|......+.-.|+.++|.+.+++.++++|......
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  33456777778888888889999999999998 45566 46777777778889999999999999999999865412


Q ss_pred             HH-HHHHHHhhccChhHHHHHHH
Q 008280          405 YV-QLANIYAAMKKWDDVARIRL  426 (571)
Q Consensus       405 ~~-~l~~~~~~~g~~~~a~~~~~  426 (571)
                      .. ..++.|...+ .++|++++-
T Consensus       410 ~~~~~~~~~~~~~-~~~~~~~~~  431 (458)
T PRK11906        410 VIKECVDMYVPNP-LKNNIKLYY  431 (458)
T ss_pred             HHHHHHHHHcCCc-hhhhHHHHh
Confidence            22 3334676665 677777764

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=94.47  E-value=1.9  Score=43.27  Aligned_cols=68  Identities=16%  Similarity=0.103  Sum_probs=46.1

Q ss_pred             hHHHHHHHHHHhcCCHhHHHHHHHHHhccCCC-CCchhHHHHHHHHhhccChhHHHHHHHHHHhCCCcc
Q 008280          368 AIFGTLLSACRVHKRLDLAEFAAMNLFNLNPA-NAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVVK  435 (571)
Q Consensus       368 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~  435 (571)
                      .+-..|...+.+.|+.++|++.++.+++..|. +.......|+.++...+.+.++..++.+--+...++
T Consensus       260 y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpk  328 (539)
T PF04184_consen  260 YAKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPK  328 (539)
T ss_pred             hhHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCc
Confidence            33345666677788888888888888776654 222266778888888888888888777654433433

The molecular function of this protein is uncertain.

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.41  E-value=0.74  Score=42.37  Aligned_cols=90  Identities=18%  Similarity=0.231  Sum_probs=44.1

Q ss_pred             cCcHHHHHHHHHHhHHhcCCCC-ChHhHHHHHHHHHHcCCHHHHHHHHHhC----CCCCC-HhHHHHHHHHHHhcCCHhH
Q 008280          312 AGLVDLGIQYFDSMVNDYGIAA-KPDHYTCMVDLLGRAGKLVEAVDLIKKM----PFKPQ-PAIFGTLLSACRVHKRLDL  385 (571)
Q Consensus       312 ~g~~~~a~~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~~----~~~p~-~~~~~~l~~~~~~~g~~~~  385 (571)
                      .|++..|.+-|...++.|.-.+ .+..+--|.+.+...|++++|..+|..+    |..|. +....-|.......|+.++
T Consensus       154 sgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~~d~  233 (262)
T COG1729         154 SGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGNTDE  233 (262)
T ss_pred             cCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcCHHH
Confidence            3445555555555554321100 1223334555555555555555555444    21122 2344445555556666666


Q ss_pred             HHHHHHHHhccCCCCC
Q 008280          386 AEFAAMNLFNLNPANA  401 (571)
Q Consensus       386 a~~~~~~~~~~~p~~~  401 (571)
                      |...++++.+.-|+.+
T Consensus       234 A~atl~qv~k~YP~t~  249 (262)
T COG1729         234 ACATLQQVIKRYPGTD  249 (262)
T ss_pred             HHHHHHHHHHHCCCCH
Confidence            6666666666666544

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=94.39  E-value=0.38  Score=44.12  Aligned_cols=101  Identities=17%  Similarity=0.206  Sum_probs=80.1

Q ss_pred             HHHHHHHhhC--CCChhhHHHHHHHHHHc-----CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC----------
Q 008280          251 DACKLFLEIQ--RKDVVTWNAMISGYAQH-----GKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAG----------  313 (571)
Q Consensus       251 ~A~~~~~~~~--~~~~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g----------  313 (571)
                      -.++.|....  ++|-.+|.+++..+...     ++.+=....++.|.+.|+.-|..+|..|++.+=+..          
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            3456677766  67888999999888764     566777778899999999999999999998875543          


Q ss_pred             ------cHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHH
Q 008280          314 ------LVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLV  352 (571)
Q Consensus       314 ------~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  352 (571)
                            +-+=+..++++|.. +|+.||.++-..|+.++++.|..-
T Consensus       132 F~HYP~QQ~C~I~vLeqME~-hGVmPdkE~e~~lvn~FGr~~~p~  175 (406)
T KOG3941|consen  132 FLHYPQQQNCAIKVLEQMEW-HGVMPDKEIEDILVNAFGRWNFPT  175 (406)
T ss_pred             HhhCchhhhHHHHHHHHHHH-cCCCCchHHHHHHHHHhccccccH
Confidence                  22346788999965 599999999999999999888643

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=94.22  E-value=9.1  Score=42.71  Aligned_cols=25  Identities=16%  Similarity=0.272  Sum_probs=14.1

Q ss_pred             HHHHHHHHHcC--ChhHHHHHHHHHHH
Q 008280          167 NAMIAGYVENS--WAEDGLKLLRMMIG  191 (571)
Q Consensus       167 ~~li~~~~~~g--~~~~A~~~~~~m~~  191 (571)
                      -.+|.+|++.+  ..++|+....+...
T Consensus       794 ~~ilTs~vk~~~~~ie~aL~kI~~l~~  820 (1265)
T KOG1920|consen  794 LFILTSYVKSNPPEIEEALQKIKELQL  820 (1265)
T ss_pred             HHHHHHHHhcCcHHHHHHHHHHHHHHh
Confidence            34556666665  45556555555543

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=94.16  E-value=6.3  Score=38.74  Aligned_cols=72  Identities=13%  Similarity=0.071  Sum_probs=44.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHhhCCCC-------CHHHHHHHHHHHHH---cCChhHHHHHHHHHHHCCCCCCHhHHHHHHH
Q 008280          137 AMISGYMKFGKVDLAEKLFDEMPTK-------NLVTWNAMIAGYVE---NSWAEDGLKLLRMMIGLGIRPNASSLSSVLL  206 (571)
Q Consensus       137 ~li~~~~~~g~~~~A~~~~~~~~~~-------~~~~~~~li~~~~~---~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~  206 (571)
                      .++-.|-...+++...++++.+...       ....-....-++.+   .|+.++|++++..+....-.+++.||..+..
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            4444577777777777777777642       11122233445555   6788888888877555555667777766655


Q ss_pred             HH
Q 008280          207 GC  208 (571)
Q Consensus       207 ~~  208 (571)
                      .|
T Consensus       226 Iy  227 (374)
T PF13281_consen  226 IY  227 (374)
T ss_pred             HH
Confidence            44

>PRK09687 putative lyase; Provisional

Probab=93.95  E-value=5.9  Score=37.64  Aligned_cols=79  Identities=11%  Similarity=0.014  Sum_probs=31.0

Q ss_pred             CCChhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCHHHHHHHHHHHHHcCCh----hHHHHHHHHHHHCCCCCCHhHHHHH
Q 008280          129 VKSVVAWTAMISGYMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWA----EDGLKLLRMMIGLGIRPNASSLSSV  204 (571)
Q Consensus       129 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~----~~A~~~~~~m~~~g~~pd~~t~~~l  204 (571)
                      .+|..+....+..+...|..+-...+..-+..+|...=...+.++.+.|+.    .+++..+..+...  .|+...-...
T Consensus        34 d~d~~vR~~A~~aL~~~~~~~~~~~l~~ll~~~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~--D~d~~VR~~A  111 (280)
T PRK09687         34 DHNSLKRISSIRVLQLRGGQDVFRLAIELCSSKNPIERDIGADILSQLGMAKRCQDNVFNILNNLALE--DKSACVRASA  111 (280)
T ss_pred             CCCHHHHHHHHHHHHhcCcchHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhc--CCCHHHHHHH
Confidence            344444444444444444322222222222233444333444444444442    2344444444222  3344444344


Q ss_pred             HHHHh
Q 008280          205 LLGCS  209 (571)
Q Consensus       205 l~~~~  209 (571)
                      +.+++
T Consensus       112 ~~aLG  116 (280)
T PRK09687        112 INATG  116 (280)
T ss_pred             HHHHh
Confidence            44443

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=93.76  E-value=9.4  Score=39.34  Aligned_cols=330  Identities=13%  Similarity=0.051  Sum_probs=181.9

Q ss_pred             hCCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHcCCCCHHHHHHHHhhCCC------CChhhHHHHHHHHHcCCCHHH
Q 008280           18 KQRGKLKDAQELFDKIPQ---PDVVSYNIMLSCILLNSDDVVAAFDFFQRLPI------KDTASWNTMISGFVQKKNMAK   88 (571)
Q Consensus        18 ~~~g~~~~A~~~~~~~~~---~~~~~~~~ll~~~~~~~g~~~~A~~~~~~m~~------~d~~~~~~li~~~~~~g~~~~   88 (571)
                      +.| ..+.+.++|++..+   ..+..|...+..+....|+.+.-+.+|+....      .....|...|..-..++++..
T Consensus        91 klg-~~~~s~~Vfergv~aip~SvdlW~~Y~~f~~n~~~d~~~lr~~fe~A~~~vG~dF~S~~lWdkyie~en~qks~k~  169 (577)
T KOG1258|consen   91 KLG-NAENSVKVFERGVQAIPLSVDLWLSYLAFLKNNNGDPETLRDLFERAKSYVGLDFLSDPLWDKYIEFENGQKSWKR  169 (577)
T ss_pred             Hhh-hHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhcccchhccHHHHHHHHHHhccccHHH
Confidence            456 78888888887654   45567777777666555888888888877643      345567777777777888888


Q ss_pred             HHHHHhhCCCCCcchHHHHHHHHHH---c------CChHHHHHHH-----------------------hhCCCCCh---h
Q 008280           89 ARDLFLAMPEKNSVSWSAMISGYIE---C------GQLDKAVELF-----------------------KVAPVKSV---V  133 (571)
Q Consensus        89 A~~~~~~m~~~d~~~~~~li~~~~~---~------g~~~~A~~~~-----------------------~~~~~~~~---~  133 (571)
                      ...++++..+--...++..-.-|.+   .      ...+++.++-                       +..-.+..   .
T Consensus       170 v~~iyeRileiP~~~~~~~f~~f~~~l~~~~~~~l~~~d~~~~l~~~~~~~~~~~~~~~~~e~~~~~v~~~~~~s~~l~~  249 (577)
T KOG1258|consen  170 VANIYERILEIPLHQLNRHFDRFKQLLNQNEEKILLSIDELIQLRSDVAERSKITHSQEPLEELEIGVKDSTDPSKSLTE  249 (577)
T ss_pred             HHHHHHHHHhhhhhHhHHHHHHHHHHHhcCChhhhcCHHHHHHHhhhHHhhhhcccccChhHHHHHHHhhccCccchhhH
Confidence            8888887755222222222211111   0      1111111111                       00001110   1


Q ss_pred             HHHHHH-------HHHHhcCCHHHHHHHHhhCCC-----------CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCC
Q 008280          134 AWTAMI-------SGYMKFGKVDLAEKLFDEMPT-----------KNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIR  195 (571)
Q Consensus       134 ~~~~li-------~~~~~~g~~~~A~~~~~~~~~-----------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  195 (571)
                      ..+.+-       .+|-..-...+.+-.|+.-..           .+..+|+.-+.--...|+.+.+.-+|++..-.- .
T Consensus       250 ~~~~l~~~~~~~~~~~~~s~~~~~kr~~fE~~IkrpYfhvkpl~~aql~nw~~yLdf~i~~g~~~~~~~l~ercli~c-A  328 (577)
T KOG1258|consen  250 EKTILKRIVSIHEKVYQKSEEEEEKRWGFEEGIKRPYFHVKPLDQAQLKNWRYYLDFEITLGDFSRVFILFERCLIPC-A  328 (577)
T ss_pred             HHHHHHHHHHHHHHHHHhhHhHHHHHHhhhhhccccccccCcccHHHHHHHHHHhhhhhhcccHHHHHHHHHHHHhHH-h
Confidence            111111       223333334444445554332           245689999999999999999999998876321 1


Q ss_pred             CCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCCC--Chh-hHHHHHH
Q 008280          196 PNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRK--DVV-TWNAMIS  272 (571)
Q Consensus       196 pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~--~~~-~~~~li~  272 (571)
                      .=...|-..+.-....|+.+.+..++....+.-.+..+.+.-.-....-..|+.+.|..+++.+.+.  +.+ .-..-+.
T Consensus       329 ~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~~~~i~L~~a~f~e~~~n~~~A~~~lq~i~~e~pg~v~~~l~~~~  408 (577)
T KOG1258|consen  329 LYDEFWIKYARWMESSGDVSLANNVLARACKIHVKKTPIIHLLEARFEESNGNFDDAKVILQRIESEYPGLVEVVLRKIN  408 (577)
T ss_pred             hhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCCCCcHHHHHHHHHHHhhccHHHHHHHHHHHHhhCCchhhhHHHHHh
Confidence            1112233333333344888888888877776654433333222222223368999999999988752  221 1111233


Q ss_pred             HHHHcCChHHHH---HHHHHHHHcCCCCCHH--HHHHHHH-HHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHH
Q 008280          273 GYAQHGKGEKAL---RLFDKMKDEGMKPDSI--TFVALLL-ACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLG  346 (571)
Q Consensus       273 ~~~~~g~~~~A~---~~~~~m~~~g~~p~~~--t~~~ll~-a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~  346 (571)
                      ...+.|..+.+.   .++.........+...  .+..... .+.-.++.+.|..++..+..  ..+++...|..+++...
T Consensus       409 ~e~r~~~~~~~~~~~~l~s~~~~~~~~~~i~~~l~~~~~r~~~~i~~d~~~a~~~l~~~~~--~~~~~k~~~~~~~~~~~  486 (577)
T KOG1258|consen  409 WERRKGNLEDANYKNELYSSIYEGKENNGILEKLYVKFARLRYKIREDADLARIILLEAND--ILPDCKVLYLELIRFEL  486 (577)
T ss_pred             HHHHhcchhhhhHHHHHHHHhcccccCcchhHHHHHHHHHHHHHHhcCHHHHHHHHHHhhh--cCCccHHHHHHHHHHHH
Confidence            345567666666   3333322211111111  1111111 23345788899999999876  56777888888888776


Q ss_pred             HcCCH
Q 008280          347 RAGKL  351 (571)
Q Consensus       347 ~~g~~  351 (571)
                      -.+..
T Consensus       487 ~~~~~  491 (577)
T KOG1258|consen  487 IQPSG  491 (577)
T ss_pred             hCCcc
Confidence            66533

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=93.60  E-value=0.82  Score=43.56  Aligned_cols=121  Identities=16%  Similarity=0.098  Sum_probs=55.6

Q ss_pred             HHHHHHhcCcHHHHHHHHHHhHHhcCC--CC--ChHhHHHHHHHHHHcCCHHHHHHHHHhC-------CCCCCHh-----
Q 008280          305 LLLACNHAGLVDLGIQYFDSMVNDYGI--AA--KPDHYTCMVDLLGRAGKLVEAVDLIKKM-------PFKPQPA-----  368 (571)
Q Consensus       305 ll~a~~~~g~~~~a~~~~~~~~~~~~~--~~--~~~~~~~li~~~~~~g~~~~A~~~~~~~-------~~~p~~~-----  368 (571)
                      +..+....+.++++.+.|+...+--.-  .|  ...++..|...|.+..++++|.-+..+.       +.+.-..     
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            344455555566666666554431111  11  1234555666666666666554443332       2111011     


Q ss_pred             HHHHHHHHHHhcCCHhHHHHHHHHHhcc--CCC----CCchhHHHHHHHHhhccChhHHHHHHH
Q 008280          369 IFGTLLSACRVHKRLDLAEFAAMNLFNL--NPA----NAAGCYVQLANIYAAMKKWDDVARIRL  426 (571)
Q Consensus       369 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~--~p~----~~~~~~~~l~~~~~~~g~~~~a~~~~~  426 (571)
                      +..-|.-+++..|....|.+.-+++.++  ...    ... ....++++|...|+.|.|..-|+
T Consensus       208 ~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~ar-c~~~~aDIyR~~gd~e~af~rYe  270 (518)
T KOG1941|consen  208 SLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQAR-CLLCFADIYRSRGDLERAFRRYE  270 (518)
T ss_pred             HHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHH-HHHHHHHHHHhcccHhHHHHHHH
Confidence            1222334555666666666655555332  111    111 23356666666666666555544

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=93.59  E-value=13  Score=40.30  Aligned_cols=407  Identities=13%  Similarity=0.106  Sum_probs=219.2

Q ss_pred             HHHHHHHHH--hCCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHcCCCCHHHHHHHHhhCCC--CChhhHHHHHHHHH
Q 008280            9 WNSVLAGFA--KQRGKLKDAQELFDKIPQ---PDVVSYNIMLSCILLNSDDVVAAFDFFQRLPI--KDTASWNTMISGFV   81 (571)
Q Consensus         9 ~~~l~~~~~--~~~g~~~~A~~~~~~~~~---~~~~~~~~ll~~~~~~~g~~~~A~~~~~~m~~--~d~~~~~~li~~~~   81 (571)
                      |...+.++.  +.| +.++|..+++....   .|..|...+-..|-.. |..++|..+|++...  |+......+..+|+
T Consensus        44 ~a~vLkaLsl~r~g-k~~ea~~~Le~~~~~~~~D~~tLq~l~~~y~d~-~~~d~~~~~Ye~~~~~~P~eell~~lFmayv  121 (932)
T KOG2053|consen   44 YAKVLKALSLFRLG-KGDEALKLLEALYGLKGTDDLTLQFLQNVYRDL-GKLDEAVHLYERANQKYPSEELLYHLFMAYV  121 (932)
T ss_pred             HHHHHHHHHHHHhc-CchhHHHHHhhhccCCCCchHHHHHHHHHHHHH-hhhhHHHHHHHHHHhhCCcHHHHHHHHHHHH
Confidence            455556554  567 99999988887643   5667788888888888 999999999999876  44455556677888


Q ss_pred             cCCCHH----HHHHHHhhCCCCCcchHHHHHHHHHHc-CChH---------HHHHHHhhCCCCC-h----hHHHHHHHHH
Q 008280           82 QKKNMA----KARDLFLAMPEKNSVSWSAMISGYIEC-GQLD---------KAVELFKVAPVKS-V----VAWTAMISGY  142 (571)
Q Consensus        82 ~~g~~~----~A~~~~~~m~~~d~~~~~~li~~~~~~-g~~~---------~A~~~~~~~~~~~-~----~~~~~li~~~  142 (571)
                      +-+++.    .|+++++..++ +...+-++++.+.+. ...+         -|.+.++.+.+.+ .    .-..-.....
T Consensus       122 R~~~yk~qQkaa~~LyK~~pk-~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA~~m~~~~l~~~gk~~s~aE~~Lyl~iL  200 (932)
T KOG2053|consen  122 REKSYKKQQKAALQLYKNFPK-RAYYFWSVISLILQSIFSENELLDPILLALAEKMVQKLLEKKGKIESEAEIILYLLIL  200 (932)
T ss_pred             HHHHHHHHHHHHHHHHHhCCc-ccchHHHHHHHHHHhccCCcccccchhHHHHHHHHHHHhccCCccchHHHHHHHHHHH
Confidence            877765    46666665554 444444555555443 2222         2333344443332 1    1111122344


Q ss_pred             HhcCCHHHHHHHHhh-----CCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHH--------H--
Q 008280          143 MKFGKVDLAEKLFDE-----MPTKNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLL--------G--  207 (571)
Q Consensus       143 ~~~g~~~~A~~~~~~-----~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~--------~--  207 (571)
                      ...|.+++|..++..     ...-+...-+--+..+...+++.+..++-.++...|  +|.  |.....        .  
T Consensus       201 ~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll~k~--~Dd--y~~~~~sv~klLe~~~~  276 (932)
T KOG2053|consen  201 ELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLLEKG--NDD--YKIYTDSVFKLLELLNK  276 (932)
T ss_pred             HhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHHHhC--Ccc--hHHHHHHHHHHHHhccc
Confidence            567889999998833     233455556667788888899999999888888875  332  222111        1  


Q ss_pred             ------HhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHH---HhcCCHHHHHHHH-HhhCCC-----C---------
Q 008280          208 ------CSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMY---CKCGDLEDACKLF-LEIQRK-----D---------  263 (571)
Q Consensus       208 ------~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y---~~~g~~~~A~~~~-~~~~~~-----~---------  263 (571)
                            ....+.++...+..+..+...   ....|-+-+.++   ..-|+.+++...| ++.-.+     |         
T Consensus       277 ~~a~~~~s~~~~l~~~~ek~~~~i~~~---~Rgp~LA~lel~kr~~~~gd~ee~~~~y~~kfg~kpcc~~Dl~~yl~~l~  353 (932)
T KOG2053|consen  277 EPAEAAHSLSKSLDECIEKAQKNIGSK---SRGPYLARLELDKRYKLIGDSEEMLSYYFKKFGDKPCCAIDLNHYLGHLN  353 (932)
T ss_pred             ccchhhhhhhhhHHHHHHHHHHhhccc---ccCcHHHHHHHHHHhcccCChHHHHHHHHHHhCCCcHhHhhHHHhhccCC
Confidence                  111222333333333332221   112222223333   3447777654433 222110     1         


Q ss_pred             ----------------hhh--------HHHHHHHHHHcC-----ChHHHHHHHHHHH---HcC------CCCCHH-----
Q 008280          264 ----------------VVT--------WNAMISGYAQHG-----KGEKALRLFDKMK---DEG------MKPDSI-----  300 (571)
Q Consensus       264 ----------------~~~--------~~~li~~~~~~g-----~~~~A~~~~~~m~---~~g------~~p~~~-----  300 (571)
                                      ..+        +...+..-...|     ..+....++++..   +.|      .-|+..     
T Consensus       354 ~~q~~~l~~~l~~~~~~~s~~~k~l~~h~c~l~~~rl~G~~~~l~ad~i~a~~~kl~~~ye~gls~~K~ll~TE~~~g~~  433 (932)
T KOG2053|consen  354 IDQLKSLMSKLVLADDDSSGDEKVLQQHLCVLLLLRLLGLYEKLPADSILAYVRKLKLTYEKGLSLSKDLLPTEYSFGDE  433 (932)
T ss_pred             HHHHHHHHHHhhccCCcchhhHHHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHhccccccccccccccccHHH
Confidence                            111        111111111222     2233344443332   223      223332     


Q ss_pred             ----HHHHHHHHHHhcCcHH---HHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhCCC---CCCHhHH
Q 008280          301 ----TFVALLLACNHAGLVD---LGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPF---KPQPAIF  370 (571)
Q Consensus       301 ----t~~~ll~a~~~~g~~~---~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~p~~~~~  370 (571)
                          +.+.++..|.+.++..   +|+-+++....  .-+.+..+--.++..|.-.|-+..|.++|+.+.+   +.|..-+
T Consensus       434 ~llLav~~Lid~~rktnd~~~l~eaI~LLE~glt--~s~hnf~~KLlLiriY~~lGa~p~a~~~y~tLdIK~IQ~DTlgh  511 (932)
T KOG2053|consen  434 LLLLAVNHLIDLWRKTNDLTDLFEAITLLENGLT--KSPHNFQTKLLLIRIYSYLGAFPDAYELYKTLDIKNIQTDTLGH  511 (932)
T ss_pred             HHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhh--cCCccHHHHHHHHHHHHHhcCChhHHHHHHhcchHHhhhccchH
Confidence                2345666777777655   44444544443  2233344455678888888999999999988843   3333322


Q ss_pred             HHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChh---HHHHHHHHHH
Q 008280          371 GTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWD---DVARIRLSMK  429 (571)
Q Consensus       371 ~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~---~a~~~~~~m~  429 (571)
                      . +...+...|++..+...+...+...-++-..+-...+.+| +.|.+.   +-....++|.
T Consensus       512 ~-~~~~~~t~g~~~~~s~~~~~~lkfy~~~~kE~~eyI~~AY-r~g~ySkI~em~~fr~rL~  571 (932)
T KOG2053|consen  512 L-IFRRAETSGRSSFASNTFNEHLKFYDSSLKETPEYIALAY-RRGAYSKIPEMLAFRDRLM  571 (932)
T ss_pred             H-HHHHHHhcccchhHHHHHHHHHHHHhhhhhhhHHHHHHHH-HcCchhhhHHHHHHHHHHH
Confidence            2 2344567788888888888776643332221333344444 334444   4444445553

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=93.55  E-value=0.64  Score=42.72  Aligned_cols=98  Identities=14%  Similarity=0.125  Sum_probs=68.1

Q ss_pred             HHHHHhhCC--CCCHHHHHHHHHHHHHc-----CChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhcc------------
Q 008280          151 AEKLFDEMP--TKNLVTWNAMIAGYVEN-----SWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHL------------  211 (571)
Q Consensus       151 A~~~~~~~~--~~~~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~------------  211 (571)
                      .++.|....  ++|-.+|-+++..+...     +..+-....++.|.+-|+.-|..+|..||+.+-+.            
T Consensus        53 ~e~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F  132 (406)
T KOG3941|consen   53 VEKQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVF  132 (406)
T ss_pred             hhhhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHH
Confidence            345555555  56777777777776553     45555666778888888888888888888875442            


Q ss_pred             ----CchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCC
Q 008280          212 ----SSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGD  248 (571)
Q Consensus       212 ----~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~  248 (571)
                          .+-+-+..++++|...|+-||..+-..|++++.+.|-
T Consensus       133 ~HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  133 LHYPQQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNF  173 (406)
T ss_pred             hhCchhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhccccc
Confidence                1234466777777777877877777777777776654

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=93.46  E-value=6.1  Score=36.24  Aligned_cols=169  Identities=14%  Similarity=0.107  Sum_probs=95.3

Q ss_pred             HHhcCCHHHHHHHHHhhCCCC------hhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh---c-
Q 008280          243 YCKCGDLEDACKLFLEIQRKD------VVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNH---A-  312 (571)
Q Consensus       243 y~~~g~~~~A~~~~~~~~~~~------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~---~-  312 (571)
                      -.+.|++++|.+.|+.+....      ..+--.++-++-+.+++++|+..+++....-.......|..-|.+.+.   . 
T Consensus        44 ~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~YlkgLs~~~~i~  123 (254)
T COG4105          44 ELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYLKGLSYFFQID  123 (254)
T ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhccCC
Confidence            345788888888888776432      233445566677788888888888887664322222333333333331   1 


Q ss_pred             ---CcH---HHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhCCCCCCHh--HHHHHHHHHHhcCCHh
Q 008280          313 ---GLV---DLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPA--IFGTLLSACRVHKRLD  384 (571)
Q Consensus       313 ---g~~---~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~--~~~~l~~~~~~~g~~~  384 (571)
                         .+.   .+|..-|+.++.++   |+..             -...|..-+..+   .|..  -=..+..-|.+.|.+.
T Consensus       124 ~~~rDq~~~~~A~~~f~~~i~ry---PnS~-------------Ya~dA~~~i~~~---~d~LA~~Em~IaryY~kr~~~~  184 (254)
T COG4105         124 DVTRDQSAARAAFAAFKELVQRY---PNSR-------------YAPDAKARIVKL---NDALAGHEMAIARYYLKRGAYV  184 (254)
T ss_pred             ccccCHHHHHHHHHHHHHHHHHC---CCCc-------------chhhHHHHHHHH---HHHHHHHHHHHHHHHHHhcChH
Confidence               122   23344444444432   2211             001111111110   0110  1123556688999999


Q ss_pred             HHHHHHHHHhccCCCCCc--hhHHHHHHHHhhccChhHHHHHHHHHHh
Q 008280          385 LAEFAAMNLFNLNPANAA--GCYVQLANIYAAMKKWDDVARIRLSMKE  430 (571)
Q Consensus       385 ~a~~~~~~~~~~~p~~~~--~~~~~l~~~~~~~g~~~~a~~~~~~m~~  430 (571)
                      .|..-++++++.-|+.+.  ..+..+..+|.+.|..++|.+.-+-+..
T Consensus       185 AA~nR~~~v~e~y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~  232 (254)
T COG4105         185 AAINRFEEVLENYPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGA  232 (254)
T ss_pred             HHHHHHHHHHhccccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHh
Confidence            999999999887665432  2566778889999999999887665544

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=93.45  E-value=9.6  Score=38.47  Aligned_cols=56  Identities=11%  Similarity=-0.018  Sum_probs=29.0

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHhcCcHHHHHHHHHHh
Q 008280          270 MISGYAQHGKGEKALRLFDKMKDEGMKP-DSITFVALLLACNHAGLVDLGIQYFDSM  325 (571)
Q Consensus       270 li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~  325 (571)
                      +..+.-+.|+.++|++.|++|.+....- +......|+.++...+.+.++..++.+.
T Consensus       265 LAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kY  321 (539)
T PF04184_consen  265 LAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKY  321 (539)
T ss_pred             HHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHh
Confidence            4444445566666666666665432111 1123445556666666666666655554

The molecular function of this protein is uncertain.

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=93.37  E-value=4.1  Score=33.96  Aligned_cols=128  Identities=13%  Similarity=0.080  Sum_probs=79.4

Q ss_pred             hhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHH
Q 008280          265 VTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDL  344 (571)
Q Consensus       265 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~  344 (571)
                      ..-..++..+...+.......+++.+...+ ..+....+.++..|++.+ .......+..       .++.......+..
T Consensus         8 ~~~~~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~-~~~ll~~l~~-------~~~~yd~~~~~~~   78 (140)
T smart00299        8 IDVSEVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYD-PQKEIERLDN-------KSNHYDIEKVGKL   78 (140)
T ss_pred             CCHHHHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHC-HHHHHHHHHh-------ccccCCHHHHHHH
Confidence            334556777777778888888888887765 345566777777777653 3334444442       1222333456777


Q ss_pred             HHHcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHHhc-CCHhHHHHHHHHHhccCCCCCchhHHHHHHHHh
Q 008280          345 LGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVH-KRLDLAEFAAMNLFNLNPANAAGCYVQLANIYA  413 (571)
Q Consensus       345 ~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~-g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~  413 (571)
                      +.+.+.++++.-++.+++.      |...+..+..+ ++++.|.+++.+.     +++. .|..++..+.
T Consensus        79 c~~~~l~~~~~~l~~k~~~------~~~Al~~~l~~~~d~~~a~~~~~~~-----~~~~-lw~~~~~~~l  136 (140)
T smart00299       79 CEKAKLYEEAVELYKKDGN------FKDAIVTLIEHLGNYEKAIEYFVKQ-----NNPE-LWAEVLKALL  136 (140)
T ss_pred             HHHcCcHHHHHHHHHhhcC------HHHHHHHHHHcccCHHHHHHHHHhC-----CCHH-HHHHHHHHHH
Confidence            7788888888888888763      22223333344 7888888877762     2444 6766666554

>PRK11619 lytic murein transglycosylase; Provisional

Probab=93.23  E-value=14  Score=39.74  Aligned_cols=114  Identities=11%  Similarity=0.018  Sum_probs=54.5

Q ss_pred             CChHHHHHHHHHHHHcC-CCCCHH--HHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHH
Q 008280          278 GKGEKALRLFDKMKDEG-MKPDSI--TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEA  354 (571)
Q Consensus       278 g~~~~A~~~~~~m~~~g-~~p~~~--t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  354 (571)
                      .+.+.|..++....... ..+...  ....+.......+..+++...+......   ..+......-+..-.+.++++.+
T Consensus       255 ~d~~~A~~~~~~~~~~~~~~~~~~~~~~~~lA~~~a~~~~~~~a~~w~~~~~~~---~~~~~~~e~r~r~Al~~~dw~~~  331 (644)
T PRK11619        255 QDAENARLMIPSLVRAQKLNEDQRQELRDIVAWRLMGNDVTDEQAKWRDDVIMR---SQSTSLLERRVRMALGTGDRRGL  331 (644)
T ss_pred             hCHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhccCCHHHHHHHHhcccc---cCCcHHHHHHHHHHHHccCHHHH
Confidence            45566777777653322 222221  2222222222222134555555543321   12333344444444577777777


Q ss_pred             HHHHHhCCC--CCCHhHHHHHHHHHHhcCCHhHHHHHHHHHh
Q 008280          355 VDLIKKMPF--KPQPAIFGTLLSACRVHKRLDLAEFAAMNLF  394 (571)
Q Consensus       355 ~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  394 (571)
                      ...+..|+.  +-...-..=+..++...|+.++|...|+++.
T Consensus       332 ~~~i~~L~~~~~~~~rw~YW~aRa~~~~g~~~~A~~~~~~~a  373 (644)
T PRK11619        332 NTWLARLPMEAKEKDEWRYWQADLLLEQGRKAEAEEILRQLM  373 (644)
T ss_pred             HHHHHhcCHhhccCHhhHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            777777731  1111111224455555677777777777763

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.20  E-value=2.5  Score=40.07  Aligned_cols=147  Identities=13%  Similarity=-0.003  Sum_probs=61.0

Q ss_pred             CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHH----HHHHcCCHHH
Q 008280          278 GKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVD----LLGRAGKLVE  353 (571)
Q Consensus       278 g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~----~~~~~g~~~~  353 (571)
                      |+..+|-..++++.+. .+.|...+...=.+|...|+.+.-...++++...  ..++...|..+=.    .+..+|-+++
T Consensus       117 g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~--wn~dlp~~sYv~GmyaFgL~E~g~y~d  193 (491)
T KOG2610|consen  117 GKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK--WNADLPCYSYVHGMYAFGLEECGIYDD  193 (491)
T ss_pred             ccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccc--cCCCCcHHHHHHHHHHhhHHHhccchh
Confidence            4444444444444432 2334444444444555555555555555544431  2333333322222    2234555555


Q ss_pred             HHHHHHhC-CCC-CCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCC---CchhHHHHHHHHhhccChhHHHHHHHH
Q 008280          354 AVDLIKKM-PFK-PQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPAN---AAGCYVQLANIYAAMKKWDDVARIRLS  427 (571)
Q Consensus       354 A~~~~~~~-~~~-p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~  427 (571)
                      |++.-++. .+. .|.-.-.++...+...|+..++.++..+-...-...   ..+.|-..+-.+...+.++.|.++|+.
T Consensus       194 AEk~A~ralqiN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD~  272 (491)
T KOG2610|consen  194 AEKQADRALQINRFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYDR  272 (491)
T ss_pred             HHHHHHhhccCCCcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHHH
Confidence            55555444 211 222333444444445555555554444332110000   001233444444444555555555543

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=93.16  E-value=0.73  Score=37.07  Aligned_cols=88  Identities=18%  Similarity=0.090  Sum_probs=42.6

Q ss_pred             HHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC----CCCCC--HhHHHHHHHHHHhcCC
Q 008280          309 CNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM----PFKPQ--PAIFGTLLSACRVHKR  382 (571)
Q Consensus       309 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~----~~~p~--~~~~~~l~~~~~~~g~  382 (571)
                      .+..|+++.|++.|.+.+.  -.+.....||.-..+|.-+|+.++|++-+++.    +-+..  -..|..-...|+..|+
T Consensus        53 laE~g~Ld~AlE~F~qal~--l~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~  130 (175)
T KOG4555|consen   53 LAEAGDLDGALELFGQALC--LAPERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGN  130 (175)
T ss_pred             HHhccchHHHHHHHHHHHH--hcccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCc
Confidence            3445555555555555443  22333455555555555555555555544443    11100  1123333334566666


Q ss_pred             HhHHHHHHHHHhccCC
Q 008280          383 LDLAEFAAMNLFNLNP  398 (571)
Q Consensus       383 ~~~a~~~~~~~~~~~p  398 (571)
                      .+.|..-|+.+-+++.
T Consensus       131 dd~AR~DFe~AA~LGS  146 (175)
T KOG4555|consen  131 DDAARADFEAAAQLGS  146 (175)
T ss_pred             hHHHHHhHHHHHHhCC
Confidence            6666666666655443

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=92.91  E-value=7.1  Score=40.28  Aligned_cols=159  Identities=15%  Similarity=0.140  Sum_probs=88.0

Q ss_pred             HHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcc------hHHHHHHHHH----hcCCHHHHHHHHHhhCC--CChhhHH
Q 008280          201 LSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTT------ALTPLISMYC----KCGDLEDACKLFLEIQR--KDVVTWN  268 (571)
Q Consensus       201 ~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~------~~~~li~~y~----~~g~~~~A~~~~~~~~~--~~~~~~~  268 (571)
                      +..+++..+-.||-+.|.+.+....+.+--..+.      .|...+..+.    ...+.+.|.++++.+.+  |+...|.
T Consensus       191 ~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~yP~s~lfl  270 (468)
T PF10300_consen  191 VLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKRYPNSALFL  270 (468)
T ss_pred             HHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHhCCCcHHHH
Confidence            4455555555666666666666655532111111      1222222222    24466777777777765  5555554


Q ss_pred             HH-HHHHHHcCChHHHHHHHHHHHHcC---CCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHH-H
Q 008280          269 AM-ISGYAQHGKGEKALRLFDKMKDEG---MKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMV-D  343 (571)
Q Consensus       269 ~l-i~~~~~~g~~~~A~~~~~~m~~~g---~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li-~  343 (571)
                      -. ...+...|+.++|++.|++.....   .......+--+.-.+.-..++++|.+.|..+.+..  ..+...|..+. -
T Consensus       271 ~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s--~WSka~Y~Y~~a~  348 (468)
T PF10300_consen  271 FFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKES--KWSKAFYAYLAAA  348 (468)
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcc--ccHHHHHHHHHHH
Confidence            33 334556777888888877654211   11223344555666777778888888888877642  23333443332 3


Q ss_pred             HHHHcCCH-------HHHHHHHHhC
Q 008280          344 LLGRAGKL-------VEAVDLIKKM  361 (571)
Q Consensus       344 ~~~~~g~~-------~~A~~~~~~~  361 (571)
                      .+...|+.       ++|.++|.+.
T Consensus       349 c~~~l~~~~~~~~~~~~a~~l~~~v  373 (468)
T PF10300_consen  349 CLLMLGREEEAKEHKKEAEELFRKV  373 (468)
T ss_pred             HHHhhccchhhhhhHHHHHHHHHHH
Confidence            34556666       7888888777

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.

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=92.88  E-value=10  Score=37.30  Aligned_cols=149  Identities=12%  Similarity=-0.007  Sum_probs=79.4

Q ss_pred             CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCC---CHHHHHHHHHHHHhcCcHHHHHHHHHHhHHh-cCCCCChHh
Q 008280          262 KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKP---DSITFVALLLACNHAGLVDLGIQYFDSMVND-YGIAAKPDH  337 (571)
Q Consensus       262 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p---~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~-~~~~~~~~~  337 (571)
                      ....+|..++..+.+.|+++.|...+.++...+..+   +......-+...-..|+..+|...++...+. ..-..+...
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            345678888888888888888888888877643211   2223333445566678888888888777652 111111111


Q ss_pred             HHHHHHHHHHcCCHHHHHHH-HHhCCCCCCHhHHHHHHHHHHhc------CCHhHHHHHHHHHhccCCCCCchhHHHHHH
Q 008280          338 YTCMVDLLGRAGKLVEAVDL-IKKMPFKPQPAIFGTLLSACRVH------KRLDLAEFAAMNLFNLNPANAAGCYVQLAN  410 (571)
Q Consensus       338 ~~~li~~~~~~g~~~~A~~~-~~~~~~~p~~~~~~~l~~~~~~~------g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~  410 (571)
                      ...+...+..  ..+..... ........-...+..+..-+...      +..+++...|.++.++.|+... .|..++.
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 00000000012333333333333      7888999999999999998876 7777777


Q ss_pred             HHh
Q 008280          411 IYA  413 (571)
Q Consensus       411 ~~~  413 (571)
                      .+.
T Consensus       301 ~~~  303 (352)
T PF02259_consen  301 FND  303 (352)
T ss_pred             HHH
Confidence            664

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=92.81  E-value=0.36  Score=41.91  Aligned_cols=89  Identities=17%  Similarity=0.202  Sum_probs=67.7

Q ss_pred             HHHHcCCHHHHHHHHHhC----CCCC---CHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhcc
Q 008280          344 LLGRAGKLVEAVDLIKKM----PFKP---QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMK  416 (571)
Q Consensus       344 ~~~~~g~~~~A~~~~~~~----~~~p---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g  416 (571)
                      -+.+.|++++|..-|...    |-.+   ....|..-..++.+.+..+.|+.-..++++++|.... +...-+.+|.+..
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            355667777777766655    2111   1344555556778899999999999999999998876 7778888999999


Q ss_pred             ChhHHHHHHHHHHhCCC
Q 008280          417 KWDDVARIRLSMKENNV  433 (571)
Q Consensus       417 ~~~~a~~~~~~m~~~~~  433 (571)
                      ++++|++-++++.+...
T Consensus       183 k~eealeDyKki~E~dP  199 (271)
T KOG4234|consen  183 KYEEALEDYKKILESDP  199 (271)
T ss_pred             hHHHHHHHHHHHHHhCc
Confidence            99999999999887543

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.54  E-value=1.4  Score=41.65  Aligned_cols=115  Identities=13%  Similarity=0.064  Sum_probs=90.8

Q ss_pred             hcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CC-CCCHhHH----HHHHHHHHhcCCHh
Q 008280          311 HAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PF-KPQPAIF----GTLLSACRVHKRLD  384 (571)
Q Consensus       311 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~----~~l~~~~~~~g~~~  384 (571)
                      ..|...+|...++++.++  .+.|...+.-.=+++.-.|+.+.-...++++ |. .||...|    ..+.-++...|-++
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            457777888888999874  5777777777788899999999988888887 32 4554333    23334457899999


Q ss_pred             HHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHH
Q 008280          385 LAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSM  428 (571)
Q Consensus       385 ~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  428 (571)
                      +|++..++.++++|.+.- +...++.++.-.|+..++.+...+-
T Consensus       193 dAEk~A~ralqiN~~D~W-a~Ha~aHVlem~~r~Keg~eFM~~t  235 (491)
T KOG2610|consen  193 DAEKQADRALQINRFDCW-ASHAKAHVLEMNGRHKEGKEFMYKT  235 (491)
T ss_pred             hHHHHHHhhccCCCcchH-HHHHHHHHHHhcchhhhHHHHHHhc
Confidence            999999999999999977 7778888888999999998876543

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=92.18  E-value=6.9  Score=34.81  Aligned_cols=162  Identities=14%  Similarity=0.070  Sum_probs=81.9

Q ss_pred             hhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHH
Q 008280          264 VVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVD  343 (571)
Q Consensus       264 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~  343 (571)
                      +..||-+.--+...|+++.|.+.|+...+....-+ .+...-.-++--.|++..|.+-+...-+.-.-.|-...|-.+++
T Consensus        99 ~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~-Ya~lNRgi~~YY~gR~~LAq~d~~~fYQ~D~~DPfR~LWLYl~E  177 (297)
T COG4785          99 PEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYN-YAHLNRGIALYYGGRYKLAQDDLLAFYQDDPNDPFRSLWLYLNE  177 (297)
T ss_pred             HHHHHHHHHHHHhcccchHHHHHhhhHhccCCcch-HHHhccceeeeecCchHhhHHHHHHHHhcCCCChHHHHHHHHHH
Confidence            34566666666677777777777777665432222 22222222333456666665554443332112222223332222


Q ss_pred             HHHHcCCHHHHHHHH-HhCCCCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCC-------CchhHHHHHHHHhhc
Q 008280          344 LLGRAGKLVEAVDLI-KKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPAN-------AAGCYVQLANIYAAM  415 (571)
Q Consensus       344 ~~~~~g~~~~A~~~~-~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~-------~~~~~~~l~~~~~~~  415 (571)
                         +.=++.+|..-+ ++. ...|..-|+..+-.+.--.-.++  .+++++.+-..++       +. +|.-|+.-|-..
T Consensus       178 ---~k~dP~~A~tnL~qR~-~~~d~e~WG~~iV~~yLgkiS~e--~l~~~~~a~a~~n~~~Ae~LTE-tyFYL~K~~l~~  250 (297)
T COG4785         178 ---QKLDPKQAKTNLKQRA-EKSDKEQWGWNIVEFYLGKISEE--TLMERLKADATDNTSLAEHLTE-TYFYLGKYYLSL  250 (297)
T ss_pred             ---hhCCHHHHHHHHHHHH-HhccHhhhhHHHHHHHHhhccHH--HHHHHHHhhccchHHHHHHHHH-HHHHHHHHHhcc
Confidence               223455554433 332 12455556555544332211111  1222222211111       23 888999999999


Q ss_pred             cChhHHHHHHHHHHhCCC
Q 008280          416 KKWDDVARIRLSMKENNV  433 (571)
Q Consensus       416 g~~~~a~~~~~~m~~~~~  433 (571)
                      |+.++|..+|+..+..++
T Consensus       251 G~~~~A~~LfKLaiannV  268 (297)
T COG4785         251 GDLDEATALFKLAVANNV  268 (297)
T ss_pred             ccHHHHHHHHHHHHHHhH
Confidence            999999999998877655

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=92.06  E-value=0.27  Score=29.83  Aligned_cols=26  Identities=12%  Similarity=0.160  Sum_probs=20.2

Q ss_pred             hHHHHHHHHhhccChhHHHHHHHHHH
Q 008280          404 CYVQLANIYAAMKKWDDVARIRLSMK  429 (571)
Q Consensus       404 ~~~~l~~~~~~~g~~~~a~~~~~~m~  429 (571)
                      +|..|+.+|.+.|+|++|++++++..
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            46788888999999999988888743

>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=92.02  E-value=0.24  Score=29.39  Aligned_cols=31  Identities=16%  Similarity=0.019  Sum_probs=20.0

Q ss_pred             HHHHHHHHHHhcCCHhHHHHHHHHHhccCCC
Q 008280          369 IFGTLLSACRVHKRLDLAEFAAMNLFNLNPA  399 (571)
Q Consensus       369 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~  399 (571)
                      +|..+...|...|++++|...|++.++++|+
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            4555666666666666666666666666663

...

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=91.93  E-value=12  Score=41.79  Aligned_cols=158  Identities=13%  Similarity=0.110  Sum_probs=80.7

Q ss_pred             CCHHHHHHHHhhCCCCCcchHHHHHHHHHHcCChHHHHHHHhhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCH
Q 008280           84 KNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGKVDLAEKLFDEMPTKNL  163 (571)
Q Consensus        84 g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~  163 (571)
                      ++++.|+.-+.++.   ...|.-.++.--+.|.+.+|+.++.--.+.....|.+..+-+.....+++|.-.|+..-+   
T Consensus       894 ~ry~~AL~hLs~~~---~~~~~e~~n~I~kh~Ly~~aL~ly~~~~e~~k~i~~~ya~hL~~~~~~~~Aal~Ye~~Gk---  967 (1265)
T KOG1920|consen  894 KRYEDALSHLSECG---ETYFPECKNYIKKHGLYDEALALYKPDSEKQKVIYEAYADHLREELMSDEAALMYERCGK---  967 (1265)
T ss_pred             HHHHHHHHHHHHcC---ccccHHHHHHHHhcccchhhhheeccCHHHHHHHHHHHHHHHHHhccccHHHHHHHHhcc---
Confidence            45555555554443   233444445555566666666665444333344555555555556666666666555432   


Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhH--HHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHH
Q 008280          164 VTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASS--LSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLIS  241 (571)
Q Consensus       164 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t--~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~  241 (571)
                        ..--+.+|..+|+|.+|+.+-.+|..   ..|...  --.|..-+...++.-+|-++..+....        ..-.+.
T Consensus       968 --lekAl~a~~~~~dWr~~l~~a~ql~~---~~de~~~~a~~L~s~L~e~~kh~eAa~il~e~~sd--------~~~av~ 1034 (1265)
T KOG1920|consen  968 --LEKALKAYKECGDWREALSLAAQLSE---GKDELVILAEELVSRLVEQRKHYEAAKILLEYLSD--------PEEAVA 1034 (1265)
T ss_pred             --HHHHHHHHHHhccHHHHHHHHHhhcC---CHHHHHHHHHHHHHHHHHcccchhHHHHHHHHhcC--------HHHHHH
Confidence              12234556667777777777665532   112221  134445555555555555554443321        122444


Q ss_pred             HHHhcCCHHHHHHHHHhhC
Q 008280          242 MYCKCGDLEDACKLFLEIQ  260 (571)
Q Consensus       242 ~y~~~g~~~~A~~~~~~~~  260 (571)
                      .|++...+++|.++-..-.
T Consensus      1035 ll~ka~~~~eAlrva~~~~ 1053 (1265)
T KOG1920|consen 1035 LLCKAKEWEEALRVASKAK 1053 (1265)
T ss_pred             HHhhHhHHHHHHHHHHhcc
Confidence            5555666666666555443

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=91.70  E-value=4.9  Score=38.56  Aligned_cols=161  Identities=12%  Similarity=0.085  Sum_probs=91.0

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHHH-CCCCCC---HhHHHHHHHHHhccCchHHHHHHHHHHHhCCCC-----CCcch
Q 008280          165 TWNAMIAGYVENSWAEDGLKLLRMMIG-LGIRPN---ASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLC-----KDTTA  235 (571)
Q Consensus       165 ~~~~li~~~~~~g~~~~A~~~~~~m~~-~g~~pd---~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~-----~~~~~  235 (571)
                      +|-.+..++-+..++.+++.+-+.-.. .|..|.   .....++-.+....+.++++.+.|+.+.+....     ....+
T Consensus        85 a~lnlar~~e~l~~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqv  164 (518)
T KOG1941|consen   85 AYLNLARSNEKLCEFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQV  164 (518)
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeeh
Confidence            555566666666666666665544333 222221   122344556667777788888877776653211     23467


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhhC-------CCChh------hHHHHHHHHHHcCChHHHHHHHHHHH----HcCCCCC
Q 008280          236 LTPLISMYCKCGDLEDACKLFLEIQ-------RKDVV------TWNAMISGYAQHGKGEKALRLFDKMK----DEGMKPD  298 (571)
Q Consensus       236 ~~~li~~y~~~g~~~~A~~~~~~~~-------~~~~~------~~~~li~~~~~~g~~~~A~~~~~~m~----~~g~~p~  298 (571)
                      +.+|...|.+..|+++|.-+..+..       -.|..      +...|..++-..|...+|.+.-++..    ..|-+|-
T Consensus       165 cv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~  244 (518)
T KOG1941|consen  165 CVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRAL  244 (518)
T ss_pred             hhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHH
Confidence            8888888888888888765544332       12322      22234455666777767766666542    2332221


Q ss_pred             H-HHHHHHHHHHHhcCcHHHHHHHHHHh
Q 008280          299 S-ITFVALLLACNHAGLVDLGIQYFDSM  325 (571)
Q Consensus       299 ~-~t~~~ll~a~~~~g~~~~a~~~~~~~  325 (571)
                      . .....+...|...|+.+.|+.-|+..
T Consensus       245 ~arc~~~~aDIyR~~gd~e~af~rYe~A  272 (518)
T KOG1941|consen  245 QARCLLCFADIYRSRGDLERAFRRYEQA  272 (518)
T ss_pred             HHHHHHHHHHHHHhcccHhHHHHHHHHH
Confidence            1 13344556677777777776666544

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=91.48  E-value=12  Score=36.77  Aligned_cols=66  Identities=17%  Similarity=0.173  Sum_probs=54.7

Q ss_pred             CCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCC----CCCchhHHHHHHHHhhccChhHHHHHHHHHHhC
Q 008280          365 PQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNP----ANAAGCYVQLANIYAAMKKWDDVARIRLSMKEN  431 (571)
Q Consensus       365 p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p----~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  431 (571)
                      ....+|..++..++++|+++.|...+.++...++    ..+. ....-+......|+..+|...++...+.
T Consensus       144 ~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~-v~~e~akllw~~g~~~~Ai~~L~~~~~~  213 (352)
T PF02259_consen  144 ELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPR-VFLEYAKLLWAQGEQEEAIQKLRELLKC  213 (352)
T ss_pred             HHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcc-hHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3457899999999999999999999999987552    1344 7777889999999999999999888763

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>KOG3364 consensus Membrane protein involved in organellar division [Cell wall/membrane/envelope biogenesis]

Probab=91.44  E-value=2.7  Score=34.19  Aligned_cols=91  Identities=15%  Similarity=0.132  Sum_probs=60.5

Q ss_pred             CCHhHHHHHHHHHHhcC---CHhHHHHHHHHHhc-cCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhCCCccCCcee
Q 008280          365 PQPAIFGTLLSACRVHK---RLDLAEFAAMNLFN-LNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVVKMPGYS  440 (571)
Q Consensus       365 p~~~~~~~l~~~~~~~g---~~~~a~~~~~~~~~-~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~s  440 (571)
                      ++..+--.+..++.+..   +..+++.+++.+++ -.|........-|+-++.+.|+++.+.++.+...+..        
T Consensus        30 ~s~~s~f~lAwaLV~S~~~~dv~~GI~iLe~l~~~~~~~~rRe~lyYLAvg~yRlkeY~~s~~yvd~ll~~e--------  101 (149)
T KOG3364|consen   30 VSKQSQFNLAWALVRSRDTEDVQEGIVILEDLLKSAHPERRRECLYYLAVGHYRLKEYSKSLRYVDALLETE--------  101 (149)
T ss_pred             chHHHHHHHHHHHHcccchHHHHHhHHHHHHHhhhcCcccchhhhhhhHHHHHHHhhHHHHHHHHHHHHhhC--------
Confidence            44444455555555443   46677888888886 5565544355677888889999999999888776522        


Q ss_pred             EEEECCEEEEEecCCCCCcccHHHHHHHHHHHHHHHHcCcc
Q 008280          441 WIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGYV  481 (571)
Q Consensus       441 ~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~~~~m~~~g~~  481 (571)
                                        |++.++...=+.+.++|.+.|++
T Consensus       102 ------------------~~n~Qa~~Lk~~ied~itkegli  124 (149)
T KOG3364|consen  102 ------------------PNNRQALELKETIEDKITKEGLI  124 (149)
T ss_pred             ------------------CCcHHHHHHHHHHHHHHhhccee
Confidence                              34455555555677888888764

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.34  E-value=11  Score=34.09  Aligned_cols=61  Identities=8%  Similarity=-0.030  Sum_probs=32.1

Q ss_pred             HHHHHHHHc-CCHHHHHHHHHhC-----CCCCCHhHHHHHH---HHHHhcCCHhHHHHHHHHHhccCCCC
Q 008280          340 CMVDLLGRA-GKLVEAVDLIKKM-----PFKPQPAIFGTLL---SACRVHKRLDLAEFAAMNLFNLNPAN  400 (571)
Q Consensus       340 ~li~~~~~~-g~~~~A~~~~~~~-----~~~p~~~~~~~l~---~~~~~~g~~~~a~~~~~~~~~~~p~~  400 (571)
                      .+.+.|-.- .++++|+..|+..     +.+.+...-..++   .--...+++.+|+.+|+++....-++
T Consensus       118 ~iaEiyEsdl~d~ekaI~~YE~Aae~yk~ees~ssANKC~lKvA~yaa~leqY~~Ai~iyeqva~~s~~n  187 (288)
T KOG1586|consen  118 EIAEIYESDLQDFEKAIAHYEQAAEYYKGEESVSSANKCLLKVAQYAAQLEQYSKAIDIYEQVARSSLDN  187 (288)
T ss_pred             hHHHHHhhhHHHHHHHHHHHHHHHHHHcchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            344444433 4556666666555     1112222222222   22356788889999998886654444

>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=91.24  E-value=8.4  Score=32.68  Aligned_cols=91  Identities=14%  Similarity=0.034  Sum_probs=51.1

Q ss_pred             HHHHhcCcHHHHHHHHHHhHHhcCCCCC-hHhHHHHHHHHHHcCCHHHHHHHHHhCCC-CCCHhHHHHHHHHHHhcCCHh
Q 008280          307 LACNHAGLVDLGIQYFDSMVNDYGIAAK-PDHYTCMVDLLGRAGKLVEAVDLIKKMPF-KPQPAIFGTLLSACRVHKRLD  384 (571)
Q Consensus       307 ~a~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~  384 (571)
                      ..-...++.+.+..++..+.-   +.|. +..-..-...+.+.|++.+|..+|+++.. .|....-.+|+..|.....-.
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            344556677777777776653   4454 23333344556777888888888887732 233344455665555444333


Q ss_pred             HHHHHHHHHhccCCCC
Q 008280          385 LAEFAAMNLFNLNPAN  400 (571)
Q Consensus       385 ~a~~~~~~~~~~~p~~  400 (571)
                      .=.....++++.+|+.
T Consensus        95 ~Wr~~A~evle~~~d~  110 (160)
T PF09613_consen   95 SWRRYADEVLESGADP  110 (160)
T ss_pred             HHHHHHHHHHhcCCCh
Confidence            3344455555555543

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=91.23  E-value=0.3  Score=29.62  Aligned_cols=27  Identities=11%  Similarity=-0.066  Sum_probs=19.9

Q ss_pred             HHHHHHHHHHhcCCHhHHHHHHHHHhc
Q 008280          369 IFGTLLSACRVHKRLDLAEFAAMNLFN  395 (571)
Q Consensus       369 ~~~~l~~~~~~~g~~~~a~~~~~~~~~  395 (571)
                      +|..|...|...|++++|+.++++++.
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL~   27 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQALA   27 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            466777888888888888888888554

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.08  E-value=25  Score=37.89  Aligned_cols=53  Identities=6%  Similarity=0.095  Sum_probs=31.8

Q ss_pred             HHHHHHHcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHh
Q 008280          341 MVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLF  394 (571)
Q Consensus       341 li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  394 (571)
                      ++..+....+.+.+..+.+..+- -++..|..++.-+.+.+..+.-.+...+++
T Consensus       711 l~~~~~q~~d~E~~it~~~~~g~-~~p~l~~~~L~yF~~~~~i~~~~~~v~~vl  763 (933)
T KOG2114|consen  711 LMLYFQQISDPETVITLCERLGK-EDPSLWLHALKYFVSEESIEDCYEIVYKVL  763 (933)
T ss_pred             HHHHHHHhhChHHHHHHHHHhCc-cChHHHHHHHHHHhhhcchhhHHHHHHHHH
Confidence            34445555666666666666652 366677777777777766555554444443

>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=91.05  E-value=14  Score=35.03  Aligned_cols=17  Identities=18%  Similarity=-0.318  Sum_probs=11.7

Q ss_pred             HHhcCCHhHHHHHHHHH
Q 008280          377 CRVHKRLDLAEFAAMNL  393 (571)
Q Consensus       377 ~~~~g~~~~a~~~~~~~  393 (571)
                      +.+.++++.|...|+-.
T Consensus       256 ~~~~k~y~~A~~w~~~a  272 (278)
T PF08631_consen  256 HYKAKNYDEAIEWYELA  272 (278)
T ss_pred             HHhhcCHHHHHHHHHHH
Confidence            45677777777777644

It is also involved in sporulation [].

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=91.05  E-value=1.5  Score=41.00  Aligned_cols=75  Identities=15%  Similarity=0.211  Sum_probs=60.4

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhhCCCC---CHHHHHHHHHHHHHcCChhHHHHHHHHHHH-----CCCCCCHhHHHHH
Q 008280          133 VAWTAMISGYMKFGKVDLAEKLFDEMPTK---NLVTWNAMIAGYVENSWAEDGLKLLRMMIG-----LGIRPNASSLSSV  204 (571)
Q Consensus       133 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~g~~pd~~t~~~l  204 (571)
                      .++..++..+..+|+++.+...++++...   |...|..++.+|.+.|+...|+..|+++.+     .|+.|...+....
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            45677888999999999999999988753   557899999999999999999999998865     4777776655444


Q ss_pred             HHH
Q 008280          205 LLG  207 (571)
Q Consensus       205 l~~  207 (571)
                      ..+
T Consensus       234 ~~~  236 (280)
T COG3629         234 EEI  236 (280)
T ss_pred             HHH
Confidence            433

>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=91.02  E-value=1.3  Score=37.40  Aligned_cols=51  Identities=22%  Similarity=0.117  Sum_probs=26.2

Q ss_pred             hcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHh
Q 008280          379 VHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  430 (571)
Q Consensus       379 ~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  430 (571)
                      ..++.+.++.++..+.-+.|+.+. .-..-+..+...|+|.+|.++++.+.+
T Consensus        22 ~~~~~~D~e~lL~ALrvLRP~~~e-~~~~~~~l~i~r~~w~dA~rlLr~l~~   72 (160)
T PF09613_consen   22 RLGDPDDAEALLDALRVLRPEFPE-LDLFDGWLHIVRGDWDDALRLLRELEE   72 (160)
T ss_pred             ccCChHHHHHHHHHHHHhCCCchH-HHHHHHHHHHHhCCHHHHHHHHHHHhc
Confidence            344555555555555555555544 444445555555555555555555443

>PRK13800 putative oxidoreductase/HEAT repeat-containing protein; Provisional

Probab=90.59  E-value=35  Score=38.68  Aligned_cols=257  Identities=11%  Similarity=0.007  Sum_probs=122.4

Q ss_pred             HhhCCCCCcchHHHHHHHHHHcCChHHHHHHHhhCCCCChhHHHHHHHHHHhcCCH-HHHHHHHhhCCCCCHHHHHHHHH
Q 008280           93 FLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGKV-DLAEKLFDEMPTKNLVTWNAMIA  171 (571)
Q Consensus        93 ~~~m~~~d~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~-~~A~~~~~~~~~~~~~~~~~li~  171 (571)
                      ...+..+|+.+-...+..+.+.+..+....+...+.+++..+....+.++.+.+.. .....+...+..+|...-...+.
T Consensus       627 ~~~L~D~d~~VR~~Av~~L~~~~~~~~~~~L~~aL~D~d~~VR~~Aa~aL~~l~~~~~~~~~L~~~L~~~d~~VR~~A~~  706 (897)
T PRK13800        627 APYLADPDPGVRRTAVAVLTETTPPGFGPALVAALGDGAAAVRRAAAEGLRELVEVLPPAPALRDHLGSPDPVVRAAALD  706 (897)
T ss_pred             HHHhcCCCHHHHHHHHHHHhhhcchhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhccCchHHHHHHhcCCCHHHHHHHHH
Confidence            33334555555555556665555433333333444455555555554444443221 11111222222344444334444


Q ss_pred             HHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHH
Q 008280          172 GYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLED  251 (571)
Q Consensus       172 ~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~  251 (571)
                      ++...+..+ .. .+-++.+   .+|...-...+.++...+..+.   +. ...   -.++..+-...+.++...+..+.
T Consensus       707 aL~~~~~~~-~~-~l~~~L~---D~d~~VR~~Av~aL~~~~~~~~---l~-~~l---~D~~~~VR~~aa~aL~~~~~~~~  774 (897)
T PRK13800        707 VLRALRAGD-AA-LFAAALG---DPDHRVRIEAVRALVSVDDVES---VA-GAA---TDENREVRIAVAKGLATLGAGGA  774 (897)
T ss_pred             HHHhhccCC-HH-HHHHHhc---CCCHHHHHHHHHHHhcccCcHH---HH-HHh---cCCCHHHHHHHHHHHHHhccccc
Confidence            444332211 11 2222222   3444444455555555444322   11 111   14455566666666666654432


Q ss_pred             -HHHHH-HhhCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhc
Q 008280          252 -ACKLF-LEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDY  329 (571)
Q Consensus       252 -A~~~~-~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~  329 (571)
                       +...+ .-+.++|...-.+.+.++...|....+...+..+..   .++...-...+.++...+. +++...+..+.+  
T Consensus       775 ~~~~~L~~ll~D~d~~VR~aA~~aLg~~g~~~~~~~~l~~aL~---d~d~~VR~~Aa~aL~~l~~-~~a~~~L~~~L~--  848 (897)
T PRK13800        775 PAGDAVRALTGDPDPLVRAAALAALAELGCPPDDVAAATAALR---ASAWQVRQGAARALAGAAA-DVAVPALVEALT--  848 (897)
T ss_pred             hhHHHHHHHhcCCCHHHHHHHHHHHHhcCCcchhHHHHHHHhc---CCChHHHHHHHHHHHhccc-cchHHHHHHHhc--
Confidence             22333 333456766677777777777766555444444443   3455555556666666665 345555555543  


Q ss_pred             CCCCChHhHHHHHHHHHHcCCHHHHHHHHHhCCCCCCHhH
Q 008280          330 GIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAI  369 (571)
Q Consensus       330 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~  369 (571)
                        .|+..+-...+.++++.+....+...+...-..+|..+
T Consensus       849 --D~~~~VR~~A~~aL~~~~~~~~a~~~L~~al~D~d~~V  886 (897)
T PRK13800        849 --DPHLDVRKAAVLALTRWPGDPAARDALTTALTDSDADV  886 (897)
T ss_pred             --CCCHHHHHHHHHHHhccCCCHHHHHHHHHHHhCCCHHH
Confidence              46666666777777775333445555544422344443

>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=90.57  E-value=7.3  Score=34.08  Aligned_cols=60  Identities=15%  Similarity=0.239  Sum_probs=29.6

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHH--HHHHHHHHHHhcCcHHHHHHHHHHh
Q 008280          266 TWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSI--TFVALLLACNHAGLVDLGIQYFDSM  325 (571)
Q Consensus       266 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~--t~~~ll~a~~~~g~~~~a~~~~~~~  325 (571)
                      .+..+...|.+.|+.++|++.|.++.+....|...  .+..++..+...+++..+..+..+.
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka   99 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKA   99 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            34445555555555555555555555443333332  2344455555555555555554444

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.

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=90.54  E-value=1.7  Score=36.17  Aligned_cols=54  Identities=17%  Similarity=-0.009  Sum_probs=38.7

Q ss_pred             hcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhCCC
Q 008280          379 VHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNV  433 (571)
Q Consensus       379 ~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  433 (571)
                      ..++.++++.++..+.-+.|+.+. .-..-+..+...|+|++|.++++.+.+.+.
T Consensus        22 ~~~d~~D~e~lLdALrvLrP~~~e-~d~~dg~l~i~rg~w~eA~rvlr~l~~~~~   75 (153)
T TIGR02561        22 RSADPYDAQAMLDALRVLRPNLKE-LDMFDGWLLIARGNYDEAARILRELLSSAG   75 (153)
T ss_pred             hcCCHHHHHHHHHHHHHhCCCccc-cchhHHHHHHHcCCHHHHHHHHHhhhccCC
Confidence            467777777777777777777766 666677777777777777777777766543

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=90.52  E-value=14  Score=34.13  Aligned_cols=229  Identities=15%  Similarity=0.234  Sum_probs=133.7

Q ss_pred             CCHHHHHHHHhhCCC----C---CHHHHHHHHHHHHHcCChhHHHHHHHHHHH---CCCC--CCHhHHHHHHHHHhccCc
Q 008280          146 GKVDLAEKLFDEMPT----K---NLVTWNAMIAGYVENSWAEDGLKLLRMMIG---LGIR--PNASSLSSVLLGCSHLSS  213 (571)
Q Consensus       146 g~~~~A~~~~~~~~~----~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~---~g~~--pd~~t~~~ll~~~~~~~~  213 (571)
                      ...++|+.-|+++.+    +   .--+.-.+|..+.+.|++++.++.|.+|..   ..+.  -+..+.++++.-.+...+
T Consensus        41 ~~p~~Al~sF~kVlelEgEKgeWGFKALKQmiKI~f~l~~~~eMm~~Y~qlLTYIkSAVTrNySEKsIN~IlDyiStS~~  120 (440)
T KOG1464|consen   41 DEPKEALSSFQKVLELEGEKGEWGFKALKQMIKINFRLGNYKEMMERYKQLLTYIKSAVTRNYSEKSINSILDYISTSKN  120 (440)
T ss_pred             cCHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHhhhhh
Confidence            456667766666542    1   223455678888888888888888887753   1122  234566777776666666


Q ss_pred             hHHHHHHHHHHHhC-----CCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCCC--------C-------hhhHHHHHHH
Q 008280          214 LQLGKQVHQLVFKS-----PLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRK--------D-------VVTWNAMISG  273 (571)
Q Consensus       214 ~~~a~~~~~~~~~~-----g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~--------~-------~~~~~~li~~  273 (571)
                      .+.-..+++.-++.     +-..--.+-+-|...|...|.+..-.+++.++.+.        |       ...|..-|..
T Consensus       121 m~LLQ~FYeTTL~ALkdAKNeRLWFKTNtKLgkl~fd~~e~~kl~KIlkqLh~SCq~edGedD~kKGtQLLEiYAlEIQm  200 (440)
T KOG1464|consen  121 MDLLQEFYETTLDALKDAKNERLWFKTNTKLGKLYFDRGEYTKLQKILKQLHQSCQTEDGEDDQKKGTQLLEIYALEIQM  200 (440)
T ss_pred             hHHHHHHHHHHHHHHHhhhcceeeeeccchHhhhheeHHHHHHHHHHHHHHHHHhccccCchhhhccchhhhhHhhHhhh
Confidence            66666666543321     11111223355778888888888888888877531        1       3467777888


Q ss_pred             HHHcCChHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHH-----hcCcHHHHHHHHHHhHHhcCCCCChH-----hHHHHH
Q 008280          274 YAQHGKGEKALRLFDKMKDEG-MKPDSITFVALLLACN-----HAGLVDLGIQYFDSMVNDYGIAAKPD-----HYTCMV  342 (571)
Q Consensus       274 ~~~~g~~~~A~~~~~~m~~~g-~~p~~~t~~~ll~a~~-----~~g~~~~a~~~~~~~~~~~~~~~~~~-----~~~~li  342 (571)
                      |....+-.+...++++...-. ..|.+.. ..+++-|.     +.|.+++|-.-|-+..+.|.-.-++.     -|..|.
T Consensus       201 YT~qKnNKkLK~lYeqalhiKSAIPHPlI-mGvIRECGGKMHlreg~fe~AhTDFFEAFKNYDEsGspRRttCLKYLVLA  279 (440)
T KOG1464|consen  201 YTEQKNNKKLKALYEQALHIKSAIPHPLI-MGVIRECGGKMHLREGEFEKAHTDFFEAFKNYDESGSPRRTTCLKYLVLA  279 (440)
T ss_pred             hhhhcccHHHHHHHHHHHHhhccCCchHH-HhHHHHcCCccccccchHHHHHhHHHHHHhcccccCCcchhHHHHHHHHH
Confidence            888888777777888764322 2344433 34556554     56778877655544444433222221     255566


Q ss_pred             HHHHHcCCHHHHHHHHHhC---CCC--CCHhHHHHHHHHHHhc
Q 008280          343 DLLGRAGKLVEAVDLIKKM---PFK--PQPAIFGTLLSACRVH  380 (571)
Q Consensus       343 ~~~~~~g~~~~A~~~~~~~---~~~--p~~~~~~~l~~~~~~~  380 (571)
                      .++.+.|-     .=|+.-   |.+  |.......|+.+|..+
T Consensus       280 NMLmkS~i-----NPFDsQEAKPyKNdPEIlAMTnlv~aYQ~N  317 (440)
T KOG1464|consen  280 NMLMKSGI-----NPFDSQEAKPYKNDPEILAMTNLVAAYQNN  317 (440)
T ss_pred             HHHHHcCC-----CCCcccccCCCCCCHHHHHHHHHHHHHhcc
Confidence            77766651     111111   333  4445667788887544

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=90.50  E-value=5.6  Score=34.03  Aligned_cols=120  Identities=15%  Similarity=0.122  Sum_probs=53.2

Q ss_pred             HHcCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChH-hHHHH--HHHHHHcCC
Q 008280          275 AQHGKGEKALRLFDKMKDEGMKPDSI-TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPD-HYTCM--VDLLGRAGK  350 (571)
Q Consensus       275 ~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~-~~~~l--i~~~~~~g~  350 (571)
                      ++.+..++|+.-|..+.+.|...-++ ............|+...|...|.++-.+ .-.|.+. -...|  .-++...|.
T Consensus        69 A~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~d-t~~P~~~rd~ARlraa~lLvD~gs  147 (221)
T COG4649          69 AQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAAD-TSIPQIGRDLARLRAAYLLVDNGS  147 (221)
T ss_pred             HHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhcc-CCCcchhhHHHHHHHHHHHhcccc
Confidence            44455555555555555544321111 1111222334555555556666555443 1112211 11111  112344566


Q ss_pred             HHHHHHHHHhCCCCCC---HhHHHHHHHHHHhcCCHhHHHHHHHHHhc
Q 008280          351 LVEAVDLIKKMPFKPQ---PAIFGTLLSACRVHKRLDLAEFAAMNLFN  395 (571)
Q Consensus       351 ~~~A~~~~~~~~~~p~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  395 (571)
                      +++...-.+.+....+   ...-.+|.-+-.+.|++..|...|..+..
T Consensus       148 y~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~  195 (221)
T COG4649         148 YDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAN  195 (221)
T ss_pred             HHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHc
Confidence            6665555555522212   12233444445566666666666666654

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=90.39  E-value=14  Score=33.90  Aligned_cols=71  Identities=20%  Similarity=0.241  Sum_probs=51.7

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHHcCC--CCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChH
Q 008280          266 TWNAMISGYAQHGKGEKALRLFDKMKDEGM--KPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPD  336 (571)
Q Consensus       266 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~--~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~  336 (571)
                      .|-.-+..-.+.|++++|.+.|+.+....+  +-...+...++.++-+.+++++|....++..+.++-.|+..
T Consensus        36 ~LY~~g~~~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~d  108 (254)
T COG4105          36 ELYNEGLTELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNAD  108 (254)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChh
Confidence            344445556778999999999999876421  11345677777888889999999999998888776666654

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=89.89  E-value=8.2  Score=36.94  Aligned_cols=49  Identities=12%  Similarity=0.121  Sum_probs=31.6

Q ss_pred             hHHHHHHHHHHHCCCCCCHhHHHHHHHHHhc--c----CchHHHHHHHHHHHhCC
Q 008280          180 EDGLKLLRMMIGLGIRPNASSLSSVLLGCSH--L----SSLQLGKQVHQLVFKSP  228 (571)
Q Consensus       180 ~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~--~----~~~~~a~~~~~~~~~~g  228 (571)
                      ++.+.+++.|.+.|+.-+..+|.+.......  .    .....+..+|+.|.+..
T Consensus        79 ~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H  133 (297)
T PF13170_consen   79 KEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKH  133 (297)
T ss_pred             HHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhC
Confidence            4455678888888888888777664443332  1    13456677777777653

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=89.88  E-value=1.2  Score=28.35  Aligned_cols=28  Identities=25%  Similarity=0.485  Sum_probs=19.9

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHHHC
Q 008280          165 TWNAMIAGYVENSWAEDGLKLLRMMIGL  192 (571)
Q Consensus       165 ~~~~li~~~~~~g~~~~A~~~~~~m~~~  192 (571)
                      +|..+...|.+.|++++|+++|++..+.
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~   30 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRALAL   30 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            4666777777777777777777777764

>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=89.59  E-value=5.2  Score=34.98  Aligned_cols=93  Identities=19%  Similarity=0.125  Sum_probs=60.7

Q ss_pred             chHHHHHHHHHhcCCHHHHHHHHHhhCCCC------hhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHH---H
Q 008280          234 TALTPLISMYCKCGDLEDACKLFLEIQRKD------VVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFV---A  304 (571)
Q Consensus       234 ~~~~~li~~y~~~g~~~~A~~~~~~~~~~~------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~---~  304 (571)
                      ..+..+.+.|.+.|+.+.|.+.|.++.+..      +..+-.+|......+++..+.....+....-..+......   .
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            346678899999999999999999987653      3456778888888899999888887765432121111111   1


Q ss_pred             HHH--HHHhcCcHHHHHHHHHHhH
Q 008280          305 LLL--ACNHAGLVDLGIQYFDSMV  326 (571)
Q Consensus       305 ll~--a~~~~g~~~~a~~~~~~~~  326 (571)
                      +..  ++...+++..|-+.|-...
T Consensus       117 ~~~gL~~l~~r~f~~AA~~fl~~~  140 (177)
T PF10602_consen  117 VYEGLANLAQRDFKEAAELFLDSL  140 (177)
T ss_pred             HHHHHHHHHhchHHHHHHHHHccC
Confidence            111  2334566666666665544

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.

>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=89.33  E-value=11  Score=30.82  Aligned_cols=64  Identities=11%  Similarity=0.206  Sum_probs=42.1

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCC
Q 008280          266 TWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGI  331 (571)
Q Consensus       266 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~  331 (571)
                      .....+......|+-++-.+++.++.+. -.|++.....+..||.+.|+..++.+++.+..++ |+
T Consensus        88 ~vD~ALd~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACek-G~  151 (161)
T PF09205_consen   88 YVDLALDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREANELLKEACEK-GL  151 (161)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHT-T-
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHh-ch
Confidence            3445566777888888888888877653 3667777778888888888888888888877764 54

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=89.22  E-value=4.6  Score=41.43  Aligned_cols=149  Identities=17%  Similarity=0.162  Sum_probs=93.6

Q ss_pred             CCCHHHHHHHHhhCCCCCcchHHHHHHHHHHcCChHHHHHHHhhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCCCC
Q 008280           83 KKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGKVDLAEKLFDEMPTKN  162 (571)
Q Consensus        83 ~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~  162 (571)
                      .|+++.|..++-.++++   .-+.++.-+...|..++|+++-     +|+.-   -.....+.|+++.|.++..+.  .+
T Consensus       599 rrd~~~a~~vLp~I~k~---~rt~va~Fle~~g~~e~AL~~s-----~D~d~---rFelal~lgrl~iA~~la~e~--~s  665 (794)
T KOG0276|consen  599 RRDLEVADGVLPTIPKE---IRTKVAHFLESQGMKEQALELS-----TDPDQ---RFELALKLGRLDIAFDLAVEA--NS  665 (794)
T ss_pred             hccccccccccccCchh---hhhhHHhHhhhccchHhhhhcC-----CChhh---hhhhhhhcCcHHHHHHHHHhh--cc
Confidence            46777777666665533   2344555666677777776542     12211   123344678888888776553  45


Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHH
Q 008280          163 LVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISM  242 (571)
Q Consensus       163 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~  242 (571)
                      ..-|..|..+..+.|++..|.+.|.+...         |..|+-.+...|+.+....+-....+.|.      .|.-..+
T Consensus       666 ~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~~la~~~~~~g~------~N~AF~~  730 (794)
T KOG0276|consen  666 EVKWRQLGDAALSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLAVLASLAKKQGK------NNLAFLA  730 (794)
T ss_pred             hHHHHHHHHHHhhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHHHHHHHHHhhcc------cchHHHH
Confidence            67788888888888888888888876553         44566666677777666666666665552      2223345


Q ss_pred             HHhcCCHHHHHHHHHhh
Q 008280          243 YCKCGDLEDACKLFLEI  259 (571)
Q Consensus       243 y~~~g~~~~A~~~~~~~  259 (571)
                      |...|+++++.+++..-
T Consensus       731 ~~l~g~~~~C~~lLi~t  747 (794)
T KOG0276|consen  731 YFLSGDYEECLELLIST  747 (794)
T ss_pred             HHHcCCHHHHHHHHHhc
Confidence            56677777777776543

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=89.17  E-value=6.3  Score=37.72  Aligned_cols=127  Identities=13%  Similarity=0.203  Sum_probs=82.0

Q ss_pred             hHHHHHHHHHHHhCCCCCCcchHHHHHHHHHh--cC----CHHHHHHHHHhhCCC-------ChhhHHHHHHHHHHcCC-
Q 008280          214 LQLGKQVHQLVFKSPLCKDTTALTPLISMYCK--CG----DLEDACKLFLEIQRK-------DVVTWNAMISGYAQHGK-  279 (571)
Q Consensus       214 ~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~--~g----~~~~A~~~~~~~~~~-------~~~~~~~li~~~~~~g~-  279 (571)
                      ++....+++.+.+.|+..+..++-+.......  ..    ....|..+|+.|++.       +-..+..|+..  ..++ 
T Consensus        78 ~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~  155 (297)
T PF13170_consen   78 FKEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDV  155 (297)
T ss_pred             HHHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccH
Confidence            45667889999999999888777664444433  22    356788999999852       34455555544  2222 


Q ss_pred             ---hHHHHHHHHHHHHcCCCCCHH--HHHHHHHHHHhcCc--HHHHHHHHHHhHHhcCCCCChHhHHHHHH
Q 008280          280 ---GEKALRLFDKMKDEGMKPDSI--TFVALLLACNHAGL--VDLGIQYFDSMVNDYGIAAKPDHYTCMVD  343 (571)
Q Consensus       280 ---~~~A~~~~~~m~~~g~~p~~~--t~~~ll~a~~~~g~--~~~a~~~~~~~~~~~~~~~~~~~~~~li~  343 (571)
                         .+.+...|+.+.+.|...+..  ....++..+.....  +.++.++++.+.+. ++++...+|..+.-
T Consensus       156 e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~-~~kik~~~yp~lGl  225 (297)
T PF13170_consen  156 EELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKN-GVKIKYMHYPTLGL  225 (297)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHc-CCccccccccHHHH
Confidence               356777888888878665443  33334433333222  44778888888776 88888888776543

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=88.96  E-value=5.8  Score=33.92  Aligned_cols=48  Identities=15%  Similarity=0.135  Sum_probs=22.5

Q ss_pred             hcCCHHHHHHHHHhhCCC-C---hhhHHHHHHHHHHcCChHHHHHHHHHHHH
Q 008280          245 KCGDLEDACKLFLEIQRK-D---VVTWNAMISGYAQHGKGEKALRLFDKMKD  292 (571)
Q Consensus       245 ~~g~~~~A~~~~~~~~~~-~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~  292 (571)
                      ..|.+++...-.+-+..+ +   ...-.+|.-+-.+.|++.+|...|..+..
T Consensus       144 D~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~  195 (221)
T COG4649         144 DNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAN  195 (221)
T ss_pred             ccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHc
Confidence            345555555444444321 1   12233344444455666666666655544

>PRK13800 putative oxidoreductase/HEAT repeat-containing protein; Provisional

Probab=88.73  E-value=48  Score=37.61  Aligned_cols=267  Identities=11%  Similarity=-0.010  Sum_probs=151.1

Q ss_pred             HHHhhCCCCChhhHHHHHHHHHcCCCHHHHHHHHhhCCCCCcchHHHHHHHHHHcCCh-HHHHHHHhhCCCCChhHHHHH
Q 008280           60 DFFQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQL-DKAVELFKVAPVKSVVAWTAM  138 (571)
Q Consensus        60 ~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~-~~A~~~~~~~~~~~~~~~~~l  138 (571)
                      .+...+..+|+.+-...+..+.+.+..+....+...+..+|...-...+.++.+.+.. .....+...+..+|+.+..+.
T Consensus       625 ~L~~~L~D~d~~VR~~Av~~L~~~~~~~~~~~L~~aL~D~d~~VR~~Aa~aL~~l~~~~~~~~~L~~~L~~~d~~VR~~A  704 (897)
T PRK13800        625 ELAPYLADPDPGVRRTAVAVLTETTPPGFGPALVAALGDGAAAVRRAAAEGLRELVEVLPPAPALRDHLGSPDPVVRAAA  704 (897)
T ss_pred             HHHHHhcCCCHHHHHHHHHHHhhhcchhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhccCchHHHHHHhcCCCHHHHHHH
Confidence            4445556778888777788887777654333344444455555544555555544321 112222233445666776677


Q ss_pred             HHHHHhcCCHHHHHHHHhhCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHH-H
Q 008280          139 ISGYMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQL-G  217 (571)
Q Consensus       139 i~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~-a  217 (571)
                      +..+...+.- ....+...+..+|...=...+.++.+.+..+..    .....   .++...-.....++...+..+. +
T Consensus       705 ~~aL~~~~~~-~~~~l~~~L~D~d~~VR~~Av~aL~~~~~~~~l----~~~l~---D~~~~VR~~aa~aL~~~~~~~~~~  776 (897)
T PRK13800        705 LDVLRALRAG-DAALFAAALGDPDHRVRIEAVRALVSVDDVESV----AGAAT---DENREVRIAVAKGLATLGAGGAPA  776 (897)
T ss_pred             HHHHHhhccC-CHHHHHHHhcCCCHHHHHHHHHHHhcccCcHHH----HHHhc---CCCHHHHHHHHHHHHHhccccchh
Confidence            7766654321 123445555667776656666666665544322    22222   4555555666666666665432 2


Q ss_pred             HHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHH-HHHHhhCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCC
Q 008280          218 KQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDAC-KLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMK  296 (571)
Q Consensus       218 ~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~-~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  296 (571)
                      ...+..+.+   .++..+-.+.+..+.+.|..+.+. .+...+.++|...-...+.++...+. .++...+..+..   .
T Consensus       777 ~~~L~~ll~---D~d~~VR~aA~~aLg~~g~~~~~~~~l~~aL~d~d~~VR~~Aa~aL~~l~~-~~a~~~L~~~L~---D  849 (897)
T PRK13800        777 GDAVRALTG---DPDPLVRAAALAALAELGCPPDDVAAATAALRASAWQVRQGAARALAGAAA-DVAVPALVEALT---D  849 (897)
T ss_pred             HHHHHHHhc---CCCHHHHHHHHHHHHhcCCcchhHHHHHHHhcCCChHHHHHHHHHHHhccc-cchHHHHHHHhc---C
Confidence            333444443   456777888888888888765553 34445555666555666777777765 456666666654   4


Q ss_pred             CCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHH
Q 008280          297 PDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLL  345 (571)
Q Consensus       297 p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~  345 (571)
                      |+...-...+.++.+......+...+....+    .++..+-.....++
T Consensus       850 ~~~~VR~~A~~aL~~~~~~~~a~~~L~~al~----D~d~~Vr~~A~~aL  894 (897)
T PRK13800        850 PHLDVRKAAVLALTRWPGDPAARDALTTALT----DSDADVRAYARRAL  894 (897)
T ss_pred             CCHHHHHHHHHHHhccCCCHHHHHHHHHHHh----CCCHHHHHHHHHHH
Confidence            6666666677777775434456666666654    34554444444443

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=88.46  E-value=9.6  Score=29.24  Aligned_cols=61  Identities=18%  Similarity=0.194  Sum_probs=44.8

Q ss_pred             HHHHHhcCCHHHHHHHHhhCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHH
Q 008280          139 ISGYMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLS  202 (571)
Q Consensus       139 i~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~  202 (571)
                      +..+...|++++|..+.+.+..||...|-+|-..  +.|..+.+..-+.+|...| .|...+|.
T Consensus        46 lsSLmNrG~Yq~Al~l~~~~~~pdlepw~ALce~--rlGl~s~l~~rl~rla~sg-~p~lq~Fa  106 (115)
T TIGR02508        46 LSSLMNRGDYQSALQLGNKLCYPDLEPWLALCEW--RLGLGSALESRLNRLAASG-DPRLQTFV  106 (115)
T ss_pred             HHHHHccchHHHHHHhcCCCCCchHHHHHHHHHH--hhccHHHHHHHHHHHHhCC-CHHHHHHH
Confidence            3456678999999999999888999998877543  6677777777777777766 45444443

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.

>PF14853 Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repeat; PDB: 1IYG_A 1PC2_A 1NZN_A 3UUX_C 1Y8M_A 2PQR_A 2PQN_A 3O48_A

Probab=88.23  E-value=3.1  Score=27.89  Aligned_cols=51  Identities=16%  Similarity=0.208  Sum_probs=38.0

Q ss_pred             hHHHHHHHHhhccChhHHHHHHHHHHhCCCccCCceeEEEECCEEEEEecCCCCCcccHHHHHHHHHHHHHHHHcCc
Q 008280          404 CYVQLANIYAAMKKWDDVARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGY  480 (571)
Q Consensus       404 ~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~s~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~~~~m~~~g~  480 (571)
                      ....++.++.+.|++++|.+..+.+.+.                          .|...++...-..+.++|.+.|.
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            4567888999999999999999988762                          35566666666677788887773

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=88.19  E-value=2.2  Score=40.04  Aligned_cols=62  Identities=19%  Similarity=0.222  Sum_probs=52.1

Q ss_pred             hHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHh
Q 008280          368 AIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  430 (571)
Q Consensus       368 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  430 (571)
                      .++..++..+...|+++.+...+++++..+|-+.. .|..|..+|.+.|+...|+..|+.+.+
T Consensus       154 ~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~-~~~~lm~~y~~~g~~~~ai~~y~~l~~  215 (280)
T COG3629         154 KALTKLAEALIACGRADAVIEHLERLIELDPYDEP-AYLRLMEAYLVNGRQSAAIRAYRQLKK  215 (280)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhcCccchH-HHHHHHHHHHHcCCchHHHHHHHHHHH
Confidence            35566777778888888888899999999988877 889999999999999999998888765

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=87.82  E-value=18  Score=31.73  Aligned_cols=128  Identities=12%  Similarity=0.036  Sum_probs=79.9

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHH--HHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhH-----H
Q 008280          267 WNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFV--ALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHY-----T  339 (571)
Q Consensus       267 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~--~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~-----~  339 (571)
                      |..++.... .+.+ +.....+++...+.+....++.  .+...+...+++++|...++.....    |..+.+     -
T Consensus        57 Y~~~i~~~~-ak~~-~~~~~~ekf~~~n~~t~Ya~laaL~lAk~~ve~~~~d~A~aqL~~~l~~----t~De~lk~l~~l  130 (207)
T COG2976          57 YQNAIKAVQ-AKKP-KSIAAAEKFVQANGKTIYAVLAALELAKAEVEANNLDKAEAQLKQALAQ----TKDENLKALAAL  130 (207)
T ss_pred             HHHHHHHHh-cCCc-hhHHHHHHHHhhccccHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHcc----chhHHHHHHHHH
Confidence            333444332 3444 5556666666543222222333  2345678889999999988876532    222333     3


Q ss_pred             HHHHHHHHcCCHHHHHHHHHhCCCCCC--HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCC
Q 008280          340 CMVDLLGRAGKLVEAVDLIKKMPFKPQ--PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANA  401 (571)
Q Consensus       340 ~li~~~~~~g~~~~A~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~  401 (571)
                      .|.......|.+++|+..++... .++  ......-...+...|+-++|...|++.++.+++++
T Consensus       131 RLArvq~q~~k~D~AL~~L~t~~-~~~w~~~~~elrGDill~kg~k~~Ar~ay~kAl~~~~s~~  193 (207)
T COG2976         131 RLARVQLQQKKADAALKTLDTIK-EESWAAIVAELRGDILLAKGDKQEARAAYEKALESDASPA  193 (207)
T ss_pred             HHHHHHHHhhhHHHHHHHHhccc-cccHHHHHHHHhhhHHHHcCchHHHHHHHHHHHHccCChH
Confidence            45567788899999999998763 122  22233344568899999999999999998876543

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=87.09  E-value=49  Score=35.86  Aligned_cols=174  Identities=13%  Similarity=0.085  Sum_probs=104.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhCCCCCHH----HHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhc
Q 008280          135 WTAMISGYMKFGKVDLAEKLFDEMPTKNLV----TWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSH  210 (571)
Q Consensus       135 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~----~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~  210 (571)
                      ...-+++..+...++.|..+-+.-.. |..    ......+-+.+.|++++|...|-+-... +.|.     .++.-+..
T Consensus       337 le~kL~iL~kK~ly~~Ai~LAk~~~~-d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~s-----~Vi~kfLd  409 (933)
T KOG2114|consen  337 LETKLDILFKKNLYKVAINLAKSQHL-DEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEPS-----EVIKKFLD  409 (933)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHhcCC-CHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CChH-----HHHHHhcC
Confidence            34456677777777777777655432 222    2233344456788888888887765532 2332     23444445


Q ss_pred             cCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCCCChh--hHHHHHHHHHHcCChHHHHHHHH
Q 008280          211 LSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVV--TWNAMISGYAQHGKGEKALRLFD  288 (571)
Q Consensus       211 ~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~--~~~~li~~~~~~g~~~~A~~~~~  288 (571)
                      ......-..+++.+.+.|+. +...-+.|+.+|.+.++.++-.++.+... ....  -....+..+.+.+-.++|..+-.
T Consensus       410 aq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI~~~~-~g~~~fd~e~al~Ilr~snyl~~a~~LA~  487 (933)
T KOG2114|consen  410 AQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFISKCD-KGEWFFDVETALEILRKSNYLDEAELLAT  487 (933)
T ss_pred             HHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHHhcCC-CcceeeeHHHHHHHHHHhChHHHHHHHHH
Confidence            55556666677777777754 34445668889999999888888877665 2221  23445566666666666666555


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHh
Q 008280          289 KMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSM  325 (571)
Q Consensus       289 ~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~  325 (571)
                      +...     +......+   +...+++++|.+++..+
T Consensus       488 k~~~-----he~vl~il---le~~~ny~eAl~yi~sl  516 (933)
T KOG2114|consen  488 KFKK-----HEWVLDIL---LEDLHNYEEALRYISSL  516 (933)
T ss_pred             Hhcc-----CHHHHHHH---HHHhcCHHHHHHHHhcC
Confidence            4322     22222222   45667888888887755

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=86.63  E-value=11  Score=29.01  Aligned_cols=87  Identities=20%  Similarity=0.234  Sum_probs=56.7

Q ss_pred             hHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHc
Q 008280          214 LQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDE  293 (571)
Q Consensus       214 ~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  293 (571)
                      .++|..|-+.+...+-. ...+--.-+..+...|++++|..+.+.+.-||...|-+|..  .+.|..+++..-+.+|...
T Consensus        21 HqEA~tIAdwL~~~~~~-~E~v~lIRlsSLmNrG~Yq~Al~l~~~~~~pdlepw~ALce--~rlGl~s~l~~rl~rla~s   97 (115)
T TIGR02508        21 HQEANTIADWLHLKGES-EEAVQLIRLSSLMNRGDYQSALQLGNKLCYPDLEPWLALCE--WRLGLGSALESRLNRLAAS   97 (115)
T ss_pred             HHHHHHHHHHHhcCCch-HHHHHHHHHHHHHccchHHHHHHhcCCCCCchHHHHHHHHH--HhhccHHHHHHHHHHHHhC
Confidence            45555555555444311 11122222345667899999999999998999999988765  4667777777778888777


Q ss_pred             CCCCCHHHHHH
Q 008280          294 GMKPDSITFVA  304 (571)
Q Consensus       294 g~~p~~~t~~~  304 (571)
                      | .|...+|..
T Consensus        98 g-~p~lq~Faa  107 (115)
T TIGR02508        98 G-DPRLQTFVA  107 (115)
T ss_pred             C-CHHHHHHHH
Confidence            6 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.

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=86.46  E-value=14  Score=37.07  Aligned_cols=136  Identities=12%  Similarity=0.047  Sum_probs=65.8

Q ss_pred             cCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhCC--CCCCHhHHHHHHHHHHhcCCHhHHHHH
Q 008280          312 AGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMP--FKPQPAIFGTLLSACRVHKRLDLAEFA  389 (571)
Q Consensus       312 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~~~~~g~~~~a~~~  389 (571)
                      .|++-.|-+-+....+.+  +.++.+...........|+++.+...+....  +.....+...+++.....|+.++|...
T Consensus       302 ~gd~~aas~~~~~~lr~~--~~~p~~i~l~~~i~~~lg~ye~~~~~~s~~~~~~~s~~~~~~~~~r~~~~l~r~~~a~s~  379 (831)
T PRK15180        302 DGDIIAASQQLFAALRNQ--QQDPVLIQLRSVIFSHLGYYEQAYQDISDVEKIIGTTDSTLRCRLRSLHGLARWREALST  379 (831)
T ss_pred             ccCHHHHHHHHHHHHHhC--CCCchhhHHHHHHHHHhhhHHHHHHHhhchhhhhcCCchHHHHHHHhhhchhhHHHHHHH
Confidence            445444433333333322  2233333333334455666666666665541  122334555666666666666666666


Q ss_pred             HHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhCCCccCCceeEEEECCEEEEEe
Q 008280          390 AMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVVKMPGYSWIEVGTVVHEFR  452 (571)
Q Consensus       390 ~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~s~~~~~~~~~~f~  452 (571)
                      .+-|+.-+.+++. ....-+..-...|-++++.-.++++...+.+  ....|+..-....+|-
T Consensus       380 a~~~l~~eie~~e-i~~iaa~sa~~l~~~d~~~~~wk~~~~~~~~--~~~g~v~~~~~~~~~~  439 (831)
T PRK15180        380 AEMMLSNEIEDEE-VLTVAAGSADALQLFDKSYHYWKRVLLLNPE--TQSGWVNFLSSTQYFN  439 (831)
T ss_pred             HHHHhccccCChh-heeeecccHHHHhHHHHHHHHHHHHhccCCh--hcccceeeeccceecc
Confidence            6666665544443 3333333334456666666666665543322  2223544433334443

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=86.43  E-value=1.4  Score=27.32  Aligned_cols=26  Identities=19%  Similarity=0.133  Sum_probs=11.8

Q ss_pred             HHHHHHHHHHhcCCHhHHHHHHHHHh
Q 008280          369 IFGTLLSACRVHKRLDLAEFAAMNLF  394 (571)
Q Consensus       369 ~~~~l~~~~~~~g~~~~a~~~~~~~~  394 (571)
                      +++.|...|...|++++|+.++++++
T Consensus         4 ~~~~la~~~~~~g~~~~A~~~~~~al   29 (42)
T PF13374_consen    4 ALNNLANAYRAQGRYEEALELLEEAL   29 (42)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcchhhHHHHHHH
Confidence            34444444444455555554444443

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=86.12  E-value=5.9  Score=30.15  Aligned_cols=63  Identities=17%  Similarity=0.346  Sum_probs=47.5

Q ss_pred             ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHH
Q 008280          279 KGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVD  343 (571)
Q Consensus       279 ~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~  343 (571)
                      +.-++.+-++.+....+-|+.....+.+.||.+.+++..|.++|+.+..+.+  .+...|..+++
T Consensus        22 D~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~~--~~~~~y~~~lq   84 (103)
T cd00923          22 DGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKCG--AHKEIYPYILQ   84 (103)
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHcc--CchhhHHHHHH
Confidence            3345666677777777889999999999999999999999999998875433  24456666554

Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Va is one of three mammalian subunits that lacks a transmembrane region. Subunit Va is located on the matrix side of the membrane and binds thyroid hormone T2, releasing allosteric inhibition caused by the binding of ATP to subunit IV and allowing high turnover at elevated intramitochondrial ATP/ADP ratios.

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=86.02  E-value=0.85  Score=27.24  Aligned_cols=24  Identities=29%  Similarity=0.458  Sum_probs=14.0

Q ss_pred             CCCcchHHHHHHHHHhcCCHHHHH
Q 008280          230 CKDTTALTPLISMYCKCGDLEDAC  253 (571)
Q Consensus       230 ~~~~~~~~~li~~y~~~g~~~~A~  253 (571)
                      |.+..+|+.|..+|...|++++|+
T Consensus        10 P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen   10 PNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             CCCHHHHHHHHHHHHHCcCHHhhc
Confidence            445555666666666666666554

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=85.99  E-value=6.1  Score=30.44  Aligned_cols=60  Identities=17%  Similarity=0.340  Sum_probs=42.2

Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHH
Q 008280          282 KALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVD  343 (571)
Q Consensus       282 ~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~  343 (571)
                      +..+-+..+....+-|+.....+.+.||.+.+++..|.++|+.+..+.+  +....|..+++
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~--~~~~~Y~~~lq   87 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCG--NKKEIYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTT--T-TTHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHcc--ChHHHHHHHHH
Confidence            5555666666677889999999999999999999999999998877544  33336766654

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 ....

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=85.97  E-value=1.4  Score=41.60  Aligned_cols=112  Identities=10%  Similarity=0.029  Sum_probs=78.9

Q ss_pred             HHHHHHhcCcHHHHHHHHHHhHHhcCCCC-ChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHHHHhcC
Q 008280          305 LLLACNHAGLVDLGIQYFDSMVNDYGIAA-KPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFK-PQPAIFGTLLSACRVHK  381 (571)
Q Consensus       305 ll~a~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~~~g  381 (571)
                      -.+-|.++|.+++|...|...+.   ..| ++.++..-..+|.+..++..|+.-.+.. ... .-...|..-+.+-...|
T Consensus       103 ~GN~yFKQgKy~EAIDCYs~~ia---~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd~~Y~KAYSRR~~AR~~Lg  179 (536)
T KOG4648|consen  103 RGNTYFKQGKYEEAIDCYSTAIA---VYPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALDKLYVKAYSRRMQARESLG  179 (536)
T ss_pred             hhhhhhhccchhHHHHHhhhhhc---cCCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHHh
Confidence            35668889999999999987764   455 7888888899999999998887665544 110 11234555555556678


Q ss_pred             CHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHH
Q 008280          382 RLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARI  424 (571)
Q Consensus       382 ~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~  424 (571)
                      +..+|.+-++.+++++|++..     |-..|.+.....++.-+
T Consensus       180 ~~~EAKkD~E~vL~LEP~~~E-----LkK~~a~i~Sl~E~~I~  217 (536)
T KOG4648|consen  180 NNMEAKKDCETVLALEPKNIE-----LKKSLARINSLRERKIA  217 (536)
T ss_pred             hHHHHHHhHHHHHhhCcccHH-----HHHHHHHhcchHhhhHH
Confidence            899999999999999998653     44444444444444433

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=85.25  E-value=2  Score=25.34  Aligned_cols=27  Identities=22%  Similarity=0.400  Sum_probs=16.7

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHH
Q 008280          266 TWNAMISGYAQHGKGEKALRLFDKMKD  292 (571)
Q Consensus       266 ~~~~li~~~~~~g~~~~A~~~~~~m~~  292 (571)
                      +|..+...|...|++++|+..|++..+
T Consensus         3 ~~~~~g~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF00515_consen    3 AYYNLGNAYFQLGDYEEALEYYQRALE   29 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHH
Confidence            456666666666666666666666655

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 ....

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=84.88  E-value=1.4  Score=25.67  Aligned_cols=26  Identities=15%  Similarity=-0.077  Sum_probs=13.2

Q ss_pred             HHHHHhcCCHhHHHHHHHHHhccCCC
Q 008280          374 LSACRVHKRLDLAEFAAMNLFNLNPA  399 (571)
Q Consensus       374 ~~~~~~~g~~~~a~~~~~~~~~~~p~  399 (571)
                      ..++...|+.++|...|+++++..|+
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            34444455555555555555555443

>smart00028 TPR Tetratricopeptide repeats

Probab=84.38  E-value=1.9  Score=24.18  Aligned_cols=29  Identities=21%  Similarity=0.016  Sum_probs=15.3

Q ss_pred             HHHHHHHHHhcCCHhHHHHHHHHHhccCC
Q 008280          370 FGTLLSACRVHKRLDLAEFAAMNLFNLNP  398 (571)
Q Consensus       370 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~p  398 (571)
                      |..+...+...|+++.|...+++.++..|
T Consensus         4 ~~~~a~~~~~~~~~~~a~~~~~~~~~~~~   32 (34)
T smart00028        4 LYNLGNAYLKLGDYDEALEYYEKALELDP   32 (34)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHccCC
Confidence            34444455555555555555555555544

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.

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=84.20  E-value=2  Score=25.21  Aligned_cols=27  Identities=11%  Similarity=0.218  Sum_probs=23.9

Q ss_pred             hHHHHHHHHhhccChhHHHHHHHHHHh
Q 008280          404 CYVQLANIYAAMKKWDDVARIRLSMKE  430 (571)
Q Consensus       404 ~~~~l~~~~~~~g~~~~a~~~~~~m~~  430 (571)
                      .+..++.+|...|++++|++.+++..+
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            688999999999999999999998765

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 ....

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=84.17  E-value=18  Score=37.39  Aligned_cols=38  Identities=13%  Similarity=0.202  Sum_probs=21.0

Q ss_pred             cCCHHHHHHHHhhCCCCCHHHHHHHHHHHHHcCChhHHHHH
Q 008280          145 FGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAEDGLKL  185 (571)
Q Consensus       145 ~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  185 (571)
                      .|+++.|..++..+++   ..-+.++..+-..|..++|+++
T Consensus       599 rrd~~~a~~vLp~I~k---~~rt~va~Fle~~g~~e~AL~~  636 (794)
T KOG0276|consen  599 RRDLEVADGVLPTIPK---EIRTKVAHFLESQGMKEQALEL  636 (794)
T ss_pred             hccccccccccccCch---hhhhhHHhHhhhccchHhhhhc
Confidence            4666666666555552   2233455555566666666554

>PRK10941 hypothetical protein; Provisional

Probab=83.98  E-value=7.3  Score=36.59  Aligned_cols=63  Identities=21%  Similarity=0.150  Sum_probs=54.3

Q ss_pred             HHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhCC
Q 008280          369 IFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENN  432 (571)
Q Consensus       369 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  432 (571)
                      ..+.|-.+|.+.++++.|..+.+.++.+.|+++. -+---+.+|.+.|.+..|..=++.-.+..
T Consensus       183 ml~nLK~~~~~~~~~~~AL~~~e~ll~l~P~dp~-e~RDRGll~~qL~c~~~A~~DL~~fl~~~  245 (269)
T PRK10941        183 LLDTLKAALMEEKQMELALRASEALLQFDPEDPY-EIRDRGLIYAQLDCEHVALSDLSYFVEQC  245 (269)
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHHcCCcHHHHHHHHHHHHhC
Confidence            4566667889999999999999999999999987 77788999999999999999888776543

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=83.92  E-value=32  Score=30.86  Aligned_cols=60  Identities=10%  Similarity=-0.002  Sum_probs=29.5

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCHH-HHHHHHH--HHHHcCChhHHHHHHHHHHH
Q 008280          132 VVAWTAMISGYMKFGKVDLAEKLFDEMPTKNLV-TWNAMIA--GYVENSWAEDGLKLLRMMIG  191 (571)
Q Consensus       132 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~li~--~~~~~g~~~~A~~~~~~m~~  191 (571)
                      +.++|-|.--+...|+++.|.+.|+...+-|+. -|..+=+  ++--.|++.-|.+-|.+.-+
T Consensus        99 ~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi~~YY~gR~~LAq~d~~~fYQ  161 (297)
T COG4785          99 PEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYYGGRYKLAQDDLLAFYQ  161 (297)
T ss_pred             HHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhccceeeeecCchHhhHHHHHHHHh
Confidence            455565555556666666666666665553332 1221111  12224556666555544444

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=83.74  E-value=1.9  Score=26.70  Aligned_cols=27  Identities=22%  Similarity=0.325  Sum_probs=23.7

Q ss_pred             hHHHHHHHHhhccChhHHHHHHHHHHh
Q 008280          404 CYVQLANIYAAMKKWDDVARIRLSMKE  430 (571)
Q Consensus       404 ~~~~l~~~~~~~g~~~~a~~~~~~m~~  430 (571)
                      ++..|+.+|...|++++|..++++..+
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            788999999999999999999988764

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=83.70  E-value=14  Score=34.87  Aligned_cols=98  Identities=14%  Similarity=0.199  Sum_probs=72.5

Q ss_pred             CCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCC-C--------ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCC
Q 008280          227 SPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR-K--------DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKP  297 (571)
Q Consensus       227 ~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~-~--------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  297 (571)
                      .|.+....+...++..-....+++++...+-++.. +        ...+|-.++    ..-++++++.++..=++.|+-|
T Consensus        58 ~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~irll----lky~pq~~i~~l~npIqYGiF~  133 (418)
T KOG4570|consen   58 RGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHTWIRLL----LKYDPQKAIYTLVNPIQYGIFP  133 (418)
T ss_pred             cCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHHHHHHH----HccChHHHHHHHhCcchhcccc
Confidence            34555666667777777767788888888777653 2        223333333    2346778998888888899999


Q ss_pred             CHHHHHHHHHHHHhcCcHHHHHHHHHHhHHh
Q 008280          298 DSITFVALLLACNHAGLVDLGIQYFDSMVND  328 (571)
Q Consensus       298 ~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~  328 (571)
                      |..++..++..+.+.+++.+|.++.-.|...
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

>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=83.26  E-value=2.5  Score=24.86  Aligned_cols=27  Identities=19%  Similarity=0.372  Sum_probs=24.8

Q ss_pred             hHHHHHHHHhhccChhHHHHHHHHHHh
Q 008280          404 CYVQLANIYAAMKKWDDVARIRLSMKE  430 (571)
Q Consensus       404 ~~~~l~~~~~~~g~~~~a~~~~~~m~~  430 (571)
                      +|..++.+|...|++++|.+.|++..+
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~   29 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            788999999999999999999988765

...

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=83.25  E-value=37  Score=31.09  Aligned_cols=23  Identities=17%  Similarity=0.154  Sum_probs=10.7

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHH
Q 008280          166 WNAMIAGYVENSWAEDGLKLLRM  188 (571)
Q Consensus       166 ~~~li~~~~~~g~~~~A~~~~~~  188 (571)
                      ++--...|.++|.++-|-..+.+
T Consensus        94 ~eKAs~lY~E~GspdtAAmaleK  116 (308)
T KOG1585|consen   94 YEKASELYVECGSPDTAAMALEK  116 (308)
T ss_pred             HHHHHHHHHHhCCcchHHHHHHH
Confidence            34444455555555544444433

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=82.15  E-value=63  Score=33.01  Aligned_cols=156  Identities=12%  Similarity=0.091  Sum_probs=74.8

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHH
Q 008280          165 TWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYC  244 (571)
Q Consensus       165 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~  244 (571)
                      ..-+++..+.++-.+.-...+-.+|..-|  .+...|..++..|... ..++--.+++++++..+ .|+.....|++-|-
T Consensus        68 ~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~df-nDvv~~ReLa~~yE  143 (711)
T COG1747          68 CLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDF-NDVVIGRELADKYE  143 (711)
T ss_pred             HHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcc-hhHHHHHHHHHHHH
Confidence            34455556666655666666666666543  3455566666666555 44445555555555542 23333444555554


Q ss_pred             hcCCHHHHHHHHHhhCCCCh---------hhHHHHHHHHHHcCChHHHHHHHHHHHH-cCCCCCHHHHHHHHHHHHhcCc
Q 008280          245 KCGDLEDACKLFLEIQRKDV---------VTWNAMISGYAQHGKGEKALRLFDKMKD-EGMKPDSITFVALLLACNHAGL  314 (571)
Q Consensus       245 ~~g~~~~A~~~~~~~~~~~~---------~~~~~li~~~~~~g~~~~A~~~~~~m~~-~g~~p~~~t~~~ll~a~~~~g~  314 (571)
                      + ++.+.+..+|.++..+-+         ..|..++..-  ..+.+..+.+..+... .|...-.+.+.-+-.-|+...+
T Consensus       144 k-ik~sk~a~~f~Ka~yrfI~~~q~~~i~evWeKL~~~i--~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Ys~~eN  220 (711)
T COG1747         144 K-IKKSKAAEFFGKALYRFIPRRQNAAIKEVWEKLPELI--GDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKYSENEN  220 (711)
T ss_pred             H-hchhhHHHHHHHHHHHhcchhhhhhHHHHHHHHHHhc--cccHHHHHHHHHHHHHhhccchHHHHHHHHHHHhccccC
Confidence            4 555555555555432111         1344443311  1234444444444432 2222233334444444555555


Q ss_pred             HHHHHHHHHHhHH
Q 008280          315 VDLGIQYFDSMVN  327 (571)
Q Consensus       315 ~~~a~~~~~~~~~  327 (571)
                      +++|.+++..+.+
T Consensus       221 ~~eai~Ilk~il~  233 (711)
T COG1747         221 WTEAIRILKHILE  233 (711)
T ss_pred             HHHHHHHHHHHhh
Confidence            5555555555544

>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=82.14  E-value=32  Score=29.62  Aligned_cols=134  Identities=10%  Similarity=0.088  Sum_probs=64.7

Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcC--CHHHHHHHHHhCC
Q 008280          285 RLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAG--KLVEAVDLIKKMP  362 (571)
Q Consensus       285 ~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g--~~~~A~~~~~~~~  362 (571)
                      +.++.+.+.+++|+...+..++..+.+.|.+..-.+++.     +++-+|.....+.+-.+....  -..-|++++.+++
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            344455556667777777777777777776555444432     244444433333332222211  1333444555543


Q ss_pred             CCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhCC
Q 008280          363 FKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENN  432 (571)
Q Consensus       363 ~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  432 (571)
                      .     .+..++..+...|++-+|.++.++....+.-+    -..+..+-.+.++..--..+++-..+++
T Consensus        90 ~-----~~~~iievLL~~g~vl~ALr~ar~~~~~~~~~----~~~fLeAA~~~~D~~lf~~V~~ff~~~n  150 (167)
T PF07035_consen   90 T-----AYEEIIEVLLSKGQVLEALRYARQYHKVDSVP----ARKFLEAAANSNDDQLFYAVFRFFEERN  150 (167)
T ss_pred             h-----hHHHHHHHHHhCCCHHHHHHHHHHcCCcccCC----HHHHHHHHHHcCCHHHHHHHHHHHHHhh
Confidence            1     23334455556777777777666653332211    1233444444444444444444444443

>PRK12798 chemotaxis protein; Reviewed

Probab=82.08  E-value=57  Score=32.48  Aligned_cols=179  Identities=16%  Similarity=0.219  Sum_probs=118.5

Q ss_pred             cCCHHHHHHHHHhhCCC----ChhhHHHHHHHHHH-cCChHHHHHHHHHHHHcCCCCCH----HHHHHHHHHHHhcCcHH
Q 008280          246 CGDLEDACKLFLEIQRK----DVVTWNAMISGYAQ-HGKGEKALRLFDKMKDEGMKPDS----ITFVALLLACNHAGLVD  316 (571)
Q Consensus       246 ~g~~~~A~~~~~~~~~~----~~~~~~~li~~~~~-~g~~~~A~~~~~~m~~~g~~p~~----~t~~~ll~a~~~~g~~~  316 (571)
                      .|+.++|.+.+..+...    ....+-.|+.+-.. ..++.+|+++|+..+-.  .|-.    ....--+......|+.+
T Consensus       125 ~Gr~~~a~~~La~i~~~~l~~~lg~~laLv~a~l~~~~dP~~Al~~lD~aRLl--aPGTLvEEAALRRsi~la~~~g~~~  202 (421)
T PRK12798        125 SGRGREARKLLAGVAPEYLPAELGAYLALVQGNLMVATDPATALKLLDQARLL--APGTLVEEAALRRSLFIAAQLGDAD  202 (421)
T ss_pred             cCCHHHHHHHhhcCChhhcCchhhhHHHHHHHHHhcccCHHHHHHHHHHHHHh--CCchHHHHHHHHHhhHHHHhcCcHH
Confidence            78899999999888643    45567777766544 55899999999987653  3433    34444555678899999


Q ss_pred             HHHHHHHHhHHhcCCCCChHhHH-HHHHHHHHc---CCHHHHHHHHHhCCCCCCHhHHHHHHHHHHhcCCHhHHHHHHHH
Q 008280          317 LGIQYFDSMVNDYGIAAKPDHYT-CMVDLLGRA---GKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMN  392 (571)
Q Consensus       317 ~a~~~~~~~~~~~~~~~~~~~~~-~li~~~~~~---g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~  392 (571)
                      ++..+-.....+|...|-...+. .++..+.+.   -..+.-..++..|.-.--...|..+.+.-...|+.+.|....++
T Consensus       203 rf~~la~~Y~rRF~~S~YA~~F~~~F~~~~~~~~d~~~~~~l~~~ls~~d~~~q~~lYL~iAR~Ali~Gk~~lA~~As~~  282 (421)
T PRK12798        203 KFEALARNYLRRFRHSPYASQFAQRFVDLVVRLDDEIRDARLVEILSFMDPERQRELYLRIARAALIDGKTELARFASER  282 (421)
T ss_pred             HHHHHHHHHHHHhccCchHHHHHHHHHHHHHhccccccHHHHHHHHHhcCchhHHHHHHHHHHHHHHcCcHHHHHHHHHH
Confidence            99888888777766666544433 233333333   34455566667764222346888888999999999999999999


Q ss_pred             HhccCCCCCchhHHHHHHHHhh-----ccChhHHHHHHHHH
Q 008280          393 LFNLNPANAAGCYVQLANIYAA-----MKKWDDVARIRLSM  428 (571)
Q Consensus       393 ~~~~~p~~~~~~~~~l~~~~~~-----~g~~~~a~~~~~~m  428 (571)
                      ++.+.....  .-...+..|..     ..+.+++.+.+..+
T Consensus       283 A~~L~~~~~--~~~~ra~LY~aaa~v~s~~~~~al~~L~~I  321 (421)
T PRK12798        283 ALKLADPDS--ADAARARLYRGAALVASDDAESALEELSQI  321 (421)
T ss_pred             HHHhccCCC--cchHHHHHHHHHHccCcccHHHHHHHHhcC
Confidence            988764332  34455555532     23455555555443

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=82.00  E-value=33  Score=31.70  Aligned_cols=178  Identities=9%  Similarity=0.080  Sum_probs=99.9

Q ss_pred             CCHHHHHHHHHhhCCC-------ChhhHHHHHHHHHHcCChHHHHHHHHHHHH---cCCCC--CHHHHHHHHHHHHhcCc
Q 008280          247 GDLEDACKLFLEIQRK-------DVVTWNAMISGYAQHGKGEKALRLFDKMKD---EGMKP--DSITFVALLLACNHAGL  314 (571)
Q Consensus       247 g~~~~A~~~~~~~~~~-------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~---~g~~p--~~~t~~~ll~a~~~~g~  314 (571)
                      .++++|+.-|++..+-       ...+...||..+.+.|++++.++.+.+|..   +.+..  +..+.++++.-.+.+.+
T Consensus        41 ~~p~~Al~sF~kVlelEgEKgeWGFKALKQmiKI~f~l~~~~eMm~~Y~qlLTYIkSAVTrNySEKsIN~IlDyiStS~~  120 (440)
T KOG1464|consen   41 DEPKEALSSFQKVLELEGEKGEWGFKALKQMIKINFRLGNYKEMMERYKQLLTYIKSAVTRNYSEKSINSILDYISTSKN  120 (440)
T ss_pred             cCHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHhhhhh
Confidence            4566676666665431       223455677777788888888777777642   22222  34466777766666666


Q ss_pred             HHHHHHHHHHhHHhcC----CCCChHhHHHHHHHHHHcCCHHHHHHHHHhC--------CC----C--CCHhHHHHHHHH
Q 008280          315 VDLGIQYFDSMVNDYG----IAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM--------PF----K--PQPAIFGTLLSA  376 (571)
Q Consensus       315 ~~~a~~~~~~~~~~~~----~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~--------~~----~--p~~~~~~~l~~~  376 (571)
                      .+.-..+++.-.....    -..--.+-.-|...|...|.+.+-.++++++        +.    +  .-..+|..-+..
T Consensus       121 m~LLQ~FYeTTL~ALkdAKNeRLWFKTNtKLgkl~fd~~e~~kl~KIlkqLh~SCq~edGedD~kKGtQLLEiYAlEIQm  200 (440)
T KOG1464|consen  121 MDLLQEFYETTLDALKDAKNERLWFKTNTKLGKLYFDRGEYTKLQKILKQLHQSCQTEDGEDDQKKGTQLLEIYALEIQM  200 (440)
T ss_pred             hHHHHHHHHHHHHHHHhhhcceeeeeccchHhhhheeHHHHHHHHHHHHHHHHHhccccCchhhhccchhhhhHhhHhhh
Confidence            6555555544332211    1111223345667777777777777777665        10    0  112456666777


Q ss_pred             HHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHH-----HHhhccChhHHHHH
Q 008280          377 CRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLAN-----IYAAMKKWDDVARI  424 (571)
Q Consensus       377 ~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~-----~~~~~g~~~~a~~~  424 (571)
                      |...++-..-..++++++.....-|.......+.     +..+.|+|++|..-
T Consensus       201 YT~qKnNKkLK~lYeqalhiKSAIPHPlImGvIRECGGKMHlreg~fe~AhTD  253 (440)
T KOG1464|consen  201 YTEQKNNKKLKALYEQALHIKSAIPHPLIMGVIRECGGKMHLREGEFEKAHTD  253 (440)
T ss_pred             hhhhcccHHHHHHHHHHHHhhccCCchHHHhHHHHcCCccccccchHHHHHhH
Confidence            7777887777788887765432211102333333     34567788876543

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=81.81  E-value=1.9  Score=24.99  Aligned_cols=29  Identities=14%  Similarity=0.234  Sum_probs=25.5

Q ss_pred             hHHHHHHHHhhccChhHHHHHHHHHHhCC
Q 008280          404 CYVQLANIYAAMKKWDDVARIRLSMKENN  432 (571)
Q Consensus       404 ~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  432 (571)
                      ++..++.+|.+.|++++|.+.|+++.+.-
T Consensus         2 a~~~~a~~~~~~g~~~~A~~~~~~~~~~~   30 (33)
T PF13174_consen    2 ALYRLARCYYKLGDYDEAIEYFQRLIKRY   30 (33)
T ss_dssp             HHHHHHHHHHHHCHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence            57789999999999999999999987643

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=81.63  E-value=36  Score=29.94  Aligned_cols=87  Identities=15%  Similarity=0.078  Sum_probs=61.0

Q ss_pred             HHHHHHHcCChHHHHHHHhhCCCC--Ch----hHHHHHHHHHHhcCCHHHHHHHHhhCCCCCHHH--HHHHHHHHHHcCC
Q 008280          107 MISGYIECGQLDKAVELFKVAPVK--SV----VAWTAMISGYMKFGKVDLAEKLFDEMPTKNLVT--WNAMIAGYVENSW  178 (571)
Q Consensus       107 li~~~~~~g~~~~A~~~~~~~~~~--~~----~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~--~~~li~~~~~~g~  178 (571)
                      +...+...|++++|...++.....  |.    .+-.-|.......|.+|+|..+++....++-.+  ...-.+.+...|+
T Consensus        95 lAk~~ve~~~~d~A~aqL~~~l~~t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~~~w~~~~~elrGDill~kg~  174 (207)
T COG2976          95 LAKAEVEANNLDKAEAQLKQALAQTKDENLKALAALRLARVQLQQKKADAALKTLDTIKEESWAAIVAELRGDILLAKGD  174 (207)
T ss_pred             HHHHHHhhccHHHHHHHHHHHHccchhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccccccHHHHHHHHhhhHHHHcCc
Confidence            345677788899998888866522  21    223345567778888899988888877664333  3334567888888


Q ss_pred             hhHHHHHHHHHHHCC
Q 008280          179 AEDGLKLLRMMIGLG  193 (571)
Q Consensus       179 ~~~A~~~~~~m~~~g  193 (571)
                      -++|..-|.+.+..+
T Consensus       175 k~~Ar~ay~kAl~~~  189 (207)
T COG2976         175 KQEARAAYEKALESD  189 (207)
T ss_pred             hHHHHHHHHHHHHcc
Confidence            888888888887764

>PF07721 TPR_4: Tetratricopeptide repeat; InterPro: IPR011717 This entry includes tetratricopeptide-like repeats not detected by the IPR001440 from INTERPRO, IPR013105 from INTERPRO and IPR011716 from INTERPRO models

Probab=81.54  E-value=1.9  Score=23.78  Aligned_cols=23  Identities=22%  Similarity=0.167  Sum_probs=17.5

Q ss_pred             hHHHHHHHHhhccChhHHHHHHH
Q 008280          404 CYVQLANIYAAMKKWDDVARIRL  426 (571)
Q Consensus       404 ~~~~l~~~~~~~g~~~~a~~~~~  426 (571)
                      +...|+.++...|++++|.++++
T Consensus         3 a~~~la~~~~~~G~~~eA~~~l~   25 (26)
T PF07721_consen    3 ARLALARALLAQGDPDEAERLLR   25 (26)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHh
Confidence            56677888888888888877764

The tetratricopeptide repeat (TPR) motif is a protein-protein interaction module found in multiple copies in a number of functionally different proteins that facilitates specific interactions with a partner protein(s) [].; GO: 0042802 identical protein binding

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=81.06  E-value=5.2  Score=38.05  Aligned_cols=92  Identities=14%  Similarity=0.148  Sum_probs=59.4

Q ss_pred             HHHHHHcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcC
Q 008280          271 ISGYAQHGKGEKALRLFDKMKDEGMKP-DSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAG  349 (571)
Q Consensus       271 i~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  349 (571)
                      ..-|.++|++++|+..|..-..  +.| |.+++..-..+|.+...+..|..-....+.-  -..-...|+.-+.+-...|
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            4569999999999999998776  456 8899999999999999988777665554421  0111223333333333345


Q ss_pred             CHHHHHHHHHhC-CCCCC
Q 008280          350 KLVEAVDLIKKM-PFKPQ  366 (571)
Q Consensus       350 ~~~~A~~~~~~~-~~~p~  366 (571)
                      ...+|.+-++.. ...|+
T Consensus       180 ~~~EAKkD~E~vL~LEP~  197 (536)
T KOG4648|consen  180 NNMEAKKDCETVLALEPK  197 (536)
T ss_pred             hHHHHHHhHHHHHhhCcc
Confidence            555555554444 34555

>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=80.83  E-value=9.8  Score=33.62  Aligned_cols=72  Identities=17%  Similarity=0.100  Sum_probs=40.5

Q ss_pred             hHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhC---CCCCCcchHHHHHHHHHhcCCHHHH
Q 008280          180 EDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKS---PLCKDTTALTPLISMYCKCGDLEDA  252 (571)
Q Consensus       180 ~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~---g~~~~~~~~~~li~~y~~~g~~~~A  252 (571)
                      ++|++.|-++...+.--+ ......+..+-...+.+++++++-.++..   +-.+|+.++.+|+..|.+.|+++.|
T Consensus       123 ~~A~~~fL~~E~~~~l~t-~elq~aLAtyY~krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~A  197 (203)
T PF11207_consen  123 QEALRRFLQLEGTPELET-AELQYALATYYTKRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQA  197 (203)
T ss_pred             HHHHHHHHHHcCCCCCCC-HHHHHHHHHHHHccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhh
Confidence            456666666666553333 33333333333456666666666665543   2245566666677777766666665

---

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	571
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-15
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	7e-08
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-07
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-11
1qzv_F	154	Plant photosystem I: subunit PSAF; photosynthesis,	2e-06
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	3e-05
3v6t_A	499	DHAX3; tandem repeats, DNA specific binding protei	2e-04
3v6t_A	499	DHAX3; tandem repeats, DNA specific binding protei	8e-04
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	3e-04
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 = 1e-15
 Identities = 29/180 (16%), Positives = 60/180 (33%), Gaps = 7/180 (3%)

Query: 195 RPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACK 254
            P    L+ +L       SL + +       ++ L      L            L  A  
Sbjct: 89  SPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHH 148

Query: 255 LFLEIQRK-------DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLL 307
           L +    +        +  +NA++ G+A+ G  ++ + +   +KD G+ PD +++ A L 
Sbjct: 149 LLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQ 208

Query: 308 ACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQP 367
                      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 = 54.8 bits (130), Expect = 7e-08
 Identities = 22/169 (13%), Positives = 51/169 (30%), Gaps = 12/169 (7%)

Query: 100 NSVSWSAMISGYIECGQLDKAVELF-------KVAPVKSVVAWTAMISGYMKFGKVDLAE 152
                 A     +   QL  A  L        +   + ++  + A++ G+ + G      
Sbjct: 126 QQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELV 185

Query: 153 KLFDEMPTK----NLVTWNAMIAGYV-ENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLG 207
            +   +       +L+++ A +     ++  A    + L  M   G++  A   + +L  
Sbjct: 186 YVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSE 245

Query: 208 CSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLF 256
               + L+   +V       P        + L+             KL 
Sbjct: 246 EDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLH 294

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 54.1 bits (128), Expect = 1e-07
 Identities = 25/260 (9%), Positives = 73/260 (28%), Gaps = 18/260 (6%)

Query: 184 KLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQV---HQLVFKSPLCKDTTALTPLI 240
                     +      L +    C     L L   +   H    +            ++
Sbjct: 113 APSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVM 172

Query: 241 SMYCKCGDLEDACKLFLEIQRK----DVVTWNAMISGYAQHGKGEKAL-RLFDKMKDEGM 295
             + + G  ++   +   ++      D++++ A +    +  +    + R  ++M  EG+
Sbjct: 173 LGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGL 232

Query: 296 KPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAV 355
           K  ++    LL   + A ++   +       +       P + + +         L +  
Sbjct: 233 KLQALFTAVLLSEEDRATVLKA-VHKVKPTFSLPPQLPPPVNTSKL---------LRDVY 282

Query: 356 DLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAM 415
               ++ +        TL         ++LA    +         +         +    
Sbjct: 283 AKDGRVSYPKLHLPLKTLQCLFEKQLHMELASRVCVVSVEKPTLPSKEVKHARKTLKTLR 342

Query: 416 KKWDDVARIRLSMKENNVVK 435
            +W+      L   +N + +
Sbjct: 343 DQWEKALCRALRETKNRLER 362

>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 = 66.4 bits (161), Expect = 2e-11
 Identities = 99/622 (15%), Positives = 182/622 (29%), Gaps = 197/622 (31%)

Query: 20  RGKLKDAQELFDKI---PQPDVVSYNIMLSCILLNSDDVVAAF---------DFF----- 62
           +  L   +   D I         +   +   +L   +++V  F          F      
Sbjct: 43  KSILSKEE--IDHIIMSKDAVSGTL-RLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIK 99

Query: 63  --QRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKA 120
             QR P   T  +        Q+  +     +F     K +VS            +L +A
Sbjct: 100 TEQRQPSMMTRMYIE------QRDRLYNDNQVF----AKYNVSRLQPYL------KLRQA 143

Query: 121 VELFKVAPVKSVVAWTAMISGYMK-FGKVDLA------EKLFDEMPTKNLVTWNAMIAGY 173
             L ++ P K+V+     I G +   GK  +A       K+  +M  K  + W  +    
Sbjct: 144 --LLELRPAKNVL-----IDG-VLGSGKTWVALDVCLSYKVQCKMDFK--IFW--LNLKN 191

Query: 174 VENSWAEDGLKLLRMMIGL--GIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCK 231
             +   E    +L M+  L   I PN +S         H S+++L  ++H +        
Sbjct: 192 CNS--PET---VLEMLQKLLYQIDPNWTSR------SDHSSNIKL--RIHSI-------- 230

Query: 232 DTTALTPLIS--MYCKC----GDLEDA---------CKLFLEIQRKDVVTWNAMISGYAQ 276
               L  L+    Y  C     ++++A         CK+ L  + K V   + + +    
Sbjct: 231 -QAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVT--DFLSAATTT 287

Query: 277 HGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPD 336
           H   +          DE          +LLL         L  +  D           P 
Sbjct: 288 HISLDHHSMTLTP--DEVK--------SLLLKY-------LDCRPQDL----------P- 319

Query: 337 HYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLD-LAEFAAMNLFN 395
                 +           + +I +   +   A +         H   D L      +L  
Sbjct: 320 REVLTTNPR--------RLSIIAES-IRDGLATWDNWK-----HVNCDKLTTIIESSLNV 365

Query: 396 LNPANAAGCYVQLANIYAAMKKWDDVARI---RLSMKENNVVKMPGYSWIEVGTVVHEFR 452
           L PA     + +L+ ++           I    LS+   +V+K       +V  VV++  
Sbjct: 366 LEPAEYRKMFDRLS-VFP-----PSA-HIPTILLSLIWFDVIK------SDVMVVVNKLH 412

Query: 453 S----GDRVHPELVSIH----------EKLKELEKRMKLAGY-----------VPDLE-- 485
                  +     +SI           E    L + + +  Y           +P     
Sbjct: 413 KYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSI-VDHYNIPKTFDSDDLIPPYLDQ 471

Query: 486 -----FALHAVGEEVKEQLLLFHSEKLAIAFGLIKVPL---GTPIRVFKNLR-VCGDCHR 536
                   H    E  E++ LF    + + F  ++  +    T      ++         
Sbjct: 472 YFYSHIGHHLKNIEHPERMTLF--RMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKF 529

Query: 537 ATKYISAIE-KREIIVRDTTRF 557
              YI   + K E +V     F
Sbjct: 530 YKPYICDNDPKYERLVNAILDF 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 = 2e-06
 Identities = 12/33 (36%), Positives = 18/33 (54%), Gaps = 5/33 (15%)

Query: 466 EK--LKELEKRMKLAGYVPDLEFALHAVGEEVK 496
           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 = 46.0 bits (109), Expect = 3e-05
 Identities = 45/386 (11%), Positives = 99/386 (25%), Gaps = 77/386 (19%)

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 TAMISGYMKFGKVDLAE-------KLFDEMPTKNLVTWNAMIAGYVENSWAEDGLKLLRM 188
             ++S ++     +              E        +   +               L  
Sbjct: 238 DQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSS 297

Query: 189 MIGLGIRPNASSLSSVLLGCSHLS------SLQLGKQVHQLVFKSPLCKDTTALTPLISM 242
           + GL    ++  L       +          L +  ++ ++    P   +       ++ 
Sbjct: 298 INGLE--KSSDLLLC--KADTLFVRSRFIDVLAITTKILEI---DP--YNLDVYPLHLAS 348

Query: 243 YCKCGDLEDACKLF---LEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDS 299
             + G+      +    ++   +  VTW A+   Y    K  +A R F K          
Sbjct: 349 LHESGEKNKLYLISNDLVDRHPEKAVTWLAVGIYYLCVNKISEARRYFSK---------- 398

Query: 300 ITFVALLLACNHAG--------LVDLG-----IQYFDSMVNDYGIAAKPDHYTCMVDL-- 344
               +  +                  G     I  + +             +   + L  
Sbjct: 399 ----SSTMDPQFGPAWIGFAHSFAIEGEHDQAISAYTT-----AARLFQGTHLPYLFLGM 449

Query: 345 -LGRAGKLVEAVDLIKK-MPFKPQ-PAIFGTLLSACRVHKRLDLAEFA-------AMNLF 394
              + G ++ A + ++         P +   L         +  A               
Sbjct: 450 QHMQLGNILLANEYLQSSYALFQYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQ 509

Query: 395 NLNPANAAGCYVQLANIYAAMKKWDD 420
           +     AA  +  L + Y  +K +D 
Sbjct: 510 SNEKPWAA-TWANLGHAYRKLKMYDA 534

>3v6t_A DHAX3; tandem repeats, DNA specific binding protein, DNA binding DNA complex; HET: DNA; 1.85A {Xanthomonas} PDB: 3v6p_A 2kq5_A Length = 499

 Score = 43.2 bits (102), Expect = 2e-04
 Identities = 47/446 (10%), Positives = 114/446 (25%), Gaps = 82/446 (18%)

Query: 8   NWNSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQRLPI 67
           +   +L    +      +A   +            +  + + L  + VVA          
Sbjct: 34  DTGQLLKIAKRGGVTAVEAVHAWRNA---------LTGAPLNLTPEQVVA---------- 74

Query: 68  KDTASWNTMISGFVQKKNMAKARDLF---LAMPEKNSVSWSAMISGYIECGQLDKAVELF 124
                  +   G    + + +   +      +  +  V+ ++   G      + + + + 
Sbjct: 75  -----IASHDGGKQALETVQRLLPVLCQAHGLTPQQVVAIASHDGGKQALETVQRLLPVL 129

Query: 125 KVA----PVKSVVAWTAMISGYMKFGKVDLAEKLFD---EMPTKNLVTWNAMIAGYVENS 177
             A    P + VVA  +   G      V     +      +  + +V   +   G     
Sbjct: 130 CQAHGLTP-EQVVAIASHDGGKQALETVQALLPVLCQAHGLTPEQVVAIASNGGGKQALE 188

Query: 178 WAEDGLKLLRMMIGLGIRPN-ASSLSSVLLGCSHLSSLQLGK---------QVHQLVFKS 227
             +  L +L    GL   P    +++S   G        L           Q H L   +
Sbjct: 189 TVQRLLPVLCQAHGL--TPQQVVAIAS--NGGGKQ---ALETVQRLLPVLCQAHGL---T 238

Query: 228 PLCKDTTALTPLISMYCKCGDLEDACKLF---LEIQRKDVVTWNAMISGYAQHGKGEKAL 284
           P  +   A+            ++    +      +  + VV   +   G       ++ L
Sbjct: 239 P--QQVVAIASNGGGKQALETVQRLLPVLCQAHGLTPQQVVAIASNSGGKQALETVQRLL 296

Query: 285 RLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYG--IAAKPDH---YT 339
            +    +  G+ P  +       A    G     ++    ++          P       
Sbjct: 297 PVLC--QAHGLTPQQVV------AIASNGGGKQALETVQRLLPVLCQAHGLTPQQVVAIA 348

Query: 340 CMVDLLGRAGKLVEAV-DLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFN--- 395
                      +   +  L +     P+  +   + S     + L+  +   + +     
Sbjct: 349 SHDGGKQALETVQRLLPVLCQAHGLTPEQVV--AIASNGGGKQALETVQ-RLLPVLCQAH 405

Query: 396 -LNPANAAGCYVQLANIYAAMKKWDD 420
            L P               A++    
Sbjct: 406 GLTPEQVVA-IASHDGGKQALETVQR 430

>3v6t_A DHAX3; tandem repeats, DNA specific binding protein, DNA binding DNA complex; HET: DNA; 1.85A {Xanthomonas} PDB: 3v6p_A 2kq5_A Length = 499

 Score = 41.3 bits (97), Expect = 8e-04
 Identities = 44/436 (10%), Positives = 105/436 (24%), Gaps = 80/436 (18%)

Query: 15  GFAKQR-GKLKDAQELFDKI----PQPDVVSYNIMLSCILLNSDDVVAAFDFFQR---LP 66
              KQ    ++    +  +     PQ  VV+            + V        +   L 
Sbjct: 79  DGGKQALETVQRLLPVLCQAHGLTPQ-QVVAIASHDGG-KQALETVQRLLPVLCQAHGLT 136

Query: 67  IKDTASWNTMISGFVQKKNMAKARDLF---LAMPEKNSVSWSAMISGYIECGQLDKAVEL 123
            +   +  +   G    + +     +      +  +  V+ ++   G      + + + +
Sbjct: 137 PEQVVAIASHDGGKQALETVQALLPVLCQAHGLTPEQVVAIASNGGGKQALETVQRLLPV 196

Query: 124 FKVAPV---KSVVAWTAMISGYMKFGKVDLAEKLFD---EMPTKNLVTWNAMIAGYVENS 177
              A     + VVA  +   G      V     +      +  + +V   +   G     
Sbjct: 197 LCQAHGLTPQQVVAIASNGGGKQALETVQRLLPVLCQAHGLTPQQVVAIASNGGGKQA-- 254

Query: 178 WAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALT 237
                         L                  L  L    Q H L   +P  +   A+ 
Sbjct: 255 --------------LETVQRL------------LPVL---CQAHGL---TP--QQVVAIA 280

Query: 238 PLISMYCKCGDLEDACKLF---LEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEG 294
                      ++    +      +  + VV   +   G       ++ L +  +    G
Sbjct: 281 SNSGGKQALETVQRLLPVLCQAHGLTPQQVVAIASNGGGKQALETVQRLLPVLCQAH--G 338

Query: 295 MKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYG--IAAKPDH---YTCMVDLLGRAG 349
           + P       + +A +  G   L       +           P+                
Sbjct: 339 LTPQQ----VVAIASHDGGKQALE-TVQRLL-PVLCQAHGLTPEQVVAIASNGGGKQALE 392

Query: 350 KLVEAV-DLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFN----LNPANAAGC 404
            +   +  L +     P+  +   + S     + L+  +   + +      L P      
Sbjct: 393 TVQRLLPVLCQAHGLTPEQVV--AIASHDGGKQALETVQ-RLLPVLCQAHGLTPQQVVA- 448

Query: 405 YVQLANIYAAMKKWDD 420
                    A++    
Sbjct: 449 IASNGGGRPALESIVA 464

>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 = 42.5 bits (101), Expect = 3e-04
 Identities = 20/157 (12%), Positives = 59/157 (37%), Gaps = 13/157 (8%)

Query: 13  LAGFAKQRGKLKDAQELFDKI--PQPDVVSYNIMLSCILLNSDDVVAAFDFFQR---LPI 67
           LA    Q G  + A+    ++   +PD     ++LS I      +  +  F         
Sbjct: 5   LAHREYQAGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNP 64

Query: 68  KDTASWNTMISGFVQKKNMAKARDLF---LAMPEKNSVSWSAMISGYIECGQLDKAVELF 124
               +++ + + + ++  + +A + +   L +       +  + +  +  G ++ AV+ +
Sbjct: 65  LLAEAYSNLGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAY 124

Query: 125 KVA----PVKSVVAWTAMISGYMKFGKVDLAEKLFDE 157
             A    P       + + +     G+++ A+  + +
Sbjct: 125 VSALQYNP-DLYCVRSDLGNLLKALGRLEEAKACYLK 160

>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 = 41.8 bits (99), Expect = 4e-04
 Identities = 33/197 (16%), Positives = 58/197 (29%), Gaps = 37/197 (18%)

Query: 243 YCKCGDLEDACKLF---LEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDS 299
             + GD E A +        +  +      + S + Q  + +++                
Sbjct: 9   EYQAGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTL---------- 58

Query: 300 ITFVALLLACNHA-GLVDLGIQY-----FDSMVNDYG--IAAKPDH---YTCMVDLLGRA 348
               A+      A    +LG  Y         +  Y   +  KPD    Y  +   L  A
Sbjct: 59  ----AIKQNPLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLAAALVAA 114

Query: 349 GKLVEAVDLIKK-MPFKPQPAIF----GTLLSACRVHKRLDLAEFAAMNLFNLNPANAAG 403
           G +  AV      + + P         G LL A     RL+ A+   +      P  A  
Sbjct: 115 GDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKAL---GRLEEAKACYLKAIETQPNFAV- 170

Query: 404 CYVQLANIYAAMKKWDD 420
            +  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: 330 GIAAKPDH---YTCMVDLLGRAGKLVEAVDLIKK-MPFKPQPAIFGTLL-SACRVHKRLD 384
           G  + P H      + ++    G + EAV L +K +   P+ A   + L S  +   +L 
Sbjct: 1   GPGSCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQ 60

Query: 385 LAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDD 420
            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	571
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.97
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.96
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.96
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.95
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.92
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.92
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.92
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.91
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.91
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.87
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.87
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.87
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.84
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.83
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.82
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.82
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.81
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.8
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.79
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.79
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.78
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.78
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.78
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.78
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.78
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.78
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.76
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.76
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.75
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.73
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.72
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.71
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.66
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.65
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.65
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.63
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.63
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.62
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.61
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.6
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.56
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.56
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.55
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.55
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.55
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.54
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.54
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.53
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.53
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.53
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.53
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.51
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.51
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.51
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.48
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.48
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.48
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.48
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.47
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.47
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.46
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.43
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.41
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.41
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.4
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.4
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.39
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.38
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.35
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.35
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.34
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.33
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.33
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.31
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.31
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.28
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.27
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.27
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.26
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.23
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.18
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.17
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.16
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.15
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.12
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.08
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.08
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.04
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.03
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.03
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.01
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.01
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.01
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.01
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.98
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.92
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.91
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.9
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.89
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.88
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.88
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.88
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.85
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.84
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.83
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.82
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.8
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.8
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.79
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.77
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.77
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.75
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.75
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.74
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.72
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.72
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.71
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.69
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.69
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.69
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.68
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.68
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.67
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.64
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.62
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.61
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.58
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.58
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.55
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.54
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.53
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.52
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.5
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.5
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.49
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.47
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.46
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.46
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.46
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.45
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.44
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.43
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.42
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.42
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.42
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.41
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.41
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.39
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.38
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.36
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.35
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.35
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.35
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.35
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.33
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.32
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.32
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.32
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.31
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.31
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.25
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.25
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.24
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.24
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.23
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.22
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.22
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.2
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.2
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.18
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.18
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.18
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.18
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.17
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.15
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.12
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.1
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.1
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.09
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.09
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.05
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.04
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.02
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.02
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.01
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.0
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.99
3k9i_A	117	BH0479 protein; putative protein binding protein,	97.95
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.94
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.93
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.9
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.88
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.86
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.84
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.73
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.67
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.66
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.64
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.64
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.62
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.52
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.45
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.39
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.36
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.35
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.35
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.32
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.31
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.29
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.14
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.13
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.1
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.08
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.05
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.0
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.94
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.51
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.47
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	96.42
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.28
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.28
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.21
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	96.17
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	96.16
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	96.14
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	95.94
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	95.9
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	95.84
1pc2_A	152	Mitochondria fission protein; unknown function; NM	95.74
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	95.01
3ltj_A	201	Alpharep-4; protein engineering, heat-like repeat,	94.89
3ltm_A	211	Alpha-REP4; protein engineering, heat-like repeat,	94.82
3ltj_A	201	Alpharep-4; protein engineering, heat-like repeat,	94.55
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	94.08
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	93.77
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	93.71
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	93.52
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	93.25
3ltm_A	211	Alpha-REP4; protein engineering, heat-like repeat,	93.24
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	93.1
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	92.5
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	91.22
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	89.87
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	88.8
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	88.71
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	88.44
2p58_C	116	Putative type III secretion protein YSCG; type III	88.41
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	88.07
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	87.62
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	87.26
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	86.52
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	85.88
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	85.8
2p58_C	116	Putative type III secretion protein YSCG; type III	85.46
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	85.22
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	83.77
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	81.44
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	81.36
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	81.08
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	80.99
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	80.57

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=2.6e-41  Score=360.30  Aligned_cols=423  Identities=12%  Similarity=0.024  Sum_probs=380.3

Q ss_pred             CCCCcchHHHHHHHHHhCCCCHHHHHHHHhhCCC--CChhhHHHHHHHHHcCCCCHHHHHHHHhhC--CCCChhhHHHHH
Q 008280            2 NVKTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQ--PDVVSYNIMLSCILLNSDDVVAAFDFFQRL--PIKDTASWNTMI   77 (571)
Q Consensus         2 ~~~~~~~~~~l~~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~ll~~~~~~~g~~~~A~~~~~~m--~~~d~~~~~~li   77 (571)
                      |.+++..++.++..|.+.| ++++|.++|+++..  ||..+++.++..|.+. |++++|+.+|+++  ..+|+.+++.++
T Consensus        80 ~~~~~~~~~~~~~~~~~~g-~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~~~~~~~~~~l~  157 (597)
T 2xpi_A           80 SLSREDYLRLWRHDALMQQ-QYKCAAFVGEKVLDITGNPNDAFWLAQVYCCT-GDYARAKCLLTKEDLYNRSSACRYLAA  157 (597)
T ss_dssp             --CHHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHT-TCHHHHHHHHHHTCGGGTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHcc-CchHHHHHHHHHHhhCCCchHHHHHHHHHHHc-CcHHHHHHHHHHHhccccchhHHHHHH
Confidence            4467888999999999999 99999999999964  8889999999999999 9999999999999  568999999999


Q ss_pred             HHHHcCCCHHHHHHHHhhCCCC-------------------CcchHHHHHHHHHHcCChHHHHHHHhhCCCC---ChhHH
Q 008280           78 SGFVQKKNMAKARDLFLAMPEK-------------------NSVSWSAMISGYIECGQLDKAVELFKVAPVK---SVVAW  135 (571)
Q Consensus        78 ~~~~~~g~~~~A~~~~~~m~~~-------------------d~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~  135 (571)
                      .+|.+.|++++|+++|+++...                   +..+|+.++.+|.+.|++++|+++|+++...   +...+
T Consensus       158 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~  237 (597)
T 2xpi_A          158 FCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVDAKCYEAF  237 (597)
T ss_dssp             HHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             HHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCchhhHHH
Confidence            9999999999999999965433                   4789999999999999999999999988632   23333


Q ss_pred             HH--------------------------------------HHHHHHhcCCHHHHHHHHhhCCC--CCHHHHHHHHHHHHH
Q 008280          136 TA--------------------------------------MISGYMKFGKVDLAEKLFDEMPT--KNLVTWNAMIAGYVE  175 (571)
Q Consensus       136 ~~--------------------------------------li~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~  175 (571)
                      ..                                      ++.+|.+.|++++|.++|+++.+  +|..+|+.++.+|.+
T Consensus       238 ~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~  317 (597)
T 2xpi_A          238 DQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGLEKSSDLLLCKADTLFV  317 (597)
T ss_dssp             HHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTGGGCHHHHHHHHHHHHH
T ss_pred             HHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHHHhhcCCchHHHHHHHHHHHHH
Confidence            32                                      35567788999999999999987  899999999999999


Q ss_pred             cCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHH
Q 008280          176 NSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKL  255 (571)
Q Consensus       176 ~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~  255 (571)
                      .|++++|+++|+++.+.+ +.+..++..++.++...|+.++|..+++.+.+.. +.+..+++.++.+|.++|++++|.++
T Consensus       318 ~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~  395 (597)
T 2xpi_A          318 RSRFIDVLAITTKILEID-PYNLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKISEARRY  395 (597)
T ss_dssp             TTCHHHHHHHHHHHHHHC-TTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhccHHHHHHH
Confidence            999999999999999865 4477889999999999999999999999998764 66788999999999999999999999


Q ss_pred             HHhhC---CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCC
Q 008280          256 FLEIQ---RKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIA  332 (571)
Q Consensus       256 ~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~  332 (571)
                      |+++.   ..+..+|+.++.+|.+.|++++|+++|+++.+.+ +.+..++..++.+|.+.|++++|.++|+++.+.  .+
T Consensus       396 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~  472 (597)
T 2xpi_A          396 FSKSSTMDPQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNILLANEYLQSSYAL--FQ  472 (597)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CC
T ss_pred             HHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CC
Confidence            99875   3568899999999999999999999999998864 447789999999999999999999999999874  35


Q ss_pred             CChHhHHHHHHHHHHcCCHHHHHHHHHhC-------CCCCC--HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCch
Q 008280          333 AKPDHYTCMVDLLGRAGKLVEAVDLIKKM-------PFKPQ--PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAG  403 (571)
Q Consensus       333 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~-------~~~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~  403 (571)
                      .++.+|..++.+|.+.|++++|.++|+++       +..|+  ..+|..++.+|...|++++|+..++++++.+|+++. 
T Consensus       473 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~-  551 (597)
T 2xpi_A          473 YDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLSTNDAN-  551 (597)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSCCHH-
T ss_pred             CChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChH-
Confidence            57889999999999999999999999988       45677  789999999999999999999999999999999988 


Q ss_pred             hHHHHHHHHhhccChhHHHHHHHHHHhCC
Q 008280          404 CYVQLANIYAAMKKWDDVARIRLSMKENN  432 (571)
Q Consensus       404 ~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  432 (571)
                      +|..++.+|.+.|++++|.+.++++.+..
T Consensus       552 ~~~~l~~~~~~~g~~~~A~~~~~~~l~~~  580 (597)
T 2xpi_A          552 VHTAIALVYLHKKIPGLAITHLHESLAIS  580 (597)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHhcC
Confidence            99999999999999999999999998743

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=4.5e-37  Score=327.58  Aligned_cols=405  Identities=9%  Similarity=0.007  Sum_probs=358.9

Q ss_pred             CCcchHHHHHHHHHhCCCCHHHHHHHHhhCC--CCChhhHHHHHHHHHcCCCCHHHHHHHHhhCCCC-------------
Q 008280            4 KTTVNWNSVLAGFAKQRGKLKDAQELFDKIP--QPDVVSYNIMLSCILLNSDDVVAAFDFFQRLPIK-------------   68 (571)
Q Consensus         4 ~~~~~~~~l~~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~ll~~~~~~~g~~~~A~~~~~~m~~~-------------   68 (571)
                      |+..++..++.+|.+.| ++++|.++|+++.  .+++.+|+.++.+|.+. |++++|+++|+++...             
T Consensus       115 p~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~~~~~~~~~~~~~~  192 (597)
T 2xpi_A          115 GNPNDAFWLAQVYCCTG-DYARAKCLLTKEDLYNRSSACRYLAAFCLVKL-YDWQGALNLLGETNPFRKDEKNANKLLMQ  192 (597)
T ss_dssp             CCHHHHHHHHHHHHHTT-CHHHHHHHHHHTCGGGTCHHHHHHHHHHHHHT-TCHHHHHHHHCSSCTTC----------CC
T ss_pred             CCchHHHHHHHHHHHcC-cHHHHHHHHHHHhccccchhHHHHHHHHHHHH-hhHHHHHHHHhccCCcccccccccccccc
Confidence            56688899999999999 9999999999994  48899999999999999 9999999999965443             


Q ss_pred             ------ChhhHHHHHHHHHcCCCHHHHHHHHhhCCC--CC-cchHHHH--------------------------------
Q 008280           69 ------DTASWNTMISGFVQKKNMAKARDLFLAMPE--KN-SVSWSAM--------------------------------  107 (571)
Q Consensus        69 ------d~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~d-~~~~~~l--------------------------------  107 (571)
                            +..+|+.++.+|.+.|++++|+++|++|.+  |+ ...+..+                                
T Consensus       193 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~  272 (597)
T 2xpi_A          193 DGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVDAKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLR  272 (597)
T ss_dssp             CSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHH
T ss_pred             ccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCchhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHH
Confidence                  488999999999999999999999999964  32 2333322                                


Q ss_pred             ------HHHHHHcCChHHHHHHHhhCCC--CChhHHHHHHHHHHhcCCHHHHHHHHhhCCC---CCHHHHHHHHHHHHHc
Q 008280          108 ------ISGYIECGQLDKAVELFKVAPV--KSVVAWTAMISGYMKFGKVDLAEKLFDEMPT---KNLVTWNAMIAGYVEN  176 (571)
Q Consensus       108 ------i~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~  176 (571)
                            +..|.+.|++++|+++|+++..  +++.+++.++.+|.+.|++++|..+|+++.+   .+..+|+.++.+|.+.
T Consensus       273 ~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~  352 (597)
T 2xpi_A          273 SLYMLKLNKTSHEDELRRAEDYLSSINGLEKSSDLLLCKADTLFVRSRFIDVLAITTKILEIDPYNLDVYPLHLASLHES  352 (597)
T ss_dssp             HHHHTTSCTTTTHHHHHHHHHHHHTSTTGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCCTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCcchHHHHHHHHHHhhcCCchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcCcccHHHHHHHHHHHHHh
Confidence                  4556678999999999999986  7889999999999999999999999999863   4678999999999999


Q ss_pred             CChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHH
Q 008280          177 SWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLF  256 (571)
Q Consensus       177 g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~  256 (571)
                      |++++|+.+|+++.+.. +.+..++..+...+.+.|++++|..+++.+.+.. +.+..+++.++.+|.+.|++++|.++|
T Consensus       353 g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~  430 (597)
T 2xpi_A          353 GEKNKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAY  430 (597)
T ss_dssp             TCHHHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            99999999999998653 5578899999999999999999999999998864 556789999999999999999999999


Q ss_pred             HhhCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhc---C
Q 008280          257 LEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDY---G  330 (571)
Q Consensus       257 ~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~---~  330 (571)
                      +++.+   .+..+|+.++.+|.+.|++++|+++|+++.+.. +.+..+|..++..+.+.|++++|.++|+++.+..   +
T Consensus       431 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~  509 (597)
T 2xpi_A          431 TTAARLFQGTHLPYLFLGMQHMQLGNILLANEYLQSSYALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQ  509 (597)
T ss_dssp             HHHHHTTTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSC
T ss_pred             HHHHHhCccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccc
Confidence            98763   478899999999999999999999999998864 4478899999999999999999999999997642   4


Q ss_pred             CCCC--hHhHHHHHHHHHHcCCHHHHHHHHHhC-CC-CCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHH
Q 008280          331 IAAK--PDHYTCMVDLLGRAGKLVEAVDLIKKM-PF-KPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYV  406 (571)
Q Consensus       331 ~~~~--~~~~~~li~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~  406 (571)
                      ..|+  ..+|..++.+|.+.|++++|.+.|+++ .. +.+..+|..+..+|...|++++|...++++++++|+++. .+.
T Consensus       510 ~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~p~~~~-~~~  588 (597)
T 2xpi_A          510 SNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLSTNDANVHTAIALVYLHKKIPGLAITHLHESLAISPNEIM-ASD  588 (597)
T ss_dssp             CCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH-HHH
T ss_pred             cchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCChH-HHH
Confidence            5677  789999999999999999999999987 22 247899999999999999999999999999999999988 999


Q ss_pred             HHHHHHhh
Q 008280          407 QLANIYAA  414 (571)
Q Consensus       407 ~l~~~~~~  414 (571)
                      .|+.+|..
T Consensus       589 ~l~~~~~~  596 (597)
T 2xpi_A          589 LLKRALEE  596 (597)
T ss_dssp             HHHHTTC-
T ss_pred             HHHHHHhc
Confidence            99888753

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.97  E-value=2.9e-27  Score=237.67  Aligned_cols=362  Identities=15%  Similarity=0.105  Sum_probs=263.0

Q ss_pred             HHcCCCCHHHHHHHHhhCC---CCChhhHHHHHHHHHcCCCHHHHHHHHhhCCC---CCcchHHHHHHHHHHcCChHHHH
Q 008280           48 ILLNSDDVVAAFDFFQRLP---IKDTASWNTMISGFVQKKNMAKARDLFLAMPE---KNSVSWSAMISGYIECGQLDKAV  121 (571)
Q Consensus        48 ~~~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~---~d~~~~~~li~~~~~~g~~~~A~  121 (571)
                      +.+. |++++|++.++++.   +.+...+..+...+.+.|++++|...++...+   .+..+|..+..+|.+.|++++|+
T Consensus         9 ~~~~-g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~p~~~~~~~~lg~~~~~~g~~~~A~   87 (388)
T 1w3b_A            9 EYQA-GDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQLQEAI   87 (388)
T ss_dssp             HHHH-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHC-CCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCHHHHH
Confidence            3444 66666666665543   22344555555666666666666666655432   34556777777777777777777


Q ss_pred             HHHhhCC---CCChhHHHHHHHHHHhcCCHHHHHHHHhhCCC--C-CHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCC
Q 008280          122 ELFKVAP---VKSVVAWTAMISGYMKFGKVDLAEKLFDEMPT--K-NLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIR  195 (571)
Q Consensus       122 ~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  195 (571)
                      +.|+++.   +.+..++..+...|.+.|++++|.+.|+++.+  | +...+..+...+...|++++|++.|+++.... +
T Consensus        88 ~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p  166 (388)
T 1w3b_A           88 EHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQ-P  166 (388)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHC-T
T ss_pred             HHHHHHHHcCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-C
Confidence            7776553   33445667777777777777777777766653  3 34466667777777777777777777777642 2


Q ss_pred             CCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhC---CCChhhHHHHHH
Q 008280          196 PNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQ---RKDVVTWNAMIS  272 (571)
Q Consensus       196 pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~---~~~~~~~~~li~  272 (571)
                      .+..++..+...+...|++++|...++.+++.. +.+...+..+...+...|++++|...|++..   ..+..+|..+..
T Consensus       167 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~  245 (388)
T 1w3b_A          167 NFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLAC  245 (388)
T ss_dssp             TCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCCHHHHHHHHH
Confidence            345667777777777777777777777777764 4456677778888888888888888888664   235678888888


Q ss_pred             HHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHH
Q 008280          273 GYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLV  352 (571)
Q Consensus       273 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  352 (571)
                      .|...|++++|+..|+++.+.+ +.+..++..+..++.+.|++++|...|+++.+.  .+.+..++..+...+.+.|+++
T Consensus       246 ~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~  322 (388)
T 1w3b_A          246 VYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRL--CPTHADSLNNLANIKREQGNIE  322 (388)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTCHH
T ss_pred             HHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CcccHHHHHHHHHHHHHcCCHH
Confidence            8888899999999888888753 224667888888888889999999998888763  4566788888888888999999


Q ss_pred             HHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhcc
Q 008280          353 EAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMK  416 (571)
Q Consensus       353 ~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g  416 (571)
                      +|.+.++++ ...| +..++..+...+...|++++|...++++++.+|+.+. +|..++.++...|
T Consensus       323 ~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~p~~~~-a~~~lg~~~~~~~  387 (388)
T 1w3b_A          323 EAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFAD-AYSNMGNTLKEMQ  387 (388)
T ss_dssp             HHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCTTCHH-HHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHH-HHHhHHHHHHHcc
Confidence            999888887 3334 4678888888889999999999999999999998887 8888888877665

>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=2.7e-26  Score=230.56  Aligned_cols=349  Identities=14%  Similarity=0.100  Sum_probs=304.8

Q ss_pred             HHHHHHcCCCHHHHHHHHhhCCC--C-CcchHHHHHHHHHHcCChHHHHHHHhhCC---CCChhHHHHHHHHHHhcCCHH
Q 008280           76 MISGFVQKKNMAKARDLFLAMPE--K-NSVSWSAMISGYIECGQLDKAVELFKVAP---VKSVVAWTAMISGYMKFGKVD  149 (571)
Q Consensus        76 li~~~~~~g~~~~A~~~~~~m~~--~-d~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~  149 (571)
                      +...+.+.|++++|++.|+.+.+  | +...+..+...+.+.|++++|...++...   +.+..++..+...|.+.|+++
T Consensus         5 ~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~p~~~~~~~~lg~~~~~~g~~~   84 (388)
T 1w3b_A            5 LAHREYQAGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQLQ   84 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCHH
Confidence            35567789999999999988743  4 45677778888999999999999997664   556789999999999999999


Q ss_pred             HHHHHHhhCCC--C-CHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCC-HhHHHHHHHHHhccCchHHHHHHHHHHH
Q 008280          150 LAEKLFDEMPT--K-NLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPN-ASSLSSVLLGCSHLSSLQLGKQVHQLVF  225 (571)
Q Consensus       150 ~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd-~~t~~~ll~~~~~~~~~~~a~~~~~~~~  225 (571)
                      +|...|+++.+  | +..+|..++.++.+.|++++|++.|+++.+.  .|+ ...+..+...+...|++++|...+..++
T Consensus        85 ~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al  162 (388)
T 1w3b_A           85 EAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQY--NPDLYCVRSDLGNLLKALGRLEEAKACYLKAI  162 (388)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHH--CTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            99999998863  3 5568999999999999999999999999875  454 4456677778889999999999999999


Q ss_pred             hCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHH
Q 008280          226 KSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITF  302 (571)
Q Consensus       226 ~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~  302 (571)
                      +.. +.+..++..+...|.+.|++++|...|+++.+   .+...|..+...+...|++++|+..|++..... +.+..++
T Consensus       163 ~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~  240 (388)
T 1w3b_A          163 ETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVH  240 (388)
T ss_dssp             HHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCCHHHH
Confidence            875 55678899999999999999999999998763   456789999999999999999999999998753 2356788


Q ss_pred             HHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC--CCCCCHhHHHHHHHHHHhc
Q 008280          303 VALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM--PFKPQPAIFGTLLSACRVH  380 (571)
Q Consensus       303 ~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~  380 (571)
                      ..+..++...|++++|...|+++.+.  .+.++..|..++..|.+.|++++|.+.|+++  ..+++..+|..+...+...
T Consensus       241 ~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~  318 (388)
T 1w3b_A          241 GNLACVYYEQGLIDLAIDTYRRAIEL--QPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQ  318 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHT--CSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHc
Confidence            89999999999999999999999863  3445788999999999999999999999988  2235678999999999999


Q ss_pred             CCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhC
Q 008280          381 KRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKEN  431 (571)
Q Consensus       381 g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  431 (571)
                      |++++|+..++++++..|+++. ++..++.+|.+.|++++|.+.++++.+.
T Consensus       319 g~~~~A~~~~~~al~~~p~~~~-~~~~l~~~~~~~g~~~~A~~~~~~a~~~  368 (388)
T 1w3b_A          319 GNIEEAVRLYRKALEVFPEFAA-AHSNLASVLQQQGKLQEALMHYKEAIRI  368 (388)
T ss_dssp             TCHHHHHHHHHHHTTSCTTCHH-HHHHHHHHHHTTTCCHHHHHHHHHHHTT
T ss_pred             CCHHHHHHHHHHHHhcCCCcHH-HHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            9999999999999999999988 9999999999999999999999998863

>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=1.1e-27  Score=245.78  Aligned_cols=183  Identities=12%  Similarity=0.166  Sum_probs=154.3

Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccC---------chHHHHHHHHHHHhCCCCCCcc
Q 008280          164 VTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLS---------SLQLGKQVHQLVFKSPLCKDTT  234 (571)
Q Consensus       164 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~---------~~~~a~~~~~~~~~~g~~~~~~  234 (571)
                      ..++.+|.+|++.|++++|+++|++|.+.|++||..||+++|.+|+..+         .++.|.++|+.|.+.|+.||..
T Consensus        27 ~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~Pd~~  106 (501)
T 4g26_A           27 ALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEA  106 (501)
T ss_dssp             HHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCCCCHH
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCCCCHH
Confidence            3577788888888888888888888888888888888888888887654         3677888888888888888888


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHhhC----CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 008280          235 ALTPLISMYCKCGDLEDACKLFLEIQ----RKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACN  310 (571)
Q Consensus       235 ~~~~li~~y~~~g~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~  310 (571)
                      +|++||.+|++.|++++|.++|++|.    .||..+||++|.+|++.|+.++|.++|++|.+.|+.||..||+.|+.+|+
T Consensus       107 tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~  186 (501)
T 4g26_A          107 TFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSM  186 (501)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHh
Confidence            88888888888888888888888886    36888888888888888888888888888888888888888888888888


Q ss_pred             hcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHH
Q 008280          311 HAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGR  347 (571)
Q Consensus       311 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~  347 (571)
                      +.|++++|.+++++|.+. +..|+..+|+.++..+..
T Consensus       187 ~~g~~d~A~~ll~~Mr~~-g~~ps~~T~~~l~~~F~s  222 (501)
T 4g26_A          187 DTKNADKVYKTLQRLRDL-VRQVSKSTFDMIEEWFKS  222 (501)
T ss_dssp             HTTCHHHHHHHHHHHHHH-TSSBCHHHHHHHHHHHHS
T ss_pred             hCCCHHHHHHHHHHHHHh-CCCcCHHHHHHHHHHHhc
Confidence            888888888888888775 888888888888887765

>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=1.4e-26  Score=237.50  Aligned_cols=200  Identities=12%  Similarity=0.114  Sum_probs=171.4

Q ss_pred             hHHHHHHHHHHHCCCCCCH-hHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCC---------H
Q 008280          180 EDGLKLLRMMIGLGIRPNA-SSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGD---------L  249 (571)
Q Consensus       180 ~~A~~~~~~m~~~g~~pd~-~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~---------~  249 (571)
                      ..+..+.+++.+.++.+.+ ..++.+|.+|++.|++++|.++|++|.+.|+.||..+||+||.+|++.+.         +
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            3455667778777766544 46888999999999999999999999999999999999999999998765         6


Q ss_pred             HHHHHHHHhhC----CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHh
Q 008280          250 EDACKLFLEIQ----RKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSM  325 (571)
Q Consensus       250 ~~A~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~  325 (571)
                      +.|.++|++|.    .||..+||+||.+|++.|++++|+++|++|.+.|+.||..||+.+|.+|++.|++++|.++|++|
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 008280          326 VNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM---PFKPQPAIFGTLLSACRVH  380 (571)
Q Consensus       326 ~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~---~~~p~~~~~~~l~~~~~~~  380 (571)
                      .+. |+.||..+|++|+.+|++.|++++|.+++++|   +..|+..||+.++..|...
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            886 99999999999999999999999999999999   7889999999999988754

>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=9.3e-23  Score=208.89  Aligned_cols=316  Identities=12%  Similarity=0.095  Sum_probs=219.6

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHhhCC---CCChhHHHHHHHHHHhcCCHHHHHHHHhhCCC---CCHHHHHHHHHHHHHc
Q 008280          103 SWSAMISGYIECGQLDKAVELFKVAP---VKSVVAWTAMISGYMKFGKVDLAEKLFDEMPT---KNLVTWNAMIAGYVEN  176 (571)
Q Consensus       103 ~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~  176 (571)
                      +|..+...+.+.|++++|+.+|+++.   +.+..++..+..+|.+.|++++|...|+++.+   .+..+|..++..|.+.
T Consensus        28 ~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~  107 (450)
T 2y4t_A           28 KHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKMDFTAARLQRGHLLLKQ  107 (450)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHc
Confidence            33334444444444444444443332   22334444444444444444444444444332   2344555555555555


Q ss_pred             CChhHHHHHHHHHHHCCCCCCH----hHHHHH------------HHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHH
Q 008280          177 SWAEDGLKLLRMMIGLGIRPNA----SSLSSV------------LLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLI  240 (571)
Q Consensus       177 g~~~~A~~~~~~m~~~g~~pd~----~t~~~l------------l~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li  240 (571)
                      |++++|+..|+++...  .|+.    ..+..+            ...+...|++++|...++.+.+.. +.+..++..++
T Consensus       108 g~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~  184 (450)
T 2y4t_A          108 GKLDEAEDDFKKVLKS--NPSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVC-VWDAELRELRA  184 (450)
T ss_dssp             TCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHhc--CCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHH
Confidence            5555555555555543  2222    222222            334666788888888888877764 55677888899


Q ss_pred             HHHHhcCCHHHHHHHHHhhCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCC-HHHHHHH-----------
Q 008280          241 SMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPD-SITFVAL-----------  305 (571)
Q Consensus       241 ~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~l-----------  305 (571)
                      .+|.+.|++++|...|+++.+   .+..+|..++..|...|++++|+..|+++...  .|+ ...+..+           
T Consensus       185 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~~~~~~~~~~~~~  262 (450)
T 2y4t_A          185 ECFIKEGEPRKAISDLKAASKLKNDNTEAFYKISTLYYQLGDHELSLSEVRECLKL--DQDHKRCFAHYKQVKKLNKLIE  262 (450)
T ss_dssp             HHHHHTTCGGGGHHHHHHHHHHHCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCChHHHHHHHHHHHHHHHHHH
Confidence            999999999999999998763   57889999999999999999999999999875  344 3334333           


Q ss_pred             -HHHHHhcCcHHHHHHHHHHhHHhcCCCCC-----hHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHH
Q 008280          306 -LLACNHAGLVDLGIQYFDSMVNDYGIAAK-----PDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSAC  377 (571)
Q Consensus       306 -l~a~~~~g~~~~a~~~~~~~~~~~~~~~~-----~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~  377 (571)
                       ..+|.+.|++++|..+|+.+.+.   .|+     ..++..++.++.+.|++++|++.++++ ...| +..+|..+..+|
T Consensus       263 ~~~~~~~~g~~~~A~~~~~~~l~~---~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~  339 (450)
T 2y4t_A          263 SAEELIRDGRYTDATSKYESVMKT---EPSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQMEPDNVNALKDRAEAY  339 (450)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHH---CCSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhc---CCcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHH
Confidence             78899999999999999999874   344     457889999999999999999999987 3334 678999999999


Q ss_pred             HhcCCHhHHHHHHHHHhccCCCCCchhHHHHH------------HHHhhcc-----ChhHHHHHHHH
Q 008280          378 RVHKRLDLAEFAAMNLFNLNPANAAGCYVQLA------------NIYAAMK-----KWDDVARIRLS  427 (571)
Q Consensus       378 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~------------~~~~~~g-----~~~~a~~~~~~  427 (571)
                      ...|++++|...++++++++|+++. .+..++            +.|...|     +.+++.+.+++
T Consensus       340 ~~~~~~~~A~~~~~~al~~~p~~~~-~~~~l~~~~~~~~~~~~~~~y~~lg~~~~~~~~~~~~~y~~  405 (450)
T 2y4t_A          340 LIEEMYDEAIQDYETAQEHNENDQQ-IREGLEKAQRLLKQSQKRDYYKILGVKRNAKKQEIIKAYRK  405 (450)
T ss_dssp             HHTTCHHHHHHHHHHHHTTSSSCHH-HHHHHHHHHHHHHHHHSCCSGGGSCSSTTCCTTHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHhCcchHH-HHHHHHHHHHHhhcccchhHHHHhCCCccCCHHHHHHHHHH
Confidence            9999999999999999999999988 888888            4466666     45556666665

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.92  E-value=2.3e-23  Score=217.12  Aligned_cols=388  Identities=10%  Similarity=-0.011  Sum_probs=311.7

Q ss_pred             hhhHHHHHHHHHcCCCCHHHHHHHHhhCC--CCChhhHHHHHHHHHcCCCHHHHHHHHhhCCC---CCcchHHHHHHHHH
Q 008280           38 VVSYNIMLSCILLNSDDVVAAFDFFQRLP--IKDTASWNTMISGFVQKKNMAKARDLFLAMPE---KNSVSWSAMISGYI  112 (571)
Q Consensus        38 ~~~~~~ll~~~~~~~g~~~~A~~~~~~m~--~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~---~d~~~~~~li~~~~  112 (571)
                      ...|..+...+.+. |++++|+..|+++.  .||..+|..+..+|.+.|++++|+..|+++.+   .+..+|..+..+|.
T Consensus         6 a~~~~~~g~~~~~~-g~~~~A~~~~~~al~~~p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~   84 (514)
T 2gw1_A            6 ALALKDKGNQFFRN-KKYDDAIKYYNWALELKEDPVFYSNLSACYVSVGDLKKVVEMSTKALELKPDYSKVLLRRASANE   84 (514)
T ss_dssp             HHHHHHHHHHHHHT-SCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh-ccHHHHHHHHHHHHhcCccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccChHHHHHHHHHHHHHH
Confidence            34566777788899 99999999999886  37899999999999999999999999998753   35678999999999


Q ss_pred             HcCChHHHHHHHhhCC---CCChhHHHHHHHHHHhcCCHHHHHHHH----------------------------------
Q 008280          113 ECGQLDKAVELFKVAP---VKSVVAWTAMISGYMKFGKVDLAEKLF----------------------------------  155 (571)
Q Consensus       113 ~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~----------------------------------  155 (571)
                      ..|++++|+..|+++.   +.+......++..+.+......+.+.+                                  
T Consensus        85 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  164 (514)
T 2gw1_A           85 GLGKFADAMFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSM  164 (514)
T ss_dssp             HTTCHHHHHHHHHHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHHHH
T ss_pred             HHhhHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHH
Confidence            9999999999998774   223333334444333322222222211                                  


Q ss_pred             ----hhCC---------CC-CHHHHHHHHHHHHH---cCChhHHHHHHHHHHH-----CCCCC--------CHhHHHHHH
Q 008280          156 ----DEMP---------TK-NLVTWNAMIAGYVE---NSWAEDGLKLLRMMIG-----LGIRP--------NASSLSSVL  205 (571)
Q Consensus       156 ----~~~~---------~~-~~~~~~~li~~~~~---~g~~~~A~~~~~~m~~-----~g~~p--------d~~t~~~ll  205 (571)
                          ....         .+ +...+......+..   .|++++|+..|+++..     ..-.|        +..++..+.
T Consensus       165 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  244 (514)
T 2gw1_A          165 ASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTG  244 (514)
T ss_dssp             HHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHH
Confidence                1110         01 14455555555554   8999999999999987     32122        345677788


Q ss_pred             HHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCC---CChhhHHHHHHHHHHcCChHH
Q 008280          206 LGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEK  282 (571)
Q Consensus       206 ~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~  282 (571)
                      ..+...|++++|...++.+.+....  ..++..+...|...|++++|...|+++.+   .+..+|..+...|...|++++
T Consensus       245 ~~~~~~~~~~~A~~~~~~~l~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  322 (514)
T 2gw1_A          245 IFKFLKNDPLGAHEDIKKAIELFPR--VNSYIYMALIMADRNDSTEYYNYFDKALKLDSNNSSVYYHRGQMNFILQNYDQ  322 (514)
T ss_dssp             HHHHHSSCHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCTTCTHHHHHHHHHHHHTTCTTH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCcc--HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCcCCHHHHHHHHHHHHHhCCHHH
Confidence            8889999999999999999987633  88889999999999999999999998764   367789999999999999999


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-
Q 008280          283 ALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-  361 (571)
Q Consensus       283 A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-  361 (571)
                      |+..|++..... +.+..++..+...+...|++++|...++.+.+.  .+.+...+..+...|.+.|++++|.+.++++ 
T Consensus       323 A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~  399 (514)
T 2gw1_A          323 AGKDFDKAKELD-PENIFPYIQLACLAYRENKFDDCETLFSEAKRK--FPEAPEVPNFFAEILTDKNDFDKALKQYDLAI  399 (514)
T ss_dssp             HHHHHHHHHHTC-SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHH--STTCSHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--cccCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            999999998864 335668888999999999999999999999874  3446788999999999999999999999887 


Q ss_pred             ---CCCCC----HhHHHHHHHHHHh---cCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhC
Q 008280          362 ---PFKPQ----PAIFGTLLSACRV---HKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKEN  431 (571)
Q Consensus       362 ---~~~p~----~~~~~~l~~~~~~---~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  431 (571)
                         |..++    ...|..+...+..   .|++++|...++++++.+|+++. ++..++.+|.+.|++++|.+.+++..+.
T Consensus       400 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~-~~~~la~~~~~~g~~~~A~~~~~~a~~~  478 (514)
T 2gw1_A          400 ELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLDPRSEQ-AKIGLAQMKLQQEDIDEAITLFEESADL  478 (514)
T ss_dssp             HHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhCcccHH-HHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence               22233    4489999999999   99999999999999999999988 9999999999999999999999998874


Q ss_pred             C
Q 008280          432 N  432 (571)
Q Consensus       432 ~  432 (571)
                      .
T Consensus       479 ~  479 (514)
T 2gw1_A          479 A  479 (514)
T ss_dssp             C
T ss_pred             c
Confidence            4

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.92  E-value=7.2e-23  Score=213.36  Aligned_cols=395  Identities=12%  Similarity=0.022  Sum_probs=316.0

Q ss_pred             chHHHHHHHHHhCCCCHHHHHHHHhhCCC--CChhhHHHHHHHHHcCCCCHHHHHHHHhhCC---CCChhhHHHHHHHHH
Q 008280            7 VNWNSVLAGFAKQRGKLKDAQELFDKIPQ--PDVVSYNIMLSCILLNSDDVVAAFDFFQRLP---IKDTASWNTMISGFV   81 (571)
Q Consensus         7 ~~~~~l~~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~ll~~~~~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~   81 (571)
                      ..+..+...|.+.| ++++|.+.|+++.+  ||...|..+..+|.+. |++++|++.|+++.   +.+..+|..+..+|.
T Consensus         7 ~~~~~~g~~~~~~g-~~~~A~~~~~~al~~~p~~~~~~~la~~~~~~-g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~   84 (514)
T 2gw1_A            7 LALKDKGNQFFRNK-KYDDAIKYYNWALELKEDPVFYSNLSACYVSV-GDLKKVVEMSTKALELKPDYSKVLLRRASANE   84 (514)
T ss_dssp             HHHHHHHHHHHHTS-CHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH-TCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhc-cHHHHHHHHHHHHhcCccHHHHHhHHHHHHHH-hhHHHHHHHHHHHhccChHHHHHHHHHHHHHH
Confidence            45667788889999 99999999998875  8999999999999999 99999999999865   356778999999999


Q ss_pred             cCCCHHHHHHHHhhCCC---CCcchHHHHHHHHHHcCChHHHHHHH----------------------------------
Q 008280           82 QKKNMAKARDLFLAMPE---KNSVSWSAMISGYIECGQLDKAVELF----------------------------------  124 (571)
Q Consensus        82 ~~g~~~~A~~~~~~m~~---~d~~~~~~li~~~~~~g~~~~A~~~~----------------------------------  124 (571)
                      +.|++++|+..|+++.+   ++......++..+........+.+.+                                  
T Consensus        85 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  164 (514)
T 2gw1_A           85 GLGKFADAMFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSM  164 (514)
T ss_dssp             HTTCHHHHHHHHHHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHHHH
T ss_pred             HHhhHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHH
Confidence            99999999999998743   23344444444433322222222211                                  


Q ss_pred             ----hhCC----------CCChhHHHHHHHHHHh---cCCHHHHHHHHhhCCC----------------C-CHHHHHHHH
Q 008280          125 ----KVAP----------VKSVVAWTAMISGYMK---FGKVDLAEKLFDEMPT----------------K-NLVTWNAMI  170 (571)
Q Consensus       125 ----~~~~----------~~~~~~~~~li~~~~~---~g~~~~A~~~~~~~~~----------------~-~~~~~~~li  170 (571)
                          ....          +.+...+..+...+..   .|++++|...|+++.+                + +..+|..+.
T Consensus       165 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  244 (514)
T 2gw1_A          165 ASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTG  244 (514)
T ss_dssp             HHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHH
Confidence                1110          1124445555555554   8999999999988654                1 345788999


Q ss_pred             HHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHH
Q 008280          171 AGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLE  250 (571)
Q Consensus       171 ~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~  250 (571)
                      ..+...|++++|+..|+++....  |+...+..+...+...|++++|...++.+.+.. +.+..++..+..+|.+.|+++
T Consensus       245 ~~~~~~~~~~~A~~~~~~~l~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~  321 (514)
T 2gw1_A          245 IFKFLKNDPLGAHEDIKKAIELF--PRVNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQMNFILQNYD  321 (514)
T ss_dssp             HHHHHSSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHHHHHTTCTT
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhC--ccHHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHHHHHhCCHH
Confidence            99999999999999999998864  447788888999999999999999999999875 556788999999999999999


Q ss_pred             HHHHHHHhhCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHH
Q 008280          251 DACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVN  327 (571)
Q Consensus       251 ~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~  327 (571)
                      +|...|++..+   .+...|..+...|...|++++|+..|+++.+.. +.+..++..+...+...|++++|...++.+.+
T Consensus       322 ~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~  400 (514)
T 2gw1_A          322 QAGKDFDKAKELDPENIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTDKNDFDKALKQYDLAIE  400 (514)
T ss_dssp             HHHHHHHHHHHTCSSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            99999998753   467889999999999999999999999998753 33567888899999999999999999999876


Q ss_pred             hcCCCCC----hHhHHHHHHHHHH---cCCHHHHHHHHHhC-CC-CCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCC
Q 008280          328 DYGIAAK----PDHYTCMVDLLGR---AGKLVEAVDLIKKM-PF-KPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNP  398 (571)
Q Consensus       328 ~~~~~~~----~~~~~~li~~~~~---~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p  398 (571)
                      ...-.++    ...+..+...|.+   .|++++|.+.++++ .. +.+..+|..+...+...|++++|...++++++++|
T Consensus       401 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~  480 (514)
T 2gw1_A          401 LENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLDPRSEQAKIGLAQMKLQQEDIDEAITLFEESADLAR  480 (514)
T ss_dssp             HHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS
T ss_pred             hhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhcc
Confidence            4222222    3488999999999   99999999999887 22 24578889999999999999999999999999999


Q ss_pred             CCCchhHHHH
Q 008280          399 ANAAGCYVQL  408 (571)
Q Consensus       399 ~~~~~~~~~l  408 (571)
                      +++. .+..+
T Consensus       481 ~~~~-~~~~~  489 (514)
T 2gw1_A          481 TMEE-KLQAI  489 (514)
T ss_dssp             SHHH-HHHHH
T ss_pred             ccHH-HHHHH
Confidence            9876 55544

>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=99.91  E-value=1.5e-22  Score=212.35  Aligned_cols=415  Identities=12%  Similarity=0.076  Sum_probs=311.0

Q ss_pred             chHHHHHHHHHhCCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHcCCCCHHHHHHHHhhCC---CCChhhHHHHHHHH
Q 008280            7 VNWNSVLAGFAKQRGKLKDAQELFDKIPQ---PDVVSYNIMLSCILLNSDDVVAAFDFFQRLP---IKDTASWNTMISGF   80 (571)
Q Consensus         7 ~~~~~l~~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~ll~~~~~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~   80 (571)
                      ..+..+...|.+.| ++++|.+.|+++.+   .++..|..+...|.+. |++++|++.|+++.   +.+..++..+..+|
T Consensus        26 ~~~~~~g~~~~~~g-~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~-g~~~~A~~~~~~al~~~p~~~~~~~~la~~~  103 (537)
T 3fp2_A           26 VQLKNRGNHFFTAK-NFNEAIKYYQYAIELDPNEPVFYSNISACYIST-GDLEKVIEFTTKALEIKPDHSKALLRRASAN  103 (537)
T ss_dssp             HHHHHHHHHHHHTT-CCC-CHHHHHHHHHHCTTCHHHHHHHHHHHHHH-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhc-cHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHc-CCHHHHHHHHHHHHhcCCchHHHHHHHHHHH
Confidence            44566777777888 88888888887754   4567777888888888 88888888888764   34567788888888


Q ss_pred             HcCCCHHHHHHHHhhCCCCCcchHHHHHHHHHHcCChHHHHHHHhhCCCCC------hhHHHHHHHHHHhcCCHHHHHHH
Q 008280           81 VQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAPVKS------VVAWTAMISGYMKFGKVDLAEKL  154 (571)
Q Consensus        81 ~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~------~~~~~~li~~~~~~g~~~~A~~~  154 (571)
                      .+.|++++|+..|+.+. .++......+..+...+...+|...++.+....      .......+..|....+.+.+...
T Consensus       104 ~~~g~~~~A~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  182 (537)
T 3fp2_A          104 ESLGNFTDAMFDLSVLS-LNGDFDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVSS  182 (537)
T ss_dssp             HHHTCHHHHHHHHHHHC------------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHHT
T ss_pred             HHcCCHHHHHHHHHHHh-cCCCCChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHHH
Confidence            88888888888886442 222222333445555566677888777765321      12234455556677777777777


Q ss_pred             HhhCCCCCHH---HHHHHHHHHHH--------cCChhHHHHHHHHHHHCCCCCC-H-------hHHHHHHHHHhccCchH
Q 008280          155 FDEMPTKNLV---TWNAMIAGYVE--------NSWAEDGLKLLRMMIGLGIRPN-A-------SSLSSVLLGCSHLSSLQ  215 (571)
Q Consensus       155 ~~~~~~~~~~---~~~~li~~~~~--------~g~~~~A~~~~~~m~~~g~~pd-~-------~t~~~ll~~~~~~~~~~  215 (571)
                      +......+..   .+..+...+..        .|++++|+.+|+++.+.  .|+ .       .++..+...+...|+++
T Consensus       183 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~--~p~~~~~~~~~~~~~~~~g~~~~~~~~~~  260 (537)
T 3fp2_A          183 VNTSSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSA--NTVDDPLRENAALALCYTGIFHFLKNNLL  260 (537)
T ss_dssp             SCCCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC----CCCHHHHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HhhccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHH--CCCcchhhHHHHHHHHHHHHHHHhcccHH
Confidence            7776654432   33344333322        25789999999999875  344 2       24556666778889999


Q ss_pred             HHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHH
Q 008280          216 LGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKD  292 (571)
Q Consensus       216 ~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  292 (571)
                      +|...+..+.+..  |+..++..+...|.+.|++++|...|+++.+   .+..+|..+...+...|++++|+..|++...
T Consensus       261 ~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~  338 (537)
T 3fp2_A          261 DAQVLLQESINLH--PTPNSYIFLALTLADKENSQEFFKFFQKAVDLNPEYPPTYYHRGQMYFILQDYKNAKEDFQKAQS  338 (537)
T ss_dssp             HHHHHHHHHHHHC--CCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcC--CCchHHHHHHHHHHHhcCHHHHHHHHHHHhccCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            9999999999875  4478888999999999999999999998763   4678899999999999999999999999987


Q ss_pred             cCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC----CCC----
Q 008280          293 EGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM----PFK----  364 (571)
Q Consensus       293 ~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~----~~~----  364 (571)
                      .. +.+...+..+...+...|++++|..+++.+.+.  .+.+...+..+...|.+.|++++|.+.|+++    |..    
T Consensus       339 ~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~  415 (537)
T 3fp2_A          339 LN-PENVYPYIQLACLLYKQGKFTESEAFFNETKLK--FPTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIH  415 (537)
T ss_dssp             HC-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCS
T ss_pred             hC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhH
Confidence            64 234567888999999999999999999999874  3455778999999999999999999999886    111    


Q ss_pred             CCHhHHHHHHHHHHhc----------CCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhCC
Q 008280          365 PQPAIFGTLLSACRVH----------KRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENN  432 (571)
Q Consensus       365 p~~~~~~~l~~~~~~~----------g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  432 (571)
                      .....+..+...+...          |++++|+..++++++.+|+++. ++..++.+|.+.|++++|.+.+++..+..
T Consensus       416 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~-~~~~l~~~~~~~g~~~~A~~~~~~al~~~  492 (537)
T 3fp2_A          416 VGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELDPRSEQ-AKIGLAQLKLQMEKIDEAIELFEDSAILA  492 (537)
T ss_dssp             STTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHHhccHHHHHHHHHHHHHhC
Confidence            1223355556677777          9999999999999999999988 99999999999999999999999987644

>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=9.3e-22  Score=201.46  Aligned_cols=356  Identities=10%  Similarity=0.009  Sum_probs=200.6

Q ss_pred             hhHHHHHHHHHcCCCCHHHHHHHHhhCC---CCChhhHHHHHHHHHcCCCHHHHHHHHhhCCC---CCcchHHHHHHHHH
Q 008280           39 VSYNIMLSCILLNSDDVVAAFDFFQRLP---IKDTASWNTMISGFVQKKNMAKARDLFLAMPE---KNSVSWSAMISGYI  112 (571)
Q Consensus        39 ~~~~~ll~~~~~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~---~d~~~~~~li~~~~  112 (571)
                      ..|..+...+.+. |++++|+.+|+++.   ..+..+|..+..+|.+.|++++|+..|+++.+   .+..++..+...|.
T Consensus        27 ~~~~~~~~~~~~~-g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~  105 (450)
T 2y4t_A           27 EKHLELGKKLLAA-GQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKMDFTAARLQRGHLLL  105 (450)
T ss_dssp             HHHHHHHHHHHHT-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHC-CCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHH
Confidence            4455555555555 56666665555543   23445555555555555555555555555432   23444555555555


Q ss_pred             HcCChHHHHHHHhhCCCCC---h---hHHHHHHHHHHhcCCHHHHHHHHhhCCCCCHHHHHHHHHHHHHcCChhHHHHHH
Q 008280          113 ECGQLDKAVELFKVAPVKS---V---VAWTAMISGYMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAEDGLKLL  186 (571)
Q Consensus       113 ~~g~~~~A~~~~~~~~~~~---~---~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~  186 (571)
                      +.|++++|++.|+++...+   .   ..+..++..+...                   .+..+...+.+.|++++|+..|
T Consensus       106 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-------------------~~~~~a~~~~~~~~~~~A~~~~  166 (450)
T 2y4t_A          106 KQGKLDEAEDDFKKVLKSNPSENEEKEAQSQLIKSDEMQ-------------------RLRSQALNAFGSGDYTAAIAFL  166 (450)
T ss_dssp             HTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHH-------------------HHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHH-------------------HHHHHHHHHHHcCCHHHHHHHH
Confidence            5555555555555443221   1   3333332220000                   0111233355566666666666


Q ss_pred             HHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCC---CC
Q 008280          187 RMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR---KD  263 (571)
Q Consensus       187 ~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~  263 (571)
                      +++.... +.+...+..+...+...|++++|...++.+.+.. +.+..++..++.+|.+.|++++|...|+++.+   .+
T Consensus       167 ~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~  244 (450)
T 2y4t_A          167 DKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQDH  244 (450)
T ss_dssp             HHHHHHC-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCh
Confidence            6655532 2344555555556666666666666666655543 34455666666666666666666666665542   23


Q ss_pred             hhhHHHH------------HHHHHHcCChHHHHHHHHHHHHcCCCCC-----HHHHHHHHHHHHhcCcHHHHHHHHHHhH
Q 008280          264 VVTWNAM------------ISGYAQHGKGEKALRLFDKMKDEGMKPD-----SITFVALLLACNHAGLVDLGIQYFDSMV  326 (571)
Q Consensus       264 ~~~~~~l------------i~~~~~~g~~~~A~~~~~~m~~~g~~p~-----~~t~~~ll~a~~~~g~~~~a~~~~~~~~  326 (571)
                      ...+..+            +..+...|++++|+..|+++...  .|+     ...+..+..++.+.|++++|...++.+.
T Consensus       245 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~  322 (450)
T 2y4t_A          245 KRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT--EPSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVL  322 (450)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CCSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            3333333            67777778888888888877764  333     2356667777777888888888887776


Q ss_pred             HhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-HhHHHHHHHH------------HHhcC-----CHhHHH
Q 008280          327 NDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQ-PAIFGTLLSA------------CRVHK-----RLDLAE  387 (571)
Q Consensus       327 ~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~------------~~~~g-----~~~~a~  387 (571)
                      +.  .+.+...|..+..+|...|++++|.+.|+++ ...|+ ...+..+..+            |...|     +.+++.
T Consensus       323 ~~--~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~~~y~~lg~~~~~~~~~~~  400 (450)
T 2y4t_A          323 QM--EPDNVNALKDRAEAYLIEEMYDEAIQDYETAQEHNENDQQIREGLEKAQRLLKQSQKRDYYKILGVKRNAKKQEII  400 (450)
T ss_dssp             HH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHHHHHHSCCSGGGSCSSTTCCTTHHH
T ss_pred             Hh--CcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcchHHHHHHHHHHHHHhhcccchhHHHHhCCCccCCHHHHH
Confidence            53  2335677777888888888888888887776 33444 4455555422            22333     567778


Q ss_pred             HHHHH-HhccCCCCCc---------hhHHHHHHHHhhccChhH
Q 008280          388 FAAMN-LFNLNPANAA---------GCYVQLANIYAAMKKWDD  420 (571)
Q Consensus       388 ~~~~~-~~~~~p~~~~---------~~~~~l~~~~~~~g~~~~  420 (571)
                      +.+++ .++..|+...         ..+..+..+|...|+.+.
T Consensus       401 ~~y~~~~l~~~pd~~~~~~~~~~a~~~~~~i~~ay~~L~d~~~  443 (450)
T 2y4t_A          401 KAYRKLALQWHPDNFQNEEEKKKAEKKFIDIAAAKEVLSDPEM  443 (450)
T ss_dssp             HHHHHHHHHSCGGGCCSHHHHHHHHHHHHHHHHHHHHSSGGGG
T ss_pred             HHHHHHHHHhCCCCCCCchHHHHHHHHHHHHHHHHHHhCCHHH
Confidence            88886 6777777532         134455555555555444

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=99.87  E-value=2.6e-20  Score=195.23  Aligned_cols=394  Identities=13%  Similarity=0.018  Sum_probs=307.1

Q ss_pred             CCCCcchHHHHHHHHHhCCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHcCCCCHHHHHHHHhhCCCCChhhHHHHHH
Q 008280            2 NVKTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQ---PDVVSYNIMLSCILLNSDDVVAAFDFFQRLPIKDTASWNTMIS   78 (571)
Q Consensus         2 ~~~~~~~~~~l~~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~ll~~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~   78 (571)
                      .|.++.++..+..+|.+.| ++++|.+.|+++.+   .+...|..+...+... |++++|++.|+.+ ..++...+..+.
T Consensus        55 ~p~~~~~~~~la~~~~~~g-~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~-g~~~~A~~~~~~~-~~~~~~~~~~~~  131 (537)
T 3fp2_A           55 DPNEPVFYSNISACYISTG-DLEKVIEFTTKALEIKPDHSKALLRRASANESL-GNFTDAMFDLSVL-SLNGDFDGASIE  131 (537)
T ss_dssp             CTTCHHHHHHHHHHHHHHT-CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH-TCHHHHHHHHHHH-C-----------
T ss_pred             CCCCcHHHHHHHHHHHHcC-CHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHc-CCHHHHHHHHHHH-hcCCCCChHHHH
Confidence            3567788999999999999 99999999998864   4567888888899999 9999999999744 333333344455


Q ss_pred             HHHcCCCHHHHHHHHhhCCCC------CcchHHHHHHHHHHcCChHHHHHHHhhCCCCChh---HHHHHHHHHHhc----
Q 008280           79 GFVQKKNMAKARDLFLAMPEK------NSVSWSAMISGYIECGQLDKAVELFKVAPVKSVV---AWTAMISGYMKF----  145 (571)
Q Consensus        79 ~~~~~g~~~~A~~~~~~m~~~------d~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~---~~~~li~~~~~~----  145 (571)
                      .+...+...+|...++.+...      ........+..+....+.+.+...+......+..   ....+...+...    
T Consensus       132 ~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  211 (537)
T 3fp2_A          132 PMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVSSVNTSSNYDTAYALLSDALQRLYSATDEGY  211 (537)
T ss_dssp             CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHHTSCCCCSSCSSHHHHHHHHHHHHTCSHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHHHHhhccccccHHHHHHHHHHHHHHhhhhhh
Confidence            666667778999999888542      2223455566677788888888877777655543   455555544433    


Q ss_pred             ----CCHHHHHHHHhhCCC--CC--------HHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhcc
Q 008280          146 ----GKVDLAEKLFDEMPT--KN--------LVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHL  211 (571)
Q Consensus       146 ----g~~~~A~~~~~~~~~--~~--------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~  211 (571)
                          |++++|..+|+++.+  |+        ..+|..+...+...|++++|+..|+++...  .|+...+..+...+...
T Consensus       212 ~~a~~~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~  289 (537)
T 3fp2_A          212 LVANDLLTKSTDMYHSLLSANTVDDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINL--HPTPNSYIFLALTLADK  289 (537)
T ss_dssp             HHHHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHTCCS
T ss_pred             HHHHHHHHHHHHHHHHHHHHCCCcchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHh
Confidence                478999999998875  32        235777788899999999999999999885  56678888899999999


Q ss_pred             CchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCC---CChhhHHHHHHHHHHcCChHHHHHHHH
Q 008280          212 SSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFD  288 (571)
Q Consensus       212 ~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~  288 (571)
                      |+++.|...+..+.+.. +.+..++..+...|...|++++|...|++..+   .+...|..+...|...|++++|+..|+
T Consensus       290 ~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~  368 (537)
T 3fp2_A          290 ENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLNPENVYPYIQLACLLYKQGKFTESEAFFN  368 (537)
T ss_dssp             SCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCSHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            99999999999998875 55678899999999999999999999998763   467889999999999999999999999


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCC----hHhHHHHHHHHHHc----------CCHHHH
Q 008280          289 KMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAK----PDHYTCMVDLLGRA----------GKLVEA  354 (571)
Q Consensus       289 ~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~~li~~~~~~----------g~~~~A  354 (571)
                      ++.+.. +.+...+..+...+...|++++|...|+.+.+...-.+.    ...+..+...|.+.          |++++|
T Consensus       369 ~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A  447 (537)
T 3fp2_A          369 ETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAA  447 (537)
T ss_dssp             HHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHH
T ss_pred             HHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHH
Confidence            998864 335668888999999999999999999998764211111    22344556778888          999999


Q ss_pred             HHHHHhC-CCC-CCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCc
Q 008280          355 VDLIKKM-PFK-PQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA  402 (571)
Q Consensus       355 ~~~~~~~-~~~-p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~  402 (571)
                      ...|+++ ... .+..+|..+...+...|++++|...+++++++.|+.+.
T Consensus       448 ~~~~~~a~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~  497 (537)
T 3fp2_A          448 IKLLTKACELDPRSEQAKIGLAQLKLQMEKIDEAIELFEDSAILARTMDE  497 (537)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CHH
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCcHH
Confidence            9999987 222 45788999999999999999999999999999998765

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.87  E-value=3.5e-19  Score=175.97  Aligned_cols=302  Identities=12%  Similarity=0.093  Sum_probs=203.0

Q ss_pred             cchHHHHHHHHHHcCChHHHHHHHhhCC---CCChhHHHHHHHHHHhcCCHHHHHHHHhhCCC---CCHHHHHHHHHHHH
Q 008280          101 SVSWSAMISGYIECGQLDKAVELFKVAP---VKSVVAWTAMISGYMKFGKVDLAEKLFDEMPT---KNLVTWNAMIAGYV  174 (571)
Q Consensus       101 ~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~  174 (571)
                      +..+..+...+...|++++|+..|+++.   +.++.++..+...|...|++++|...|+++.+   .+...|..+...|.
T Consensus         3 ~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~   82 (359)
T 3ieg_A            3 VEKHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIALKMDFTAARLQRGHLLL   82 (359)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCcchHHHHHHHHHH
Confidence            3455666666777777777777766553   33455666666666677777777766666542   24456666666666


Q ss_pred             HcCChhHHHHHHHHHHHCCCCC---C-HhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHH
Q 008280          175 ENSWAEDGLKLLRMMIGLGIRP---N-ASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLE  250 (571)
Q Consensus       175 ~~g~~~~A~~~~~~m~~~g~~p---d-~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~  250 (571)
                      ..|++++|+..|+++.+.  .|   + ...+..+...       ..                ...+..+...+...|+++
T Consensus        83 ~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~-------~~----------------~~~~~~~a~~~~~~~~~~  137 (359)
T 3ieg_A           83 KQGKLDEAEDDFKKVLKS--NPSEQEEKEAESQLVKA-------DE----------------MQRLRSQALDAFDGADYT  137 (359)
T ss_dssp             HHTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHH-------HH----------------HHHHHHHHHHHHHTTCHH
T ss_pred             HcCChHHHHHHHHHHHhc--CCcccChHHHHHHHHHH-------HH----------------HHHHHHHHHHHHHccCHH
Confidence            777777777777666653  23   1 1122111100       00                001222356777778888


Q ss_pred             HHHHHHHhhC---CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHH
Q 008280          251 DACKLFLEIQ---RKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVN  327 (571)
Q Consensus       251 ~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~  327 (571)
                      +|...|+++.   ..+...|..+...+...|++++|+..+++..... +.+..++..+...+...|++++|...++...+
T Consensus       138 ~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~  216 (359)
T 3ieg_A          138 AAITFLDKILEVCVWDAELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECLK  216 (359)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            8888877764   2456677777788888888888888888877653 33566777777778888888888888877775


Q ss_pred             hcCCCCChHhHH------------HHHHHHHHcCCHHHHHHHHHhC-CCCCC-H----hHHHHHHHHHHhcCCHhHHHHH
Q 008280          328 DYGIAAKPDHYT------------CMVDLLGRAGKLVEAVDLIKKM-PFKPQ-P----AIFGTLLSACRVHKRLDLAEFA  389 (571)
Q Consensus       328 ~~~~~~~~~~~~------------~li~~~~~~g~~~~A~~~~~~~-~~~p~-~----~~~~~l~~~~~~~g~~~~a~~~  389 (571)
                      .  .+.+...+.            .+...+.+.|++++|.+.++++ ...|+ .    ..+..+...+...|++++|...
T Consensus       217 ~--~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~  294 (359)
T 3ieg_A          217 L--DQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPSVAEYTVRSKERICHCFSKDEKPVEAIRI  294 (359)
T ss_dssp             H--CTTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             h--CccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHccCHHHHHHH
Confidence            3  122233222            3366788889999999988876 22233 2    2355577788899999999999


Q ss_pred             HHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhC
Q 008280          390 AMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKEN  431 (571)
Q Consensus       390 ~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  431 (571)
                      ++++++.+|+++. ++..++.+|...|++++|.+.+++..+.
T Consensus       295 ~~~~~~~~~~~~~-~~~~~~~~~~~~g~~~~A~~~~~~a~~~  335 (359)
T 3ieg_A          295 CSEVLQMEPDNVN-ALKDRAEAYLIEEMYDEAIQDYEAAQEH  335 (359)
T ss_dssp             HHHHHHHCTTCHH-HHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHhCcccHH-HHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            9999999998888 8999999999999999999999888764

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.87  E-value=2.4e-19  Score=177.17  Aligned_cols=307  Identities=13%  Similarity=0.091  Sum_probs=224.0

Q ss_pred             ChhhHHHHHHHHHcCCCHHHHHHHHhhCCC---CCcchHHHHHHHHHHcCChHHHHHHHhhCC---CCChhHHHHHHHHH
Q 008280           69 DTASWNTMISGFVQKKNMAKARDLFLAMPE---KNSVSWSAMISGYIECGQLDKAVELFKVAP---VKSVVAWTAMISGY  142 (571)
Q Consensus        69 d~~~~~~li~~~~~~g~~~~A~~~~~~m~~---~d~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~  142 (571)
                      |+..+..+...+.+.|++++|+..|+++.+   .+..++..+...+...|++++|+..++++.   +.+...+..+...|
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~   81 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIALKMDFTAARLQRGHLL   81 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCcchHHHHHHHHH
Confidence            456788899999999999999999998853   457789999999999999999999998775   45668899999999


Q ss_pred             HhcCCHHHHHHHHhhCCC--C----CHHHHHHH------------HHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHH
Q 008280          143 MKFGKVDLAEKLFDEMPT--K----NLVTWNAM------------IAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSV  204 (571)
Q Consensus       143 ~~~g~~~~A~~~~~~~~~--~----~~~~~~~l------------i~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~l  204 (571)
                      .+.|++++|...|++..+  |    +...+..+            ...+...|++++|+..|+++.+             
T Consensus        82 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~-------------  148 (359)
T 3ieg_A           82 LKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILE-------------  148 (359)
T ss_dssp             HHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH-------------
T ss_pred             HHcCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHH-------------
Confidence            999999999999999865  3    23344444            3444555555555555555444             


Q ss_pred             HHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCC---CChhhHHHHHHHHHHcCChH
Q 008280          205 LLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGE  281 (571)
Q Consensus       205 l~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~  281 (571)
                                            .. +.+..++..+...|.+.|++++|...|+++.+   .+..+|..+...|...|+++
T Consensus       149 ----------------------~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~  205 (359)
T 3ieg_A          149 ----------------------VC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLKSDNTEAFYKISTLYYQLGDHE  205 (359)
T ss_dssp             ----------------------HC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCSCCHHHHHHHHHHHHHHTCHH
T ss_pred             ----------------------hC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHH
Confidence                                  32 23344455556666666666666666665543   24556666666677777777


Q ss_pred             HHHHHHHHHHHcCCCCCHHHH------------HHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCCh----HhHHHHHHHH
Q 008280          282 KALRLFDKMKDEGMKPDSITF------------VALLLACNHAGLVDLGIQYFDSMVNDYGIAAKP----DHYTCMVDLL  345 (571)
Q Consensus       282 ~A~~~~~~m~~~g~~p~~~t~------------~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~----~~~~~li~~~  345 (571)
                      +|...|++..+.. +.+...+            ..+...+...|++++|...++.+.+..  +.+.    ..+..+...|
T Consensus       206 ~A~~~~~~a~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~la~~~  282 (359)
T 3ieg_A          206 LSLSEVRECLKLD-QDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTE--PSVAEYTVRSKERICHCF  282 (359)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CSSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhC-ccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHHHH
Confidence            7777777666542 1122222            233566888899999999999888642  2222    3355678889


Q ss_pred             HHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhc
Q 008280          346 GRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAM  415 (571)
Q Consensus       346 ~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~  415 (571)
                      .+.|++++|.+.+++. ...| +..+|..+...+...|++++|...++++++++|+++. .+..|..++...
T Consensus       283 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~p~~~~-~~~~l~~~~~~~  353 (359)
T 3ieg_A          283 SKDEKPVEAIRICSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEHNENDQQ-IREGLEKAQRLL  353 (359)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHH-HHHHHHHHHHHH
T ss_pred             HHccCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCChH-HHHHHHHHHHHH
Confidence            9999999999999887 2233 6789999999999999999999999999999999987 777777776543

>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=99.84  E-value=2.3e-18  Score=168.01  Aligned_cols=284  Identities=10%  Similarity=0.012  Sum_probs=199.0

Q ss_pred             ChhHHHHHHHHHHhcCCHHHHHHHHhhCCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHH
Q 008280          131 SVVAWTAMISGYMKFGKVDLAEKLFDEMPT---KNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLG  207 (571)
Q Consensus       131 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~  207 (571)
                      ++..+..+...+...|++++|.++|+++.+   .+...+..++..+...|++++|+.+++++.+.. +.+...+..+...
T Consensus        21 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~   99 (330)
T 3hym_B           21 NLDVVVSLAERHYYNCDFKMCYKLTSVVMEKDPFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVGCY   99 (330)
T ss_dssp             CCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHH
Confidence            444455555555556666666666655542   233455556666666666666666666666542 2244555666666


Q ss_pred             HhccC-chHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCC---CChhhHHHHHHHHHHcCChHHH
Q 008280          208 CSHLS-SLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKA  283 (571)
Q Consensus       208 ~~~~~-~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A  283 (571)
                      +...| ++++|...++.+.+.. +.+...+..+..+|...|++++|...|++..+   .+...|..+...|...|++++|
T Consensus       100 ~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A  178 (330)
T 3hym_B          100 YLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKGCHLPMLYIGLEYGLTNNSKLA  178 (330)
T ss_dssp             HHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCSHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhhHHHH
Confidence            66666 6666777776666654 44556677777777788888888887777652   3456677788888888888888


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcC-------CCCChHhHHHHHHHHHHcCCHHHHHH
Q 008280          284 LRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYG-------IAAKPDHYTCMVDLLGRAGKLVEAVD  356 (571)
Q Consensus       284 ~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~-------~~~~~~~~~~li~~~~~~g~~~~A~~  356 (571)
                      ...|++..+.. +.+...+..+...+...|++++|...++.+.+...       .+.....+..+...|.+.|++++|.+
T Consensus       179 ~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~  257 (330)
T 3hym_B          179 ERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALD  257 (330)
T ss_dssp             HHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHH
Confidence            88888887653 33566777788888888888888888887765321       13346788888899999999999999


Q ss_pred             HHHhC-CC-CCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHH-hhccCh
Q 008280          357 LIKKM-PF-KPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIY-AAMKKW  418 (571)
Q Consensus       357 ~~~~~-~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~-~~~g~~  418 (571)
                      .+++. .. +.+...|..+...+...|++++|...++++++++|+++. .+..++.++ ...|+.
T Consensus       258 ~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~-~~~~l~~~~~~~~g~~  321 (330)
T 3hym_B          258 YHRQALVLIPQNASTYSAIGYIHSLMGNFENAVDYFHTALGLRRDDTF-SVTMLGHCIEMYIGDS  321 (330)
T ss_dssp             HHHHHHHHSTTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTCSCCHH-HHHHHHHHHHTTTTC-
T ss_pred             HHHHHHhhCccchHHHHHHHHHHHHhccHHHHHHHHHHHHccCCCchH-HHHHHHHHHHHHhCch
Confidence            88876 11 235678888999999999999999999999999999887 888888888 455554

>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=3.8e-19  Score=174.15  Aligned_cols=282  Identities=13%  Similarity=0.147  Sum_probs=108.6

Q ss_pred             CCHHHHHHHHhhCCCCChhhHHHHHHHHHcCCCHHHHHHHHhhCCCCCcchHHHHHHHHHHcCChHHHHHHHhhCCC--C
Q 008280           53 DDVVAAFDFFQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAPV--K  130 (571)
Q Consensus        53 g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~  130 (571)
                      |++++|.+.++++..|+  +|..|+.++.+.|++++|++.|.+.  +|..+|..++.++...|++++|+..++..++  +
T Consensus        17 ~~ld~A~~fae~~~~~~--vWs~La~A~l~~g~~~eAIdsfika--~D~~~y~~V~~~ae~~g~~EeAi~yl~~ark~~~   92 (449)
T 1b89_A           17 GNLDRAYEFAERCNEPA--VWSQLAKAQLQKGMVKEAIDSYIKA--DDPSSYMEVVQAANTSGNWEELVKYLQMARKKAR   92 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cCHHHHHHHHHhCCChH--HHHHHHHHHHHcCCHHHHHHHHHcC--CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCc
Confidence            55666666666664443  6666666666666666666666443  4455666666666666666666665554432  2


Q ss_pred             ChhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhc
Q 008280          131 SVVAWTAMISGYMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSH  210 (571)
Q Consensus       131 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~  210 (571)
                      ++.+.+.|+.+|.++|+++++.++++.   |+..+|+.++..|...|++++|...|.++         ..|..+..++.+
T Consensus        93 ~~~i~~~Li~~Y~Klg~l~e~e~f~~~---pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~~~LA~~L~~  160 (449)
T 1b89_A           93 ESYVETELIFALAKTNRLAELEEFING---PNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVH  160 (449)
T ss_dssp             ----------------CHHHHTTTTTC---C----------------CTTTHHHHHHHT---------TCHHHHHHHHHT
T ss_pred             cchhHHHHHHHHHHhCCHHHHHHHHcC---CcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhHHHHHHHHHH
Confidence            345566666666666666666655542   45556666666666666666666666654         256666666666


Q ss_pred             cCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCCCChhhHHHHHHHHHHcCChHHHHHHHHHH
Q 008280          211 LSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKM  290 (571)
Q Consensus       211 ~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  290 (571)
                      .|++++|.+.+..+      .++.+|..++.+|...|+++.|......+. .++.....++..|.+.|++++|..+++..
T Consensus       161 Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~-~~ad~l~~lv~~Yek~G~~eEai~lLe~a  233 (449)
T 1b89_A          161 LGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV-VHADELEELINYYQDRGYFEELITMLEAA  233 (449)
T ss_dssp             TTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             hccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHHH-hCHhhHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            66666666666655      245666666666777777777766555543 33333445777777777888887777776


Q ss_pred             HHcCCCCCHHHHHHHHHHHHh--cCcHHHHHHHHHHhHHhcCCCC------ChHhHHHHHHHHHHcCCHHHHHHHHHhC
Q 008280          291 KDEGMKPDSITFVALLLACNH--AGLVDLGIQYFDSMVNDYGIAA------KPDHYTCMVDLLGRAGKLVEAVDLIKKM  361 (571)
Q Consensus       291 ~~~g~~p~~~t~~~ll~a~~~--~g~~~~a~~~~~~~~~~~~~~~------~~~~~~~li~~~~~~g~~~~A~~~~~~~  361 (571)
                      .... +-....|+.+.-++++  .+++.+..+.|.   .+-+++|      +..+|.-++-.|...++++.|...+-+-
T Consensus       234 L~le-~ah~~~ftel~il~~ky~p~k~~ehl~~~~---~~ini~k~~~~~~~~~~w~e~~~ly~~~~e~d~A~~tm~~h  308 (449)
T 1b89_A          234 LGLE-RAHMGMFTELAILYSKFKPQKMREHLELFW---SRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMNH  308 (449)
T ss_dssp             TTST-TCCHHHHHHHHHHHHTTCHHHHHHHHHHHS---TTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             hCCc-HHHHHHHHHHHHHHHhcCHHHHHHHHHHHH---HHhcCcHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHHHhC
Confidence            5432 2233345555444443  334444444443   2224454      4667888888899999999888776655

>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=99.82  E-value=1e-18  Score=173.68  Aligned_cols=293  Identities=12%  Similarity=0.014  Sum_probs=181.1

Q ss_pred             cCChHHHHH-HHhhCCC---C----ChhHHHHHHHHHHhcCCHHHHHHHHhhCCC---CCHHHHHHHHHHHHHcCChhHH
Q 008280          114 CGQLDKAVE-LFKVAPV---K----SVVAWTAMISGYMKFGKVDLAEKLFDEMPT---KNLVTWNAMIAGYVENSWAEDG  182 (571)
Q Consensus       114 ~g~~~~A~~-~~~~~~~---~----~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A  182 (571)
                      .|++++|++ .|++...   .    +...+..+...|.+.|++++|...|+++.+   .+..+|..+...|...|++++|
T Consensus        38 ~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A  117 (368)
T 1fch_A           38 LSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLA  117 (368)
T ss_dssp             --------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCcCHHHH
Confidence            355555555 5543321   1    123344555555555555555555555432   2334555555555555555555


Q ss_pred             HHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCCC
Q 008280          183 LKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRK  262 (571)
Q Consensus       183 ~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~  262 (571)
                      +..|+++.+.. +.+..++..+...+...|++++|...+..+.+.. +.+...+..+...       ..       ... 
T Consensus       118 ~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~-------~~-------~~~-  180 (368)
T 1fch_A          118 ISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRYT-PAYAHLVTPAEEG-------AG-------GAG-  180 (368)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-TTTGGGCC-------------------------
T ss_pred             HHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHH-------hh-------hhc-
Confidence            55555554432 2233444444444444455555555444444432 1111111100000       00       000 


Q ss_pred             ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHH
Q 008280          263 DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKP-DSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCM  341 (571)
Q Consensus       263 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l  341 (571)
                      ....+..+...+ ..|++++|+..|+++....... +..++..+...+...|++++|...++++.+.  .+.+...+..+
T Consensus       181 ~~~~~~~~~~~~-~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~l  257 (368)
T 1fch_A          181 LGPSKRILGSLL-SDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV--RPNDYLLWNKL  257 (368)
T ss_dssp             -----CTTHHHH-HHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHH
T ss_pred             ccHHHHHHHHHh-hcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCCHHHHHHH
Confidence            000111233333 8899999999999998754221 4778888999999999999999999998864  34457889999


Q ss_pred             HHHHHHcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCC-----------CchhHHHH
Q 008280          342 VDLLGRAGKLVEAVDLIKKM-PFK-PQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPAN-----------AAGCYVQL  408 (571)
Q Consensus       342 i~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~-----------~~~~~~~l  408 (571)
                      ...|.+.|++++|++.|+++ ... .+..+|..+...|...|++++|...+++++++.|++           .. +|..+
T Consensus       258 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~-~~~~l  336 (368)
T 1fch_A          258 GATLANGNQSEEAVAAYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSEN-IWSTL  336 (368)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHH-HHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhH-HHHHH
Confidence            99999999999999999887 222 457889999999999999999999999999988877           56 89999


Q ss_pred             HHHHhhccChhHHHHHHHH
Q 008280          409 ANIYAAMKKWDDVARIRLS  427 (571)
Q Consensus       409 ~~~~~~~g~~~~a~~~~~~  427 (571)
                      +.+|...|++++|..++++
T Consensus       337 ~~~~~~~g~~~~A~~~~~~  355 (368)
T 1fch_A          337 RLALSMLGQSDAYGAADAR  355 (368)
T ss_dssp             HHHHHHHTCGGGHHHHHTT
T ss_pred             HHHHHHhCChHhHHHhHHH
Confidence            9999999999999998763

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.82  E-value=1.1e-17  Score=163.32  Aligned_cols=265  Identities=14%  Similarity=0.065  Sum_probs=230.2

Q ss_pred             CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHH
Q 008280          161 KNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLI  240 (571)
Q Consensus       161 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li  240 (571)
                      .++..+..++..+...|++++|+++|+++.+.. +.+...+..++..+...|++++|..++..+++.. +.+..++..+.
T Consensus        20 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~   97 (330)
T 3hym_B           20 ENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVG   97 (330)
T ss_dssp             CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHH
Confidence            456677888999999999999999999998764 3455667777888899999999999999999875 56788899999


Q ss_pred             HHHHhcC-CHHHHHHHHHhhCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHH
Q 008280          241 SMYCKCG-DLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVD  316 (571)
Q Consensus       241 ~~y~~~g-~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~  316 (571)
                      ..|...| ++++|...|++..+   .+...|..+...+...|++++|+..|++..+.. +.+...+..+...+...|+++
T Consensus        98 ~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~  176 (330)
T 3hym_B           98 CYYLMVGHKNEHARRYLSKATTLEKTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLM-KGCHLPMLYIGLEYGLTNNSK  176 (330)
T ss_dssp             HHHHHSCSCHHHHHHHHHHHHTTCTTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-TTCSHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHhhhhHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHhhHH
Confidence            9999999 99999999998764   356789999999999999999999999998864 234566777889999999999


Q ss_pred             HHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC----C-------CCCCHhHHHHHHHHHHhcCCHhH
Q 008280          317 LGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM----P-------FKPQPAIFGTLLSACRVHKRLDL  385 (571)
Q Consensus       317 ~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~----~-------~~p~~~~~~~l~~~~~~~g~~~~  385 (571)
                      +|...++.+.+  ..+.+...+..+...|.+.|++++|.+.++++    +       ...+..+|..+...+...|++++
T Consensus       177 ~A~~~~~~al~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~  254 (330)
T 3hym_B          177 LAERFFSQALS--IAPEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAE  254 (330)
T ss_dssp             HHHHHHHHHHT--TCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHH--hCCCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHH
Confidence            99999999986  33556788999999999999999999999877    1       12335789999999999999999


Q ss_pred             HHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhC
Q 008280          386 AEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKEN  431 (571)
Q Consensus       386 a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  431 (571)
                      |+..++++++..|+++. ++..++.+|.+.|++++|.+.+++..+.
T Consensus       255 A~~~~~~a~~~~~~~~~-~~~~la~~~~~~g~~~~A~~~~~~al~~  299 (330)
T 3hym_B          255 ALDYHRQALVLIPQNAS-TYSAIGYIHSLMGNFENAVDYFHTALGL  299 (330)
T ss_dssp             HHHHHHHHHHHSTTCSH-HHHHHHHHHHHHTCHHHHHHHHHTTTTT
T ss_pred             HHHHHHHHHhhCccchH-HHHHHHHHHHHhccHHHHHHHHHHHHcc
Confidence            99999999999999988 9999999999999999999999977653

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.81  E-value=8.3e-17  Score=166.58  Aligned_cols=365  Identities=11%  Similarity=0.018  Sum_probs=302.5

Q ss_pred             CCChhhHHHHHHHHHc----CCCCHHHHHHHHhhCCC-CChhhHHHHHHHHHc----CCCHHHHHHHHhhCCC-CCcchH
Q 008280           35 QPDVVSYNIMLSCILL----NSDDVVAAFDFFQRLPI-KDTASWNTMISGFVQ----KKNMAKARDLFLAMPE-KNSVSW  104 (571)
Q Consensus        35 ~~~~~~~~~ll~~~~~----~~g~~~~A~~~~~~m~~-~d~~~~~~li~~~~~----~g~~~~A~~~~~~m~~-~d~~~~  104 (571)
                      ..++..+..|-..|..    . +++++|+..|++..+ .++..+..|...|..    .+++++|++.|++..+ .++..+
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            3577777888878877    6 999999999987643 577888899999998    8999999999998754 467788


Q ss_pred             HHHHHHHHH----cCChHHHHHHHhhCC-CCChhHHHHHHHHHHh----cCCHHHHHHHHhhCCC-CCHHHHHHHHHHHH
Q 008280          105 SAMISGYIE----CGQLDKAVELFKVAP-VKSVVAWTAMISGYMK----FGKVDLAEKLFDEMPT-KNLVTWNAMIAGYV  174 (571)
Q Consensus       105 ~~li~~~~~----~g~~~~A~~~~~~~~-~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~  174 (571)
                      ..|...|..    .+++++|++.|++.. ..++..+..|..+|..    .++.++|.+.|++..+ .+..++..+...|.
T Consensus       115 ~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~~~~a~~~Lg~~y~  194 (490)
T 2xm6_A          115 QNLGVMYHEGNGVKVDKAESVKWFRLAAEQGRDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQGNVWSCNQLGYMYS  194 (490)
T ss_dssp             HHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHh
Confidence            888888988    889999999998775 3466788889999988    8899999999988764 57788999999999


Q ss_pred             H----cCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhc----cCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHh-
Q 008280          175 E----NSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSH----LSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCK-  245 (571)
Q Consensus       175 ~----~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~----~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~-  245 (571)
                      .    .+++++|+..|++..+.|   +...+..+...+..    .++.++|...++...+.|   +...+..|..+|.. 
T Consensus       195 ~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g  268 (490)
T 2xm6_A          195 RGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQFRLGYILEQG  268 (490)
T ss_dssp             HTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHT
T ss_pred             cCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHCC
Confidence            8    899999999999998865   55666677766664    789999999999998875   45677788888888 


Q ss_pred             ---cCCHHHHHHHHHhhCC-CChhhHHHHHHHHHHc-----CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC---
Q 008280          246 ---CGDLEDACKLFLEIQR-KDVVTWNAMISGYAQH-----GKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAG---  313 (571)
Q Consensus       246 ---~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g---  313 (571)
                         .++.++|...|++..+ .+..++..+...|...     +++++|+..|++..+.|   +...+..+...+...|   
T Consensus       269 ~~~~~d~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~~g~~~  345 (490)
T 2xm6_A          269 LAGAKEPLKALEWYRKSAEQGNSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG---DATAQANLGAIYFRLGSEE  345 (490)
T ss_dssp             TTSSCCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHSCCHH
T ss_pred             CCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCcc
Confidence               8999999999998765 4677888888888887     89999999999998865   4566777777777756   


Q ss_pred             cHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHH----cCCHHHHHHHHHhCCCCCCHhHHHHHHHHHHh----cCCHhH
Q 008280          314 LVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGR----AGKLVEAVDLIKKMPFKPQPAIFGTLLSACRV----HKRLDL  385 (571)
Q Consensus       314 ~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~  385 (571)
                      +.++|.++|++..+.    .++..+..|..+|..    .+++++|.+.|++.-...++..+..|...|..    .++.++
T Consensus       346 ~~~~A~~~~~~a~~~----~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~~~~a~~~Lg~~y~~g~g~~~d~~~  421 (490)
T 2xm6_A          346 EHKKAVEWFRKAAAK----GEKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQGLSAAQVQLGEIYYYGLGVERDYVQ  421 (490)
T ss_dssp             HHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHH
T ss_pred             cHHHHHHHHHHHHHC----CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHcCCCCCCCHHH
Confidence            889999999998863    467888899999998    89999999999987333467888889998888    899999


Q ss_pred             HHHHHHHHhccCCC---CCchhHHHHHHHHhh
Q 008280          386 AEFAAMNLFNLNPA---NAAGCYVQLANIYAA  414 (571)
Q Consensus       386 a~~~~~~~~~~~p~---~~~~~~~~l~~~~~~  414 (571)
                      |...|+++.+.+|+   ++. ....|+.++..
T Consensus       422 A~~~~~~A~~~~~~~~~~~~-a~~~l~~~~~~  452 (490)
T 2xm6_A          422 AWAWFDTASTNDMNLFGTEN-RNITEKKLTAK  452 (490)
T ss_dssp             HHHHHHHHHHHHCCHHHHHH-HHHHHTTSCHH
T ss_pred             HHHHHHHHHHCCCCCcCCHH-HHHHHHhcCHh
Confidence            99999999998854   555 66667666553

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.80  E-value=8.1e-17  Score=168.40  Aligned_cols=213  Identities=7%  Similarity=0.028  Sum_probs=156.3

Q ss_pred             HHHHHHHHHHHhCCCCCCcchHHHHHHHHHh-------cCCHH-------HHHHHHHhhCC---C-ChhhHHHHHHHHHH
Q 008280          215 QLGKQVHQLVFKSPLCKDTTALTPLISMYCK-------CGDLE-------DACKLFLEIQR---K-DVVTWNAMISGYAQ  276 (571)
Q Consensus       215 ~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~-------~g~~~-------~A~~~~~~~~~---~-~~~~~~~li~~~~~  276 (571)
                      +.+..+|++++... +.+..+|..++..+.+       .|+++       +|..+|++..+   | +...|..++..+.+
T Consensus       255 ~~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~  333 (530)
T 2ooe_A          255 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  333 (530)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHh
Confidence            36677788877763 5567788888888775       68876       88888887763   2 56788888888888


Q ss_pred             cCChHHHHHHHHHHHHcCCCCC-H-HHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHH-HHHcCCHHH
Q 008280          277 HGKGEKALRLFDKMKDEGMKPD-S-ITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDL-LGRAGKLVE  353 (571)
Q Consensus       277 ~g~~~~A~~~~~~m~~~g~~p~-~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~-~~~~g~~~~  353 (571)
                      .|++++|..+|+++.+.  .|+ . ..|...+..+.+.|++++|..+|+...+.  .+.+...|...+.+ +...|+.++
T Consensus       334 ~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~--~~~~~~~~~~~a~~~~~~~~~~~~  409 (530)
T 2ooe_A          334 RMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED--ARTRHHVYVTAALMEYYCSKDKSV  409 (530)
T ss_dssp             TTCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC--TTCCTHHHHHHHHHHHHHTCCHHH
T ss_pred             cCCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--cCCchHHHHHHHHHHHHHcCChhH
Confidence            99999999999988874  454 2 46777888888888899999999888753  12223333333322 336889999


Q ss_pred             HHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCC---chhHHHHHHHHhhccChhHHHHHHHHH
Q 008280          354 AVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANA---AGCYVQLANIYAAMKKWDDVARIRLSM  428 (571)
Q Consensus       354 A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~---~~~~~~l~~~~~~~g~~~~a~~~~~~m  428 (571)
                      |..+|++. ...| ++..|..++..+...|+.++|..+|++++...|.++   ...|...+......|+.+.+.++++++
T Consensus       410 A~~~~e~al~~~p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~  489 (530)
T 2ooe_A          410 AFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRR  489 (530)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            99998876 2223 567888888888888999999999999988765443   225556677777889999998888887


Q ss_pred             HhCC
Q 008280          429 KENN  432 (571)
Q Consensus       429 ~~~~  432 (571)
                      .+.-
T Consensus       490 ~~~~  493 (530)
T 2ooe_A          490 FTAF  493 (530)
T ss_dssp             HHHT
T ss_pred             HHHC
Confidence            6543

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.79  E-value=4.9e-16  Score=160.75  Aligned_cols=351  Identities=17%  Similarity=0.059  Sum_probs=298.6

Q ss_pred             CCChhhHHHHHHHHHc----CCCHHHHHHHHhhCCC-CCcchHHHHHHHHHH----cCChHHHHHHHhhCC-CCChhHHH
Q 008280           67 IKDTASWNTMISGFVQ----KKNMAKARDLFLAMPE-KNSVSWSAMISGYIE----CGQLDKAVELFKVAP-VKSVVAWT  136 (571)
Q Consensus        67 ~~d~~~~~~li~~~~~----~g~~~~A~~~~~~m~~-~d~~~~~~li~~~~~----~g~~~~A~~~~~~~~-~~~~~~~~  136 (571)
                      ..|+..+..+...|..    .+++++|+..|++..+ .+..++..|...|..    .+++++|++.|++.. ..++..+.
T Consensus        36 ~g~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~  115 (490)
T 2xm6_A           36 SGEAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQGYTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKGLPQAQQ  115 (490)
T ss_dssp             TTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             CCCHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHH
Confidence            4577888888888888    8999999999998754 577888899999999    999999999998775 34678888


Q ss_pred             HHHHHHHh----cCCHHHHHHHHhhCCC-CCHHHHHHHHHHHHH----cCChhHHHHHHHHHHHCCCCCCHhHHHHHHHH
Q 008280          137 AMISGYMK----FGKVDLAEKLFDEMPT-KNLVTWNAMIAGYVE----NSWAEDGLKLLRMMIGLGIRPNASSLSSVLLG  207 (571)
Q Consensus       137 ~li~~~~~----~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~  207 (571)
                      .|..+|..    .+++++|...|++..+ .++.++..|...|..    .+++++|++.|++..+.|   +...+..+...
T Consensus       116 ~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~  192 (490)
T 2xm6_A          116 NLGVMYHEGNGVKVDKAESVKWFRLAAEQGRDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWSCNQLGYM  192 (490)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHH
T ss_pred             HHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHH
Confidence            89999998    8899999999998764 567789999999988    889999999999998865   56777777777


Q ss_pred             Hhc----cCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHh----cCCHHHHHHHHHhhCC-CChhhHHHHHHHHHH--
Q 008280          208 CSH----LSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCK----CGDLEDACKLFLEIQR-KDVVTWNAMISGYAQ--  276 (571)
Q Consensus       208 ~~~----~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~----~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~--  276 (571)
                      +..    .++.++|...++...+.|   +...+..|..+|..    .+++++|...|++..+ .+..++..+...|..  
T Consensus       193 y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~y~~g~  269 (490)
T 2xm6_A          193 YSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQGNSIAQFRLGYILEQGL  269 (490)
T ss_dssp             HHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTT
T ss_pred             HhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCC
Confidence            776    899999999999999876   56678889999987    8999999999998764 467788888888888  


Q ss_pred             --cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc-----CcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcC
Q 008280          277 --HGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHA-----GLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAG  349 (571)
Q Consensus       277 --~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~-----g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  349 (571)
                        .++.++|+..|++..+.|   +...+..+...+...     +++++|..+|+...+.    .+...+..|..+|.+.|
T Consensus       270 ~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~----~~~~a~~~lg~~y~~~g  342 (490)
T 2xm6_A          270 AGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQ----GDATAQANLGAIYFRLG  342 (490)
T ss_dssp             TSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHSC
T ss_pred             CCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhc----CCHHHHHHHHHHHHhCC
Confidence              899999999999998764   556677777888877     8999999999998763    35667888888888867


Q ss_pred             ---CHHHHHHHHHhCCCCCCHhHHHHHHHHHHh----cCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhh----ccCh
Q 008280          350 ---KLVEAVDLIKKMPFKPQPAIFGTLLSACRV----HKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAA----MKKW  418 (571)
Q Consensus       350 ---~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~----~g~~  418 (571)
                         ++++|++.|++.-...++..+..|...|..    .+++++|...++++.+.+  ++. ++..|+.+|..    .+++
T Consensus       343 ~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~--~~~-a~~~Lg~~y~~g~g~~~d~  419 (490)
T 2xm6_A          343 SEEEHKKAVEWFRKAAAKGEKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQG--LSA-AQVQLGEIYYYGLGVERDY  419 (490)
T ss_dssp             CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT--CHH-HHHHHHHHHHHTSSSCCCH
T ss_pred             CcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCC--CHH-HHHHHHHHHHcCCCCCCCH
Confidence               889999999987333578899999999988    899999999999998865  355 89999999998    8999


Q ss_pred             hHHHHHHHHHHhCCC
Q 008280          419 DDVARIRLSMKENNV  433 (571)
Q Consensus       419 ~~a~~~~~~m~~~~~  433 (571)
                      ++|.+.|++..+.+.
T Consensus       420 ~~A~~~~~~A~~~~~  434 (490)
T 2xm6_A          420 VQAWAWFDTASTNDM  434 (490)
T ss_dssp             HHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHCCC
Confidence            999999999988663

>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=1.3e-18  Score=170.48  Aligned_cols=301  Identities=15%  Similarity=0.171  Sum_probs=144.3

Q ss_pred             cCCCHHHHHHHHhhCCCCCcchHHHHHHHHHHcCChHHHHHHHhhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCC-
Q 008280           82 QKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGKVDLAEKLFDEMPT-  160 (571)
Q Consensus        82 ~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-  160 (571)
                      +.|++++|.++++++..|  .+|..++.++.+.|++++|++.|.+.  +|...|..++..+...|++++|++.++...+ 
T Consensus        15 ~~~~ld~A~~fae~~~~~--~vWs~La~A~l~~g~~~eAIdsfika--~D~~~y~~V~~~ae~~g~~EeAi~yl~~ark~   90 (449)
T 1b89_A           15 HIGNLDRAYEFAERCNEP--AVWSQLAKAQLQKGMVKEAIDSYIKA--DDPSSYMEVVQAANTSGNWEELVKYLQMARKK   90 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhCCCh--HHHHHHHHHHHHcCCHHHHHHHHHcC--CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh
Confidence            668899999999999655  48999999999999999999999764  5667888999999999999999997776654 


Q ss_pred             -CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHH
Q 008280          161 -KNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPL  239 (571)
Q Consensus       161 -~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l  239 (571)
                       +++.+.+.++.+|.+.|+++++.++++       .|+..+|..+...|...|.++.|+.+|..+         ..|..|
T Consensus        91 ~~~~~i~~~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~~~L  154 (449)
T 1b89_A           91 ARESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRL  154 (449)
T ss_dssp             ------------------CHHHHTTTTT-------CC----------------CTTTHHHHHHHT---------TCHHHH
T ss_pred             CccchhHHHHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhHHHH
Confidence             456788899999999999999988885       477789999999999999999999999866         478899


Q ss_pred             HHHHHhcCCHHHHHHHHHhhCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHH
Q 008280          240 ISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGI  319 (571)
Q Consensus       240 i~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~  319 (571)
                      ++++.+.|++++|.+.+.++  .++.+|..++.+|...|+++.|......+.   +.|+.  ...++..|.+.|.++++.
T Consensus       155 A~~L~~Lg~yq~AVea~~KA--~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~---~~ad~--l~~lv~~Yek~G~~eEai  227 (449)
T 1b89_A          155 ASTLVHLGEYQAAVDGARKA--NSTRTWKEVCFACVDGKEFRLAQMCGLHIV---VHADE--LEELINYYQDRGYFEELI  227 (449)
T ss_dssp             HHHHHTTTCHHHHHHHHHHH--TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT---TCHHH--HHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHc--CCchhHHHHHHHHHHcCcHHHHHHHHHHHH---hCHhh--HHHHHHHHHHCCCHHHHH
Confidence            99999999999999999988  388999999999999999999966555422   33443  446888899999999999


Q ss_pred             HHHHHhHHhcCCCC-ChHhHHHHHHHHHH--cCCHHHHHHHHHhC-CCCC------CHhHHHHHHHHHHhcCCHhHHHHH
Q 008280          320 QYFDSMVNDYGIAA-KPDHYTCMVDLLGR--AGKLVEAVDLIKKM-PFKP------QPAIFGTLLSACRVHKRLDLAEFA  389 (571)
Q Consensus       320 ~~~~~~~~~~~~~~-~~~~~~~li~~~~~--~g~~~~A~~~~~~~-~~~p------~~~~~~~l~~~~~~~g~~~~a~~~  389 (571)
                      .+++...   +.++ ....|+-|.-+|++  -|++.+.++.|..- .++|      +...|.-+.-.|...++++.|...
T Consensus       228 ~lLe~aL---~le~ah~~~ftel~il~~ky~p~k~~ehl~~~~~~ini~k~~~~~~~~~~w~e~~~ly~~~~e~d~A~~t  304 (449)
T 1b89_A          228 TMLEAAL---GLERAHMGMFTELAILYSKFKPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIIT  304 (449)
T ss_dssp             HHHHHHT---TSTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHSTTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHh---CCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHHHhhchHHHHHHH
Confidence            9998876   3333 36677777777765  45677777777543 3333      356788888889999999988765


Q ss_pred             HHHHhcc------------CCCCCchhHHHHHHHHh
Q 008280          390 AMNLFNL------------NPANAAGCYVQLANIYA  413 (571)
Q Consensus       390 ~~~~~~~------------~p~~~~~~~~~l~~~~~  413 (571)
                      .-+-...            .|.+.. .|...+..|.
T Consensus       305 m~~h~~~a~~~~~f~~~~~kv~n~e-lyYkai~fyl  339 (449)
T 1b89_A          305 MMNHPTDAWKEGQFKDIITKVANVE-LYYRAIQFYL  339 (449)
T ss_dssp             HHHSTTTTCCHHHHHHHHHHCSSTH-HHHHHHHHHH
T ss_pred             HHhCChhhhhhHHHHHHHhchhHHH-HHHHHHHHHH
Confidence            4433222            455555 6666666665

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.78  E-value=5.8e-18  Score=168.15  Aligned_cols=260  Identities=12%  Similarity=0.028  Sum_probs=186.9

Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHH
Q 008280          163 LVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISM  242 (571)
Q Consensus       163 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~  242 (571)
                      ...|..+...+.+.|++++|+..|+++.+.. +.+..++..+...+...|++++|...++.+++.. +.+..++..++..
T Consensus        65 ~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~  142 (365)
T 4eqf_A           65 WPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAVS  142 (365)
T ss_dssp             CTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHH
Confidence            3446666666666666666666666666542 3345566666666666666666666666666553 3445666777777


Q ss_pred             HHhcCCHHHHHHHHHhhCCCC-------------hhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCC-CCHHHHHHHHHH
Q 008280          243 YCKCGDLEDACKLFLEIQRKD-------------VVTWNAMISGYAQHGKGEKALRLFDKMKDEGMK-PDSITFVALLLA  308 (571)
Q Consensus       243 y~~~g~~~~A~~~~~~~~~~~-------------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~~~t~~~ll~a  308 (571)
                      |.+.|++++|...|+++.+.+             ...+..+...+...|++++|+..|+++...... ++..++..+...
T Consensus       143 ~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~  222 (365)
T 4eqf_A          143 YTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVL  222 (365)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHH
T ss_pred             HHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHH
Confidence            777777777777777665311             223344577888899999999999998876422 157788888999


Q ss_pred             HHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHhHH
Q 008280          309 CNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLA  386 (571)
Q Consensus       309 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a  386 (571)
                      +...|++++|...|+++.+.  .+.+..+|..+..+|.+.|++++|++.|+++ ...| +..+|..+...|...|++++|
T Consensus       223 ~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A  300 (365)
T 4eqf_A          223 FHLSGEFNRAIDAFNAALTV--RPEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPGFIRSRYNLGISCINLGAYREA  300 (365)
T ss_dssp             HHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCHHHH
Confidence            99999999999999998874  3456888999999999999999999999887 2234 478899999999999999999


Q ss_pred             HHHHHHHhccCCC------------CCchhHHHHHHHHhhccChhHHHHHHHH
Q 008280          387 EFAAMNLFNLNPA------------NAAGCYVQLANIYAAMKKWDDVARIRLS  427 (571)
Q Consensus       387 ~~~~~~~~~~~p~------------~~~~~~~~l~~~~~~~g~~~~a~~~~~~  427 (571)
                      ...+++++++.|+            +.. .+..|+.++...|+.+.+.++.++
T Consensus       301 ~~~~~~al~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          301 VSNFLTALSLQRKSRNQQQVPHPAISGN-IWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             HHHHHHHHHHHHCC------------CH-HHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             HHHHHHHHHhCcccCCCcccchhhhHHH-HHHHHHHHHHHcCcHHHHHHHHHh
Confidence            9999999988776            244 889999999999999988877653

>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=99.78  E-value=1.3e-15  Score=165.58  Aligned_cols=374  Identities=13%  Similarity=0.159  Sum_probs=282.9

Q ss_pred             HHHHHHHHHhCCCCHHHHHHHHhhCCC-CC-----hhhHHHHHHHHHcCCCCHHHHHHHHhhCCCCChhhHHHHHHHHHc
Q 008280            9 WNSVLAGFAKQRGKLKDAQELFDKIPQ-PD-----VVSYNIMLSCILLNSDDVVAAFDFFQRLPIKDTASWNTMISGFVQ   82 (571)
Q Consensus         9 ~~~l~~~~~~~~g~~~~A~~~~~~~~~-~~-----~~~~~~ll~~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~   82 (571)
                      -...+++|+..| .+.+|.++++++.- |+     ...-+.|+.+..+.  +..+..+...+...-+   ..-+...+..
T Consensus       988 Vs~~vKaf~~ag-lp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka--D~~Rv~eyI~kLd~~d---~~eIA~Iai~ 1061 (1630)
T 1xi4_A          988 VSVTVKAFMTAD-LPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA--DRTRVMEYINRLDNYD---APDIANIAIS 1061 (1630)
T ss_pred             hHHHHHHHHhCC-CHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh--ChhhHHHHHHHhhhcc---HHHHHHHHHh
Confidence            355677888887 88888888887752 22     23445555554444  3344444444443222   3447778888


Q ss_pred             CCCHHHHHHHHhhCCCCCcchHHHHHHHHHHcCChHHHHHHHhhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCCCC
Q 008280           83 KKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGKVDLAEKLFDEMPTKN  162 (571)
Q Consensus        83 ~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~  162 (571)
                      .|.+++|..+|++... .....+.++   -..|++++|.++.++.  .++.+|..+..++.+.|++++|.+.|.+.  .|
T Consensus      1062 lglyEEAf~IYkKa~~-~~~A~~VLi---e~i~nldrAiE~Aerv--n~p~vWsqLAKAql~~G~~kEAIdsYiKA--dD 1133 (1630)
T 1xi4_A         1062 NELFEEAFAIFRKFDV-NTSAVQVLI---EHIGNLDRAYEFAERC--NEPAVWSQLAKAQLQKGMVKEAIDSYIKA--DD 1133 (1630)
T ss_pred             CCCHHHHHHHHHHcCC-HHHHHHHHH---HHHhhHHHHHHHHHhc--CCHHHHHHHHHHHHhCCCHHHHHHHHHhc--CC
Confidence            9999999999999742 222223332   2778999999999877  45788999999999999999999999764  67


Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHH
Q 008280          163 LVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISM  242 (571)
Q Consensus       163 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~  242 (571)
                      ...|..++.++.+.|++++|++.|...++..  ++....+.+..+|++.++++....+.    +   .++...+..+.+.
T Consensus      1134 ~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI----~---~~n~ad~~~iGd~ 1204 (1630)
T 1xi4_A         1134 PSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI----N---GPNNAHIQQVGDR 1204 (1630)
T ss_pred             hHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH----h---CCCHHHHHHHHHH
Confidence            8889999999999999999999998877653  44434445888899998888644442    2   3455667779999


Q ss_pred             HHhcCCHHHHHHHHHhhCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHH
Q 008280          243 YCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYF  322 (571)
Q Consensus       243 y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~  322 (571)
                      |...|++++|..+|...     ..|..+...|.+.|++++|.+.+++.      .+..+|..+..+|...|++..|....
T Consensus      1205 le~eg~YeeA~~~Y~kA-----~ny~rLA~tLvkLge~q~AIEaarKA------~n~~aWkev~~acve~~Ef~LA~~cg 1273 (1630)
T 1xi4_A         1205 CYDEKMYDAAKLLYNNV-----SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCG 1273 (1630)
T ss_pred             HHhcCCHHHHHHHHHhh-----hHHHHHHHHHHHhCCHHHHHHHHHHh------CCHHHHHHHHHHHhhhhHHHHHHHHH
Confidence            99999999999999985     48999999999999999999999876      36688999999999999999998865


Q ss_pred             HHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-HhHHHHHHHHHHh--cCCHhHHHHHHHHHhccCC
Q 008280          323 DSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQ-PAIFGTLLSACRV--HKRLDLAEFAAMNLFNLNP  398 (571)
Q Consensus       323 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~--~g~~~~a~~~~~~~~~~~p  398 (571)
                      ..      +..+++.+..++..|.+.|.+++|+.+++.. +..|. ...|.-|...+.+  -++..++.+.|..-....|
T Consensus      1274 l~------Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~LeraH~gmftELaiLyaKy~peklmEhlk~f~~rini~k 1347 (1630)
T 1xi4_A         1274 LH------IVVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFKPQKMREHLELFWSRVNIPK 1347 (1630)
T ss_pred             Hh------hhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccChhHhHHHHHHHHHHHhCCHHHHHHHHHHHHHhcccch
Confidence            53      3446777889999999999999999999776 43333 3566666666654  4566677777777766655


Q ss_pred             -----CCCchhHHHHHHHHhhccChhHHHH
Q 008280          399 -----ANAAGCYVQLANIYAAMKKWDDVAR  423 (571)
Q Consensus       399 -----~~~~~~~~~l~~~~~~~g~~~~a~~  423 (571)
                           .+.. .|..+...|.+.|+|+.|..
T Consensus      1348 ~~r~~e~~~-lW~elv~LY~~~~e~dnA~~ 1376 (1630)
T 1xi4_A         1348 VLRAAEQAH-LWAELVFLYDKYEEYDNAII 1376 (1630)
T ss_pred             HhHHHHHHH-HHHHHHHHHHhcccHHHHHH
Confidence                 4555 88999999999999999984

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.78  E-value=5.8e-17  Score=166.88  Aligned_cols=357  Identities=13%  Similarity=0.021  Sum_probs=212.7

Q ss_pred             hhhHHHHHHHHHcCCCHHHHHHHHhhCC-----------CC-CcchHHHHHHHHHHcCChHHHHHHHhhCC---------
Q 008280           70 TASWNTMISGFVQKKNMAKARDLFLAMP-----------EK-NSVSWSAMISGYIECGQLDKAVELFKVAP---------  128 (571)
Q Consensus        70 ~~~~~~li~~~~~~g~~~~A~~~~~~m~-----------~~-d~~~~~~li~~~~~~g~~~~A~~~~~~~~---------  128 (571)
                      ...||.|...|...|++++|++.|++..           .+ ...+|+.+..+|...|++++|...+++..         
T Consensus        51 a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~  130 (472)
T 4g1t_A           51 ATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSP  130 (472)
T ss_dssp             CHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCS
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcccc
Confidence            3456666666666666666666665432           11 23466677777777777777776665442         


Q ss_pred             --CCChhHHHHHHHHHHhc--CCHHHHHHHHhhCCC--C-CHHHHHHHHHHH---HHcCChhHHHHHHHHHHHCCCCCCH
Q 008280          129 --VKSVVAWTAMISGYMKF--GKVDLAEKLFDEMPT--K-NLVTWNAMIAGY---VENSWAEDGLKLLRMMIGLGIRPNA  198 (571)
Q Consensus       129 --~~~~~~~~~li~~~~~~--g~~~~A~~~~~~~~~--~-~~~~~~~li~~~---~~~g~~~~A~~~~~~m~~~g~~pd~  198 (571)
                        .....++..+..++.+.  +++++|...|++..+  | ++..+..+..++   ...++.++|++.|++..+.. +.+.
T Consensus       131 ~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~-p~~~  209 (472)
T 4g1t_A          131 YRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN-PDNQ  209 (472)
T ss_dssp             SCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC-SSCH
T ss_pred             cchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC-Ccch
Confidence              11234555554444443  457788888877653  3 444555554443   34566777888887776643 2344


Q ss_pred             hHHHHHHHHHhc----cCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCC---CChhhHHHHH
Q 008280          199 SSLSSVLLGCSH----LSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMI  271 (571)
Q Consensus       199 ~t~~~ll~~~~~----~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li  271 (571)
                      ..+..+...+..    .++.++|...++.+.+.. +.+..++..+...|.+.|++++|...|++..+   .+..+|..+.
T Consensus       210 ~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg  288 (472)
T 4g1t_A          210 YLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYIPNNAYLHCQIG  288 (472)
T ss_dssp             HHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCCChHHHHHHHH
Confidence            445444444433    356677788887777664 45566777788888888888888888877653   3455666665


Q ss_pred             HHHHH-------------------cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCC
Q 008280          272 SGYAQ-------------------HGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIA  332 (571)
Q Consensus       272 ~~~~~-------------------~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~  332 (571)
                      ..|..                   .+..++|...|++..... +.+..++..+...+...|++++|...|++..+.   .
T Consensus       289 ~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~---~  364 (472)
T 4g1t_A          289 CCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEAN-DNLFRVCSILASLHALADQYEEAEYYFQKEFSK---E  364 (472)
T ss_dssp             HHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHC-TTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHS---C
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcC-CchhhhhhhHHHHHHHhccHHHHHHHHHHHHhc---C
Confidence            55532                   233567888888877653 223456777888899999999999999988763   3


Q ss_pred             CChH----hHHHHHHH-HHHcCCHHHHHHHHHhC-CCCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHH
Q 008280          333 AKPD----HYTCMVDL-LGRAGKLVEAVDLIKKM-PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYV  406 (571)
Q Consensus       333 ~~~~----~~~~li~~-~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~  406 (571)
                      |+..    .+..+... +...|+.++|++.|++. .+.|+...+...         ...+..++++.++.+|+++. +|.
T Consensus       365 ~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~~~~~~~~~~---------~~~l~~~~~~~l~~~p~~~~-~~~  434 (472)
T 4g1t_A          365 LTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKINQKSREKEKM---------KDKLQKIAKMRLSKNGADSE-ALH  434 (472)
T ss_dssp             CCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSCCCCHHHHHH---------HHHHHHHHHHHHHHCC-CTT-HHH
T ss_pred             CCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcccHHHHHH---------HHHHHHHHHHHHHhCCCCHH-HHH
Confidence            3322    23333332 34678999999998876 455665433322         34456778888889999998 999


Q ss_pred             HHHHHHhhccChhHHHHHHHHHHhCCCccCCceeEE
Q 008280          407 QLANIYAAMKKWDDVARIRLSMKENNVVKMPGYSWI  442 (571)
Q Consensus       407 ~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~s~~  442 (571)
                      .|+.+|...|++++|.+.|++..+.+...+...+|+
T Consensus       435 ~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a~~~~  470 (472)
T 4g1t_A          435 VLAFLQELNEKMQQADEDSERGLESGSLIPSASSWN  470 (472)
T ss_dssp             HHHHHHHHHHHCC-----------------------
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcHhhcC
Confidence            999999999999999999999988776544455554

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.78  E-value=5.7e-16  Score=161.96  Aligned_cols=391  Identities=10%  Similarity=0.111  Sum_probs=239.2

Q ss_pred             CCCcchHHHHHHHHHhCCCCHHHHHHHHhhCCC--C-ChhhHHHHHHHHHcCCCCHHHHHHHHhhCCC--CChhhHHHHH
Q 008280            3 VKTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQ--P-DVVSYNIMLSCILLNSDDVVAAFDFFQRLPI--KDTASWNTMI   77 (571)
Q Consensus         3 ~~~~~~~~~l~~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~ll~~~~~~~g~~~~A~~~~~~m~~--~d~~~~~~li   77 (571)
                      |-+..+|..++. +.+.| ++++|+.+|+++.+  | +...|..++..+.+. |++++|+++|++...  |++..|..++
T Consensus        10 P~~~~~w~~l~~-~~~~~-~~~~a~~~~e~al~~~P~~~~~w~~~~~~~~~~-~~~~~a~~~~~ral~~~p~~~lw~~~~   86 (530)
T 2ooe_A           10 PYDLDAWSILIR-EAQNQ-PIDKARKTYERLVAQFPSSGRFWKLYIEAEIKA-KNYDKVEKLFQRCLMKVLHIDLWKCYL   86 (530)
T ss_dssp             TTCHHHHHHHHH-HHHSS-CHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHT-TCHHHHHHHHHHHTTTCCCHHHHHHHH
T ss_pred             CCCHHHHHHHHH-HHHhC-CHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHhc-CCHHHHHHHHHHHHhcCCChHHHHHHH
Confidence            446667777777 35666 88888888887765  3 445677777777777 888888888887653  5666676666


Q ss_pred             HHH-HcCCCHHHHHH----HHhhCC-----C-CCcchHHHHHHHHHH---------cCChHHHHHHHhhCCCC-Ch---h
Q 008280           78 SGF-VQKKNMAKARD----LFLAMP-----E-KNSVSWSAMISGYIE---------CGQLDKAVELFKVAPVK-SV---V  133 (571)
Q Consensus        78 ~~~-~~~g~~~~A~~----~~~~m~-----~-~d~~~~~~li~~~~~---------~g~~~~A~~~~~~~~~~-~~---~  133 (571)
                      ... ...|+.++|.+    +|+...     . ++...|...+....+         .|++++|+.+|++.... ..   .
T Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~P~~~~~~  166 (530)
T 2ooe_A           87 SYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVNPMINIEQ  166 (530)
T ss_dssp             HHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTSCCTTHHH
T ss_pred             HHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhchhhhHHH
Confidence            432 34566666554    555432     1 244566666665544         57777888888776532 11   2


Q ss_pred             HHHHHHHHH-------------HhcCCHHHHHHHHhh-------CC------CCC--------HHHHHHHHHHHHHc---
Q 008280          134 AWTAMISGY-------------MKFGKVDLAEKLFDE-------MP------TKN--------LVTWNAMIAGYVEN---  176 (571)
Q Consensus       134 ~~~~li~~~-------------~~~g~~~~A~~~~~~-------~~------~~~--------~~~~~~li~~~~~~---  176 (571)
                      .|.......             .+.++++.|..++..       +.      .|+        ...|...+......   
T Consensus       167 ~~~~~~~~e~~~~~~~~~~~l~~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w~~~~~~e~~~~~~  246 (530)
T 2ooe_A          167 LWRDYNKYEEGINIHLAKKMIEDRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVDMWKKYIQWEKSNPLR  246 (530)
T ss_dssp             HHHHHHHHHHHHCHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHHHHHHHHHHHHHCSSC
T ss_pred             HHHHHHHHHHhhchhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHHHHHHHHHHHHHHcCCcc
Confidence            333222211             123445666655543       11      111        23555555433332   


Q ss_pred             -CCh----hHHHHHHHHHHHCCCCCCHhHHHHHHHHHhc-------cCchH-------HHHHHHHHHHhCCCCCCcchHH
Q 008280          177 -SWA----EDGLKLLRMMIGLGIRPNASSLSSVLLGCSH-------LSSLQ-------LGKQVHQLVFKSPLCKDTTALT  237 (571)
Q Consensus       177 -g~~----~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~-------~~~~~-------~a~~~~~~~~~~g~~~~~~~~~  237 (571)
                       ++.    .+++.+|++..... +.+...|......+.+       .|+++       +|..+++.+++.-.+.+..++.
T Consensus       247 ~~~~~~~~~~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~  325 (530)
T 2ooe_A          247 TEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYF  325 (530)
T ss_dssp             CSCSHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHH
T ss_pred             CCcchhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHH
Confidence             122    36667777776642 3345566666555553       57765       7777777777632345567777


Q ss_pred             HHHHHHHhcCCHHHHHHHHHhhCC--C-Ch-hhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH-HHhc
Q 008280          238 PLISMYCKCGDLEDACKLFLEIQR--K-DV-VTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLA-CNHA  312 (571)
Q Consensus       238 ~li~~y~~~g~~~~A~~~~~~~~~--~-~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a-~~~~  312 (571)
                      .++..+.+.|++++|..+|+++.+  | +. ..|..++..+.+.|+.++|..+|++..+.. +.+...|...... +...
T Consensus       326 ~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~-~~~~~~~~~~a~~~~~~~  404 (530)
T 2ooe_A          326 AYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCS  404 (530)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCT-TCCTHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHhCccccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhcc-CCchHHHHHHHHHHHHHc
Confidence            777777777888888888777653  2 22 467777777777777788888887776642 1122223222222 2346


Q ss_pred             CcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC----CCCCC--HhHHHHHHHHHHhcCCHhHH
Q 008280          313 GLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM----PFKPQ--PAIFGTLLSACRVHKRLDLA  386 (571)
Q Consensus       313 g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~----~~~p~--~~~~~~l~~~~~~~g~~~~a  386 (571)
                      |+.++|..+|+...+..  +.++..|..+++.+.+.|+.++|..+|++.    +..|+  ...|...+.....+|+.+.+
T Consensus       405 ~~~~~A~~~~e~al~~~--p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~  482 (530)
T 2ooe_A          405 KDKSVAFKIFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASI  482 (530)
T ss_dssp             CCHHHHHHHHHHHHHHH--TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHH
T ss_pred             CChhHHHHHHHHHHHHC--CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHH
Confidence            77788888887776642  334677777777777778888888777776    22222  34677777777777888888


Q ss_pred             HHHHHHHhccCCCC
Q 008280          387 EFAAMNLFNLNPAN  400 (571)
Q Consensus       387 ~~~~~~~~~~~p~~  400 (571)
                      ..+.+++.+..|++
T Consensus       483 ~~~~~r~~~~~p~~  496 (530)
T 2ooe_A          483 LKVEKRRFTAFREE  496 (530)
T ss_dssp             HHHHHHHHHHTHHH
T ss_pred             HHHHHHHHHHCchh
Confidence            87777777777753

>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=99.78  E-value=2.8e-17  Score=163.21  Aligned_cols=289  Identities=15%  Similarity=0.037  Sum_probs=169.1

Q ss_pred             HHcCCCHHHHHH-HHhhCCC--C-----CcchHHHHHHHHHHcCChHHHHHHHhhCC---CCChhHHHHHHHHHHhcCCH
Q 008280           80 FVQKKNMAKARD-LFLAMPE--K-----NSVSWSAMISGYIECGQLDKAVELFKVAP---VKSVVAWTAMISGYMKFGKV  148 (571)
Q Consensus        80 ~~~~g~~~~A~~-~~~~m~~--~-----d~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~  148 (571)
                      +...|++++|+. .|++..+  |     +...+..+...+.+.|++++|+..|+++.   +.+..++..+...|.+.|++
T Consensus        35 ~~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~  114 (368)
T 1fch_A           35 HPWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQE  114 (368)
T ss_dssp             -----------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCH
T ss_pred             hHHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCcCH
Confidence            344578888888 7776532  1     35668888888999999999999988764   45667888899999999999


Q ss_pred             HHHHHHHhhCCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHh-HHHHHHHHHhccCchHHHHHHHHHH
Q 008280          149 DLAEKLFDEMPT---KNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNAS-SLSSVLLGCSHLSSLQLGKQVHQLV  224 (571)
Q Consensus       149 ~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~-t~~~ll~~~~~~~~~~~a~~~~~~~  224 (571)
                      ++|...|+++.+   .+..+|..+...|...|++++|+..|+++....  |+.. .+......       ..       .
T Consensus       115 ~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~-------~~-------~  178 (368)
T 1fch_A          115 LLAISALRRCLELKPDNQTALMALAVSFTNESLQRQACEILRDWLRYT--PAYAHLVTPAEEG-------AG-------G  178 (368)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS--TTTGGGCC----------------------
T ss_pred             HHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--cCcHHHHHHHHHH-------hh-------h
Confidence            999999988753   467899999999999999999999999998864  3322 22111000       00       0


Q ss_pred             HhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCC--C---ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCH
Q 008280          225 FKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR--K---DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDS  299 (571)
Q Consensus       225 ~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  299 (571)
                           ......+..+...+ ..|++++|...|+++.+  |   +..+|..+...|...|++++|+..|+++.... +.+.
T Consensus       179 -----~~~~~~~~~~~~~~-~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~  251 (368)
T 1fch_A          179 -----AGLGPSKRILGSLL-SDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDY  251 (368)
T ss_dssp             ------------CTTHHHH-HHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCH
T ss_pred             -----hcccHHHHHHHHHh-hcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCH
Confidence                 00000011122222 45555555555555431  1   24455555556666666666666666555432 2234


Q ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC----CCC---------CC
Q 008280          300 ITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM----PFK---------PQ  366 (571)
Q Consensus       300 ~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~----~~~---------p~  366 (571)
                      .++..+...+...|++++|...|+++.+.  .+.+...+..+..+|.+.|++++|.+.|+++    |..         ..
T Consensus       252 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  329 (368)
T 1fch_A          252 LLWNKLGATLANGNQSEEAVAAYRRALEL--QPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMS  329 (368)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCC
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchh
Confidence            45555556666666666666666655542  1233555566666666666666666666554    100         11


Q ss_pred             HhHHHHHHHHHHhcCCHhHHHHHHHHH
Q 008280          367 PAIFGTLLSACRVHKRLDLAEFAAMNL  393 (571)
Q Consensus       367 ~~~~~~l~~~~~~~g~~~~a~~~~~~~  393 (571)
                      ..+|..+..++...|++++|..++++.
T Consensus       330 ~~~~~~l~~~~~~~g~~~~A~~~~~~~  356 (368)
T 1fch_A          330 ENIWSTLRLALSMLGQSDAYGAADARD  356 (368)
T ss_dssp             HHHHHHHHHHHHHHTCGGGHHHHHTTC
T ss_pred             hHHHHHHHHHHHHhCChHhHHHhHHHH
Confidence            456666777777777777776666544

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.78  E-value=2.6e-16  Score=150.52  Aligned_cols=267  Identities=10%  Similarity=0.013  Sum_probs=191.1

Q ss_pred             hcCCHHHHHHHHhhCCCCCH----HHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHH
Q 008280          144 KFGKVDLAEKLFDEMPTKNL----VTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQ  219 (571)
Q Consensus       144 ~~g~~~~A~~~~~~~~~~~~----~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~  219 (571)
                      ..|++..|+..++.....++    .....+..+|...|++++|+..++.   . -+|+..++..+...+...++.+.|.+
T Consensus        11 ~~g~y~~ai~~~~~~~~~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~---~-~~~~~~a~~~la~~~~~~~~~~~A~~   86 (291)
T 3mkr_A           11 YIGSYQQCINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKP---S-SAPELQAVRMFAEYLASHSRRDAIVA   86 (291)
T ss_dssp             HTTCHHHHHHHHHHSCCCSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT---T-SCHHHHHHHHHHHHHHCSTTHHHHHH
T ss_pred             HHHHHHHHHHHHHhcccCCchhhHHHHHHHHHHHHHCCCHHHHHHHhcc---c-CChhHHHHHHHHHHHcCCCcHHHHHH
Confidence            35566666666555443222    2334455566666666666654433   1 23444555555555666666666666


Q ss_pred             HHHHHHhCCC-CCCcchHHHHHHHHHhcCCHHHHHHHHHhhCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCC
Q 008280          220 VHQLVFKSPL-CKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPD  298 (571)
Q Consensus       220 ~~~~~~~~g~-~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  298 (571)
                      .++.++..+. +.+...+..+..+|.+.|++++|.+.|++  ..+...+..++..|.+.|++++|...|+++.+..  |+
T Consensus        87 ~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~--~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~--p~  162 (291)
T 3mkr_A           87 ELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ--GDSLECMAMTVQILLKLDRLDLARKELKKMQDQD--ED  162 (291)
T ss_dssp             HHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT--CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TT
T ss_pred             HHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--cC
Confidence            6666665543 33455666777889999999999999998  5678899999999999999999999999998864  55


Q ss_pred             HHHH---HHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHhHHHHH
Q 008280          299 SITF---VALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTL  373 (571)
Q Consensus       299 ~~t~---~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l  373 (571)
                      ....   ...+..+...|++++|..+|+++.+.  .+.++..++.+..+|.+.|++++|++.|+++ ...| ++.+|..+
T Consensus       163 ~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~--~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~p~~~~~l~~l  240 (291)
T 3mkr_A          163 ATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK--CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDSGHPETLINL  240 (291)
T ss_dssp             CHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH--SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHH
Confidence            4321   12234444569999999999999985  4667889999999999999999999999987 2234 57789999


Q ss_pred             HHHHHhcCCHhH-HHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHH
Q 008280          374 LSACRVHKRLDL-AEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIR  425 (571)
Q Consensus       374 ~~~~~~~g~~~~-a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~  425 (571)
                      +..+...|+.++ +..+++++++++|+++.     +.+...+.+.++++..-|
T Consensus       241 ~~~~~~~g~~~eaa~~~~~~~~~~~P~~~~-----~~d~~~~~~~fd~~~~~~  288 (291)
T 3mkr_A          241 VVLSQHLGKPPEVTNRYLSQLKDAHRSHPF-----IKEYRAKENDFDRLVLQY  288 (291)
T ss_dssp             HHHHHHTTCCHHHHHHHHHHHHHHCTTCHH-----HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCCHHHHHHHHHHHHHhCCCChH-----HHHHHHHHHHHHHHHHHc
Confidence            999999999876 67899999999999874     345566666666665443

>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=99.76  E-value=3.7e-15  Score=162.05  Aligned_cols=349  Identities=11%  Similarity=0.101  Sum_probs=278.6

Q ss_pred             ChhhHHHHHHHHHcCCCCHHHHHHHHhhCCC-C-----ChhhHHHHHHHHHcCCCHHHHHHHHhhCCCCCcchHHHHHHH
Q 008280           37 DVVSYNIMLSCILLNSDDVVAAFDFFQRLPI-K-----DTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISG  110 (571)
Q Consensus        37 ~~~~~~~ll~~~~~~~g~~~~A~~~~~~m~~-~-----d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~  110 (571)
                      |+.-....+.+|... |.+.+|++++++..- +     +...-+.|+.+..+. +..+..++..+...-+   ...+...
T Consensus       984 ~PeeVs~~vKaf~~a-glp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~~d---~~eIA~I 1058 (1630)
T 1xi4_A          984 DPEEVSVTVKAFMTA-DLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLDNYD---APDIANI 1058 (1630)
T ss_pred             CHHHhHHHHHHHHhC-CCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhhhcc---HHHHHHH
Confidence            344445667778877 999999999998752 2     335667777777666 4455555555544222   4557888


Q ss_pred             HHHcCChHHHHHHHhhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHH
Q 008280          111 YIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAEDGLKLLRMMI  190 (571)
Q Consensus       111 ~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  190 (571)
                      +...|.+++|..+|++.. ......+.++   -..+++++|.++.++..  +..+|..+..++...|++++|++.|.+. 
T Consensus      1059 ai~lglyEEAf~IYkKa~-~~~~A~~VLi---e~i~nldrAiE~Aervn--~p~vWsqLAKAql~~G~~kEAIdsYiKA- 1131 (1630)
T 1xi4_A         1059 AISNELFEEAFAIFRKFD-VNTSAVQVLI---EHIGNLDRAYEFAERCN--EPAVWSQLAKAQLQKGMVKEAIDSYIKA- 1131 (1630)
T ss_pred             HHhCCCHHHHHHHHHHcC-CHHHHHHHHH---HHHhhHHHHHHHHHhcC--CHHHHHHHHHHHHhCCCHHHHHHHHHhc-
Confidence            999999999999999975 2222233333   27899999999999874  4678999999999999999999999653 


Q ss_pred             HCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCCCChhhHHHH
Q 008280          191 GLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAM  270 (571)
Q Consensus       191 ~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~l  270 (571)
                           -|...|..++.+|.+.|+++++.+++...++..  +++.+.+.++.+|++.+++++...+.   ..++...|..+
T Consensus      1132 -----dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI---~~~n~ad~~~i 1201 (1630)
T 1xi4_A         1132 -----DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI---NGPNNAHIQQV 1201 (1630)
T ss_pred             -----CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH---hCCCHHHHHHH
Confidence                 467788999999999999999999999988865  44445556999999999999655443   45677788889


Q ss_pred             HHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCC
Q 008280          271 ISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGK  350 (571)
Q Consensus       271 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  350 (571)
                      ...|...|++++|..+|...         ..|..+...+.+.|++++|.+.+++.       .+..+|..+..++...|+
T Consensus      1202 Gd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA-------~n~~aWkev~~acve~~E 1265 (1630)
T 1xi4_A         1202 GDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA-------NSTRTWKEVCFACVDGKE 1265 (1630)
T ss_pred             HHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHh-------CCHHHHHHHHHHHhhhhH
Confidence            99999999999999999984         37889999999999999999999866       346889999999999999


Q ss_pred             HHHHHHHHHhCCCCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhh--ccChhHHHHHHH
Q 008280          351 LVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAA--MKKWDDVARIRL  426 (571)
Q Consensus       351 ~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~--~g~~~~a~~~~~  426 (571)
                      +..|......+  ..++..+..++..|...|.+++|+.+++..++++|.... .|..|+.+|++  -++..++.++|.
T Consensus      1266 f~LA~~cgl~I--iv~~deLeeli~yYe~~G~feEAI~LlE~aL~LeraH~g-mftELaiLyaKy~peklmEhlk~f~ 1340 (1630)
T 1xi4_A         1266 FRLAQMCGLHI--VVHADELEELINYYQDRGYFEELITMLEAALGLERAHMG-MFTELAILYSKFKPQKMREHLELFW 1340 (1630)
T ss_pred             HHHHHHHHHhh--hcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccChhHhH-HHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            99999987754  345667779999999999999999999999999999888 89888888875  456666666665

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.76  E-value=4.7e-17  Score=161.54  Aligned_cols=263  Identities=13%  Similarity=0.047  Sum_probs=149.3

Q ss_pred             CcchHHHHHHHHHHcCChHHHHHHHhhCC---CCChhHHHHHHHHHHhcCCHHHHHHHHhhCCC---CCHHHHHHHHHHH
Q 008280          100 NSVSWSAMISGYIECGQLDKAVELFKVAP---VKSVVAWTAMISGYMKFGKVDLAEKLFDEMPT---KNLVTWNAMIAGY  173 (571)
Q Consensus       100 d~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~  173 (571)
                      +...|..+...+.+.|++++|++.|+++.   +.+..++..+...|.+.|++++|+..|++..+   .+..+|..+...|
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            44557777777788888888888877664   44567777777888888888888888777653   3566788888888


Q ss_pred             HHcCChhHHHHHHHHHHHCCCCCCHh-HHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHH
Q 008280          174 VENSWAEDGLKLLRMMIGLGIRPNAS-SLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDA  252 (571)
Q Consensus       174 ~~~g~~~~A~~~~~~m~~~g~~pd~~-t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A  252 (571)
                      ...|++++|+..|+++.+.  .|+.. .+..+.                         ....++..+...|.+.|++++|
T Consensus       144 ~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~-------------------------~~~~~~~~l~~~~~~~g~~~~A  196 (365)
T 4eqf_A          144 TNTSHQQDACEALKNWIKQ--NPKYKYLVKNKK-------------------------GSPGLTRRMSKSPVDSSVLEGV  196 (365)
T ss_dssp             HHTTCHHHHHHHHHHHHHH--CHHHHCC--------------------------------------------CCHHHHHH
T ss_pred             HccccHHHHHHHHHHHHHh--CccchHHHhhhc-------------------------cchHHHHHHHHHHhhhhhHHHH
Confidence            8888888888888877763  22211 111110                         0111223334445555555555


Q ss_pred             HHHHHhhCC--C---ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHH
Q 008280          253 CKLFLEIQR--K---DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVN  327 (571)
Q Consensus       253 ~~~~~~~~~--~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~  327 (571)
                      ...|+++.+  |   +..+|..+...|...|++++|+..|++..+.. +.+..++..+..++...|++++|...|+++.+
T Consensus       197 ~~~~~~al~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  275 (365)
T 4eqf_A          197 KELYLEAAHQNGDMIDPDLQTGLGVLFHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALE  275 (365)
T ss_dssp             HHHHHHHHHHSCSSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            555554431  1   34455555555555555555555555555432 22344555555556666666666666655554


Q ss_pred             hcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC----CC----------CCCHhHHHHHHHHHHhcCCHhHHHHHHHH
Q 008280          328 DYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM----PF----------KPQPAIFGTLLSACRVHKRLDLAEFAAMN  392 (571)
Q Consensus       328 ~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~----~~----------~p~~~~~~~l~~~~~~~g~~~~a~~~~~~  392 (571)
                      .  .+.+...+..+..+|.+.|++++|.+.|+++    |.          ..+..+|..+..++...|+.+.+..+.++
T Consensus       276 ~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          276 I--QPGFIRSRYNLGISCINLGAYREAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             H--CTTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             c--CCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            2  1223555555666666666666666665554    10          01245677777777777777766666554

>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=99.75  E-value=1.2e-16  Score=155.69  Aligned_cols=270  Identities=10%  Similarity=0.023  Sum_probs=173.2

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhCCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhcc
Q 008280          135 WTAMISGYMKFGKVDLAEKLFDEMPT---KNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHL  211 (571)
Q Consensus       135 ~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~  211 (571)
                      +..+...+...|++++|..+|+++.+   .+..+|..+...+...|++++|+..|+++.+.. +.+..++..+...+...
T Consensus        24 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~  102 (327)
T 3cv0_A           24 PMEEGLSMLKLANLAEAALAFEAVCQAAPEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNE  102 (327)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHHHHHHc
Confidence            34444555555555555555555432   234455555555555555555555555554432 22333444444444444


Q ss_pred             CchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCCCChhhHHHH-HH-HHHHcCChHHHHHHHHH
Q 008280          212 SSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAM-IS-GYAQHGKGEKALRLFDK  289 (571)
Q Consensus       212 ~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~l-i~-~~~~~g~~~~A~~~~~~  289 (571)
                      |++++|...++.+.+.. +.+...+..+....                  ++......+ .. .+...|++++|...+++
T Consensus       103 ~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~  163 (327)
T 3cv0_A          103 HNANAALASLRAWLLSQ-PQYEQLGSVNLQAD------------------VDIDDLNVQSEDFFFAAPNEYRECRTLLHA  163 (327)
T ss_dssp             TCHHHHHHHHHHHHHTS-TTTTTC--------------------------------------CCTTSHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhC-CccHHHHHHHhHHH------------------HHHHHHHHHHHhHHHHHcccHHHHHHHHHH
Confidence            44444444444444432 11111111110000                  000000111 22 36677888999999998


Q ss_pred             HHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CC-CCCH
Q 008280          290 MKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PF-KPQP  367 (571)
Q Consensus       290 m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~-~p~~  367 (571)
                      +.+.. +.+...+..+...+...|++++|...++.+.+.  .+.+...+..+...|.+.|++++|.+.++++ .. +.+.
T Consensus       164 ~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~  240 (327)
T 3cv0_A          164 ALEMN-PNDAQLHASLGVLYNLSNNYDSAAANLRRAVEL--RPDDAQLWNKLGATLANGNRPQEALDAYNRALDINPGYV  240 (327)
T ss_dssp             HHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCH
T ss_pred             HHhhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCH
Confidence            87764 336778888888999999999999999988764  3445778889999999999999999999886 22 2457


Q ss_pred             hHHHHHHHHHHhcCCHhHHHHHHHHHhccCCC------------CCchhHHHHHHHHhhccChhHHHHHHHHH
Q 008280          368 AIFGTLLSACRVHKRLDLAEFAAMNLFNLNPA------------NAAGCYVQLANIYAAMKKWDDVARIRLSM  428 (571)
Q Consensus       368 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~------------~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  428 (571)
                      .+|..+...+...|++++|...++++++..|+            ++. .+..++.+|.+.|++++|..++++.
T Consensus       241 ~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~  312 (327)
T 3cv0_A          241 RVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRS-MWDFFRMLLNVMNRPDLVELTYAQN  312 (327)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHH-HHHHHHHHHHHTTCHHHHHHHTTCC
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHH-HHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            88999999999999999999999999999998            566 8999999999999999999988644

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.73  E-value=4.8e-16  Score=148.70  Aligned_cols=248  Identities=10%  Similarity=0.036  Sum_probs=201.7

Q ss_pred             HHHHHHcCChhHHHHHHHHHHHCCCCCCH--hHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcC
Q 008280          170 IAGYVENSWAEDGLKLLRMMIGLGIRPNA--SSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCG  247 (571)
Q Consensus       170 i~~~~~~g~~~~A~~~~~~m~~~g~~pd~--~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g  247 (571)
                      |.-....|++..|+..+++...  ..|+.  .....+..++...|+++.|...++.    .-+|+..++..+...|...|
T Consensus         6 ~~~~~~~g~y~~ai~~~~~~~~--~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~----~~~~~~~a~~~la~~~~~~~   79 (291)
T 3mkr_A            6 VKNAFYIGSYQQCINEAQRVKP--SSPERDVERDVFLYRAYLAQRKYGVVLDEIKP----SSAPELQAVRMFAEYLASHS   79 (291)
T ss_dssp             HHHHHHTTCHHHHHHHHHHSCC--CSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT----TSCHHHHHHHHHHHHHHCST
T ss_pred             HHHHHHHHHHHHHHHHHHhccc--CCchhhHHHHHHHHHHHHHCCCHHHHHHHhcc----cCChhHHHHHHHHHHHcCCC
Confidence            3446678999999999877543  24443  3446677899999999999875543    23567778888999999999


Q ss_pred             CHHHHHHHHHhhCC----C-ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHH
Q 008280          248 DLEDACKLFLEIQR----K-DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYF  322 (571)
Q Consensus       248 ~~~~A~~~~~~~~~----~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~  322 (571)
                      +.++|.+.++++..    | +...+..+...+.+.|++++|++.+++      +.+...+..+...+.+.|++++|.+.+
T Consensus        80 ~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l  153 (291)
T 3mkr_A           80 RRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKEL  153 (291)
T ss_dssp             THHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            99999999998642    3 566788888999999999999999987      457778888999999999999999999


Q ss_pred             HHhHHhcCCCCChHh---HHHHHHHHHHcCCHHHHHHHHHhC--CCCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccC
Q 008280          323 DSMVNDYGIAAKPDH---YTCMVDLLGRAGKLVEAVDLIKKM--PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLN  397 (571)
Q Consensus       323 ~~~~~~~~~~~~~~~---~~~li~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  397 (571)
                      +.+.+.   .|+...   ...++..+...|++++|..+|+++  ..+.++..|+.+..++...|++++|+..++++++.+
T Consensus       154 ~~~~~~---~p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~  230 (291)
T 3mkr_A          154 KKMQDQ---DEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKCSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD  230 (291)
T ss_dssp             HHHHHH---CTTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHhh---CcCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            999874   355321   123445555569999999999988  223578899999999999999999999999999999


Q ss_pred             CCCCchhHHHHHHHHhhccChhH-HHHHHHHHHhCCC
Q 008280          398 PANAAGCYVQLANIYAAMKKWDD-VARIRLSMKENNV  433 (571)
Q Consensus       398 p~~~~~~~~~l~~~~~~~g~~~~-a~~~~~~m~~~~~  433 (571)
                      |+++. ++..++.++...|+.++ +.++++++.+...
T Consensus       231 p~~~~-~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~P  266 (291)
T 3mkr_A          231 SGHPE-TLINLVVLSQHLGKPPEVTNRYLSQLKDAHR  266 (291)
T ss_dssp             TTCHH-HHHHHHHHHHHTTCCHHHHHHHHHHHHHHCT
T ss_pred             CCCHH-HHHHHHHHHHHcCCCHHHHHHHHHHHHHhCC
Confidence            99999 99999999999999987 5688888876443

>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=99.72  E-value=2.2e-16  Score=153.66  Aligned_cols=270  Identities=12%  Similarity=0.041  Sum_probs=169.8

Q ss_pred             CcchHHHHHHHHHHcCChHHHHHHHhhCC---CCChhHHHHHHHHHHhcCCHHHHHHHHhhCCC---CCHHHHHHHHHHH
Q 008280          100 NSVSWSAMISGYIECGQLDKAVELFKVAP---VKSVVAWTAMISGYMKFGKVDLAEKLFDEMPT---KNLVTWNAMIAGY  173 (571)
Q Consensus       100 d~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~  173 (571)
                      +...+..+...+...|++++|+.+|+++.   +.+..++..+...|.+.|++++|...|+++.+   .+..+|..+...|
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~   99 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQAAPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSH   99 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcCCHHHHHHHHHHH
Confidence            45677888999999999999999998874   45678889999999999999999999998763   4677999999999


Q ss_pred             HHcCChhHHHHHHHHHHHCCCCCCH-hHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHH--HHHhcCCHH
Q 008280          174 VENSWAEDGLKLLRMMIGLGIRPNA-SSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLIS--MYCKCGDLE  250 (571)
Q Consensus       174 ~~~g~~~~A~~~~~~m~~~g~~pd~-~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~--~y~~~g~~~  250 (571)
                      ...|++++|++.|+++....  |+. ..+..+...+                      ++......+..  .+...|+++
T Consensus       100 ~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~----------------------~~~~~~~~~~~~~~~~~~~~~~  155 (327)
T 3cv0_A          100 TNEHNANAALASLRAWLLSQ--PQYEQLGSVNLQAD----------------------VDIDDLNVQSEDFFFAAPNEYR  155 (327)
T ss_dssp             HHTTCHHHHHHHHHHHHHTS--TTTTTC------------------------------------------CCTTSHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhC--CccHHHHHHHhHHH----------------------HHHHHHHHHHHhHHHHHcccHH
Confidence            99999999999999999863  332 2332221000                      00001111211  244445555


Q ss_pred             HHHHHHHhhCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHH
Q 008280          251 DACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVN  327 (571)
Q Consensus       251 ~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~  327 (571)
                      +|...|+++.+   .+...|..+...|...|++++|+..++++.+.. +.+..++..+...+...|++++|...++++.+
T Consensus       156 ~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~  234 (327)
T 3cv0_A          156 ECRTLLHAALEMNPNDAQLHASLGVLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAYNRALD  234 (327)
T ss_dssp             HHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            55555554431   244555555566666666666666666655432 22344555566666666666666666666554


Q ss_pred             hcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-------------CHhHHHHHHHHHHhcCCHhHHHHHHHHH
Q 008280          328 DYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-------------QPAIFGTLLSACRVHKRLDLAEFAAMNL  393 (571)
Q Consensus       328 ~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-------------~~~~~~~l~~~~~~~g~~~~a~~~~~~~  393 (571)
                      .  .+.+...+..+...|.+.|++++|.+.++++ ...|             +..+|..+..++...|++++|..++++.
T Consensus       235 ~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  312 (327)
T 3cv0_A          235 I--NPGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQN  312 (327)
T ss_dssp             H--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCC
T ss_pred             c--CCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            2  2233555666666666666666666666554 1112             2456666667777777777777666655


Q ss_pred             hcc
Q 008280          394 FNL  396 (571)
Q Consensus       394 ~~~  396 (571)
                      ++.
T Consensus       313 l~~  315 (327)
T 3cv0_A          313 VEP  315 (327)
T ss_dssp             SHH
T ss_pred             HHh
Confidence            443

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.71  E-value=2.2e-15  Score=155.03  Aligned_cols=356  Identities=11%  Similarity=-0.001  Sum_probs=227.9

Q ss_pred             hhhHHHHHHHHHcCCCCHHHHHHHHhhCC------------CCChhhHHHHHHHHHcCCCHHHHHHHHhhCCC-------
Q 008280           38 VVSYNIMLSCILLNSDDVVAAFDFFQRLP------------IKDTASWNTMISGFVQKKNMAKARDLFLAMPE-------   98 (571)
Q Consensus        38 ~~~~~~ll~~~~~~~g~~~~A~~~~~~m~------------~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~-------   98 (571)
                      ...||.|...+... |+.++|++.|++..            .....+|+.+..+|...|++++|...|++..+       
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            45678888888888 99999998887642            12456788899999999999999888876531       


Q ss_pred             ---C-CcchHHHHHHHHHHc--CChHHHHHHHhhCC---CCChhHHHHHHHHH---HhcCCHHHHHHHHhhCC---CCCH
Q 008280           99 ---K-NSVSWSAMISGYIEC--GQLDKAVELFKVAP---VKSVVAWTAMISGY---MKFGKVDLAEKLFDEMP---TKNL  163 (571)
Q Consensus        99 ---~-d~~~~~~li~~~~~~--g~~~~A~~~~~~~~---~~~~~~~~~li~~~---~~~g~~~~A~~~~~~~~---~~~~  163 (571)
                         + ...++..+..++...  +++++|++.|++..   +.++..+..+..++   ...++.++|.+.|++..   ..+.
T Consensus       130 ~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p~~~  209 (472)
T 4g1t_A          130 PYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNPDNQ  209 (472)
T ss_dssp             SSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCSSCH
T ss_pred             ccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCCcch
Confidence               1 234555555555554  46889999998764   44556666665553   34566777777777654   2455


Q ss_pred             HHHHHHHHHHHH----cCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHH
Q 008280          164 VTWNAMIAGYVE----NSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPL  239 (571)
Q Consensus       164 ~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l  239 (571)
                      .++..+...+..    .|++++|.+.+++..... +.+...+..+...+...|++++|...+..+.+.. +.+..++..+
T Consensus       210 ~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l  287 (472)
T 4g1t_A          210 YLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYI-PNNAYLHCQI  287 (472)
T ss_dssp             HHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC-CChHHHHHHH
Confidence            666666655554    457788999998887753 4456677888888899999999999999888765 4556667777


Q ss_pred             HHHHHhc-------------------CCHHHHHHHHHhhC---CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCC
Q 008280          240 ISMYCKC-------------------GDLEDACKLFLEIQ---RKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKP  297 (571)
Q Consensus       240 i~~y~~~-------------------g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  297 (571)
                      ...|...                   +..+.|...|++..   ..+..+|..+...|...|++++|+..|++.......|
T Consensus       288 g~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~  367 (472)
T 4g1t_A          288 GCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEANDNLFRVCSILASLHALADQYEEAEYYFQKEFSKELTP  367 (472)
T ss_dssp             HHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHCTTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcCCchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCC
Confidence            7666432                   23566777777654   3467789999999999999999999999998764433


Q ss_pred             CHH--HHHHHHH-HHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-C-CCCCHhHHHH
Q 008280          298 DSI--TFVALLL-ACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-P-FKPQPAIFGT  372 (571)
Q Consensus       298 ~~~--t~~~ll~-a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~  372 (571)
                      ...  .+..+.. .....|+.++|...|.+..+   +.|+........         ..+.+++++. . .+.++.+|..
T Consensus       368 ~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~---i~~~~~~~~~~~---------~~l~~~~~~~l~~~p~~~~~~~~  435 (472)
T 4g1t_A          368 VAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVK---INQKSREKEKMK---------DKLQKIAKMRLSKNGADSEALHV  435 (472)
T ss_dssp             HHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHH---SCCCCHHHHHHH---------HHHHHHHHHHHHHCC-CTTHHHH
T ss_pred             hHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCcccHHHHHHH---------HHHHHHHHHHHHhCCCCHHHHHH
Confidence            322  2222322 34578999999999998875   455543332222         2233333332 1 1245789999


Q ss_pred             HHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHH
Q 008280          373 LLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLA  409 (571)
Q Consensus       373 l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~  409 (571)
                      |...|...|++++|+..|+++++++|.+|. +...++
T Consensus       436 LG~~~~~~g~~~~A~~~y~kALe~~~~~p~-a~~~~G  471 (472)
T 4g1t_A          436 LAFLQELNEKMQQADEDSERGLESGSLIPS-ASSWNG  471 (472)
T ss_dssp             HHHHHHHHHHCC-------------------------
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCCCCc-HhhcCC
Confidence            999999999999999999999999998887 655543

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.66  E-value=7.4e-15  Score=134.04  Aligned_cols=195  Identities=14%  Similarity=0.027  Sum_probs=154.6

Q ss_pred             CCCcchHHHHHHHHHhcCCHHHHHHHHHhhCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 008280          230 CKDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALL  306 (571)
Q Consensus       230 ~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll  306 (571)
                      +++...+..+...+.+.|++++|...|++..+   .+...|..+...+.+.|++++|+..|++..+.. +.+...+..+.
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            56677788888889999999999999988764   356788888999999999999999999988754 23556788888


Q ss_pred             HHHHhc-----------CcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCHhHHHHHH
Q 008280          307 LACNHA-----------GLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQPAIFGTLL  374 (571)
Q Consensus       307 ~a~~~~-----------g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~  374 (571)
                      .++...           |++++|...+++..+.  .+.+...+..+..+|...|++++|++.|++. ....++..|..+.
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            888888           9999999999999863  2345788899999999999999999999887 1116788999999


Q ss_pred             HHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHH
Q 008280          375 SACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSM  428 (571)
Q Consensus       375 ~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  428 (571)
                      .++...|++++|+..++++++.+|+++. .+..++.++...|++++|.+.+++.
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            9999999999999999999999999998 9999999999999999999988764

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.65  E-value=1.7e-14  Score=135.10  Aligned_cols=219  Identities=11%  Similarity=0.050  Sum_probs=160.8

Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHH
Q 008280          164 VTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMY  243 (571)
Q Consensus       164 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y  243 (571)
                      ..|..+...+...|++++|+..|+++.+..  .+..                                   ++..+...|
T Consensus         6 ~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~-----------------------------------~~~~~~~~~   48 (258)
T 3uq3_A            6 DKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDIT-----------------------------------YLNNRAAAE   48 (258)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTH-----------------------------------HHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHH-----------------------------------HHHHHHHHH
Confidence            345556666666666666666666655543  3334                                   444455555


Q ss_pred             HhcCCHHHHHHHHHhhCC--C----C----hhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC
Q 008280          244 CKCGDLEDACKLFLEIQR--K----D----VVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAG  313 (571)
Q Consensus       244 ~~~g~~~~A~~~~~~~~~--~----~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g  313 (571)
                      ...|++++|...|++..+  |    +    ..+|..+...|...|++++|+..|++....  .|+.       ..+...|
T Consensus        49 ~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~-------~~~~~~~  119 (258)
T 3uq3_A           49 YEKGEYETAISTLNDAVEQGREMRADYKVISKSFARIGNAYHKLGDLKKTIEYYQKSLTE--HRTA-------DILTKLR  119 (258)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCH-------HHHHHHH
T ss_pred             HHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhc--Cchh-------HHHHHHh
Confidence            555555555555554432  1    1    466777888888888888888888888764  3443       3455667


Q ss_pred             cHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-C-CCCCHhHHHHHHHHHHhcCCHhHHHHHHH
Q 008280          314 LVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-P-FKPQPAIFGTLLSACRVHKRLDLAEFAAM  391 (571)
Q Consensus       314 ~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~g~~~~a~~~~~  391 (571)
                      ++++|...++.+..  ..+.+...+..+...+...|++++|.+.++++ . .+.+..+|..+...+...|++++|+..++
T Consensus       120 ~~~~a~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~  197 (258)
T 3uq3_A          120 NAEKELKKAEAEAY--VNPEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCN  197 (258)
T ss_dssp             HHHHHHHHHHHHHH--CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH--cCcchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHhCCHHHHHHHHH
Confidence            88899999888875  23445677888889999999999999999887 2 22457888999999999999999999999


Q ss_pred             HHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhC
Q 008280          392 NLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKEN  431 (571)
Q Consensus       392 ~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  431 (571)
                      ++++.+|+++. ++..++.+|...|++++|.+.+++..+.
T Consensus       198 ~al~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~a~~~  236 (258)
T 3uq3_A          198 KAIEKDPNFVR-AYIRKATAQIAVKEYASALETLDAARTK  236 (258)
T ss_dssp             HHHHHCTTCHH-HHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhCHHHHH-HHHHHHHHHHHHhhHHHHHHHHHHHHHh
Confidence            99999999888 9999999999999999999999888753

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.65  E-value=2.3e-16  Score=166.40  Aligned_cols=131  Identities=16%  Similarity=0.217  Sum_probs=113.8

Q ss_pred             CCCcchHHHHHHHHHhcCCHHHHHHHHHhhC-------CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHH
Q 008280          230 CKDTTALTPLISMYCKCGDLEDACKLFLEIQ-------RKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITF  302 (571)
Q Consensus       230 ~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~-------~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~  302 (571)
                      ..-..+|++||++|+++|++++|.++|++|.       .||+++||+||.+|++.|+.++|.++|++|.+.|+.||.+||
T Consensus       124 ~~~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTY  203 (1134)
T 3spa_A          124 SGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSY  203 (1134)
T ss_dssp             CHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHH
T ss_pred             HhHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHH
Confidence            3345689999999999999999999997764       579999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcCc-HHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC
Q 008280          303 VALLLACNHAGL-VDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM  361 (571)
Q Consensus       303 ~~ll~a~~~~g~-~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~  361 (571)
                      +++|.++++.|+ .++|.++|++|.++ |+.||..+|++++....+.+-++...++...+
T Consensus       204 ntLI~glcK~G~~~e~A~~Ll~EM~~k-G~~PD~vtY~~ll~~~eR~~vL~~Vrkv~P~f  262 (1134)
T 3spa_A          204 AAALQCMGRQDQDAGTIERCLEQMSQE-GLKLQALFTAVLLSEEDRATVLKAVHKVKPTF  262 (1134)
T ss_dssp             HHHHHHHHHHTCCHHHHHHHHHHHHHH-TCCSHHHHHHSCCCHHHHHHHHHHHGGGCCCC
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHHHHHc-CCCCChhhcccccChhhHHHHHHHHHHhCccc
Confidence            999999999987 57899999999887 99999999999998887776555555554433

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.63  E-value=9.7e-15  Score=136.70  Aligned_cols=234  Identities=12%  Similarity=-0.000  Sum_probs=155.2

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhhCCC--CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCC--CCCC----HhHHHH
Q 008280          132 VVAWTAMISGYMKFGKVDLAEKLFDEMPT--KNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLG--IRPN----ASSLSS  203 (571)
Q Consensus       132 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g--~~pd----~~t~~~  203 (571)
                      ...+..+...|...|++++|...|++..+  .+...|..+...|...|++++|+..|++..+..  ..|+    ..++..
T Consensus         5 a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~   84 (258)
T 3uq3_A            5 ADKEKAEGNKFYKARQFDEAIEHYNKAWELHKDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFAR   84 (258)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhhccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHH
Confidence            45788899999999999999999987643  677899999999999999999999999987632  1112    234444


Q ss_pred             HHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCCCChhhHHHHHHHHHHcCChHHH
Q 008280          204 VLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKA  283 (571)
Q Consensus       204 ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  283 (571)
                      +...+...|++++|...++.+.+..                                 ++       ...+...|++++|
T Consensus        85 l~~~~~~~~~~~~A~~~~~~a~~~~---------------------------------~~-------~~~~~~~~~~~~a  124 (258)
T 3uq3_A           85 IGNAYHKLGDLKKTIEYYQKSLTEH---------------------------------RT-------ADILTKLRNAEKE  124 (258)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC---------------------------------CC-------HHHHHHHHHHHHH
T ss_pred             HHHHHHHcccHHHHHHHHHHHHhcC---------------------------------ch-------hHHHHHHhHHHHH
Confidence            4444444555555555544444432                                 11       1234445566666


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-C
Q 008280          284 LRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-P  362 (571)
Q Consensus       284 ~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~  362 (571)
                      ...++++.... +.+...+..+...+...|++++|...++.+.+.  .+.+...+..+...|.+.|++++|++.+++. .
T Consensus       125 ~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~  201 (258)
T 3uq3_A          125 LKKAEAEAYVN-PEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKR--APEDARGYSNRAAALAKLMSFPEAIADCNKAIE  201 (258)
T ss_dssp             HHHHHHHHHCC-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcC-cchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--CcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            66666665532 112335556666667777777777777776653  2334666777777777777777777777665 1


Q ss_pred             CC-CCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccC------CCCCchhHHHHH
Q 008280          363 FK-PQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLN------PANAAGCYVQLA  409 (571)
Q Consensus       363 ~~-p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~------p~~~~~~~~~l~  409 (571)
                      .. .+...|..+...+...|++++|...+++++++.      |++.. .+..+.
T Consensus       202 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~p~~~~-~~~~l~  254 (258)
T 3uq3_A          202 KDPNFVRAYIRKATAQIAVKEYASALETLDAARTKDAEVNNGSSARE-IDQLYY  254 (258)
T ss_dssp             HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTTTHHH-HHHHHH
T ss_pred             hCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhChhhcCCCchHH-HHHHHH
Confidence            12 346677778888888888888888888888777      66554 444443

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.63  E-value=2.1e-16  Score=166.71  Aligned_cols=146  Identities=16%  Similarity=0.112  Sum_probs=119.4

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhhCC-------CCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHH
Q 008280          133 VAWTAMISGYMKFGKVDLAEKLFDEMP-------TKNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVL  205 (571)
Q Consensus       133 ~~~~~li~~~~~~g~~~~A~~~~~~~~-------~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll  205 (571)
                      .+||+||++|+++|++++|.++|++|.       .||++|||+||.+|++.|+.++|.++|++|.+.|+.||.+||+++|
T Consensus       128 ~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYntLI  207 (1134)
T 3spa_A          128 QRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAAL  207 (1134)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHH
Confidence            689999999999999999999997753       5899999999999999999999999999999999999999999999


Q ss_pred             HHHhccCch-HHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCCC-----ChhhHHHHHHHHHHcC
Q 008280          206 LGCSHLSSL-QLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRK-----DVVTWNAMISGYAQHG  278 (571)
Q Consensus       206 ~~~~~~~~~-~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~-----~~~~~~~li~~~~~~g  278 (571)
                      .++++.|.. +.|.+++++|.+.|+.||..+|++++..+.+.+-++...+++..+..+     .+.+...|.+.|.+.+
T Consensus       208 ~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~vL~~Vrkv~P~f~p~~~~~~~~~t~~LL~dl~s~d~  286 (1134)
T 3spa_A          208 QCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDG  286 (1134)
T ss_dssp             HHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHHHHHHGGGCCCCCCCCCCCCCCCCCTTTHHHHCCCS
T ss_pred             HHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHHHHHHHHhCcccCCCCCCcccccchHHHHHHHccCC
Confidence            999999974 789999999999999999999999998777654444444443333211     1334444555555544

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.62  E-value=4e-14  Score=133.87  Aligned_cols=242  Identities=11%  Similarity=-0.003  Sum_probs=130.7

Q ss_pred             HHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcc----hHHHHHHHH
Q 008280          168 AMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTT----ALTPLISMY  243 (571)
Q Consensus       168 ~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~----~~~~li~~y  243 (571)
                      .....+...|++++|+..|++..+.. +.+...+..+...+...|++++|...+..+++.+  ++..    .+..+...|
T Consensus         8 ~~a~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~lg~~~   84 (272)
T 3u4t_A            8 RYADFLFKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKV--NATKAKSADFEYYGKIL   84 (272)
T ss_dssp             HHHHHHHTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTS--CTTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcc--CchhHHHHHHHHHHHHH
Confidence            33444445555555555555554432 1122244444444555555555555555554422  1211    245555556


Q ss_pred             HhcCCHHHHHHHHHhhCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHH
Q 008280          244 CKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQ  320 (571)
Q Consensus       244 ~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~  320 (571)
                      .+.|++++|...|++..+   .+..+|..+...|...|++++|+..|++..+.. +.+...+..+...+...+++++|..
T Consensus        85 ~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~  163 (272)
T 3u4t_A           85 MKKGQDSLAIQQYQAAVDRDTTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYYNKEYVKADS  163 (272)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHcccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHHHHHHHHHHH
Confidence            666666666666555432   244556666666666666666666666555431 2233344444423333446666666


Q ss_pred             HHHHhHHhcCCCCChHhHHHHHHHHHHcCC---HHHHHHHHHhC----CCCCC------HhHHHHHHHHHHhcCCHhHHH
Q 008280          321 YFDSMVNDYGIAAKPDHYTCMVDLLGRAGK---LVEAVDLIKKM----PFKPQ------PAIFGTLLSACRVHKRLDLAE  387 (571)
Q Consensus       321 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~---~~~A~~~~~~~----~~~p~------~~~~~~l~~~~~~~g~~~~a~  387 (571)
                      .|+.+.+.  .+.+...+..+..++...|+   +++|...+++.    ...|+      ..+|..+...|...|++++|.
T Consensus       164 ~~~~a~~~--~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  241 (272)
T 3u4t_A          164 SFVKVLEL--KPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKAD  241 (272)
T ss_dssp             HHHHHHHH--STTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHh--CccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            66666542  22234555556666666665   55555555444    11122      256777888899999999999


Q ss_pred             HHHHHHhccCCCCCchhHHHHHHHHhhcc
Q 008280          388 FAAMNLFNLNPANAAGCYVQLANIYAAMK  416 (571)
Q Consensus       388 ~~~~~~~~~~p~~~~~~~~~l~~~~~~~g  416 (571)
                      ..++++++++|+++. +...+.......+
T Consensus       242 ~~~~~al~~~p~~~~-a~~~l~~~~~~~~  269 (272)
T 3u4t_A          242 AAWKNILALDPTNKK-AIDGLKMKLEHHH  269 (272)
T ss_dssp             HHHHHHHHHCTTCHH-HHHHHC-------
T ss_pred             HHHHHHHhcCccHHH-HHHHhhhhhcccc
Confidence            999999999999987 7766666554433

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.61  E-value=4e-14  Score=133.97  Aligned_cols=240  Identities=9%  Similarity=-0.084  Sum_probs=176.0

Q ss_pred             cCChhHHHHHHHHHHHCCCC--C-CHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHH
Q 008280          176 NSWAEDGLKLLRMMIGLGIR--P-NASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDA  252 (571)
Q Consensus       176 ~g~~~~A~~~~~~m~~~g~~--p-d~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A  252 (571)
                      .|++++|+..|+++.+....  | +..++..+...+...|++++|...++.+++.. +.+..++..+...|...|++++|
T Consensus        18 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A   96 (275)
T 1xnf_A           18 TLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAA   96 (275)
T ss_dssp             CHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             cchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHHHH
Confidence            45667777777777664211  1 33455666666677777777777777776654 44567778888888888888888


Q ss_pred             HHHHHhhCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhc
Q 008280          253 CKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDY  329 (571)
Q Consensus       253 ~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~  329 (571)
                      ...|++..+   .+..+|..+...|...|++++|...|+++.+.  .|+.......+..+...|++++|...+...... 
T Consensus        97 ~~~~~~al~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~-  173 (275)
T 1xnf_A           97 YEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEK-  173 (275)
T ss_dssp             HHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHH-
T ss_pred             HHHHHHHHhcCccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhc-
Confidence            888887653   46778888999999999999999999998875  355444444555667779999999999887764 


Q ss_pred             CCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-----HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCch
Q 008280          330 GIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQ-----PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAG  403 (571)
Q Consensus       330 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~  403 (571)
                       .+++...+ .++..+...++.++|.+.+++. ...|+     ..+|..+...+...|++++|...++++++.+|++.. 
T Consensus       174 -~~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~-  250 (275)
T 1xnf_A          174 -SDKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNFV-  250 (275)
T ss_dssp             -SCCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTCH-
T ss_pred             -CCcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCchhHH-
Confidence             34444444 4777788888889999998876 22222     578889999999999999999999999999997754 


Q ss_pred             hHHHHHHHHhhccChhHHHHHH
Q 008280          404 CYVQLANIYAAMKKWDDVARIR  425 (571)
Q Consensus       404 ~~~~l~~~~~~~g~~~~a~~~~  425 (571)
                         ....++...|++++|.+.+
T Consensus       251 ---~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          251 ---EHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             ---HHHHHHHHHHHHHHC----
T ss_pred             ---HHHHHHHHHHHHHhhHHHH
Confidence               3466788889999988765

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.60  E-value=2.4e-14  Score=145.93  Aligned_cols=218  Identities=9%  Similarity=-0.027  Sum_probs=132.0

Q ss_pred             HHHHHHHHHhccC---chHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhc----CCHHHHHHHHHhhCCCChhhHHHHHH
Q 008280          200 SLSSVLLGCSHLS---SLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKC----GDLEDACKLFLEIQRKDVVTWNAMIS  272 (571)
Q Consensus       200 t~~~ll~~~~~~~---~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~----g~~~~A~~~~~~~~~~~~~~~~~li~  272 (571)
                      .+..+...+...|   +.++|...++...+.| +++...+..|..+|...    +++++|...|++....+...+..+..
T Consensus       178 a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g-~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~g~~~a~~~Lg~  256 (452)
T 3e4b_A          178 CYVELATVYQKKQQPEQQAELLKQMEAGVSRG-TVTAQRVDSVARVLGDATLGTPDEKTAQALLEKIAPGYPASWVSLAQ  256 (452)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTT-CSCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHGGGSTHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCcccHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHcCCCHHHHHHHHH
Confidence            4444444444455   5555555555555554 33333334455555443    56777777777666335566666666


Q ss_pred             H-H--HHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC-----cHHHHHHHHHHhHHhcCCCCChHhHHHHHHH
Q 008280          273 G-Y--AQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAG-----LVDLGIQYFDSMVNDYGIAAKPDHYTCMVDL  344 (571)
Q Consensus       273 ~-~--~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g-----~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~  344 (571)
                      . |  ...+++++|+..|++..+.|   +...+..+...|. .|     ++++|..+|++..     +.++..+..|..+
T Consensus       257 ~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-----~g~~~A~~~Lg~~  327 (452)
T 3e4b_A          257 LLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-----GREVAADYYLGQI  327 (452)
T ss_dssp             HHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-----TTCHHHHHHHHHH
T ss_pred             HHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-----CCCHHHHHHHHHH
Confidence            5 3  34677788888888777665   5555666666665 44     7888888887654     3456666677777


Q ss_pred             HHH----cCCHHHHHHHHHhCCCCCCHhHHHHHHHHHHh----cCCHhHHHHHHHHHhccCCCCCchhHHHHHHHH--hh
Q 008280          345 LGR----AGKLVEAVDLIKKMPFKPQPAIFGTLLSACRV----HKRLDLAEFAAMNLFNLNPANAAGCYVQLANIY--AA  414 (571)
Q Consensus       345 ~~~----~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~--~~  414 (571)
                      |..    ..++++|.+.|++.-...+......|...|..    ..+.++|...++++.+.++..   ....+..+.  ..
T Consensus       328 y~~G~g~~~d~~~A~~~~~~Aa~~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g~~~---a~~~l~~l~~~~~  404 (452)
T 3e4b_A          328 YRRGYLGKVYPQKALDHLLTAARNGQNSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKAQDTPE---ANDLATQLEAPLT  404 (452)
T ss_dssp             HHTTTTSSCCHHHHHHHHHHHHTTTCTTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHTTCCHH---HHHHHHHHHTTCC
T ss_pred             HHCCCCCCcCHHHHHHHHHHHHhhChHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHCCCHH---HHHHHHHHHHhCC
Confidence            665    33788888888776323345555666666653    458888888888888877644   333344333  23


Q ss_pred             ccChhHHHHHHHHHHh
Q 008280          415 MKKWDDVARIRLSMKE  430 (571)
Q Consensus       415 ~g~~~~a~~~~~~m~~  430 (571)
                      .++.++|.++.++-.+
T Consensus       405 ~~~~~~a~~~~~~~~~  420 (452)
T 3e4b_A          405 PAQRAEGQRLVQQELA  420 (452)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            4456667666665443

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.56  E-value=2.4e-13  Score=123.92  Aligned_cols=192  Identities=14%  Similarity=0.018  Sum_probs=97.2

Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHH
Q 008280          164 VTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMY  243 (571)
Q Consensus       164 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y  243 (571)
                      ..|..+...+.+.|++++|+..|++..+.. +.+...+..+...+...|++++|...++.+++.. +.+...+..+..+|
T Consensus         6 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~   83 (217)
T 2pl2_A            6 QNPLRLGVQLYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVLSEAY   83 (217)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHH
Confidence            344444555555555555555555544432 2233344444444444444444444444444433 23344444455555


Q ss_pred             Hhc-----------CCHHHHHHHHHhhCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 008280          244 CKC-----------GDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLAC  309 (571)
Q Consensus       244 ~~~-----------g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~  309 (571)
                      .+.           |++++|...|++..+   .+...|..+...|...|++++|+..|++..+..  .+...+..+..++
T Consensus        84 ~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la~~~  161 (217)
T 2pl2_A           84 VALYRQAEDRERGKGYLEQALSVLKDAERVNPRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSALAELY  161 (217)
T ss_dssp             HHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHH
T ss_pred             HHhhhhhhhhcccccCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHHHHHH
Confidence            555           666666666665542   245566666666666666666666666666654  4556666666666


Q ss_pred             HhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC
Q 008280          310 NHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM  361 (571)
Q Consensus       310 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~  361 (571)
                      ...|++++|...|+...+.  .+.+...+..+..++.+.|++++|.+.|++.
T Consensus       162 ~~~g~~~~A~~~~~~al~~--~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~  211 (217)
T 2pl2_A          162 LSMGRLDEALAQYAKALEQ--APKDLDLRVRYASALLLKGKAEEAARAAALE  211 (217)
T ss_dssp             HHHTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHTC--------------
T ss_pred             HHcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            6666666666666666552  2334555666666666666666666666554

>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=99.56  E-value=2.6e-13  Score=134.28  Aligned_cols=245  Identities=13%  Similarity=0.107  Sum_probs=187.7

Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCc-hHHHHHHHHHHHhCCCCCCcchHHHHHH
Q 008280          163 LVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSS-LQLGKQVHQLVFKSPLCKDTTALTPLIS  241 (571)
Q Consensus       163 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~-~~~a~~~~~~~~~~g~~~~~~~~~~li~  241 (571)
                      ...|+.+...+.+.|++++|+..|++.+... +-+...|..+..++...|+ +++|...++.+++.. +.+..+|..+..
T Consensus        97 ~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~~~g~  174 (382)
T 2h6f_A           97 RDVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRV  174 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHHHH
Confidence            3467777778888888888888888877653 2345666777777777785 888888888887765 556778888888


Q ss_pred             HHHhcCCHHHHHHHHHhhCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh-cCcHHH
Q 008280          242 MYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNH-AGLVDL  317 (571)
Q Consensus       242 ~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~-~g~~~~  317 (571)
                      +|.+.|++++|+..|+++.+   .+..+|..+..++...|++++|+..|+++++... -+...|..+..++.. .|..++
T Consensus       175 ~~~~~g~~~eAl~~~~kal~ldP~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P-~~~~a~~~lg~~l~~l~~~~~e  253 (382)
T 2h6f_A          175 LVEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDV-RNNSVWNQRYFVISNTTGYNDR  253 (382)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCSCSH
T ss_pred             HHHHccCHHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhcCcchH
Confidence            88888999999999887763   4678888899999999999999999999888642 356778888888888 565466


Q ss_pred             H-----HHHHHHhHHhcCCCCChHhHHHHHHHHHHcC--CHHHHHHHHHhCCCCCC-HhHHHHHHHHHHhcC--------
Q 008280          318 G-----IQYFDSMVNDYGIAAKPDHYTCMVDLLGRAG--KLVEAVDLIKKMPFKPQ-PAIFGTLLSACRVHK--------  381 (571)
Q Consensus       318 a-----~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g--~~~~A~~~~~~~~~~p~-~~~~~~l~~~~~~~g--------  381 (571)
                      |     ...|++.++.  -+-+...|..+..+|.+.|  ++++|++.++++...|+ ...+..++..|...|        
T Consensus       254 A~~~~el~~~~~Al~l--~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~~~~p~~~~al~~La~~~~~~~~~~~~~~~  331 (382)
T 2h6f_A          254 AVLEREVQYTLEMIKL--VPHNESAWNYLKGILQDRGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNKE  331 (382)
T ss_dssp             HHHHHHHHHHHHHHHH--STTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSSHH
T ss_pred             HHHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHccCccchHHHHHHHHHhccCCCCHHHHHHHHHHHHHHhcccccchH
Confidence            6     4777777753  2334778888888888888  68889888887744444 567788888887764        


Q ss_pred             -CHhHHHHHHHHH-hccCCCCCchhHHHHHHHHh
Q 008280          382 -RLDLAEFAAMNL-FNLNPANAAGCYVQLANIYA  413 (571)
Q Consensus       382 -~~~~a~~~~~~~-~~~~p~~~~~~~~~l~~~~~  413 (571)
                       ..++|+.+++++ .+++|.... .|..++..+.
T Consensus       332 ~~~~~A~~~~~~l~~~~DP~r~~-~w~~~~~~l~  364 (382)
T 2h6f_A          332 DILNKALELCEILAKEKDTIRKE-YWRYIGRSLQ  364 (382)
T ss_dssp             HHHHHHHHHHHHHHHTTCGGGHH-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhCchhHH-HHHHHHHHHH
Confidence             258999999999 899998877 7777776654

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.55  E-value=1.6e-13  Score=127.13  Aligned_cols=173  Identities=12%  Similarity=0.076  Sum_probs=95.8

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHhhC---CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 008280          235 ALTPLISMYCKCGDLEDACKLFLEIQ---RKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNH  311 (571)
Q Consensus       235 ~~~~li~~y~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~  311 (571)
                      ++..+...|.+.|++++|...|+++.   ..+...|..+...|...|++++|+..|+++.+.. +.+...+..+...+..
T Consensus        59 ~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~  137 (243)
T 2q7f_A           59 PYINFANLLSSVNELERALAFYDKALELDSSAATAYYGAGNVYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVK  137 (243)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH
Confidence            33344444444455555554444433   1234455555555666666666666666655542 2244455555566666


Q ss_pred             cCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-C-CCCCHhHHHHHHHHHHhcCCHhHHHHH
Q 008280          312 AGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-P-FKPQPAIFGTLLSACRVHKRLDLAEFA  389 (571)
Q Consensus       312 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~g~~~~a~~~  389 (571)
                      .|++++|..+++++.+.  .+.+...+..+...|.+.|++++|.+.++++ . .+.+..+|..+...+...|++++|...
T Consensus       138 ~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~  215 (243)
T 2q7f_A          138 LEQPKLALPYLQRAVEL--NENDTEARFQFGMCLANEGMLDEALSQFAAVTEQDPGHADAFYNAGVTYAYKENREKALEM  215 (243)
T ss_dssp             TSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTHHHHH
T ss_pred             hccHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHccCHHHHHHH
Confidence            66666666666665542  2334555566666666666666666666554 1 113355666666666666777777777


Q ss_pred             HHHHhccCCCCCchhHHHHHHH
Q 008280          390 AMNLFNLNPANAAGCYVQLANI  411 (571)
Q Consensus       390 ~~~~~~~~p~~~~~~~~~l~~~  411 (571)
                      ++++++.+|+++. .+..+..+
T Consensus       216 ~~~~~~~~p~~~~-~~~~~~~l  236 (243)
T 2q7f_A          216 LDKAIDIQPDHML-ALHAKKLL  236 (243)
T ss_dssp             HHHHHHHCTTCHH-HHHHHTC-
T ss_pred             HHHHHccCcchHH-HHHHHHHH
Confidence            7777666666655 55444443

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.55  E-value=1.6e-13  Score=139.85  Aligned_cols=338  Identities=12%  Similarity=0.045  Sum_probs=222.2

Q ss_pred             HHHHHHcCCCHHHHHHHHhhCCC-CCcchHHHHHHHHHHcCCh---HHHHHHHhhCCCCChhHHHHHHHHHHhcC-----
Q 008280           76 MISGFVQKKNMAKARDLFLAMPE-KNSVSWSAMISGYIECGQL---DKAVELFKVAPVKSVVAWTAMISGYMKFG-----  146 (571)
Q Consensus        76 li~~~~~~g~~~~A~~~~~~m~~-~d~~~~~~li~~~~~~g~~---~~A~~~~~~~~~~~~~~~~~li~~~~~~g-----  146 (571)
                      +...+.+.|++++|+++|++..+ .+..++..+...|...|+.   ++|++.|++..+.++..+..|..++...+     
T Consensus         9 la~~~~~~g~~~~A~~~~~~aa~~g~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~~~~A~~~Lg~~~~~~~~~~~~   88 (452)
T 3e4b_A            9 LANEALKRGDTVTAQQNYQQLAELGYSEAQVGLADIQVGTRDPAQIKQAEATYRAAADTSPRAQARLGRLLAAKPGATEA   88 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHTCCTGGGTCC----------------------------CHHHHHHHHHTC--CCHH
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhCCHHHHHHHHHHHHhCCCCCCc
Confidence            56677788999999999988754 4566777777777778888   89999998887667777888888666655     


Q ss_pred             CHHHHHHHHhhCCC-CCHHHHHHHHHHHHHcCChh---HHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCc----hHHHH
Q 008280          147 KVDLAEKLFDEMPT-KNLVTWNAMIAGYVENSWAE---DGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSS----LQLGK  218 (571)
Q Consensus       147 ~~~~A~~~~~~~~~-~~~~~~~~li~~~~~~g~~~---~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~----~~~a~  218 (571)
                      +.++|...|++..+ .+...+..|...|...+..+   ++++.+.+....|   +......+...+...+.    .+.+.
T Consensus        89 ~~~~A~~~~~~Aa~~g~~~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g---~~~a~~~Lg~~y~~~~~~~~~~~~a~  165 (452)
T 3e4b_A           89 EHHEAESLLKKAFANGEGNTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAG---YPEAGLAQVLLYRTQGTYDQHLDDVE  165 (452)
T ss_dssp             HHHHHHHHHHHHHHTTCSSCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHT---CTTHHHHHHHHHHHHTCGGGGHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcccCHHHHH
Confidence            67889988888764 34557888888888776543   3555555555444   23455555566666563    44444


Q ss_pred             HHHHHHHhCCCCCCcchHHHHHHHHHhcC---CHHHHHHHHHhhCCC---ChhhHHHHHHHHHHc----CChHHHHHHHH
Q 008280          219 QVHQLVFKSPLCKDTTALTPLISMYCKCG---DLEDACKLFLEIQRK---DVVTWNAMISGYAQH----GKGEKALRLFD  288 (571)
Q Consensus       219 ~~~~~~~~~g~~~~~~~~~~li~~y~~~g---~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~----g~~~~A~~~~~  288 (571)
                      .++.....    .++..+..|..+|.+.|   +.++|.+.|++..+.   +...+..+...|...    +++++|+..|+
T Consensus       166 ~~~~~a~~----~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~  241 (452)
T 3e4b_A          166 RICKAALN----TTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGTVTAQRVDSVARVLGDATLGTPDEKTAQALLE  241 (452)
T ss_dssp             HHHHHHTT----TCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCSCHHHHHHHHHHHTCGGGSSCCHHHHHHHHH
T ss_pred             HHHHHHHc----CCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHH
Confidence            44444432    33448888899999999   888999998876542   333446677777554    68889999999


Q ss_pred             HHHHcCCCCCHHHHHHHHHH-H--HhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcC-----CHHHHHHHHHh
Q 008280          289 KMKDEGMKPDSITFVALLLA-C--NHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAG-----KLVEAVDLIKK  360 (571)
Q Consensus       289 ~m~~~g~~p~~~t~~~ll~a-~--~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-----~~~~A~~~~~~  360 (571)
                      +.. .|   +...+..+... +  ...+++++|..+|++..+. |   ++..+..|..+|. .|     ++++|.+.|++
T Consensus       242 ~aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~-g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~  312 (452)
T 3e4b_A          242 KIA-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAA-D---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEK  312 (452)
T ss_dssp             HHG-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHT
T ss_pred             HHc-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHC-C---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHH
Confidence            876 33   44455555555 3  4688999999999888763 3   6677777888887 55     89999999998


Q ss_pred             CCCCCCHhHHHHHHHHHHh----cCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhh----ccChhHHHHHHHHHHhCC
Q 008280          361 MPFKPQPAIFGTLLSACRV----HKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAA----MKKWDDVARIRLSMKENN  432 (571)
Q Consensus       361 ~~~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~m~~~~  432 (571)
                      .- ..++..+..|...|..    ..++++|...|+++.+.+  ++. ....|+.+|..    ..+.++|..+++...+.|
T Consensus       313 Aa-~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g--~~~-A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g  388 (452)
T 3e4b_A          313 AV-GREVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNG--QNS-ADFAIAQLFSQGKGTKPDPLNAYVFSQLAKAQD  388 (452)
T ss_dssp             TT-TTCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTT--CTT-HHHHHHHHHHSCTTBCCCHHHHHHHHHHHHTTC
T ss_pred             Hh-CCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhC--hHH-HHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHCC
Confidence            87 6667777777777765    348899999999887754  345 78888988875    457888999988887766


Q ss_pred             C
Q 008280          433 V  433 (571)
Q Consensus       433 ~  433 (571)
                      .
T Consensus       389 ~  389 (452)
T 3e4b_A          389 T  389 (452)
T ss_dssp             C
T ss_pred             C
Confidence            5

>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=99.55  E-value=4.1e-12  Score=120.19  Aligned_cols=223  Identities=10%  Similarity=-0.041  Sum_probs=112.1

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhc----cCchHHHHHHHHHHHhCCCCCCcchHH
Q 008280          162 NLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSH----LSSLQLGKQVHQLVFKSPLCKDTTALT  237 (571)
Q Consensus       162 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~----~~~~~~a~~~~~~~~~~g~~~~~~~~~  237 (571)
                      +..++..+...|...|++++|+..|++..+.   .+...+..+...+..    .+++++|...++...+.+   +...+.
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~   78 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   78 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            4456666666666677777777777666652   233444444444444    555555555555555443   334444


Q ss_pred             HHHHHHHh----cCCHHHHHHHHHhhCC-CChhhHHHHHHHHHH----cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 008280          238 PLISMYCK----CGDLEDACKLFLEIQR-KDVVTWNAMISGYAQ----HGKGEKALRLFDKMKDEGMKPDSITFVALLLA  308 (571)
Q Consensus       238 ~li~~y~~----~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a  308 (571)
                      .+..+|..    .+++++|...|++..+ .+..++..+...|..    .+++++|+..|++..+.+   +...+..+...
T Consensus        79 ~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~  155 (273)
T 1ouv_A           79 LLGNLYYSGQGVSQNTNKALQYYSKACDLKYAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTILGSL  155 (273)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHH
T ss_pred             HHHHHHhCCCCcccCHHHHHHHHHHHHHcCCccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHHHHH
Confidence            45555555    5555555555544332 234444444444544    455555555555544433   23333344444


Q ss_pred             HHh----cCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHHh----c
Q 008280          309 CNH----AGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRV----H  380 (571)
Q Consensus       309 ~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~----~  380 (571)
                      +..    .+++++|...|++..+.                                    .+...+..+...|..    .
T Consensus       156 ~~~~~~~~~~~~~A~~~~~~a~~~------------------------------------~~~~a~~~lg~~~~~g~~~~  199 (273)
T 1ouv_A          156 YDAGRGTPKDLKKALASYDKACDL------------------------------------KDSPGCFNAGNMYHHGEGAT  199 (273)
T ss_dssp             HHHTSSSCCCHHHHHHHHHHHHHT------------------------------------TCHHHHHHHHHHHHHTCSSC
T ss_pred             HHcCCCCCCCHHHHHHHHHHHHHC------------------------------------CCHHHHHHHHHHHHcCCCCC
Confidence            443    44444444444444331                                    233444444444544    5


Q ss_pred             CCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhh----ccChhHHHHHHHHHHhCC
Q 008280          381 KRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAA----MKKWDDVARIRLSMKENN  432 (571)
Q Consensus       381 g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~m~~~~  432 (571)
                      +++++|+..++++++.+|  +. .+..|+.+|..    .|++++|.+.+++..+.|
T Consensus       200 ~~~~~A~~~~~~a~~~~~--~~-a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          200 KNFKEALARYSKACELEN--GG-GCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             CCHHHHHHHHHHHHHTTC--HH-HHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             ccHHHHHHHHHHHHhCCC--HH-HHHHHHHHHHcCCCcccCHHHHHHHHHHHHHcC
Confidence            555555555555555444  22 45555555555    555555555555555444

>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=99.54  E-value=7.1e-13  Score=123.67  Aligned_cols=197  Identities=11%  Similarity=-0.012  Sum_probs=153.5

Q ss_pred             cchHHHHHHHHHhcCCHHHHHHHHHhhCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 008280          233 TTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLAC  309 (571)
Q Consensus       233 ~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~  309 (571)
                      ...+..+...|...|++++|...|+++.+   .+...|..+...|...|++++|++.|+++.+.. +.+...+..+...+
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            44566777788888888888888887652   356778888888888888888888888887653 33566777788888


Q ss_pred             HhcCcHHHHHHHHHHhHHhcCCCC-ChHhHHHHHHHHHHcCCHHHHHHHHHhC-CC-CCCHhHHHHHHHHHHhcCCHhHH
Q 008280          310 NHAGLVDLGIQYFDSMVNDYGIAA-KPDHYTCMVDLLGRAGKLVEAVDLIKKM-PF-KPQPAIFGTLLSACRVHKRLDLA  386 (571)
Q Consensus       310 ~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~~~~g~~~~a  386 (571)
                      ...|++++|..+++++.+ .+..| +...+..+...|.+.|++++|.+.++++ .. +.+...+..+...+...|++++|
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            888888888888888765 12344 4667778888888888888888888776 11 23467788888888888999999


Q ss_pred             HHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhCC
Q 008280          387 EFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENN  432 (571)
Q Consensus       387 ~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  432 (571)
                      ...++++++..|++.. .+..++.+|...|++++|.+.++.+.+..
T Consensus       195 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~~g~~~~A~~~~~~~~~~~  239 (252)
T 2ho1_A          195 RQYYDLFAQGGGQNAR-SLLLGIRLAKVFEDRDTAASYGLQLKRLY  239 (252)
T ss_dssp             HHHHHHHHTTSCCCHH-HHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHhCcCcHH-HHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence            9999888888888877 88888888888899999988888887643

>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=99.54  E-value=3.7e-12  Score=120.57  Aligned_cols=192  Identities=16%  Similarity=0.045  Sum_probs=159.2

Q ss_pred             CcchHHHHHHHHHhcCCHHHHHHHHHhhCCC-ChhhHHHHHHHHHH----cCChHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 008280          232 DTTALTPLISMYCKCGDLEDACKLFLEIQRK-DVVTWNAMISGYAQ----HGKGEKALRLFDKMKDEGMKPDSITFVALL  306 (571)
Q Consensus       232 ~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~-~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll  306 (571)
                      +...+..+...|...|++++|...|++..++ +..++..+...|..    .+++++|+..|++..+.+   +...+..+.
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg   81 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLLG   81 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHHHHH
Confidence            4456667788888888888888888876644 56778888888888    899999999999988765   677788888


Q ss_pred             HHHHh----cCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHH----cCCHHHHHHHHHhCCCCCCHhHHHHHHHHHH
Q 008280          307 LACNH----AGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGR----AGKLVEAVDLIKKMPFKPQPAIFGTLLSACR  378 (571)
Q Consensus       307 ~a~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~  378 (571)
                      ..+..    .+++++|...|++..+.    .++..+..+..+|..    .|++++|++.|++.-...+...+..+...|.
T Consensus        82 ~~~~~g~~~~~~~~~A~~~~~~a~~~----~~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~  157 (273)
T 1ouv_A           82 NLYYSGQGVSQNTNKALQYYSKACDL----KYAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLNDGDGCTILGSLYD  157 (273)
T ss_dssp             HHHHHTSSSCCCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHhCCCCcccCHHHHHHHHHHHHHc----CCccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            88888    89999999999988763    267788889999998    9999999999988722236778888888888


Q ss_pred             h----cCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhh----ccChhHHHHHHHHHHhCCC
Q 008280          379 V----HKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAA----MKKWDDVARIRLSMKENNV  433 (571)
Q Consensus       379 ~----~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~m~~~~~  433 (571)
                      .    .+++++|+..++++.+.++  +. .+..++.+|..    .+++++|.+.+++..+.+.
T Consensus       158 ~~~~~~~~~~~A~~~~~~a~~~~~--~~-a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~  217 (273)
T 1ouv_A          158 AGRGTPKDLKKALASYDKACDLKD--SP-GCFNAGNMYHHGEGATKNFKEALARYSKACELEN  217 (273)
T ss_dssp             HTSSSCCCHHHHHHHHHHHHHTTC--HH-HHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTTC
T ss_pred             cCCCCCCCHHHHHHHHHHHHHCCC--HH-HHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCCC
Confidence            8    9999999999999988753  45 89999999999    9999999999998887654

>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=1.1e-12  Score=122.42  Aligned_cols=202  Identities=15%  Similarity=0.118  Sum_probs=136.6

Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHH
Q 008280          163 LVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISM  242 (571)
Q Consensus       163 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~  242 (571)
                      ...|..+...+...|++++|+..|+++.... +.+...+                                   ..+...
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~-----------------------------------~~la~~   80 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAH-----------------------------------AALAVV   80 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHH-----------------------------------HHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHH-----------------------------------HHHHHH
Confidence            4567777777888888888888887776642 2233344                                   444445


Q ss_pred             HHhcCCHHHHHHHHHhhC---CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCcHHHH
Q 008280          243 YCKCGDLEDACKLFLEIQ---RKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPD-SITFVALLLACNHAGLVDLG  318 (571)
Q Consensus       243 y~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a  318 (571)
                      |.+.|++++|.+.|+++.   ..+...|..+...|...|++++|++.|+++...+..|+ ...+..+...+...|++++|
T Consensus        81 ~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  160 (252)
T 2ho1_A           81 FQTEMEPKLADEEYRKALASDSRNARVLNNYGGFLYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQA  160 (252)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHH
Confidence            555555555555555433   12445566666667777777777777777665323343 34566666777777888888


Q ss_pred             HHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHHHHhcCCHhHHHHHHHHHhcc
Q 008280          319 IQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFK-PQPAIFGTLLSACRVHKRLDLAEFAAMNLFNL  396 (571)
Q Consensus       319 ~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  396 (571)
                      ..+++++.+.  .+.+...+..+...|.+.|++++|.+.++++ ... .+...+..+...+...|++++|...++++++.
T Consensus       161 ~~~~~~~~~~--~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~  238 (252)
T 2ho1_A          161 KEYFEKSLRL--NRNQPSVALEMADLLYKEREYVPARQYYDLFAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRL  238 (252)
T ss_dssp             HHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhc--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            8888777653  2334677778888888888888888888776 222 44667778888888899999999999999999


Q ss_pred             CCCCCc
Q 008280          397 NPANAA  402 (571)
Q Consensus       397 ~p~~~~  402 (571)
                      .|+++.
T Consensus       239 ~p~~~~  244 (252)
T 2ho1_A          239 YPGSLE  244 (252)
T ss_dssp             CTTSHH
T ss_pred             CCCCHH
Confidence            888764

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.53  E-value=2.5e-13  Score=125.84  Aligned_cols=198  Identities=11%  Similarity=0.085  Sum_probs=156.5

Q ss_pred             CCcchHHHHHHHHHhcCCHHHHHHHHHhhCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 008280          231 KDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLL  307 (571)
Q Consensus       231 ~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~  307 (571)
                      .....+..+...+.+.|++++|...|+++.+   .+...|..+...+...|++++|+..|++..+.. +.+...+..+..
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            3455677788889999999999999998764   367789999999999999999999999998764 346778888999


Q ss_pred             HHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CC-CCCHhHHHHHHHHHHhcCCHhH
Q 008280          308 ACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PF-KPQPAIFGTLLSACRVHKRLDL  385 (571)
Q Consensus       308 a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~~~~g~~~~  385 (571)
                      .+...|++++|..+++++.+.  .+.+...+..+...|.+.|++++|.+.++++ .. +.+...+..+...+...|++++
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  3456788999999999999999999999887 22 2467889999999999999999


Q ss_pred             HHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhCC
Q 008280          386 AEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENN  432 (571)
Q Consensus       386 a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  432 (571)
                      |+..++++++..|+++. ++..++.+|...|++++|.+.+++..+..
T Consensus       178 A~~~~~~~~~~~~~~~~-~~~~la~~~~~~~~~~~A~~~~~~~~~~~  223 (243)
T 2q7f_A          178 ALSQFAAVTEQDPGHAD-AFYNAGVTYAYKENREKALEMLDKAIDIQ  223 (243)
T ss_dssp             HHHHHHHHHHHCTTCHH-HHHHHHHHHHHTTCTTHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhCcccHH-HHHHHHHHHHHccCHHHHHHHHHHHHccC
Confidence            99999999999999988 99999999999999999999999987643

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.53  E-value=9e-13  Score=120.35  Aligned_cols=195  Identities=13%  Similarity=0.030  Sum_probs=130.7

Q ss_pred             cchHHHHHHHHHhcCCHHHHHHHHHhhCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 008280          233 TTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLAC  309 (571)
Q Consensus       233 ~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~  309 (571)
                      ..++..+...|...|++++|.+.|+++.+   .+...|..+...|...|++++|...|++..... +.+..++..+...+
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~   86 (225)
T 2vq2_A            8 SNIKTQLAMEYMRGQDYRQATASIEDALKSDPKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGWFL   86 (225)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHHHH
Confidence            44555666666677777777777665542   345566777777777777777777777766543 23455666667777


Q ss_pred             Hhc-CcHHHHHHHHHHhHHhcCCCCC-hHhHHHHHHHHHHcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHHHHhcCCHhH
Q 008280          310 NHA-GLVDLGIQYFDSMVNDYGIAAK-PDHYTCMVDLLGRAGKLVEAVDLIKKM-PFK-PQPAIFGTLLSACRVHKRLDL  385 (571)
Q Consensus       310 ~~~-g~~~~a~~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~~~g~~~~  385 (571)
                      ... |++++|...++.+.+ .+..|+ ...+..+...|...|++++|++.++++ ... .+...|..+...+...|++++
T Consensus        87 ~~~~~~~~~A~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~  165 (225)
T 2vq2_A           87 CGRLNRPAESMAYFDKALA-DPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQPQFPPAFKELARTKMLAGQLGD  165 (225)
T ss_dssp             HTTTCCHHHHHHHHHHHHT-STTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHhcCcHHHHHHHHHHHHc-CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHcCCHHH
Confidence            777 777777777777665 122332 556667777777777777777777665 112 235667777777777777777


Q ss_pred             HHHHHHHHhccCC-CCCchhHHHHHHHHhhccChhHHHHHHHHHHh
Q 008280          386 AEFAAMNLFNLNP-ANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  430 (571)
Q Consensus       386 a~~~~~~~~~~~p-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  430 (571)
                      |...++++++..| +++. .+..++..+...|+.++|..+++.+.+
T Consensus       166 A~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~a~~~~~~~~~  210 (225)
T 2vq2_A          166 ADYYFKKYQSRVEVLQAD-DLLLGWKIAKALGNAQAAYEYEAQLQA  210 (225)
T ss_dssp             HHHHHHHHHHHHCSCCHH-HHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCCCHH-HHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            7777777777777 6665 666777777777777777777777654

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.53  E-value=1.3e-12  Score=123.47  Aligned_cols=228  Identities=11%  Similarity=0.003  Sum_probs=187.0

Q ss_pred             HHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCC--CCh----hhHHHHHHH
Q 008280          200 SLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR--KDV----VTWNAMISG  273 (571)
Q Consensus       200 t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~~~----~~~~~li~~  273 (571)
                      .+......+...|++++|...++.+++.. +.+..++..+...|.+.|++++|...|++..+  ++.    .+|..+...
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            45556677889999999999999999875 45667899999999999999999999998765  232    248899999


Q ss_pred             HHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHH
Q 008280          274 YAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVE  353 (571)
Q Consensus       274 ~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  353 (571)
                      |...|++++|+..|++..+.. +.+..++..+...+...|++++|...|++..+.  .+.+...+..+...+...+++++
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            999999999999999998864 335578889999999999999999999988752  34457777777734445669999


Q ss_pred             HHHHHHhC-CCCC-CHhHHHHHHHHHHhcCC---HhHHHHHHHHHhccC---CCC-----CchhHHHHHHHHhhccChhH
Q 008280          354 AVDLIKKM-PFKP-QPAIFGTLLSACRVHKR---LDLAEFAAMNLFNLN---PAN-----AAGCYVQLANIYAAMKKWDD  420 (571)
Q Consensus       354 A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~---p~~-----~~~~~~~l~~~~~~~g~~~~  420 (571)
                      |.+.|+++ ...| +...+..+...+...|+   +++|...++++++..   |+.     .. +|..++.+|...|++++
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            99999887 2234 46788888888888888   888999999998764   542     14 78889999999999999


Q ss_pred             HHHHHHHHHhCC
Q 008280          421 VARIRLSMKENN  432 (571)
Q Consensus       421 a~~~~~~m~~~~  432 (571)
                      |.+.+++..+..
T Consensus       240 A~~~~~~al~~~  251 (272)
T 3u4t_A          240 ADAAWKNILALD  251 (272)
T ss_dssp             HHHHHHHHHHHC
T ss_pred             HHHHHHHHHhcC
Confidence            999999988744

>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=2.2e-12  Score=117.74  Aligned_cols=203  Identities=13%  Similarity=0.010  Sum_probs=134.4

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHH
Q 008280          162 NLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLIS  241 (571)
Q Consensus       162 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~  241 (571)
                      +...|..+...+...|++++|+..|+++.+.. +.+..                                   ++..+..
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~-----------------------------------~~~~l~~   50 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKSD-PKNEL-----------------------------------AWLVRAE   50 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHH-----------------------------------HHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-ccchH-----------------------------------HHHHHHH
Confidence            34566666777777777777777777666532 22233                                   3444555


Q ss_pred             HHHhcCCHHHHHHHHHhhC---CCChhhHHHHHHHHHHc-CChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCcHH
Q 008280          242 MYCKCGDLEDACKLFLEIQ---RKDVVTWNAMISGYAQH-GKGEKALRLFDKMKDEGMKPD-SITFVALLLACNHAGLVD  316 (571)
Q Consensus       242 ~y~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~-g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~  316 (571)
                      .|...|++++|.+.|+++.   ..+..+|..+...+... |++++|+..|+++.+.+..|+ ...+..+...+...|+++
T Consensus        51 ~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  130 (225)
T 2vq2_A           51 IYQYLKVNDKAQESFRQALSIKPDSAEINNNYGWFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFG  130 (225)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHH
Confidence            5555555555555555443   23455666667777777 777777777777766323333 345666777777778888


Q ss_pred             HHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCC--CCHhHHHHHHHHHHhcCCHhHHHHHHHHH
Q 008280          317 LGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFK--PQPAIFGTLLSACRVHKRLDLAEFAAMNL  393 (571)
Q Consensus       317 ~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~--p~~~~~~~l~~~~~~~g~~~~a~~~~~~~  393 (571)
                      +|...++++.+.  .+.+...+..+...|.+.|++++|.+.++++ ...  .+...+..+...+...|+.+.+..+++.+
T Consensus       131 ~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~  208 (225)
T 2vq2_A          131 LAEAYLKRSLAA--QPQFPPAFKELARTKMLAGQLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQL  208 (225)
T ss_dssp             HHHHHHHHHHHH--STTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh--CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence            888887777653  2334667777888888888888888888776 112  35566777777778888999998888888


Q ss_pred             hccCCCCCc
Q 008280          394 FNLNPANAA  402 (571)
Q Consensus       394 ~~~~p~~~~  402 (571)
                      .+..|+++.
T Consensus       209 ~~~~p~~~~  217 (225)
T 2vq2_A          209 QANFPYSEE  217 (225)
T ss_dssp             HHHCTTCHH
T ss_pred             HHhCCCCHH
Confidence            888888765

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.51  E-value=4.1e-13  Score=134.72  Aligned_cols=264  Identities=12%  Similarity=0.042  Sum_probs=165.9

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCC----HhHHHHHHHHHhccCchHHHHHHHHHHHhC----CCC-CCcch
Q 008280          165 TWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPN----ASSLSSVLLGCSHLSSLQLGKQVHQLVFKS----PLC-KDTTA  235 (571)
Q Consensus       165 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd----~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~----g~~-~~~~~  235 (571)
                      .+......+...|++++|+..|+++...+ +.+    ...+..+...+...|+++.|...++.++..    +.. ....+
T Consensus        11 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~   89 (406)
T 3sf4_A           11 ELALEGERLCKSGDCRAGVSFFEAAVQVG-TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKA   89 (406)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHH
Confidence            34444445555555555555555554431 111    123344444445555555555555443321    111 11334


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhhCC-----CC----hhhHHHHHHHHHHcCC--------------------hHHHHHH
Q 008280          236 LTPLISMYCKCGDLEDACKLFLEIQR-----KD----VVTWNAMISGYAQHGK--------------------GEKALRL  286 (571)
Q Consensus       236 ~~~li~~y~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g~--------------------~~~A~~~  286 (571)
                      +..+...|...|++++|...|++..+     .+    ..++..+...|...|+                    +++|+..
T Consensus        90 ~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~  169 (406)
T 3sf4_A           90 SGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDF  169 (406)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHH
Confidence            55666677777777777777665542     12    3467777777777888                    7888887


Q ss_pred             HHHHHHc----CCCCC-HHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCC----hHhHHHHHHHHHHcCCHHHHHHH
Q 008280          287 FDKMKDE----GMKPD-SITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAK----PDHYTCMVDLLGRAGKLVEAVDL  357 (571)
Q Consensus       287 ~~~m~~~----g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~~li~~~~~~g~~~~A~~~  357 (571)
                      +++....    +..|. ..++..+...+...|++++|...+++..+...-.++    ...+..+...|...|++++|.+.
T Consensus       170 ~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~  249 (406)
T 3sf4_A          170 YEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEY  249 (406)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHH
Confidence            7765432    11111 235667777888888888888888877653211122    33677888888889999988888


Q ss_pred             HHhC----CCCCC----HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCC------CchhHHHHHHHHhhccChhHHHH
Q 008280          358 IKKM----PFKPQ----PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPAN------AAGCYVQLANIYAAMKKWDDVAR  423 (571)
Q Consensus       358 ~~~~----~~~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~------~~~~~~~l~~~~~~~g~~~~a~~  423 (571)
                      +++.    +..++    ..++..+...+...|++++|...++++++..+..      .. ++..++.+|...|++++|.+
T Consensus       250 ~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~-~~~~la~~~~~~g~~~~A~~  328 (406)
T 3sf4_A          250 YKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGR-ACWSLGNAYTALGNHDQAMH  328 (406)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHH-HHHHHHHHHHHcCCHHHHHH
Confidence            8776    11122    4577788888899999999999999887754332      33 77788999999999999999


Q ss_pred             HHHHHHh
Q 008280          424 IRLSMKE  430 (571)
Q Consensus       424 ~~~~m~~  430 (571)
                      .+++..+
T Consensus       329 ~~~~al~  335 (406)
T 3sf4_A          329 FAEKHLE  335 (406)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9887764

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.51  E-value=5.1e-13  Score=126.32  Aligned_cols=233  Identities=13%  Similarity=-0.028  Sum_probs=150.8

Q ss_pred             cCCCHHHHHHHHhhCCCC-------CcchHHHHHHHHHHcCChHHHHHHHhhCC---CCChhHHHHHHHHHHhcCCHHHH
Q 008280           82 QKKNMAKARDLFLAMPEK-------NSVSWSAMISGYIECGQLDKAVELFKVAP---VKSVVAWTAMISGYMKFGKVDLA  151 (571)
Q Consensus        82 ~~g~~~~A~~~~~~m~~~-------d~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A  151 (571)
                      ..|++++|+..|+++.+.       +..+|..+...+...|++++|++.|+++.   +.+..++..+...|...|++++|
T Consensus        17 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A   96 (275)
T 1xnf_A           17 PTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAA   96 (275)
T ss_dssp             CCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             ccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHccCHHHH
Confidence            345666777776665431       34566667777777777777777776653   44567777777777788888888


Q ss_pred             HHHHhhCCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCC
Q 008280          152 EKLFDEMPT---KNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSP  228 (571)
Q Consensus       152 ~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g  228 (571)
                      ...|++..+   .+..+|..+...|.+.|++++|+..|+++.+.  .|+.......+..+...|++++|...+.......
T Consensus        97 ~~~~~~al~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~  174 (275)
T 1xnf_A           97 YEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKS  174 (275)
T ss_dssp             HHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHhcCccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhcC
Confidence            877777653   35678888888888888888888888888774  3544444445555566678888888887766653


Q ss_pred             CCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCCCC-------hhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHH
Q 008280          229 LCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKD-------VVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSIT  301 (571)
Q Consensus       229 ~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~-------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t  301 (571)
                       +++...+ .++..+...++.++|...++.....+       ..+|..+...|...|++++|...|++....  .|+.  
T Consensus       175 -~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~--  248 (275)
T 1xnf_A          175 -DKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN--NVHN--  248 (275)
T ss_dssp             -CCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CCTT--
T ss_pred             -CcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--Cchh--
Confidence             3333333 36667777777788888887766532       356666777777777777777777777654  2322  


Q ss_pred             HHHHHHHHHhcCcHHHHHHHH
Q 008280          302 FVALLLACNHAGLVDLGIQYF  322 (571)
Q Consensus       302 ~~~ll~a~~~~g~~~~a~~~~  322 (571)
                      +.....++...|++++|.+.+
T Consensus       249 ~~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          249 FVEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             CHHHHHHHHHHHHHHHC----
T ss_pred             HHHHHHHHHHHHHHHhhHHHH
Confidence            112233445556666655544

>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=2e-13  Score=137.00  Aligned_cols=286  Identities=11%  Similarity=0.025  Sum_probs=175.2

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHhhCC---CCC----hhHHHHHHHHHHhcCCHHHHHHHHhhCCC-----C----CHHHH
Q 008280          103 SWSAMISGYIECGQLDKAVELFKVAP---VKS----VVAWTAMISGYMKFGKVDLAEKLFDEMPT-----K----NLVTW  166 (571)
Q Consensus       103 ~~~~li~~~~~~g~~~~A~~~~~~~~---~~~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~----~~~~~  166 (571)
                      .+......+...|++++|+..|++..   +.+    ..++..+...|...|++++|...|++...     .    ...+|
T Consensus        11 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~   90 (406)
T 3sf4_A           11 ELALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKAS   90 (406)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHHH
Confidence            44455556666666666666665543   122    13455555566666666666665554321     1    12345


Q ss_pred             HHHHHHHHHcCChhHHHHHHHHHHHCCC-CCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHh
Q 008280          167 NAMIAGYVENSWAEDGLKLLRMMIGLGI-RPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCK  245 (571)
Q Consensus       167 ~~li~~~~~~g~~~~A~~~~~~m~~~g~-~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~  245 (571)
                      ..+...|...|++++|+..|++...... .++.                               .....++..+...|..
T Consensus        91 ~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~-------------------------------~~~~~~~~~l~~~~~~  139 (406)
T 3sf4_A           91 GNLGNTLKVLGNFDEAIVCCQRHLDISRELNDK-------------------------------VGEARALYNLGNVYHA  139 (406)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCH-------------------------------HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccc-------------------------------cchHHHHHHHHHHHHH
Confidence            5555555556666666655555443200 0010                               0012244555555666


Q ss_pred             cCC--------------------HHHHHHHHHhhCC-----C----ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcC-C
Q 008280          246 CGD--------------------LEDACKLFLEIQR-----K----DVVTWNAMISGYAQHGKGEKALRLFDKMKDEG-M  295 (571)
Q Consensus       246 ~g~--------------------~~~A~~~~~~~~~-----~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~  295 (571)
                      .|+                    +++|...|++..+     .    ...+|..+...|...|++++|+..|++..... -
T Consensus       140 ~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~  219 (406)
T 3sf4_A          140 KGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKE  219 (406)
T ss_dssp             HHHTCC-------CCCCHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHH
T ss_pred             cCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHh
Confidence            666                    6666665554321     1    13467777888888888888888888765421 0


Q ss_pred             CCC----HHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCC----hHhHHHHHHHHHHcCCHHHHHHHHHhC----CC
Q 008280          296 KPD----SITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAK----PDHYTCMVDLLGRAGKLVEAVDLIKKM----PF  363 (571)
Q Consensus       296 ~p~----~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~~----~~  363 (571)
                      .++    ..++..+...+...|++++|..++++..+...-.++    ..++..+...|...|++++|.+.+++.    +.
T Consensus       220 ~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~  299 (406)
T 3sf4_A          220 FGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQE  299 (406)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             cCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHh
Confidence            122    236777778888889999998888877643111111    557778888899999999999888776    11


Q ss_pred             CCC----HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCC------CCCchhHHHHHHHHhhccChhH
Q 008280          364 KPQ----PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNP------ANAAGCYVQLANIYAAMKKWDD  420 (571)
Q Consensus       364 ~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p------~~~~~~~~~l~~~~~~~g~~~~  420 (571)
                      .++    ..++..+...+...|++++|...+++++++.+      .... ++..++.+|...|+...
T Consensus       300 ~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~  365 (406)
T 3sf4_A          300 LNDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISREVGDKSGELT-ARLNLSDLQMVLGLSYS  365 (406)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHHHHHHHTTSC
T ss_pred             cCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCcchhH-HHHHHHHHHHHhhHhHH
Confidence            122    45778888899999999999999999877532      2233 67788888888887643

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.48  E-value=5.7e-13  Score=129.61  Aligned_cols=261  Identities=12%  Similarity=0.045  Sum_probs=162.4

Q ss_pred             HHHHHHHcCChhHHHHHHHHHHHCCCCCC----HhHHHHHHHHHhccCchHHHHHHHHHHHhC----CC-CCCcchHHHH
Q 008280          169 MIAGYVENSWAEDGLKLLRMMIGLGIRPN----ASSLSSVLLGCSHLSSLQLGKQVHQLVFKS----PL-CKDTTALTPL  239 (571)
Q Consensus       169 li~~~~~~g~~~~A~~~~~~m~~~g~~pd----~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~----g~-~~~~~~~~~l  239 (571)
                      ....+...|++++|+..|+++.+.. +.+    ...+..+...+...|+++.|...+..+++.    +. +....++..+
T Consensus        11 ~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l   89 (338)
T 3ro2_A           11 EGERLCKSGDCRAGVSFFEAAVQVG-TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNL   89 (338)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHHH
Confidence            3344444455555555554444431 111    123334444444445555554444443321    10 1113345566


Q ss_pred             HHHHHhcCCHHHHHHHHHhhCC-----CC----hhhHHHHHHHHHHcCC--------------------hHHHHHHHHHH
Q 008280          240 ISMYCKCGDLEDACKLFLEIQR-----KD----VVTWNAMISGYAQHGK--------------------GEKALRLFDKM  290 (571)
Q Consensus       240 i~~y~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g~--------------------~~~A~~~~~~m  290 (571)
                      ...|...|++++|...|++..+     .+    ..++..+...|...|+                    +++|+..+++.
T Consensus        90 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a  169 (338)
T 3ro2_A           90 GNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEEN  169 (338)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHH
Confidence            6677777777777777666432     12    2366777777777777                    77787777765


Q ss_pred             HHc----CCCCC-HHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCC----hHhHHHHHHHHHHcCCHHHHHHHHHhC
Q 008280          291 KDE----GMKPD-SITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAK----PDHYTCMVDLLGRAGKLVEAVDLIKKM  361 (571)
Q Consensus       291 ~~~----g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~~  361 (571)
                      ...    +..|. ..++..+...+...|++++|...+++..+...-.++    ...+..+...|...|++++|.+.+++.
T Consensus       170 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a  249 (338)
T 3ro2_A          170 LSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKT  249 (338)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            431    11111 235666777888888888888888877643111111    336778888888999999998888776


Q ss_pred             ----CCCCC----HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCC------CchhHHHHHHHHhhccChhHHHHHHHH
Q 008280          362 ----PFKPQ----PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPAN------AAGCYVQLANIYAAMKKWDDVARIRLS  427 (571)
Q Consensus       362 ----~~~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~------~~~~~~~l~~~~~~~g~~~~a~~~~~~  427 (571)
                          +..++    ..++..+...+...|++++|...++++++..|..      .. ++..++.+|.+.|++++|.+.+++
T Consensus       250 l~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~-~~~~la~~~~~~g~~~~A~~~~~~  328 (338)
T 3ro2_A          250 LLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGR-ACWSLGNAYTALGNHDQAMHFAEK  328 (338)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHH-HHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHH-HHHHHHHHHHHcCChHHHHHHHHH
Confidence                11122    4577778888999999999999999887754321      23 677899999999999999999988


Q ss_pred             HHhC
Q 008280          428 MKEN  431 (571)
Q Consensus       428 m~~~  431 (571)
                      ..+.
T Consensus       329 a~~~  332 (338)
T 3ro2_A          329 HLEI  332 (338)
T ss_dssp             HHHC
T ss_pred             HHHH
Confidence            7753

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.48  E-value=3.6e-13  Score=135.62  Aligned_cols=260  Identities=10%  Similarity=-0.001  Sum_probs=159.6

Q ss_pred             HHHHHHHcCChhHHHHHHHHHHHCCCCCCH----hHHHHHHHHHhccCchHHHHHHHHHHHhC----C-CCCCcchHHHH
Q 008280          169 MIAGYVENSWAEDGLKLLRMMIGLGIRPNA----SSLSSVLLGCSHLSSLQLGKQVHQLVFKS----P-LCKDTTALTPL  239 (571)
Q Consensus       169 li~~~~~~g~~~~A~~~~~~m~~~g~~pd~----~t~~~ll~~~~~~~~~~~a~~~~~~~~~~----g-~~~~~~~~~~l  239 (571)
                      +...+...|++++|+..|+++.+.+ +.+.    ..+..+...+...|++++|...++.+++.    + .+....++..+
T Consensus        54 ~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l  132 (411)
T 4a1s_A           54 EGERLCNAGDCRAGVAFFQAAIQAG-TEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNL  132 (411)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHhCcHHHHHHHHHHHHHhc-ccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHH
Confidence            3344444444444444444444431 1111    23333444444444444444444444332    1 01123445556


Q ss_pred             HHHHHhcCCHHHHHHHHHhhCCC---------ChhhHHHHHHHHHHcCC-----------------hHHHHHHHHHHHHc
Q 008280          240 ISMYCKCGDLEDACKLFLEIQRK---------DVVTWNAMISGYAQHGK-----------------GEKALRLFDKMKDE  293 (571)
Q Consensus       240 i~~y~~~g~~~~A~~~~~~~~~~---------~~~~~~~li~~~~~~g~-----------------~~~A~~~~~~m~~~  293 (571)
                      ...|...|++++|...|++..+.         ...+|..+...|...|+                 +++|+..+++..+.
T Consensus       133 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~  212 (411)
T 4a1s_A          133 GNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKL  212 (411)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHH
Confidence            66666677777766666654321         23466677777777777                 77777777765431


Q ss_pred             ----CCCCC-HHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCC----hHhHHHHHHHHHHcCCHHHHHHHHHhC---
Q 008280          294 ----GMKPD-SITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAK----PDHYTCMVDLLGRAGKLVEAVDLIKKM---  361 (571)
Q Consensus       294 ----g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~~---  361 (571)
                          +-.|. ..++..+...+...|++++|..++++..+...-.++    ...+..+...|...|++++|.+.+++.   
T Consensus       213 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  292 (411)
T 4a1s_A          213 MRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLAL  292 (411)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHH
Confidence                11111 235666777888888888888888777653211112    236777888888889988888888766   


Q ss_pred             -CCCCC----HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCC------CCchhHHHHHHHHhhccChhHHHHHHHHHHh
Q 008280          362 -PFKPQ----PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPA------NAAGCYVQLANIYAAMKKWDDVARIRLSMKE  430 (571)
Q Consensus       362 -~~~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~------~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  430 (571)
                       +...+    ..++..+...+...|++++|...++++++..+.      ... ++..++.+|...|++++|.+.+++..+
T Consensus       293 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~-~~~~la~~~~~~g~~~~A~~~~~~al~  371 (411)
T 4a1s_A          293 AVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEAR-ACWSLGNAHSAIGGHERALKYAEQHLQ  371 (411)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHH-HHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHH-HHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence             11111    457778888889999999999999988775332      233 778899999999999999999988765

>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=1.5e-12  Score=128.72  Aligned_cols=227  Identities=11%  Similarity=0.068  Sum_probs=192.7

Q ss_pred             hHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCC-HHHHHHHHHhhCC---CChhhHHHHHHHH
Q 008280          199 SSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGD-LEDACKLFLEIQR---KDVVTWNAMISGY  274 (571)
Q Consensus       199 ~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~-~~~A~~~~~~~~~---~~~~~~~~li~~~  274 (571)
                      ..|..+...+...|++++|...++.+++.. +.+..+|+.+..+|.+.|+ +++|+..|++..+   .+...|+.+..++
T Consensus        98 ~a~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~~~~a~~~~g~~~  176 (382)
T 2h6f_A           98 DVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLV  176 (382)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHH
Confidence            456667777888999999999999999876 5678889999999999997 9999999998763   4778999999999


Q ss_pred             HHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHH-cCCHHH
Q 008280          275 AQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGR-AGKLVE  353 (571)
Q Consensus       275 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~-~g~~~~  353 (571)
                      ...|++++|+..|+++.+.. +-+...|..+..++...|++++|...|+++++.  -+.+...|+.+..+|.+ .|..++
T Consensus       177 ~~~g~~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l--~P~~~~a~~~lg~~l~~l~~~~~e  253 (382)
T 2h6f_A          177 EWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKE--DVRNNSVWNQRYFVISNTTGYNDR  253 (382)
T ss_dssp             HHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCSCSH
T ss_pred             HHccCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCcchH
Confidence            99999999999999999864 336778999999999999999999999999874  34458899999999999 666577


Q ss_pred             H-----HHHHHhC-CCCC-CHhHHHHHHHHHHhcC--CHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhcc--------
Q 008280          354 A-----VDLIKKM-PFKP-QPAIFGTLLSACRVHK--RLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMK--------  416 (571)
Q Consensus       354 A-----~~~~~~~-~~~p-~~~~~~~l~~~~~~~g--~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g--------  416 (571)
                      |     ++.|++. ...| +...|..+...+...|  ++++|+..++++ +.+|+++. .+..|+.+|.+.|        
T Consensus       254 A~~~~el~~~~~Al~l~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~~p~~~~-al~~La~~~~~~~~~~~~~~~  331 (382)
T 2h6f_A          254 AVLEREVQYTLEMIKLVPHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QPSHSSPY-LIAFLVDIYEDMLENQCDNKE  331 (382)
T ss_dssp             HHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TTTCCCHH-HHHHHHHHHHHHHHTTCSSHH
T ss_pred             HHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHccCccchHHHHHHHHHh-ccCCCCHH-HHHHHHHHHHHHhcccccchH
Confidence            7     4667665 2334 4689999999998888  689999999998 89999988 9999999999875        


Q ss_pred             -ChhHHHHHHHHH-HhC
Q 008280          417 -KWDDVARIRLSM-KEN  431 (571)
Q Consensus       417 -~~~~a~~~~~~m-~~~  431 (571)
                       .+++|.++++++ .+.
T Consensus       332 ~~~~~A~~~~~~l~~~~  348 (382)
T 2h6f_A          332 DILNKALELCEILAKEK  348 (382)
T ss_dssp             HHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHh
Confidence             358999999988 553

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.47  E-value=3.9e-12  Score=112.49  Aligned_cols=166  Identities=13%  Similarity=0.094  Sum_probs=124.8

Q ss_pred             ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHH
Q 008280          263 DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMV  342 (571)
Q Consensus       263 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li  342 (571)
                      +...|..+...|...|++++|+..|++..+.. +-+..++..+..++...|++++|...+......  .+.+...+..+.
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~   80 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVL--DTTSAEAYYILG   80 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CchhHHHHHHHH
Confidence            45567777777777777777777777776653 224556777777777888888888877777653  334466666777


Q ss_pred             HHHHHcCCHHHHHHHHHhC-CC-CCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhH
Q 008280          343 DLLGRAGKLVEAVDLIKKM-PF-KPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDD  420 (571)
Q Consensus       343 ~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~  420 (571)
                      ..+...+++++|.+.+++. .. +.+...+..+...+...|++++|+..++++++.+|+++. ++..++.+|.+.|++++
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            7777888888888877766 11 234677888888888888888888888888888888887 88888888888888888


Q ss_pred             HHHHHHHHHhCC
Q 008280          421 VARIRLSMKENN  432 (571)
Q Consensus       421 a~~~~~~m~~~~  432 (571)
                      |.+.|++..+..
T Consensus       160 A~~~~~~al~~~  171 (184)
T 3vtx_A          160 AVKYFKKALEKE  171 (184)
T ss_dssp             HHHHHHHHHHTT
T ss_pred             HHHHHHHHHhCC
Confidence            888888877643

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.47  E-value=5e-13  Score=137.09  Aligned_cols=209  Identities=11%  Similarity=0.031  Sum_probs=176.7

Q ss_pred             hHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCH-HHHHHHHHhhCC---CChhhHHHHHHHHHHcCChHHHHHHHHH
Q 008280          214 LQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDL-EDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDK  289 (571)
Q Consensus       214 ~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~-~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~  289 (571)
                      ++.+...+....... +.+...+..+...|...|++ ++|++.|++..+   .+...|..+...|...|++++|+..|++
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            455555565555443 45677788888899999999 999999987653   4577899999999999999999999999


Q ss_pred             HHHcCCCCCHHHHHHHHHHHHhc---------CcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHc--------CCHH
Q 008280          290 MKDEGMKPDSITFVALLLACNHA---------GLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRA--------GKLV  352 (571)
Q Consensus       290 m~~~g~~p~~~t~~~ll~a~~~~---------g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~--------g~~~  352 (571)
                      ..+.  .|+...+..+...+...         |++++|...|++..+.  .+.+...|..+..+|...        |+++
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  57778888888999999         9999999999999874  344588899999999998        9999


Q ss_pred             HHHHHHHhC-CCCC----CHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHH
Q 008280          353 EAVDLIKKM-PFKP----QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLS  427 (571)
Q Consensus       353 ~A~~~~~~~-~~~p----~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  427 (571)
                      +|++.|++. ...|    +...|..+..+|...|++++|+..|+++++++|+++. ++..++.++...|++++|.+.+.+
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    6789999999999999999999999999999999988 999999999999999999986644


Q ss_pred             H
Q 008280          428 M  428 (571)
Q Consensus       428 m  428 (571)
                      +
T Consensus       318 ~  318 (474)
T 4abn_A          318 T  318 (474)
T ss_dssp             C
T ss_pred             c
Confidence            3

>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=99.46  E-value=1.4e-10  Score=122.40  Aligned_cols=402  Identities=11%  Similarity=0.069  Sum_probs=232.4

Q ss_pred             CCCCcchHHHHHHHHHhCCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHcCCCC---HHHHHHHHhhCCC-----CCh
Q 008280            2 NVKTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQ---PDVVSYNIMLSCILLNSDD---VVAAFDFFQRLPI-----KDT   70 (571)
Q Consensus         2 ~~~~~~~~~~l~~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~ll~~~~~~~g~---~~~A~~~~~~m~~-----~d~   70 (571)
                      +|-|..+|..+++.+.+.+ .++.++.+|+.+..   .....|..-+..-.+. |+   .+.+.++|++...     |++
T Consensus        62 np~d~~~W~~yi~~~~~~~-~~~~aR~vyEraL~~fP~~~~lW~~Yi~~E~~~-~~~~~~~~v~~lfeRal~~~~~~~sv  139 (679)
T 4e6h_A           62 QPTDIFLYVKLLKHHVSLK-QWKQVYETFDKLHDRFPLMANIWCMRLSLEFDK-MEELDAAVIEPVLARCLSKELGNNDL  139 (679)
T ss_dssp             CTTCHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTC---CCCHHHHHHHHHHHTCSSSCCCCH
T ss_pred             CcCCHHHHHHHHHHHHhcC-cHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHhh-CCcchHHHHHHHHHHHHHhcCCCCCH
Confidence            3456777888888877777 88888888887764   3445677767766666 77   8888888877542     667


Q ss_pred             hhHHHHHHHHHcCCCH--------HHHHHHHhhCC------CC-CcchHHHHHHHHH---------HcCChHHHHHHHhh
Q 008280           71 ASWNTMISGFVQKKNM--------AKARDLFLAMP------EK-NSVSWSAMISGYI---------ECGQLDKAVELFKV  126 (571)
Q Consensus        71 ~~~~~li~~~~~~g~~--------~~A~~~~~~m~------~~-d~~~~~~li~~~~---------~~g~~~~A~~~~~~  126 (571)
                      ..|...+....+.++.        +...++|+...      .+ +...|...+.-..         ..++++.+.++|+.
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            7777777655544432        23345665432      22 2345666655432         23346677777776


Q ss_pred             CCCCCh----hHHHHHHHHHHh-------------cCCHHHHHHHHhhC-----------CC----------C--C----
Q 008280          127 APVKSV----VAWTAMISGYMK-------------FGKVDLAEKLFDEM-----------PT----------K--N----  162 (571)
Q Consensus       127 ~~~~~~----~~~~~li~~~~~-------------~g~~~~A~~~~~~~-----------~~----------~--~----  162 (571)
                      .+....    .+|......--.             ..+++.|...+.++           +.          |  +    
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            653211    222211111000             11233344444321           00          0  0    


Q ss_pred             --HHHHHHHHHHHHHcC-------ChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHH-HHHHHHHhCCCCCC
Q 008280          163 --LVTWNAMIAGYVENS-------WAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGK-QVHQLVFKSPLCKD  232 (571)
Q Consensus       163 --~~~~~~li~~~~~~g-------~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~-~~~~~~~~~g~~~~  232 (571)
                        ...|...+.---..+       ..+.+..+|++.+.. .+-+...|.....-+...|+.+.|. .+++..+.. .+.+
T Consensus       300 ~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~-~p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~-~P~s  377 (679)
T 4e6h_A          300 QQLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQH-VCFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNS  377 (679)
T ss_dssp             HHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHH-TTTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTC
T ss_pred             HHHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHH-cCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCC
Confidence              124555554333222       123345566666653 2335556666666666667777775 777777764 2445


Q ss_pred             cchHHHHHHHHHhcCCHHHHHHHHHhhCC-------------CC------------hhhHHHHHHHHHHcCChHHHHHHH
Q 008280          233 TTALTPLISMYCKCGDLEDACKLFLEIQR-------------KD------------VVTWNAMISGYAQHGKGEKALRLF  287 (571)
Q Consensus       233 ~~~~~~li~~y~~~g~~~~A~~~~~~~~~-------------~~------------~~~~~~li~~~~~~g~~~~A~~~~  287 (571)
                      ...+..++...-+.|+++.|.++|+++..             |+            ...|...+....+.|..+.|..+|
T Consensus       378 ~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf  457 (679)
T 4e6h_A          378 AVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIF  457 (679)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            55667777777778888888877776653             21            125666666666777777888888


Q ss_pred             HHHHHc-CCCCCHHHHHHHHHHHHh-cCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCC
Q 008280          288 DKMKDE-GMKPDSITFVALLLACNH-AGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFK  364 (571)
Q Consensus       288 ~~m~~~-g~~p~~~t~~~ll~a~~~-~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~  364 (571)
                      .+..+. + .+....|...+..-.+ .++.+.|..+|+..++.  .+.+...+...++.....|+.+.|..+|++. ...
T Consensus       458 ~~A~~~~~-~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~--~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~  534 (679)
T 4e6h_A          458 GKCRRLKK-LVTPDIYLENAYIEYHISKDTKTACKVLELGLKY--FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKI  534 (679)
T ss_dssp             HHHHHTGG-GSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHH--HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTS
T ss_pred             HHHHHhcC-CCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH--CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhc
Confidence            777664 2 1122233222222222 24477788888777764  3344556667777777778888888888775 212


Q ss_pred             C----CHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHH
Q 008280          365 P----QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIY  412 (571)
Q Consensus       365 p----~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~  412 (571)
                      |    ....|...+.--..+|+.+.+..+.+++.+..|+++  ....+++-|
T Consensus       535 ~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~P~~~--~~~~f~~ry  584 (679)
T 4e6h_A          535 SDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKFPEVN--KLEEFTNKY  584 (679)
T ss_dssp             SSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHSTTCC--HHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCc--HHHHHHHHh
Confidence            2    235677777777777888888888888888777765  344444443

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.43  E-value=5.4e-11  Score=114.70  Aligned_cols=219  Identities=8%  Similarity=0.038  Sum_probs=152.6

Q ss_pred             hHHHHHHHHHHHCCCCCCHhHHHHHHHHHh-------ccCch-------HHHHHHHHHHHhCCCCCCcchHHHHHHHHHh
Q 008280          180 EDGLKLLRMMIGLGIRPNASSLSSVLLGCS-------HLSSL-------QLGKQVHQLVFKSPLCKDTTALTPLISMYCK  245 (571)
Q Consensus       180 ~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~-------~~~~~-------~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~  245 (571)
                      ++|+..|++..... +.+...|......+.       ..|+.       ++|..+++.+++.-.+.+...|..++..+.+
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            45666666666531 224445554444443       23554       7777777777763224455677778888888


Q ss_pred             cCCHHHHHHHHHhhCC--C-Chh-hHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH-hcCcHHHHHH
Q 008280          246 CGDLEDACKLFLEIQR--K-DVV-TWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACN-HAGLVDLGIQ  320 (571)
Q Consensus       246 ~g~~~~A~~~~~~~~~--~-~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~-~~g~~~~a~~  320 (571)
                      .|++++|..+|++..+  | +.. .|..++..+.+.|++++|..+|++..+.. +++...|........ ..|++++|..
T Consensus       112 ~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~a~~~~~~~~~~~~A~~  190 (308)
T 2ond_A          112 RMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFK  190 (308)
T ss_dssp             TTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCHHHHHH
T ss_pred             cCCHHHHHHHHHHHHhccccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHcCCHHHHHH
Confidence            8888888888887664  2 333 78888888888888888888888887754 233344443333322 3688899999


Q ss_pred             HHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-C---CCC--CHhHHHHHHHHHHhcCCHhHHHHHHHHHh
Q 008280          321 YFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-P---FKP--QPAIFGTLLSACRVHKRLDLAEFAAMNLF  394 (571)
Q Consensus       321 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~---~~p--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  394 (571)
                      +|+...+.  .+.++..|..++..+.+.|++++|..+|++. .   ..|  ....|..++......|+.+.|..++++++
T Consensus       191 ~~~~al~~--~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~  268 (308)
T 2ond_A          191 IFELGLKK--YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRF  268 (308)
T ss_dssp             HHHHHHHH--HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHHHHHHh--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            99888764  2345778888888888889999999888877 1   244  35688888888888899999999999999


Q ss_pred             ccCCCCCc
Q 008280          395 NLNPANAA  402 (571)
Q Consensus       395 ~~~p~~~~  402 (571)
                      +..|+++.
T Consensus       269 ~~~p~~~~  276 (308)
T 2ond_A          269 TAFREEYE  276 (308)
T ss_dssp             HHTTTTTS
T ss_pred             HHcccccc
Confidence            88888664

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.41  E-value=2.9e-12  Score=124.56  Aligned_cols=264  Identities=12%  Similarity=0.025  Sum_probs=155.8

Q ss_pred             HHHHHHHHHcCChHHHHHHHhhCC---CCC----hhHHHHHHHHHHhcCCHHHHHHHHhhCCC-----C----CHHHHHH
Q 008280          105 SAMISGYIECGQLDKAVELFKVAP---VKS----VVAWTAMISGYMKFGKVDLAEKLFDEMPT-----K----NLVTWNA  168 (571)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~~~---~~~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~----~~~~~~~  168 (571)
                      ......+...|++++|+..|+++.   +.+    ..++..+...|...|++++|...|++..+     +    ...++..
T Consensus         9 ~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~   88 (338)
T 3ro2_A            9 ALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGN   88 (338)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHH
Confidence            334455566666666666665543   122    13445555556666666666655554321     1    1234555


Q ss_pred             HHHHHHHcCChhHHHHHHHHHHHCCC-CCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcC
Q 008280          169 MIAGYVENSWAEDGLKLLRMMIGLGI-RPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCG  247 (571)
Q Consensus       169 li~~~~~~g~~~~A~~~~~~m~~~g~-~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g  247 (571)
                      +...|...|++++|+..|++...... .++..                               ....++..+...|...|
T Consensus        89 l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~-------------------------------~~~~~~~~l~~~~~~~~  137 (338)
T 3ro2_A           89 LGNTLKVLGNFDEAIVCCQRHLDISRELNDKV-------------------------------GEARALYNLGNVYHAKG  137 (338)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH-------------------------------HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHccCHHHHHHHHHHHHHHHHHhcCch-------------------------------HHHHHHHHHHHHHHHcC
Confidence            55555555555555555555443100 01100                               00124444555555555


Q ss_pred             C--------------------HHHHHHHHHhhCC-----C----ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCC-CC
Q 008280          248 D--------------------LEDACKLFLEIQR-----K----DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGM-KP  297 (571)
Q Consensus       248 ~--------------------~~~A~~~~~~~~~-----~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p  297 (571)
                      +                    +++|...+++...     .    ...++..+...+...|++++|...+++..+... .+
T Consensus       138 ~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~  217 (338)
T 3ro2_A          138 KSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFG  217 (338)
T ss_dssp             HTSSSSSCC----CCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHT
T ss_pred             cccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcC
Confidence            5                    5566555554321     1    134677777788888888888888887654210 11


Q ss_pred             C----HHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCC----hHhHHHHHHHHHHcCCHHHHHHHHHhC----CCCC
Q 008280          298 D----SITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAK----PDHYTCMVDLLGRAGKLVEAVDLIKKM----PFKP  365 (571)
Q Consensus       298 ~----~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~~----~~~p  365 (571)
                      +    ..++..+...+...|++++|..++++..+...-.++    ...+..+...|...|++++|.+.+++.    +..+
T Consensus       218 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~  297 (338)
T 3ro2_A          218 DKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELK  297 (338)
T ss_dssp             CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHT
T ss_pred             ChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcC
Confidence            1    226667777888888888888888877643111111    556778888899999999999888776    1111


Q ss_pred             C----HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCC
Q 008280          366 Q----PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPA  399 (571)
Q Consensus       366 ~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~  399 (571)
                      +    ..++..+...+...|++++|...+++++++.+.
T Consensus       298 ~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~  335 (338)
T 3ro2_A          298 DRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISRE  335 (338)
T ss_dssp             CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC---
T ss_pred             CcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHh
Confidence            2    347778888999999999999999999887654

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.41  E-value=1.4e-12  Score=131.34  Aligned_cols=265  Identities=11%  Similarity=0.016  Sum_probs=161.9

Q ss_pred             HHHHHHHHHHcCChHHHHHHHhhCC---CCCh----hHHHHHHHHHHhcCCHHHHHHHHhhCCC---------CCHHHHH
Q 008280          104 WSAMISGYIECGQLDKAVELFKVAP---VKSV----VAWTAMISGYMKFGKVDLAEKLFDEMPT---------KNLVTWN  167 (571)
Q Consensus       104 ~~~li~~~~~~g~~~~A~~~~~~~~---~~~~----~~~~~li~~~~~~g~~~~A~~~~~~~~~---------~~~~~~~  167 (571)
                      +..+...+...|++++|+..|+++.   +.+.    .++..+...|...|++++|...|++..+         ....+|.
T Consensus        51 l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  130 (411)
T 4a1s_A           51 LALEGERLCNAGDCRAGVAFFQAAIQAGTEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSG  130 (411)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHhCcHHHHHHHHHHHHHhcccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHH
Confidence            3344555666666666666665543   1222    2455555556666666666655554431         1123455


Q ss_pred             HHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCC-CCCCcchHHHHHHHHHhc
Q 008280          168 AMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSP-LCKDTTALTPLISMYCKC  246 (571)
Q Consensus       168 ~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g-~~~~~~~~~~li~~y~~~  246 (571)
                      .+...|...|++++|+..|++.....-                               +.+ .+....++..+...|...
T Consensus       131 ~l~~~~~~~g~~~~A~~~~~~al~~~~-------------------------------~~~~~~~~~~~~~~l~~~~~~~  179 (411)
T 4a1s_A          131 NLGNTLKVMGRFDEAAICCERHLTLAR-------------------------------QLGDRLSEGRALYNLGNVYHAK  179 (411)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHH-------------------------------HHTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHH-------------------------------HhhchHHHHHHHHHHHHHHHHc
Confidence            555555555666665555555443100                               000 011123445555566666


Q ss_pred             CC-----------------HHHHHHHHHhhCC-----C----ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCC-CCC-
Q 008280          247 GD-----------------LEDACKLFLEIQR-----K----DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGM-KPD-  298 (571)
Q Consensus       247 g~-----------------~~~A~~~~~~~~~-----~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~-  298 (571)
                      |+                 +++|.+.|++..+     .    ...+|..+...|...|++++|+..|++..+... .++ 
T Consensus       180 g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~  259 (411)
T 4a1s_A          180 GKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDR  259 (411)
T ss_dssp             HHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCH
T ss_pred             CcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCc
Confidence            66                 6666666554331     1    234677778888888888888888887754211 112 


Q ss_pred             ---HHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCC----ChHhHHHHHHHHHHcCCHHHHHHHHHhC----CCCCC-
Q 008280          299 ---SITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAA----KPDHYTCMVDLLGRAGKLVEAVDLIKKM----PFKPQ-  366 (571)
Q Consensus       299 ---~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~----~~~~~~~li~~~~~~g~~~~A~~~~~~~----~~~p~-  366 (571)
                         ..++..+...+...|++++|...+++..+...-..    ....+..+...|.+.|++++|.+.+++.    +..++ 
T Consensus       260 ~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~  339 (411)
T 4a1s_A          260 AAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDR  339 (411)
T ss_dssp             HHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCh
Confidence               12667778888889999999998887765321111    1467778888999999999999988876    11112 


Q ss_pred             ---HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCC
Q 008280          367 ---PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPA  399 (571)
Q Consensus       367 ---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~  399 (571)
                         ..++..+...|...|++++|...+++++++.+.
T Consensus       340 ~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~  375 (411)
T 4a1s_A          340 IGEARACWSLGNAHSAIGGHERALKYAEQHLQLAXX  375 (411)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCH
T ss_pred             HHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHhh
Confidence               357788888999999999999999999887653

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.40  E-value=5.3e-11  Score=114.76  Aligned_cols=210  Identities=7%  Similarity=0.015  Sum_probs=146.5

Q ss_pred             HHHHHHHhhCCC---CCHHHHHHHHHHHH-------HcCCh-------hHHHHHHHHHHHCCCCC-CHhHHHHHHHHHhc
Q 008280          149 DLAEKLFDEMPT---KNLVTWNAMIAGYV-------ENSWA-------EDGLKLLRMMIGLGIRP-NASSLSSVLLGCSH  210 (571)
Q Consensus       149 ~~A~~~~~~~~~---~~~~~~~~li~~~~-------~~g~~-------~~A~~~~~~m~~~g~~p-d~~t~~~ll~~~~~  210 (571)
                      +.|..+|++...   .++..|..++..+.       +.|++       ++|...|++.... +.| +...|..+...+..
T Consensus        33 ~~a~~~~~~al~~~p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~-~~p~~~~~~~~~~~~~~~  111 (308)
T 2ond_A           33 KRVMFAYEQCLLVLGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAIST-LLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTT-TTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHH-hCcccHHHHHHHHHHHHh
Confidence            456666666553   35566776666655       34665       7788888877762 134 44467777777777


Q ss_pred             cCchHHHHHHHHHHHhCCCCCCcc-hHHHHHHHHHhcCCHHHHHHHHHhhCCC---ChhhHHHHHHHHH-HcCChHHHHH
Q 008280          211 LSSLQLGKQVHQLVFKSPLCKDTT-ALTPLISMYCKCGDLEDACKLFLEIQRK---DVVTWNAMISGYA-QHGKGEKALR  285 (571)
Q Consensus       211 ~~~~~~a~~~~~~~~~~g~~~~~~-~~~~li~~y~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~-~~g~~~~A~~  285 (571)
                      .|++++|..+|+.+++.. +.+.. +|..++..+.+.|++++|..+|++..+.   +...|...+.... ..|+.++|..
T Consensus       112 ~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~a~~~~~~~~~~~~A~~  190 (308)
T 2ond_A          112 RMKYEKVHSIYNRLLAIE-DIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDARTRHHVYVTAALMEYYCSKDKSVAFK  190 (308)
T ss_dssp             TTCHHHHHHHHHHHHTSS-SSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTCCTHHHHHHHHHHHHTSCCHHHHHH
T ss_pred             cCCHHHHHHHHHHHHhcc-ccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHcCCHHHHHH
Confidence            788888888888887753 22333 7888888888888888888888877642   3334443332222 2688999999


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCC--ChHhHHHHHHHHHHcCCHHHHHHHHHhC
Q 008280          286 LFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAA--KPDHYTCMVDLLGRAGKLVEAVDLIKKM  361 (571)
Q Consensus       286 ~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~--~~~~~~~li~~~~~~g~~~~A~~~~~~~  361 (571)
                      +|++..+.. +-+...+..++..+.+.|++++|..+|++......++|  ....|..++..+.+.|+.++|..+++++
T Consensus       191 ~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a  267 (308)
T 2ond_A          191 IFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRR  267 (308)
T ss_dssp             HHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHH
T ss_pred             HHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            998887653 23566777888888888999999999998887422454  3667888888888899999999888876

>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=1.2e-11  Score=109.40  Aligned_cols=168  Identities=14%  Similarity=0.069  Sum_probs=141.9

Q ss_pred             CCcchHHHHHHHHHhcCCHHHHHHHHHhhCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 008280          231 KDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLL  307 (571)
Q Consensus       231 ~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~  307 (571)
                      .+..+|..+...|.+.|++++|.+.|++..+   .+..+|..+...|.+.|++++|+..+.+..... +.+...+..+..
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            3566788899999999999999999998753   467889999999999999999999999987754 335667777788


Q ss_pred             HHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHHHHhcCCHhH
Q 008280          308 ACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFK-PQPAIFGTLLSACRVHKRLDL  385 (571)
Q Consensus       308 a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~~~g~~~~  385 (571)
                      .+...++++.+...+....+.  .+.+...+..+..+|.+.|++++|++.|++. ... .+..+|..+..++...|++++
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            889999999999999988763  3455788889999999999999999999887 223 357889999999999999999


Q ss_pred             HHHHHHHHhccCCCCC
Q 008280          386 AEFAAMNLFNLNPANA  401 (571)
Q Consensus       386 a~~~~~~~~~~~p~~~  401 (571)
                      |+..|+++++++|+++
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            9999999999999764

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.39  E-value=8e-12  Score=124.63  Aligned_cols=221  Identities=12%  Similarity=0.047  Sum_probs=127.8

Q ss_pred             HhccCchHHHHHHHHHHHhC----CCCC-CcchHHHHHHHHHhcCCHHHHHHHHHhhCC-----CC-----hhhHHHHHH
Q 008280          208 CSHLSSLQLGKQVHQLVFKS----PLCK-DTTALTPLISMYCKCGDLEDACKLFLEIQR-----KD-----VVTWNAMIS  272 (571)
Q Consensus       208 ~~~~~~~~~a~~~~~~~~~~----g~~~-~~~~~~~li~~y~~~g~~~~A~~~~~~~~~-----~~-----~~~~~~li~  272 (571)
                      +...|++++|...+..+.+.    +-++ ...++..+...|...|++++|...+++..+     ++     ..+++.+..
T Consensus       113 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~  192 (383)
T 3ulq_A          113 ELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHSLFAT  192 (383)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHHHHHH
Confidence            34445555555555554442    1000 123455566666666666666666555431     11     235666667


Q ss_pred             HHHHcCChHHHHHHHHHHHHcCC-CCCH----HHHHHHHHHHHhcCcHHHHHHHHHHhHHhc---CC-CCChHhHHHHHH
Q 008280          273 GYAQHGKGEKALRLFDKMKDEGM-KPDS----ITFVALLLACNHAGLVDLGIQYFDSMVNDY---GI-AAKPDHYTCMVD  343 (571)
Q Consensus       273 ~~~~~g~~~~A~~~~~~m~~~g~-~p~~----~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~---~~-~~~~~~~~~li~  343 (571)
                      .|...|++++|+..|++..+... .++.    .++..+...+...|++++|...+++..+-.   +. +....++..+..
T Consensus       193 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~  272 (383)
T 3ulq_A          193 NFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFLITQ  272 (383)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHH
Confidence            77777777777777766543210 1111    356666677777777777777776665410   12 222556667777


Q ss_pred             HHHHcCCHHHHHHHHHhC----CC--CCC-HhHHHHHHHHHHhcCC---HhHHHHHHHHHhccCCCCCchhHHHHHHHHh
Q 008280          344 LLGRAGKLVEAVDLIKKM----PF--KPQ-PAIFGTLLSACRVHKR---LDLAEFAAMNLFNLNPANAAGCYVQLANIYA  413 (571)
Q Consensus       344 ~~~~~g~~~~A~~~~~~~----~~--~p~-~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~  413 (571)
                      .|.+.|++++|.+.+++.    +.  .|. ...+..+...+...|+   +++|+..+++. ...|.... .+..|+.+|.
T Consensus       273 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~-~~~~~~~~-~~~~la~~y~  350 (383)
T 3ulq_A          273 IHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK-MLYADLED-FAIDVAKYYH  350 (383)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT-TCHHHHHH-HHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC-cCHHHHHH-HHHHHHHHHH
Confidence            777777777777777665    10  111 1234556666667777   66666666665 22333333 6777888888


Q ss_pred             hccChhHHHHHHHHHHh
Q 008280          414 AMKKWDDVARIRLSMKE  430 (571)
Q Consensus       414 ~~g~~~~a~~~~~~m~~  430 (571)
                      ..|++++|.+.+++..+
T Consensus       351 ~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          351 ERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHH
Confidence            88888888888877653

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.38  E-value=9.6e-12  Score=124.02  Aligned_cols=229  Identities=8%  Similarity=0.001  Sum_probs=156.5

Q ss_pred             HHHHHHHcCChhHHHHHHHHHHHCC-CCCC----HhHHHHHHHHHhccCchHHHHHHHHHHHhCCC------CCCcchHH
Q 008280          169 MIAGYVENSWAEDGLKLLRMMIGLG-IRPN----ASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPL------CKDTTALT  237 (571)
Q Consensus       169 li~~~~~~g~~~~A~~~~~~m~~~g-~~pd----~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~------~~~~~~~~  237 (571)
                      ....+...|++++|+..|++....- -.+|    ..++..+...+...|+++.|...+..+++.-.      +....+++
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            3444555666666666666555420 0111    23445555555566666666666655544210      01134567


Q ss_pred             HHHHHHHhcCCHHHHHHHHHhhCC-----CC----hhhHHHHHHHHHHcCChHHHHHHHHHHHHc----CCCC-CHHHHH
Q 008280          238 PLISMYCKCGDLEDACKLFLEIQR-----KD----VVTWNAMISGYAQHGKGEKALRLFDKMKDE----GMKP-DSITFV  303 (571)
Q Consensus       238 ~li~~y~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p-~~~t~~  303 (571)
                      .+...|...|++++|...|++..+     ++    ..++..+...|...|++++|+..|++..+.    +..| ...++.
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            778888888888888888877652     12    247888899999999999999999987662    3223 345788


Q ss_pred             HHHHHHHhcCcHHHHHHHHHHhHHhcC---CCCChHhHHHHHHHHHHcCC---HHHHHHHHHhCCCCCCH-hHHHHHHHH
Q 008280          304 ALLLACNHAGLVDLGIQYFDSMVNDYG---IAAKPDHYTCMVDLLGRAGK---LVEAVDLIKKMPFKPQP-AIFGTLLSA  376 (571)
Q Consensus       304 ~ll~a~~~~g~~~~a~~~~~~~~~~~~---~~~~~~~~~~li~~~~~~g~---~~~A~~~~~~~~~~p~~-~~~~~l~~~  376 (571)
                      .+...+...|++++|...+++..+...   .+.....+..+...|...|+   +++|+.++++.+..|+. ..+..+...
T Consensus       269 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~~~~~~~~~~~~~la~~  348 (383)
T 3ulq_A          269 LITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESKMLYADLEDFAIDVAKY  348 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCcCHHHHHHHHHHHHHH
Confidence            888999999999999999988765311   11223345678888888999   99999999998644443 467788899


Q ss_pred             HHhcCCHhHHHHHHHHHhccC
Q 008280          377 CRVHKRLDLAEFAAMNLFNLN  397 (571)
Q Consensus       377 ~~~~g~~~~a~~~~~~~~~~~  397 (571)
                      |...|++++|...+++++++.
T Consensus       349 y~~~g~~~~A~~~~~~al~~~  369 (383)
T 3ulq_A          349 YHERKNFQKASAYFLKVEQVR  369 (383)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHH
Confidence            999999999999999987643

>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=99.35  E-value=1.3e-09  Score=115.10  Aligned_cols=395  Identities=11%  Similarity=0.047  Sum_probs=273.0

Q ss_pred             CChhhHHHHHHHHHcCCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHcCCC---HHHHHHHHhhCCC-----CCcchH
Q 008280           36 PDVVSYNIMLSCILLNSDDVVAAFDFFQRLPI---KDTASWNTMISGFVQKKN---MAKARDLFLAMPE-----KNSVSW  104 (571)
Q Consensus        36 ~~~~~~~~ll~~~~~~~g~~~~A~~~~~~m~~---~d~~~~~~li~~~~~~g~---~~~A~~~~~~m~~-----~d~~~~  104 (571)
                      .|..+|..++....+. +.++.++.+|+++..   .....|...+..-.+.|+   ++.+..+|++...     |++..|
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            5778999999999888 999999999998764   466778999999899999   9999999998753     677788


Q ss_pred             HHHHHHHHHcCCh--------HHHHHHHhhCC------CC-ChhHHHHHHHHHH---------hcCCHHHHHHHHhhCCC
Q 008280          105 SAMISGYIECGQL--------DKAVELFKVAP------VK-SVVAWTAMISGYM---------KFGKVDLAEKLFDEMPT  160 (571)
Q Consensus       105 ~~li~~~~~~g~~--------~~A~~~~~~~~------~~-~~~~~~~li~~~~---------~~g~~~~A~~~~~~~~~  160 (571)
                      ...+.-..+.++.        +...++|+...      .+ +...|...+....         ..++++.++++|++...
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            8877766665543        33446676532      22 3467888877654         24457889999998875


Q ss_pred             -C--CH-HHHHHHHHHHHH-------------cCChhHHHHHHHHHHH--CCCC---------------C-----CH---
Q 008280          161 -K--NL-VTWNAMIAGYVE-------------NSWAEDGLKLLRMMIG--LGIR---------------P-----NA---  198 (571)
Q Consensus       161 -~--~~-~~~~~li~~~~~-------------~g~~~~A~~~~~~m~~--~g~~---------------p-----d~---  198 (571)
                       |  +. .+|......-..             ..+++.|...+.++..  .++.               |     +.   
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             2  11 233322111111             1223445555554432  1221               1     00   


Q ss_pred             hHHHHHHHHHhccC-------chHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHH-HHHHhhCC---CChhhH
Q 008280          199 SSLSSVLLGCSHLS-------SLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDAC-KLFLEIQR---KDVVTW  267 (571)
Q Consensus       199 ~t~~~ll~~~~~~~-------~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~-~~~~~~~~---~~~~~~  267 (571)
                      ..|...+.---..+       ..+....+|++++..- +.+..+|...+..+.+.|+.++|. .+|++...   ++...|
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 LIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQHV-CFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQCIPNSAVLA  381 (679)
T ss_dssp             HHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHHCTTCHHHH
T ss_pred             HHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHHc-CCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhCCCCHHHH
Confidence            12222222211111       1234567788887753 567888988999999999999996 99988653   456678


Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHcCC---------CCC------------HHHHHHHHHHHHhcCcHHHHHHHHHHhH
Q 008280          268 NAMISGYAQHGKGEKALRLFDKMKDEGM---------KPD------------SITFVALLLACNHAGLVDLGIQYFDSMV  326 (571)
Q Consensus       268 ~~li~~~~~~g~~~~A~~~~~~m~~~g~---------~p~------------~~t~~~ll~a~~~~g~~~~a~~~~~~~~  326 (571)
                      -..+...-+.|++++|.++|+++.....         .|+            ...|...+....+.|..+.|+.+|....
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            8888889999999999999999876310         132            2357777777788899999999999998


Q ss_pred             HhcCCCCChHhHHHHHHHHHHcC-CHHHHHHHHHhC--CCCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCC--CC
Q 008280          327 NDYGIAAKPDHYTCMVDLLGRAG-KLVEAVDLIKKM--PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPA--NA  401 (571)
Q Consensus       327 ~~~~~~~~~~~~~~li~~~~~~g-~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~--~~  401 (571)
                      +.. ..+....|...+.+-.+.| +.+.|.++|+..  ....+...|...+......|+.+.|..+|++++...|+  ..
T Consensus       462 ~~~-~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~  540 (679)
T 4e6h_A          462 RLK-KLVTPDIYLENAYIEYHISKDTKTACKVLELGLKYFATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLL  540 (679)
T ss_dssp             HTG-GGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHH
T ss_pred             Hhc-CCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHH
Confidence            631 1223445554444445554 589999999887  22245678888888888899999999999999998874  22


Q ss_pred             chhHHHHHHHHhhccChhHHHHHHHHHHhCCC
Q 008280          402 AGCYVQLANIYAAMKKWDDVARIRLSMKENNV  433 (571)
Q Consensus       402 ~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  433 (571)
                      ...|...+..-...|+.+.+.++.+++.+.-.
T Consensus       541 ~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~P  572 (679)
T 4e6h_A          541 KMIFQKVIFFESKVGSLNSVRTLEKRFFEKFP  572 (679)
T ss_dssp             HHHHHHHHHHHHHTCCSHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            22777888888899999999999999987544

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.35  E-value=1.8e-12  Score=124.84  Aligned_cols=236  Identities=14%  Similarity=0.102  Sum_probs=119.4

Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHHHHC-------CCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhC------C-
Q 008280          163 LVTWNAMIAGYVENSWAEDGLKLLRMMIGL-------GIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKS------P-  228 (571)
Q Consensus       163 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-------g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~------g-  228 (571)
                      ..+|..+...|...|++++|+.+|+++.+.       ..+.....+..+...+...|++++|...+..+++.      + 
T Consensus        27 ~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  106 (311)
T 3nf1_A           27 LRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKD  106 (311)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCC
Confidence            457888889999999999999999888762       11222344555555666666666666666655543      1 


Q ss_pred             CCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHc------CCCCC-HHH
Q 008280          229 LCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDE------GMKPD-SIT  301 (571)
Q Consensus       229 ~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------g~~p~-~~t  301 (571)
                      .+....++..+...|...|++++|...|+                               +..+.      +-.|+ ...
T Consensus       107 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~-------------------------------~a~~~~~~~~~~~~~~~~~~  155 (311)
T 3nf1_A          107 HPAVAATLNNLAVLYGKRGKYKEAEPLCK-------------------------------RALEIREKVLGKDHPDVAKQ  155 (311)
T ss_dssp             CHHHHHHHHHHHHHHHTTTCHHHHHHHHH-------------------------------HHHHHHHHHHCTTCHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHcCcHHHHHHHHH-------------------------------HHHHHHHHhcCCCChHHHHH
Confidence            11123344445555555555555555544                               43321      11111 123


Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHhHHhc-----C-CCCChHhHHHHHHHHHHcCCHHHHHHHHHhCC----------CCC
Q 008280          302 FVALLLACNHAGLVDLGIQYFDSMVNDY-----G-IAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMP----------FKP  365 (571)
Q Consensus       302 ~~~ll~a~~~~g~~~~a~~~~~~~~~~~-----~-~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~----------~~p  365 (571)
                      +..+...+...|++++|..+++.+.+..     + .+.....+..+...|.+.|++++|.+.++++-          ..+
T Consensus       156 ~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  235 (311)
T 3nf1_A          156 LNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDD  235 (311)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC----
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCc
Confidence            4444445555555555555555444320     0 11113344455555555555555555554430          001


Q ss_pred             C-------HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHh
Q 008280          366 Q-------PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  430 (571)
Q Consensus       366 ~-------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  430 (571)
                      .       ...+..+...+...+.+.++...+++.....|.... ++..++.+|.+.|++++|.+++++..+
T Consensus       236 ~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          236 ENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTT-TLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             --CCHHHHHHHHHHC-------CCSCCCC---------CHHHHH-HHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHH-HHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            1       112222223334455566666667777666777666 777888888888888888888876653

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=99.34  E-value=2.2e-11  Score=130.02  Aligned_cols=163  Identities=15%  Similarity=0.169  Sum_probs=125.3

Q ss_pred             hhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHH
Q 008280          264 VVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVD  343 (571)
Q Consensus       264 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~  343 (571)
                      ..+|+.|...|.+.|++++|++.|++..+.. +-+..++..+..++.+.|++++|...|++.++.  -+-+...|..+..
T Consensus         9 a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~-P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l--~P~~~~a~~nLg~   85 (723)
T 4gyw_A            9 ADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI--SPTFADAYSNMGN   85 (723)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHH
Confidence            4567777777777777777877777777643 123557777777888888888888888777753  1233677788888


Q ss_pred             HHHHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHH
Q 008280          344 LLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDV  421 (571)
Q Consensus       344 ~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a  421 (571)
                      +|.+.|++++|++.|++. ...| +...|..+..++...|++++|+..|+++++++|+++. ++..|+.+|...|+|++|
T Consensus        86 ~l~~~g~~~~A~~~~~kAl~l~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~-a~~~L~~~l~~~g~~~~A  164 (723)
T 4gyw_A           86 TLKEMQDVQGALQCYTRAIQINPAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPD-AYCNLAHCLQIVCDWTDY  164 (723)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHH-HHHHHHHHHHHTTCCTTH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChH-HHhhhhhHHHhcccHHHH
Confidence            888888888888888776 3334 4678888888889999999999999999999998888 888999999999999998


Q ss_pred             HHHHHHHHh
Q 008280          422 ARIRLSMKE  430 (571)
Q Consensus       422 ~~~~~~m~~  430 (571)
                      .+.+++..+
T Consensus       165 ~~~~~kal~  173 (723)
T 4gyw_A          165 DERMKKLVS  173 (723)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            888877653

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.33  E-value=8.8e-10  Score=109.24  Aligned_cols=262  Identities=10%  Similarity=-0.021  Sum_probs=166.5

Q ss_pred             HHHHHHHcCChhHHHHHHHHHHHCCCCCCHh----HHHHHHHHHhccCchHHHHHHHHHHHhCCCC-CC----cchHHHH
Q 008280          169 MIAGYVENSWAEDGLKLLRMMIGLGIRPNAS----SLSSVLLGCSHLSSLQLGKQVHQLVFKSPLC-KD----TTALTPL  239 (571)
Q Consensus       169 li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~----t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~-~~----~~~~~~l  239 (571)
                      ....+...|++++|+..+++.....-..+..    .+..+...+...|+++.|...+......... .+    ..++..+
T Consensus        20 ~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l   99 (373)
T 1hz4_A           20 RAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQ   99 (373)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence            3344555666666666666655532111211    2333444455566666666666655542100 11    1234556


Q ss_pred             HHHHHhcCCHHHHHHHHHhhCC-------C----ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCC--C--CHHHHHH
Q 008280          240 ISMYCKCGDLEDACKLFLEIQR-------K----DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMK--P--DSITFVA  304 (571)
Q Consensus       240 i~~y~~~g~~~~A~~~~~~~~~-------~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~--p--~~~t~~~  304 (571)
                      ...|...|++++|...+++..+       +    ....+..+...+...|++++|...+++.......  +  ...++..
T Consensus       100 a~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  179 (373)
T 1hz4_A          100 SEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAM  179 (373)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHH
Confidence            7777788888888877776542       1    1235566777888889999999888887653221  1  2346667


Q ss_pred             HHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHH-----HHHHHHHHcCCHHHHHHHHHhCC-CCCC-----HhHHHHH
Q 008280          305 LLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYT-----CMVDLLGRAGKLVEAVDLIKKMP-FKPQ-----PAIFGTL  373 (571)
Q Consensus       305 ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~-----~li~~~~~~g~~~~A~~~~~~~~-~~p~-----~~~~~~l  373 (571)
                      +...+...|++++|...+++......-......+.     ..+..+...|++++|...+++.- ..|.     ...+..+
T Consensus       180 la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~l  259 (373)
T 1hz4_A          180 LIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNI  259 (373)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHH
Confidence            77888889999999999888765321111111121     23345778999999999998872 1121     2356677


Q ss_pred             HHHHHhcCCHhHHHHHHHHHhccCCCC-----CchhHHHHHHHHhhccChhHHHHHHHHHHh
Q 008280          374 LSACRVHKRLDLAEFAAMNLFNLNPAN-----AAGCYVQLANIYAAMKKWDDVARIRLSMKE  430 (571)
Q Consensus       374 ~~~~~~~g~~~~a~~~~~~~~~~~p~~-----~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  430 (571)
                      ...+...|++++|...++++++..+..     ....+..++.+|...|+.++|...+++..+
T Consensus       260 a~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~  321 (373)
T 1hz4_A          260 ARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  321 (373)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            788899999999999999887643321     111667788999999999999999987764

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.33  E-value=4.3e-12  Score=122.11  Aligned_cols=237  Identities=11%  Similarity=0.094  Sum_probs=144.5

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhhCCC--------CC---HHHHHHHHHHHHHcCChhHHHHHHHHHHHC------CC
Q 008280          132 VVAWTAMISGYMKFGKVDLAEKLFDEMPT--------KN---LVTWNAMIAGYVENSWAEDGLKLLRMMIGL------GI  194 (571)
Q Consensus       132 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~--------~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------g~  194 (571)
                      ..++..+...|...|++++|..+|+++.+        .+   ..++..+...|...|++++|+..|++....      +-
T Consensus        27 ~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  106 (311)
T 3nf1_A           27 LRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKD  106 (311)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCC
Confidence            46788899999999999999999988764        22   357888999999999999999999998764      22


Q ss_pred             CC-CHhHHHHHHHHHhccCchHHHHHHHHHHHhC------CC-CCCcchHHHHHHHHHhcCCHHHHHHHHHhhCCCChhh
Q 008280          195 RP-NASSLSSVLLGCSHLSSLQLGKQVHQLVFKS------PL-CKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVT  266 (571)
Q Consensus       195 ~p-d~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~------g~-~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~  266 (571)
                      .| ...++..+...+...|++++|...+..+++.      +. +....++..+...|...|++++|...|++        
T Consensus       107 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~--------  178 (311)
T 3nf1_A          107 HPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQR--------  178 (311)
T ss_dssp             CHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHH--------
T ss_pred             ChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHH--------
Confidence            23 3456778888899999999999999887753      11 11233444555555555555555555544        


Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHc------CCCCC-HHHHHHHHHHHHhcCcHHHHHHHHHHhHHhc------CCCC
Q 008280          267 WNAMISGYAQHGKGEKALRLFDKMKDE------GMKPD-SITFVALLLACNHAGLVDLGIQYFDSMVNDY------GIAA  333 (571)
Q Consensus       267 ~~~li~~~~~~g~~~~A~~~~~~m~~~------g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~------~~~~  333 (571)
                                             ....      +..|+ ..++..+...+...|++++|..+++++.+..      ...+
T Consensus       179 -----------------------a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  235 (311)
T 3nf1_A          179 -----------------------ALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDD  235 (311)
T ss_dssp             -----------------------HHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC----
T ss_pred             -----------------------HHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCc
Confidence                                   3321      11111 1234444455555555555555555444310      0111


Q ss_pred             C-------hHhHHHHHHHHHHcCCHHHHHHHHHhCC-CCC-CHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCC
Q 008280          334 K-------PDHYTCMVDLLGRAGKLVEAVDLIKKMP-FKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPA  399 (571)
Q Consensus       334 ~-------~~~~~~li~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~  399 (571)
                      .       ...+..+...+...+.+.+|...++... ..| +..+|..+...|...|++++|...+++++++.|+
T Consensus       236 ~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~~~  310 (311)
T 3nf1_A          236 ENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMRSRKQ  310 (311)
T ss_dssp             --CCHHHHHHHHHHC-------CCSCCCC---------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHC-
T ss_pred             chHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhc
Confidence            1       1122223333444555666666666652 223 2467888999999999999999999999887764

>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=99.31  E-value=5.8e-11  Score=104.42  Aligned_cols=157  Identities=19%  Similarity=0.095  Sum_probs=82.3

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcC
Q 008280          270 MISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAG  349 (571)
Q Consensus       270 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  349 (571)
                      +...+...|++++|+..|+++.... +.+...+..+...+...|++++|..+++.+.+.  .+.+...+..+...|...|
T Consensus        14 ~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~   90 (186)
T 3as5_A           14 KGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLAD--APDNVKVATVLGLTYVQVQ   90 (186)
T ss_dssp             HHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHhc
Confidence            3333444444444444444433221 112333444444444444444444444444432  1223444444555555555


Q ss_pred             CHHHHHHHHHhC--CCCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHH
Q 008280          350 KLVEAVDLIKKM--PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLS  427 (571)
Q Consensus       350 ~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  427 (571)
                      ++++|.+.++++  ..+.+...|..+...+...|++++|...++++++..|+++. .+..++.+|...|++++|.+.++.
T Consensus        91 ~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~la~~~~~~~~~~~A~~~~~~  169 (186)
T 3as5_A           91 KYDLAVPLLIKVAEANPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPNEGK-VHRAIAFSYEQMGRHEEALPHFKK  169 (186)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhcCcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCccchH-HHHHHHHHHHHcCCHHHHHHHHHH
Confidence            555555555444  11234455666666666667777777777776666666665 666777777777777777777666


Q ss_pred             HHh
Q 008280          428 MKE  430 (571)
Q Consensus       428 m~~  430 (571)
                      ..+
T Consensus       170 ~~~  172 (186)
T 3as5_A          170 ANE  172 (186)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            654

>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=99.31  E-value=7.1e-11  Score=108.29  Aligned_cols=186  Identities=12%  Similarity=-0.017  Sum_probs=84.6

Q ss_pred             cchHHHHHHHHHhcCCHHHHHHHHHhhCC----CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHH
Q 008280          233 TTALTPLISMYCKCGDLEDACKLFLEIQR----KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPD-SITFVALLL  307 (571)
Q Consensus       233 ~~~~~~li~~y~~~g~~~~A~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~  307 (571)
                      +..+..+...|.+.|++++|...|++..+    ++...|..+..++...|++++|+..|++..+.  .|+ ...+..+..
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            34444555555555555555555554331    34444444555555555555555555555443  222 234444455


Q ss_pred             HHHhcCcHHHHHHHHHHhHHhcCCCCCh-------HhHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC---HhHHHHHHHH
Q 008280          308 ACNHAGLVDLGIQYFDSMVNDYGIAAKP-------DHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQ---PAIFGTLLSA  376 (571)
Q Consensus       308 a~~~~g~~~~a~~~~~~~~~~~~~~~~~-------~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~---~~~~~~l~~~  376 (571)
                      .+...|++++|...+++..+.  .+.+.       ..|..+...+.+.|++++|++.|++. ...|+   ...|..+...
T Consensus        85 ~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~  162 (228)
T 4i17_A           85 AYRDMKNNQEYIATLTEGIKA--VPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVTSKKWKTDALYSLGVL  162 (228)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSSCHHHHHHHHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcCCCcccHHHHHHHHHH
Confidence            555555555555555555442  11122       23444444444455555555554443 22333   2333334333


Q ss_pred             HHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHh
Q 008280          377 CRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  430 (571)
Q Consensus       377 ~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  430 (571)
                      +..     .+...++++..+.+.++. .|..+  .....+.+++|...+++..+
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            322     222333444444433322 22211  22233444777777777665

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.28  E-value=1.8e-10  Score=114.62  Aligned_cols=221  Identities=11%  Similarity=0.038  Sum_probs=136.4

Q ss_pred             HhccCchHHHHHHHHHHHhCCC-CC----CcchHHHHHHHHHhcCCHHHHHHHHHhhCC-----CC-----hhhHHHHHH
Q 008280          208 CSHLSSLQLGKQVHQLVFKSPL-CK----DTTALTPLISMYCKCGDLEDACKLFLEIQR-----KD-----VVTWNAMIS  272 (571)
Q Consensus       208 ~~~~~~~~~a~~~~~~~~~~g~-~~----~~~~~~~li~~y~~~g~~~~A~~~~~~~~~-----~~-----~~~~~~li~  272 (571)
                      +...|++++|...+..+.+... .+    ...++..+...|...|+++.|...+++..+     ++     ..+++.+..
T Consensus       111 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~  190 (378)
T 3q15_A          111 EFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIAG  190 (378)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHHH
T ss_pred             HHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHHH
Confidence            3445555555555555544310 01    123455666677777777777666665431     11     345667777


Q ss_pred             HHHHcCChHHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhc---CCCCChHhHHHHHHH
Q 008280          273 GYAQHGKGEKALRLFDKMKDE----GMKP-DSITFVALLLACNHAGLVDLGIQYFDSMVNDY---GIAAKPDHYTCMVDL  344 (571)
Q Consensus       273 ~~~~~g~~~~A~~~~~~m~~~----g~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~---~~~~~~~~~~~li~~  344 (571)
                      .|...|++++|++.|++..+.    +-.+ ...++..+...+...|++++|...+++..+-.   +.+....++..+...
T Consensus       191 ~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~  270 (378)
T 3q15_A          191 NYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFGLSWT  270 (378)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHHHHHH
Confidence            777888888888777776542    1111 12356667777888888888888887766511   222235667777888


Q ss_pred             HHHcCCHHHHHHHHHhC----CC--CCC-HhHHHHHHHHHHhcCC---HhHHHHHHHHHhccCCCCCchhHHHHHHHHhh
Q 008280          345 LGRAGKLVEAVDLIKKM----PF--KPQ-PAIFGTLLSACRVHKR---LDLAEFAAMNLFNLNPANAAGCYVQLANIYAA  414 (571)
Q Consensus       345 ~~~~g~~~~A~~~~~~~----~~--~p~-~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~  414 (571)
                      |.+.|++++|.+.+++.    +.  .|. ...+..+...+...++   +++|+..+++. ...|.... .+..++..|..
T Consensus       271 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~-~~~~~~~~-~~~~la~~y~~  348 (378)
T 3q15_A          271 LCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKK-NLHAYIEA-CARSAAAVFES  348 (378)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHT-TCHHHHHH-HHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhC-CChhHHHH-HHHHHHHHHHH
Confidence            88888888888888765    11  122 2344555555666677   67777777663 22233334 66788888888


Q ss_pred             ccChhHHHHHHHHHHh
Q 008280          415 MKKWDDVARIRLSMKE  430 (571)
Q Consensus       415 ~g~~~~a~~~~~~m~~  430 (571)
                      .|++++|.+.+++..+
T Consensus       349 ~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          349 SCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHH
Confidence            8999888888877653

>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=99.27  E-value=2.8e-10  Score=99.99  Aligned_cols=166  Identities=13%  Similarity=0.058  Sum_probs=141.2

Q ss_pred             chHHHHHHHHHhcCCHHHHHHHHHhhCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 008280          234 TALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACN  310 (571)
Q Consensus       234 ~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~  310 (571)
                      ..+..+...|...|++++|...|+++.+   .+...|..+...+...|++++|...++++.+.. +.+...+..+...+.
T Consensus         9 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~   87 (186)
T 3as5_A            9 VYYRDKGISHAKAGRYSQAVMLLEQVYDADAFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTYV   87 (186)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHTTTCCTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHH
Confidence            3456678888899999999999998875   356788889999999999999999999988763 346678888889999


Q ss_pred             hcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-C-CCCCHhHHHHHHHHHHhcCCHhHHHH
Q 008280          311 HAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-P-FKPQPAIFGTLLSACRVHKRLDLAEF  388 (571)
Q Consensus       311 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~g~~~~a~~  388 (571)
                      ..|++++|.++++.+.+.  .+.+...+..+...|...|++++|.+.++++ . .+.+...+..+...+...|++++|..
T Consensus        88 ~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~  165 (186)
T 3as5_A           88 QVQKYDLAVPLLIKVAEA--NPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPNEGKVHRAIAFSYEQMGRHEEALP  165 (186)
T ss_dssp             HHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHhc--CcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCHHHHHH
Confidence            999999999999998874  3556788889999999999999999999887 2 22457889999999999999999999


Q ss_pred             HHHHHhccCCCCCc
Q 008280          389 AAMNLFNLNPANAA  402 (571)
Q Consensus       389 ~~~~~~~~~p~~~~  402 (571)
                      .++++++..|+++.
T Consensus       166 ~~~~~~~~~~~~~~  179 (186)
T 3as5_A          166 HFKKANELDEGASV  179 (186)
T ss_dssp             HHHHHHHHHHCCCG
T ss_pred             HHHHHHHcCCCchh
Confidence            99999999888764

>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=99.27  E-value=2.2e-10  Score=104.96  Aligned_cols=205  Identities=9%  Similarity=0.034  Sum_probs=160.5

Q ss_pred             CCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCC---CChhhHHHHHH
Q 008280          196 PNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMIS  272 (571)
Q Consensus       196 pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~  272 (571)
                      .|+..+......+...|++++|...++.+++...+++...+..+...|.+.|++++|...|++..+   .+...|..+..
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            466788888888999999999999999999987447777888899999999999999999998764   35678999999


Q ss_pred             HHHHcCChHHHHHHHHHHHHcCCCCCH-------HHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCC---hHhHHHHH
Q 008280          273 GYAQHGKGEKALRLFDKMKDEGMKPDS-------ITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAK---PDHYTCMV  342 (571)
Q Consensus       273 ~~~~~g~~~~A~~~~~~m~~~g~~p~~-------~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~---~~~~~~li  342 (571)
                      .|...|++++|+..|++..+.. +.+.       ..|..+...+...|++++|...|++..+   ..|+   ...+..+.
T Consensus        85 ~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~---~~p~~~~~~~~~~l~  160 (228)
T 4i17_A           85 AYRDMKNNQEYIATLTEGIKAV-PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATD---VTSKKWKTDALYSLG  160 (228)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTT---SSCHHHHHHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHh---cCCCcccHHHHHHHH
Confidence            9999999999999999998753 2234       4577788888999999999999999875   3554   66788888


Q ss_pred             HHHHHcCCH--HHHHHHHHhCCCCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHH
Q 008280          343 DLLGRAGKL--VEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIY  412 (571)
Q Consensus       343 ~~~~~~g~~--~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~  412 (571)
                      .+|...|+.  ++|..+    . ..+...+..+.  ....+.+++|+..++++++++|+++. +...+..+.
T Consensus       161 ~~~~~~~~~~~~~a~~~----~-~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~p~~~~-~~~~l~~i~  224 (228)
T 4i17_A          161 VLFYNNGADVLRKATPL----A-SSNKEKYASEK--AKADAAFKKAVDYLGEAVTLSPNRTE-IKQMQDQVK  224 (228)
T ss_dssp             HHHHHHHHHHHHHHGGG----T-TTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHCTTCHH-HHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhc----c-cCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhcCCCCHH-HHHHHHHHH
Confidence            888776654  333222    1 12344444333  34567799999999999999999987 666665553

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.26  E-value=1.6e-10  Score=118.50  Aligned_cols=188  Identities=14%  Similarity=0.014  Sum_probs=94.2

Q ss_pred             hHHHHHHHHHhccCch-HHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCC--CChhhHHHHHHHHH
Q 008280          199 SSLSSVLLGCSHLSSL-QLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR--KDVVTWNAMISGYA  275 (571)
Q Consensus       199 ~t~~~ll~~~~~~~~~-~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~  275 (571)
                      ..+..+...+...|++ ++|...++.+++.. +.+..++..+...|.+.|++++|...|++..+  |+...|..+...|.
T Consensus       103 ~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~lg~~~~  181 (474)
T 4abn_A          103 QALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCFSGALTHCKNKVSLQNLSMVLR  181 (474)
T ss_dssp             HHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTCCCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHH
Confidence            3344444444444444 44444444444432 22344445555555555555555555554432  33344555555555


Q ss_pred             Hc---------CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc--------CcHHHHHHHHHHhHHhcCCC---CCh
Q 008280          276 QH---------GKGEKALRLFDKMKDEGMKPDSITFVALLLACNHA--------GLVDLGIQYFDSMVNDYGIA---AKP  335 (571)
Q Consensus       276 ~~---------g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~--------g~~~~a~~~~~~~~~~~~~~---~~~  335 (571)
                      ..         |++++|+..|++..+.. +.+...+..+..++...        |++++|...|++..+.  .+   .+.
T Consensus       182 ~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~  258 (474)
T 4abn_A          182 QLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKV--DRKASSNP  258 (474)
T ss_dssp             TCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHH--CGGGGGCH
T ss_pred             HhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHh--CCCcccCH
Confidence            55         55555555555555432 22344555555555555        5566666666655542  11   245


Q ss_pred             HhHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHhHHHHHH
Q 008280          336 DHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAA  390 (571)
Q Consensus       336 ~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~  390 (571)
                      ..|..+..+|.+.|++++|++.|++. ...| +...|..+...+...|++++|...+
T Consensus       259 ~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~a~~~l~~~~~~lg~~~eAi~~~  315 (474)
T 4abn_A          259 DLHLNRATLHKYEESYGEALEGFSQAAALDPAWPEPQQREQQLLEFLSRLTSLLESK  315 (474)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            55556666666666666666666554 1122 2345555555555555555555443

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.23  E-value=1e-09  Score=109.06  Aligned_cols=227  Identities=8%  Similarity=0.035  Sum_probs=154.2

Q ss_pred             HHHHHHHcCChhHHHHHHHHHHHCCC-CCC----HhHHHHHHHHHhccCchHHHHHHHHHHHhCCC-----C-CCcchHH
Q 008280          169 MIAGYVENSWAEDGLKLLRMMIGLGI-RPN----ASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPL-----C-KDTTALT  237 (571)
Q Consensus       169 li~~~~~~g~~~~A~~~~~~m~~~g~-~pd----~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~-----~-~~~~~~~  237 (571)
                      ....+...|++++|+..|++....-. .+|    ..++..+...+...|+++.|...+..+++...     . ....+++
T Consensus       107 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  186 (378)
T 3q15_A          107 RGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLF  186 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHH
T ss_pred             HHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHH
Confidence            34445566666666666666654210 122    23445555556666666666666665544210     0 1134566


Q ss_pred             HHHHHHHhcCCHHHHHHHHHhhCC-----CC----hhhHHHHHHHHHHcCChHHHHHHHHHHHH-----cCCCCCHHHHH
Q 008280          238 PLISMYCKCGDLEDACKLFLEIQR-----KD----VVTWNAMISGYAQHGKGEKALRLFDKMKD-----EGMKPDSITFV  303 (571)
Q Consensus       238 ~li~~y~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~g~~p~~~t~~  303 (571)
                      .+...|...|++++|.+.|++..+     ++    ..+++.+...|...|++++|+..|++...     .. +....++.
T Consensus       187 ~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~-~~~~~~~~  265 (378)
T 3q15_A          187 VIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVP-DLLPKVLF  265 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCG-GGHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCC-hhHHHHHH
Confidence            778888888888888888876543     12    34677888889999999999999988765     32 22356778


Q ss_pred             HHHHHHHhcCcHHHHHHHHHHhHHhcCCCCC---hHhHHHHHHHHHHcCC---HHHHHHHHHhCCCCCCH-hHHHHHHHH
Q 008280          304 ALLLACNHAGLVDLGIQYFDSMVNDYGIAAK---PDHYTCMVDLLGRAGK---LVEAVDLIKKMPFKPQP-AIFGTLLSA  376 (571)
Q Consensus       304 ~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~---~~~~~~li~~~~~~g~---~~~A~~~~~~~~~~p~~-~~~~~l~~~  376 (571)
                      .+...+.+.|++++|..++++..+...-.++   ...+..+...|...|+   +.+|+..+++.+..|+. ..+..+...
T Consensus       266 ~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~~~~~~~~~~~~~la~~  345 (378)
T 3q15_A          266 GLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKKNLHAYIEACARSAAAV  345 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhCCChhHHHHHHHHHHHH
Confidence            8888999999999999999988764222112   3455666677777888   89999999987544443 466778888


Q ss_pred             HHhcCCHhHHHHHHHHHhcc
Q 008280          377 CRVHKRLDLAEFAAMNLFNL  396 (571)
Q Consensus       377 ~~~~g~~~~a~~~~~~~~~~  396 (571)
                      |...|++++|...++++++.
T Consensus       346 y~~~g~~~~A~~~~~~al~~  365 (378)
T 3q15_A          346 FESSCHFEQAAAFYRKVLKA  365 (378)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHH
Confidence            99999999999999988653

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.18  E-value=7.3e-10  Score=105.78  Aligned_cols=201  Identities=11%  Similarity=0.017  Sum_probs=137.3

Q ss_pred             chHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCC-----CC----hhhHHHHHHHHHHcCChHHH
Q 008280          213 SLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR-----KD----VVTWNAMISGYAQHGKGEKA  283 (571)
Q Consensus       213 ~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g~~~~A  283 (571)
                      ++++|...+..+               +..|...|++++|...|++..+     .+    ..+|+.+...|...|++++|
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            366666666554               3456667777777777765532     11    35777888888888888888


Q ss_pred             HHHHHHHHHcCC---CCC--HHHHHHHHHHHHhc-CcHHHHHHHHHHhHHhcCCCCC----hHhHHHHHHHHHHcCCHHH
Q 008280          284 LRLFDKMKDEGM---KPD--SITFVALLLACNHA-GLVDLGIQYFDSMVNDYGIAAK----PDHYTCMVDLLGRAGKLVE  353 (571)
Q Consensus       284 ~~~~~~m~~~g~---~p~--~~t~~~ll~a~~~~-g~~~~a~~~~~~~~~~~~~~~~----~~~~~~li~~~~~~g~~~~  353 (571)
                      +..|++......   .+.  ..++..+...+... |++++|...|++..+-+.-..+    ..++..+...|.+.|++++
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            888887654211   111  34677888889886 9999999999988763211111    3568888999999999999


Q ss_pred             HHHHHHhC----CCCCCH-----hHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchh-----HHHHHHHHh--hccC
Q 008280          354 AVDLIKKM----PFKPQP-----AIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGC-----YVQLANIYA--AMKK  417 (571)
Q Consensus       354 A~~~~~~~----~~~p~~-----~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~-----~~~l~~~~~--~~g~  417 (571)
                      |++.|++.    +..+..     ..|..+..++...|++++|+..+++.++++|+... .     +..++..|.  ..++
T Consensus       177 A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~-~~~~~~l~~l~~~~~~~~~~~  255 (292)
T 1qqe_A          177 ASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFAD-SRESNFLKSLIDAVNEGDSEQ  255 (292)
T ss_dssp             HHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC----------HHHHHHHHHHHHTTCTTT
T ss_pred             HHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCC-cHHHHHHHHHHHHHHcCCHHH
Confidence            99999887    211221     15677888899999999999999999999998654 3     345666664  4577


Q ss_pred             hhHHHHHHHHHH
Q 008280          418 WDDVARIRLSMK  429 (571)
Q Consensus       418 ~~~a~~~~~~m~  429 (571)
                      +++|.+.|+.+.
T Consensus       256 ~~~A~~~~~~~~  267 (292)
T 1qqe_A          256 LSEHCKEFDNFM  267 (292)
T ss_dssp             HHHHHHHHTTSS
T ss_pred             HHHHHHHhccCC
Confidence            888888876543

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.17  E-value=3.3e-09  Score=105.07  Aligned_cols=233  Identities=9%  Similarity=-0.047  Sum_probs=127.9

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHHHCCC-CCCH----hHHHHHHHHHhccCchHHHHHHHHHHHhC----CCC--C-Cc
Q 008280          166 WNAMIAGYVENSWAEDGLKLLRMMIGLGI-RPNA----SSLSSVLLGCSHLSSLQLGKQVHQLVFKS----PLC--K-DT  233 (571)
Q Consensus       166 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~pd~----~t~~~ll~~~~~~~~~~~a~~~~~~~~~~----g~~--~-~~  233 (571)
                      ++.+...+...|++++|...+++.....- .++.    .++..+...+...|++++|...++..++.    +..  | ..
T Consensus        56 ~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~  135 (373)
T 1hz4_A           56 TSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHE  135 (373)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHH
T ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHH
Confidence            33444445555555555555554433100 0111    11233334444555555555555544432    111  1 12


Q ss_pred             chHHHHHHHHHhcCCHHHHHHHHHhhCC--C------ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCC--HHHHH
Q 008280          234 TALTPLISMYCKCGDLEDACKLFLEIQR--K------DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPD--SITFV  303 (571)
Q Consensus       234 ~~~~~li~~y~~~g~~~~A~~~~~~~~~--~------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~--~~t~~  303 (571)
                      ..+..+...|...|++++|...+++...  +      ...+|..+...+...|++++|...+++.......++  .....
T Consensus       136 ~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~  215 (373)
T 1hz4_A          136 FLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWIS  215 (373)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHH
Confidence            3344566666677777777777665431  1      123566677777778888888888877654311111  11111


Q ss_pred             ----HHHHHHHhcCcHHHHHHHHHHhHHhcCCCC--ChHhHHHHHHHHHHcCCHHHHHHHHHhC-------CCCCCH-hH
Q 008280          304 ----ALLLACNHAGLVDLGIQYFDSMVNDYGIAA--KPDHYTCMVDLLGRAGKLVEAVDLIKKM-------PFKPQP-AI  369 (571)
Q Consensus       304 ----~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~--~~~~~~~li~~~~~~g~~~~A~~~~~~~-------~~~p~~-~~  369 (571)
                          ..+..+...|++++|...++.........+  ....+..+...+...|++++|.+.+++.       +..++. ..
T Consensus       216 ~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~  295 (373)
T 1hz4_A          216 NANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRN  295 (373)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHH
Confidence                222346678888888888877654211000  1224566777788888888888887765       111122 25


Q ss_pred             HHHHHHHHHhcCCHhHHHHHHHHHhccCC
Q 008280          370 FGTLLSACRVHKRLDLAEFAAMNLFNLNP  398 (571)
Q Consensus       370 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~p  398 (571)
                      +..+..++...|+.++|...+++++...+
T Consensus       296 ~~~la~~~~~~g~~~~A~~~l~~al~~~~  324 (373)
T 1hz4_A          296 LLLLNQLYWQAGRKSDAQRVLLDALKLAN  324 (373)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHhc
Confidence            55666778888888888888888876543

>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=99.16  E-value=2.2e-10  Score=108.27  Aligned_cols=196  Identities=15%  Similarity=0.144  Sum_probs=105.1

Q ss_pred             chHHHHHHHHHhcCCHHHHHHHHHhhCC-----------CChhhHHHHHHHHHHcCChHHHHHHHHHHHHc------CCC
Q 008280          234 TALTPLISMYCKCGDLEDACKLFLEIQR-----------KDVVTWNAMISGYAQHGKGEKALRLFDKMKDE------GMK  296 (571)
Q Consensus       234 ~~~~~li~~y~~~g~~~~A~~~~~~~~~-----------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------g~~  296 (571)
                      .++..+...|...|++++|...|++..+           ....+|..+...|...|++++|+..|++....      .-.
T Consensus        44 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  123 (283)
T 3edt_B           44 TMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKFH  123 (283)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCC
Confidence            3444455555555555555555544331           12335555666666666666666666665432      111


Q ss_pred             C-CHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhc-----C-CCCChHhHHHHHHHHHHcCCHHHHHHHHHhC--------
Q 008280          297 P-DSITFVALLLACNHAGLVDLGIQYFDSMVNDY-----G-IAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM--------  361 (571)
Q Consensus       297 p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~-----~-~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~--------  361 (571)
                      | ...++..+...+...|++++|..++++..+..     + .+.....+..+...|.+.|++++|.+.++++        
T Consensus       124 ~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~  203 (283)
T 3edt_B          124 PDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEILTRAHEKE  203 (283)
T ss_dssp             HHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhc
Confidence            2 23355666666777777777777776665420     0 1112445666777777777777777777655        


Q ss_pred             --CCCCC-HhHHHHHHHHHHhcCC------HhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHh
Q 008280          362 --PFKPQ-PAIFGTLLSACRVHKR------LDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  430 (571)
Q Consensus       362 --~~~p~-~~~~~~l~~~~~~~g~------~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  430 (571)
                        ...+. ...|..+.......+.      +..+...++......|.... ++..++.+|...|++++|.+++++..+
T Consensus       204 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          204 FGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTVNT-TLRSLGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             SSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHHHHH-HHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             CCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHHHH-HHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence              11122 2344444333333332      22333333333334455555 778888888888888888888887654

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.15  E-value=3.6e-09  Score=99.06  Aligned_cols=207  Identities=11%  Similarity=0.067  Sum_probs=138.7

Q ss_pred             CCcchHHHHHHHHHhcCCHHHHHHHHHhhCC--C-C---hhhHHHHHHHHHHcCChHHHHHHHHHHHHcCC-CCC-HHHH
Q 008280          231 KDTTALTPLISMYCKCGDLEDACKLFLEIQR--K-D---VVTWNAMISGYAQHGKGEKALRLFDKMKDEGM-KPD-SITF  302 (571)
Q Consensus       231 ~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~-~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~-~~t~  302 (571)
                      .+...+..+...+.+.|++++|...|+++.+  | +   ...+..+..+|.+.|++++|+..|++...... .|. ...+
T Consensus        13 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~   92 (261)
T 3qky_A           13 SSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAE   92 (261)
T ss_dssp             SSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHH
Confidence            3455666677777888888888888887764  2 2   45677777788888888888888888776532 122 3355


Q ss_pred             HHHHHHHHh--------cCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhCCCCCCHhHHHHHH
Q 008280          303 VALLLACNH--------AGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLL  374 (571)
Q Consensus       303 ~~ll~a~~~--------~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~  374 (571)
                      ..+..++..        .|++++|...|+++.+.+  +.+......+.......+.+               ...+..+.
T Consensus        93 ~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a~~~~~~~~~~~---------------~~~~~~la  155 (261)
T 3qky_A           93 YERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY--PNHELVDDATQKIRELRAKL---------------ARKQYEAA  155 (261)
T ss_dssp             HHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC--TTCTTHHHHHHHHHHHHHHH---------------HHHHHHHH
T ss_pred             HHHHHHHHHhcccccccchhHHHHHHHHHHHHHHC--cCchhHHHHHHHHHHHHHHH---------------HHHHHHHH
Confidence            566666766        788888888888777642  11222222221111111111               12256678


Q ss_pred             HHHHhcCCHhHHHHHHHHHhccCCCCCc--hhHHHHHHHHhhc----------cChhHHHHHHHHHHhCCCccCCceeEE
Q 008280          375 SACRVHKRLDLAEFAAMNLFNLNPANAA--GCYVQLANIYAAM----------KKWDDVARIRLSMKENNVVKMPGYSWI  442 (571)
Q Consensus       375 ~~~~~~g~~~~a~~~~~~~~~~~p~~~~--~~~~~l~~~~~~~----------g~~~~a~~~~~~m~~~~~~~~~~~s~~  442 (571)
                      ..|...|++++|+..++++++..|+++.  ..+..++.+|...          |++++|...++++.+....        
T Consensus       156 ~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p~--------  227 (261)
T 3qky_A          156 RLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFPD--------  227 (261)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCTT--------
T ss_pred             HHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCCC--------
Confidence            8899999999999999999999998532  2788999999877          8999999999998874432        


Q ss_pred             EECCEEEEEecCCCCCcccHHHHHHHHHHHHHHHH
Q 008280          443 EVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKL  477 (571)
Q Consensus       443 ~~~~~~~~f~~~~~~~~~~~~~~~~l~~~~~~m~~  477 (571)
                                     +|...+....+.++...+.+
T Consensus       228 ---------------~~~~~~a~~~l~~~~~~~~~  247 (261)
T 3qky_A          228 ---------------SPLLRTAEELYTRARQRLTE  247 (261)
T ss_dssp             ---------------CTHHHHHHHHHHHHHHHHHH
T ss_pred             ---------------ChHHHHHHHHHHHHHHHHHH
Confidence                           34455666666666666654

>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=4.3e-10  Score=120.13  Aligned_cols=164  Identities=15%  Similarity=0.176  Sum_probs=130.1

Q ss_pred             CcchHHHHHHHHHhcCCHHHHHHHHHhhCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 008280          232 DTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLA  308 (571)
Q Consensus       232 ~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a  308 (571)
                      +...++.|...|.+.|++++|++.|++..+   .+..+|+.+..+|.+.|++++|+..|++..+.. +-+...|..+..+
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~-P~~~~a~~nLg~~   86 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNMGNT   86 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            456778888888888888888888887653   456788888888888999999999888887753 2245678888888


Q ss_pred             HHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-HhHHHHHHHHHHhcCCHhHH
Q 008280          309 CNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQ-PAIFGTLLSACRVHKRLDLA  386 (571)
Q Consensus       309 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~g~~~~a  386 (571)
                      +...|++++|.+.|++..+.  -+-+...|..+..+|.+.|++++|++.|++. ...|+ ...|..+...+...|++++|
T Consensus        87 l~~~g~~~~A~~~~~kAl~l--~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~~L~~~l~~~g~~~~A  164 (723)
T 4gyw_A           87 LKEMQDVQGALQCYTRAIQI--NPAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHCLQIVCDWTDY  164 (723)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCCTTH
T ss_pred             HHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHhhhhhHHHhcccHHHH
Confidence            88999999999998888763  2334778888889999999999999988876 33444 67888888899999999999


Q ss_pred             HHHHHHHhccCC
Q 008280          387 EFAAMNLFNLNP  398 (571)
Q Consensus       387 ~~~~~~~~~~~p  398 (571)
                      .+.+++++++.|
T Consensus       165 ~~~~~kal~l~~  176 (723)
T 4gyw_A          165 DERMKKLVSIVA  176 (723)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCh
Confidence            998888876543

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.08  E-value=5.5e-08  Score=91.30  Aligned_cols=159  Identities=9%  Similarity=-0.015  Sum_probs=74.0

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCC-----ChHhHH
Q 008280          266 TWNAMISGYAQHGKGEKALRLFDKMKDEGMKP-DSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAA-----KPDHYT  339 (571)
Q Consensus       266 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~-----~~~~~~  339 (571)
                      ++..+..++...|++++|++++.+.+..+..+ +...+..++..+.+.|+.+.|.+.++.|.+.   .|     +..+..
T Consensus       102 ~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~~---~~d~~~~~d~~l~  178 (310)
T 3mv2_B          102 ELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTNA---IEDTVSGDNEMIL  178 (310)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---SCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc---CccccccchHHHH
Confidence            33444455555555555555555544333211 2233444445555555555555555555432   33     122333


Q ss_pred             HHHHH--HHHcC--CHHHHHHHHHhC-CCCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhcc----------CCCCCchh
Q 008280          340 CMVDL--LGRAG--KLVEAVDLIKKM-PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNL----------NPANAAGC  404 (571)
Q Consensus       340 ~li~~--~~~~g--~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----------~p~~~~~~  404 (571)
                      .|+.+  ....|  +..+|..+|+++ ...|+..+-..++.++...|++++|+..++.+.+.          +|+++. +
T Consensus       179 ~Laea~v~l~~g~~~~q~A~~~f~El~~~~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~~p~~~~k~~~~p~~~~-~  257 (310)
T 3mv2_B          179 NLAESYIKFATNKETATSNFYYYEELSQTFPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSDYYSVEQKENAVLYKPT-F  257 (310)
T ss_dssp             HHHHHHHHHHHTCSTTTHHHHHHHHHHTTSCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSHHHHTTTCHHHHSSHHH-H
T ss_pred             HHHHHHHHHHhCCccHHHHHHHHHHHHHhCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccccccCCCCCHH-H
Confidence            33333  22222  555555555555 11233222223333555556666666666555443          355555 5


Q ss_pred             HHHHHHHHhhccChhHHHHHHHHHHh
Q 008280          405 YVQLANIYAAMKKWDDVARIRLSMKE  430 (571)
Q Consensus       405 ~~~l~~~~~~~g~~~~a~~~~~~m~~  430 (571)
                      +..++.++...|+  +|.+++.++.+
T Consensus       258 LaN~i~l~~~lgk--~a~~l~~qL~~  281 (310)
T 3mv2_B          258 LANQITLALMQGL--DTEDLTNQLVK  281 (310)
T ss_dssp             HHHHHHHHHHTTC--TTHHHHHHHHH
T ss_pred             HHHHHHHHHHhCh--HHHHHHHHHHH
Confidence            5555555555554  55555555554

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.08  E-value=2.3e-09  Score=102.31  Aligned_cols=167  Identities=10%  Similarity=-0.022  Sum_probs=106.4

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHhhCC-----CC----hhhHHHHHHHHHHc-CChHHHHHHHHHHHHcCCC-CC----H
Q 008280          235 ALTPLISMYCKCGDLEDACKLFLEIQR-----KD----VVTWNAMISGYAQH-GKGEKALRLFDKMKDEGMK-PD----S  299 (571)
Q Consensus       235 ~~~~li~~y~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~-g~~~~A~~~~~~m~~~g~~-p~----~  299 (571)
                      +++.+..+|.+.|++++|...|++..+     .+    ..+|+.+...|... |++++|+..|++..+.... .+    .
T Consensus        79 ~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~  158 (292)
T 1qqe_A           79 TYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSN  158 (292)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHH
Confidence            344455555555555555555544331     11    24577778888885 8888888888887653111 01    2


Q ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCCh-----HhHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCH------
Q 008280          300 ITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKP-----DHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQP------  367 (571)
Q Consensus       300 ~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~-----~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~------  367 (571)
                      .++..+...+...|++++|...|++..+...-.+..     ..|..+..++...|++++|+..|++. .+.|+.      
T Consensus       159 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~  238 (292)
T 1qqe_A          159 KCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRES  238 (292)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------H
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHH
Confidence            457778888888999999999998887642111111     14667778888899999999999887 333432      


Q ss_pred             hHHHHHHHHHH--hcCCHhHHHHHHHHHhccCCCCC
Q 008280          368 AIFGTLLSACR--VHKRLDLAEFAAMNLFNLNPANA  401 (571)
Q Consensus       368 ~~~~~l~~~~~--~~g~~~~a~~~~~~~~~~~p~~~  401 (571)
                      ..+..++.++.  ..+++++|+..|+++..++|...
T Consensus       239 ~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~l~~~~~  274 (292)
T 1qqe_A          239 NFLKSLIDAVNEGDSEQLSEHCKEFDNFMRLDKWKI  274 (292)
T ss_dssp             HHHHHHHHHHHTTCTTTHHHHHHHHTTSSCCCHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHhccCCccHHHHH
Confidence            13444555654  45678888888888888887654

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.04  E-value=6e-09  Score=97.56  Aligned_cols=203  Identities=12%  Similarity=0.026  Sum_probs=144.4

Q ss_pred             CCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCC---cchHHHHHHHHHhcCCHHHHHHHHHhhCC--C-C---hhh
Q 008280          196 PNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKD---TTALTPLISMYCKCGDLEDACKLFLEIQR--K-D---VVT  266 (571)
Q Consensus       196 pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~---~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~-~---~~~  266 (571)
                      .+...+......+...|++++|...++.+++.. +.+   ...+..+..+|.+.|++++|...|++..+  | +   ..+
T Consensus        13 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a   91 (261)
T 3qky_A           13 SSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYG-RTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQA   91 (261)
T ss_dssp             SSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGC-SCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHH
Confidence            355677777888889999999999999999875 333   56788899999999999999999998864  2 1   346


Q ss_pred             HHHHHHHHHH--------cCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHh
Q 008280          267 WNAMISGYAQ--------HGKGEKALRLFDKMKDEGMKPDSI-TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDH  337 (571)
Q Consensus       267 ~~~li~~~~~--------~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  337 (571)
                      +..+..++..        .|++++|+..|++.....  |+.. ....+              ..+..+...     -...
T Consensus        92 ~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a~--------------~~~~~~~~~-----~~~~  150 (261)
T 3qky_A           92 EYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY--PNHELVDDAT--------------QKIRELRAK-----LARK  150 (261)
T ss_dssp             HHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC--TTCTTHHHHH--------------HHHHHHHHH-----HHHH
T ss_pred             HHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHC--cCchhHHHHH--------------HHHHHHHHH-----HHHH
Confidence            7788888888        999999999999998753  4321 21111              111111110     0123


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHhC-CCCCC----HhHHHHHHHHHHhc----------CCHhHHHHHHHHHhccCCCCCc
Q 008280          338 YTCMVDLLGRAGKLVEAVDLIKKM-PFKPQ----PAIFGTLLSACRVH----------KRLDLAEFAAMNLFNLNPANAA  402 (571)
Q Consensus       338 ~~~li~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~l~~~~~~~----------g~~~~a~~~~~~~~~~~p~~~~  402 (571)
                      +..+...|.+.|++++|+..|+++ ...|+    ...+..+..+|...          |++++|+..++++++..|+++.
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            556778888999999999998877 11232    35677777777765          8999999999999999999863


Q ss_pred             --hhHHHHHHHHhhccChhH
Q 008280          403 --GCYVQLANIYAAMKKWDD  420 (571)
Q Consensus       403 --~~~~~l~~~~~~~g~~~~  420 (571)
                        .+...+..++.+.|++++
T Consensus       231 ~~~a~~~l~~~~~~~~~~~~  250 (261)
T 3qky_A          231 LRTAEELYTRARQRLTELEG  250 (261)
T ss_dssp             HHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHhhh
Confidence              133344445544444433

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.03  E-value=2.1e-08  Score=91.46  Aligned_cols=184  Identities=10%  Similarity=0.018  Sum_probs=120.5

Q ss_pred             chHHHHHHHHHhcCCHHHHHHHHHhhCC--CC----hhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCH--HHHHHH
Q 008280          234 TALTPLISMYCKCGDLEDACKLFLEIQR--KD----VVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDS--ITFVAL  305 (571)
Q Consensus       234 ~~~~~li~~y~~~g~~~~A~~~~~~~~~--~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~t~~~l  305 (571)
                      ..+..+...+.+.|++++|...|+++.+  |+    ...+..+..+|.+.|++++|+..|++..+.......  ..+..+
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            4455667778888888888888888763  32    246777788888888888888888888765322111  134344


Q ss_pred             HHHHHh------------------cCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhCCCCCCH
Q 008280          306 LLACNH------------------AGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQP  367 (571)
Q Consensus       306 l~a~~~------------------~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~  367 (571)
                      ..++..                  .|+.++|...|+.+++.+  +-+...+.+...+    +......           .
T Consensus        85 g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--P~~~~a~~a~~~l----~~~~~~~-----------~  147 (225)
T 2yhc_A           85 GLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGY--PNSQYTTDATKRL----VFLKDRL-----------A  147 (225)
T ss_dssp             HHHHHHHHC--------------CCHHHHHHHHHHHHHHTTC--TTCTTHHHHHHHH----HHHHHHH-----------H
T ss_pred             HHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHC--cCChhHHHHHHHH----HHHHHHH-----------H
Confidence            444443                  456666666666666431  1122222211110    0000000           0


Q ss_pred             hHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCc--hhHHHHHHHHhhccChhHHHHHHHHHHhCCCc
Q 008280          368 AIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA--GCYVQLANIYAAMKKWDDVARIRLSMKENNVV  434 (571)
Q Consensus       368 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~--~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  434 (571)
                      .....+...+...|++++|+..++++++..|+++.  .++..++.+|.+.|++++|.+.++.+...+..
T Consensus       148 ~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~~  216 (225)
T 2yhc_A          148 KYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSSN  216 (225)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCSC
T ss_pred             HHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCC
Confidence            11234566788999999999999999999998752  16889999999999999999999998876654

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.03  E-value=4.4e-08  Score=91.99  Aligned_cols=237  Identities=10%  Similarity=0.031  Sum_probs=152.7

Q ss_pred             hcCCHHHHHHHHhhCCCCC-HHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHH
Q 008280          144 KFGKVDLAEKLFDEMPTKN-LVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQ  222 (571)
Q Consensus       144 ~~g~~~~A~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~  222 (571)
                      -.|++..++.-.+.+...+ ...-.-+.++|...|++....         .-.|....+..+. .|...+    +...++
T Consensus        25 y~G~yq~~i~e~~~~~~~~~~~~~~~~~Rs~iAlg~~~~~~---------~~~~~~~a~~~la-~~~~~~----a~~~l~   90 (310)
T 3mv2_B           25 YTGNFVQCLQEIEKFSKVTDNTLLFYKAKTLLALGQYQSQD---------PTSKLGKVLDLYV-QFLDTK----NIEELE   90 (310)
T ss_dssp             TTTCHHHHTHHHHTSSCCCCHHHHHHHHHHHHHTTCCCCCC---------SSSTTHHHHHHHH-HHHTTT----CCHHHH
T ss_pred             HhhHHHHHHHHHHhcCccchHHHHHHHHHHHHHcCCCccCC---------CCCHHHHHHHHHH-HHhccc----HHHHHH
Confidence            3566666666444443222 222233456666666665310         1123322222222 222222    556666


Q ss_pred             HHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCCC-----ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCC
Q 008280          223 LVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRK-----DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKP  297 (571)
Q Consensus       223 ~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~-----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  297 (571)
                      ..+..+ .++......+..+|...|++++|++++.+....     +...+..++..+.+.|+.+.|.+.+++|.+.  .|
T Consensus        91 ~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~~--~~  167 (310)
T 3mv2_B           91 NLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTNA--IE  167 (310)
T ss_dssp             HTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SC
T ss_pred             HHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--Cc
Confidence            666554 444555567888888889999999998887432     4567777888899999999999999999774  56


Q ss_pred             -----CHHHHHHHHHH--HHhcC--cHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CC----
Q 008280          298 -----DSITFVALLLA--CNHAG--LVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PF----  363 (571)
Q Consensus       298 -----~~~t~~~ll~a--~~~~g--~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~----  363 (571)
                           +..+...+..+  ....|  +..+|..+|+++..+   .|+......+..++.+.|++++|.+.++.+ ..    
T Consensus       168 d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~---~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~~p~~  244 (310)
T 3mv2_B          168 DTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT---FPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSDYYSV  244 (310)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT---SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSHHHHT
T ss_pred             cccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh---CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhcccc
Confidence                 35566666655  33334  889999999998754   354333334444888999999999998764 11    


Q ss_pred             ------CC-CHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCc
Q 008280          364 ------KP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA  402 (571)
Q Consensus       364 ------~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~  402 (571)
                            .| |+.+...++......|+  +|.++++++.+..|+++.
T Consensus       245 ~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~P~hp~  288 (310)
T 3mv2_B          245 EQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLDHEHAF  288 (310)
T ss_dssp             TTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTTCCCHH
T ss_pred             cccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhCCCChH
Confidence                  13 45666566666666776  889999999999999874

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=99.01  E-value=1.1e-08  Score=84.32  Aligned_cols=128  Identities=17%  Similarity=0.222  Sum_probs=64.4

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHH
Q 008280          266 TWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLL  345 (571)
Q Consensus       266 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~  345 (571)
                      .|..+...+...|++++|+.+|+++.... +.+...+..+...+...|++++|..+++++.+.  .+.+.          
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~----------   69 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL--DPRSA----------   69 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCH----------
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHH--CCCch----------
Confidence            34555555556666666666666555432 223444455555555555555555555555432  12223          


Q ss_pred             HHcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHH
Q 008280          346 GRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIR  425 (571)
Q Consensus       346 ~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~  425 (571)
                                            ..|..+...+...|++++|...++++++..|+++. .+..++.+|...|++++|.+.+
T Consensus        70 ----------------------~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~la~~~~~~~~~~~A~~~~  126 (136)
T 2fo7_A           70 ----------------------EAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAE-AWYNLGNAYYKQGDYDEAIEYY  126 (136)
T ss_dssp             ----------------------HHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHTTTCHHHHHHHH
T ss_pred             ----------------------HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChH-HHHHHHHHHHHHccHHHHHHHH
Confidence                                  34444444444455555555555555555554444 4555555555555555555555


Q ss_pred             HHHH
Q 008280          426 LSMK  429 (571)
Q Consensus       426 ~~m~  429 (571)
                      +++.
T Consensus       127 ~~~~  130 (136)
T 2fo7_A          127 QKAL  130 (136)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5444

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=99.01  E-value=2.4e-09  Score=114.76  Aligned_cols=169  Identities=10%  Similarity=-0.067  Sum_probs=136.9

Q ss_pred             HhcCCHHHHHHHHHhhC-----------CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Q 008280          244 CKCGDLEDACKLFLEIQ-----------RKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHA  312 (571)
Q Consensus       244 ~~~g~~~~A~~~~~~~~-----------~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~  312 (571)
                      ...|++++|.+.|++..           ..+...|..+...|.+.|++++|+..|++..+.. +-+...+..+..++...
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            67889999999998876           3456788888899999999999999999988753 23566788888889999


Q ss_pred             CcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHhHHHHHH
Q 008280          313 GLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAA  390 (571)
Q Consensus       313 g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~  390 (571)
                      |++++|...|++..+.  .+.+...+..+..+|.+.|++++ ++.|++. ...| +...|..+..++...|++++|+..+
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            9999999999988863  23357788889999999999999 8888876 2233 4678888999999999999999999


Q ss_pred             HHHhccCCCCCchhHHHHHHHHhhccC
Q 008280          391 MNLFNLNPANAAGCYVQLANIYAAMKK  417 (571)
Q Consensus       391 ~~~~~~~p~~~~~~~~~l~~~~~~~g~  417 (571)
                      +++++++|++.. ++..++.+|...|+
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            999999999887 88899999877665

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=99.01  E-value=7e-09  Score=85.40  Aligned_cols=95  Identities=17%  Similarity=0.155  Sum_probs=81.2

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHhC-C-CCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhh
Q 008280          337 HYTCMVDLLGRAGKLVEAVDLIKKM-P-FKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAA  414 (571)
Q Consensus       337 ~~~~li~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~  414 (571)
                      .+..++..+...|++++|.++++++ . .+.+...|..+...+...|++++|...++++++..|+++. .+..++.+|..
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~l~~~~~~   81 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAE-AWYNLGNAYYK   81 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcCCcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCCCchH-HHHHHHHHHHH
Confidence            4667778888888888888888776 1 1245678888889999999999999999999999999887 89999999999


Q ss_pred             ccChhHHHHHHHHHHhCC
Q 008280          415 MKKWDDVARIRLSMKENN  432 (571)
Q Consensus       415 ~g~~~~a~~~~~~m~~~~  432 (571)
                      .|++++|.+.++++.+..
T Consensus        82 ~~~~~~A~~~~~~~~~~~   99 (136)
T 2fo7_A           82 QGDYDEAIEYYQKALELD   99 (136)
T ss_dssp             TTCHHHHHHHHHHHHHHC
T ss_pred             hcCHHHHHHHHHHHHHhC
Confidence            999999999999987654

>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=99.01  E-value=5.6e-09  Score=98.41  Aligned_cols=162  Identities=14%  Similarity=0.092  Sum_probs=92.9

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHhhCC-------C----ChhhHHHHHHHHHHcCChHHHHHHHHHHHHc------CCCC
Q 008280          235 ALTPLISMYCKCGDLEDACKLFLEIQR-------K----DVVTWNAMISGYAQHGKGEKALRLFDKMKDE------GMKP  297 (571)
Q Consensus       235 ~~~~li~~y~~~g~~~~A~~~~~~~~~-------~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------g~~p  297 (571)
                      ++..+...|...|++++|...|++..+       +    ...+|..+...|...|++++|+..|++....      +-.|
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            445555555666666666555554431       1    2345666777777777777777777776553      1122


Q ss_pred             C-HHHHHHHHHHHHhcCcHHHHHHHHHHhHHhc------CCCCC-hHhHHHHHHHHHHc------CCHHHHHHHHHhCCC
Q 008280          298 D-SITFVALLLACNHAGLVDLGIQYFDSMVNDY------GIAAK-PDHYTCMVDLLGRA------GKLVEAVDLIKKMPF  363 (571)
Q Consensus       298 ~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~------~~~~~-~~~~~~li~~~~~~------g~~~~A~~~~~~~~~  363 (571)
                      + ..++..+...+...|++++|..++++..+..      ...+. ...+..+...+...      ..+.++...++....
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            2 3466677778888888888888887776531      11222 22333333333322      234455555555532


Q ss_pred             -CCC-HhHHHHHHHHHHhcCCHhHHHHHHHHHhcc
Q 008280          364 -KPQ-PAIFGTLLSACRVHKRLDLAEFAAMNLFNL  396 (571)
Q Consensus       364 -~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  396 (571)
                       .|+ ..++..+...|...|++++|...++++++.
T Consensus       247 ~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          247 DSPTVNTTLRSLGALYRRQGKLEAAHTLEDCASRN  281 (283)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             CCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence             222 357888889999999999999999998764

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.98  E-value=1.8e-08  Score=95.72  Aligned_cols=176  Identities=10%  Similarity=-0.049  Sum_probs=140.4

Q ss_pred             HHHHHHHHHhhCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHh
Q 008280          249 LEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVND  328 (571)
Q Consensus       249 ~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~  328 (571)
                      .+.....++.....+...+..+...+.+.|++++|+..|++..... +-+...+..+...+...|++++|...++.+...
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            4455566666665566778888888999999999999999998753 235667888889999999999999999988753


Q ss_pred             cCCCCChHhHHHH-HHHHHHcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCC--Cch
Q 008280          329 YGIAAKPDHYTCM-VDLLGRAGKLVEAVDLIKKM-PFK-PQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPAN--AAG  403 (571)
Q Consensus       329 ~~~~~~~~~~~~l-i~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~--~~~  403 (571)
                         .|+....... ...+.+.|+.++|++.+++. ... .+...+..+...+...|++++|+..++++++.+|++  .. 
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               4554433332 33466778888888888776 222 457889999999999999999999999999999987  66 


Q ss_pred             hHHHHHHHHhhccChhHHHHHHHHHH
Q 008280          404 CYVQLANIYAAMKKWDDVARIRLSMK  429 (571)
Q Consensus       404 ~~~~l~~~~~~~g~~~~a~~~~~~m~  429 (571)
                      .+..|+.+|...|+.++|...+++..
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            89999999999999999998887654

>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=98.92  E-value=1.3e-09  Score=92.53  Aligned_cols=137  Identities=14%  Similarity=0.068  Sum_probs=83.4

Q ss_pred             HcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHH
Q 008280          276 QHGKGEKALRLFDKMKDEGMKPD-SITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEA  354 (571)
Q Consensus       276 ~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  354 (571)
                      ..|++++|+..++.....  .|+ ...+..+...|...|++++|.+.|++.++.  -+.++..|..+..+|.+.|++++|
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            344555555555544321  122 123344555555666666666666655542  123355666666666666666666


Q ss_pred             HHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHhHHHH-HHHHHhccCCCCCchhHHHHHHHHhhccC
Q 008280          355 VDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEF-AAMNLFNLNPANAAGCYVQLANIYAAMKK  417 (571)
Q Consensus       355 ~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~-~~~~~~~~~p~~~~~~~~~l~~~~~~~g~  417 (571)
                      +..|++. ...| +..+|..+...|...|++++|.. .++++++++|+++. +|.....++...|+
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            6666655 2233 35677788888888888776554 45888888998887 88888888777764

>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=98.91  E-value=6.7e-08  Score=87.21  Aligned_cols=172  Identities=10%  Similarity=-0.051  Sum_probs=128.0

Q ss_pred             HHHHHHhhC-CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC----cHHHHHHHHHHhH
Q 008280          252 ACKLFLEIQ-RKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAG----LVDLGIQYFDSMV  326 (571)
Q Consensus       252 A~~~~~~~~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g----~~~~a~~~~~~~~  326 (571)
                      |.+.|++.. ..++.++..+...|...+++++|+..|++..+.|   +...+..+...|.. +    ++++|..+|++..
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            444454433 3466777777777777888888888888877754   45566666666666 5    7888888888876


Q ss_pred             HhcCCCCChHhHHHHHHHHHH----cCCHHHHHHHHHhCC-CCCC---HhHHHHHHHHHHh----cCCHhHHHHHHHHHh
Q 008280          327 NDYGIAAKPDHYTCMVDLLGR----AGKLVEAVDLIKKMP-FKPQ---PAIFGTLLSACRV----HKRLDLAEFAAMNLF  394 (571)
Q Consensus       327 ~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~-~~p~---~~~~~~l~~~~~~----~g~~~~a~~~~~~~~  394 (571)
                      +.    .++..+..|..+|..    .+++++|++.|++.- ..|+   +..+..|...|..    .+++++|+..|+++.
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 EA----GSKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSS  156 (212)
T ss_dssp             HT----TCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHH
T ss_pred             HC----CCHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHH
Confidence            52    356677777777776    788888888888873 2232   6788888888887    789999999999998


Q ss_pred             ccCCCCCchhHHHHHHHHhhc-c-----ChhHHHHHHHHHHhCCC
Q 008280          395 NLNPANAAGCYVQLANIYAAM-K-----KWDDVARIRLSMKENNV  433 (571)
Q Consensus       395 ~~~p~~~~~~~~~l~~~~~~~-g-----~~~~a~~~~~~m~~~~~  433 (571)
                      +. |.++. ++..|+.+|... |     ++++|.++++...+.|.
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 55566 888999999764 3     89999999998887664

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.90  E-value=3.3e-07  Score=93.74  Aligned_cols=46  Identities=4%  Similarity=-0.226  Sum_probs=29.1

Q ss_pred             HHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhC
Q 008280          181 DGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKS  227 (571)
Q Consensus       181 ~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~  227 (571)
                      .+..+|+++.... +.+...|...+.-+.+.|+.+.|+.+++.+++.
T Consensus       197 Rv~~~ye~al~~~-p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~  242 (493)
T 2uy1_A          197 RMHFIHNYILDSF-YYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM  242 (493)
T ss_dssp             HHHHHHHHHHHHT-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC
Confidence            4556677766532 334555555555566677777777777777766

>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=98.89  E-value=7.5e-08  Score=103.12  Aligned_cols=189  Identities=13%  Similarity=0.019  Sum_probs=148.6

Q ss_pred             hccCchHHHHHHHHHHH--------hCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCC---CChhhHHHHHHHHHHc
Q 008280          209 SHLSSLQLGKQVHQLVF--------KSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQH  277 (571)
Q Consensus       209 ~~~~~~~~a~~~~~~~~--------~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~  277 (571)
                      ...|++++|...++.++        +.. +.+...+..+...|.+.|++++|...|++..+   .+...|..+..+|...
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            67899999999999988        332 55677888999999999999999999998764   4778999999999999


Q ss_pred             CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHH
Q 008280          278 GKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDL  357 (571)
Q Consensus       278 g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  357 (571)
                      |++++|+..|++..+.. +-+...+..+..++...|++++ .+.|++..+.  .+.+...|..+..+|.+.|++++|++.
T Consensus       481 g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~--~P~~~~a~~~lg~~~~~~g~~~~A~~~  556 (681)
T 2pzi_A          481 GDYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQTVWST--NDGVISAAFGLARARSAEGDRVGAVRT  556 (681)
T ss_dssp             TCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHh--CCchHHHHHHHHHHHHHcCCHHHHHHH
Confidence            99999999999998864 2255678889999999999999 9999998863  244578899999999999999999999


Q ss_pred             HHhC-CCCCC-HhHHHHHHHHHHhcCC-----HhHHHHHHHHHhccCCCCCc
Q 008280          358 IKKM-PFKPQ-PAIFGTLLSACRVHKR-----LDLAEFAAMNLFNLNPANAA  402 (571)
Q Consensus       358 ~~~~-~~~p~-~~~~~~l~~~~~~~g~-----~~~a~~~~~~~~~~~p~~~~  402 (571)
                      |+++ ...|+ ...|..+..++...++     .+...+..+.+..+.++++.
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 45566 4677777777766555     23344444444455555554

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.88  E-value=3.7e-08  Score=88.62  Aligned_cols=128  Identities=9%  Similarity=0.014  Sum_probs=98.3

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcC
Q 008280          270 MISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAG  349 (571)
Q Consensus       270 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  349 (571)
                      +...|.+.|++++|+..|++..+.. +-+...+..+..++...|++++|...|++..+.  -+.+...+..+...|...|
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            8888999999999999999988764 235678888899999999999999999999863  2445778888888887665


Q ss_pred             C--HHHHHHHHHhCCCCCCH--hHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCC
Q 008280          350 K--LVEAVDLIKKMPFKPQP--AIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANA  401 (571)
Q Consensus       350 ~--~~~A~~~~~~~~~~p~~--~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~  401 (571)
                      .  .+.+...++... .|+.  ..+..+..++...|++++|+..|++++++.|+..
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  445666676663 3443  3445556667788999999999999999999753

>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=98.88  E-value=2.4e-08  Score=87.20  Aligned_cols=63  Identities=13%  Similarity=0.016  Sum_probs=52.6

Q ss_pred             CHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCC--CchhHHHHHHHHhhccChhHHHHHHHHHH
Q 008280          366 QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPAN--AAGCYVQLANIYAAMKKWDDVARIRLSMK  429 (571)
Q Consensus       366 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  429 (571)
                      +...+..+...+...|++++|+..++++++.+|+.  +. .+..++.+|...|+.++|...|++..
T Consensus       107 ~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~-a~~~l~~~~~~~g~~~~A~~~y~~al  171 (176)
T 2r5s_A          107 NFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGE-VKKTFMDILSALGQGNAIASKYRRQL  171 (176)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTH-HHHHHHHHHHHHCSSCHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHH-HHHHHHHHHHHhCCCCcHHHHHHHHH
Confidence            46788888888889999999999999999888864  44 78888999999999999988887654

>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=98.88  E-value=6.9e-09  Score=87.98  Aligned_cols=122  Identities=14%  Similarity=0.010  Sum_probs=101.1

Q ss_pred             HHHHHHhcCcHHHHHHHHHHhHHhcCCCCC-hHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcC
Q 008280          305 LLLACNHAGLVDLGIQYFDSMVNDYGIAAK-PDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHK  381 (571)
Q Consensus       305 ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g  381 (571)
                      |...+...|++++|...+.....   ..|+ ...+..+...|.+.|++++|++.|++. ...| +..+|..+...+...|
T Consensus         3 LG~~~~~~~~~e~ai~~~~~a~~---~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~   79 (150)
T 4ga2_A            3 LGSMRRSKADVERYIASVQGSTP---SPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQERDPKAHRFLGLLYELEE   79 (150)
T ss_dssp             ----CCCHHHHHHHHHHHHHHSC---SHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             hHHHHHHcChHHHHHHHHHHhcc---cCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcC
Confidence            34455677899999999988764   3443 556778999999999999999999987 3334 5789999999999999


Q ss_pred             CHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHH-HHHHh
Q 008280          382 RLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIR-LSMKE  430 (571)
Q Consensus       382 ~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~-~~m~~  430 (571)
                      ++++|+..|+++++++|+++. ++..++.+|.+.|++++|.+.+ ++..+
T Consensus        80 ~~~~A~~~~~~al~~~p~~~~-~~~~la~~~~~~~~~~~aa~~~~~~al~  128 (150)
T 4ga2_A           80 NTDKAVECYRRSVELNPTQKD-LVLKIAELLCKNDVTDGRAKYWVERAAK  128 (150)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHHHCSSSSHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence            999999999999999999998 9999999999999999887764 66655

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.85  E-value=8.7e-08  Score=92.00  Aligned_cols=219  Identities=9%  Similarity=0.009  Sum_probs=156.8

Q ss_pred             cCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHH
Q 008280          176 NSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKL  255 (571)
Q Consensus       176 ~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~  255 (571)
                      .|++++|.+++++..+.. +..   +      +...++++.|...|..+               ...|...|++++|...
T Consensus         4 ~~~~~eA~~~~~~a~k~~-~~~---~------~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~~   58 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYL-KTS---F------MKWKPDYDSAASEYAKA---------------AVAFKNAKQLEQAKDA   58 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHH-CCC---S------SSCSCCHHHHHHHHHHH---------------HHHHHHTTCHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHc-ccc---c------cCCCCCHHHHHHHHHHH---------------HHHHHHcCCHHHHHHH
Confidence            577889999998877531 111   0      11147788887777654               4578888999999998


Q ss_pred             HHhhCC-----CC----hhhHHHHHHHHHHcCChHHHHHHHHHHHHcC---CCCC--HHHHHHHHHHHHhcCcHHHHHHH
Q 008280          256 FLEIQR-----KD----VVTWNAMISGYAQHGKGEKALRLFDKMKDEG---MKPD--SITFVALLLACNHAGLVDLGIQY  321 (571)
Q Consensus       256 ~~~~~~-----~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g---~~p~--~~t~~~ll~a~~~~g~~~~a~~~  321 (571)
                      |.+..+     .+    ..+|+.+...|...|++++|+..|++....-   -.|.  ..++..+...|.. |++++|...
T Consensus        59 ~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~  137 (307)
T 2ifu_A           59 YLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHL  137 (307)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHH
Confidence            887653     12    3578889999999999999999999875421   1122  3467788888888 999999999


Q ss_pred             HHHhHHhcCCCC----ChHhHHHHHHHHHHcCCHHHHHHHHHhC----CCCCC----HhHHHHHHHHHHhcCCHhHHHHH
Q 008280          322 FDSMVNDYGIAA----KPDHYTCMVDLLGRAGKLVEAVDLIKKM----PFKPQ----PAIFGTLLSACRVHKRLDLAEFA  389 (571)
Q Consensus       322 ~~~~~~~~~~~~----~~~~~~~li~~~~~~g~~~~A~~~~~~~----~~~p~----~~~~~~l~~~~~~~g~~~~a~~~  389 (571)
                      |++..+-+.-..    ...++..+...|.+.|++++|++.|++.    +..++    ...+..++..+...|++++|...
T Consensus       138 ~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~  217 (307)
T 2ifu_A          138 YQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKC  217 (307)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            998875321111    1467888999999999999999999887    11122    23666777778888999999999


Q ss_pred             HHHHhccCCCCCchh-----HHHHHHHHhhccChhHHHH
Q 008280          390 AMNLFNLNPANAAGC-----YVQLANIYAAMKKWDDVAR  423 (571)
Q Consensus       390 ~~~~~~~~p~~~~~~-----~~~l~~~~~~~g~~~~a~~  423 (571)
                      +++.+ +.|+... +     ...++.+| ..|+.+.+.+
T Consensus       218 ~~~al-~~p~~~~-~~e~~~l~~l~~~~-~~~d~~~~~~  253 (307)
T 2ifu_A          218 VRESY-SIPGFSG-SEDCAALEDLLQAY-DEQDEEQLLR  253 (307)
T ss_dssp             HHHHT-TSTTSTT-SHHHHHHHHHHHHH-HTTCHHHHHH
T ss_pred             HHHHh-CCCCCCC-CHHHHHHHHHHHHH-HhcCHHHHHH
Confidence            99999 9997654 2     33455555 5666655554

>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=98.84  E-value=3.3e-08  Score=103.83  Aligned_cols=160  Identities=13%  Similarity=0.047  Sum_probs=124.9

Q ss_pred             cCCHHHHHHHHHhhCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHH
Q 008280          246 CGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYF  322 (571)
Q Consensus       246 ~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~  322 (571)
                      .|++++|.+.|++..+   .+...|..+...|...|++++|++.|++..+.. +.+...+..+..++...|++++|.+.+
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            4789999999998764   357789999999999999999999999998754 335678888999999999999999999


Q ss_pred             HHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHHHHhc---CCHhHHHHHHHHHhccC
Q 008280          323 DSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFK-PQPAIFGTLLSACRVH---KRLDLAEFAAMNLFNLN  397 (571)
Q Consensus       323 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~~~---g~~~~a~~~~~~~~~~~  397 (571)
                      ++..+.  .+.+...+..+..+|.+.|++++|.+.+++. ... .+...+..+...+...   |++++|...++++++.+
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            999874  3445788999999999999999999999887 222 3567889999999999   99999999999999999


Q ss_pred             CCCCchhHHHHH
Q 008280          398 PANAAGCYVQLA  409 (571)
Q Consensus       398 p~~~~~~~~~l~  409 (571)
                      |++.. .|..++
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            99987 777776

>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=98.83  E-value=1.4e-08  Score=85.86  Aligned_cols=97  Identities=9%  Similarity=-0.011  Sum_probs=84.9

Q ss_pred             ChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHH
Q 008280          334 KPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFK-PQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANI  411 (571)
Q Consensus       334 ~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~  411 (571)
                      +...+..+...+.+.|++++|+..|++. ... .+...|..+..+|...|++++|+..++++++++|+++. ++..++.+
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            4566777888899999999999999877 222 46788999999999999999999999999999999998 99999999


Q ss_pred             HhhccChhHHHHHHHHHHhC
Q 008280          412 YAAMKKWDDVARIRLSMKEN  431 (571)
Q Consensus       412 ~~~~g~~~~a~~~~~~m~~~  431 (571)
                      |...|++++|.+.|+...+.
T Consensus        99 ~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           99 LLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHH
Confidence            99999999999999988763

>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=98.82  E-value=6.9e-08  Score=101.41  Aligned_cols=147  Identities=10%  Similarity=-0.041  Sum_probs=108.0

Q ss_pred             cCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCC---CChhhHHHHHHHHHHcCChHHHHHHH
Q 008280          211 LSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLF  287 (571)
Q Consensus       211 ~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~  287 (571)
                      .|++++|...++++++.. +.+...+..+...|.+.|++++|.+.|++..+   .+...|..+...|...|++++|++.|
T Consensus         2 ~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~   80 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALHPGHPEAVARLGRVRWTQQRHAEAAVLL   80 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTSTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            467889999998888764 45677888899999999999999999998764   35678889999999999999999999


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHc---CCHHHHHHHHHhC
Q 008280          288 DKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRA---GKLVEAVDLIKKM  361 (571)
Q Consensus       288 ~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~---g~~~~A~~~~~~~  361 (571)
                      ++..+.. +.+...+..+..++...|++++|.+.+++..+.  .+.+...+..+...+...   |+.++|.+.+++.
T Consensus        81 ~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~a  154 (568)
T 2vsy_A           81 QQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQL--LPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAA  154 (568)
T ss_dssp             HHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHH
T ss_pred             HHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHH
Confidence            9988764 335678888889999999999999999998864  234577888899999999   9999999998877

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.80  E-value=1.3e-07  Score=85.00  Aligned_cols=186  Identities=12%  Similarity=0.012  Sum_probs=106.1

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHh-HHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHH
Q 008280          165 TWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNAS-SLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMY  243 (571)
Q Consensus       165 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~-t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y  243 (571)
                      .+-.....+...|++++|+..|++....  .|+.. .+.. . ..  ...               ..........+...|
T Consensus         6 ~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~-~-~~--~~~---------------~~~~~~~~~~lg~~~   64 (208)
T 3urz_A            6 EMLQKVSAAIEAGQNGQAVSYFRQTIAL--NIDRTEMYYW-T-NV--DKN---------------SEISSKLATELALAY   64 (208)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CHHHHHHHHH-H-HS--CTT---------------SHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCChHHHHH-h-hh--cch---------------hhhhHHHHHHHHHHH
Confidence            3444555667778888888888777664  34322 1111 0 00  000               001112234467777


Q ss_pred             HhcCCHHHHHHHHHhhCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCc--HHHH
Q 008280          244 CKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGL--VDLG  318 (571)
Q Consensus       244 ~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~--~~~a  318 (571)
                      .+.|++++|...|++..+   .+...|..+...|...|++++|+..|++..+.. +-+..++..+..++...|.  .+.+
T Consensus        65 ~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~~~~  143 (208)
T 3urz_A           65 KKNRNYDKAYLFYKELLQKAPNNVDCLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYLTAEQEKKKL  143 (208)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHhHHHHHHH
Confidence            778888888877776652   356677777788888888888888888877653 2245566666666655443  2334


Q ss_pred             HHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCHhHHHHHHH
Q 008280          319 IQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQPAIFGTLLS  375 (571)
Q Consensus       319 ~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~  375 (571)
                      ...+....   ...|....+..+..++...|++++|+..|++. ...|+......+..
T Consensus       144 ~~~~~~~~---~~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~P~~~~~~~l~~  198 (208)
T 3urz_A          144 ETDYKKLS---SPTKMQYARYRDGLSKLFTTRYEKARNSLQKVILRFPSTEAQKTLDK  198 (208)
T ss_dssp             HHHHC------CCCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTTSCCHHHHHHHHH
T ss_pred             HHHHHHHh---CCCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCHHHHHHHHH
Confidence            44444432   12222223344555666678888888888776 55677655554443

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.80  E-value=1.6e-07  Score=85.52  Aligned_cols=184  Identities=14%  Similarity=0.005  Sum_probs=131.2

Q ss_pred             HhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCC--CcchHHHHHHHHHhcCCHHHHHHHHHhhCC--CC-h---hhHHH
Q 008280          198 ASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCK--DTTALTPLISMYCKCGDLEDACKLFLEIQR--KD-V---VTWNA  269 (571)
Q Consensus       198 ~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~--~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~~-~---~~~~~  269 (571)
                      ...+..+...+...|++++|...++.+++.....  ....+..+..+|.+.|++++|...|+++.+  |+ .   .++..
T Consensus         4 ~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~   83 (225)
T 2yhc_A            4 PNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYM   83 (225)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHH
Confidence            4455666777889999999999999999864211  134678889999999999999999999763  32 2   24555


Q ss_pred             HHHHHHH------------------cCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHHhcCcHHHHHHHHHHhHHhcC
Q 008280          270 MISGYAQ------------------HGKGEKALRLFDKMKDEGMKPDSI-TFVALLLACNHAGLVDLGIQYFDSMVNDYG  330 (571)
Q Consensus       270 li~~~~~------------------~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~  330 (571)
                      +..++..                  .|++++|+..|+++.+.  .|+.. ......    ..+      .+...+     
T Consensus        84 ~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~P~~~~a~~a~~----~l~------~~~~~~-----  146 (225)
T 2yhc_A           84 RGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG--YPNSQYTTDATK----RLV------FLKDRL-----  146 (225)
T ss_dssp             HHHHHHHHHC--------------CCHHHHHHHHHHHHHHTT--CTTCTTHHHHHH----HHH------HHHHHH-----
T ss_pred             HHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH--CcCChhHHHHHH----HHH------HHHHHH-----
Confidence            6666654                  57899999999999875  35433 221111    100      011111     


Q ss_pred             CCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC----HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCc
Q 008280          331 IAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQ----PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA  402 (571)
Q Consensus       331 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~  402 (571)
                          ......+...|.+.|++++|+..|+++ ...|+    ...+..+..++...|+.++|+..++++....|++..
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                112235678889999999999999887 22233    256888899999999999999999999999998764

>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=98.79  E-value=8.5e-08  Score=83.65  Aligned_cols=158  Identities=9%  Similarity=-0.008  Sum_probs=115.2

Q ss_pred             chHHHHHHHHHhcCCHHHHHHHHHhhCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH-H
Q 008280          234 TALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLA-C  309 (571)
Q Consensus       234 ~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a-~  309 (571)
                      .....+...+.+.|++++|...|++..+   .+...|..+...+...|++++|+..|++.....  |+.......... +
T Consensus         7 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~   84 (176)
T 2r5s_A            7 EQLLKQVSELLQQGEHAQALNVIQTLSDELQSRGDVKLAKADCLLETKQFELAQELLATIPLEY--QDNSYKSLIAKLEL   84 (176)
T ss_dssp             TTHHHHHHHHHHTTCHHHHHHHHHTSCHHHHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChHHHHHHHHHHH
Confidence            3455677788889999999999988764   466788888889999999999999998876543  344332222111 1


Q ss_pred             HhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC---HhHHHHHHHHHHhcCCHhH
Q 008280          310 NHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQ---PAIFGTLLSACRVHKRLDL  385 (571)
Q Consensus       310 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~---~~~~~~l~~~~~~~g~~~~  385 (571)
                      ...+...++...+++..+.  .+.+...+..+...|...|++++|...|+++ ...|+   ...+..+...+...|+.++
T Consensus        85 ~~~~~~~~a~~~~~~al~~--~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~  162 (176)
T 2r5s_A           85 HQQAAESPELKRLEQELAA--NPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNA  162 (176)
T ss_dssp             HHHHTSCHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCH
T ss_pred             HhhcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCc
Confidence            1222223467778877753  2335788888999999999999999999877 33443   5588889999999999999


Q ss_pred             HHHHHHHHhc
Q 008280          386 AEFAAMNLFN  395 (571)
Q Consensus       386 a~~~~~~~~~  395 (571)
                      |...|++.+.
T Consensus       163 A~~~y~~al~  172 (176)
T 2r5s_A          163 IASKYRRQLY  172 (176)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999987754

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.77  E-value=4.7e-06  Score=78.94  Aligned_cols=219  Identities=11%  Similarity=0.082  Sum_probs=138.8

Q ss_pred             ChhHHHHHHHHHHHCCCCCCH-hHHHHHHHHHhccC--chHHHHHHHHHHHhCCCCCCcchHHHHHHHH----Hhc---C
Q 008280          178 WAEDGLKLLRMMIGLGIRPNA-SSLSSVLLGCSHLS--SLQLGKQVHQLVFKSPLCKDTTALTPLISMY----CKC---G  247 (571)
Q Consensus       178 ~~~~A~~~~~~m~~~g~~pd~-~t~~~ll~~~~~~~--~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y----~~~---g  247 (571)
                      ..++|++++.+++..  .|+. ..|+.--..+...+  +++++...++.++... +.+..+|+.-...+    .+.   +
T Consensus        48 ~s~~aL~~t~~~L~~--nP~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~n-Pk~y~aW~~R~~iL~~~~~~l~~~~  124 (306)
T 3dra_A           48 YSERALHITELGINE--LASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDN-EKNYQIWNYRQLIIGQIMELNNNDF  124 (306)
T ss_dssp             CSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHC-TTCCHHHHHHHHHHHHHHHHTTTCC
T ss_pred             CCHHHHHHHHHHHHH--CcHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHC-cccHHHHHHHHHHHHHHHHhccccC
Confidence            345677777777664  3433 34455445555555  6777777777766654 44555555544444    444   6


Q ss_pred             CHHHHHHHHHhhCC---CChhhHHHHHHHHHHcCChH--HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCc------HH
Q 008280          248 DLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGE--KALRLFDKMKDEGMKPDSITFVALLLACNHAGL------VD  316 (571)
Q Consensus       248 ~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~--~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~------~~  316 (571)
                      ++++++.+++.+.+   ++..+|+.-...+.+.|.++  ++++.++++.+..+. |...|..-.....+.+.      ++
T Consensus       125 ~~~~EL~~~~~~l~~~pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~-N~sAW~~R~~ll~~l~~~~~~~~~~  203 (306)
T 3dra_A          125 DPYREFDILEAMLSSDPKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLK-NNSAWSHRFFLLFSKKHLATDNTID  203 (306)
T ss_dssp             CTHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHSSGGGCCHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccccchhhhHH
Confidence            77888888887763   56677877777777778777  888888888876533 66666665555555555      67


Q ss_pred             HHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHH-HHHHHHhC-CC----CCCHhHHHHHHHHHHhcCCHhHHHHHH
Q 008280          317 LGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVE-AVDLIKKM-PF----KPQPAIFGTLLSACRVHKRLDLAEFAA  390 (571)
Q Consensus       317 ~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~-A~~~~~~~-~~----~p~~~~~~~l~~~~~~~g~~~~a~~~~  390 (571)
                      ++.+.+..++..  .+-+...|+.+...+.+.|+..+ +.++.++. ..    ..++..+..++..+.+.|+.++|.+++
T Consensus       204 eEl~~~~~aI~~--~p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~  281 (306)
T 3dra_A          204 EELNYVKDKIVK--CPQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVY  281 (306)
T ss_dssp             HHHHHHHHHHHH--CSSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHh--CCCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHH
Confidence            777777777653  34456677777777777776433 33455544 11    234566667777777777777777777


Q ss_pred             HHHhc-cCCCCCc
Q 008280          391 MNLFN-LNPANAA  402 (571)
Q Consensus       391 ~~~~~-~~p~~~~  402 (571)
                      +.+.+ .+|....
T Consensus       282 ~~l~~~~Dpir~~  294 (306)
T 3dra_A          282 DLLKSKYNPIRSN  294 (306)
T ss_dssp             HHHHHTTCGGGHH
T ss_pred             HHHHhccChHHHH
Confidence            77764 6776544

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.77  E-value=3.4e-08  Score=83.46  Aligned_cols=101  Identities=10%  Similarity=0.013  Sum_probs=88.5

Q ss_pred             CCCC-hHhHHHHHHHHHHcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHH
Q 008280          331 IAAK-PDHYTCMVDLLGRAGKLVEAVDLIKKM-PFK-PQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQ  407 (571)
Q Consensus       331 ~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~  407 (571)
                      +.|+ ...+..+...+.+.|++++|++.|++. ... .+...|..+..+|...|++++|+..|+++++++|+++. +|..
T Consensus        31 l~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~-~~~~  109 (151)
T 3gyz_A           31 IPDDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYDFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYT-PVFH  109 (151)
T ss_dssp             SCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCH-HHHH
T ss_pred             CCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcH-HHHH
Confidence            4444 567778888899999999999999887 223 45789999999999999999999999999999999999 9999


Q ss_pred             HHHHHhhccChhHHHHHHHHHHhCC
Q 008280          408 LANIYAAMKKWDDVARIRLSMKENN  432 (571)
Q Consensus       408 l~~~~~~~g~~~~a~~~~~~m~~~~  432 (571)
                      ++.+|...|++++|.+.|++..+..
T Consensus       110 lg~~~~~lg~~~eA~~~~~~al~l~  134 (151)
T 3gyz_A          110 TGQCQLRLKAPLKAKECFELVIQHS  134 (151)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            9999999999999999999988744

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.75  E-value=1.6e-06  Score=82.18  Aligned_cols=213  Identities=14%  Similarity=0.135  Sum_probs=170.9

Q ss_pred             chHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcC--CHHHHHHHHHhhCC---CChhhHHHHHHHH----HHc---CCh
Q 008280          213 SLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCG--DLEDACKLFLEIQR---KDVVTWNAMISGY----AQH---GKG  280 (571)
Q Consensus       213 ~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g--~~~~A~~~~~~~~~---~~~~~~~~li~~~----~~~---g~~  280 (571)
                      ..++|......++..+ +.+..+|+.-...+...|  +++++++.++.+..   ++..+|+.-...+    ...   +++
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            3467888888888876 556777888888888888  99999999998764   4677888776666    555   789


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHH--HHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCC------HH
Q 008280          281 EKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVD--LGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGK------LV  352 (571)
Q Consensus       281 ~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~--~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~------~~  352 (571)
                      ++++.+++++.+.. +-|..+|..-.....+.|.++  ++.+++..+.+.  -+-+...|+.-..++.+.|+      ++
T Consensus       127 ~~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~--d~~N~sAW~~R~~ll~~l~~~~~~~~~~  203 (306)
T 3dra_A          127 YREFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDT--DLKNNSAWSHRFFLLFSKKHLATDNTID  203 (306)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHSSGGGCCHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhccccchhhhHH
Confidence            99999999999865 337778887777788888888  999999999874  34567777777777777776      88


Q ss_pred             HHHHHHHhC-C-CCCCHhHHHHHHHHHHhcCCHhH-HHHHHHHHhccC---CCCCchhHHHHHHHHhhccChhHHHHHHH
Q 008280          353 EAVDLIKKM-P-FKPQPAIFGTLLSACRVHKRLDL-AEFAAMNLFNLN---PANAAGCYVQLANIYAAMKKWDDVARIRL  426 (571)
Q Consensus       353 ~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~g~~~~-a~~~~~~~~~~~---p~~~~~~~~~l~~~~~~~g~~~~a~~~~~  426 (571)
                      ++++.++++ . ..-|...|+.+...+...|+... ...+.+++.+++   |.++. ++..++.+|.+.|+.++|.++++
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            999988776 2 23568899999999988888544 566888887776   77777 89999999999999999999999


Q ss_pred             HHHh
Q 008280          427 SMKE  430 (571)
Q Consensus       427 ~m~~  430 (571)
                      .+.+
T Consensus       283 ~l~~  286 (306)
T 3dra_A          283 LLKS  286 (306)
T ss_dssp             HHHH
T ss_pred             HHHh
Confidence            9875

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.75  E-value=3.2e-07  Score=87.03  Aligned_cols=157  Identities=10%  Similarity=0.016  Sum_probs=73.0

Q ss_pred             HHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCC--CChhhH-HHHHHHHHHc
Q 008280          201 LSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR--KDVVTW-NAMISGYAQH  277 (571)
Q Consensus       201 ~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~~~~~~-~~li~~~~~~  277 (571)
                      +..+...+...|++++|...++.+++.. +.+...+..+...|.+.|++++|...|+++..  |+.... ......+...
T Consensus       120 ~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~~~~~~~l~~~  198 (287)
T 3qou_A          120 XAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQDQDTRYQGLVAQIELLXQ  198 (287)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGGCSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhhcchHHHHHHHHHHHHhh
Confidence            3334444444455555555555544443 33344555555556666666666666655543  222211 1112223444


Q ss_pred             CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHH
Q 008280          278 GKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDL  357 (571)
Q Consensus       278 g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  357 (571)
                      ++.++|+..|++..... +.+...+..+..++...|++++|...|..+.+...-..+...+..++.+|...|+.++|...
T Consensus       199 ~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~a~~~  277 (287)
T 3qou_A          199 AADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGTGDALASX  277 (287)
T ss_dssp             HTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             cccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCCCCcHHHH
Confidence            55555555555554432 22334455555555555555555555555554311111133444455555555555444444


Q ss_pred             HH
Q 008280          358 IK  359 (571)
Q Consensus       358 ~~  359 (571)
                      |+
T Consensus       278 ~r  279 (287)
T 3qou_A          278 YR  279 (287)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>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=98.74  E-value=6.9e-07  Score=80.29  Aligned_cols=145  Identities=11%  Similarity=0.011  Sum_probs=93.1

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhhCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHH
Q 008280          237 TPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVD  316 (571)
Q Consensus       237 ~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~  316 (571)
                      ..+...|.+.|++++|...|++...++...|..+...|...|++++|+..|++..... +.+...+..+..++...|+++
T Consensus        10 ~~~g~~~~~~~~~~~A~~~~~~a~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~   88 (213)
T 1hh8_A           10 WNEGVLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKYD   88 (213)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHcCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcccHH
Confidence            3456666777777777777777776677777777777777777777777777766543 234556666666777777777


Q ss_pred             HHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhCCCCCC-HhHHHHHHHHHHhcCCHhHHHHHHHHHhc
Q 008280          317 LGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQ-PAIFGTLLSACRVHKRLDLAEFAAMNLFN  395 (571)
Q Consensus       317 ~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  395 (571)
                      +|...|+...+..  +.+....      +...|           +...|+ ...|..+..++...|++++|...++++++
T Consensus        89 ~A~~~~~~al~~~--~~~~~~~------~~~~~-----------~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  149 (213)
T 1hh8_A           89 LAIKDLKEALIQL--RGNQLID------YKILG-----------LQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATS  149 (213)
T ss_dssp             HHHHHHHHHHHTT--TTCSEEE------CGGGT-----------BCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhC--CCccHHH------HHHhc-----------cccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            7777777666521  1111000      00000           012222 35777788888888888888888888888


Q ss_pred             cCCCCC
Q 008280          396 LNPANA  401 (571)
Q Consensus       396 ~~p~~~  401 (571)
                      ..|++.
T Consensus       150 ~~p~~~  155 (213)
T 1hh8_A          150 MKSEPR  155 (213)
T ss_dssp             TCCSGG
T ss_pred             cCcccc
Confidence            888753

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.72  E-value=1.2e-07  Score=79.43  Aligned_cols=97  Identities=10%  Similarity=-0.057  Sum_probs=83.7

Q ss_pred             hHhHHHHHHHHHHcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHH
Q 008280          335 PDHYTCMVDLLGRAGKLVEAVDLIKKM-PFK-PQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIY  412 (571)
Q Consensus       335 ~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~  412 (571)
                      ...+..+...+.+.|++++|++.|++. ... .+...|..+..++...|++++|+..++++++++|+++. .+..++.+|
T Consensus        18 ~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~-~~~~lg~~~   96 (142)
T 2xcb_A           18 LEQLYALGFNQYQAGKWDDAQKIFQALCMLDHYDARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPR-FPFHAAECH   96 (142)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTH-HHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcH-HHHHHHHHH
Confidence            456667778888999999999999877 222 46788899999999999999999999999999999998 999999999


Q ss_pred             hhccChhHHHHHHHHHHhCC
Q 008280          413 AAMKKWDDVARIRLSMKENN  432 (571)
Q Consensus       413 ~~~g~~~~a~~~~~~m~~~~  432 (571)
                      ...|++++|.+.++...+..
T Consensus        97 ~~~g~~~~A~~~~~~al~~~  116 (142)
T 2xcb_A           97 LQLGDLDGAESGFYSARALA  116 (142)
T ss_dssp             HHTTCHHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhC
Confidence            99999999999999887643

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=98.72  E-value=3.5e-07  Score=82.27  Aligned_cols=126  Identities=10%  Similarity=-0.012  Sum_probs=100.5

Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CC-CCCHhHHHHHHHHHHh
Q 008280          302 FVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PF-KPQPAIFGTLLSACRV  379 (571)
Q Consensus       302 ~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~~~  379 (571)
                      +..+...+...|++++|...|++.     ++|+...+..+...|.+.|++++|++.|++. .. +.+...|..+...+..
T Consensus         9 ~~~~g~~~~~~~~~~~A~~~~~~a-----~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~lg~~~~~   83 (213)
T 1hh8_A            9 LWNEGVLAADKKDWKGALDAFSAV-----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQ   83 (213)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTS-----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHH-----cCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHH
Confidence            444556667778888888777755     2456777778888888888888888887766 11 2356788888889999


Q ss_pred             cCCHhHHHHHHHHHhccCCCCC----------------chhHHHHHHHHhhccChhHHHHHHHHHHhCCC
Q 008280          380 HKRLDLAEFAAMNLFNLNPANA----------------AGCYVQLANIYAAMKKWDDVARIRLSMKENNV  433 (571)
Q Consensus       380 ~g~~~~a~~~~~~~~~~~p~~~----------------~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  433 (571)
                      .|++++|+..++++++..|++.                . ++..++.+|.+.|++++|.+.++...+...
T Consensus        84 ~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~al~~~p  152 (213)
T 1hh8_A           84 TEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACE-VLYNIAFMYAKKEEWKKAEEQLALATSMKS  152 (213)
T ss_dssp             TTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHH-HHHHHHHHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             cccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchH-HHHHHHHHHHHccCHHHHHHHHHHHHHcCc
Confidence            9999999999999999888776                6 899999999999999999999999887543

>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=98.71  E-value=9.5e-07  Score=79.55  Aligned_cols=169  Identities=9%  Similarity=0.038  Sum_probs=105.8

Q ss_pred             HHHHHhhCCC-CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccC----chHHHHHHHHHHH
Q 008280          151 AEKLFDEMPT-KNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLS----SLQLGKQVHQLVF  225 (571)
Q Consensus       151 A~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~----~~~~a~~~~~~~~  225 (571)
                      |.+.|++..+ .++.++..|...|...+++++|+..|++..+.|   +...+..+...+.. +    +.++|...++...
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            3344443332 456666777777777777777777777776654   34455555555555 5    6777777777776


Q ss_pred             hCCCCCCcchHHHHHHHHHh----cCCHHHHHHHHHhhCCCC-----hhhHHHHHHHHHH----cCChHHHHHHHHHHHH
Q 008280          226 KSPLCKDTTALTPLISMYCK----CGDLEDACKLFLEIQRKD-----VVTWNAMISGYAQ----HGKGEKALRLFDKMKD  292 (571)
Q Consensus       226 ~~g~~~~~~~~~~li~~y~~----~g~~~~A~~~~~~~~~~~-----~~~~~~li~~~~~----~g~~~~A~~~~~~m~~  292 (571)
                      +.|   +...+..|..+|..    .+++++|...|++..+.+     +.++..|...|..    .++.++|+..|++..+
T Consensus        81 ~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~  157 (212)
T 3rjv_A           81 EAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSS  157 (212)
T ss_dssp             HTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHH
T ss_pred             HCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHH
Confidence            654   44566666777766    667777777777766533     4667777777776    6677777777777766


Q ss_pred             cCCCCCHHHHHHHHHHHHhc-C-----cHHHHHHHHHHhHHh
Q 008280          293 EGMKPDSITFVALLLACNHA-G-----LVDLGIQYFDSMVND  328 (571)
Q Consensus       293 ~g~~p~~~t~~~ll~a~~~~-g-----~~~~a~~~~~~~~~~  328 (571)
                      .  .++...+..|...|... |     +.++|..+|+...+.
T Consensus       158 ~--~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~  197 (212)
T 3rjv_A          158 L--SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLE  197 (212)
T ss_dssp             T--SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHH
T ss_pred             c--CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHc
Confidence            4  12333455555555432 2     677777777776653

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.69  E-value=3.8e-07  Score=86.78  Aligned_cols=164  Identities=6%  Similarity=-0.038  Sum_probs=120.4

Q ss_pred             hhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCH-----HHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCC--CCC--h
Q 008280          265 VTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDS-----ITFVALLLACNHAGLVDLGIQYFDSMVNDYGI--AAK--P  335 (571)
Q Consensus       265 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-----~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~--~~~--~  335 (571)
                      ..+...+..+...|++++|++.+.+..+.....+.     ..+..+...+...|++++|...+++..+...-  .+.  .
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            34555677788899999999999887765322111     12334556677888999999999887643111  111  4


Q ss_pred             HhHHHHHHHHHHcCCHHHHHHHHHhC----CCCCC-----HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCC------C
Q 008280          336 DHYTCMVDLLGRAGKLVEAVDLIKKM----PFKPQ-----PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPA------N  400 (571)
Q Consensus       336 ~~~~~li~~~~~~g~~~~A~~~~~~~----~~~p~-----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~------~  400 (571)
                      .+++.+...|...|++++|++.|++.    ...|+     ..++..+...|...|++++|+..++++++..++      .
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            57888999999999999999998776    11122     258888999999999999999999999875432      1


Q ss_pred             CchhHHHHHHHHhhccChhHH-HHHHHHHH
Q 008280          401 AAGCYVQLANIYAAMKKWDDV-ARIRLSMK  429 (571)
Q Consensus       401 ~~~~~~~l~~~~~~~g~~~~a-~~~~~~m~  429 (571)
                      .. +|..++.+|.+.|++++| ...+++..
T Consensus       236 ~~-~~~~lg~~y~~~g~~~~Ai~~~~~~Al  264 (293)
T 2qfc_A          236 GQ-LYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HH-HHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HH-HHHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence            33 788999999999999999 77677654

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.69  E-value=9.9e-08  Score=78.01  Aligned_cols=94  Identities=11%  Similarity=0.082  Sum_probs=56.2

Q ss_pred             HhHHHHHHHHHHcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHh
Q 008280          336 DHYTCMVDLLGRAGKLVEAVDLIKKM-PFK-PQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYA  413 (571)
Q Consensus       336 ~~~~~li~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~  413 (571)
                      ..+......|.+.|++++|++.|++. ... .+...|..+..++...|++++|+..++++++++|+++. +|..++.+|.
T Consensus        14 ~~~~~~G~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~-a~~~lg~~~~   92 (126)
T 4gco_A           14 QEEKNKGNEYFKKGDYPTAMRHYNEAVKRDPENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIK-GYIRKAACLV   92 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhH-HHHHHHHHHH
Confidence            34445555566666666666666554 112 23456666666666666666666666666666666655 6666666666


Q ss_pred             hccChhHHHHHHHHHHh
Q 008280          414 AMKKWDDVARIRLSMKE  430 (571)
Q Consensus       414 ~~g~~~~a~~~~~~m~~  430 (571)
                      ..|++++|.+.|++..+
T Consensus        93 ~~~~~~~A~~~~~~al~  109 (126)
T 4gco_A           93 AMREWSKAQRAYEDALQ  109 (126)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHH
Confidence            66666666666665554

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.69  E-value=2e-07  Score=76.17  Aligned_cols=114  Identities=11%  Similarity=0.033  Sum_probs=89.4

Q ss_pred             CCCCH-HHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCC-CCHhHHH
Q 008280          295 MKPDS-ITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFK-PQPAIFG  371 (571)
Q Consensus       295 ~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~  371 (571)
                      +.|+. ..+......+.+.|++++|.+.|++.++.  .+.+...|..+..+|.+.|++++|++.|++. ... .+...|.
T Consensus         8 inP~~a~~~~~~G~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~   85 (126)
T 4gco_A            8 INPELAQEEKNKGNEYFKKGDYPTAMRHYNEAVKR--DPENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYI   85 (126)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             HCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHH
Confidence            34443 35666777788888888888888887763  3445778888888888888888888888876 222 3467899


Q ss_pred             HHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHH
Q 008280          372 TLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANI  411 (571)
Q Consensus       372 ~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~  411 (571)
                      .+..++...|++++|+..|+++++++|+++. ++..|..+
T Consensus        86 ~lg~~~~~~~~~~~A~~~~~~al~l~P~~~~-a~~~l~~~  124 (126)
T 4gco_A           86 RKAACLVAMREWSKAQRAYEDALQVDPSNEE-AREGVRNC  124 (126)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH-HHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHCcCCHH-HHHHHHHh
Confidence            9999999999999999999999999999987 77777654

>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=98.68  E-value=1.9e-06  Score=81.87  Aligned_cols=160  Identities=7%  Similarity=-0.018  Sum_probs=115.5

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHcCC-CCCHH----HHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCC----hHhHHH
Q 008280          270 MISGYAQHGKGEKALRLFDKMKDEGM-KPDSI----TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAK----PDHYTC  340 (571)
Q Consensus       270 li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~~----t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~~  340 (571)
                      .+..+...|++++|..++++...... .|+..    .+..+...+...|++++|...|+...+...-.++    ..+++.
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            46667788888888888888776321 22211    2334556667778889999988888763111222    236888


Q ss_pred             HHHHHHHcCCHHHHHHHHHhC-------CCC-CC-HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCC------CchhH
Q 008280          341 MVDLLGRAGKLVEAVDLIKKM-------PFK-PQ-PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPAN------AAGCY  405 (571)
Q Consensus       341 li~~~~~~g~~~~A~~~~~~~-------~~~-p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~------~~~~~  405 (571)
                      +...|...|++++|++.|+++       +.. +. ..++..+...|...|++++|+..+++++++.+..      .. +|
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            888899999999888888776       111 11 2477888999999999999999999998754322      34 78


Q ss_pred             HHHHHHHhhccC-hhHHHHHHHHHHh
Q 008280          406 VQLANIYAAMKK-WDDVARIRLSMKE  430 (571)
Q Consensus       406 ~~l~~~~~~~g~-~~~a~~~~~~m~~  430 (571)
                      ..++.+|.+.|+ +++|.+.+++...
T Consensus       240 ~~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          240 YQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            899999999995 6999999887653

>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=98.68  E-value=8e-08  Score=90.90  Aligned_cols=191  Identities=12%  Similarity=-0.021  Sum_probs=122.2

Q ss_pred             cchHHHHHHHHHhcCCHHHHHHHHHhhCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 008280          233 TTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLAC  309 (571)
Q Consensus       233 ~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~  309 (571)
                      ...+..+...|.+.|++++|...|++..+   .+...|..+...|...|++++|+..+++..+.. +.+...+..+..++
T Consensus         4 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~   82 (281)
T 2c2l_A            4 AQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQCQ   82 (281)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            34556677777778888888888776542   366777788888888888888888888877643 23455677777888


Q ss_pred             HhcCcHHHHHHHHHHhHHhcCCCCCh-HhHHHHHHHHHHcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHHhcCCHhHHHH
Q 008280          310 NHAGLVDLGIQYFDSMVNDYGIAAKP-DHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEF  388 (571)
Q Consensus       310 ~~~g~~~~a~~~~~~~~~~~~~~~~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~  388 (571)
                      ...|++++|...|....+.   .|+. ..+...+....+......... .......++......+. .+ ..|+.++|+.
T Consensus        83 ~~~g~~~~A~~~~~~al~l---~p~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~i~~~l~-~l-~~~~~~~A~~  156 (281)
T 2c2l_A           83 LEMESYDEAIANLQRAYSL---AKEQRLNFGDDIPSALRIAKKKRWNS-IEERRIHQESELHSYLT-RL-IAAERERELE  156 (281)
T ss_dssp             HHTTCHHHHHHHHHHHHHH---HHHTTCCCCSHHHHHHHHHHHHHHHH-HHHTCCCCCCHHHHHHH-HH-HHHHHHHHHT
T ss_pred             HHcCCHHHHHHHHHHHHHh---CccchhhHHHHHHHHHHHHHHHHHHH-HHHHHHhhhHHHHHHHH-HH-HHHHHHHHHH
Confidence            8888888888888777653   2211 111111111111111111111 12222233444433332 22 3688999999


Q ss_pred             HHHHHhccCCCCCchhHHHHHHHHhhc-cChhHHHHHHHHHHhC
Q 008280          389 AAMNLFNLNPANAAGCYVQLANIYAAM-KKWDDVARIRLSMKEN  431 (571)
Q Consensus       389 ~~~~~~~~~p~~~~~~~~~l~~~~~~~-g~~~~a~~~~~~m~~~  431 (571)
                      .++++++.+|++.. ....+...+.+. +.+++|.++|....+.
T Consensus       157 ~~~~al~~~p~~~~-~~~~l~~~~~~~~~~~~~a~~~f~~a~~~  199 (281)
T 2c2l_A          157 ECQRNHEGHEDDGH-IRAQQACIEAKHDKYMADMDELFSQVDEK  199 (281)
T ss_dssp             TTSGGGTTTSCHHH-HTHHHHHHHHHHHHHHHHHHHHHHHSSCT
T ss_pred             HHHhhhccccchhh-hhhHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            99999999998766 666777777766 7889999999888653

>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=98.67  E-value=3.7e-07  Score=78.25  Aligned_cols=126  Identities=7%  Similarity=-0.040  Sum_probs=94.8

Q ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CC-CCCHhHHHHHHHHHH
Q 008280          301 TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PF-KPQPAIFGTLLSACR  378 (571)
Q Consensus       301 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~~  378 (571)
                      .+..+...+...|++++|...|....+.  .+.+...+..+...+...|++++|++.+++. .. +.+...|..+...+.
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            4555566667777777777777776653  2334667777777788888888888877765 11 235678888888999


Q ss_pred             hcCCHhHHHHHHHHHhccCCCCCchhHHHHHH--HHhhccChhHHHHHHHHHH
Q 008280          379 VHKRLDLAEFAAMNLFNLNPANAAGCYVQLAN--IYAAMKKWDDVARIRLSMK  429 (571)
Q Consensus       379 ~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~--~~~~~g~~~~a~~~~~~m~  429 (571)
                      ..|++++|...++++++..|++.. .+..+..  .+...|++++|.+.++...
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 7744444  4888899999999987664

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.64  E-value=4.3e-07  Score=73.29  Aligned_cols=114  Identities=18%  Similarity=0.132  Sum_probs=82.5

Q ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-C-CCCCHhHHHHHHHHH
Q 008280          300 ITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-P-FKPQPAIFGTLLSAC  377 (571)
Q Consensus       300 ~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~  377 (571)
                      ..+..+...+...|++++|..+++++.+.  .+.+...+..+...+.+.|++++|...++++ . .+.+..+|..+...+
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            45556666667777777777777766653  2334566677777777777777777777665 1 124567788888888


Q ss_pred             HhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhcc
Q 008280          378 RVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMK  416 (571)
Q Consensus       378 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g  416 (571)
                      ...|++++|...++++++..|+++. .+..++.++...|
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            8999999999999999999998877 7888887776544

>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=98.62  E-value=4e-07  Score=79.29  Aligned_cols=119  Identities=5%  Similarity=0.074  Sum_probs=75.4

Q ss_pred             hcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHH-HHhcCCH--hH
Q 008280          311 HAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFK-PQPAIFGTLLSA-CRVHKRL--DL  385 (571)
Q Consensus       311 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~-~~~~g~~--~~  385 (571)
                      ..|++++|...++...+.  .+.+...+..+...|...|++++|.+.|++. ... .+...|..+... +...|++  ++
T Consensus        22 ~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~l~~~~~~~~~~~   99 (177)
T 2e2e_A           22 SQQNPEAQLQALQDKIRA--NPQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGENAELYAALATVLYYQASQHMTAQ   99 (177)
T ss_dssp             -----CCCCHHHHHHHHH--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCCCHH
T ss_pred             hccCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCcchHH
Confidence            345555566666555542  2334556666666666666666666666655 111 245566666666 6677777  77


Q ss_pred             HHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhCC
Q 008280          386 AEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENN  432 (571)
Q Consensus       386 a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  432 (571)
                      |+..++++++.+|+++. .+..++.+|...|++++|...+++..+..
T Consensus       100 A~~~~~~al~~~p~~~~-~~~~la~~~~~~g~~~~A~~~~~~al~~~  145 (177)
T 2e2e_A          100 TRAMIDKALALDSNEIT-ALMLLASDAFMQANYAQAIELWQKVMDLN  145 (177)
T ss_dssp             HHHHHHHHHHHCTTCHH-HHHHHHHHHHHTTCHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHhCCCcHH-HHHHHHHHHHHcccHHHHHHHHHHHHhhC
Confidence            88888888777787776 77778888888888888888877776644

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.61  E-value=4.6e-07  Score=73.82  Aligned_cols=116  Identities=9%  Similarity=0.036  Sum_probs=86.7

Q ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHHH
Q 008280          300 ITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFK-PQPAIFGTLLSAC  377 (571)
Q Consensus       300 ~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~  377 (571)
                      ..+..+...+...|++++|...++...+.  .+.+...+..+...+...|++++|.+.+++. ... .+...|..+...+
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            45555666677777777777777776653  2335666777777777778888887777665 112 3467788888888


Q ss_pred             HhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccCh
Q 008280          378 RVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKW  418 (571)
Q Consensus       378 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~  418 (571)
                      ...|++++|...++++++..|+++. .+..++.++...|++
T Consensus        91 ~~~~~~~~A~~~~~~~~~~~p~~~~-~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           91 SSLNKHVEAVAYYKKALELDPDNET-YKSNLKIAELKLREA  130 (131)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSTTCHH-HHHHHHHHHHHHTTC
T ss_pred             HHhCCHHHHHHHHHHHHhcCccchH-HHHHHHHHHHHHhcC
Confidence            9999999999999999999998877 888888888888765

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.58  E-value=4.4e-07  Score=74.39  Aligned_cols=115  Identities=8%  Similarity=-0.013  Sum_probs=74.7

Q ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CC-CCCHhHHHHHHHHH
Q 008280          300 ITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PF-KPQPAIFGTLLSAC  377 (571)
Q Consensus       300 ~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~  377 (571)
                      ..+..+...+...|++++|...|++..+.  .+.+...+..+...|...|++++|++.+++. .. ..+...|..+...+
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            34555555555556666666665555431  2224555555666666666666666666554 11 23456777778888


Q ss_pred             HhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccC
Q 008280          378 RVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKK  417 (571)
Q Consensus       378 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~  417 (571)
                      ...|++++|+..++++++.+|++.. .+..++.++...|+
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            8888888888888888888888877 78888888776653

>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=98.58  E-value=5.6e-06  Score=78.62  Aligned_cols=157  Identities=11%  Similarity=0.005  Sum_probs=117.7

Q ss_pred             HHHHHHhcCCHHHHHHHHHhhCCCC---h------hhHHHHHHHHHHcCChHHHHHHHHHHHHcCCC-CC----HHHHHH
Q 008280          239 LISMYCKCGDLEDACKLFLEIQRKD---V------VTWNAMISGYAQHGKGEKALRLFDKMKDEGMK-PD----SITFVA  304 (571)
Q Consensus       239 li~~y~~~g~~~~A~~~~~~~~~~~---~------~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~----~~t~~~  304 (571)
                      .+..+.+.|++++|...+++..+..   .      ..+..+...+...|++++|+..|++....... ++    ..+++.
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   1      12334666677778999999999998874322 23    236888


Q ss_pred             HHHHHHhcCcHHHHHHHHHHhHHhc----CCCCC-hHhHHHHHHHHHHcCCHHHHHHHHHhC-------CCCCC-HhHHH
Q 008280          305 LLLACNHAGLVDLGIQYFDSMVNDY----GIAAK-PDHYTCMVDLLGRAGKLVEAVDLIKKM-------PFKPQ-PAIFG  371 (571)
Q Consensus       305 ll~a~~~~g~~~~a~~~~~~~~~~~----~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~~-------~~~p~-~~~~~  371 (571)
                      +..+|...|++++|..+|+++.+..    +..+. ..++..+...|.+.|++++|++.+++.       +..+. ..+|.
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            8899999999999999999887421    11122 347788999999999999999998876       22222 56888


Q ss_pred             HHHHHHHhcCC-HhHHHHHHHHHhc
Q 008280          372 TLLSACRVHKR-LDLAEFAAMNLFN  395 (571)
Q Consensus       372 ~l~~~~~~~g~-~~~a~~~~~~~~~  395 (571)
                      .+..++...|+ +++|...+++++.
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            89999999995 6999999998865

>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=98.55  E-value=6.8e-07  Score=85.69  Aligned_cols=198  Identities=9%  Similarity=-0.010  Sum_probs=148.5

Q ss_pred             ccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCCCChhhHHHHHHHHHHcCChHHHHHHHHH
Q 008280          210 HLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDK  289 (571)
Q Consensus       210 ~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  289 (571)
                      ..|++++|..++++..+... ..         .+...+++++|...|++.           ...|...|++++|...|.+
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            35778889999888776421 11         111158899999988764           5678899999999999998


Q ss_pred             HHHc----CCCCC-HHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCC--C--ChHhHHHHHHHHHHcCCHHHHHHHHHh
Q 008280          290 MKDE----GMKPD-SITFVALLLACNHAGLVDLGIQYFDSMVNDYGIA--A--KPDHYTCMVDLLGRAGKLVEAVDLIKK  360 (571)
Q Consensus       290 m~~~----g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~--~--~~~~~~~li~~~~~~g~~~~A~~~~~~  360 (571)
                      ..+.    +-.+. ..+|..+...|...|++++|...|++..+-+.-.  +  ...++..+..+|.+ |++++|++.|++
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            7543    21111 3478888899999999999999998876532111  1  14577888899988 999999999987


Q ss_pred             C----CCCCC----HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCc-----hhHHHHHHHHhhccChhHHHHHHHH
Q 008280          361 M----PFKPQ----PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA-----GCYVQLANIYAAMKKWDDVARIRLS  427 (571)
Q Consensus       361 ~----~~~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~-----~~~~~l~~~~~~~g~~~~a~~~~~~  427 (571)
                      .    +...+    ..++..+...+...|++++|+..+++++++.|+...     ..+..++.++...|++++|...+++
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    457888899999999999999999999987654431     1566778888889999999999998


Q ss_pred             HH
Q 008280          428 MK  429 (571)
Q Consensus       428 m~  429 (571)
                      ..
T Consensus       221 al  222 (307)
T 2ifu_A          221 SY  222 (307)
T ss_dssp             HT
T ss_pred             Hh
Confidence            77

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=98.54  E-value=6.5e-07  Score=86.98  Aligned_cols=94  Identities=14%  Similarity=0.053  Sum_probs=80.7

Q ss_pred             hHhHHHHHHHHHHcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHH
Q 008280          335 PDHYTCMVDLLGRAGKLVEAVDLIKKM-PFK-PQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIY  412 (571)
Q Consensus       335 ~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~  412 (571)
                      ...|..+..+|.+.|++++|++.+++. ... .+...|..+..+|...|++++|+..|+++++++|++.. ++..++.++
T Consensus       196 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~-a~~~l~~~~  274 (336)
T 1p5q_A          196 LASHLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKA-AKTQLAVCQ  274 (336)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHH-HHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHH-HHHHHHHHH
Confidence            467788888888999999999888877 222 35788999999999999999999999999999999988 999999999


Q ss_pred             hhccChhHH-HHHHHHHH
Q 008280          413 AAMKKWDDV-ARIRLSMK  429 (571)
Q Consensus       413 ~~~g~~~~a-~~~~~~m~  429 (571)
                      ...|++++| .+.++.|.
T Consensus       275 ~~~~~~~~a~~~~~~~~~  292 (336)
T 1p5q_A          275 QRIRRQLAREKKLYANMF  292 (336)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            999999998 44666664

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.53  E-value=1.9e-07  Score=86.53  Aligned_cols=135  Identities=13%  Similarity=-0.050  Sum_probs=91.0

Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCC--hHhHHHHHHHH
Q 008280          268 NAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAK--PDHYTCMVDLL  345 (571)
Q Consensus       268 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~--~~~~~~li~~~  345 (571)
                      -.....+...|++++|.++|+.+...  .|+......+...+.+.+++++|+..|+...+. . .|.  ...+..+..++
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            34556677777888888777776553  344444445555777788888888888755331 1 111  23566778888


Q ss_pred             HHcCCHHHHHHHHHhC---CCCCC--HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHH
Q 008280          346 GRAGKLVEAVDLIKKM---PFKPQ--PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQL  408 (571)
Q Consensus       346 ~~~g~~~~A~~~~~~~---~~~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l  408 (571)
                      .+.|++++|++.|++.   +..|.  ...+..+..++...|+.++|...|++++..+|+ .. ....|
T Consensus       182 ~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P~-~~-~~~aL  247 (282)
T 4f3v_A          182 ANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHPE-PK-VAAAL  247 (282)
T ss_dssp             HHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSCC-HH-HHHHH
T ss_pred             HHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc-HH-HHHHH
Confidence            8888888888888877   22143  246667777888889999999999999888887 54 44443

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.52  E-value=8e-05  Score=76.07  Aligned_cols=350  Identities=10%  Similarity=0.030  Sum_probs=214.5

Q ss_pred             hHHHHHHHHHhCCCCHHHHHHHHhhCCC--CChhhHHHHHHHHHcCCC-CHHHHHHHHhhCC------CCChhhHHHHHH
Q 008280            8 NWNSVLAGFAKQRGKLKDAQELFDKIPQ--PDVVSYNIMLSCILLNSD-DVVAAFDFFQRLP------IKDTASWNTMIS   78 (571)
Q Consensus         8 ~~~~l~~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~ll~~~~~~~g-~~~~A~~~~~~m~------~~d~~~~~~li~   78 (571)
                      +|...+..+-. + +.+.+.++|++...  |++..|..-+....+. + ..+....+|+...      ..+...|...+.
T Consensus        17 vyer~l~~~P~-~-~~e~~~~iferal~~~ps~~LW~~Y~~f~~~~-~~~~~~i~~~fe~al~~vg~d~~s~~iW~~Yi~   93 (493)
T 2uy1_A           17 IMEHARRLYMS-K-DYRSLESLFGRCLKKSYNLDLWMLYIEYVRKV-SQKKFKLYEVYEFTLGQFENYWDSYGLYKEYIE   93 (493)
T ss_dssp             HHHHHHHHHHT-T-CHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHH-C----CTHHHHHHHHHHSTTCTTCHHHHHHHHH
T ss_pred             HHHHHHHHCCC-C-CHHHHHHHHHHHhccCCCHHHHHHHHHHHHHh-CchHHHHHHHHHHHHHHcCCCcccHHHHHHHHH
Confidence            45666666654 5 89999999998775  8999999988877666 5 3345566666532      246678888887


Q ss_pred             HHHc----CCCHHHHHHHHhhCCC-CCcchHHHHHHHHHH-----------------cCChHHHHHHHhhCC----CCCh
Q 008280           79 GFVQ----KKNMAKARDLFLAMPE-KNSVSWSAMISGYIE-----------------CGQLDKAVELFKVAP----VKSV  132 (571)
Q Consensus        79 ~~~~----~g~~~~A~~~~~~m~~-~d~~~~~~li~~~~~-----------------~g~~~~A~~~~~~~~----~~~~  132 (571)
                      .+..    +|+.+.+.++|++... |. ..+..+-..|..                 .+.+..|+.+++.+.    ..+.
T Consensus        94 f~~~~~~~~~~~~~vR~iy~rAL~~P~-~~~~~lw~~Y~~fE~~~~~~~~~~~~~~~~~~y~~ar~~y~~~~~~~~~~s~  172 (493)
T 2uy1_A           94 EEGKIEDEQTRIEKIRNGYMRALQTPM-GSLSELWKDFENFELELNKITGKKIVGDTLPIFQSSFQRYQQIQPLIRGWSV  172 (493)
T ss_dssp             HTSSCSSHHHHHHHHHHHHHHHHTSCC-TTHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSH
T ss_pred             HHHhchhhhHHHHHHHHHHHHHHhChh-hhHHHHHHHHHHHHHHhccccHHHHHHHHhHHHHHHHHHHHHHHHHHhhccH
Confidence            6643    4678889999988754 21 111121111111                 122333444433322    1234


Q ss_pred             hHHHHHHHHHHhcC--C-----HHHHHHHHhhCCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHH
Q 008280          133 VAWTAMISGYMKFG--K-----VDLAEKLFDEMPT---KNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLS  202 (571)
Q Consensus       133 ~~~~~li~~~~~~g--~-----~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~  202 (571)
                      ..|...++.-...+  -     .+.+..+|++...   .+...|-..+.-+.+.|+.++|..+|.+....   |....+.
T Consensus       173 ~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al~~~p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~---P~~~~l~  249 (493)
T 2uy1_A          173 KNAARLIDLEMENGMKLGGRPHESRMHFIHNYILDSFYYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM---SDGMFLS  249 (493)
T ss_dssp             HHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CCSSHHH
T ss_pred             HHHHHHHHHHhcCCccCcchhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC---CCcHHHH
Confidence            46666665533221  1     2345667777653   45678998999999999999999999999986   5444332


Q ss_pred             HHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCCCChhhHHHHHHHHHHcCChHH
Q 008280          203 SVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEK  282 (571)
Q Consensus       203 ~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  282 (571)
                      .   .++.....+.   +++.+.               ..+.... .+.+..   .........|...+....+.+..+.
T Consensus       250 ~---~y~~~~e~~~---~~~~l~---------------~~~~~~~-~~~~~~---~~~~~~~~lw~~y~~~~~r~~~~~~  304 (493)
T 2uy1_A          250 L---YYGLVMDEEA---VYGDLK---------------RKYSMGE-AESAEK---VFSKELDLLRINHLNYVLKKRGLEL  304 (493)
T ss_dssp             H---HHHHHTTCTH---HHHHHH---------------HHTC--------------CHHHHHHHHHHHHHHHHHHHCHHH
T ss_pred             H---HHHhhcchhH---HHHHHH---------------HHHHhhc-cchhhh---hcccccHHHHHHHHHHHHHcCCHHH
Confidence            2   1221111111   122111               1110000 000000   0000123457777777777788999


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHH-hcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC
Q 008280          283 ALRLFDKMKDEGMKPDSITFVALLLACN-HAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM  361 (571)
Q Consensus       283 A~~~~~~m~~~g~~p~~~t~~~ll~a~~-~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~  361 (571)
                      |..+|++. .. ..++...|......-. ..++.+.|+.+|+...+.+  +.++..+...++...+.|+.+.|..+|+++
T Consensus       305 AR~i~~~A-~~-~~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~--~~~~~~~~~yid~e~~~~~~~~aR~l~er~  380 (493)
T 2uy1_A          305 FRKLFIEL-GN-EGVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKH--PDSTLLKEEFFLFLLRIGDEENARALFKRL  380 (493)
T ss_dssp             HHHHHHHH-TT-SCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHS
T ss_pred             HHHHHHHh-hC-CCCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            99999988 32 1234444443222212 2346999999999998864  334556777888889999999999999998


Q ss_pred             CCCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhc
Q 008280          362 PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFN  395 (571)
Q Consensus       362 ~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  395 (571)
                      .  .....|...+.--..+|+.+.+..++++...
T Consensus       381 ~--k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          381 E--KTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             C--CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             H--HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            4  4678899999888899999999999988864

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.50  E-value=4.5e-06  Score=79.27  Aligned_cols=161  Identities=10%  Similarity=0.003  Sum_probs=114.4

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHhhCC--C-Ch------hhHHHHHHHHHHcCChHHHHHHHHHHHHcCC---CCC--HH
Q 008280          235 ALTPLISMYCKCGDLEDACKLFLEIQR--K-DV------VTWNAMISGYAQHGKGEKALRLFDKMKDEGM---KPD--SI  300 (571)
Q Consensus       235 ~~~~li~~y~~~g~~~~A~~~~~~~~~--~-~~------~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~---~p~--~~  300 (571)
                      .+...+..|...|++++|.+.++...+  + ..      ..+..+...+...|++++|+..|++......   .+.  ..
T Consensus        77 ~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~  156 (293)
T 2qfc_A           77 QFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLY  156 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHH
Confidence            334466778888999999888875542  1 11      2234456667778899999999988765321   122  34


Q ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCC-----hHhHHHHHHHHHHcCCHHHHHHHHHhC-------CCCCC-H
Q 008280          301 TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAK-----PDHYTCMVDLLGRAGKLVEAVDLIKKM-------PFKPQ-P  367 (571)
Q Consensus       301 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~-----~~~~~~li~~~~~~g~~~~A~~~~~~~-------~~~p~-~  367 (571)
                      +++.+...|...|++++|..+|++..+.....|+     ..++..+...|.+.|++++|++.+++.       +.... .
T Consensus       157 ~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~  236 (293)
T 2qfc_A          157 IENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIG  236 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHH
Confidence            7788888899999999999999888732111222     257888889999999999999998876       11111 5


Q ss_pred             hHHHHHHHHHHhcCCHhHH-HHHHHHHhc
Q 008280          368 AIFGTLLSACRVHKRLDLA-EFAAMNLFN  395 (571)
Q Consensus       368 ~~~~~l~~~~~~~g~~~~a-~~~~~~~~~  395 (571)
                      .+|..+...|...|++++| ...+++++.
T Consensus       237 ~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~  265 (293)
T 2qfc_A          237 QLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Confidence            6788888899999999999 777887755

>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=98.50  E-value=6.3e-07  Score=73.01  Aligned_cols=97  Identities=10%  Similarity=0.024  Sum_probs=80.0

Q ss_pred             hHhHHHHHHHHHHcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHH
Q 008280          335 PDHYTCMVDLLGRAGKLVEAVDLIKKM-PFK-PQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIY  412 (571)
Q Consensus       335 ~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~  412 (571)
                      ...+..+...+.+.|++++|++.|++. ... .+...|..+..++...|++++|+..++++++++|+++. ++..++.+|
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            345666777788888888888888776 222 35678888888999999999999999999999999888 999999999


Q ss_pred             hhccChhHHHHHHHHHHhCC
Q 008280          413 AAMKKWDDVARIRLSMKENN  432 (571)
Q Consensus       413 ~~~g~~~~a~~~~~~m~~~~  432 (571)
                      ...|++++|.+.+++..+..
T Consensus        83 ~~~~~~~~A~~~~~~al~~~  102 (126)
T 3upv_A           83 IAVKEYASALETLDAARTKD  102 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHhCHHHHHHHHHHHHHhC
Confidence            99999999999998877643

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.49  E-value=7e-07  Score=70.50  Aligned_cols=99  Identities=17%  Similarity=0.099  Sum_probs=79.2

Q ss_pred             ChHhHHHHHHHHHHcCCHHHHHHHHHhC-CC-CCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCC--CCchhHHHHH
Q 008280          334 KPDHYTCMVDLLGRAGKLVEAVDLIKKM-PF-KPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPA--NAAGCYVQLA  409 (571)
Q Consensus       334 ~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~--~~~~~~~~l~  409 (571)
                      +...+..+...+.+.|++++|...|++. .. ..+...|..+...+...|++++|...++++++..|+  +.. .+..++
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~-~~~~l~   83 (112)
T 2kck_A            5 NPEEYYLEGVLQYDAGNYTESIDLFEKAIQLDPEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKD-VWAAKA   83 (112)
T ss_dssp             STTGGGGHHHHHHSSCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHH-HHHHHH
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHH-HHHHHH
Confidence            3556667777788888888888888776 11 235677888888888899999999999999998888  777 888999


Q ss_pred             HHHhhc-cChhHHHHHHHHHHhCCC
Q 008280          410 NIYAAM-KKWDDVARIRLSMKENNV  433 (571)
Q Consensus       410 ~~~~~~-g~~~~a~~~~~~m~~~~~  433 (571)
                      .+|... |++++|.+.++...+...
T Consensus        84 ~~~~~~~~~~~~A~~~~~~~~~~~p  108 (112)
T 2kck_A           84 DALRYIEGKEVEAEIAEARAKLEHH  108 (112)
T ss_dssp             HHHTTCSSCSHHHHHHHHHHGGGCC
T ss_pred             HHHHHHhCCHHHHHHHHHHHhhccc
Confidence            999999 999999999988876554

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.47  E-value=3e-06  Score=78.49  Aligned_cols=182  Identities=10%  Similarity=-0.030  Sum_probs=136.6

Q ss_pred             hcCCHHHHHHHHHhhCC---CChhhHHHH-------HHHHHHcCChHHHHHHHHHHHHcCCCCCH---------------
Q 008280          245 KCGDLEDACKLFLEIQR---KDVVTWNAM-------ISGYAQHGKGEKALRLFDKMKDEGMKPDS---------------  299 (571)
Q Consensus       245 ~~g~~~~A~~~~~~~~~---~~~~~~~~l-------i~~~~~~g~~~~A~~~~~~m~~~g~~p~~---------------  299 (571)
                      ..++.+.|.+.|.+..+   .....|+.+       ...+...++..+++..+..-..  +.|+.               
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            47888999999988764   345678877       4566666666666665555433  23321               


Q ss_pred             -------HHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhCCCCCCH----h
Q 008280          300 -------ITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQP----A  368 (571)
Q Consensus       300 -------~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~----~  368 (571)
                             .....+..++...|++++|.+.|..+...   .|+......+...+.+.|++++|+..|+.....|+.    .
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                   12334567788999999999999988642   354336667777899999999999999977433433    3


Q ss_pred             HHHHHHHHHHhcCCHhHHHHHHHHHhccC--CC-CCchhHHHHHHHHhhccChhHHHHHHHHHHhCC
Q 008280          369 IFGTLLSACRVHKRLDLAEFAAMNLFNLN--PA-NAAGCYVQLANIYAAMKKWDDVARIRLSMKENN  432 (571)
Q Consensus       369 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~--p~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  432 (571)
                      .+..+..++...|++++|+..|+++..-.  |. .+. ....++.++.+.|+.++|..+|+++....
T Consensus       173 a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~d-a~~~~glaL~~lGr~deA~~~l~~a~a~~  238 (282)
T 4f3v_A          173 AGVAHGVAAANLALFTEAERRLTEANDSPAGEACARA-IAWYLAMARRSQGNESAAVALLEWLQTTH  238 (282)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHH-HHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHH-HHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            67888899999999999999999997533  54 334 77899999999999999999999998743

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.46  E-value=1.3e-06  Score=77.62  Aligned_cols=116  Identities=14%  Similarity=0.040  Sum_probs=55.1

Q ss_pred             hcCCHHHHHH---HHHhhCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHHhcCcHH
Q 008280          245 KCGDLEDACK---LFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDE----GMKP-DSITFVALLLACNHAGLVD  316 (571)
Q Consensus       245 ~~g~~~~A~~---~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p-~~~t~~~ll~a~~~~g~~~  316 (571)
                      ..|++++|.+   .+..-+.....++..+...+...|++++|+..+++....    +..| ...++..+...+...|+++
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            3556666666   333322223445666666666666666666666665431    1111 1224445555566666666


Q ss_pred             HHHHHHHHhHHhcCCCC-C----hHhHHHHHHHHHHcCCHHHHHHHHHh
Q 008280          317 LGIQYFDSMVNDYGIAA-K----PDHYTCMVDLLGRAGKLVEAVDLIKK  360 (571)
Q Consensus       317 ~a~~~~~~~~~~~~~~~-~----~~~~~~li~~~~~~g~~~~A~~~~~~  360 (571)
                      +|...+++..+...-.+ +    ...+..+...+...|++++|.+.+++
T Consensus        84 ~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~  132 (203)
T 3gw4_A           84 AARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEK  132 (203)
T ss_dssp             HHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            66666655443211111 1    22344444555555555555554444

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.46  E-value=6.5e-07  Score=72.48  Aligned_cols=95  Identities=14%  Similarity=-0.008  Sum_probs=81.5

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhh
Q 008280          337 HYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAA  414 (571)
Q Consensus       337 ~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~  414 (571)
                      .+..+...+.+.|++++|+..|++. ...| +...|..+..++...|++++|+..++++++++|+++. ++..++.+|..
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~-~~~~la~~~~~   97 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIA-VHAALAVSHTN   97 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHH
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHH
Confidence            4556778888999999999999887 2233 5788889999999999999999999999999999988 99999999999


Q ss_pred             ccChhHHHHHHHHHHhCC
Q 008280          415 MKKWDDVARIRLSMKENN  432 (571)
Q Consensus       415 ~g~~~~a~~~~~~m~~~~  432 (571)
                      .|++++|...+++..+..
T Consensus        98 ~g~~~~A~~~~~~al~~~  115 (121)
T 1hxi_A           98 EHNANAALASLRAWLLSQ  115 (121)
T ss_dssp             HHHHHHHHHHHHHHHC--
T ss_pred             cCCHHHHHHHHHHHHHhC
Confidence            999999999999887643

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.46  E-value=3.3e-06  Score=74.93  Aligned_cols=155  Identities=12%  Similarity=-0.028  Sum_probs=114.1

Q ss_pred             HHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhc---CCCC-ChHhHHHHHHHHHHcCC
Q 008280          275 AQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDY---GIAA-KPDHYTCMVDLLGRAGK  350 (571)
Q Consensus       275 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~---~~~~-~~~~~~~li~~~~~~g~  350 (571)
                      ...|++++|.+.++.+.. .......++..+...+...|++++|...+++..+..   +..| ....+..+...|...|+
T Consensus         3 ~~~g~~~~A~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~   81 (203)
T 3gw4_A            3 FEAHDYALAERQAQALLA-HPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGN   81 (203)
T ss_dssp             ----CHHHHHHHHHHHHT-STTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTC
T ss_pred             cccccHHHHHHHHHHhcC-ChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCC
Confidence            467999999996655543 222345678888889999999999999998877521   1222 25578888999999999


Q ss_pred             HHHHHHHHHhC----CCCC-C----HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCC--CC---chhHHHHHHHHhhcc
Q 008280          351 LVEAVDLIKKM----PFKP-Q----PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPA--NA---AGCYVQLANIYAAMK  416 (571)
Q Consensus       351 ~~~A~~~~~~~----~~~p-~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~--~~---~~~~~~l~~~~~~~g  416 (571)
                      +++|.+.+++.    ...+ +    ...+..+...+...|++++|...++++++..+.  ++   ..++..++.+|...|
T Consensus        82 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g  161 (203)
T 3gw4_A           82 WDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEK  161 (203)
T ss_dssp             HHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCc
Confidence            99999998876    1112 2    346778888899999999999999999764321  11   113578999999999


Q ss_pred             ChhHHHHHHHHHHh
Q 008280          417 KWDDVARIRLSMKE  430 (571)
Q Consensus       417 ~~~~a~~~~~~m~~  430 (571)
                      ++++|.+.+++..+
T Consensus       162 ~~~~A~~~~~~al~  175 (203)
T 3gw4_A          162 NLLEAQQHWLRARD  175 (203)
T ss_dssp             CHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHH
Confidence            99999999987764

>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=8.7e-05  Score=71.07  Aligned_cols=173  Identities=9%  Similarity=0.018  Sum_probs=107.5

Q ss_pred             HHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccC-chHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhc-C-CH
Q 008280          173 YVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLS-SLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKC-G-DL  249 (571)
Q Consensus       173 ~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~-~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~-g-~~  249 (571)
                      ....+..++|++++.+++... +-+...|+.--..+...+ .++++..+++.++... +.+..+|+.-...+.+. + ++
T Consensus        64 ~~~~e~se~AL~lt~~~L~~n-P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL~~l~~~~~  141 (349)
T 3q7a_A           64 AAKEEKSERALELTEIIVRMN-PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLLDRISPQDP  141 (349)
T ss_dssp             HHTTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHHHCCSCC
T ss_pred             HHhCCCCHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhcCCCh
Confidence            334445566777777777642 223334454444455555 4777777777777654 45566666665555555 5 77


Q ss_pred             HHHHHHHHhhCCC---ChhhHHHHHHHHHHcCChH--------HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCc----
Q 008280          250 EDACKLFLEIQRK---DVVTWNAMISGYAQHGKGE--------KALRLFDKMKDEGMKPDSITFVALLLACNHAGL----  314 (571)
Q Consensus       250 ~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~--------~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~----  314 (571)
                      ++++++++++.+.   |..+|+--...+.+.|.++        ++++.++++.+..+ -|...|+.......+.+.    
T Consensus       142 ~~EL~~~~k~L~~dpkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp-~N~SAW~~R~~lL~~l~~~~~~  220 (349)
T 3q7a_A          142 VSEIEYIHGSLLPDPKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDG-RNNSAWGWRWYLRVSRPGAETS  220 (349)
T ss_dssp             HHHHHHHHHHTSSCTTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHTTSTTCCCC
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhccccccc
Confidence            7888888877753   5566776666665555555        78888888877653 366677766666666654    


Q ss_pred             ---HHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCC
Q 008280          315 ---VDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGK  350 (571)
Q Consensus       315 ---~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  350 (571)
                         ++++.+++.+.+..  .+-|...|+.+-..+.+.|+
T Consensus       221 ~~~~~eELe~~~~aI~~--~P~n~SaW~Ylr~Ll~~~~~  257 (349)
T 3q7a_A          221 SRSLQDELIYILKSIHL--IPHNVSAWNYLRGFLKHFSL  257 (349)
T ss_dssp             HHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTC
T ss_pred             hHHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhcCC
Confidence               56777777766652  34456666666666666554

>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=98.44  E-value=1.8e-06  Score=74.99  Aligned_cols=125  Identities=11%  Similarity=0.075  Sum_probs=93.1

Q ss_pred             HHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHH-HHHcCCH--
Q 008280          275 AQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDL-LGRAGKL--  351 (571)
Q Consensus       275 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~-~~~~g~~--  351 (571)
                      ...|++++|+..|++..... +.+...+..+...+...|++++|...|++..+.  .+.+...+..+..+ |...|++  
T Consensus        21 ~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~l~~~~~~~~~   97 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQL--RGENAELYAALATVLYYQASQHMT   97 (177)
T ss_dssp             C-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HCSCHHHHHHHHHHHHHHTTTCCC
T ss_pred             hhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhcCCcch
Confidence            34677778888888776653 335667777888888888888888888887763  23456677777777 7788888  


Q ss_pred             HHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCc
Q 008280          352 VEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA  402 (571)
Q Consensus       352 ~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~  402 (571)
                      ++|...++++ ...| +...|..+...+...|++++|...++++++..|+++.
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            8888888776 2223 4678888889999999999999999999999998865

>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=98.43  E-value=3.7e-06  Score=66.92  Aligned_cols=108  Identities=13%  Similarity=0.038  Sum_probs=66.9

Q ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHHHH
Q 008280          301 TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFK-PQPAIFGTLLSACR  378 (571)
Q Consensus       301 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~  378 (571)
                      .+..+...+...|++++|...++.....  .+.+...+..+...+.+.|++++|.+.+++. ... .+...|..+...+.
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            4444555555666666666666665542  2234555566666666666666666666554 112 24566777777777


Q ss_pred             hcCCHhHHHHHHHHHhccCCCCCchhHHHHHHH
Q 008280          379 VHKRLDLAEFAAMNLFNLNPANAAGCYVQLANI  411 (571)
Q Consensus       379 ~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~  411 (571)
                      ..|++++|...++++++.+|+++. .+..++.+
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            778888888888888887777765 55555544

>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=98.42  E-value=1.8e-06  Score=71.30  Aligned_cols=99  Identities=9%  Similarity=-0.034  Sum_probs=81.6

Q ss_pred             CChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHH
Q 008280          333 AKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFK-PQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLAN  410 (571)
Q Consensus       333 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~  410 (571)
                      .+...+..+...+...|++++|+..|++. ... .+...|..+...+...|++++|+..++++++++|+++. ++..++.
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~-~~~~l~~   85 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVK-AHFFLGQ   85 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH-HHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHH-HHHHHHH
Confidence            45667777888888888888888888776 222 34678888888899999999999999999999999888 8999999


Q ss_pred             HHhhccChhHHHHHHHHHHhCC
Q 008280          411 IYAAMKKWDDVARIRLSMKENN  432 (571)
Q Consensus       411 ~~~~~g~~~~a~~~~~~m~~~~  432 (571)
                      +|...|++++|...+++..+..
T Consensus        86 ~~~~~~~~~~A~~~~~~a~~~~  107 (137)
T 3q49_B           86 CQLEMESYDEAIANLQRAYSLA  107 (137)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHHC
Confidence            9999999999999998887543

>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=98.42  E-value=5.6e-07  Score=75.84  Aligned_cols=101  Identities=10%  Similarity=-0.038  Sum_probs=77.5

Q ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHH
Q 008280          300 ITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSAC  377 (571)
Q Consensus       300 ~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~  377 (571)
                      ..+..+...+...|++++|...|+.....  -+.+...|..+..+|.+.|++++|++.|++. ...| ++..|..+..++
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            35556667777888888888888877653  2445777777888888888888888888776 2223 457788888889


Q ss_pred             HhcCCHhHHHHHHHHHhccCCCCCc
Q 008280          378 RVHKRLDLAEFAAMNLFNLNPANAA  402 (571)
Q Consensus       378 ~~~g~~~~a~~~~~~~~~~~p~~~~  402 (571)
                      ...|++++|+..|++++++.|+++.
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            9999999999999999999988775

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.42  E-value=3.1e-06  Score=72.58  Aligned_cols=95  Identities=14%  Similarity=0.111  Sum_probs=63.9

Q ss_pred             hHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHH
Q 008280          335 PDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIY  412 (571)
Q Consensus       335 ~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~  412 (571)
                      ...+..+...+.+.|++++|++.|++. ...| +...|..+..+|...|++++|+..++++++++|+++. .|..++.+|
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            445555666666666666666666655 1122 4566667777777777777777777777777777766 777777777


Q ss_pred             hhccChhHHHHHHHHHHh
Q 008280          413 AAMKKWDDVARIRLSMKE  430 (571)
Q Consensus       413 ~~~g~~~~a~~~~~~m~~  430 (571)
                      ...|++++|.+.+++..+
T Consensus        90 ~~~g~~~~A~~~~~~al~  107 (164)
T 3sz7_A           90 FDMADYKGAKEAYEKGIE  107 (164)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHccCHHHHHHHHHHHHH
Confidence            777777777777776655

>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=98.41  E-value=2.2e-06  Score=76.12  Aligned_cols=168  Identities=9%  Similarity=-0.065  Sum_probs=100.1

Q ss_pred             HHHhcCCHHHHHHHHHhhCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHH
Q 008280          242 MYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLG  318 (571)
Q Consensus       242 ~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a  318 (571)
                      .....|+++++.+.|+.-..   .....|..+...+...|++++|+..|++.....  |+...+...        ....-
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~--------~~~~~   82 (198)
T 2fbn_A           13 GRENLYFQGAKKSIYDYTDEEKVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFF--IHTEEWDDQ--------ILLDK   82 (198)
T ss_dssp             ---------CCCSGGGCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT--TTCTTCCCH--------HHHHH
T ss_pred             hhhhhhhccccCchhhCCHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH--hcccccchh--------hHHHH
Confidence            33445566666555553322   134456666777777777777777777776632  211100000        00000


Q ss_pred             HHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHHHHhcCCHhHHHHHHHHHhcc
Q 008280          319 IQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFK-PQPAIFGTLLSACRVHKRLDLAEFAAMNLFNL  396 (571)
Q Consensus       319 ~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  396 (571)
                      .   .        ......+..+..+|.+.|++++|+..+++. ... .+...+..+..++...|++++|+..+++++++
T Consensus        83 ~---~--------~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~  151 (198)
T 2fbn_A           83 K---K--------NIEISCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASL  151 (198)
T ss_dssp             H---H--------HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             H---H--------HHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcccHHHHHHHHHHHHHH
Confidence            0   0        001356667778888888888888888776 222 35678888999999999999999999999999


Q ss_pred             CCCCCchhHHHHHHHHhhccChhHHH-HHHHHHHhC
Q 008280          397 NPANAAGCYVQLANIYAAMKKWDDVA-RIRLSMKEN  431 (571)
Q Consensus       397 ~p~~~~~~~~~l~~~~~~~g~~~~a~-~~~~~m~~~  431 (571)
                      +|+++. ++..+..++...|+.+++. ..++.|...
T Consensus       152 ~p~~~~-~~~~l~~~~~~~~~~~~~~~~~~~~~f~~  186 (198)
T 2fbn_A          152 NPNNLD-IRNSYELCVNKLKEARKKDKLTFGGMFDK  186 (198)
T ss_dssp             STTCHH-HHHHHHHHHHHHHHHHC------------
T ss_pred             CCCcHH-HHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            999988 9999999999888888877 455555443

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.41  E-value=4.6e-06  Score=70.25  Aligned_cols=104  Identities=9%  Similarity=-0.078  Sum_probs=85.6

Q ss_pred             CCCH-HHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHhHHHH
Q 008280          296 KPDS-ITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGT  372 (571)
Q Consensus       296 ~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~  372 (571)
                      .|+. ..+..+...+.+.|++++|...|+.+.+.  -+.++..|..+..+|.+.|++++|++.|++. ...| ++..|..
T Consensus        32 ~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~~~~~  109 (151)
T 3gyz_A           32 PDDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIY--DFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTPVFH  109 (151)
T ss_dssp             CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcHHHHH
Confidence            4443 36777778889999999999999998863  3445888889999999999999999999887 2233 4678889


Q ss_pred             HHHHHHhcCCHhHHHHHHHHHhccCCCCC
Q 008280          373 LLSACRVHKRLDLAEFAAMNLFNLNPANA  401 (571)
Q Consensus       373 l~~~~~~~g~~~~a~~~~~~~~~~~p~~~  401 (571)
                      +..+|...|++++|+..|++++++.|+++
T Consensus       110 lg~~~~~lg~~~eA~~~~~~al~l~~~~~  138 (151)
T 3gyz_A          110 TGQCQLRLKAPLKAKECFELVIQHSNDEK  138 (151)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCCCHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCHH
Confidence            99999999999999999999999998753

>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=98.39  E-value=4.9e-06  Score=71.06  Aligned_cols=128  Identities=11%  Similarity=0.011  Sum_probs=79.7

Q ss_pred             hhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHH
Q 008280          265 VTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDL  344 (571)
Q Consensus       265 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~  344 (571)
                      ..|..+...+...|++++|...|++..... +.+..++..+...+...|++++|...+++..+.  .+.+...+..+...
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            345566666677777777777777766543 224556666666777777777777777776653  23346666777777


Q ss_pred             HHHcCCHHHHHHHHHhC-CCCC-CHhHH--HHHHHHHHhcCCHhHHHHHHHHHhc
Q 008280          345 LGRAGKLVEAVDLIKKM-PFKP-QPAIF--GTLLSACRVHKRLDLAEFAAMNLFN  395 (571)
Q Consensus       345 ~~~~g~~~~A~~~~~~~-~~~p-~~~~~--~~l~~~~~~~g~~~~a~~~~~~~~~  395 (571)
                      |.+.|++++|.+.|++. ...| +...+  ..++..+...|++++|...+++...
T Consensus        91 ~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  145 (166)
T 1a17_A           91 NMALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRS  145 (166)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHcccchHH
Confidence            77777777777777665 1112 33344  3333335667777777777766543

>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=98.38  E-value=7.1e-05  Score=71.30  Aligned_cols=229  Identities=11%  Similarity=0.060  Sum_probs=132.1

Q ss_pred             HcCChh-HHHHHHHHHHHCCCCCCHhH-HHHHHHHHhccCc----------hHHHHHHHHHHHhCCCCCCcchHHHHHHH
Q 008280          175 ENSWAE-DGLKLLRMMIGLGIRPNASS-LSSVLLGCSHLSS----------LQLGKQVHQLVFKSPLCKDTTALTPLISM  242 (571)
Q Consensus       175 ~~g~~~-~A~~~~~~m~~~g~~pd~~t-~~~ll~~~~~~~~----------~~~a~~~~~~~~~~g~~~~~~~~~~li~~  242 (571)
                      +.|.++ +|++++..+...  .|+..| |+.--..+...+.          ++++..++..++... +.+..+|+.-.-.
T Consensus        41 ~~~e~s~eaL~~t~~~L~~--nP~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~-PKny~aW~hR~wl  117 (331)
T 3dss_A           41 QAGELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWL  117 (331)
T ss_dssp             HTTCCSHHHHHHHHHHHTT--CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HcCCCCHHHHHHHHHHHHH--CchhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            445544 577777777654  343332 3322222221111          456666666666654 4566667666666


Q ss_pred             HHhcC--CHHHHHHHHHhhCC---CChhhHHHHHHHHHHcCC-hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc----
Q 008280          243 YCKCG--DLEDACKLFLEIQR---KDVVTWNAMISGYAQHGK-GEKALRLFDKMKDEGMKPDSITFVALLLACNHA----  312 (571)
Q Consensus       243 y~~~g--~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~-~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~----  312 (571)
                      +.+.|  .+++++.+++.+.+   +|..+|+.-.......|. ++++++.+.++.+..+ -|...|+.......+.    
T Consensus       118 L~~l~~~~~~~EL~~~~k~l~~dprNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~p-~N~SAW~~R~~ll~~l~~~~  196 (331)
T 3dss_A          118 LSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNF-SNYSSWHYRSCLLPQLHPQP  196 (331)
T ss_dssp             HHHCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHHSCCC
T ss_pred             HhccCcccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHhhhcc
Confidence            66666  37788888777763   466777777777777777 4788888888877653 3566666555444443    


Q ss_pred             ----------CcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHc-----------CCHHHHHHHHHhC-CCCCCHhHH
Q 008280          313 ----------GLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRA-----------GKLVEAVDLIKKM-PFKPQPAIF  370 (571)
Q Consensus       313 ----------g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~-----------g~~~~A~~~~~~~-~~~p~~~~~  370 (571)
                                +.++++.+++...+..  .+-|...|+.+--.+.+.           +.++++++.++++ ...||. .|
T Consensus       197 ~~~~~~~~~~~~~~eEle~~~~ai~~--~P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~~pd~-~w  273 (331)
T 3dss_A          197 DSGPQGRLPENVLLKELELVQNAFFT--DPNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQELEPEN-KW  273 (331)
T ss_dssp             ------CCCHHHHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHHCTTC-HH
T ss_pred             ccccccccchHHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHhhCccc-ch
Confidence                      4566777777776653  344566666555555444           3466666666665 233443 33


Q ss_pred             HHHHHHH-----HhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHH
Q 008280          371 GTLLSAC-----RVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANI  411 (571)
Q Consensus       371 ~~l~~~~-----~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~  411 (571)
                      ..+..+.     ...|..++....+.++.+++|.... -|..|...
T Consensus       274 ~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~Dp~r~~-~y~d~~~~  318 (331)
T 3dss_A          274 CLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAA-YLDDLRSK  318 (331)
T ss_dssp             HHHHHHHHHHHHCTTTTHHHHHHHHHHHHHHCGGGHH-HHHHHHHH
T ss_pred             HHHHHHHHHHhhcccccHHHHHHHHHHHHHhCcchhh-HHHHHHHH
Confidence            3222211     1345666777777777777776654 55444433

>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=98.36  E-value=2.9e-06  Score=67.51  Aligned_cols=98  Identities=9%  Similarity=0.092  Sum_probs=86.6

Q ss_pred             ChHhHHHHHHHHHHcCCHHHHHHHHHhC-CC-CCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHH
Q 008280          334 KPDHYTCMVDLLGRAGKLVEAVDLIKKM-PF-KPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANI  411 (571)
Q Consensus       334 ~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~  411 (571)
                      ....+..+...+...|++++|.+.|++. .. +.+...|..+...+...|++++|...++++++..|+++. .+..++.+
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            3556778889999999999999999987 22 246788899999999999999999999999999999988 99999999


Q ss_pred             HhhccChhHHHHHHHHHHhCC
Q 008280          412 YAAMKKWDDVARIRLSMKENN  432 (571)
Q Consensus       412 ~~~~g~~~~a~~~~~~m~~~~  432 (571)
                      |...|++++|.+.++...+.+
T Consensus        82 ~~~~~~~~~A~~~~~~~~~~~  102 (118)
T 1elw_A           82 LEFLNRFEEAKRTYEEGLKHE  102 (118)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHhhHHHHHHHHHHHHHcC
Confidence            999999999999999887643

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.35  E-value=2.6e-06  Score=69.60  Aligned_cols=99  Identities=12%  Similarity=0.082  Sum_probs=88.4

Q ss_pred             CCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHH
Q 008280          332 AAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLA  409 (571)
Q Consensus       332 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~  409 (571)
                      +.+...+..+...+.+.|++++|.+.|++. ...| +...|..+...+...|++++|+..++++++..|+++. .+..++
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            344677888999999999999999999987 3334 5788999999999999999999999999999999988 999999


Q ss_pred             HHHhhccChhHHHHHHHHHHhC
Q 008280          410 NIYAAMKKWDDVARIRLSMKEN  431 (571)
Q Consensus       410 ~~~~~~g~~~~a~~~~~~m~~~  431 (571)
                      .+|...|++++|.+.+++..+.
T Consensus        92 ~~~~~~~~~~~A~~~~~~~~~~  113 (133)
T 2lni_A           92 AALEAMKDYTKAMDVYQKALDL  113 (133)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHh
Confidence            9999999999999999988764

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.35  E-value=3.2e-06  Score=67.98  Aligned_cols=97  Identities=18%  Similarity=0.175  Sum_probs=86.5

Q ss_pred             hHhHHHHHHHHHHcCCHHHHHHHHHhC-C-CCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHH
Q 008280          335 PDHYTCMVDLLGRAGKLVEAVDLIKKM-P-FKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIY  412 (571)
Q Consensus       335 ~~~~~~li~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~  412 (571)
                      ...+..+...+.+.|++++|.+.++++ . .+.+..+|..+...+...|++++|...++++++..|+++. ++..++.+|
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~la~~~   87 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAE-AWYNLGNAY   87 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH-HHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCccHH-HHHHHHHHH
Confidence            567888899999999999999999887 2 2245788999999999999999999999999999999887 999999999


Q ss_pred             hhccChhHHHHHHHHHHhCC
Q 008280          413 AAMKKWDDVARIRLSMKENN  432 (571)
Q Consensus       413 ~~~g~~~~a~~~~~~m~~~~  432 (571)
                      ...|++++|...++++.+..
T Consensus        88 ~~~~~~~~A~~~~~~~~~~~  107 (125)
T 1na0_A           88 YKQGDYDEAIEYYQKALELD  107 (125)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC
T ss_pred             HHhcCHHHHHHHHHHHHHhC
Confidence            99999999999999887643

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.35  E-value=2.8e-06  Score=70.83  Aligned_cols=100  Identities=16%  Similarity=0.004  Sum_probs=74.5

Q ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHHHH
Q 008280          301 TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFK-PQPAIFGTLLSACR  378 (571)
Q Consensus       301 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~  378 (571)
                      .+..+...+...|++++|...|+.....  -+.+...|..+..+|.+.|++++|+..|++. ... .++..|..+..++.
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            4455566677778888888888777653  2345667777778888888888888888776 122 34567778888888


Q ss_pred             hcCCHhHHHHHHHHHhccCCCCCc
Q 008280          379 VHKRLDLAEFAAMNLFNLNPANAA  402 (571)
Q Consensus       379 ~~g~~~~a~~~~~~~~~~~p~~~~  402 (571)
                      ..|++++|+..+++++++.|+++.
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            999999999999999998888775

>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=98.35  E-value=1.5e-06  Score=82.05  Aligned_cols=188  Identities=7%  Similarity=-0.048  Sum_probs=98.7

Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHH
Q 008280          163 LVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISM  242 (571)
Q Consensus       163 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~  242 (571)
                      ...+..+...+.+.|++++|+..|++..... +.+...+..+..++...|++++|...++.+++.. +.+...+..+..+
T Consensus         4 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~   81 (281)
T 2c2l_A            4 AQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQC   81 (281)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            3445555566666666666666666655532 2244455555555666666666666666666553 3445566667777


Q ss_pred             HHhcCCHHHHHHHHHhhCCC---ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHH
Q 008280          243 YCKCGDLEDACKLFLEIQRK---DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGI  319 (571)
Q Consensus       243 y~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~  319 (571)
                      |.+.|++++|...|++..+.   +...+...+....+.   .++.. +.........++..... .+..+ ..|+.++|.
T Consensus        82 ~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~---~~~~~-~~~~~~~~~~~~~~i~~-~l~~l-~~~~~~~A~  155 (281)
T 2c2l_A           82 QLEMESYDEAIANLQRAYSLAKEQRLNFGDDIPSALRI---AKKKR-WNSIEERRIHQESELHS-YLTRL-IAAEREREL  155 (281)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCCCCSHHHHHHHH---HHHHH-HHHHHHTCCCCCCHHHH-HHHHH-HHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCccchhhHHHHHHHHHHH---HHHHH-HHHHHHHHHhhhHHHHH-HHHHH-HHHHHHHHH
Confidence            77777777777777665421   111111111111111   11111 11122222333333322 22222 257888888


Q ss_pred             HHHHHhHHhcCCCCC-hHhHHHHHHHHHHc-CCHHHHHHHHHhC
Q 008280          320 QYFDSMVNDYGIAAK-PDHYTCMVDLLGRA-GKLVEAVDLIKKM  361 (571)
Q Consensus       320 ~~~~~~~~~~~~~~~-~~~~~~li~~~~~~-g~~~~A~~~~~~~  361 (571)
                      +.++...+   ..|+ ......+...+.+. +.+++|.++|+++
T Consensus       156 ~~~~~al~---~~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a  196 (281)
T 2c2l_A          156 EECQRNHE---GHEDDGHIRAQQACIEAKHDKYMADMDELFSQV  196 (281)
T ss_dssp             TTTSGGGT---TTSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHS
T ss_pred             HHHHhhhc---cccchhhhhhHHHHHHHHHHHHHHHHHHHHHhh
Confidence            88877664   3444 33444555555555 6788889999877

>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=98.33  E-value=4.7e-05  Score=72.93  Aligned_cols=214  Identities=11%  Similarity=0.065  Sum_probs=156.3

Q ss_pred             CchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcC-CHHHHHHHHHhhCC---CChhhHHHHHHHHHHc-C-ChHHHHH
Q 008280          212 SSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCG-DLEDACKLFLEIQR---KDVVTWNAMISGYAQH-G-KGEKALR  285 (571)
Q Consensus       212 ~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g-~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~-g-~~~~A~~  285 (571)
                      +..++|..+.+.++... +.+..+|+.-...+...| .+++++++++.+..   ++..+|+.-...+... + +++++++
T Consensus        68 e~se~AL~lt~~~L~~n-P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPKny~aW~hR~wlL~~l~~~~~~~EL~  146 (349)
T 3q7a_A           68 EKSERALELTEIIVRMN-PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLKSYQVWHHRLLLLDRISPQDPVSEIE  146 (349)
T ss_dssp             CCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHCCSCCHHHHH
T ss_pred             CCCHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhcCCChHHHHH
Confidence            34467888888888876 556777888888888888 59999999998874   4677898888888777 7 8999999


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhcCcHH--------HHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCC-------
Q 008280          286 LFDKMKDEGMKPDSITFVALLLACNHAGLVD--------LGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGK-------  350 (571)
Q Consensus       286 ~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~--------~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~-------  350 (571)
                      +++++.+.. +-|..+|..-.....+.|.++        ++.+++.++++.  .+-+...|+....++.+.++       
T Consensus       147 ~~~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~--dp~N~SAW~~R~~lL~~l~~~~~~~~~  223 (349)
T 3q7a_A          147 YIHGSLLPD-PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRV--DGRNNSAWGWRWYLRVSRPGAETSSRS  223 (349)
T ss_dssp             HHHHHTSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHTTSTTCCCCHHH
T ss_pred             HHHHHHHhC-CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhccccccchHH
Confidence            999998764 336677776655555555555        889999998874  35567788888888888776       


Q ss_pred             HHHHHHHHHhC-C-CCCCHhHHHHHHHHHHhcCCH--------------------hHHHHHHHHHhccC------CCCCc
Q 008280          351 LVEAVDLIKKM-P-FKPQPAIFGTLLSACRVHKRL--------------------DLAEFAAMNLFNLN------PANAA  402 (571)
Q Consensus       351 ~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~g~~--------------------~~a~~~~~~~~~~~------p~~~~  402 (571)
                      ++++++.++++ . ..-|...|+.+-..+...|+.                    .........+....      +..+.
T Consensus       224 ~~eELe~~~~aI~~~P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~  303 (349)
T 3q7a_A          224 LQDELIYILKSIHLIPHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTPLPVPL  303 (349)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSSCCSCCHH
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccccccCCCcHH
Confidence            68888888776 2 224678998888888777664                    22333333333322      34444


Q ss_pred             hhHHHHHHHHhhccChhHHHHHHHHHHh
Q 008280          403 GCYVQLANIYAAMKKWDDVARIRLSMKE  430 (571)
Q Consensus       403 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~  430 (571)
                       +...|+++|...|+.++|.++++.+.+
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             777999999999999999999999864

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.32  E-value=9.7e-06  Score=67.58  Aligned_cols=109  Identities=14%  Similarity=-0.031  Sum_probs=66.7

Q ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCC----hHhHHHHHHHHHHcCCHHHHHHHHHhC-CCC-CCHhHHHHH
Q 008280          300 ITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAK----PDHYTCMVDLLGRAGKLVEAVDLIKKM-PFK-PQPAIFGTL  373 (571)
Q Consensus       300 ~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l  373 (571)
                      ..+..+...+...|++++|...|++..+   ..|+    ...+..+...|...|++++|++.+++. ... .+...|..+
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            3444445555555555555555555543   2333    445555666666666666666666554 112 245667777


Q ss_pred             HHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHH
Q 008280          374 LSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIY  412 (571)
Q Consensus       374 ~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~  412 (571)
                      ..++...|++++|...++++++.+|++.. .+..+..+.
T Consensus       106 a~~~~~~~~~~~A~~~~~~al~~~p~~~~-~~~~l~~~~  143 (148)
T 2dba_A          106 SQALEKLGRLDQAVLDLQRCVSLEPKNKV-FQEALRNIS  143 (148)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHCSSCHH-HHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHcCCCcHH-HHHHHHHHH
Confidence            77788888888888888888888887765 555555544

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.32  E-value=5.5e-06  Score=70.95  Aligned_cols=109  Identities=11%  Similarity=-0.059  Sum_probs=84.2

Q ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHH
Q 008280          299 SITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSA  376 (571)
Q Consensus       299 ~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~  376 (571)
                      ...+..+...+...|++++|...|++..+.  .+.+...|..+..+|.+.|++++|++.|++. ...| +...|..+..+
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            345666677777788888888888777753  2335677788888888888888888888776 2223 47788999999


Q ss_pred             HHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHH
Q 008280          377 CRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLAN  410 (571)
Q Consensus       377 ~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~  410 (571)
                      +...|++++|+..|+++++++|++.. .+...+.
T Consensus        89 ~~~~g~~~~A~~~~~~al~~~p~~~~-~~~~~~l  121 (164)
T 3sz7_A           89 RFDMADYKGAKEAYEKGIEAEGNGGS-DAMKRGL  121 (164)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHSSSCC-HHHHHHH
T ss_pred             HHHccCHHHHHHHHHHHHHhCCCchH-HHHHHHH
Confidence            99999999999999999999999987 6655443

>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=98.32  E-value=4.1e-06  Score=68.07  Aligned_cols=108  Identities=9%  Similarity=-0.080  Sum_probs=71.3

Q ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHH
Q 008280          301 TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACR  378 (571)
Q Consensus       301 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~  378 (571)
                      .+..+...+...|++++|...|++..+.  .+.+...|..+..+|.+.|++++|++.+++. ...| +...|..+..++.
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            4455555666666777777666666552  2334566666777777777777777777665 2223 4567777888888


Q ss_pred             hcCCHhHHHHHHHHHhccC------CCCCchhHHHHHHH
Q 008280          379 VHKRLDLAEFAAMNLFNLN------PANAAGCYVQLANI  411 (571)
Q Consensus       379 ~~g~~~~a~~~~~~~~~~~------p~~~~~~~~~l~~~  411 (571)
                      ..|++++|+..++++++++      |++.. ....+..+
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            8888888888888888877      76655 55555444

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.31  E-value=2.3e-06  Score=69.70  Aligned_cols=91  Identities=15%  Similarity=0.088  Sum_probs=63.7

Q ss_pred             HHHHHHHHcCCHHHHHHHHHhC-CCCCC-H---hHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCC---CchhHHHHHHH
Q 008280          340 CMVDLLGRAGKLVEAVDLIKKM-PFKPQ-P---AIFGTLLSACRVHKRLDLAEFAAMNLFNLNPAN---AAGCYVQLANI  411 (571)
Q Consensus       340 ~li~~~~~~g~~~~A~~~~~~~-~~~p~-~---~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~---~~~~~~~l~~~  411 (571)
                      .+...+.+.|++++|.+.|++. ...|+ .   ..+..+..++...|++++|...++++++..|++   +. ++..++.+
T Consensus         7 ~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~-~~~~la~~   85 (129)
T 2xev_A            7 NVAFDALKNGKYDDASQLFLSFLELYPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAG-GLLKLGLS   85 (129)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHH-HHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHH-HHHHHHHH
Confidence            4455666777777777777665 11122 2   366667777778888888888888888877777   44 67778888


Q ss_pred             HhhccChhHHHHHHHHHHhC
Q 008280          412 YAAMKKWDDVARIRLSMKEN  431 (571)
Q Consensus       412 ~~~~g~~~~a~~~~~~m~~~  431 (571)
                      |...|++++|...++...+.
T Consensus        86 ~~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           86 QYGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHH
Confidence            88888888888888777653

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.31  E-value=4.8e-06  Score=69.53  Aligned_cols=98  Identities=8%  Similarity=0.007  Sum_probs=88.4

Q ss_pred             CChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC----HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHH
Q 008280          333 AKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQ----PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQ  407 (571)
Q Consensus       333 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~  407 (571)
                      .+...+..+...+.+.|++++|.+.|++. ...|+    ...|..+...+...|++++|+..++++++..|+++. .+..
T Consensus        26 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~  104 (148)
T 2dba_A           26 SSVEQLRKEGNELFKCGDYGGALAAYTQALGLDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVK-ALYR  104 (148)
T ss_dssp             CCHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHH-HHHH
T ss_pred             HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHH-HHHH
Confidence            35677888999999999999999999987 45576    678888999999999999999999999999999988 9999


Q ss_pred             HHHHHhhccChhHHHHHHHHHHhC
Q 008280          408 LANIYAAMKKWDDVARIRLSMKEN  431 (571)
Q Consensus       408 l~~~~~~~g~~~~a~~~~~~m~~~  431 (571)
                      ++.+|...|++++|.+.+++..+.
T Consensus       105 ~a~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A          105 RSQALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHc
Confidence            999999999999999999988764

>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=98.25  E-value=7.9e-06  Score=67.30  Aligned_cols=100  Identities=7%  Similarity=-0.119  Sum_probs=69.4

Q ss_pred             CHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCC-CCHhHHHHHHH
Q 008280          298 DSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFK-PQPAIFGTLLS  375 (571)
Q Consensus       298 ~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~  375 (571)
                      +...+..+...+...|++++|...|....+.  .+.+...+..+..+|...|++++|...+++. ... .+...|..+..
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            4556666666677777777777777766653  2334566677777777777777777777665 112 34667777888


Q ss_pred             HHHhcCCHhHHHHHHHHHhccCCC
Q 008280          376 ACRVHKRLDLAEFAAMNLFNLNPA  399 (571)
Q Consensus       376 ~~~~~g~~~~a~~~~~~~~~~~p~  399 (571)
                      ++...|++++|+..+++++++.|+
T Consensus        86 ~~~~~~~~~~A~~~~~~a~~~~p~  109 (137)
T 3q49_B           86 CQLEMESYDEAIANLQRAYSLAKE  109 (137)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHHChh
Confidence            888888888888888888887776

>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=98.25  E-value=4.3e-06  Score=68.18  Aligned_cols=95  Identities=6%  Similarity=-0.036  Sum_probs=77.1

Q ss_pred             HhHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCc------hhHHH
Q 008280          336 DHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA------GCYVQ  407 (571)
Q Consensus       336 ~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~------~~~~~  407 (571)
                      ..+..+...+.+.|++++|++.|++. .+.| +...|..+..+|...|++++|+..++++++++|++..      .+|..
T Consensus         9 ~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~   88 (127)
T 4gcn_A            9 IAEKDLGNAAYKQKDFEKAHVHYDKAIELDPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSR   88 (127)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHH
Confidence            35566788888888888888888876 2233 4678888999999999999999999999998887643      25677


Q ss_pred             HHHHHhhccChhHHHHHHHHHHh
Q 008280          408 LANIYAAMKKWDDVARIRLSMKE  430 (571)
Q Consensus       408 l~~~~~~~g~~~~a~~~~~~m~~  430 (571)
                      ++.+|...|++++|++.|++..+
T Consensus        89 lg~~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           89 AGNAFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHh
Confidence            88889999999999999987765

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.24  E-value=2e-05  Score=63.86  Aligned_cols=114  Identities=18%  Similarity=0.101  Sum_probs=56.9

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHH
Q 008280          266 TWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLL  345 (571)
Q Consensus       266 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~  345 (571)
                      .|..+...+...|++++|+..|++..... +.+...+..+...+...|++++|...+....+.  .+.+...+..+...|
T Consensus        14 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~   90 (131)
T 2vyi_A           14 RLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICI--DPAYSKAYGRMGLAL   90 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhc--CccCHHHHHHHHHHH
Confidence            44445555555555555555555554432 223444555555555555555555555555442  122344555555555


Q ss_pred             HHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCC
Q 008280          346 GRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKR  382 (571)
Q Consensus       346 ~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~  382 (571)
                      .+.|++++|.+.|++. ...| +...+..+...+...|+
T Consensus        91 ~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~  129 (131)
T 2vyi_A           91 SSLNKHVEAVAYYKKALELDPDNETYKSNLKIAELKLRE  129 (131)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTT
T ss_pred             HHhCCHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHhc
Confidence            5556666655555544 1112 34445555555544443

>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=98.24  E-value=1.3e-05  Score=81.39  Aligned_cols=95  Identities=15%  Similarity=0.101  Sum_probs=76.4

Q ss_pred             hHhHHHHHHHHHHcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHH
Q 008280          335 PDHYTCMVDLLGRAGKLVEAVDLIKKM-PFK-PQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIY  412 (571)
Q Consensus       335 ~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~  412 (571)
                      ...|..+..+|.+.|++++|+..+++. ... .+...|..+..+|...|++++|+..|+++++++|++.. ++..++.++
T Consensus       317 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~~~~-a~~~l~~~~  395 (457)
T 1kt0_A          317 LAAFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKA-ARLQISMCQ  395 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC----C-HHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHH-HHHHHHHHH
Confidence            467788888899999999999998887 222 35788999999999999999999999999999999998 999999999


Q ss_pred             hhccChhHHHH-HHHHHHh
Q 008280          413 AAMKKWDDVAR-IRLSMKE  430 (571)
Q Consensus       413 ~~~g~~~~a~~-~~~~m~~  430 (571)
                      .+.|+++++.+ .++.|..
T Consensus       396 ~~~~~~~~a~~~~~~~~f~  414 (457)
T 1kt0_A          396 KKAKEHNERDRRIYANMFK  414 (457)
T ss_dssp             HHHHHHHHHHHHHHHHC--
T ss_pred             HHHHHHHHHHHHHHHHHHh
Confidence            99999998775 4555543

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.23  E-value=7.7e-06  Score=69.85  Aligned_cols=64  Identities=14%  Similarity=0.076  Sum_probs=56.8

Q ss_pred             HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhC
Q 008280          367 PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKEN  431 (571)
Q Consensus       367 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  431 (571)
                      ...|..+..+|...|++++|+..++++++++|+++. +|..++.+|...|++++|...+++..+.
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            467888888899999999999999999999999988 9999999999999999999999887763

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.22  E-value=1.2e-05  Score=80.99  Aligned_cols=163  Identities=9%  Similarity=-0.060  Sum_probs=99.9

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHc-CCCCCHH----HHHHHHHHHHhcCcHHHHHHHHHHhHHhc---CCCC-ChHh
Q 008280          267 WNAMISGYAQHGKGEKALRLFDKMKDE-GMKPDSI----TFVALLLACNHAGLVDLGIQYFDSMVNDY---GIAA-KPDH  337 (571)
Q Consensus       267 ~~~li~~~~~~g~~~~A~~~~~~m~~~-g~~p~~~----t~~~ll~a~~~~g~~~~a~~~~~~~~~~~---~~~~-~~~~  337 (571)
                      +..++..|...|++++|.+.+.+.... +..++..    ..+.+-..+...|+.+++..++.......   +..+ ...+
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            456677777777777777777665431 1111221    12222233345677777777776654321   1111 2456


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHhC-----C--CCCC-HhHHHHHHHHHHhcCCHhHHHHHHHHHhccC---CCCC---ch
Q 008280          338 YTCMVDLLGRAGKLVEAVDLIKKM-----P--FKPQ-PAIFGTLLSACRVHKRLDLAEFAAMNLFNLN---PANA---AG  403 (571)
Q Consensus       338 ~~~li~~~~~~g~~~~A~~~~~~~-----~--~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~---p~~~---~~  403 (571)
                      +..++..|...|++++|..++++.     +  .++. ..++..++..|...|++++|...+++++...   |+++   ..
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            677788888888888888887765     1  1122 3567777788888888888888888776532   2221   11


Q ss_pred             hHHHHHHHHhhccChhHHHHHHHHHH
Q 008280          404 CYVQLANIYAAMKKWDDVARIRLSMK  429 (571)
Q Consensus       404 ~~~~l~~~~~~~g~~~~a~~~~~~m~  429 (571)
                      .+..++..+...|++++|...|....
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            45567777788888888887776554

>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=82.38  Aligned_cols=117  Identities=12%  Similarity=0.075  Sum_probs=59.3

Q ss_pred             HHHHHhcCCHHHHHHHHHhhCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHH
Q 008280          240 ISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVD  316 (571)
Q Consensus       240 i~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~  316 (571)
                      ...|.+.|++++|.+.|++..+   .+..+|..+..+|.+.|++++|+..+++..+.. +.+..++..+..++...|+++
T Consensus        13 g~~~~~~g~~~~A~~~~~~Al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~g~~~   91 (477)
T 1wao_1           13 ANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFR   91 (477)
T ss_dssp             SSSTTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHH
Confidence            3345556666666666665432   245556666666666666666666666665542 123445555555666666666


Q ss_pred             HHHHHHHHhHHhcCCCCChHhHHHHHHH--HHHcCCHHHHHHHHH
Q 008280          317 LGIQYFDSMVNDYGIAAKPDHYTCMVDL--LGRAGKLVEAVDLIK  359 (571)
Q Consensus       317 ~a~~~~~~~~~~~~~~~~~~~~~~li~~--~~~~g~~~~A~~~~~  359 (571)
                      +|.+.|++..+..  +.+...+..+..+  +.+.|++++|++.++
T Consensus        92 eA~~~~~~al~~~--p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           92 AALRDYETVVKVK--PHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHHS--TTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            6666666555421  1122333333333  455555555555555

>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=98.20  E-value=4.5e-06  Score=69.82  Aligned_cols=62  Identities=13%  Similarity=0.017  Sum_probs=55.9

Q ss_pred             hHHHHHHHHHHhcCCHhHHHHHHHHHhcc-------CCCCCchhH----HHHHHHHhhccChhHHHHHHHHHHh
Q 008280          368 AIFGTLLSACRVHKRLDLAEFAAMNLFNL-------NPANAAGCY----VQLANIYAAMKKWDDVARIRLSMKE  430 (571)
Q Consensus       368 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-------~p~~~~~~~----~~l~~~~~~~g~~~~a~~~~~~m~~  430 (571)
                      ..|..+..++...|++++|+..+++++++       +|++.. .|    ...+.++...|++++|+..|++..+
T Consensus        58 ~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd~~~-A~~~~~~~rG~aL~~lgr~eEAl~~y~kAle  130 (159)
T 2hr2_A           58 FCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGK-LWISAVYSRALALDGLGRGAEAMPEFKKVVE  130 (159)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHH-HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCchHH-HHHHHHHhHHHHHHHCCCHHHHHHHHHHHHh
Confidence            38888888889999999999999999888       999988 89    9999999999999999999998875

>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=98.20  E-value=1.1e-05  Score=65.35  Aligned_cols=92  Identities=10%  Similarity=0.022  Sum_probs=45.6

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHhC-C-CCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCC-------CchhHHHH
Q 008280          338 YTCMVDLLGRAGKLVEAVDLIKKM-P-FKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPAN-------AAGCYVQL  408 (571)
Q Consensus       338 ~~~li~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~-------~~~~~~~l  408 (571)
                      +..+...+...|++++|...|++. . .+.+...+..+...+...|++++|...++++++..|++       +. ++..+
T Consensus         7 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~-~~~~l   85 (131)
T 1elr_A            7 EKELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAK-AYARI   85 (131)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHH-HHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHH-HHHHH
Confidence            334444444455555555444443 1 11234444555555555555555555555555544433       33 45555


Q ss_pred             HHHHhhccChhHHHHHHHHHHh
Q 008280          409 ANIYAAMKKWDDVARIRLSMKE  430 (571)
Q Consensus       409 ~~~~~~~g~~~~a~~~~~~m~~  430 (571)
                      +.+|...|++++|.+.++...+
T Consensus        86 a~~~~~~~~~~~A~~~~~~~~~  107 (131)
T 1elr_A           86 GNSYFKEEKYKDAIHFYNKSLA  107 (131)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHH
Confidence            5555555555555555555544

>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=98.18  E-value=0.00034  Score=66.63  Aligned_cols=216  Identities=10%  Similarity=0.049  Sum_probs=156.2

Q ss_pred             cCch-HHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCC----------HHHHHHHHHhhC---CCChhhHHHHHHHHHH
Q 008280          211 LSSL-QLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGD----------LEDACKLFLEIQ---RKDVVTWNAMISGYAQ  276 (571)
Q Consensus       211 ~~~~-~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~----------~~~A~~~~~~~~---~~~~~~~~~li~~~~~  276 (571)
                      .|.+ ++|..+...++..+ +.+..+|+.--..+...|.          +++++.+++.+.   .++..+|+.-...+..
T Consensus        42 ~~e~s~eaL~~t~~~L~~n-P~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~PKny~aW~hR~wlL~~  120 (331)
T 3dss_A           42 AGELDESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLSR  120 (331)
T ss_dssp             TTCCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             cCCCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHhc
Confidence            3443 57888888888775 4455566654444444333          678888888776   3578899988888888


Q ss_pred             cCC--hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCc-HHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHc-----
Q 008280          277 HGK--GEKALRLFDKMKDEGMKPDSITFVALLLACNHAGL-VDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRA-----  348 (571)
Q Consensus       277 ~g~--~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~-~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~-----  348 (571)
                      .|+  +++++.+++++.+... -|..+|+.-.......|. ++++.+.+..+++.  .+.+...|+....++.+.     
T Consensus       121 l~~~~~~~EL~~~~k~l~~dp-rNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~--~p~N~SAW~~R~~ll~~l~~~~~  197 (331)
T 3dss_A          121 LPEPNWARELELCARFLEADE-RNFHCWDYRRFVAAQAAVAPAEELAFTDSLITR--NFSNYSSWHYRSCLLPQLHPQPD  197 (331)
T ss_dssp             CSSCCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHHSCCC-
T ss_pred             cCcccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHhhhccc
Confidence            884  8999999999998753 377788777777778887 68999999999874  355677787777776665     


Q ss_pred             ---------CCHHHHHHHHHhC--CCCCCHhHHHHHHHHHHhc-----------CCHhHHHHHHHHHhccCCCCCchhHH
Q 008280          349 ---------GKLVEAVDLIKKM--PFKPQPAIFGTLLSACRVH-----------KRLDLAEFAAMNLFNLNPANAAGCYV  406 (571)
Q Consensus       349 ---------g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~-----------g~~~~a~~~~~~~~~~~p~~~~~~~~  406 (571)
                               +.++++++.+++.  -.+-|...|+-+-..+...           +.++++++.++++++++|++.- .+.
T Consensus       198 ~~~~~~~~~~~~~eEle~~~~ai~~~P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~~pd~~w-~l~  276 (331)
T 3dss_A          198 SGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQELEPENKW-CLL  276 (331)
T ss_dssp             -----CCCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHHCTTCHH-HHH
T ss_pred             cccccccchHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHhhCcccch-HHH
Confidence                     4578888888776  1234678888776666554           4578999999999999999854 444


Q ss_pred             HHHHH---HhhccChhHHHHHHHHHHhC
Q 008280          407 QLANI---YAAMKKWDDVARIRLSMKEN  431 (571)
Q Consensus       407 ~l~~~---~~~~g~~~~a~~~~~~m~~~  431 (571)
                      .++..   ....|..++....+.++++-
T Consensus       277 ~~~~~~~~~~~~~~~~~~~~~l~~l~~~  304 (331)
T 3dss_A          277 TIILLMRALDPLLYEKETLQYFSTLKAV  304 (331)
T ss_dssp             HHHHHHHHHCTTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhcccccHHHHHHHHHHHHHh
Confidence            33332   22457777888888888763

>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=98.18  E-value=4.6e-06  Score=85.05  Aligned_cols=116  Identities=7%  Similarity=-0.037  Sum_probs=74.5

Q ss_pred             HHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHhH
Q 008280          308 ACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDL  385 (571)
Q Consensus       308 a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~  385 (571)
                      .+...|++++|.+.|++..+.  .+.+...|..+..+|.+.|++++|++.+++. ...| +...|..+..+|...|++++
T Consensus        15 ~~~~~g~~~~A~~~~~~Al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~g~~~e   92 (477)
T 1wao_1           15 DYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKFRA   92 (477)
T ss_dssp             STTTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHH
Confidence            344556666666666666542  2233566666666677777777777666665 2223 35677777777777788888


Q ss_pred             HHHHHHHHhccCCCCCchhHHHHHHH--HhhccChhHHHHHHH
Q 008280          386 AEFAAMNLFNLNPANAAGCYVQLANI--YAAMKKWDDVARIRL  426 (571)
Q Consensus       386 a~~~~~~~~~~~p~~~~~~~~~l~~~--~~~~g~~~~a~~~~~  426 (571)
                      |+..++++++++|++.. .+..++.+  +.+.|++++|.+.++
T Consensus        93 A~~~~~~al~~~p~~~~-~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           93 ALRDYETVVKVKPHDKD-AKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHSTTCTT-HHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHhCCCCHH-HHHHHHHHHHHHHHHHHHHHhcccc
Confidence            88888888777777776 77777766  777778888777776

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.18  E-value=1.1e-05  Score=63.32  Aligned_cols=99  Identities=14%  Similarity=0.031  Sum_probs=64.4

Q ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCC---CHhHHHHHHHH
Q 008280          301 TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP---QPAIFGTLLSA  376 (571)
Q Consensus       301 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p---~~~~~~~l~~~  376 (571)
                      .+..+...+...|++++|...+++..+.  .+.+...+..+...|.+.|++++|.+.+++. ...|   +...|..+...
T Consensus         8 ~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~~   85 (112)
T 2kck_A            8 EYYLEGVLQYDAGNYTESIDLFEKAIQL--DPEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKADA   85 (112)
T ss_dssp             GGGGHHHHHHSSCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHHHH
Confidence            3444555555666666666666665542  2334555666666666777777777766655 2223   46677778888


Q ss_pred             HHhc-CCHhHHHHHHHHHhccCCCCC
Q 008280          377 CRVH-KRLDLAEFAAMNLFNLNPANA  401 (571)
Q Consensus       377 ~~~~-g~~~~a~~~~~~~~~~~p~~~  401 (571)
                      +... |++++|+..+++++...|.++
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~~p~~~  111 (112)
T 2kck_A           86 LRYIEGKEVEAEIAEARAKLEHHHHH  111 (112)
T ss_dssp             HTTCSSCSHHHHHHHHHHGGGCCCCC
T ss_pred             HHHHhCCHHHHHHHHHHHhhcccCCC
Confidence            8888 888888888888888887654

>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=98.18  E-value=1.8e-05  Score=64.12  Aligned_cols=108  Identities=7%  Similarity=-0.048  Sum_probs=58.3

Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC----C-CCCC----HhHHHH
Q 008280          302 FVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM----P-FKPQ----PAIFGT  372 (571)
Q Consensus       302 ~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~----~-~~p~----~~~~~~  372 (571)
                      +..+...+...|++++|...|....+.  .+.+...+..+...|...|++++|...+++.    + ..++    ..+|..
T Consensus         7 ~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (131)
T 1elr_A            7 EKELGNDAYKKKDFDTALKHYDKAKEL--DPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYAR   84 (131)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHH
Confidence            333444444445555555555444432  1223444444555555555555555555444    1 0122    456667


Q ss_pred             HHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHh
Q 008280          373 LLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYA  413 (571)
Q Consensus       373 l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~  413 (571)
                      +...+...|++++|...++++++..|+ +. ....+..+..
T Consensus        85 la~~~~~~~~~~~A~~~~~~~~~~~~~-~~-~~~~l~~~~~  123 (131)
T 1elr_A           85 IGNSYFKEEKYKDAIHFYNKSLAEHRT-PD-VLKKCQQAEK  123 (131)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCCC-HH-HHHHHHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHhCCC-HH-HHHHHHHHHH
Confidence            777777788888888888888777773 33 5555555443

>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=98.17  E-value=2.6e-05  Score=75.62  Aligned_cols=131  Identities=12%  Similarity=0.014  Sum_probs=99.8

Q ss_pred             ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCC--------------HHHHHHHHHHHHhcCcHHHHHHHHHHhHHh
Q 008280          263 DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPD--------------SITFVALLLACNHAGLVDLGIQYFDSMVND  328 (571)
Q Consensus       263 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~--------------~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~  328 (571)
                      +...|..+...|.+.|++++|+..|++.........              ...+..+..++.+.|++++|...+++.++.
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            345677788888888888888888888876532211              467888888889999999999999888863


Q ss_pred             cCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHhHH-HHHHHHHhc
Q 008280          329 YGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLA-EFAAMNLFN  395 (571)
Q Consensus       329 ~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a-~~~~~~~~~  395 (571)
                        .+.+...|..+..+|...|++++|++.|++. ...| +...+..+...+...|+.++| ...++++++
T Consensus       226 --~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~~  293 (336)
T 1p5q_A          226 --DSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIRRQLAREKKLYANMFE  293 (336)
T ss_dssp             --CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             --CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence              2445778888899999999999999998877 2233 467888888888888888888 446666643

>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=98.15  E-value=4.2e-06  Score=74.24  Aligned_cols=146  Identities=10%  Similarity=0.006  Sum_probs=83.7

Q ss_pred             HHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCC---CCh----------------hh
Q 008280          206 LGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDV----------------VT  266 (571)
Q Consensus       206 ~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~----------------~~  266 (571)
                      ......|+++.+++.+....... ......+..+...|.+.|++++|...|++..+   .+.                ..
T Consensus        12 ~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~   90 (198)
T 2fbn_A           12 SGRENLYFQGAKKSIYDYTDEEK-VQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISC   90 (198)
T ss_dssp             ----------CCCSGGGCCHHHH-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHH
T ss_pred             hhhhhhhhccccCchhhCCHHHH-HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHH
Confidence            33445566666666554322211 12344577788899999999999999998753   232                56


Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHH
Q 008280          267 WNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLG  346 (571)
Q Consensus       267 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~  346 (571)
                      |..+..+|...|++++|+..+++..... +.+...+..+..++...|++++|...|+...+.  .+.+...+..+..++.
T Consensus        91 ~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~  167 (198)
T 2fbn_A           91 NLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASL--NPNNLDIRNSYELCVN  167 (198)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHH
Confidence            6666677777777777777777766542 234556666666667777777777777666542  1223455555555555


Q ss_pred             HcCCHHHHH
Q 008280          347 RAGKLVEAV  355 (571)
Q Consensus       347 ~~g~~~~A~  355 (571)
                      ..|+..++.
T Consensus       168 ~~~~~~~~~  176 (198)
T 2fbn_A          168 KLKEARKKD  176 (198)
T ss_dssp             HHHHHHC--
T ss_pred             HHHHHHHHH
Confidence            555554444

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.12  E-value=1.5e-05  Score=64.33  Aligned_cols=97  Identities=9%  Similarity=0.026  Sum_probs=64.1

Q ss_pred             HHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhc
Q 008280          303 VALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVH  380 (571)
Q Consensus       303 ~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~  380 (571)
                      ..+...+.+.|++++|...|+...+.  .+.+...|..+..++.+.|++++|+..|++. ...| +...|..+..++...
T Consensus        21 ~~~g~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~~~   98 (121)
T 1hxi_A           21 MEEGLSMLKLANLAEAALAFEAVCQK--EPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNE   98 (121)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHc
Confidence            34455666777777777777777653  2335666777777777777777777777766 2223 456777788888888


Q ss_pred             CCHhHHHHHHHHHhccCCCCC
Q 008280          381 KRLDLAEFAAMNLFNLNPANA  401 (571)
Q Consensus       381 g~~~~a~~~~~~~~~~~p~~~  401 (571)
                      |++++|+..++++++.+|++.
T Consensus        99 g~~~~A~~~~~~al~~~P~~~  119 (121)
T 1hxi_A           99 HNANAALASLRAWLLSQPQYE  119 (121)
T ss_dssp             HHHHHHHHHHHHHHC------
T ss_pred             CCHHHHHHHHHHHHHhCcCCC
Confidence            888888888888888888754

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.10  E-value=1.9e-06  Score=69.09  Aligned_cols=82  Identities=18%  Similarity=0.116  Sum_probs=51.1

Q ss_pred             cCCHHHHHHHHHhC-CC---CCC-HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHH
Q 008280          348 AGKLVEAVDLIKKM-PF---KPQ-PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVA  422 (571)
Q Consensus       348 ~g~~~~A~~~~~~~-~~---~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~  422 (571)
                      .|++++|+..|++. ..   .|+ ...|..+...+...|++++|+..++++++.+|+++. ++..++.+|...|++++|.
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~-~~~~l~~~~~~~g~~~~A~   81 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQA-LRVFYAMVLYNLGRYEQGV   81 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHHHTCHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchH-HHHHHHHHHHHcCCHHHHH
Confidence            35555566655554 22   122 355666666677777777777777777777777766 7777777777777777777


Q ss_pred             HHHHHHHh
Q 008280          423 RIRLSMKE  430 (571)
Q Consensus       423 ~~~~~m~~  430 (571)
                      ..+++..+
T Consensus        82 ~~~~~al~   89 (117)
T 3k9i_A           82 ELLLKIIA   89 (117)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            77766654

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.10  E-value=1.2e-05  Score=67.97  Aligned_cols=93  Identities=14%  Similarity=0.100  Sum_probs=54.5

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHhC----CCCCC----HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCC------CCCc
Q 008280          337 HYTCMVDLLGRAGKLVEAVDLIKKM----PFKPQ----PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNP------ANAA  402 (571)
Q Consensus       337 ~~~~li~~~~~~g~~~~A~~~~~~~----~~~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p------~~~~  402 (571)
                      .+..+...|...|++++|.+.+++.    +..++    ...+..+...+...|++++|...++++++..+      ....
T Consensus        51 ~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~  130 (164)
T 3ro3_A           51 AYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGR  130 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHH
Confidence            3444444555555555555554443    00011    23555666666777777777777776665321      1123


Q ss_pred             hhHHHHHHHHhhccChhHHHHHHHHHHh
Q 008280          403 GCYVQLANIYAAMKKWDDVARIRLSMKE  430 (571)
Q Consensus       403 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~  430 (571)
                       .+..++.+|...|++++|.+.+++..+
T Consensus       131 -~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A          131 -ACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             -HHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             -HHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence             567788888888888888888876653

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.09  E-value=3.5e-05  Score=62.55  Aligned_cols=96  Identities=13%  Similarity=0.025  Sum_probs=60.8

Q ss_pred             HHHHHHhcCcHHHHHHHHHHhHHhcCCCCCh---HhHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC----HhHHHHHHHH
Q 008280          305 LLLACNHAGLVDLGIQYFDSMVNDYGIAAKP---DHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQ----PAIFGTLLSA  376 (571)
Q Consensus       305 ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~l~~~  376 (571)
                      +...+...|++++|...|+.+.+..  +.+.   ..+..+..+|.+.|++++|.+.|++. ...|+    ...+..+..+
T Consensus         8 ~a~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~~   85 (129)
T 2xev_A            8 VAFDALKNGKYDDASQLFLSFLELY--PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLS   85 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC--SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHC--CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHHH
Confidence            3445555666666666666665431  1122   35556666666777777777766665 11122    4556677777


Q ss_pred             HHhcCCHhHHHHHHHHHhccCCCCCc
Q 008280          377 CRVHKRLDLAEFAAMNLFNLNPANAA  402 (571)
Q Consensus       377 ~~~~g~~~~a~~~~~~~~~~~p~~~~  402 (571)
                      +...|++++|...++++++..|+++.
T Consensus        86 ~~~~g~~~~A~~~~~~~~~~~p~~~~  111 (129)
T 2xev_A           86 QYGEGKNTEAQQTLQQVATQYPGSDA  111 (129)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTSHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHCCCChH
Confidence            88888888888888888888887654

>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=3.1e-05  Score=62.95  Aligned_cols=105  Identities=11%  Similarity=0.009  Sum_probs=54.1

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCC-hHhHHHHHHH
Q 008280          266 TWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAK-PDHYTCMVDL  344 (571)
Q Consensus       266 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~li~~  344 (571)
                      ++..+...+.+.|++++|+..|++..+.. +-+...|..+..++...|++++|...++..++.   .|+ ...+..+   
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~---~~~~~~~~~~~---   82 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEV---GRETRADYKLI---   82 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---HHHTTCCHHHH---
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHh---CcccchhhHHH---
Confidence            44455555555555555555555555432 123344455555555555555555555544431   111 0000000   


Q ss_pred             HHHcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCC
Q 008280          345 LGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPA  399 (571)
Q Consensus       345 ~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~  399 (571)
                                            ..+|..+..++...|++++|+..|++.++..|+
T Consensus        83 ----------------------a~~~~~lg~~~~~~~~~~~A~~~~~kal~~~~~  115 (127)
T 4gcn_A           83 ----------------------AKAMSRAGNAFQKQNDLSLAVQWFHRSLSEFRD  115 (127)
T ss_dssp             ----------------------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCC
T ss_pred             ----------------------HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcC
Confidence                                  124555666667777777777777777776664

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.05  E-value=4.1e-05  Score=77.63  Aligned_cols=125  Identities=9%  Similarity=0.039  Sum_probs=98.6

Q ss_pred             HHHhcCcHHHHHHHHHHhHHhcC--CCCC----hHhHHHHHHHHHHcCCHHHHHHHHHhC---------CCCCCH-hHHH
Q 008280          308 ACNHAGLVDLGIQYFDSMVNDYG--IAAK----PDHYTCMVDLLGRAGKLVEAVDLIKKM---------PFKPQP-AIFG  371 (571)
Q Consensus       308 a~~~~g~~~~a~~~~~~~~~~~~--~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~~---------~~~p~~-~~~~  371 (571)
                      .+...|++++|..++++..+...  +.|+    ..+++.|..+|...|++++|+.++++.         +..|+. .+++
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            35678999999998887765421  2222    557889999999999999999988876         334554 6889


Q ss_pred             HHHHHHHhcCCHhHHHHHHHHHhc-----cCCCCCc--hhHHHHHHHHhhccChhHHHHHHHHHHhCC
Q 008280          372 TLLSACRVHKRLDLAEFAAMNLFN-----LNPANAA--GCYVQLANIYAAMKKWDDVARIRLSMKENN  432 (571)
Q Consensus       372 ~l~~~~~~~g~~~~a~~~~~~~~~-----~~p~~~~--~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  432 (571)
                      .|...|...|++++|+.+++++++     ++|+.|.  .....|..++...|++++|..++.++++.-
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            999999999999999999999876     5787754  134477888899999999999999998643

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.04  E-value=2e-05  Score=66.60  Aligned_cols=96  Identities=13%  Similarity=0.007  Sum_probs=52.2

Q ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCC----hHhHHHHHHHHHHcCCHHHHHHHHHhC-------CCCC-CHh
Q 008280          301 TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAK----PDHYTCMVDLLGRAGKLVEAVDLIKKM-------PFKP-QPA  368 (571)
Q Consensus       301 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~~-------~~~p-~~~  368 (571)
                      ++..+...+...|++++|..+++...+...-.++    ...+..+...+...|++++|.+.+++.       +..+ ...
T Consensus        51 ~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~  130 (164)
T 3ro3_A           51 AYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGR  130 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHH
Confidence            3444445555555555555555554432110111    334555556666666666666665544       1111 124


Q ss_pred             HHHHHHHHHHhcCCHhHHHHHHHHHhcc
Q 008280          369 IFGTLLSACRVHKRLDLAEFAAMNLFNL  396 (571)
Q Consensus       369 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~  396 (571)
                      .+..+...+...|++++|...+++++++
T Consensus       131 ~~~~la~~~~~~g~~~~A~~~~~~a~~~  158 (164)
T 3ro3_A          131 ACWSLGNAYTALGNHDQAMHFAEKHLEI  158 (164)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            5666677777888888888888777654

>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=98.02  E-value=3.5e-05  Score=75.66  Aligned_cols=138  Identities=12%  Similarity=0.017  Sum_probs=98.5

Q ss_pred             hhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHH
Q 008280          265 VTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDL  344 (571)
Q Consensus       265 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~  344 (571)
                      ..|..+...+.+.|++++|+..|++..+.  .|...          .....       ....+  ..+.+...|..+..+
T Consensus       224 ~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~--~~~~~----------~~~~~-------~~~~~--~~~~~~~~~~nla~~  282 (370)
T 1ihg_A          224 EDLKNIGNTFFKSQNWEMAIKKYTKVLRY--VEGSR----------AAAED-------ADGAK--LQPVALSCVLNIGAC  282 (370)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HHHHH----------HHSCH-------HHHGG--GHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHH--hhcCc----------cccCh-------HHHHH--HHHHHHHHHHHHHHH
Confidence            34666666677777777777777665541  00000          00000       11100  012235678889999


Q ss_pred             HHHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHH
Q 008280          345 LGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVA  422 (571)
Q Consensus       345 ~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~  422 (571)
                      |.+.|++++|++.+++. ...| +...|..+..+|...|++++|+..++++++++|++.. .+..+..++...++.+++.
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 4444 4678899999999999999999999999999999988 8999999999888888776


Q ss_pred             HH
Q 008280          423 RI  424 (571)
Q Consensus       423 ~~  424 (571)
                      +.
T Consensus       362 k~  363 (370)
T 1ihg_A          362 KA  363 (370)
T ss_dssp             HC
T ss_pred             HH
Confidence            53

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.02  E-value=0.00013  Score=73.22  Aligned_cols=207  Identities=8%  Similarity=-0.026  Sum_probs=94.6

Q ss_pred             HHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCH
Q 008280          170 IAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDL  249 (571)
Q Consensus       170 i~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~  249 (571)
                      ...+.+.|++++|++.|.++.+.........        ...+..........           ..+..|+..|.+.|++
T Consensus        11 a~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~--------~~~~~~~~~~~~~~-----------~al~~l~~~y~~~~~~   71 (434)
T 4b4t_Q           11 ARRLVNEKQYNEAEQVYLSLLDKDSSQSSAA--------AGASVDDKRRNEQE-----------TSILELGQLYVTMGAK   71 (434)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHSCCCSSSBS--------SSSSBCSHHHHHHH-----------HHHHHHHHHHHHHTCH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcccchhH--------HHHHHHHHHhhhHH-----------HHHHHHHHHHHHCCCH
Confidence            4556778888888888888877532211100        00000000000000           0123445555555555


Q ss_pred             HHHHHHHHhhCC-----CCh----hhHHHHHHHHHHcCChHHHHHHHHHHHH----cCCCCC-HHHHHHHHHHHHhcCcH
Q 008280          250 EDACKLFLEIQR-----KDV----VTWNAMISGYAQHGKGEKALRLFDKMKD----EGMKPD-SITFVALLLACNHAGLV  315 (571)
Q Consensus       250 ~~A~~~~~~~~~-----~~~----~~~~~li~~~~~~g~~~~A~~~~~~m~~----~g~~p~-~~t~~~ll~a~~~~g~~  315 (571)
                      ++|.+.+..+.+     ++.    ...+.+...+...|+.++|..++++...    .+..+. ..++..+...+...|++
T Consensus        72 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~  151 (434)
T 4b4t_Q           72 DKLREFIPHSTEYMMQFAKSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQY  151 (434)
T ss_dssp             HHHHHHHHHTHHHHHTSCHHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccCh
Confidence            555555544331     000    1122222233334555555555554422    222222 22444555556666666


Q ss_pred             HHHHHHHHHhHHhcCCCC----ChHhHHHHHHHHHHcCCHHHHHHHHHhC-------CCCCC--HhHHHHHHHHHHhcCC
Q 008280          316 DLGIQYFDSMVNDYGIAA----KPDHYTCMVDLLGRAGKLVEAVDLIKKM-------PFKPQ--PAIFGTLLSACRVHKR  382 (571)
Q Consensus       316 ~~a~~~~~~~~~~~~~~~----~~~~~~~li~~~~~~g~~~~A~~~~~~~-------~~~p~--~~~~~~l~~~~~~~g~  382 (571)
                      ++|..+++.+.....-..    ....+..++.+|...|++++|..++++.       +..|.  ...+..+...+...|+
T Consensus       152 ~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~  231 (434)
T 4b4t_Q          152 KDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKD  231 (434)
T ss_dssp             HHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSC
T ss_pred             HHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHh
Confidence            666666555443211111    1345555566666666666666665544       11111  1234444444555666


Q ss_pred             HhHHHHHHHHHhc
Q 008280          383 LDLAEFAAMNLFN  395 (571)
Q Consensus       383 ~~~a~~~~~~~~~  395 (571)
                      +++|...+.++++
T Consensus       232 y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          232 YKTAFSYFFESFE  244 (434)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            6666666655543

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.01  E-value=2.2e-05  Score=66.92  Aligned_cols=78  Identities=19%  Similarity=0.070  Sum_probs=61.6

Q ss_pred             hHhHHHHHHHHHHcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHH
Q 008280          335 PDHYTCMVDLLGRAGKLVEAVDLIKKM-PFK-PQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIY  412 (571)
Q Consensus       335 ~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~  412 (571)
                      ...|..+..+|.+.|++++|+..+++. ... .+...|..+..++...|++++|...++++++++|+++......|..+.
T Consensus        63 ~~~~~nla~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~l~~~~  142 (162)
T 3rkv_A           63 IPLYANMSQCYLNIGDLHEAEETSSEVLKREETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNHPAAASVVAREMKIVT  142 (162)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcCCCCHHHHHHHHHHHH
Confidence            467788888899999999999888876 222 356788999999999999999999999999999998731444444443

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.00  E-value=1.4e-05  Score=77.52  Aligned_cols=148  Identities=10%  Similarity=-0.028  Sum_probs=83.0

Q ss_pred             hhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHH
Q 008280          264 VVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVD  343 (571)
Q Consensus       264 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~  343 (571)
                      ...|..+...+.+.|++++|+..|++....  .|+...       +...|+.+++...+.           ...|..+..
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~l~-----------~~~~~nla~  238 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALAVK-----------NPCHLNIAA  238 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHHHH-----------THHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHHHH-----------HHHHHHHHH
Confidence            456777788888889999999999987764  344432       223344444332221           236778888


Q ss_pred             HHHHcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHH-hhccChhH
Q 008280          344 LLGRAGKLVEAVDLIKKM-PFK-PQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIY-AAMKKWDD  420 (571)
Q Consensus       344 ~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~-~~~g~~~~  420 (571)
                      +|.+.|++++|+..+++. ... .+...|..+..+|...|++++|+..|+++++++|+++. ++..|..+. ...+..++
T Consensus       239 ~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~-a~~~L~~l~~~~~~~~~~  317 (338)
T 2if4_A          239 CLIKLKRYDEAIGHCNIVLTEEEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKA-IRRELRALAEQEKALYQK  317 (338)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC--------------------------
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHH-HHHHHHHHHHHHHHHHHH
Confidence            999999999999998877 222 35788999999999999999999999999999999887 888888774 44567777


Q ss_pred             HHHHHHHHHhCC
Q 008280          421 VARIRLSMKENN  432 (571)
Q Consensus       421 a~~~~~~m~~~~  432 (571)
                      +.+.|+.|....
T Consensus       318 a~~~~~~~l~~~  329 (338)
T 2if4_A          318 QKEMYKGIFKGK  329 (338)
T ss_dssp             ------------
T ss_pred             HHHHHHHhhCCC
Confidence            888888776543

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.99  E-value=3.9e-06  Score=66.22  Aligned_cols=92  Identities=11%  Similarity=-0.059  Sum_probs=73.6

Q ss_pred             ChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCC------CchhH
Q 008280          334 KPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFK-PQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPAN------AAGCY  405 (571)
Q Consensus       334 ~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~------~~~~~  405 (571)
                      +...+..+...+.+.|++++|++.|++. ... .+...|..+..++...|++++|+..++++++++|++      .. .+
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            4556777788888888888888888776 222 357788889999999999999999999999999998      55 77


Q ss_pred             HHHHHHHhhccChhHHHHHHH
Q 008280          406 VQLANIYAAMKKWDDVARIRL  426 (571)
Q Consensus       406 ~~l~~~~~~~g~~~~a~~~~~  426 (571)
                      ..++.++...|+.++|.+.++
T Consensus        82 ~~~~~~~~~~~~~~~a~~~~~  102 (111)
T 2l6j_A           82 YRLELAQGAVGSVQIPVVEVD  102 (111)
T ss_dssp             HHHHHHHHHHHCCCCCSSSSS
T ss_pred             HHHHHHHHHHHhHhhhHhHHH
Confidence            788888888887777765544

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=97.95  E-value=8.1e-06  Score=65.35  Aligned_cols=90  Identities=11%  Similarity=0.125  Sum_probs=58.8

Q ss_pred             cCcHHHHHHHHHHhHHhcC--CCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHhHHH
Q 008280          312 AGLVDLGIQYFDSMVNDYG--IAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAE  387 (571)
Q Consensus       312 ~g~~~~a~~~~~~~~~~~~--~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~  387 (571)
                      .|++++|...|++..+. +  -+.+...+..+..+|.+.|++++|++.|++. ...| +...+..+..++...|++++|+
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            45666666666666542 1  1223556667777777777777777777766 1223 4567777788888888888888


Q ss_pred             HHHHHHhccCCCCCc
Q 008280          388 FAAMNLFNLNPANAA  402 (571)
Q Consensus       388 ~~~~~~~~~~p~~~~  402 (571)
                      ..++++++..|+++.
T Consensus        82 ~~~~~al~~~p~~~~   96 (117)
T 3k9i_A           82 ELLLKIIAETSDDET   96 (117)
T ss_dssp             HHHHHHHHHHCCCHH
T ss_pred             HHHHHHHHhCCCcHH
Confidence            888888888887764

>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=97.94  E-value=0.00048  Score=71.53  Aligned_cols=169  Identities=8%  Similarity=-0.045  Sum_probs=131.7

Q ss_pred             CHHHHHHHHHhhCC---CChhhHHHHHHHHHHcCC----------hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC-
Q 008280          248 DLEDACKLFLEIQR---KDVVTWNAMISGYAQHGK----------GEKALRLFDKMKDEGMKPDSITFVALLLACNHAG-  313 (571)
Q Consensus       248 ~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~----------~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g-  313 (571)
                      ..++|.+.++.+..   .+..+|+.--..+...|+          ++++++.++++.+... -+..+|..-..++.+.| 
T Consensus        44 ~~eeal~~~~~~l~~nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~p-K~y~aW~hR~w~l~~l~~  122 (567)
T 1dce_A           44 LDESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNP-KSYGTWHHRCWLLSRLPE  122 (567)
T ss_dssp             CSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTCSS
T ss_pred             CCHHHHHHHHHHHHHCchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHccc
Confidence            34677888877663   355678877777777776          8899999999887653 36667877777788888 


Q ss_pred             -cHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcC-CHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhc---------
Q 008280          314 -LVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAG-KLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVH---------  380 (571)
Q Consensus       314 -~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~---------  380 (571)
                       +++++.+.++++.+.  -+-+...|+.-.-++.+.| .++++++.++++ ...| |...|+.....+...         
T Consensus       123 ~~~~~el~~~~k~l~~--d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~~~~~~  200 (567)
T 1dce_A          123 PNWARELELCARFLEA--DERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQ  200 (567)
T ss_dssp             CCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSC
T ss_pred             ccHHHHHHHHHHHHhh--ccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhhccccccccc
Confidence             779999999998874  3445777887777788888 889999998887 3333 567888877776653         


Q ss_pred             -----CCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhH
Q 008280          381 -----KRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDD  420 (571)
Q Consensus       381 -----g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~  420 (571)
                           +.++++.+.+.+++..+|++.. +|..+..++.+.|+.++
T Consensus       201 ~~~~~~~~~eel~~~~~ai~~~P~~~s-aW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          201 GRLPENVLLKELELVQNAFFTDPNDQS-AWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             CSSCHHHHHHHHHHHHHHHHHCSSCSH-HHHHHHHHHSCCCCCSC
T ss_pred             ccccHHHHHHHHHHHHHHHhhCCCCcc-HHHHHHHHHhcCCCccc
Confidence                 5579999999999999999998 99999999999988655

>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=97.93  E-value=2e-05  Score=65.89  Aligned_cols=66  Identities=11%  Similarity=-0.020  Sum_probs=51.9

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHhC--------CCCCC-HhHH----HHHHHHHHhcCCHhHHHHHHHHHhccCCCCCc
Q 008280          337 HYTCMVDLLGRAGKLVEAVDLIKKM--------PFKPQ-PAIF----GTLLSACRVHKRLDLAEFAAMNLFNLNPANAA  402 (571)
Q Consensus       337 ~~~~li~~~~~~g~~~~A~~~~~~~--------~~~p~-~~~~----~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~  402 (571)
                      .|..+..++.+.|++++|+..+++.        .+.|+ ...|    .....++...|++++|+..|+++++++|++..
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            5666666666666666666666554        23676 4688    89999999999999999999999999999876

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.90  E-value=2.7e-05  Score=75.54  Aligned_cols=153  Identities=12%  Similarity=0.019  Sum_probs=81.4

Q ss_pred             cchHHHHHHHHHhcCCHHHHHHHHHhhCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Q 008280          233 TTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHA  312 (571)
Q Consensus       233 ~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~  312 (571)
                      ...+..+...|.+.|++++|...|++....+....     .+...|+.+++...+.          ...|..+..++.+.
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~-----~~~~~~~~~~~~~~l~----------~~~~~nla~~~~~~  243 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAYMGDDF-----MFQLYGKYQDMALAVK----------NPCHLNIAACLIKL  243 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHHSCHHH-----HHTCCHHHHHHHHHHH----------THHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhccch-----hhhhcccHHHHHHHHH----------HHHHHHHHHHHHHc
Confidence            34577788999999999999999998654222111     1222333344433221          13677788888999


Q ss_pred             CcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-HhHHHHHHHH-HHhcCCHhHHHHH
Q 008280          313 GLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQ-PAIFGTLLSA-CRVHKRLDLAEFA  389 (571)
Q Consensus       313 g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~-~~~~g~~~~a~~~  389 (571)
                      |++++|...++..++.  .+.+...|..+..+|...|++++|++.|++. ...|+ ...+..|... ....+..+.+...
T Consensus       244 g~~~~A~~~~~~al~~--~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a~~~L~~l~~~~~~~~~~a~~~  321 (338)
T 2if4_A          244 KRYDEAIGHCNIVLTE--EEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELRALAEQEKALYQKQKEM  321 (338)
T ss_dssp             TCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC-----------------------------
T ss_pred             CCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999988863  2445778889999999999999999999887 34454 3455555544 3456677888999


Q ss_pred             HHHHhccCCCCCc
Q 008280          390 AMNLFNLNPANAA  402 (571)
Q Consensus       390 ~~~~~~~~p~~~~  402 (571)
                      |.++++..|+++.
T Consensus       322 ~~~~l~~~p~~~~  334 (338)
T 2if4_A          322 YKGIFKGKDEGGA  334 (338)
T ss_dssp             -------------
T ss_pred             HHHhhCCCCCCCC
Confidence            9999999988753

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.88  E-value=4.8e-05  Score=58.82  Aligned_cols=66  Identities=18%  Similarity=0.160  Sum_probs=60.8

Q ss_pred             CCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhC
Q 008280          365 PQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKEN  431 (571)
Q Consensus       365 p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  431 (571)
                      .+...|..+...+...|++++|+..|+++++++|+++. +|..++.+|...|++++|.+.+++..+.
T Consensus         5 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~-a~~~lg~~~~~~g~~~~A~~~~~~al~l   70 (100)
T 3ma5_A            5 EDPFTRYALAQEHLKHDNASRALALFEELVETDPDYVG-TYYHLGKLYERLDRTDDAIDTYAQGIEV   70 (100)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTH-HHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHH-HHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            35678999999999999999999999999999999998 9999999999999999999999987653

>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=97.86  E-value=0.00014  Score=73.64  Aligned_cols=95  Identities=16%  Similarity=0.042  Sum_probs=74.6

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHhC----CCCC-------------CHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCC
Q 008280          337 HYTCMVDLLGRAGKLVEAVDLIKKM----PFKP-------------QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPA  399 (571)
Q Consensus       337 ~~~~li~~~~~~g~~~~A~~~~~~~----~~~p-------------~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~  399 (571)
                      .+..+...|.+.|++++|+..|++.    +..+             ....|..+..+|.+.|++++|+..++++++++|+
T Consensus       270 ~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~  349 (457)
T 1kt0_A          270 IVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLDSA  349 (457)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCc
Confidence            3444455555555555555555544    1111             1478888999999999999999999999999999


Q ss_pred             CCchhHHHHHHHHhhccChhHHHHHHHHHHhCC
Q 008280          400 NAAGCYVQLANIYAAMKKWDDVARIRLSMKENN  432 (571)
Q Consensus       400 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  432 (571)
                      ++. +|..++.+|...|++++|...|++..+..
T Consensus       350 ~~~-a~~~~g~a~~~~g~~~~A~~~~~~al~l~  381 (457)
T 1kt0_A          350 NEK-GLYRRGEAQLLMNEFESAKGDFEKVLEVN  381 (457)
T ss_dssp             CHH-HHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             cHH-HHHHHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            988 99999999999999999999999988754

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.84  E-value=5.7e-05  Score=56.78  Aligned_cols=81  Identities=17%  Similarity=0.145  Sum_probs=64.0

Q ss_pred             hHhHHHHHHHHHHcCCHHHHHHHHHhC-CC-CCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHH
Q 008280          335 PDHYTCMVDLLGRAGKLVEAVDLIKKM-PF-KPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIY  412 (571)
Q Consensus       335 ~~~~~~li~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~  412 (571)
                      ...+..+...+.+.|++++|++.|++. .. +.+...|..+...+...|++++|...++++++.+|+++. .+..++.++
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~~~~-~~~~l~~~~   87 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAE-AKQNLGNAK   87 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH-HHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCHH-HHHHHHHHH
Confidence            456667777788888888888888766 11 235678888888899999999999999999999998887 888888887


Q ss_pred             hhcc
Q 008280          413 AAMK  416 (571)
Q Consensus       413 ~~~g  416 (571)
                      .+.|
T Consensus        88 ~~~g   91 (91)
T 1na3_A           88 QKQG   91 (91)
T ss_dssp             HHHC
T ss_pred             HhcC
Confidence            6654

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.73  E-value=6.2e-05  Score=59.77  Aligned_cols=76  Identities=12%  Similarity=0.051  Sum_probs=62.2

Q ss_pred             HHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHh
Q 008280          354 AVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  430 (571)
Q Consensus       354 A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  430 (571)
                      |++.|++. ...| +...|..+...+...|++++|+..++++++.+|+++. ++..++.+|...|++++|...+++..+
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            44445444 2233 4678888888999999999999999999999999887 899999999999999999999988765

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.67  E-value=7.6e-05  Score=75.66  Aligned_cols=116  Identities=10%  Similarity=0.015  Sum_probs=88.4

Q ss_pred             HHHHcCCHHHHHHHHHhC---------CCCCC-HhHHHHHHHHHHhcCCHhHHHHHHHHHhc-----cCCCCCc--hhHH
Q 008280          344 LLGRAGKLVEAVDLIKKM---------PFKPQ-PAIFGTLLSACRVHKRLDLAEFAAMNLFN-----LNPANAA--GCYV  406 (571)
Q Consensus       344 ~~~~~g~~~~A~~~~~~~---------~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-----~~p~~~~--~~~~  406 (571)
                      .+...|++++|+.++++.         +..|+ ..+++.|..+|...|++++|+.+++++++     ++|+.+.  .++.
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            456789999999988776         23344 36889999999999999999999999876     4566543  2677


Q ss_pred             HHHHHHhhccChhHHHHHHHHHHhCCCccCCceeEEEECCEEEEEecCCCCCcccHHHHHHHHHHHHHHHH
Q 008280          407 QLANIYAAMKKWDDVARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKL  477 (571)
Q Consensus       407 ~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~s~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~~~~m~~  477 (571)
                      .|+.+|...|++++|..++++..+.-..                  .-...||...++...+.+...++..
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~~------------------~lG~~Hp~~~~~~~~l~~~~~e~~~  450 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILLV------------------THGPSHPITKDLEAMRMQTEMELRM  450 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHH------------------HTCTTSHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHH------------------HhCCCChHHHHHHHHHHHHHHHHHH
Confidence            8999999999999999999887642111                  0123499999988888777766654

>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=97.66  E-value=4.3e-05  Score=63.71  Aligned_cols=86  Identities=7%  Similarity=-0.007  Sum_probs=61.7

Q ss_pred             HcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHHHHhcCC----------HhHHHHHHHHHhccCCCCCchhHHHHHHHHhh
Q 008280          347 RAGKLVEAVDLIKKM-PFK-PQPAIFGTLLSACRVHKR----------LDLAEFAAMNLFNLNPANAAGCYVQLANIYAA  414 (571)
Q Consensus       347 ~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~~~g~----------~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~  414 (571)
                      |.+.+++|++.+++. ... .+...|..+..++...++          +++|+..|+++++++|+... +|..++++|..
T Consensus        14 r~~~feeA~~~~~~Ai~l~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~~~-A~~~LG~ay~~   92 (158)
T 1zu2_A           14 RILLFEQIRQDAENTYKSNPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDE-AVWCIGNAYTS   92 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCcHH-HHHHHHHHHHH
Confidence            334455555555444 111 234555555555555444          56999999999999999998 99999999998


Q ss_pred             cc-----------ChhHHHHHHHHHHhCCC
Q 008280          415 MK-----------KWDDVARIRLSMKENNV  433 (571)
Q Consensus       415 ~g-----------~~~~a~~~~~~m~~~~~  433 (571)
                      .|           ++++|.+.|++..+.+.
T Consensus        93 lg~l~P~~~~a~g~~~eA~~~~~kAl~l~P  122 (158)
T 1zu2_A           93 FAFLTPDETEAKHNFDLATQFFQQAVDEQP  122 (158)
T ss_dssp             HHHHCCCHHHHHHHHHHHHHHHHHHHHHCT
T ss_pred             hcccCcchhhhhccHHHHHHHHHHHHHhCC
Confidence            75           89999999999887443

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.64  E-value=0.00038  Score=52.70  Aligned_cols=70  Identities=11%  Similarity=0.078  Sum_probs=61.3

Q ss_pred             CCCHhHHHHHHHHHHhcCC---HhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhCCCc
Q 008280          364 KPQPAIFGTLLSACRVHKR---LDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVV  434 (571)
Q Consensus       364 ~p~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  434 (571)
                      .+|+..+..+..++...++   .++|..+++++++++|+++. +...++..+...|++++|+..++++.+....
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~r-A~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p~   75 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEA-ALSLIANDHFISFRFQEAIDTWVLLLDSNDP   75 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHHTTCHHHHHHHHHHHHTCCCT
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHH-HHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            3567888888888765555   79999999999999999998 9999999999999999999999999886654

>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=97.64  E-value=0.00034  Score=68.51  Aligned_cols=117  Identities=7%  Similarity=-0.030  Sum_probs=64.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhhCC-------------------CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCC
Q 008280          236 LTPLISMYCKCGDLEDACKLFLEIQR-------------------KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMK  296 (571)
Q Consensus       236 ~~~li~~y~~~g~~~~A~~~~~~~~~-------------------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  296 (571)
                      +..+...|.+.|++++|...|++..+                   .+..+|..+..+|.+.|++++|+..+++..+.. +
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            55567777778888888877776543                   123455555556666666666666666555432 1


Q ss_pred             CCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHH
Q 008280          297 PDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAV  355 (571)
Q Consensus       297 p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  355 (571)
                      .+...+..+..++...|++++|...|++..+.  .+.+...+..+..++.+.++.+++.
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            23445555555556666666666666555542  1223444444455555544444443

>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=97.62  E-value=0.00017  Score=71.89  Aligned_cols=117  Identities=10%  Similarity=0.094  Sum_probs=86.2

Q ss_pred             HHHHHHcCCHHHHHHHHHhC---------CCCCC-HhHHHHHHHHHHhcCCHhHHHHHHHHHhc-----cCCCCCc--hh
Q 008280          342 VDLLGRAGKLVEAVDLIKKM---------PFKPQ-PAIFGTLLSACRVHKRLDLAEFAAMNLFN-----LNPANAA--GC  404 (571)
Q Consensus       342 i~~~~~~g~~~~A~~~~~~~---------~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-----~~p~~~~--~~  404 (571)
                      +.-+.+.|++++|++++++.         +..|+ ..+++.|..+|...|++++|+.+++++++     ++|+.|.  .+
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            44466778888888888765         11222 35788899999999999999999998875     4555432  26


Q ss_pred             HHHHHHHHhhccChhHHHHHHHHHHhCCCccCCceeEEEECCEEEEEecCCCCCcccHHHHHHHHHHHHHHH
Q 008280          405 YVQLANIYAAMKKWDDVARIRLSMKENNVVKMPGYSWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMK  476 (571)
Q Consensus       405 ~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~s~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~~~~m~  476 (571)
                      +..|+.+|...|++++|..++++..+--..                  .-...||...+++..+.+...+|+
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            778999999999999999999877642110                  012348999999888888887775

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.52  E-value=0.00023  Score=55.67  Aligned_cols=67  Identities=10%  Similarity=-0.028  Sum_probs=61.7

Q ss_pred             CCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhCC
Q 008280          365 PQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENN  432 (571)
Q Consensus       365 p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  432 (571)
                      ++...|..+...+...|++++|+..++++++.+|+++. .+..++.+|...|++++|.+.+++..+..
T Consensus         2 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~-~~~~lg~~~~~~g~~~~A~~~~~~al~~~   68 (111)
T 2l6j_A            2 SQFEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPV-GYSNKAMALIKLGEYTQAIQMCQQGLRYT   68 (111)
T ss_dssp             THHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHHTTCHHHHHHHHHHHHTSC
T ss_pred             chHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHH-HHHHHHHHHHHhcCHHHHHHHHHHHHHhC
Confidence            35678888999999999999999999999999999988 99999999999999999999999988654

>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=0.00015  Score=60.49  Aligned_cols=72  Identities=14%  Similarity=0.176  Sum_probs=43.6

Q ss_pred             HHHHHHHHhC-CCCCC-HhHHHHHHHHHHhc-----------CCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccCh
Q 008280          352 VEAVDLIKKM-PFKPQ-PAIFGTLLSACRVH-----------KRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKW  418 (571)
Q Consensus       352 ~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~-----------g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~  418 (571)
                      ++|+..|++. .+.|+ ...|..+..+|...           |++++|+..|+++++++|++.  .|...+..      .
T Consensus        63 ~eAi~~le~AL~ldP~~~~A~~~LG~ay~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l~P~~~--~y~~al~~------~  134 (158)
T 1zu2_A           63 QEAITKFEEALLIDPKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVDEQPDNT--HYLKSLEM------T  134 (158)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCTTCH--HHHHHHHH------H
T ss_pred             HHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhcccCcchhhhhccHHHHHHHHHHHHHhCCCCH--HHHHHHHH------H
Confidence            3555555544 22333 34555566665554           589999999999999999986  44433333      3


Q ss_pred             hHHHHHHHHHHhC
Q 008280          419 DDVARIRLSMKEN  431 (571)
Q Consensus       419 ~~a~~~~~~m~~~  431 (571)
                      ++|.+++-.+...
T Consensus       135 ~ka~el~~~~~~~  147 (158)
T 1zu2_A          135 AKAPQLHAEAYKQ  147 (158)
T ss_dssp             HTHHHHHHHHHHS
T ss_pred             HhCHhccCccccc
Confidence            4455555544443

>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=97.39  E-value=0.0041  Score=64.47  Aligned_cols=149  Identities=10%  Similarity=0.017  Sum_probs=120.2

Q ss_pred             CChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCc----------HHHHHHHHHHhHHhcCCCCChHhHHHHHHHHH
Q 008280          278 GKGEKALRLFDKMKDEGMKPD-SITFVALLLACNHAGL----------VDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLG  346 (571)
Q Consensus       278 g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~----------~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~  346 (571)
                      ...++|++.++++...+  |+ ...|+.--.++...|+          ++++...++.+.+.  .+.+..+|..-.-++.
T Consensus        43 ~~~eeal~~~~~~l~~n--P~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~--~pK~y~aW~hR~w~l~  118 (567)
T 1dce_A           43 ELDESVLELTSQILGAN--PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRV--NPKSYGTWHHRCWLLS  118 (567)
T ss_dssp             CCSHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHC--chhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHH
Confidence            34568899999998864  44 4556665556666666          89999999999874  3556778888888888


Q ss_pred             HcC--CHHHHHHHHHhC-C-CCCCHhHHHHHHHHHHhcC-CHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhc------
Q 008280          347 RAG--KLVEAVDLIKKM-P-FKPQPAIFGTLLSACRVHK-RLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAM------  415 (571)
Q Consensus       347 ~~g--~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~g-~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~------  415 (571)
                      +.|  +++++++.++++ . ...+...|+.-..++...| .++++++.++++++.+|.+.. +|...+.++.+.      
T Consensus       119 ~l~~~~~~~el~~~~k~l~~d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~s-aW~~r~~ll~~l~~~~~~  197 (567)
T 1dce_A          119 RLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYS-SWHYRSCLLPQLHPQPDS  197 (567)
T ss_dssp             TCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHH-HHHHHHHHHHHHSCCCCS
T ss_pred             HcccccHHHHHHHHHHHHhhccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCcc-HHHHHHHHHHhhcccccc
Confidence            999  779999999998 2 2346789999888888889 899999999999999999988 999999888774      


Q ss_pred             --------cChhHHHHHHHHHHhC
Q 008280          416 --------KKWDDVARIRLSMKEN  431 (571)
Q Consensus       416 --------g~~~~a~~~~~~m~~~  431 (571)
                              ++++++.+.++.....
T Consensus       198 ~~~~~~~~~~~~eel~~~~~ai~~  221 (567)
T 1dce_A          198 GPQGRLPENVLLKELELVQNAFFT  221 (567)
T ss_dssp             SSCCSSCHHHHHHHHHHHHHHHHH
T ss_pred             cccccccHHHHHHHHHHHHHHHhh
Confidence                    6678888888777653

>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=97.36  E-value=0.0015  Score=53.71  Aligned_cols=87  Identities=10%  Similarity=-0.135  Sum_probs=42.1

Q ss_pred             HHHHHcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHHh----cCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhh----
Q 008280          343 DLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRV----HKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAA----  414 (571)
Q Consensus       343 ~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~----  414 (571)
                      .+|...+.+++|.+.|++.-...++..+..|...|..    .+++++|...|+++.+.  .++. ++..|+.+|..    
T Consensus        33 ~~y~~g~~~~~A~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~--g~~~-a~~~Lg~~y~~G~g~  109 (138)
T 1klx_A           33 LVSNSQINKQKLFQYLSKACELNSGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGL--NDQD-GCLILGYKQYAGKGV  109 (138)
T ss_dssp             HHTCTTSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT--TCHH-HHHHHHHHHHHTSSS
T ss_pred             HHHHcCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHcC--CCHH-HHHHHHHHHHCCCCC
Confidence            3333333344444444433112234444444444444    45555555555555544  2233 55566666655    


Q ss_pred             ccChhHHHHHHHHHHhCC
Q 008280          415 MKKWDDVARIRLSMKENN  432 (571)
Q Consensus       415 ~g~~~~a~~~~~~m~~~~  432 (571)
                      .+++++|.+++++..+.|
T Consensus       110 ~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A          110 VKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             CCCHHHHHHHHHHHHHTT
T ss_pred             CcCHHHHHHHHHHHHHCC
Confidence            566666666666555544

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.35  E-value=0.016  Score=63.22  Aligned_cols=154  Identities=12%  Similarity=0.139  Sum_probs=96.7

Q ss_pred             HHHHcCCCHHHHHH-HHhhCCCCCcchHHHHHHHHHHcCChHHHHHHHhhCCCCChhHHHHHHHHHHhcCCHHHHHHHHh
Q 008280           78 SGFVQKKNMAKARD-LFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGKVDLAEKLFD  156 (571)
Q Consensus        78 ~~~~~~g~~~~A~~-~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  156 (571)
                      ......+++++|.+ ++..++  +......++..+.+.|.+++|+++.+     +.   ..-.......|++++|.++.+
T Consensus       607 ~~~~~~~~~~~a~~~~l~~i~--~~~~~~~~~~~l~~~~~~~~a~~~~~-----~~---~~~f~~~l~~~~~~~A~~~~~  676 (814)
T 3mkq_A          607 QTLTLRGEIEEAIENVLPNVE--GKDSLTKIARFLEGQEYYEEALNISP-----DQ---DQKFELALKVGQLTLARDLLT  676 (814)
T ss_dssp             HHHHHTTCHHHHHHHTGGGCC--CHHHHHHHHHHHHHTTCHHHHHHHCC-----CH---HHHHHHHHHHTCHHHHHHHHT
T ss_pred             hHHHHhCCHHHHHHHHHhcCC--chHHHHHHHHHHHhCCChHHheecCC-----Cc---chheehhhhcCCHHHHHHHHH
Confidence            33445677888777 554433  11123666677777788888776553     11   112345567888888888877


Q ss_pred             hCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchH
Q 008280          157 EMPTKNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTAL  236 (571)
Q Consensus       157 ~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~  236 (571)
                      .+.  +...|..+...+.+.|+++.|.+.|.++..         |..+...+...++.+....+-+.....|      -+
T Consensus       677 ~~~--~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a~~~~------~~  739 (814)
T 3mkq_A          677 DES--AEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDAETTG------KF  739 (814)
T ss_dssp             TCC--CHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHHHHTT------CH
T ss_pred             hhC--cHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHHHHcC------ch
Confidence            663  567888888888888888888888887642         3334444444666666655555555544      23


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHh
Q 008280          237 TPLISMYCKCGDLEDACKLFLE  258 (571)
Q Consensus       237 ~~li~~y~~~g~~~~A~~~~~~  258 (571)
                      +....+|.++|++++|.+++.+
T Consensus       740 ~~A~~~~~~~g~~~~a~~~~~~  761 (814)
T 3mkq_A          740 NLAFNAYWIAGDIQGAKDLLIK  761 (814)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHH
Confidence            4445556667777777666544

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=97.35  E-value=0.00016  Score=72.00  Aligned_cols=83  Identities=6%  Similarity=0.027  Sum_probs=63.3

Q ss_pred             cCCHHHHHHHHHhC---------CCCCCH-hHHHHHHHHHHhcCCHhHHHHHHHHHhc-----cCCCCCc--hhHHHHHH
Q 008280          348 AGKLVEAVDLIKKM---------PFKPQP-AIFGTLLSACRVHKRLDLAEFAAMNLFN-----LNPANAA--GCYVQLAN  410 (571)
Q Consensus       348 ~g~~~~A~~~~~~~---------~~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~-----~~p~~~~--~~~~~l~~  410 (571)
                      .|++++|+.++++.         +..|+. .+++.|..+|...|++++|+.+++++++     ++|+.+.  .++..|+.
T Consensus       311 ~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~  390 (433)
T 3qww_A          311 YKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGR  390 (433)
T ss_dssp             TSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHH
Confidence            46777777777654         223443 6788899999999999999999998875     4555432  26778999


Q ss_pred             HHhhccChhHHHHHHHHHHh
Q 008280          411 IYAAMKKWDDVARIRLSMKE  430 (571)
Q Consensus       411 ~~~~~g~~~~a~~~~~~m~~  430 (571)
                      +|..+|++++|..++++..+
T Consensus       391 ~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          391 LYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhccCHHHHHHHHHHHHH
Confidence            99999999999999987764

>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=97.32  E-value=0.0011  Score=54.50  Aligned_cols=112  Identities=14%  Similarity=-0.043  Sum_probs=86.8

Q ss_pred             CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHH----cCCHHH
Q 008280          278 GKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGR----AGKLVE  353 (571)
Q Consensus       278 g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~  353 (571)
                      +++++|+..|++..+.| .|+..    +...|...+.+++|.++|++..+.    -++..+..|..+|..    .+++++
T Consensus         9 ~d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~----g~~~a~~~Lg~~y~~G~g~~~d~~~   79 (138)
T 1klx_A            9 KDLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACEL----NSGNGCRFLGDFYENGKYVKKDLRK   79 (138)
T ss_dssp             HHHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHCSSSCCCHHH
T ss_pred             cCHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcC----CCHHHHHHHHHHHHcCCCCCccHHH
Confidence            46788888888888877 34444    566677777888888888888763    456777888888887    788999


Q ss_pred             HHHHHHhCCCCCCHhHHHHHHHHHHh----cCCHhHHHHHHHHHhccCC
Q 008280          354 AVDLIKKMPFKPQPAIFGTLLSACRV----HKRLDLAEFAAMNLFNLNP  398 (571)
Q Consensus       354 A~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~p  398 (571)
                      |.+.|++.-...++..+..|...|..    .++.++|...++++.+.+.
T Consensus        80 A~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           80 AAQYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence            99999887333567788888888887    8899999999999887754

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.31  E-value=0.00087  Score=52.92  Aligned_cols=81  Identities=7%  Similarity=-0.069  Sum_probs=51.9

Q ss_pred             HHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHHHHhcCCHhHHHHHHHHHhc
Q 008280          318 GIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFK-PQPAIFGTLLSACRVHKRLDLAEFAAMNLFN  395 (571)
Q Consensus       318 a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  395 (571)
                      +...|+...+  ..+.+...+..+...|.+.|++++|++.|++. ... .+...|..+..++...|++++|...++++++
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  12334566666777777777777777777665 112 3356777777777788888888888888777


Q ss_pred             cCCCC
Q 008280          396 LNPAN  400 (571)
Q Consensus       396 ~~p~~  400 (571)
                      +.|+.
T Consensus        82 ~~~~~   86 (115)
T 2kat_A           82 AAQSR   86 (115)
T ss_dssp             HHHHH
T ss_pred             hcccc
Confidence            76643

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.29  E-value=0.00058  Score=51.00  Aligned_cols=64  Identities=20%  Similarity=0.174  Sum_probs=59.3

Q ss_pred             HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhC
Q 008280          367 PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKEN  431 (571)
Q Consensus       367 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  431 (571)
                      ...|..+...+...|++++|+..++++++.+|+++. .+..++.+|...|++++|.+.+++..+.
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~-~~~~l~~~~~~~~~~~~A~~~~~~a~~~   72 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAE-AWYNLGNAYYKQGDYDEAIEYYQKALEL   72 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHH-HHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            567888889999999999999999999999999988 9999999999999999999999988764

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.14  E-value=0.0021  Score=52.93  Aligned_cols=90  Identities=13%  Similarity=0.055  Sum_probs=69.9

Q ss_pred             CCHhHHHHHHHHHHhcC---CHhHHHHHHHHHhccC-C-CCCchhHHHHHHHHhhccChhHHHHHHHHHHhCCCccCCce
Q 008280          365 PQPAIFGTLLSACRVHK---RLDLAEFAAMNLFNLN-P-ANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVVKMPGY  439 (571)
Q Consensus       365 p~~~~~~~l~~~~~~~g---~~~~a~~~~~~~~~~~-p-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~  439 (571)
                      ++..+...+..++.+.+   +.++|+.+++.+++.+ | +... .++.|+-+|.+.|++++|.+.++.+.+.        
T Consensus        30 ~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd-~lY~LAv~~~kl~~Y~~A~~y~~~lL~i--------  100 (152)
T 1pc2_A           30 VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRD-YVFYLAVGNYRLKEYEKALKYVRGLLQT--------  100 (152)
T ss_dssp             CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHH-HHHHHHHHHHHTSCHHHHHHHHHHHHHH--------
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHH-HHHHHHHHHHHccCHHHHHHHHHHHHhc--------
Confidence            67777778888888887   6669999999998887 7 3455 8889999999999999999999988762        


Q ss_pred             eEEEECCEEEEEecCCCCCcccHHHHHHHHHHHHHHHHcCcc
Q 008280          440 SWIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGYV  481 (571)
Q Consensus       440 s~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~~~~m~~~g~~  481 (571)
                                        .|...++......+.+.+.+.|.+
T Consensus       101 ------------------eP~n~QA~~Lk~~ie~~~~kdgl~  124 (152)
T 1pc2_A          101 ------------------EPQNNQAKELERLIDKAMKKDGLV  124 (152)
T ss_dssp             ------------------CTTCHHHHHHHHHHHHHHHHTTCC
T ss_pred             ------------------CCCCHHHHHHHHHHHHHHHHhhHH
Confidence                              244455656666677778888764

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=97.13  E-value=0.0021  Score=63.91  Aligned_cols=92  Identities=7%  Similarity=-0.102  Sum_probs=71.3

Q ss_pred             hcCcHHHHHHHHHHhHHhc--CCCCC----hHhHHHHHHHHHHcCCHHHHHHHHHhC---------CCCCCH-hHHHHHH
Q 008280          311 HAGLVDLGIQYFDSMVNDY--GIAAK----PDHYTCMVDLLGRAGKLVEAVDLIKKM---------PFKPQP-AIFGTLL  374 (571)
Q Consensus       311 ~~g~~~~a~~~~~~~~~~~--~~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~~---------~~~p~~-~~~~~l~  374 (571)
                      ..|++++|..++++..+..  -+.|+    ..+++.|..+|...|++++|+.++++.         +..|+. .+++.|.
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            4577888888887766532  12222    457888899999999999999988876         344554 6889999


Q ss_pred             HHHHhcCCHhHHHHHHHHHhc-----cCCCCCc
Q 008280          375 SACRVHKRLDLAEFAAMNLFN-----LNPANAA  402 (571)
Q Consensus       375 ~~~~~~g~~~~a~~~~~~~~~-----~~p~~~~  402 (571)
                      ..|...|++++|+.+++++++     ++|+.|.
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~i~~~~lG~~Hp~  422 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIAIMEVAHGKDHPY  422 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHH
T ss_pred             HHHHhccCHHHHHHHHHHHHHHHHHHcCCCChH
Confidence            999999999999999999876     5788764

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=97.10  E-value=0.0035  Score=62.45  Aligned_cols=97  Identities=9%  Similarity=-0.026  Sum_probs=74.2

Q ss_pred             HHHHHhcCcHHHHHHHHHHhHHhcC--CCCC----hHhHHHHHHHHHHcCCHHHHHHHHHhC---------CCCCCH-hH
Q 008280          306 LLACNHAGLVDLGIQYFDSMVNDYG--IAAK----PDHYTCMVDLLGRAGKLVEAVDLIKKM---------PFKPQP-AI  369 (571)
Q Consensus       306 l~a~~~~g~~~~a~~~~~~~~~~~~--~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~~---------~~~p~~-~~  369 (571)
                      +..+...|++++|..++++..+...  +.|+    ..+++.|+.+|...|++++|+.++++.         +..|+. .+
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            4456677888888888887764321  2222    456788888899999999999888876         334554 67


Q ss_pred             HHHHHHHHHhcCCHhHHHHHHHHHhc-----cCCCCCc
Q 008280          370 FGTLLSACRVHKRLDLAEFAAMNLFN-----LNPANAA  402 (571)
Q Consensus       370 ~~~l~~~~~~~g~~~~a~~~~~~~~~-----~~p~~~~  402 (571)
                      ++.|...|...|++++|+.+++++++     ++|+.|.
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            88999999999999999999999876     6888764

>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=97.08  E-value=0.015  Score=55.60  Aligned_cols=138  Identities=14%  Similarity=0.021  Sum_probs=67.3

Q ss_pred             CCChhhHHHHHHHHHH--cC---ChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHhc---C-----cHHHHHHHHHHhH
Q 008280          261 RKDVVTWNAMISGYAQ--HG---KGEKALRLFDKMKDEGMKPDS-ITFVALLLACNHA---G-----LVDLGIQYFDSMV  326 (571)
Q Consensus       261 ~~~~~~~~~li~~~~~--~g---~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~a~~~~---g-----~~~~a~~~~~~~~  326 (571)
                      ..+..+|...+.+...  .+   ...+|..+|++..+.  .|+. ..+..+..++...   +     ......+.+....
T Consensus       191 p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~l--DP~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~~  268 (372)
T 3ly7_A          191 PHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQS--SPEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNIV  268 (372)
T ss_dssp             CSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHH
Confidence            3466777777665432  23   346788888888775  4553 3444433333210   0     0000011111111


Q ss_pred             HhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCC
Q 008280          327 NDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPAN  400 (571)
Q Consensus       327 ~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~  400 (571)
                      .....+.++.+|..+.-.+...|++++|...++++ ...|+...|..+...+...|++++|...+++++.++|..
T Consensus       269 a~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~P~~  343 (372)
T 3ly7_A          269 TLPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLEMSWLNYVLLGKVYEMKGMNREAADAYLTAFNLRPGA  343 (372)
T ss_dssp             TCGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCSH
T ss_pred             hcccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCc
Confidence            00012334555555555455556666666655555 223455555555555555666666666666666666554

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.05  E-value=0.0028  Score=48.51  Aligned_cols=61  Identities=18%  Similarity=0.194  Sum_probs=27.1

Q ss_pred             hhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhH
Q 008280          265 VTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMV  326 (571)
Q Consensus       265 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~  326 (571)
                      ..|..+...|...|++++|+..|++..+.. +.+...|..+..++...|++++|...|++..
T Consensus         8 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al   68 (100)
T 3ma5_A            8 FTRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQGI   68 (100)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            344444444444444444444444444432 1122334444444444444444444444443

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.00  E-value=0.025  Score=61.61  Aligned_cols=42  Identities=10%  Similarity=0.113  Sum_probs=23.3

Q ss_pred             HhcCCHHHHHH-HHhhCCCCCHHHHHHHHHHHHHcCChhHHHHHH
Q 008280          143 MKFGKVDLAEK-LFDEMPTKNLVTWNAMIAGYVENSWAEDGLKLL  186 (571)
Q Consensus       143 ~~~g~~~~A~~-~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~  186 (571)
                      ...+++++|.+ ++..++.  ......++..+.+.|.+++|+++.
T Consensus       610 ~~~~~~~~a~~~~l~~i~~--~~~~~~~~~~l~~~~~~~~a~~~~  652 (814)
T 3mkq_A          610 TLRGEIEEAIENVLPNVEG--KDSLTKIARFLEGQEYYEEALNIS  652 (814)
T ss_dssp             HHTTCHHHHHHHTGGGCCC--HHHHHHHHHHHHHTTCHHHHHHHC
T ss_pred             HHhCCHHHHHHHHHhcCCc--hHHHHHHHHHHHhCCChHHheecC
Confidence            34667777766 5544331  112255666666667777666554

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.94  E-value=0.0036  Score=47.54  Aligned_cols=79  Identities=16%  Similarity=0.129  Sum_probs=56.8

Q ss_pred             HHHHHHHcCCHHHHHHHHHhC-CCCC-CHh-HHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccC
Q 008280          341 MVDLLGRAGKLVEAVDLIKKM-PFKP-QPA-IFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKK  417 (571)
Q Consensus       341 li~~~~~~g~~~~A~~~~~~~-~~~p-~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~  417 (571)
                      ....+.+.|++++|++.|++. ...| +.. .|..+..++...|++++|+..|+++++++|+++. ++..        +.
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~-~~~~--------~~   76 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNPDSPA-LQAR--------KM   76 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTH-HHHH--------HH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHH-HHHH--------HH
Confidence            455677788888888888776 2223 456 7888888888999999999999999999998876 5422        44


Q ss_pred             hhHHHHHHHHH
Q 008280          418 WDDVARIRLSM  428 (571)
Q Consensus       418 ~~~a~~~~~~m  428 (571)
                      +.++...+++.
T Consensus        77 ~~~a~~~~~~~   87 (99)
T 2kc7_A           77 VMDILNFYNKD   87 (99)
T ss_dssp             HHHHHHHHCCT
T ss_pred             HHHHHHHHHHH
Confidence            55555555433

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.51  E-value=0.22  Score=39.44  Aligned_cols=140  Identities=10%  Similarity=0.069  Sum_probs=100.2

Q ss_pred             HHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHH
Q 008280          275 AQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEA  354 (571)
Q Consensus       275 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  354 (571)
                      .-.|..++..++..+....   .+..-++.++.-....-+-+-..+.++.+-+-|.+              ..+|++...
T Consensus        18 ildG~v~qGveii~k~~~s---sni~E~NW~ICNiiD~a~C~y~v~vLd~IGkiFDi--------------s~C~NlKrV   80 (172)
T 1wy6_A           18 LLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDL--------------DKCQNLKSV   80 (172)
T ss_dssp             HHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCG--------------GGCSCTHHH
T ss_pred             HHhhhHHHHHHHHHHHcCC---CCccccceeeeecchhhchhHHHHHHHHHhhhcCc--------------HhhhcHHHH
Confidence            3457777778887777653   24556666665555555555566666666443222              245666666


Q ss_pred             HHHHHhCCCCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhCCCc
Q 008280          355 VDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVV  434 (571)
Q Consensus       355 ~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  434 (571)
                      ...+-.++  .+.......+......|.-+.-.+++..++.-+|-++. ....++++|.+.|+..+|.+++++.-++|++
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            66666665  45566677788888999999999999997665555566 8999999999999999999999999999985

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.47  E-value=0.003  Score=48.05  Aligned_cols=56  Identities=14%  Similarity=0.185  Sum_probs=27.2

Q ss_pred             HHHHHHcCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHHhcCcHHHHHHHHHHhHH
Q 008280          271 ISGYAQHGKGEKALRLFDKMKDEGMKPDSI-TFVALLLACNHAGLVDLGIQYFDSMVN  327 (571)
Q Consensus       271 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~  327 (571)
                      ...+...|++++|+..|++..+.. +.+.. .+..+..++...|++++|...|+...+
T Consensus         7 a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~   63 (99)
T 2kc7_A            7 IKELINQGDIENALQALEEFLQTE-PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIE   63 (99)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC-SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            334445555555555555554432 11233 444444555555555555555555543

>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=96.42  E-value=0.028  Score=53.76  Aligned_cols=134  Identities=13%  Similarity=0.063  Sum_probs=91.7

Q ss_pred             CCCCHHHHHHHHHHHH--hc---CcHHHHHHHHHHhHHhcCCCCC-hHhHHHHHHHHHH---cC-C-------HHHHHHH
Q 008280          295 MKPDSITFVALLLACN--HA---GLVDLGIQYFDSMVNDYGIAAK-PDHYTCMVDLLGR---AG-K-------LVEAVDL  357 (571)
Q Consensus       295 ~~p~~~t~~~ll~a~~--~~---g~~~~a~~~~~~~~~~~~~~~~-~~~~~~li~~~~~---~g-~-------~~~A~~~  357 (571)
                      .+.+...|...+.+..  ..   ....+|..+|++.++.   .|+ ...|..+.-+|.-   .+ .       +..+.+.
T Consensus       190 ~p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~l---DP~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a  266 (372)
T 3ly7_A          190 LPHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQS---SPEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDN  266 (372)
T ss_dssp             SCSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHH
Confidence            3455666766665543  22   3457899999999863   666 4455544443321   11 1       1222322


Q ss_pred             HHhCC-CCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhCCC
Q 008280          358 IKKMP-FKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNV  433 (571)
Q Consensus       358 ~~~~~-~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  433 (571)
                      ...+. ...++.+|.++.-.+...|++++|...+++++.++|+ .. .|..++.++.-.|++++|.+.+++....+.
T Consensus       267 ~~a~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln~s-~~-a~~llG~~~~~~G~~~eA~e~~~~AlrL~P  341 (372)
T 3ly7_A          267 IVTLPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLEMS-WL-NYVLLGKVYEMKGMNREAADAYLTAFNLRP  341 (372)
T ss_dssp             HHTCGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCC-HH-HHHHHHHHHHHTTCHHHHHHHHHHHHHHSC
T ss_pred             HHhcccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCC-HH-HHHHHHHHHHHCCCHHHHHHHHHHHHhcCC
Confidence            22332 2356788888887788889999999999999999986 34 788999999999999999999988876544

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.28  E-value=0.29  Score=41.19  Aligned_cols=104  Identities=9%  Similarity=0.118  Sum_probs=64.3

Q ss_pred             HHHHhcCCHHHHHHHHhhCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHH
Q 008280          140 SGYMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQ  219 (571)
Q Consensus       140 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~  219 (571)
                      +...++|+++.|.++.+.+  .+...|..|.......|+++-|.+.|.+...         +..+.-.|...|+.+.-..
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            3445678888887777665  4566788888888888888888888776432         3334444455566666555


Q ss_pred             HHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhC
Q 008280          220 VHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQ  260 (571)
Q Consensus       220 ~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~  260 (571)
                      +-+.....|      -++.....+.-.|+++++.++|.+..
T Consensus        82 la~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~~~  116 (177)
T 3mkq_B           82 MQNIAQTRE------DFGSMLLNTFYNNSTKERSSIFAEGG  116 (177)
T ss_dssp             HHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHHTT
T ss_pred             HHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHHCC
Confidence            555554444      23334444555666666666665543

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.28  E-value=0.021  Score=43.90  Aligned_cols=73  Identities=12%  Similarity=0.089  Sum_probs=52.0

Q ss_pred             hHhHHHHHHHHHHcCCHHHHHHHHHhC-----C----CCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhH
Q 008280          335 PDHYTCMVDLLGRAGKLVEAVDLIKKM-----P----FKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCY  405 (571)
Q Consensus       335 ~~~~~~li~~~~~~g~~~~A~~~~~~~-----~----~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~  405 (571)
                      ..-+..|...+.+.|++..|...|+..     +    -.+...++..|..++.+.|+++.|...+++++++.|+++. +.
T Consensus         5 a~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~P~~~~-~~   83 (104)
T 2v5f_A            5 AEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQR-AN   83 (104)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH-HH
T ss_pred             HHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHH-HH
Confidence            334445666666666666666666554     1    1234578888999999999999999999999999999875 44


Q ss_pred             HHH
Q 008280          406 VQL  408 (571)
Q Consensus       406 ~~l  408 (571)
                      ..+
T Consensus        84 ~n~   86 (104)
T 2v5f_A           84 GNL   86 (104)
T ss_dssp             HHH
T ss_pred             hhH
Confidence            333

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.21  E-value=0.17  Score=42.60  Aligned_cols=130  Identities=13%  Similarity=0.104  Sum_probs=86.5

Q ss_pred             HHHHHhcCCHHHHHHHHHhhCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHH
Q 008280          240 ISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGI  319 (571)
Q Consensus       240 i~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~  319 (571)
                      .+....+|+++.|.++.+.+  .+...|..|.......|+++-|.+.|.+..+         |..+.-.|.-.|+.+.-.
T Consensus        12 F~LAL~lg~l~~A~e~a~~l--~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~L~   80 (177)
T 3mkq_B           12 FDLALEYGNLDAALDEAKKL--NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNKLS   80 (177)
T ss_dssp             HHHHHHTTCHHHHHHHHHHH--CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHhcCCHHHHHHHHHHh--CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHHHH
Confidence            34456689999999888776  4677899999999999999999999887642         334444556667766555


Q ss_pred             HHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHHhcCCHhHHHHHHHHH
Q 008280          320 QYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNL  393 (571)
Q Consensus       320 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~  393 (571)
                      .+-+....+ |      -++.-...+.-.|+++++.+++.+.+.-|....      ....+|..+.|.++.+.+
T Consensus        81 kla~iA~~~-g------~~n~af~~~l~lGdv~~~i~lL~~~~r~~eA~~------~A~t~g~~~~a~~~~~~~  141 (177)
T 3mkq_B           81 KMQNIAQTR-E------DFGSMLLNTFYNNSTKERSSIFAEGGSLPLAYA------VAKANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHHHHHT-T------CHHHHHHHHHHHTCHHHHHHHHHHTTCHHHHHH------HHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHHHHC-c------cHHHHHHHHHHcCCHHHHHHHHHHCCChHHHHH------HHHHcCcHHHHHHHHHHh
Confidence            443333221 1      234445556678999999999988764332211      123467777777777665

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=96.17  E-value=0.021  Score=45.14  Aligned_cols=65  Identities=8%  Similarity=-0.087  Sum_probs=43.0

Q ss_pred             CCHhHHHHHHHHHHhcCCHhH---HHHHHHHHhccC-C-CCCchhHHHHHHHHhhccChhHHHHHHHHHHh
Q 008280          365 PQPAIFGTLLSACRVHKRLDL---AEFAAMNLFNLN-P-ANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  430 (571)
Q Consensus       365 p~~~~~~~l~~~~~~~g~~~~---a~~~~~~~~~~~-p-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  430 (571)
                      ++..+--.+..++.++.+...   ++.+++.++..+ | .... ....|+-+|.+.|++++|.+.++.+.+
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 VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRD-YVFYLAVGNYRLKEYEKALKYVRGLLQ  102 (126)
T ss_dssp             CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHH-HHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHH-HHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            555555556666666665544   777777777665 4 2333 666777777788888888777777765

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=96.16  E-value=0.0007  Score=66.06  Aligned_cols=395  Identities=14%  Similarity=0.150  Sum_probs=203.1

Q ss_pred             cchHHHHHHHHHhCCCCHHHHHHHHhhCCCCChhhHHHHHHHHHcCCCCHHHHHHHHhhCCC--CChhhHHHHHHHHHcC
Q 008280            6 TVNWNSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQRLPI--KDTASWNTMISGFVQK   83 (571)
Q Consensus         6 ~~~~~~l~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~ll~~~~~~~g~~~~A~~~~~~m~~--~d~~~~~~li~~~~~~   83 (571)
                      +.+|..|..++...+ .+.+|+..|=+  ..|+..|...|....+. |.+++-...+...++  +++..=+.|+-+|++.
T Consensus        54 p~VWs~LgkAqL~~~-~v~eAIdsyIk--A~Dps~y~eVi~~A~~~-~~~edLv~yL~MaRk~~ke~~IDteLi~ayAk~  129 (624)
T 3lvg_A           54 PAVWSQLAKAQLQKG-MVKEAIDSYIK--ADDPSSYMEVVQAANTS-GNWEELVKYLQMARKKARESYVETELIFALAKT  129 (624)
T ss_dssp             CCCSSSHHHHTTTSS-SCTTTTTSSCC--CSCCCSSSHHHHHTTTS-SCCTTHHHHHHTTSTTCCSTTTTHHHHHHHHTS
T ss_pred             ccHHHHHHHHHHccC-chHHHHHHHHh--CCChHHHHHHHHHHHhC-CCHHHHHHHHHHHHHHhcccccHHHHHHHHHhh
Confidence            345666666666665 66666554422  24555566677766666 777777776665543  4666667777788877


Q ss_pred             CCHHHHHHHHhhCCCCCcchHHHHHHHHHHcCChHHHHHHHhhCC------------------------CCChhHHHHHH
Q 008280           84 KNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAP------------------------VKSVVAWTAMI  139 (571)
Q Consensus        84 g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~~~~~~~------------------------~~~~~~~~~li  139 (571)
                      +++.+-.+++   ..||+.-...+..-|...|.++.|+-+|..+.                        ..++.+|-.+-
T Consensus       130 ~rL~elEefl---~~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~ktWKeV~  206 (624)
T 3lvg_A          130 NRLAELEEFI---NGPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRTWKEVC  206 (624)
T ss_dssp             CSSSTTTSTT---SCCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCSHHHHT
T ss_pred             CcHHHHHHHH---cCCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhHHHHHH
Confidence            7755432221   23566666677777777777777777765543                        23556677777


Q ss_pred             HHHHhcCCHHHHHHHHhh-CCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHH
Q 008280          140 SGYMKFGKVDLAEKLFDE-MPTKNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGK  218 (571)
Q Consensus       140 ~~~~~~g~~~~A~~~~~~-~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~  218 (571)
                      .+|...+.+.-|.-.--. +..+|  -...++.-|-..|.+++-+.+++.-.... ....-.|+-|.-.|++- ++++-.
T Consensus       207 ~ACvd~~EfrLAqicGLniIvhad--eL~elv~~YE~~G~f~ELIsLlEaglglE-rAHmGmFTELaILYsKY-~PeKlm  282 (624)
T 3lvg_A          207 FACVDGKEFRLAQMCGLHIVVHAD--ELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKF-KPQKMR  282 (624)
T ss_dssp             HHHHHSCTTTTTTHHHHHHHCCSS--CCSGGGSSSSTTCCCTTSTTTHHHHTTST-TCCHHHHHHHHHHHHSS-CTTHHH
T ss_pred             HHHhCchHHHHHHHhcchhcccHH--HHHHHHHHHHhCCCHHHHHHHHHHHhCCC-chhHHHHHHHHHHHHhc-CHHHHH
Confidence            777777766655332211 11111  11124444666777777777777655321 23444566555555553 223222


Q ss_pred             HHHHHHH-hCCCC------CCcchHHHHHHHHHhcCCHHHHHHH-------------HHhhCC--CChhhHHHHHHHHH-
Q 008280          219 QVHQLVF-KSPLC------KDTTALTPLISMYCKCGDLEDACKL-------------FLEIQR--KDVVTWNAMISGYA-  275 (571)
Q Consensus       219 ~~~~~~~-~~g~~------~~~~~~~~li~~y~~~g~~~~A~~~-------------~~~~~~--~~~~~~~~li~~~~-  275 (571)
                      +-++..- +.+++      .....|.-++-.|.+-.+++.|...             |.++..  .|+..|-.-|.-|. 
T Consensus       283 EHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~ltMi~h~~~Aw~h~~Fkdii~KVaN~EiyYKAi~FYL~  362 (624)
T 3lvg_A          283 EHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMNHPTDAWKEGQFKDIITKVANVELYYRAIQFYLE  362 (624)
T ss_dssp             HHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHHHTTTSCHHHHCCGGGGTTTGGGCSCSHHHHHHHHHHTT
T ss_pred             HHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHHHHHHhCChhhccHHHHHHHHHHcchHHHHHHHHHHHHH
Confidence            2222111 12222      2456788888888888888877432             111111  23334443343333 


Q ss_pred             --------------HcCChHHHHHHHHHHHHcC-CC--------CCHHHHH-HHHHHHHhcCcHHHHHH-----------
Q 008280          276 --------------QHGKGEKALRLFDKMKDEG-MK--------PDSITFV-ALLLACNHAGLVDLGIQ-----------  320 (571)
Q Consensus       276 --------------~~g~~~~A~~~~~~m~~~g-~~--------p~~~t~~-~ll~a~~~~g~~~~a~~-----------  320 (571)
                                    ..=+...+.++|++.-... ++        -|....| ++-..+....+++.-+.           
T Consensus       363 e~P~lL~DLL~vL~prlDh~RvV~~~~k~~~LpLIkpYL~~Vq~~N~~aVNeAln~L~IEEEDy~~LR~SId~ydNFD~i  442 (624)
T 3lvg_A          363 FKPLLLNDLLMVLSPRLDHTRAVNYFSKVKQLPLVKPYLRSVQNHNNKSVNESLNNLFITEEDYQALRTSIDAYDNFDNI  442 (624)
T ss_dssp             SCCTTSHHHHHHHCTTCCSTTTHHHHHTTTCGGGGTGGGTSCCCSCCHHHHHHHHHHHHHTTCCHHHHHTTSSCCCSCTT
T ss_pred             hChHHHHHHHHhccccCChHHHHHHHHhcCCchhhHHHHHHHHHhhHHHHHHHHHHHHhhhhhHHHHHHHHHHhccccHH
Confidence                          2223333333333211000 01        1222222 22223333333332111           


Q ss_pred             -HHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCC
Q 008280          321 -YFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPA  399 (571)
Q Consensus       321 -~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~  399 (571)
                       +-+++.+    .+-.+--..-...|.+.+++.+++++.++=+.-.|      .+...+.+|+.+.++++++-.++.+-.
T Consensus       443 ~LA~rLEk----HeL~eFRrIAA~LYkkn~rw~qsi~l~KkDklykD------AietAa~S~~~elaeeLL~yFv~~g~~  512 (624)
T 3lvg_A          443 SLAQRLEK----HELIEFRRIAAYLFKGNNRWKQSVELCKKDSLYKD------AMQYASESKDTELAEELLQWFLQEEKR  512 (624)
T ss_dssp             HHHHHHHT----CSSHHHHHHHHHHHHTTCHHHHHSSCSSTTCCTTG------GGTTTTTCCCTTHHHHHHHHHHHHCST
T ss_pred             HHHHHHhh----CchHHHHHHHHHHHHhcccHHHHHHHHHhcccHHH------HHHHHHHcCCHHHHHHHHHHHHHcCch
Confidence             1111110    01122222334456677777777766554332222      233345677777777777776665432


Q ss_pred             CCchhHHHHHHHHhhccChhHHHHH
Q 008280          400 NAAGCYVQLANIYAAMKKWDDVARI  424 (571)
Q Consensus       400 ~~~~~~~~l~~~~~~~g~~~~a~~~  424 (571)
                        . .|...+..|...=+.+-+.++
T Consensus       513 --E-cF~a~LytCYdLlrpDvVlEl  534 (624)
T 3lvg_A          513 --E-CFGACLFTCYDLLRPDVVLET  534 (624)
T ss_dssp             --H-HHHHHHHHTSSSSSCHHHHHH
T ss_pred             --H-HHHHHHHHHhhccChHHHHHH
Confidence              3 677777777777777777665

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=96.14  E-value=0.00013  Score=71.09  Aligned_cols=236  Identities=11%  Similarity=0.090  Sum_probs=168.2

Q ss_pred             ChhhHHHHHHHHHcCCCCHHHHHHHHhhCCCCChhhHHHHHHHHHcCCCHHHHHHHHhhCCC--CCcchHHHHHHHHHHc
Q 008280           37 DVVSYNIMLSCILLNSDDVVAAFDFFQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPE--KNSVSWSAMISGYIEC  114 (571)
Q Consensus        37 ~~~~~~~ll~~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~d~~~~~~li~~~~~~  114 (571)
                      .+..|+.|..+.... +.+.+|++-|-+  ..|+..|..+|....+.|.+++-++.+...++  +++..=+.|+-+|++.
T Consensus        53 ~p~VWs~LgkAqL~~-~~v~eAIdsyIk--A~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~ke~~IDteLi~ayAk~  129 (624)
T 3lvg_A           53 EPAVWSQLAKAQLQK-GMVKEAIDSYIK--ADDPSSYMEVVQAANTSGNWEELVKYLQMARKKARESYVETELIFALAKT  129 (624)
T ss_dssp             CCCCSSSHHHHTTTS-SSCTTTTTSSCC--CSCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCCSTTTTHHHHHHHHTS
T ss_pred             CccHHHHHHHHHHcc-CchHHHHHHHHh--CCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccHHHHHHHHHhh
Confidence            445688888888888 888888776644  45666778888888899999988888866654  4666677899999999


Q ss_pred             CChHHHHHHHhhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCC------------------------CCCHHHHHHHH
Q 008280          115 GQLDKAVELFKVAPVKSVVAWTAMISGYMKFGKVDLAEKLFDEMP------------------------TKNLVTWNAMI  170 (571)
Q Consensus       115 g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~------------------------~~~~~~~~~li  170 (571)
                      ++..+-.+++   ..++..-.....+-|...|.++.|.-+|..+.                        ..++.+|-.+-
T Consensus       130 ~rL~elEefl---~~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~ktWKeV~  206 (624)
T 3lvg_A          130 NRLAELEEFI---NGPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRTWKEVC  206 (624)
T ss_dssp             CSSSTTTSTT---SCCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCSHHHHT
T ss_pred             CcHHHHHHHH---cCCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhHHHHHH
Confidence            8876654433   24555556677788888888888888887765                        14667899999


Q ss_pred             HHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHH
Q 008280          171 AGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLE  250 (571)
Q Consensus       171 ~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~  250 (571)
                      .+|...+++.-|.-.--.+.-   .||  .+..++..|...|.+++-..+++..+... .....+++-|.-.|+|- +++
T Consensus       207 ~ACvd~~EfrLAqicGLniIv---had--eL~elv~~YE~~G~f~ELIsLlEaglglE-rAHmGmFTELaILYsKY-~Pe  279 (624)
T 3lvg_A          207 FACVDGKEFRLAQMCGLHIVV---HAD--ELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKF-KPQ  279 (624)
T ss_dssp             HHHHHSCTTTTTTHHHHHHHC---CSS--CCSGGGSSSSTTCCCTTSTTTHHHHTTST-TCCHHHHHHHHHHHHSS-CTT
T ss_pred             HHHhCchHHHHHHHhcchhcc---cHH--HHHHHHHHHHhCCCHHHHHHHHHHHhCCC-chhHHHHHHHHHHHHhc-CHH
Confidence            999999988877654444432   222  22335556778888888888888777543 45677899999999986 444


Q ss_pred             HHHHHHHhhCC----C-------ChhhHHHHHHHHHHcCChHHHHH
Q 008280          251 DACKLFLEIQR----K-------DVVTWNAMISGYAQHGKGEKALR  285 (571)
Q Consensus       251 ~A~~~~~~~~~----~-------~~~~~~~li~~~~~~g~~~~A~~  285 (571)
                      +-.+.++....    |       ....|.-++-.|.+-.+++.|..
T Consensus       280 KlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~l  325 (624)
T 3lvg_A          280 KMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAII  325 (624)
T ss_dssp             HHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHHH
Confidence            44444443222    1       45679999999998888887753

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=95.94  E-value=0.059  Score=40.36  Aligned_cols=70  Identities=17%  Similarity=0.113  Sum_probs=53.6

Q ss_pred             CCChHhHHHHHHHHHHcCC---HHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCC
Q 008280          332 AAKPDHYTCMVDLLGRAGK---LVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANA  401 (571)
Q Consensus       332 ~~~~~~~~~li~~~~~~g~---~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~  401 (571)
                      +.++..+..+..++...++   .++|..++++. ...| ++..+..+...+...|++++|+..++++++.+|.++
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p~~~   77 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSNDPNL   77 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCCTTC
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCc
Confidence            4567777777877765554   68888888877 2334 467777788888999999999999999999998844

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=95.90  E-value=0.25  Score=39.66  Aligned_cols=92  Identities=7%  Similarity=-0.040  Sum_probs=67.2

Q ss_pred             CCCHhHHHHHHHHHHhcCC---HhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhCCCccCCcee
Q 008280          364 KPQPAIFGTLLSACRVHKR---LDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVVKMPGYS  440 (571)
Q Consensus       364 ~p~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~s  440 (571)
                      .|+..+--.+..++.++.+   ..+++.+++.++..+|.........|+-+|.+.|++++|.++.+.+.+.         
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~---------  106 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH---------  106 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHT---------
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhc---------
Confidence            4666666666677766664   4578888888888888654447788899999999999999998888762         


Q ss_pred             EEEECCEEEEEecCCCCCcccHHHHHHHHHHHHHHHHcCcc
Q 008280          441 WIEVGTVVHEFRSGDRVHPELVSIHEKLKELEKRMKLAGYV  481 (571)
Q Consensus       441 ~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~~~~m~~~g~~  481 (571)
                                       .|...++...-..+.++|.++|.+
T Consensus       107 -----------------eP~n~QA~~Lk~~Ie~~i~kdGli  130 (144)
T 1y8m_A          107 -----------------ERNNKQVGALKSMVEDKIQKETLK  130 (144)
T ss_dssp             -----------------CCCCHHHHHHHHHHHHHHHHTTTT
T ss_pred             -----------------CCCcHHHHHHHHHHHHHHHHhchh
Confidence                             244556666566667788888775

>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=95.84  E-value=0.028  Score=51.55  Aligned_cols=87  Identities=13%  Similarity=0.090  Sum_probs=68.0

Q ss_pred             HHHHHHHHHhC-CCCCC---HhHHHHHHHHHHh-----cCCHhHHHHHHHHHhccCCCC-CchhHHHHHHHHhhc-cChh
Q 008280          351 LVEAVDLIKKM-PFKPQ---PAIFGTLLSACRV-----HKRLDLAEFAAMNLFNLNPAN-AAGCYVQLANIYAAM-KKWD  419 (571)
Q Consensus       351 ~~~A~~~~~~~-~~~p~---~~~~~~l~~~~~~-----~g~~~~a~~~~~~~~~~~p~~-~~~~~~~l~~~~~~~-g~~~  419 (571)
                      ..+|...+++. .+.|+   ...|..|...|..     -|+.++|++.|+++++++|+. .. +++..+..++.. |+.+
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            34555555554 34455   4578888888877     499999999999999999975 77 999999999884 9999


Q ss_pred             HHHHHHHHHHhCCCccCCc
Q 008280          420 DVARIRLSMKENNVVKMPG  438 (571)
Q Consensus       420 ~a~~~~~~m~~~~~~~~~~  438 (571)
                      ++.+.+++.........|+
T Consensus       258 ~a~~~L~kAL~a~p~~~P~  276 (301)
T 3u64_A          258 GFDEALDRALAIDPESVPH  276 (301)
T ss_dssp             HHHHHHHHHHHCCGGGCSS
T ss_pred             HHHHHHHHHHcCCCCCCCC
Confidence            9999999998876664454

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=95.74  E-value=0.028  Score=46.22  Aligned_cols=70  Identities=16%  Similarity=0.059  Sum_probs=46.6

Q ss_pred             CChHhHHHHHHHHHHcC---CHHHHHHHHHhC-CCC-C--CHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCc
Q 008280          333 AKPDHYTCMVDLLGRAG---KLVEAVDLIKKM-PFK-P--QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA  402 (571)
Q Consensus       333 ~~~~~~~~li~~~~~~g---~~~~A~~~~~~~-~~~-p--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~  402 (571)
                      ++..+...+.-++.+.+   ++++++.++++. ... |  +...+..|.-+|.+.|++++|.+.++++++.+|++..
T Consensus        30 ~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~A~~y~~~lL~ieP~n~Q  106 (152)
T 1pc2_A           30 VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQTEPQNNQ  106 (152)
T ss_dssp             CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCTTCHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHH
Confidence            45555555555555555   344555555544 111 3  2345566777889999999999999999999998864

>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=95.01  E-value=3.9  Score=42.34  Aligned_cols=114  Identities=10%  Similarity=0.013  Sum_probs=67.4

Q ss_pred             CChHHHHHHHHHHHHcCCCCCHHHHHHH----HHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHH
Q 008280          278 GKGEKALRLFDKMKDEGMKPDSITFVAL----LLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVE  353 (571)
Q Consensus       278 g~~~~A~~~~~~m~~~g~~p~~~t~~~l----l~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  353 (571)
                      .+.+.|...|....... ..+......+    .......+...++...+......   .++.....-.+..-.+.|+++.
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            37788999888876543 2233322222    22233344244555556554432   2333334444445557799999


Q ss_pred             HHHHHHhCCCCC-C-HhHHHHHHHHHHhcCCHhHHHHHHHHHhc
Q 008280          354 AVDLIKKMPFKP-Q-PAIFGTLLSACRVHKRLDLAEFAAMNLFN  395 (571)
Q Consensus       354 A~~~~~~~~~~p-~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  395 (571)
                      |...|+.|+..+ + ..-.-=+..+....|+.++|..+|+++.+
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            999999996432 2 22222344567788999999999998865

>3ltj_A Alpharep-4; protein engineering, heat-like repeat, protein binding; 1.80A {Synthetic}

Probab=94.89  E-value=1.7  Score=37.52  Aligned_cols=144  Identities=9%  Similarity=-0.015  Sum_probs=58.7

Q ss_pred             CCCChhhHHHHHHHHHcCCCHHHHHHHHhhCCCCCcchHHHHHHHHHHcCChHHHHHHHhhCCCCChhHHHHHHHHHHhc
Q 008280           66 PIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKF  145 (571)
Q Consensus        66 ~~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~  145 (571)
                      ..+|..+....+..+.+.+..+....+.+.+..+|...-...+.++...|..+....+.+.+..++..+....+.++.+.
T Consensus        24 ~~~~~~vr~~A~~~L~~~~~~~~~~~L~~~l~~~~~~vr~~a~~~L~~~~~~~~~~~L~~~l~d~~~~vr~~a~~aL~~~  103 (201)
T 3ltj_A           24 QDDSYYVRRAAAYALGKIGDERAVEPLIKALKDEDAWVRRAAADALGQIGDERAVEPLIKALKDEDGWVRQSAAVALGQI  103 (201)
T ss_dssp             TCSCHHHHHHHHHHHHHHCCGGGHHHHHHHTTCSSHHHHHHHHHHHHHHCCGGGHHHHHHHTTCSSHHHHHHHHHHHHHH
T ss_pred             cCCCHHHHHHHHHHHHhcCChhHHHHHHHHHcCCCHHHHHHHHHHHHhhCCHHHHHHHHHHHcCCCHHHHHHHHHHHHHh
Confidence            33444444444444444443332233333333334333333444444444433333333334444444444455555555


Q ss_pred             CCHHHHHHHHhhCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCc
Q 008280          146 GKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSS  213 (571)
Q Consensus       146 g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~  213 (571)
                      ++.+....+.+.+..+|...-...+.++.+.+.. +++..+..+..   .++...-...+.++...|.
T Consensus       104 ~~~~~~~~L~~~l~d~~~~vr~~a~~aL~~~~~~-~~~~~L~~~l~---d~~~~vr~~A~~aL~~~~~  167 (201)
T 3ltj_A          104 GDERAVEPLIKALKDEDWFVRIAAAFALGEIGDE-RAVEPLIKALK---DEDGWVRQSAADALGEIGG  167 (201)
T ss_dssp             CCGGGHHHHHHHTTCSSHHHHHHHHHHHHHHTCG-GGHHHHHHHTT---CSSHHHHHHHHHHHHHHCS
T ss_pred             CcHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCCH-HHHHHHHHHHc---CCCHHHHHHHHHHHHHhCc
Confidence            5443333333333344444434444444444432 23333333332   2344444444445544444

>3ltm_A Alpha-REP4; protein engineering, heat-like repeat, protein binding; HET: 1PE 12P; 2.15A {Synthetic}

Probab=94.82  E-value=1.8  Score=37.64  Aligned_cols=143  Identities=9%  Similarity=-0.015  Sum_probs=58.7

Q ss_pred             CCChhhHHHHHHHHHcCCCHHHHHHHHhhCCCCCcchHHHHHHHHHHcCChHHHHHHHhhCCCCChhHHHHHHHHHHhcC
Q 008280           67 IKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFG  146 (571)
Q Consensus        67 ~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g  146 (571)
                      .+|..+-...+..+.+.|..+..-.+.+.+..+|...-...+.++.+.|..+....+.+.+..++..+....+.++.+.+
T Consensus        30 ~~~~~vR~~A~~~L~~~~~~~~~~~L~~~l~~~~~~vr~~a~~aL~~~~~~~~~~~L~~~l~~~~~~vr~~a~~aL~~~~  109 (211)
T 3ltm_A           30 DDSYYVRRAAAYALGKIGDERAVEPLIKALKDEDAWVRRAAADALGQIGDERAVEPLIKALKDEDGWVRQSAAVALGQIG  109 (211)
T ss_dssp             CSSHHHHHHHHHHHHHHCCGGGHHHHHHHTTCSCHHHHHHHHHHHHHHCCGGGHHHHHHHTTCSSHHHHHHHHHHHHHHC
T ss_pred             CCCHHHHHHHHHHHHHhCCccHHHHHHHHHcCCCHHHHHHHHHHHHhhCCHHHHHHHHHHHcCCCHHHHHHHHHHHHHhC
Confidence            34444444444444444443222223333333444333444444444444333333333344444444444555555555


Q ss_pred             CHHHHHHHHhhCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCc
Q 008280          147 KVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSS  213 (571)
Q Consensus       147 ~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~  213 (571)
                      +.+....+.+.+..+|...-...+.++.+.|.. +++..+..+..   .++...-...+.++...+.
T Consensus       110 ~~~~~~~L~~~l~d~~~~vr~~a~~aL~~~~~~-~~~~~L~~~l~---d~~~~vr~~a~~aL~~~~~  172 (211)
T 3ltm_A          110 DERAVEPLIKALKDEDWFVRIAAAFALGEIGDE-RAVEPLIKALK---DEDGWVRQSAADALGEIGG  172 (211)
T ss_dssp             CGGGHHHHHHHTTCSSHHHHHHHHHHHHHHCCG-GGHHHHHHHTT---CSSHHHHHHHHHHHHHHCS
T ss_pred             cHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCH-HHHHHHHHHHc---CCCHHHHHHHHHHHHHhCc
Confidence            433333333333344444444444444444432 23333333332   2344444444444444444

>3ltj_A Alpharep-4; protein engineering, heat-like repeat, protein binding; 1.80A {Synthetic}

Probab=94.55  E-value=1.7  Score=37.58  Aligned_cols=184  Identities=9%  Similarity=-0.027  Sum_probs=123.8

Q ss_pred             HHHHHHHhhCCCCChhhHHHHHHHHHcCCCCHHHHHHHHhhCCCCChhhHHHHHHHHHcCCCHHHHHHHHhhCCCCCcch
Q 008280           24 KDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVS  103 (571)
Q Consensus        24 ~~A~~~~~~~~~~~~~~~~~ll~~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~d~~~  103 (571)
                      ..-..+++.+..+|...-...+..+.+. |+.+....+.+.+..+|..+-...+.++.+.|+.+..-.+...+..+|...
T Consensus        14 ~~~~~~i~~L~~~~~~vr~~A~~~L~~~-~~~~~~~~L~~~l~~~~~~vr~~a~~~L~~~~~~~~~~~L~~~l~d~~~~v   92 (201)
T 3ltj_A           14 EKVEMYIKNLQDDSYYVRRAAAYALGKI-GDERAVEPLIKALKDEDAWVRRAAADALGQIGDERAVEPLIKALKDEDGWV   92 (201)
T ss_dssp             HHHHHHHHHTTCSCHHHHHHHHHHHHHH-CCGGGHHHHHHHTTCSSHHHHHHHHHHHHHHCCGGGHHHHHHHTTCSSHHH
T ss_pred             cchHHHHHHhcCCCHHHHHHHHHHHHhc-CChhHHHHHHHHHcCCCHHHHHHHHHHHHhhCCHHHHHHHHHHHcCCCHHH
Confidence            3334455556667777666667776666 665555556666667787777777778877777655555555666677777


Q ss_pred             HHHHHHHHHHcCChHHHHHHHhhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCHHHHHHHHHHHHHcCChhHHH
Q 008280          104 WSAMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAEDGL  183 (571)
Q Consensus       104 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  183 (571)
                      -...+.++.+.|+.+....+.+.+..++..+....+.+..+.+..+....+.+.+..++...-...+.++...|. .++.
T Consensus        93 r~~a~~aL~~~~~~~~~~~L~~~l~d~~~~vr~~a~~aL~~~~~~~~~~~L~~~l~d~~~~vr~~A~~aL~~~~~-~~~~  171 (201)
T 3ltj_A           93 RQSAAVALGQIGDERAVEPLIKALKDEDWFVRIAAAFALGEIGDERAVEPLIKALKDEDGWVRQSAADALGEIGG-ERVR  171 (201)
T ss_dssp             HHHHHHHHHHHCCGGGHHHHHHHTTCSSHHHHHHHHHHHHHHTCGGGHHHHHHHTTCSSHHHHHHHHHHHHHHCS-HHHH
T ss_pred             HHHHHHHHHHhCcHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCc-hhHH
Confidence            778888888888876555566666777888888888888888876555555555556777666677777777765 4567


Q ss_pred             HHHHHHHHCCCCCCHhHHHHHHHHHhccC
Q 008280          184 KLLRMMIGLGIRPNASSLSSVLLGCSHLS  212 (571)
Q Consensus       184 ~~~~~m~~~g~~pd~~t~~~ll~~~~~~~  212 (571)
                      ..+..+...   ++...-...+.+..+..
T Consensus       172 ~~L~~~l~d---~~~~vr~~A~~aL~~l~  197 (201)
T 3ltj_A          172 AAMEKLAET---GTGFARKVAVNYLETHK  197 (201)
T ss_dssp             HHHHHHHHH---CCHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHhC---CCHHHHHHHHHHHHHHH
Confidence            777776653   45555555555555443

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=94.08  E-value=0.15  Score=38.91  Aligned_cols=66  Identities=8%  Similarity=-0.128  Sum_probs=54.7

Q ss_pred             CCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccC-------CCCCchhHHHHHHHHhhccChhHHHHHHHHHHhC
Q 008280          365 PQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLN-------PANAAGCYVQLANIYAAMKKWDDVARIRLSMKEN  431 (571)
Q Consensus       365 p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-------p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  431 (571)
                      .+..-...|...+...|+++.|...++++++..       +..+. .+..|+.+|.+.|++++|...+++..+.
T Consensus         3 Lsa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~-i~~~L~~~~~~~g~~~~A~~~~~~al~l   75 (104)
T 2v5f_A            3 LTAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVS-VLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (104)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHH-HHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHH-HHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            345566788899999999999999999997742       23344 7889999999999999999999988763

>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=93.77  E-value=0.4  Score=37.97  Aligned_cols=66  Identities=8%  Similarity=-0.059  Sum_probs=42.3

Q ss_pred             CCHhHHHHHHHHHHhcCC---HhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHh
Q 008280          365 PQPAIFGTLLSACRVHKR---LDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  430 (571)
Q Consensus       365 p~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  430 (571)
                      |++.+--.+..++.++.+   ..+|+.+++.+++.+|......+..|+-++.+.|++++|.+..+.+.+
T Consensus        38 vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~  106 (134)
T 3o48_A           38 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  106 (134)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHT
T ss_pred             CChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            455555555555555543   346777777777766643333677777777788888888777776665

>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=93.71  E-value=0.19  Score=46.00  Aligned_cols=82  Identities=10%  Similarity=0.144  Sum_probs=52.8

Q ss_pred             HHHHHHHHHhHHhcCCCCC---hHhHHHHHHHHHHc-----CCHHHHHHHHHhC-CCCCC--HhHHHHHHHHHHh-cCCH
Q 008280          316 DLGIQYFDSMVNDYGIAAK---PDHYTCMVDLLGRA-----GKLVEAVDLIKKM-PFKPQ--PAIFGTLLSACRV-HKRL  383 (571)
Q Consensus       316 ~~a~~~~~~~~~~~~~~~~---~~~~~~li~~~~~~-----g~~~~A~~~~~~~-~~~p~--~~~~~~l~~~~~~-~g~~  383 (571)
                      ..|...+++.++   +.|+   ...|..|...|.+.     |+.++|.+.|++. .+.|+  ..++......++. .|+.
T Consensus       180 ~~A~a~lerAle---LDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~  256 (301)
T 3u64_A          180 HAAVMMLERACD---LWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNR  256 (301)
T ss_dssp             HHHHHHHHHHHH---HCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCH
T ss_pred             HHHHHHHHHHHH---hCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCH
Confidence            444555555543   3555   44666777777773     7777777777776 33342  5566666666666 4788


Q ss_pred             hHHHHHHHHHhccCCCC
Q 008280          384 DLAEFAAMNLFNLNPAN  400 (571)
Q Consensus       384 ~~a~~~~~~~~~~~p~~  400 (571)
                      +++.+.+++++...|..
T Consensus       257 ~~a~~~L~kAL~a~p~~  273 (301)
T 3u64_A          257 AGFDEALDRALAIDPES  273 (301)
T ss_dssp             HHHHHHHHHHHHCCGGG
T ss_pred             HHHHHHHHHHHcCCCCC
Confidence            88888888888877763

>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=93.52  E-value=0.51  Score=38.29  Aligned_cols=54  Identities=6%  Similarity=-0.121  Sum_probs=38.7

Q ss_pred             cCCHHHHHHHHHhC---CCCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCc
Q 008280          348 AGKLVEAVDLIKKM---PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA  402 (571)
Q Consensus       348 ~g~~~~A~~~~~~~---~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~  402 (571)
                      .++.++|.++|+.+   .-+- ...|.....--.++|+...|.+++.+++++.|.+..
T Consensus        73 i~D~d~aR~vy~~a~~~hKkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~~~  129 (161)
T 4h7y_A           73 IQEPDDARDYFQMARANCKKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAVPLE  129 (161)
T ss_dssp             HHCGGGCHHHHHHHHHHCTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBCHH
T ss_pred             hcCHHHHHHHHHHHHHHhHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCcHH
Confidence            35666666666655   1112 667777777778899999999999999998887654

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=93.25  E-value=0.8  Score=48.41  Aligned_cols=55  Identities=13%  Similarity=-0.014  Sum_probs=49.9

Q ss_pred             HHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHH
Q 008280          374 LSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMK  429 (571)
Q Consensus       374 ~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  429 (571)
                      ..-|...|+++.|+.+.+++...-|.+.. +|..|+.+|.+.|+|+.|+-.++.+-
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            34567889999999999999999999988 99999999999999999999998873

>3ltm_A Alpha-REP4; protein engineering, heat-like repeat, protein binding; HET: 1PE 12P; 2.15A {Synthetic}

Probab=93.24  E-value=3.8  Score=35.51  Aligned_cols=159  Identities=10%  Similarity=-0.001  Sum_probs=67.0

Q ss_pred             HhhCCCCChhhHHHHHHHHHcCCCCHHHHHHHHhhCCCCChhhHHHHHHHHHcCCCHHHHHHHHhhCCCCCcchHHHHHH
Q 008280           30 FDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQRLPIKDTASWNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMIS  109 (571)
Q Consensus        30 ~~~~~~~~~~~~~~ll~~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~  109 (571)
                      .+.+..+|...-...+..+.+. |+.+..-.+.+.+..+|..+-...+.++.+.++.+..-.+.+.+..+|...-...+.
T Consensus        25 ~~~L~~~~~~vR~~A~~~L~~~-~~~~~~~~L~~~l~~~~~~vr~~a~~aL~~~~~~~~~~~L~~~l~~~~~~vr~~a~~  103 (211)
T 3ltm_A           25 IKNLQDDSYYVRRAAAYALGKI-GDERAVEPLIKALKDEDAWVRRAAADALGQIGDERAVEPLIKALKDEDGWVRQSAAV  103 (211)
T ss_dssp             HHHTTCSSHHHHHHHHHHHHHH-CCGGGHHHHHHHTTCSCHHHHHHHHHHHHHHCCGGGHHHHHHHTTCSSHHHHHHHHH
T ss_pred             HHHHcCCCHHHHHHHHHHHHHh-CCccHHHHHHHHHcCCCHHHHHHHHHHHHhhCCHHHHHHHHHHHcCCCHHHHHHHHH
Confidence            3333344444444444444444 443333333333444454444444455554444333333333333444444444455


Q ss_pred             HHHHcCChHHHHHHHhhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHH
Q 008280          110 GYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAEDGLKLLRMM  189 (571)
Q Consensus       110 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  189 (571)
                      ++.+.|+.+....+.+.+.+++..+....+.++.+.|..+....+.+.+..+|...-...+.++.+.+. .++...+.++
T Consensus       104 aL~~~~~~~~~~~L~~~l~d~~~~vr~~a~~aL~~~~~~~~~~~L~~~l~d~~~~vr~~a~~aL~~~~~-~~~~~~L~~~  182 (211)
T 3ltm_A          104 ALGQIGDERAVEPLIKALKDEDWFVRIAAAFALGEIGDERAVEPLIKALKDEDGWVRQSAADALGEIGG-ERVRAAMEKL  182 (211)
T ss_dssp             HHHHHCCGGGHHHHHHHTTCSSHHHHHHHHHHHHHHCCGGGHHHHHHHTTCSSHHHHHHHHHHHHHHCS-HHHHHHHHHH
T ss_pred             HHHHhCcHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCc-hhHHHHHHHH
Confidence            555555443333333333444544555555555555443333333333333444443444444444443 2333333333


Q ss_pred             H
Q 008280          190 I  190 (571)
Q Consensus       190 ~  190 (571)
                      .
T Consensus       183 l  183 (211)
T 3ltm_A          183 A  183 (211)
T ss_dssp             H
T ss_pred             H
Confidence            3

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=93.10  E-value=0.85  Score=35.92  Aligned_cols=70  Identities=16%  Similarity=0.021  Sum_probs=45.9

Q ss_pred             CChHhHHHHHHHHHHcCCHHH---HHHHHHhC-CCC-C--CHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCc
Q 008280          333 AKPDHYTCMVDLLGRAGKLVE---AVDLIKKM-PFK-P--QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA  402 (571)
Q Consensus       333 ~~~~~~~~li~~~~~~g~~~~---A~~~~~~~-~~~-p--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~  402 (571)
                      ++..+-..+.-++.+..+..+   ++.++++. ... |  .......|.-++.+.|++++|.+.++.+++.+|++..
T Consensus        33 ~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A~~~~~~lL~~eP~n~Q  109 (126)
T 1nzn_A           33 VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQTEPQNNQ  109 (126)
T ss_dssp             CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCCCHH
Confidence            555555555556666555444   55555554 111 2  1234455667788999999999999999999998865

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=92.50  E-value=3.3  Score=32.88  Aligned_cols=139  Identities=13%  Similarity=0.060  Sum_probs=80.7

Q ss_pred             HHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHH
Q 008280          174 VENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDAC  253 (571)
Q Consensus       174 ~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~  253 (571)
                      .-.|..++..++..+....   .+..-++.++--....-+-+-..++++.+-+.   .|.          ..||++....
T Consensus        18 ildG~v~qGveii~k~~~s---sni~E~NW~ICNiiD~a~C~y~v~vLd~IGki---FDi----------s~C~NlKrVi   81 (172)
T 1wy6_A           18 LLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FDL----------DKCQNLKSVV   81 (172)
T ss_dssp             HHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SCG----------GGCSCTHHHH
T ss_pred             HHhhhHHHHHHHHHHHcCC---CCccccceeeeecchhhchhHHHHHHHHHhhh---cCc----------HhhhcHHHHH
Confidence            3456666666666665542   23334444443333333433333333333221   111          2356666555


Q ss_pred             HHHHhhCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCC
Q 008280          254 KLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGI  331 (571)
Q Consensus       254 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~  331 (571)
                      ..+-.+. .+....+..+......|+-++-.+++..+.. +.+|++.....+..||.+.|+..++.+++.+..++ |+
T Consensus        82 ~C~~~~n-~~se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~k-G~  156 (172)
T 1wy6_A           82 ECGVINN-TLNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACKK-GE  156 (172)
T ss_dssp             HHHHHTT-CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT-TC
T ss_pred             HHHHHhc-chHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHh-hh
Confidence            5555443 3444555667777788888888888877543 24677777778888888888888888888877764 54

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=91.22  E-value=1  Score=36.55  Aligned_cols=55  Identities=11%  Similarity=-0.110  Sum_probs=44.4

Q ss_pred             hcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhCCCc
Q 008280          379 VHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNVV  434 (571)
Q Consensus       379 ~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  434 (571)
                      ..++.++|.++|+.++++...-.. .|...+..-.+.|+...|.+++......+.+
T Consensus        72 ei~D~d~aR~vy~~a~~~hKkFAK-iwi~~AqFEiRqgnl~kARkILg~AiG~~~k  126 (161)
T 4h7y_A           72 AIQEPDDARDYFQMARANCKKFAF-VHISFAQFELSQGNVKKSKQLLQKAVERGAV  126 (161)
T ss_dssp             HHHCGGGCHHHHHHHHHHCTTBHH-HHHHHHHHHHHTTCHHHHHHHHHHHHHTTCB
T ss_pred             HhcCHHHHHHHHHHHHHHhHHHHH-HHHHHHHHHHHcccHHHHHHHHHHHhccCCC
Confidence            448999999999999877444433 7778888888999999999999988876654

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=89.87  E-value=16  Score=39.65  Aligned_cols=50  Identities=10%  Similarity=0.029  Sum_probs=22.4

Q ss_pred             ccCchHHHHHHHHHHHhCCCCCCcchH--HHHHHHHHhcCCHHHHHHHHHhhC
Q 008280          210 HLSSLQLGKQVHQLVFKSPLCKDTTAL--TPLISMYCKCGDLEDACKLFLEIQ  260 (571)
Q Consensus       210 ~~~~~~~a~~~~~~~~~~g~~~~~~~~--~~li~~y~~~g~~~~A~~~~~~~~  260 (571)
                      ..|+.+.+..+.+.+.... .|.....  .++.-+|+..|+.....+++..+.
T Consensus       536 ~~g~~e~~~~li~~L~~~~-dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~  587 (963)
T 4ady_A          536 NYGRQELADDLITKMLASD-ESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAV  587 (963)
T ss_dssp             TTTCGGGGHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHH
T ss_pred             hCCChHHHHHHHHHHHhCC-CHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhc
Confidence            4455555555555544321 1211111  123344555566555555555543

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=88.80  E-value=13  Score=40.26  Aligned_cols=249  Identities=13%  Similarity=0.065  Sum_probs=115.3

Q ss_pred             HHHHcCChHHHHHHHhhCCC----CChh--HHHHHHHHHHhcCCHHHHHHHHhhCCC-CC----------HHHHHHHHHH
Q 008280          110 GYIECGQLDKAVELFKVAPV----KSVV--AWTAMISGYMKFGKVDLAEKLFDEMPT-KN----------LVTWNAMIAG  172 (571)
Q Consensus       110 ~~~~~g~~~~A~~~~~~~~~----~~~~--~~~~li~~~~~~g~~~~A~~~~~~~~~-~~----------~~~~~~li~~  172 (571)
                      +....|+.++++.++...+.    .+..  ....+.-+.+.+|..+++..++..... .+          +..-.++.-+
T Consensus       383 GlIh~g~~~~gl~~L~~yL~~~~s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGLG  462 (963)
T 4ady_A          383 GVIHKGNLLEGKKVMAPYLPGSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGIG  462 (963)
T ss_dssp             HHHTSSCTTTHHHHHTTTSTTSCCSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHHH
T ss_pred             hhhccCchHHHHHHHHHhccccCCCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHHH
Confidence            34556777777777776654    1222  222333344455555556555544321 11          1122233333


Q ss_pred             HHHcCC-hhHHHHHHHHHHHCCCCCCHhH--HH--HHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHH--HHHh
Q 008280          173 YVENSW-AEDGLKLLRMMIGLGIRPNASS--LS--SVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLIS--MYCK  245 (571)
Q Consensus       173 ~~~~g~-~~~A~~~~~~m~~~g~~pd~~t--~~--~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~--~y~~  245 (571)
                      ++-.|. -+++.+.+..+....   +...  ..  ++...+...|+.+....++..+....   +..+...++.  ++.-
T Consensus       463 la~~GS~~eev~e~L~~~L~dd---~~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~---~e~vrR~aalgLGll~  536 (963)
T 4ady_A          463 LAAMGSANIEVYEALKEVLYND---SATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQ---HGNITRGLAVGLALIN  536 (963)
T ss_dssp             HHSTTCCCHHHHHHHHHHHHTC---CHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCS---CHHHHHHHHHHHHHHT
T ss_pred             HHhcCCCCHHHHHHHHHHHhcC---CHHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccC---cHHHHHHHHHHHHhhh
Confidence            333343 245566666655432   2111  11  12222345566666666666665432   2222222333  3335


Q ss_pred             cCCHHHHHHHHHhhCC-CCh-hhHH---HHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHH--HHHHhcCcHHHH
Q 008280          246 CGDLEDACKLFLEIQR-KDV-VTWN---AMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALL--LACNHAGLVDLG  318 (571)
Q Consensus       246 ~g~~~~A~~~~~~~~~-~~~-~~~~---~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll--~a~~~~g~~~~a  318 (571)
                      .|+.+.+..+.+.+.. .+. +-|.   ++.-+|+..|+.....+++..+...   ++...-...+  -+....|+.+.+
T Consensus       537 ~g~~e~~~~li~~L~~~~dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d---~~d~VRraAViaLGlI~~g~~e~v  613 (963)
T 4ady_A          537 YGRQELADDLITKMLASDESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSD---SNDDVRRAAVIALGFVLLRDYTTV  613 (963)
T ss_dssp             TTCGGGGHHHHHHHHHCSCHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHC---SCHHHHHHHHHHHHHHTSSSCSSH
T ss_pred             CCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccC---CcHHHHHHHHHHHHhhccCCHHHH
Confidence            6676666666666542 232 2233   2334556667765555577776653   2222222222  233344555555


Q ss_pred             HHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCH-HHHHHHHHhCCCCCCHhH
Q 008280          319 IQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKL-VEAVDLIKKMPFKPQPAI  369 (571)
Q Consensus       319 ~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~-~~A~~~~~~~~~~p~~~~  369 (571)
                      .++++.+.+  ...|.+.--.++.-+....|.. .+|.+++..+...+|..+
T Consensus       614 ~rlv~~L~~--~~d~~VR~gAalALGli~aGn~~~~aid~L~~L~~D~d~~V  663 (963)
T 4ady_A          614 PRIVQLLSK--SHNAHVRCGTAFALGIACAGKGLQSAIDVLDPLTKDPVDFV  663 (963)
T ss_dssp             HHHTTTGGG--CSCHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHTCSSHHH
T ss_pred             HHHHHHHHh--cCCHHHHHHHHHHHHHhccCCCcHHHHHHHHHHccCCCHHH
Confidence            555554443  2234444333444444444443 566666666643455443

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=88.71  E-value=5.8  Score=29.35  Aligned_cols=61  Identities=18%  Similarity=0.153  Sum_probs=46.0

Q ss_pred             HHHHHhcCCHHHHHHHHhhCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHH
Q 008280          139 ISGYMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLS  202 (571)
Q Consensus       139 i~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~  202 (571)
                      +..+...|++++|..+.+.+.-||..+|-+|-.  .+.|..+++...+.++...| .|....|.
T Consensus        46 ~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL~~la~sg-~p~~q~Fa  106 (115)
T 2uwj_G           46 ISSLANQGRYQEALAFAHGNPWPALEPWFALCE--WHLGLGAALDRRLAGLGGSS-DPALADFA  106 (115)
T ss_dssp             HHHHHHTTCHHHHHGGGTTCCCGGGHHHHHHHH--HHTTCHHHHHHHHHHHHTCS-SHHHHHHH
T ss_pred             HHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHHHHHHhCC-CHHHHHHH
Confidence            345667899999999999988899999987754  47788888888887777766 45444443

>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=88.44  E-value=15  Score=35.57  Aligned_cols=25  Identities=0%  Similarity=-0.221  Sum_probs=13.0

Q ss_pred             HHHHHHHHHhccCchHHHHHHHHHH
Q 008280          200 SLSSVLLGCSHLSSLQLGKQVHQLV  224 (571)
Q Consensus       200 t~~~ll~~~~~~~~~~~a~~~~~~~  224 (571)
                      ....+...+...|+.++...++...
T Consensus        21 ~~~~l~~~~~~~~~~~~~~~~~~~~   45 (394)
T 3txn_A           21 GILQQGELYKQEGKAKELADLIKVT   45 (394)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3444555555555555555555443

>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=88.41  E-value=6.2  Score=29.26  Aligned_cols=59  Identities=15%  Similarity=0.139  Sum_probs=42.4

Q ss_pred             HHHHhcCCHHHHHHHHhhCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHH
Q 008280          140 SGYMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSL  201 (571)
Q Consensus       140 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~  201 (571)
                      ..+...|++++|..+.+.+.-||...|-+|-.  .+.|..+++...+.++...| .|....|
T Consensus        48 sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL~~la~sg-~p~~q~F  106 (116)
T 2p58_C           48 SSLMNRGDYASALQQGNKLAYPDLEPWLALCE--YRLGLGSALESRLNRLARSQ-DPRIQTF  106 (116)
T ss_dssp             HHHHHTTCHHHHHHHHTTSCCGGGHHHHHHHH--HHHTCHHHHHHHHHHHTTCC-CHHHHHH
T ss_pred             HHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHHHHHHhCC-CHHHHHH
Confidence            45667888888888888888888888877754  36677777777776776665 4444444

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=88.07  E-value=3  Score=34.49  Aligned_cols=115  Identities=4%  Similarity=-0.047  Sum_probs=57.3

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHhhC-----CCCh-------hhHHHHHHHHHHcCChHHHHHHHHHHHHcC-CCCCHH-
Q 008280          235 ALTPLISMYCKCGDLEDACKLFLEIQ-----RKDV-------VTWNAMISGYAQHGKGEKALRLFDKMKDEG-MKPDSI-  300 (571)
Q Consensus       235 ~~~~li~~y~~~g~~~~A~~~~~~~~-----~~~~-------~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~-  300 (571)
                      ++-.-+..+...|.++.|+-+.+.+.     .+++       .+...+..++...|++..|...|++..... .-|... 
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            33444566666777777776665533     1232       134555666677777777777777653211 111111 


Q ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhCCC
Q 008280          301 TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPF  363 (571)
Q Consensus       301 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  363 (571)
                      +...+..    ....          .......++.+.---+..+|.+.|++++|+.+++.+|.
T Consensus       102 ~~~~~~~----~ss~----------p~s~~~~~e~Elkykia~C~~~l~~~~~Ai~~Le~Ip~  150 (167)
T 3ffl_A          102 VRPSTGN----SAST----------PQSQCLPSEIEVKYKLAECYTVLKQDKDAIAILDGIPS  150 (167)
T ss_dssp             -----------------------------CCCCHHHHHHHHHHHHHHTTCHHHHHHHHHTSCG
T ss_pred             ccccccc----cCCC----------cccccccchHHHHHHHHHHHHHHCCHHHHHHHHhcCCc
Confidence            1111100    0000          00002233445555577777888888888888888753

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=87.62  E-value=15  Score=36.33  Aligned_cols=184  Identities=10%  Similarity=0.061  Sum_probs=117.9

Q ss_pred             CChhHHHHHHHHHHHC-----CCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHH----HHHhcC
Q 008280          177 SWAEDGLKLLRMMIGL-----GIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLIS----MYCKCG  247 (571)
Q Consensus       177 g~~~~A~~~~~~m~~~-----g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~----~y~~~g  247 (571)
                      |++++|++.+..+.+.     +..........++..|...++++.....+..+.+..-.. ......+++    ......
T Consensus        30 ~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~ql-k~ai~~~V~~~~~~l~~~~  108 (445)
T 4b4t_P           30 NDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQL-KLSIQYMIQKVMEYLKSSK  108 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTS-HHHHHHHHHHHHHHHHHHC
T ss_pred             CCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhh-HHHHHHHHHHHHHHHhcCC
Confidence            7889999887666542     234456667888999999999999888777666542121 222233333    222233


Q ss_pred             CH--HHHHHHHHhhCCC--C--------hhhHHHHHHHHHHcCChHHHHHHHHHHHHc--CCCCCH---HHHHHHHHHHH
Q 008280          248 DL--EDACKLFLEIQRK--D--------VVTWNAMISGYAQHGKGEKALRLFDKMKDE--GMKPDS---ITFVALLLACN  310 (571)
Q Consensus       248 ~~--~~A~~~~~~~~~~--~--------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--g~~p~~---~t~~~ll~a~~  310 (571)
                      ..  +.-..+.+.+..-  +        ......|...|...|++.+|..++.++...  |..+..   ..+...+..|.
T Consensus       109 ~~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l  188 (445)
T 4b4t_P          109 SLDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSI  188 (445)
T ss_dssp             TTHHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHH
Confidence            22  2233333333211  1        123456788899999999999999998643  322221   24566678899


Q ss_pred             hcCcHHHHHHHHHHhHHh-cCCCCC----hHhHHHHHHHHHHcCCHHHHHHHHHhC
Q 008280          311 HAGLVDLGIQYFDSMVND-YGIAAK----PDHYTCMVDLLGRAGKLVEAVDLIKKM  361 (571)
Q Consensus       311 ~~g~~~~a~~~~~~~~~~-~~~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~~  361 (571)
                      ..+++.+|..++.++... +...+.    ...+.+++..+...+++.+|.+.|.++
T Consensus       189 ~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~  244 (445)
T 4b4t_P          189 LKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEI  244 (445)
T ss_dssp             HHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence            999999999999887432 122222    345678888888999999988877665

>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=87.26  E-value=2.8  Score=31.24  Aligned_cols=62  Identities=10%  Similarity=0.193  Sum_probs=48.6

Q ss_pred             hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHH
Q 008280          280 GEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVD  343 (571)
Q Consensus       280 ~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~  343 (571)
                      .-+..+-++.+....+-|+.....+.+.||.+.+++..|.++|+.+..+.  .+...+|..+++
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            44666667777777788999999999999999999999999999887753  333556776654

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=86.52  E-value=8.3  Score=40.77  Aligned_cols=125  Identities=14%  Similarity=0.109  Sum_probs=74.1

Q ss_pred             HHHHHHHHhcCC-HHHHHHHHHhhCCCChh--h--HHHHHHHHHHcC-ChHHHHHHHHHHHHc------CCCCCHH----
Q 008280          237 TPLISMYCKCGD-LEDACKLFLEIQRKDVV--T--WNAMISGYAQHG-KGEKALRLFDKMKDE------GMKPDSI----  300 (571)
Q Consensus       237 ~~li~~y~~~g~-~~~A~~~~~~~~~~~~~--~--~~~li~~~~~~g-~~~~A~~~~~~m~~~------g~~p~~~----  300 (571)
                      .+|+..+...|+ ++.|..+|+++...++.  .  ...++..+.+.+ +--+|.+++.+..+.      ...+...    
T Consensus       252 ~~Ll~~~~~t~~~~~~a~~~le~L~~~~p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~~~  331 (754)
T 4gns_B          252 YSLKSFIAITPSLVDFTIDYLKGLTKKDPIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADSAR  331 (754)
T ss_dssp             HHHHHHHHTCGGGHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHHHH
T ss_pred             HHHHHHHcccccHHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhccccccccc
Confidence            334444444555 47788888887654432  2  122232222222 222455555544321      1122111    


Q ss_pred             --HH-HHH----HHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhCCC
Q 008280          301 --TF-VAL----LLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPF  363 (571)
Q Consensus       301 --t~-~~l----l~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  363 (571)
                        .+ ..|    ..-|...|+++.|+.+-++...  -.+.+-.+|..|+..|...|+++.|+-.++.+|.
T Consensus       332 ~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~--~aPseF~tW~~La~vYi~l~d~e~ALLtLNScPm  399 (754)
T 4gns_B          332 LMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTE--LALDSFESWYNLARCHIKKEEYEKALFAINSMPR  399 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSCC
T ss_pred             ccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHh--cCchhhHHHHHHHHHHHHhccHHHHHHHHhcCCC
Confidence              00 112    2346678999999999988875  2344588999999999999999999999999863

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=85.88  E-value=8.8  Score=28.41  Aligned_cols=88  Identities=16%  Similarity=0.130  Sum_probs=61.2

Q ss_pred             CchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCCCChhhHHHHHHHHHHcCChHHHHHHHHHHH
Q 008280          212 SSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMK  291 (571)
Q Consensus       212 ~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  291 (571)
                      ...++|..|-+.+...+-  ...+--.-+..+...|++++|..+.+.+.-||...|-+|..  .+.|..+++..-+.++.
T Consensus        20 H~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL~~la   95 (115)
T 2uwj_G           20 HCHEEALCIAEWLERLGQ--DEAARLIRISSLANQGRYQEALAFAHGNPWPALEPWFALCE--WHLGLGAALDRRLAGLG   95 (115)
T ss_dssp             TCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHGGGTTCCCGGGHHHHHHHH--HHTTCHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHHHHHH
Confidence            345667666666666552  22222222345667899999999999999999999988765  57788888888888887


Q ss_pred             HcCCCCCHHHHHH
Q 008280          292 DEGMKPDSITFVA  304 (571)
Q Consensus       292 ~~g~~p~~~t~~~  304 (571)
                      ..| .|....|..
T Consensus        96 ~sg-~p~~q~Fa~  107 (115)
T 2uwj_G           96 GSS-DPALADFAA  107 (115)
T ss_dssp             TCS-SHHHHHHHH
T ss_pred             hCC-CHHHHHHHH
Confidence            776 455555543

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=85.80  E-value=23  Score=33.14  Aligned_cols=167  Identities=14%  Similarity=0.181  Sum_probs=99.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhhCCCChhhHHHHHHHHHHcCChHHHHHHH----HHHHHcCCCCCHHHHHHHHHHHHh
Q 008280          236 LTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLF----DKMKDEGMKPDSITFVALLLACNH  311 (571)
Q Consensus       236 ~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~----~~m~~~g~~p~~~t~~~ll~a~~~  311 (571)
                      +.++..=|.+.+++++|.+++-.-           ...+.+.|+...|-++-    +-..+.++++|......++..+..
T Consensus        38 ~RTi~~Ry~~~k~y~eAidLL~~G-----------A~~ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~~L~~~  106 (336)
T 3lpz_A           38 TRLVAARYSKQGNWAAAVDILASV-----------SQTLLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLLGCLRL  106 (336)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHH-----------HHHHHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhhcCHHHHHHHHHHH-----------HHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Confidence            344566688889999988876542           33456667766655544    445566788888777777776665


Q ss_pred             cCcHHHH-HHHHHHhH---HhcC--CCCChHhHHHHHHHHHHcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHHhcCCHhH
Q 008280          312 AGLVDLG-IQYFDSMV---NDYG--IAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDL  385 (571)
Q Consensus       312 ~g~~~~a-~~~~~~~~---~~~~--~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~  385 (571)
                      ...-+-. ..+.+.++   .++|  -.-++.....+...|.+.|++.+|..-|- .+..+.+..+..++.-+...+.   
T Consensus       107 ~~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~i-lg~~~s~~~~a~mL~ew~~~~~---  182 (336)
T 3lpz_A          107 FQPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKHLV-LGTKESPEVLARMEYEWYKQDE---  182 (336)
T ss_dssp             SCTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHT-TSCTTHHHHHHHHHHHHHHTSC---
T ss_pred             CCCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHHHH-hcCCchHHHHHHHHHHHHHhcC---
Confidence            4431111 11222221   1123  33457788889999999999999998874 3433444666665554444332   


Q ss_pred             HHHHHHHHhccCCCCCchhHH-HHHHHHhhccChhHHHHHHHHHHh
Q 008280          386 AEFAAMNLFNLNPANAAGCYV-QLANIYAAMKKWDDVARIRLSMKE  430 (571)
Q Consensus       386 a~~~~~~~~~~~p~~~~~~~~-~l~~~~~~~g~~~~a~~~~~~m~~  430 (571)
                                  |.... .|. ..+--|...|+...|..+++...+
T Consensus       183 ------------~~e~d-lfiaRaVL~yL~l~n~~~A~~~~~~f~~  215 (336)
T 3lpz_A          183 ------------SHTAP-LYCARAVLPYLLVANVRAANTAYRIFTS  215 (336)
T ss_dssp             ------------GGGHH-HHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ------------CccHH-HHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence                        22222 222 333345667788888887766553

>2p58_C Putative type III secretion protein YSCG; type III secretion system, structure, needle protein, YSCE, YSCF, transport protein/chaperone complex; 1.80A {Yersinia pestis}

Probab=85.46  E-value=9.4  Score=28.32  Aligned_cols=88  Identities=15%  Similarity=0.161  Sum_probs=60.7

Q ss_pred             CchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCCCChhhHHHHHHHHHHcCChHHHHHHHHHHH
Q 008280          212 SSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMK  291 (571)
Q Consensus       212 ~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  291 (571)
                      ...++|..|-+.+...+-  ...+--.-+..+...|++++|..+.+.+.-||...|-+|..  .+.|..+++..-+.++.
T Consensus        21 H~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL~~la   96 (116)
T 2p58_C           21 HYHEEANCIAEWLHLKGE--EEAVQLIRLSSLMNRGDYASALQQGNKLAYPDLEPWLALCE--YRLGLGSALESRLNRLA   96 (116)
T ss_dssp             TCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTSCCGGGHHHHHHHH--HHHTCHHHHHHHHHHHT
T ss_pred             hHHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHHHHHH
Confidence            356677777666666552  22222222345667899999999999999999999988765  46788888888887887


Q ss_pred             HcCCCCCHHHHHH
Q 008280          292 DEGMKPDSITFVA  304 (571)
Q Consensus       292 ~~g~~p~~~t~~~  304 (571)
                      ..| .|....|..
T Consensus        97 ~sg-~p~~q~Fa~  108 (116)
T 2p58_C           97 RSQ-DPRIQTFVN  108 (116)
T ss_dssp             TCC-CHHHHHHHH
T ss_pred             hCC-CHHHHHHHH
Confidence            665 455555543

>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=85.22  E-value=1.8  Score=42.09  Aligned_cols=67  Identities=15%  Similarity=0.023  Sum_probs=54.3

Q ss_pred             HHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHh-----CCCccCC
Q 008280          370 FGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKE-----NNVVKMP  437 (571)
Q Consensus       370 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~-----~~~~~~~  437 (571)
                      ...++..+...|+++++...+..++..+|-+.. .+..|..+|.+.|+..+|.+.|+...+     .|+.|.|
T Consensus       174 ~~~~~~~~l~~g~~~~a~~~l~~~~~~~P~~E~-~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~  245 (388)
T 2ff4_A          174 HTAKAEAEIACGRASAVIAELEALTFEHPYREP-LWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGP  245 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHH-HHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCH
Confidence            345666777889999999999999999998877 899999999999999999999887653     4766543

>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=83.77  E-value=7.7  Score=37.60  Aligned_cols=68  Identities=13%  Similarity=0.143  Sum_probs=40.3

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHH----hcCCCCChHh
Q 008280          269 AMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVN----DYGIAAKPDH  337 (571)
Q Consensus       269 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~----~~~~~~~~~~  337 (571)
                      .++..+...|++.+|+..+..+.... +-+...+..++.++...|+..+|.+.|+.+.+    ..|+.|++.+
T Consensus       176 ~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l  247 (388)
T 2ff4_A          176 AKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  247 (388)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHH
Confidence            34555666666666666666665542 33555666666677777777666666655433    2355555543

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=81.44  E-value=24  Score=39.78  Aligned_cols=164  Identities=10%  Similarity=0.064  Sum_probs=100.0

Q ss_pred             HHHHHHHHhcCCHHHHHHHHhhCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchH
Q 008280          136 TAMISGYMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQ  215 (571)
Q Consensus       136 ~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~  215 (571)
                      ..++..+.+.+..+.|.++..-.+. +...--.+..+|...|++++|.+.|++.-. |+..+....          ....
T Consensus       816 ~~l~~~l~~~~~~~~~~~l~~~~~~-~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~-~~~~~~~l~----------~~~~  883 (1139)
T 4fhn_B          816 TELVEKLFLFKQYNACMQLIGWLNS-DPIAVYLKALIYLKSKEAVKAVRCFKTTSL-VLYSHTSQF----------AVLR  883 (1139)
T ss_dssp             HHHHHHHHHHSCTTHHHHHHHHSCC-CHHHHHHHHHHHHHTTCHHHHHHHHHTCCC-SCTTCCCSC----------SSHH
T ss_pred             HHHHHHHHHhhhHHHHHHHhhhccC-CcHHHHHHHHHHHhcCCHHHHHHHHHHHhh-hhcccchhh----------hhhc
Confidence            3455667777888888776655543 555555677888999999999999976532 232221110          0000


Q ss_pred             HHHHHHHHHHhC-CC-CCCcchHHHHHHHHHhcCCHHHHHHHHHhhC----CCCh----hhHHHHHHHHHHcCChHHHHH
Q 008280          216 LGKQVHQLVFKS-PL-CKDTTALTPLISMYCKCGDLEDACKLFLEIQ----RKDV----VTWNAMISGYAQHGKGEKALR  285 (571)
Q Consensus       216 ~a~~~~~~~~~~-g~-~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~----~~~~----~~~~~li~~~~~~g~~~~A~~  285 (571)
                      .    ...+... .. ..-..-|.-++..+.+.|.++.+.++-....    ..+.    ..|..+..++...|++++|..
T Consensus       884 ~----~~~~~~~~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~  959 (1139)
T 4fhn_B          884 E----FQEIAEKYHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHV  959 (1139)
T ss_dssp             H----HHHHHHTTTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGH
T ss_pred             c----cccccccccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHH
Confidence            0    0111111 11 1122345667777778888777766554322    2222    268899999999999999999


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHH
Q 008280          286 LFDKMKDEGMKPDSITFVALLLACNHAGLVDL  317 (571)
Q Consensus       286 ~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~  317 (571)
                      .+..+.....  -...+..++...+..|..+.
T Consensus       960 aL~~~pd~~~--r~~cLr~LV~~lce~~~~~~  989 (1139)
T 4fhn_B          960 ALMVLSTTPL--KKSCLLDFVNQLTKQGKINQ  989 (1139)
T ss_dssp             HHHHHHHSSS--CHHHHHHHHHHHHHHCCHHH
T ss_pred             HHHhCCCHHH--HHHHHHHHHHHHHhCCChhh
Confidence            9988876543  35566777776676666543

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=81.36  E-value=43  Score=32.92  Aligned_cols=174  Identities=13%  Similarity=0.048  Sum_probs=103.1

Q ss_pred             CCHHHHHHHHhhCC-----C----CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHC-CCCCCHhHHHHHHHHH----hcc
Q 008280          146 GKVDLAEKLFDEMP-----T----KNLVTWNAMIAGYVENSWAEDGLKLLRMMIGL-GIRPNASSLSSVLLGC----SHL  211 (571)
Q Consensus       146 g~~~~A~~~~~~~~-----~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-g~~pd~~t~~~ll~~~----~~~  211 (571)
                      |+++.|.+.+-.+.     .    ........++..|...|+++...+.+.-+... |..+.  ....++..+    ...
T Consensus        30 ~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~qlk~--ai~~~V~~~~~~l~~~  107 (445)
T 4b4t_P           30 NDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLKL--SIQYMIQKVMEYLKSS  107 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSHH--HHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhHH--HHHHHHHHHHHHHhcC
Confidence            67888877664433     1    23446778889999999999988877666543 33222  233444333    223


Q ss_pred             CchHHHHH--HHHHHHh--CCCC-C---CcchHHHHHHHHHhcCCHHHHHHHHHhhCC----C-C----hhhHHHHHHHH
Q 008280          212 SSLQLGKQ--VHQLVFK--SPLC-K---DTTALTPLISMYCKCGDLEDACKLFLEIQR----K-D----VVTWNAMISGY  274 (571)
Q Consensus       212 ~~~~~a~~--~~~~~~~--~g~~-~---~~~~~~~li~~y~~~g~~~~A~~~~~~~~~----~-~----~~~~~~li~~~  274 (571)
                      ...+....  +......  .|-. .   ...+...|...|...|++.+|.+++..+..    . +    +..+...+..|
T Consensus       108 ~~~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~  187 (445)
T 4b4t_P          108 KSLDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELS  187 (445)
T ss_dssp             CTTHHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHH
T ss_pred             CchhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHH
Confidence            33332211  1111111  1100 0   122346688999999999999999988752    1 1    34677778889


Q ss_pred             HHcCChHHHHHHHHHHHH----cCCCCCH--HHHHHHHHHHHhcCcHHHHHHH
Q 008280          275 AQHGKGEKALRLFDKMKD----EGMKPDS--ITFVALLLACNHAGLVDLGIQY  321 (571)
Q Consensus       275 ~~~g~~~~A~~~~~~m~~----~g~~p~~--~t~~~ll~a~~~~g~~~~a~~~  321 (571)
                      ...+++.+|..++.+...    ....|+.  ..+...+..+.+.+++.+|.+.
T Consensus       188 l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~  240 (445)
T 4b4t_P          188 ILKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQY  240 (445)
T ss_dssp             HHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHH
Confidence            999999999999988642    2222221  1334445556666676666544

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=81.08  E-value=6.4  Score=31.09  Aligned_cols=60  Identities=10%  Similarity=0.220  Sum_probs=48.2

Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHH
Q 008280          282 KALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVD  343 (571)
Q Consensus       282 ~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~  343 (571)
                      +..+-++.+....+-|+.......+.+|.+.+++..|.++|+.++.+.  .+....|..+++
T Consensus        71 ElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~--~~~~~iY~y~lq  130 (152)
T 2y69_E           71 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA--GPHKEIYPYVIQ  130 (152)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT--TTCTTHHHHHHH
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhc--CCchhhHHHHHH
Confidence            556666677777889999999999999999999999999999987753  444556777664

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=80.99  E-value=20  Score=28.74  Aligned_cols=70  Identities=13%  Similarity=0.034  Sum_probs=43.6

Q ss_pred             CChHhHHHHHHHHHHcCCHH---HHHHHHHhC-CCCC-C-HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCc
Q 008280          333 AKPDHYTCMVDLLGRAGKLV---EAVDLIKKM-PFKP-Q-PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA  402 (571)
Q Consensus       333 ~~~~~~~~li~~~~~~g~~~---~A~~~~~~~-~~~p-~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~  402 (571)
                      |+..+-..+.-++.+..+.+   +++.++++. ...| + ......|.-++.+.|++++|.+..+.+++.+|++..
T Consensus        37 vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~eP~n~Q  112 (144)
T 1y8m_A           37 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQ  112 (144)
T ss_dssp             SCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTCCCCHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcHH
Confidence            44444444445555544332   344444443 1112 2 234455667889999999999999999999999864

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=80.57  E-value=13  Score=30.70  Aligned_cols=35  Identities=11%  Similarity=0.151  Sum_probs=22.4

Q ss_pred             ChhHHHHHHHHHHhcCCHHHHHHHHhhCCC--CCHHH
Q 008280          131 SVVAWTAMISGYMKFGKVDLAEKLFDEMPT--KNLVT  165 (571)
Q Consensus       131 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~~~  165 (571)
                      +..+-.-+..+|.+.++.++|+.+++.++.  +++..
T Consensus       121 e~Elkykia~C~~~l~~~~~Ai~~Le~Ip~k~Rt~kv  157 (167)
T 3ffl_A          121 EIEVKYKLAECYTVLKQDKDAIAILDGIPSRQRTPKI  157 (167)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHTSCGGGCCHHH
T ss_pred             hHHHHHHHHHHHHHHCCHHHHHHHHhcCCchhcCHHH
Confidence            334555566777777777777777777763  44443

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	571
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	2e-04

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]} Length = 388

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.6 bits (96), Expect = 2e-04
 Identities = 31/229 (13%), Positives = 81/229 (35%), Gaps = 17/229 (7%)

Query: 73  WNTMISGFVQKKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAP---V 129
              ++    + +         +      +V+WS +   +   G++  A+  F+ A     
Sbjct: 141 LGNLLKALGRLEEAKACYLKAIETQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDP 200

Query: 130 KSVVAWTAMISGYMKFGKVDLAEKLFDEMPTKNLV---TWNAMIAGYVENSWAEDGLKLL 186
             + A+  + +   +    D A   +    + +         +   Y E    +  +   
Sbjct: 201 NFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTY 260

Query: 187 RMMIGLGIRPNASSLSSVLLGCSHLSSLQLGK---QVHQLVFKSPLCKDTTALTPLISMY 243
           R  I   ++P+    +   L  +      + +     +  +   P   D+     L ++ 
Sbjct: 261 RRAIE--LQPH-FPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSL--NNLANIK 315

Query: 244 CKCGDLEDACKLF---LEIQRKDVVTWNAMISGYAQHGKGEKALRLFDK 289
            + G++E+A +L+   LE+  +     + + S   Q GK ++AL  + +
Sbjct: 316 REQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKE 364

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	571
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.91
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.91
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.6
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.57
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.19
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.13
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.1
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.07
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.05
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.05
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.02
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.0
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.95
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.88
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.68
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.65
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.59
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.57
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.51
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.48
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.47
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.46
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.42
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.4
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.35
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.32
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.27
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.27
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.22
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.18
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.17
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.16
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.1
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.06
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.04
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.01
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.0
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.99
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.97
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.92
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.9
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.9
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.67
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.6
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.58
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.57
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.5
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.47
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.31
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.28
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.24
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.2
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.06
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	96.87
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	96.33
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	95.07
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	94.4
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	93.93
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	93.91
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	93.21
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	91.52
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	88.33
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	86.52

>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=1.7e-21  Score=192.18  Aligned_cols=364  Identities=15%  Similarity=0.109  Sum_probs=271.2

Q ss_pred             HHHcCCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHcCCCHHHHHHHHhhCCC--C-CcchHHHHHHHHHHcCChHHH
Q 008280           47 CILLNSDDVVAAFDFFQRLPI---KDTASWNTMISGFVQKKNMAKARDLFLAMPE--K-NSVSWSAMISGYIECGQLDKA  120 (571)
Q Consensus        47 ~~~~~~g~~~~A~~~~~~m~~---~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~-d~~~~~~li~~~~~~g~~~~A  120 (571)
                      .+.+. |++++|++.|+++.+   .++.++..+..+|.+.|++++|+..|++..+  | +..+|..+...|.+.|++++|
T Consensus         8 ~~~~~-G~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l~~~~~~~g~~~~A   86 (388)
T d1w3ba_           8 REYQA-GDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQLQEA   86 (388)
T ss_dssp             HHHHH-TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHc-CCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHhhhhcccccc
Confidence            34455 777777777766532   3456677777777777777777777776643  2 456777777778888888888


Q ss_pred             HHHHhhCC---CCChhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCC
Q 008280          121 VELFKVAP---VKSVVAWTAMISGYMKFGKVDLAEKLFDEMP---TKNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGI  194 (571)
Q Consensus       121 ~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  194 (571)
                      ++.+....   +.+..........+...+....+........   ..+...+..........+....+...+.+..... 
T Consensus        87 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-  165 (388)
T d1w3ba_          87 IEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQ-  165 (388)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHC-
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccchhhhhHHHHHHhhccC-
Confidence            77776554   3333444444444444444444444333322   3444556666666777778888887777776542 


Q ss_pred             CCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhC---CCChhhHHHHH
Q 008280          195 RPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQ---RKDVVTWNAMI  271 (571)
Q Consensus       195 ~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~---~~~~~~~~~li  271 (571)
                      +.+...+..+...+...|+.+.|...+..+++.. +.+...+..+...|...|++++|...|++..   ..+...|..+.
T Consensus       166 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~  244 (388)
T d1w3ba_         166 PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLA  244 (388)
T ss_dssp             TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             cchhHHHHhhcccccccCcHHHHHHHHHHHHHhC-cccHHHHHHHhhhhhccccHHHHHHHHHHhHHHhhhHHHHHHHHH
Confidence            3345566777777788888888888888887764 4556778888999999999999999988765   34667788888


Q ss_pred             HHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCH
Q 008280          272 SGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKL  351 (571)
Q Consensus       272 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  351 (571)
                      ..+.+.|++++|+..|++..+.. +-+..++..+..++...|++++|.+.++....  ..+.+...+..+...+.+.|++
T Consensus       245 ~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~  321 (388)
T d1w3ba_         245 CVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALR--LCPTHADSLNNLANIKREQGNI  321 (388)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHTTTCH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhc--cCCccchhhhHHHHHHHHCCCH
Confidence            99999999999999999988753 23466788888999999999999999998876  3466678888899999999999


Q ss_pred             HHHHHHHHhC-CCCCC-HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccC
Q 008280          352 VEAVDLIKKM-PFKPQ-PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKK  417 (571)
Q Consensus       352 ~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~  417 (571)
                      ++|++.|++. ...|+ ..+|..+...+...|++++|+..++++++++|+++. +|..|+.+|.+.|+
T Consensus       322 ~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~P~~~~-a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         322 EEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFAD-AYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCTTCHH-HHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHHcCC
Confidence            9999999886 44454 578888999999999999999999999999999988 99999999988775

>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=2.2e-21  Score=191.24  Aligned_cols=349  Identities=14%  Similarity=0.090  Sum_probs=290.0

Q ss_pred             HHHHHHcCCCHHHHHHHHhhCCC--C-CcchHHHHHHHHHHcCChHHHHHHHhhCC---CCChhHHHHHHHHHHhcCCHH
Q 008280           76 MISGFVQKKNMAKARDLFLAMPE--K-NSVSWSAMISGYIECGQLDKAVELFKVAP---VKSVVAWTAMISGYMKFGKVD  149 (571)
Q Consensus        76 li~~~~~~g~~~~A~~~~~~m~~--~-d~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~  149 (571)
                      +...+.+.|++++|++.|+++.+  | ++.++..+...|.+.|++++|++.|++..   +.++.++..+..+|.+.|+++
T Consensus         5 la~~~~~~G~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l~~~~~~~g~~~   84 (388)
T d1w3ba_           5 LAHREYQAGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQLQ   84 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHhhhhcccc
Confidence            45667788999999999998853  3 56788999999999999999999998875   456688999999999999999


Q ss_pred             HHHHHHhhCCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHh
Q 008280          150 LAEKLFDEMPT---KNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFK  226 (571)
Q Consensus       150 ~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~  226 (571)
                      +|...+.....   .+...+..........+....+........... .................+....+...+.....
T Consensus        85 ~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  163 (388)
T d1w3ba_          85 EAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYLKAIE  163 (388)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHH
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccc-cccccccccccccccccchhhhhHHHHHHhhc
Confidence            99999988764   445566666666777777777777666665543 33444455555566677788888888777776


Q ss_pred             CCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHH
Q 008280          227 SPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFV  303 (571)
Q Consensus       227 ~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~  303 (571)
                      .. +.+...+..+...+...|++++|...+++..+   .+..+|..+...+...|++++|+..|++....+ +.+...+.
T Consensus       164 ~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~  241 (388)
T d1w3ba_         164 TQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHG  241 (388)
T ss_dssp             HC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             cC-cchhHHHHhhcccccccCcHHHHHHHHHHHHHhCcccHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-hhHHHHHH
Confidence            54 45667788899999999999999999987653   466789999999999999999999999998764 44667788


Q ss_pred             HHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC--CCCCCHhHHHHHHHHHHhcC
Q 008280          304 ALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM--PFKPQPAIFGTLLSACRVHK  381 (571)
Q Consensus       304 ~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~g  381 (571)
                      .+...+...|++++|...|++..+.  .+.++..+..+...|...|++++|++.++..  ..+.+...+..+...+...|
T Consensus       242 ~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  319 (388)
T d1w3ba_         242 NLACVYYEQGLIDLAIDTYRRAIEL--QPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQG  319 (388)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHT--CSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccCCccchhhhHHHHHHHHCC
Confidence            8889999999999999999998863  3445788999999999999999999999877  23356788899999999999


Q ss_pred             CHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHh
Q 008280          382 RLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  430 (571)
Q Consensus       382 ~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  430 (571)
                      ++++|+..++++++.+|+++. ++..++.+|.+.|++++|.+.+++..+
T Consensus       320 ~~~~A~~~~~~al~~~p~~~~-~~~~la~~~~~~g~~~~A~~~~~~al~  367 (388)
T d1w3ba_         320 NIEEAVRLYRKALEVFPEFAA-AHSNLASVLQQQGKLQEALMHYKEAIR  367 (388)
T ss_dssp             CHHHHHHHHHHHTTSCTTCHH-HHHHHHHHHHTTTCCHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            999999999999999999988 999999999999999999999998876

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.60  E-value=6.2e-14  Score=134.06  Aligned_cols=241  Identities=12%  Similarity=0.031  Sum_probs=165.6

Q ss_pred             HHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcC
Q 008280          168 AMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCG  247 (571)
Q Consensus       168 ~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g  247 (571)
                      .....+.+.|++++|+..|+++.+.. +-+..+|..+..++...|+++.|...+..+++.. +.+...+..++..|...|
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~  101 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNES  101 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-cccccccccccccccccc
Confidence            45666778888888888888877653 2245566666666777777777777777666654 344556666666666666


Q ss_pred             CHHHHHHHHHhhCCCChh---hHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHH
Q 008280          248 DLEDACKLFLEIQRKDVV---TWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDS  324 (571)
Q Consensus       248 ~~~~A~~~~~~~~~~~~~---~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~  324 (571)
                      ++++|.+.++.....+..   .+........                    ..+.......+..+...+...++...+..
T Consensus       102 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~--------------------~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  161 (323)
T d1fcha_         102 LQRQACEILRDWLRYTPAYAHLVTPAEEGAG--------------------GAGLGPSKRILGSLLSDSLFLEVKELFLA  161 (323)
T ss_dssp             CHHHHHHHHHHHHHTSTTTGGGCC-----------------------------------CTTHHHHHHHHHHHHHHHHHH
T ss_pred             cccccccchhhHHHhccchHHHHHhhhhhhh--------------------hcccccchhhHHHHHHhhHHHHHHHHHHH
Confidence            666666666654321110   0000000000                    00000111122233445667788888887


Q ss_pred             hHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCc
Q 008280          325 MVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA  402 (571)
Q Consensus       325 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~  402 (571)
                      ..+.....++...+..+...+...|++++|+..|++. ...| +..+|..+...+...|++++|+..++++++++|+++.
T Consensus       162 al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~  241 (323)
T d1fcha_         162 AVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIR  241 (323)
T ss_dssp             HHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH
T ss_pred             HHHHhhcccccccchhhHHHHHHHHHHhhhhcccccccccccccccchhhhhhcccccccchhHHHHHHHHHHHhhccHH
Confidence            7764334455778888999999999999999999886 2233 4788999999999999999999999999999999988


Q ss_pred             hhHHHHHHHHhhccChhHHHHHHHHHHhC
Q 008280          403 GCYVQLANIYAAMKKWDDVARIRLSMKEN  431 (571)
Q Consensus       403 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  431 (571)
                       ++..++.+|.+.|++++|++.|++..+.
T Consensus       242 -a~~~lg~~~~~~g~~~~A~~~~~~al~l  269 (323)
T d1fcha_         242 -SRYNLGISCINLGAHREAVEHFLEALNM  269 (323)
T ss_dssp             -HHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             -HHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence             9999999999999999999999988763

>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=2.2e-13  Score=130.12  Aligned_cols=267  Identities=13%  Similarity=0.045  Sum_probs=193.0

Q ss_pred             HHHHHHHHhcCCHHHHHHHHhhCCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccC
Q 008280          136 TAMISGYMKFGKVDLAEKLFDEMPT---KNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLS  212 (571)
Q Consensus       136 ~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~  212 (571)
                      ......|.+.|++++|...|+++.+   .+..+|..+..+|...|++++|+..|.+..+.. +-+...+..+...+...|
T Consensus        23 ~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~  101 (323)
T d1fcha_          23 FEEGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNES  101 (323)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-cccccccccccccccccc
Confidence            3566778899999999999999864   356799999999999999999999999998753 335677888888999999


Q ss_pred             chHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHH
Q 008280          213 SLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKD  292 (571)
Q Consensus       213 ~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  292 (571)
                      ++++|...+..+.+.... .............                ..+.......+..+...+...+|...|.+...
T Consensus       102 ~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~  164 (323)
T d1fcha_         102 LQRQACEILRDWLRYTPA-YAHLVTPAEEGAG----------------GAGLGPSKRILGSLLSDSLFLEVKELFLAAVR  164 (323)
T ss_dssp             CHHHHHHHHHHHHHTSTT-TGGGCC-------------------------------CTTHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccccccchhhHHHhccc-hHHHHHhhhhhhh----------------hcccccchhhHHHHHHhhHHHHHHHHHHHHHH
Confidence            999999999998876421 1111100000000                00111111122233445667788888888766


Q ss_pred             cCC-CCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHhH
Q 008280          293 EGM-KPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAI  369 (571)
Q Consensus       293 ~g~-~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~  369 (571)
                      ... .++...+..+...+...|++++|...|+.....  .+.+...|..+...|.+.|++++|++.|++. ...| +..+
T Consensus       165 ~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a  242 (323)
T d1fcha_         165 LDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV--RPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRS  242 (323)
T ss_dssp             HSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHH
T ss_pred             HhhcccccccchhhHHHHHHHHHHhhhhccccccccc--ccccccchhhhhhcccccccchhHHHHHHHHHHHhhccHHH
Confidence            432 345667788888999999999999999998764  2345778889999999999999999999887 3334 4678


Q ss_pred             HHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhH-----------HHHHHHHhhccChhHHHH
Q 008280          370 FGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCY-----------VQLANIYAAMKKWDDVAR  423 (571)
Q Consensus       370 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~-----------~~l~~~~~~~g~~~~a~~  423 (571)
                      |..+..+|...|++++|+..|+++++++|++.. .+           ..+..++...|+.+.+..
T Consensus       243 ~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~-~~~~~~~~~~~~~~~l~~al~~~~~~d~~~~  306 (323)
T d1fcha_         243 RYNLGISCINLGAHREAVEHFLEALNMQRKSRG-PRGEGGAMSENIWSTLRLALSMLGQSDAYGA  306 (323)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC-------CCCCCHHHHHHHHHHHHHHTCGGGHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCCcChh-hhhhhHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            999999999999999999999999998887654 33           345556666666655443

>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=99.19  E-value=3.4e-09  Score=101.24  Aligned_cols=259  Identities=10%  Similarity=-0.020  Sum_probs=160.3

Q ss_pred             HHHHHcCChhHHHHHHHHHHHCCCCCC----HhHHHHHHHHHhccCchHHHHHHHHHHHhCCCC-----CCcchHHHHHH
Q 008280          171 AGYVENSWAEDGLKLLRMMIGLGIRPN----ASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLC-----KDTTALTPLIS  241 (571)
Q Consensus       171 ~~~~~~g~~~~A~~~~~~m~~~g~~pd----~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~-----~~~~~~~~li~  241 (571)
                      ..+...|++++|++++++........+    ...+..+...+...|++++|...+..+.+....     .....+..+..
T Consensus        20 ~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~   99 (366)
T d1hz4a_          20 QVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSE   99 (366)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHH
Confidence            344455555555555555544311101    112333444455555555555555554432100     01223444556


Q ss_pred             HHHhcCCHHHHHHHHHhhCC-------CC----hhhHHHHHHHHHHcCChHHHHHHHHHHHHcCC----CCCHHHHHHHH
Q 008280          242 MYCKCGDLEDACKLFLEIQR-------KD----VVTWNAMISGYAQHGKGEKALRLFDKMKDEGM----KPDSITFVALL  306 (571)
Q Consensus       242 ~y~~~g~~~~A~~~~~~~~~-------~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~----~p~~~t~~~ll  306 (571)
                      .|...|++..|...+.....       +.    ...+..+...+...|+++.+...+........    .....++....
T Consensus       100 ~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  179 (366)
T d1hz4a_         100 ILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLI  179 (366)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHH
Confidence            67777777777776665431       11    13455566778888888888888888765322    12234555566


Q ss_pred             HHHHhcCcHHHHHHHHHHhHHhcCCCCC-----hHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-----CHhHHHHHHH
Q 008280          307 LACNHAGLVDLGIQYFDSMVNDYGIAAK-----PDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-----QPAIFGTLLS  375 (571)
Q Consensus       307 ~a~~~~g~~~~a~~~~~~~~~~~~~~~~-----~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-----~~~~~~~l~~  375 (571)
                      ..+...+....+...+........-...     ...+..+...+...|++++|...+++. ...|     ....+..+..
T Consensus       180 ~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~  259 (366)
T d1hz4a_         180 QCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIAR  259 (366)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHH
T ss_pred             HHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHH
Confidence            6777788888888777665543221111     234556677788899999999998877 1111     1345667788


Q ss_pred             HHHhcCCHhHHHHHHHHHhc------cCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHh
Q 008280          376 ACRVHKRLDLAEFAAMNLFN------LNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  430 (571)
Q Consensus       376 ~~~~~g~~~~a~~~~~~~~~------~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  430 (571)
                      ++...|++++|...+++++.      ..|.... ++..++.+|.+.|++++|.+.+++..+
T Consensus       260 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~-~~~~la~~~~~~g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         260 AQILLGEFEPAEIVLEELNENARSLRLMSDLNR-NLLLLNQLYWQAGRKSDAQRVLLDALK  319 (366)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHhhcccChHHHH-HHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            89999999999999998863      3455555 788999999999999999999987654

>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=99.13  E-value=4.1e-09  Score=99.08  Aligned_cols=187  Identities=10%  Similarity=0.070  Sum_probs=144.8

Q ss_pred             CchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCCC---C-hhhHHHHHHHHHHcCChHHHHHHH
Q 008280          212 SSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRK---D-VVTWNAMISGYAQHGKGEKALRLF  287 (571)
Q Consensus       212 ~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~---~-~~~~~~li~~~~~~g~~~~A~~~~  287 (571)
                      +..+.+..+++..++...+.+...+...+..+.+.|+++.|..+|+++.+.   + ...|...+....+.|+.++|.++|
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            345778888888887655666778888889999999999999999987542   3 346888888888999999999999


Q ss_pred             HHHHHcCCCCCHHHHHHHHH-HHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC----C
Q 008280          288 DKMKDEGMKPDSITFVALLL-ACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM----P  362 (571)
Q Consensus       288 ~~m~~~g~~p~~~t~~~ll~-a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~----~  362 (571)
                      +++.+.+.. +...|..... -+...|+.+.|..+|+.+.+.  .+.++..|...++.+.+.|++++|..+|++.    +
T Consensus       158 ~~al~~~~~-~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~--~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~  234 (308)
T d2onda1         158 KKAREDART-RHHVYVTAALMEYYCSKDKSVAFKIFELGLKK--YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGS  234 (308)
T ss_dssp             HHHHTSTTC-CTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH--HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSS
T ss_pred             HHHHHhCCC-cHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh--hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC
Confidence            998876533 3333333332 234568899999999998874  4556788889999999999999999999886    3


Q ss_pred             CCCC--HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCC
Q 008280          363 FKPQ--PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANA  401 (571)
Q Consensus       363 ~~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~  401 (571)
                      ..|+  ...|...+.--..+|+.+.+..+++++.+..|+..
T Consensus       235 ~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~~~~~~  275 (308)
T d2onda1         235 LPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFREEY  275 (308)
T ss_dssp             SCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHTTTTT
T ss_pred             CChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcccc
Confidence            3333  45788888888889999999999999988888765

>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=99.10  E-value=8.8e-09  Score=98.26  Aligned_cols=259  Identities=9%  Similarity=-0.023  Sum_probs=148.4

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHHHCCC-CCC----HhHHHHHHHHHhccCchHHHHHHHHHHHhC----CCCCC---
Q 008280          165 TWNAMIAGYVENSWAEDGLKLLRMMIGLGI-RPN----ASSLSSVLLGCSHLSSLQLGKQVHQLVFKS----PLCKD---  232 (571)
Q Consensus       165 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~pd----~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~----g~~~~---  232 (571)
                      +++.+...|...|++++|+..|++...... .++    ..++..+...+...|++..+...+......    +....   
T Consensus        53 a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~  132 (366)
T d1hz4a_          53 ATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMH  132 (366)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHH
Confidence            344455555555555555555555433110 011    112233334445555555555555544321    11111   


Q ss_pred             cchHHHHHHHHHhcCCHHHHHHHHHhhCC--------CChhhHHHHHHHHHHcCChHHHHHHHHHHHHc--CCCCC----
Q 008280          233 TTALTPLISMYCKCGDLEDACKLFLEIQR--------KDVVTWNAMISGYAQHGKGEKALRLFDKMKDE--GMKPD----  298 (571)
Q Consensus       233 ~~~~~~li~~y~~~g~~~~A~~~~~~~~~--------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--g~~p~----  298 (571)
                      ...+..+...|...|+++.+...+.....        ....++..+...+...++..++...+.+....  .....    
T Consensus       133 ~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~  212 (366)
T d1hz4a_         133 EFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWI  212 (366)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHH
T ss_pred             HHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchH
Confidence            12344556677777787777777765542        12234555566677778888888777765431  11111    


Q ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCC--ChHhHHHHHHHHHHcCCHHHHHHHHHhC-------CCCCC-Hh
Q 008280          299 SITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAA--KPDHYTCMVDLLGRAGKLVEAVDLIKKM-------PFKPQ-PA  368 (571)
Q Consensus       299 ~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~--~~~~~~~li~~~~~~g~~~~A~~~~~~~-------~~~p~-~~  368 (571)
                      ...+..+...+...|++++|...+....+...-.+  ....+..+...|...|++++|.+.+++.       +..|+ ..
T Consensus       213 ~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  292 (366)
T d1hz4a_         213 SNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNR  292 (366)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHH
Confidence            12344555677788899999888887654211111  1334556788888999999998888765       33333 35


Q ss_pred             HHHHHHHHHHhcCCHhHHHHHHHHHhccCCCC--Cc------hhHHHHHHHHhhccChhHHHH
Q 008280          369 IFGTLLSACRVHKRLDLAEFAAMNLFNLNPAN--AA------GCYVQLANIYAAMKKWDDVAR  423 (571)
Q Consensus       369 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~--~~------~~~~~l~~~~~~~g~~~~a~~  423 (571)
                      ++..+...|...|++++|...+++++++.+..  ..      ..+..++..+...++.+++.+
T Consensus       293 ~~~~la~~~~~~g~~~~A~~~l~~Al~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~l~e~e~  355 (366)
T d1hz4a_         293 NLLLLNQLYWQAGRKSDAQRVLLDALKLANRTGFISHFVIEGEAMAQQLRQLIQLNTLPELEQ  355 (366)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCCCHHHHTTHHHHHHHHHHHHHTTCSCHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHhhhcCcHHHHHHHHHHHHHHHHHHHhcCCChHHHH
Confidence            77778888999999999999999887754321  11      023344444555666666554

>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=99.07  E-value=1.8e-09  Score=98.70  Aligned_cols=197  Identities=10%  Similarity=-0.075  Sum_probs=118.1

Q ss_pred             HHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCC---CChhhHHHHHHHHHH
Q 008280          200 SLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQ  276 (571)
Q Consensus       200 t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~  276 (571)
                      ++..+...+.+.|++++|...|..+++.. +.++.+++.+..+|.+.|++++|...|++..+   .+..+|..+...|..
T Consensus        39 ~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~  117 (259)
T d1xnfa_          39 LLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYY  117 (259)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHHhhhhhhHHHHHHHHHH
Confidence            34444455556666666666666666553 44566777777888888888888888877653   345677778888888


Q ss_pred             cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCC----HH
Q 008280          277 HGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGK----LV  352 (571)
Q Consensus       277 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~----~~  352 (571)
                      .|++++|+..|++..+.. +.+......+...+.+.+..+....+......   ..+....+. ++..+.....    .+
T Consensus       118 ~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~-~~~~~~~~~~~~~~~~  192 (259)
T d1xnfa_         118 GGRDKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEK---SDKEQWGWN-IVEFYLGNISEQTLME  192 (259)
T ss_dssp             TTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHH---SCCCSTHHH-HHHHHTTSSCHHHHHH
T ss_pred             HhhHHHHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhc---cchhhhhhh-HHHHHHHHHHHHHHHH
Confidence            888888888888877653 22344443444445555555544444444432   122222222 2222221111    22


Q ss_pred             HHHHHHHhC-CCCCC-HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCc
Q 008280          353 EAVDLIKKM-PFKPQ-PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA  402 (571)
Q Consensus       353 ~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~  402 (571)
                      .+...+... ...|+ ..+|..+...+...|++++|...|+++++.+|++..
T Consensus       193 ~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~  244 (259)
T d1xnfa_         193 RLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNFV  244 (259)
T ss_dssp             HHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTCH
T ss_pred             HHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHH
Confidence            222222111 11122 346777888899999999999999999999998764

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.05  E-value=2.4e-10  Score=109.23  Aligned_cols=229  Identities=9%  Similarity=-0.026  Sum_probs=161.1

Q ss_pred             HcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccC--chHHHHHHHHHHHhCCCCCCcchH-HHHHHHHHhcCCHHH
Q 008280          175 ENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLS--SLQLGKQVHQLVFKSPLCKDTTAL-TPLISMYCKCGDLED  251 (571)
Q Consensus       175 ~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~--~~~~a~~~~~~~~~~g~~~~~~~~-~~li~~y~~~g~~~~  251 (571)
                      ..|++++|+.++++..+.. +-+...+.....++...+  +.+.+...+..+++.. +++...+ ..+...+...|.+++
T Consensus        85 ~~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~  162 (334)
T d1dcea1          85 SAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAE  162 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHH
T ss_pred             HHHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHH
Confidence            3445677888888777642 234445555555554444  4778888888877764 3334443 345567777899999


Q ss_pred             HHHHHHhhCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHh
Q 008280          252 ACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVND  328 (571)
Q Consensus       252 A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~  328 (571)
                      |...++...+   .+..+|+.+...+.+.|++++|...+......  .|+..   .....+...+..+++...+..... 
T Consensus       163 Al~~~~~~i~~~p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~---~~~~~~~~l~~~~~a~~~~~~~l~-  236 (334)
T d1dcea1         163 ELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENV--LLKEL---ELVQNAFFTDPNDQSAWFYHRWLL-  236 (334)
T ss_dssp             HHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHH--HHHHH---HHHHHHHHHCSSCSHHHHHHHHHH-
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHhHHh--HHHHH---HHHHHHHHhcchhHHHHHHHHHHH-
Confidence            9999988775   35678888889999999888887666554432  12221   233344555666777777777665 


Q ss_pred             cCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHH
Q 008280          329 YGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQ-PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYV  406 (571)
Q Consensus       329 ~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~  406 (571)
                       ..+++...+..++..+...|+.++|.+.+.+. +..|+ ..+|..+...+...|++++|...++++++++|+... .|.
T Consensus       237 -~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ldP~~~~-y~~  314 (334)
T d1dcea1         237 -GRAEPLFRCELSVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAA-YLD  314 (334)
T ss_dssp             -SCCCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGGGHH-HHH
T ss_pred             -hCcchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCcccHH-HHH
Confidence             33455666777788888889999999998876 44444 467888889999999999999999999999998876 777


Q ss_pred             HHHHHHh
Q 008280          407 QLANIYA  413 (571)
Q Consensus       407 ~l~~~~~  413 (571)
                      .|...+.
T Consensus       315 ~L~~~~~  321 (334)
T d1dcea1         315 DLRSKFL  321 (334)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHh
Confidence            7776665

>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=99.05  E-value=8.1e-09  Score=97.17  Aligned_cols=127  Identities=13%  Similarity=0.079  Sum_probs=71.4

Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCC-HhHHHHHHHHHhccC-chHHHHHHHHHHHhCCCCCCcchHHHHHH
Q 008280          164 VTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPN-ASSLSSVLLGCSHLS-SLQLGKQVHQLVFKSPLCKDTTALTPLIS  241 (571)
Q Consensus       164 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd-~~t~~~ll~~~~~~~-~~~~a~~~~~~~~~~g~~~~~~~~~~li~  241 (571)
                      ..++.+...+.+.+.+++|+++++++++.  .|+ ...|.....++...| ++++|...++.+++.. +.+..+|..+..
T Consensus        44 ~a~~~~~~~~~~~e~~~~Al~~~~~ai~l--nP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~~  120 (315)
T d2h6fa1          44 DVYDYFRAVLQRDERSERAFKLTRDAIEL--NAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRV  120 (315)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHHH--CCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHhH
Confidence            35666777777778888888888887774  343 334444444444443 3555555555555443 334445555555


Q ss_pred             HHHhcCCHHHHHHHHHhhCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHc
Q 008280          242 MYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDE  293 (571)
Q Consensus       242 ~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  293 (571)
                      .+.+.|++++|+..|+++.+   .+..+|+.+...+...|++++|++.|+++.+.
T Consensus       121 ~~~~l~~~~eAl~~~~kal~~dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~  175 (315)
T d2h6fa1         121 LVEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKE  175 (315)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH
T ss_pred             HHHhhccHHHHHHHHhhhhhhhhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            55555555555555555442   24455555555555555555555555555543

>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=99.02  E-value=1.2e-09  Score=99.83  Aligned_cols=195  Identities=13%  Similarity=0.004  Sum_probs=138.1

Q ss_pred             chHHHHHHHHHhcCCHHHHHHHHHhhC---CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 008280          234 TALTPLISMYCKCGDLEDACKLFLEIQ---RKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACN  310 (571)
Q Consensus       234 ~~~~~li~~y~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~  310 (571)
                      .++..+..+|.+.|++++|...|++..   ..++.+|+.+..+|.+.|++++|+..|++..+... -+..++..+..++.
T Consensus        38 ~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~  116 (259)
T d1xnfa_          38 QLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDP-TYNYAHLNRGIALY  116 (259)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHhhccCCCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHHh-hhhhhHHHHHHHHH
Confidence            466778899999999999999999876   35788999999999999999999999999988642 24567888889999


Q ss_pred             hcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCHhHHHHHHHHHHh----cCCHhH
Q 008280          311 HAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQPAIFGTLLSACRV----HKRLDL  385 (571)
Q Consensus       311 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~----~g~~~~  385 (571)
                      ..|++++|...|+...+.  .+.+......+...+.+.+..+.+..+.... ...++...++. +..+..    .+..+.
T Consensus       117 ~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~  193 (259)
T d1xnfa_         117 YGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDKEQWGWNI-VEFYLGNISEQTLMER  193 (259)
T ss_dssp             HTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCCCSTHHHH-HHHHTTSSCHHHHHHH
T ss_pred             HHhhHHHHHHHHHHHHhh--ccccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccchhhhhhhH-HHHHHHHHHHHHHHHH
Confidence            999999999999998874  2334444444555556666555554444333 11122222222 222211    122333


Q ss_pred             HHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhCCC
Q 008280          386 AEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNV  433 (571)
Q Consensus       386 a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  433 (571)
                      +...+.......|+... +|..|+.+|...|++++|.+.|+...+.++
T Consensus       194 ~~~~~~~~~~~~~~~~~-~~~~lg~~~~~~g~~~~A~~~~~~al~~~p  240 (259)
T d1xnfa_         194 LKADATDNTSLAEHLSE-TNFYLGKYYLSLGDLDSATALFKLAVANNV  240 (259)
T ss_dssp             HHHHCCSHHHHHHHHHH-HHHHHHHHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHhhhcCcccHH-HHHHHHHHHHHCCCHHHHHHHHHHHHHcCC
Confidence            33333333445566666 888999999999999999999999887554

>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=1.4e-08  Score=95.47  Aligned_cols=222  Identities=12%  Similarity=0.101  Sum_probs=169.3

Q ss_pred             HHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcC-CHHHHHHHHHhhC---CCChhhHHHHHHHHH
Q 008280          200 SLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCG-DLEDACKLFLEIQ---RKDVVTWNAMISGYA  275 (571)
Q Consensus       200 t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g-~~~~A~~~~~~~~---~~~~~~~~~li~~~~  275 (571)
                      .+..+...+.+.+..++|..+++.+++.. |.+..+|+....++...| ++++|...++...   ..+..+|+.+...+.
T Consensus        45 a~~~~~~~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~~~~a~~~~~~~~~  123 (315)
T d2h6fa1          45 VYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLVE  123 (315)
T ss_dssp             HHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHhhhhHHHHHhHHHH
Confidence            44555556677889999999999999986 667778899999988876 5899999999875   357889999999999


Q ss_pred             HcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCC-----
Q 008280          276 QHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGK-----  350 (571)
Q Consensus       276 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~-----  350 (571)
                      ..|++++|+..++++.+.. +-+...|..+...+.+.|++++|.+.++.+++.  -+.+...|+.+..++.+.|.     
T Consensus       124 ~l~~~~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~--~p~n~~a~~~r~~~l~~~~~~~~~~  200 (315)
T d2h6fa1         124 WLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKE--DVRNNSVWNQRYFVISNTTGYNDRA  200 (315)
T ss_dssp             HHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCSCSHH
T ss_pred             hhccHHHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHH--CCccHHHHHHHHHHHHHccccchhh
Confidence            9999999999999998864 336778999999999999999999999999874  23457788888777777665     


Q ss_pred             -HHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCc-hhHHHHHHHHhhc--cChhHHHHH
Q 008280          351 -LVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA-GCYVQLANIYAAM--KKWDDVARI  424 (571)
Q Consensus       351 -~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~-~~~~~l~~~~~~~--g~~~~a~~~  424 (571)
                       +++|++.+.++ ...| +...|..+...+.. ...+++...++++.++.|+... ..+..++.+|...  +..+.+...
T Consensus       201 ~~~~ai~~~~~al~~~P~~~~~~~~l~~ll~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~  279 (315)
T d2h6fa1         201 VLEREVQYTLEMIKLVPHNESAWNYLKGILQD-RGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNKEDI  279 (315)
T ss_dssp             HHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTT-TCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSSHHHH
T ss_pred             hhHHhHHHHHHHHHhCCCchHHHHHHHHHHHh-cChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHHHHhcCHHHHHHH
Confidence             57888877765 2234 56788877666544 4568888999999888887543 1344666776543  344444444


Q ss_pred             HH
Q 008280          425 RL  426 (571)
Q Consensus       425 ~~  426 (571)
                      ++
T Consensus       280 ~~  281 (315)
T d2h6fa1         280 LN  281 (315)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>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=98.95  E-value=4.9e-08  Score=91.46  Aligned_cols=183  Identities=7%  Similarity=0.047  Sum_probs=144.3

Q ss_pred             CCHHHHHHHHHhhCC----CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHH
Q 008280          247 GDLEDACKLFLEIQR----KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYF  322 (571)
Q Consensus       247 g~~~~A~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~  322 (571)
                      +..++|..+|++..+    .+...|...+..+...|+.++|..+|+++...........|...+..+.+.|+++.|+++|
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            456788888887543    4567889999999999999999999999987543333557888999999999999999999


Q ss_pred             HHhHHhcCCCCChHhHHHHHHHH-HHcCCHHHHHHHHHhC--CCCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCC
Q 008280          323 DSMVNDYGIAAKPDHYTCMVDLL-GRAGKLVEAVDLIKKM--PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPA  399 (571)
Q Consensus       323 ~~~~~~~~~~~~~~~~~~li~~~-~~~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~  399 (571)
                      ..+.+.  .+.+...|...+... ...|+.+.|..+|+.+  ..+.+...|...+..+...|+++.|..+|++++...|.
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            998863  344455555555443 3468999999999988  22245789999999999999999999999999887665


Q ss_pred             CCc---hhHHHHHHHHhhccChhHHHHHHHHHHhC
Q 008280          400 NAA---GCYVQLANIYAAMKKWDDVARIRLSMKEN  431 (571)
Q Consensus       400 ~~~---~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  431 (571)
                      ++.   ..|...+..-...|+.+.+.++++++.+.
T Consensus       236 ~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~  270 (308)
T d2onda1         236 PPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             CGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            432   25667777777889999999999988653

>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=98.88  E-value=2.9e-09  Score=101.39  Aligned_cols=245  Identities=8%  Similarity=-0.063  Sum_probs=175.5

Q ss_pred             cCChhHHHHHHHHHHHCCCCCCHhH-HHH---HHHHH-------hccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHH
Q 008280          176 NSWAEDGLKLLRMMIGLGIRPNASS-LSS---VLLGC-------SHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYC  244 (571)
Q Consensus       176 ~g~~~~A~~~~~~m~~~g~~pd~~t-~~~---ll~~~-------~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~  244 (571)
                      .+..++|++++.+..+.  .|+..+ |+.   ++...       ...|.++++..+++.+++.. +.+...+..+..++.
T Consensus        42 ~~~~~~al~~~~~~l~~--~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~  118 (334)
T d1dcea1          42 GELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLS  118 (334)
T ss_dssp             TCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             ccccHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHHHH
Confidence            34457899899888764  466543 222   22222       23455778888888888765 556667777777776


Q ss_pred             hcC--CHHHHHHHHHhhCC---CChhhHHH-HHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHH
Q 008280          245 KCG--DLEDACKLFLEIQR---KDVVTWNA-MISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLG  318 (571)
Q Consensus       245 ~~g--~~~~A~~~~~~~~~---~~~~~~~~-li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a  318 (571)
                      ..+  ++++|...++++.+   ++...|.. +...+...|++++|+..+++...... -+...|..+..++...|++++|
T Consensus       119 ~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p-~~~~a~~~l~~~~~~~~~~~~A  197 (334)
T d1dcea1         119 RLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNF-SNYSSWHYRSCLLPQLHPQPDS  197 (334)
T ss_dssp             TCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTC-CCHHHHHHHHHHHHHHSCCCCS
T ss_pred             HhccccHHHHHHHHHHHHhhCchhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHhcCHHHH
Confidence            665  48899999988753   35556654 44667778999999999998877642 3567788888888888888777


Q ss_pred             HHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC--CCCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhcc
Q 008280          319 IQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM--PFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNL  396 (571)
Q Consensus       319 ~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  396 (571)
                      ...+....+.   .|+   ...+...+...+..+++...+...  ...++...+..+...+...|+.++|...+.+....
T Consensus       198 ~~~~~~~~~~---~~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  271 (334)
T d1dcea1         198 GPQGRLPENV---LLK---ELELVQNAFFTDPNDQSAWFYHRWLLGRAEPLFRCELSVEKSTVLQSELESCKELQELEPE  271 (334)
T ss_dssp             SSCCSSCHHH---HHH---HHHHHHHHHHHCSSCSHHHHHHHHHHSCCCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHhHHh---HHH---HHHHHHHHHHhcchhHHHHHHHHHHHhCcchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence            6655544331   111   122334455667777777776655  22244556667777888889999999999999999


Q ss_pred             CCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhC
Q 008280          397 NPANAAGCYVQLANIYAAMKKWDDVARIRLSMKEN  431 (571)
Q Consensus       397 ~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  431 (571)
                      +|++.. ++..++.+|...|++++|.+.++...+.
T Consensus       272 ~p~~~~-~~~~l~~~~~~~~~~~eA~~~~~~ai~l  305 (334)
T d1dcea1         272 NKWCLL-TIILLMRALDPLLYEKETLQYFSTLKAV  305 (334)
T ss_dssp             CHHHHH-HHHHHHHHHCTGGGHHHHHHHHHHHHHH
T ss_pred             CchHHH-HHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            999988 9999999999999999999999998774

>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=98.68  E-value=1.7e-07  Score=86.83  Aligned_cols=190  Identities=13%  Similarity=0.013  Sum_probs=126.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHhhCC-----CC----hhhHHHHHHHHHHcCChHHHHHHHHHHHHcCC---CCC--HHHHHH
Q 008280          239 LISMYCKCGDLEDACKLFLEIQR-----KD----VVTWNAMISGYAQHGKGEKALRLFDKMKDEGM---KPD--SITFVA  304 (571)
Q Consensus       239 li~~y~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~---~p~--~~t~~~  304 (571)
                      ..++|..+|++++|.+.|.+..+     .+    ..+|+.+...|.+.|++++|++.+++..+.-.   .+.  ..++..
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            35677788888888888876642     12    35788888889999999999998887643210   111  235556


Q ss_pred             HHHHHH-hcCcHHHHHHHHHHhHHhc---CCCCC-hHhHHHHHHHHHHcCCHHHHHHHHHhC----CCCC----CH-hHH
Q 008280          305 LLLACN-HAGLVDLGIQYFDSMVNDY---GIAAK-PDHYTCMVDLLGRAGKLVEAVDLIKKM----PFKP----QP-AIF  370 (571)
Q Consensus       305 ll~a~~-~~g~~~~a~~~~~~~~~~~---~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~~----~~~p----~~-~~~  370 (571)
                      +...|. ..|++++|.+.+.+..+-.   +.++. ..++..+...|...|++++|++.|+++    +..+    .. ..+
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            666664 4699999999998775421   11111 445778899999999999999999886    1111    11 233


Q ss_pred             HHHHHHHHhcCCHhHHHHHHHHHhccCCCCCc----hhHHHHHHHHhh--ccChhHHHHHHHHH
Q 008280          371 GTLLSACRVHKRLDLAEFAAMNLFNLNPANAA----GCYVQLANIYAA--MKKWDDVARIRLSM  428 (571)
Q Consensus       371 ~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~----~~~~~l~~~~~~--~g~~~~a~~~~~~m  428 (571)
                      ..++-.+...|+++.|...+++..+.+|..+.    .....|+.+|..  .+.+++|+..|+.+
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            44555677889999999999999999886443    023456666654  35678888877643

>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=98.65  E-value=9e-07  Score=76.04  Aligned_cols=142  Identities=11%  Similarity=0.032  Sum_probs=98.2

Q ss_pred             HHHHHhcCCHHHHHHHHHhhCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHH
Q 008280          240 ISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGI  319 (571)
Q Consensus       240 i~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~  319 (571)
                      ...+...|+++.|.+.|+++..++..+|..+...|...|++++|++.|++.++.. +.+...|..+..++.+.|++++|.
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            4556778888888888888888888888888888888888888888888887754 335567778888888888888888


Q ss_pred             HHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhCCCCCC-HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCC
Q 008280          320 QYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQ-PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNP  398 (571)
Q Consensus       320 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p  398 (571)
                      ..|++....  .+++...      .|...|           ...+++ ..++..+..++...|++++|.+.+++++++.|
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            888877642  1221100      000000           001111 23455666777888888888888888888777


Q ss_pred             CCC
Q 008280          399 ANA  401 (571)
Q Consensus       399 ~~~  401 (571)
                      +..
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=98.59  E-value=1.6e-07  Score=81.55  Aligned_cols=95  Identities=9%  Similarity=-0.026  Sum_probs=50.2

Q ss_pred             ChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHH
Q 008280          334 KPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFK-PQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANI  411 (571)
Q Consensus       334 ~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~  411 (571)
                      +...+......|.+.|++++|++.|++. ... .++..|..+..+|...|++++|+..++++++++|+++. +|..++.+
T Consensus         3 ~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~-a~~~lg~~   81 (201)
T d2c2la1           3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVK-AHFFLGQC   81 (201)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHH-HHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCCcHH-HHHHHHHH
Confidence            3333444445555555555555555443 111 23445555555555555555555555555555555555 55555555


Q ss_pred             HhhccChhHHHHHHHHHH
Q 008280          412 YAAMKKWDDVARIRLSMK  429 (571)
Q Consensus       412 ~~~~g~~~~a~~~~~~m~  429 (571)
                      |.+.|++++|...+++..
T Consensus        82 ~~~l~~~~~A~~~~~~al   99 (201)
T d2c2la1          82 QLEMESYDEAIANLQRAY   99 (201)
T ss_dssp             HHHTTCHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHH
Confidence            555555555555555544

>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=98.57  E-value=4.6e-07  Score=70.84  Aligned_cols=103  Identities=13%  Similarity=0.034  Sum_probs=70.6

Q ss_pred             HHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CC-CCCHhHHHHHHHHHHhcCCH
Q 008280          306 LLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PF-KPQPAIFGTLLSACRVHKRL  383 (571)
Q Consensus       306 l~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~~~~g~~  383 (571)
                      ...+...|++++|...|...++.  -+.++..|..+..+|...|++++|++.+++. .. +.++..|..+..++...|++
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            45566677777777777777653  2444666777777777777777777777666 11 23566777777777788888


Q ss_pred             hHHHHHHHHHhccCCCCCchhHHHHHHH
Q 008280          384 DLAEFAAMNLFNLNPANAAGCYVQLANI  411 (571)
Q Consensus       384 ~~a~~~~~~~~~~~p~~~~~~~~~l~~~  411 (571)
                      ++|+..++++++.+|+++. .+..+.++
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            8888888888888887776 65555554

>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=98.51  E-value=2.8e-07  Score=72.16  Aligned_cols=91  Identities=10%  Similarity=0.105  Sum_probs=82.1

Q ss_pred             HHHHHHHcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccCh
Q 008280          341 MVDLLGRAGKLVEAVDLIKKM-PFK-PQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKW  418 (571)
Q Consensus       341 li~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~  418 (571)
                      -...+.+.|++++|+..|++. ... .+...|..+..++...|++++|+..++++++++|+++. .|..++.+|...|++
T Consensus         9 ~g~~~~~~g~~~eAi~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~-~~~~~g~~~~~~~~~   87 (117)
T d1elwa_           9 KGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGK-GYSRKAAALEFLNRF   87 (117)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHHTTCH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCcchhhhhcccccccccccccccchhhhhHHHhccchhh-HHHHHHHHHHHccCH
Confidence            467788999999999999987 222 45788999999999999999999999999999999998 999999999999999


Q ss_pred             hHHHHHHHHHHhCC
Q 008280          419 DDVARIRLSMKENN  432 (571)
Q Consensus       419 ~~a~~~~~~m~~~~  432 (571)
                      ++|...++...+..
T Consensus        88 ~~A~~~~~~a~~~~  101 (117)
T d1elwa_          88 EEAKRTYEEGLKHE  101 (117)
T ss_dssp             HHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHhC
Confidence            99999999988644

>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=98.48  E-value=3.1e-06  Score=72.58  Aligned_cols=80  Identities=14%  Similarity=0.047  Sum_probs=40.5

Q ss_pred             HHHcCChHHHHHHHhhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCC---CCHHHHHHHHHHHHHcCChhHHHHHHH
Q 008280          111 YIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGKVDLAEKLFDEMPT---KNLVTWNAMIAGYVENSWAEDGLKLLR  187 (571)
Q Consensus       111 ~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~  187 (571)
                      +...|++++|++.|+++.++++.+|..+..+|.+.|++++|++.|++..+   .+...|+.+..+|.+.|++++|+..|+
T Consensus        15 ~~~~~d~~~Al~~~~~i~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~~~~a~~~~g~~~~~~g~~~~A~~~~~   94 (192)
T d1hh8a_          15 AADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQTEKYDLAIKDLK   94 (192)
T ss_dssp             HHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhhhhhHHHHHHHHHhhccHHHHHHHHH
Confidence            34445555555555554444444455555555555555555555554432   234455555555555555555555555


Q ss_pred             HHH
Q 008280          188 MMI  190 (571)
Q Consensus       188 ~m~  190 (571)
                      +..
T Consensus        95 kAl   97 (192)
T d1hh8a_          95 EAL   97 (192)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            544

>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=98.47  E-value=3.4e-07  Score=79.43  Aligned_cols=115  Identities=8%  Similarity=-0.112  Sum_probs=87.3

Q ss_pred             CCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-HhHHHHHH
Q 008280          297 PDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQ-PAIFGTLL  374 (571)
Q Consensus       297 p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~  374 (571)
                      |+...+......+.+.|++++|...|...++.  .+.++..|..+..+|.+.|++++|+..|++. .+.|+ ..+|..+.
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            56666777778888888888888888887763  3455777888888888888888888888776 44554 67888888


Q ss_pred             HHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhh
Q 008280          375 SACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAA  414 (571)
Q Consensus       375 ~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~  414 (571)
                      .+|...|++++|+..++++++++|++.. .+...+..+..
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            8899999999999999999888876655 44444444433

>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=98.46  E-value=2.7e-07  Score=71.56  Aligned_cols=89  Identities=15%  Similarity=0.011  Sum_probs=79.6

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhcc
Q 008280          339 TCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMK  416 (571)
Q Consensus       339 ~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g  416 (571)
                      ..+...+.+.|++++|+..|++. ...| ++..|..+..++...|++++|+..++++++++|+++. ++..|+.+|...|
T Consensus        20 ~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~-a~~~la~~y~~~g   98 (112)
T d1hxia_          20 MEEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIA-VHAALAVSHTNEH   98 (112)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHhhhcccccccchhhhhhhhhhhhhhhHHHhhccccccccccccccc-chHHHHHHHHHCC
Confidence            34677788999999999999887 3334 5789999999999999999999999999999999998 9999999999999


Q ss_pred             ChhHHHHHHHHH
Q 008280          417 KWDDVARIRLSM  428 (571)
Q Consensus       417 ~~~~a~~~~~~m  428 (571)
                      ++++|.+.+++.
T Consensus        99 ~~~~A~~~l~~~  110 (112)
T d1hxia_          99 NANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHH
Confidence            999999999864

>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=98.42  E-value=1.9e-06  Score=71.48  Aligned_cols=117  Identities=7%  Similarity=-0.048  Sum_probs=92.8

Q ss_pred             HHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCC
Q 008280          305 LLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKR  382 (571)
Q Consensus       305 ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~  382 (571)
                      ....|.+.|++++|...|++.++.  -+.+...|..+..+|...|++++|++.|+++ ...| +..+|..++.++...|+
T Consensus        16 ~gn~~~~~~~y~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g~   93 (159)
T d1a17a_          16 QANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGK   93 (159)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHhhhcccc--chhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHHcCC
Confidence            455677889999999999888864  2445778888999999999999999999877 2234 46789999999999999


Q ss_pred             HhHHHHHHHHHhccCCCCCchhHHHHHHHHh--hccChhHHHHH
Q 008280          383 LDLAEFAAMNLFNLNPANAAGCYVQLANIYA--AMKKWDDVARI  424 (571)
Q Consensus       383 ~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~--~~g~~~~a~~~  424 (571)
                      +++|...+++++.++|+++. .+..+..+..  ..+.+++|...
T Consensus        94 ~~eA~~~~~~a~~~~p~~~~-~~~~l~~~~~~~~~~~~~~a~~~  136 (159)
T d1a17a_          94 FRAALRDYETVVKVKPHDKD-AKMKYQECNKIVKQKAFERAIAG  136 (159)
T ss_dssp             HHHHHHHHHHHHHHSTTCHH-HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCCCHH-HHHHHHHHHHHHHHHHHHHHHhC
Confidence            99999999999999999987 7777766543  34456666554

>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=98.40  E-value=2.5e-06  Score=70.70  Aligned_cols=92  Identities=13%  Similarity=0.061  Sum_probs=82.0

Q ss_pred             HHHHHHHHcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccC
Q 008280          340 CMVDLLGRAGKLVEAVDLIKKM-PFK-PQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKK  417 (571)
Q Consensus       340 ~li~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~  417 (571)
                      .....|.+.|++++|+..|++. ... .+...|..+...|...|++++|+..|+++++++|+++. +|..++.+|...|+
T Consensus        15 ~~gn~~~~~~~y~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~-a~~~~g~~~~~~g~   93 (159)
T d1a17a_          15 TQANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIK-GYYRRAASNMALGK   93 (159)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHHTTC
T ss_pred             HHHHHHHHcCCHHHHHHHhhhccccchhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchH-HHHHHHHHHHHcCC
Confidence            3466788999999999999988 222 45789999999999999999999999999999999988 99999999999999


Q ss_pred             hhHHHHHHHHHHhCC
Q 008280          418 WDDVARIRLSMKENN  432 (571)
Q Consensus       418 ~~~a~~~~~~m~~~~  432 (571)
                      +++|.+.+++.....
T Consensus        94 ~~eA~~~~~~a~~~~  108 (159)
T d1a17a_          94 FRAALRDYETVVKVK  108 (159)
T ss_dssp             HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHcC
Confidence            999999999887643

>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=98.35  E-value=1.1e-06  Score=68.98  Aligned_cols=106  Identities=14%  Similarity=-0.041  Sum_probs=81.8

Q ss_pred             HHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCC---HHHHHHHHHhC-CCCCCH---hHHHHHHH
Q 008280          303 VALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGK---LVEAVDLIKKM-PFKPQP---AIFGTLLS  375 (571)
Q Consensus       303 ~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~---~~~A~~~~~~~-~~~p~~---~~~~~l~~  375 (571)
                      ..+++.+...+++++|.+.|+.....  -+.++.++..+..++.+.++   +++|+++++++ ...|+.   .+|..|..
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            45777888888999999999988863  35567888888888877554   45688888886 333433   37788899


Q ss_pred             HHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHH
Q 008280          376 ACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANI  411 (571)
Q Consensus       376 ~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~  411 (571)
                      +|...|++++|+..|+++++++|++.. +...+..+
T Consensus        81 ~y~~~g~~~~A~~~~~~aL~~~P~~~~-A~~l~~~I  115 (122)
T d1nzna_          81 GNYRLKEYEKALKYVRGLLQTEPQNNQ-AKELERLI  115 (122)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHH-HHHHHHHH
T ss_pred             HHHHHhhhHHHHHHHHHHHHhCcCCHH-HHHHHHHH
Confidence            999999999999999999999999876 55554443

>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=98.32  E-value=4.5e-06  Score=76.86  Aligned_cols=175  Identities=13%  Similarity=0.052  Sum_probs=129.6

Q ss_pred             CCHHHHHHHHHhhCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHc----CCCCC-HHHHHHHHHHHHhcCcHHHHHHH
Q 008280          247 GDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDE----GMKPD-SITFVALLLACNHAGLVDLGIQY  321 (571)
Q Consensus       247 g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p~-~~t~~~ll~a~~~~g~~~~a~~~  321 (571)
                      +++++|.++|.+           ....|...|++++|.+.|.+..+.    +-+++ ..+|..+..+|.+.|++++|...
T Consensus        31 ~~~~~Aa~~y~~-----------aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~   99 (290)
T d1qqea_          31 YKFEEAADLCVQ-----------AATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDS   99 (290)
T ss_dssp             HHHHHHHHHHHH-----------HHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             ccHHHHHHHHHH-----------HHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHH
Confidence            346777777655           467899999999999999987552    21222 24788889999999999999999


Q ss_pred             HHHhHHhcCCCCC----hHhHHHHHHHHHH-cCCHHHHHHHHHhC-------CCCCC-HhHHHHHHHHHHhcCCHhHHHH
Q 008280          322 FDSMVNDYGIAAK----PDHYTCMVDLLGR-AGKLVEAVDLIKKM-------PFKPQ-PAIFGTLLSACRVHKRLDLAEF  388 (571)
Q Consensus       322 ~~~~~~~~~~~~~----~~~~~~li~~~~~-~g~~~~A~~~~~~~-------~~~p~-~~~~~~l~~~~~~~g~~~~a~~  388 (571)
                      ++...+-+.-..+    ..++..+...|.. .|++++|++.+++.       +..+. ..++..+...+...|++++|..
T Consensus       100 ~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~  179 (290)
T d1qqea_         100 LENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASD  179 (290)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHhhHHhhhcccchhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHH
Confidence            9877653211112    4456667777755 69999999999876       11111 3467888899999999999999


Q ss_pred             HHHHHhccCCCCCc------hhHHHHHHHHhhccChhHHHHHHHHHHhCC
Q 008280          389 AAMNLFNLNPANAA------GCYVQLANIYAAMKKWDDVARIRLSMKENN  432 (571)
Q Consensus       389 ~~~~~~~~~p~~~~------~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  432 (571)
                      .++++....|..+.      ..+...+..|...|+++.|.+.+++..+..
T Consensus       180 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~  229 (290)
T d1qqea_         180 IYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSED  229 (290)
T ss_dssp             HHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC-
T ss_pred             HHHHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC
Confidence            99999988777643      124566777888999999999999876643

>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=98.27  E-value=0.00037  Score=62.41  Aligned_cols=226  Identities=11%  Similarity=-0.051  Sum_probs=130.5

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhc----cCchHHHHHHHHHHHhCCCCCCcchHH
Q 008280          162 NLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSH----LSSLQLGKQVHQLVFKSPLCKDTTALT  237 (571)
Q Consensus       162 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~----~~~~~~a~~~~~~~~~~g~~~~~~~~~  237 (571)
                      |+..+..|...+.+.+++++|++.|++..+.|   |...+..+...+..    ..+...+...+....+.+         
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~---------   68 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---------   68 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---------
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc---------
Confidence            45677777777888888888888888887765   33333333333322    234444444444444333         


Q ss_pred             HHHHHHHhcCCHHHHHHHHHhhCCCChhhHHHHHHHHHH----cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH---
Q 008280          238 PLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQ----HGKGEKALRLFDKMKDEGMKPDSITFVALLLACN---  310 (571)
Q Consensus       238 ~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~---  310 (571)
                                               +...+..+...+..    ..+.+.|...++.....|..   .....+...+.   
T Consensus        69 -------------------------~~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~~---~a~~~l~~~~~~~~  120 (265)
T d1ouva_          69 -------------------------YSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLKYA---EGCASLGGIYHDGK  120 (265)
T ss_dssp             -------------------------CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCH---HHHHHHHHHHHHCS
T ss_pred             -------------------------ccchhhccccccccccccchhhHHHHHHHhhhhhhhhh---hHHHhhcccccCCC
Confidence                                     22333333333322    23455566666665554421   11112211111   


Q ss_pred             -hcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHH----cCCHHHHHHHHHhCCCCCCHhHHHHHHHHHHh----cC
Q 008280          311 -HAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGR----AGKLVEAVDLIKKMPFKPQPAIFGTLLSACRV----HK  381 (571)
Q Consensus       311 -~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~----~g  381 (571)
                       .......+...+.....    ..+...+..|...|..    ..+...+...++......+......|...+..    ..
T Consensus       121 ~~~~~~~~a~~~~~~~~~----~~~~~~~~~L~~~~~~~~~~~~~~~~~~~~~~~a~~~g~~~A~~~lg~~y~~g~~~~~  196 (265)
T d1ouva_         121 VVTRDFKKAVEYFTKACD----LNDGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLKDSPGCFNAGNMYHHGEGATK  196 (265)
T ss_dssp             SSCCCHHHHHHHHHHHHH----TTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCC
T ss_pred             cccchhHHHHHHhhhhhc----ccccchhhhhhhhhccCCCcccccccchhhhhccccccccccccchhhhcccCccccc
Confidence             23344555555555433    2445555666666654    34556666666655323456666666655554    56


Q ss_pred             CHhHHHHHHHHHhccCCCCCchhHHHHHHHHhh----ccChhHHHHHHHHHHhCCCc
Q 008280          382 RLDLAEFAAMNLFNLNPANAAGCYVQLANIYAA----MKKWDDVARIRLSMKENNVV  434 (571)
Q Consensus       382 ~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~m~~~~~~  434 (571)
                      +++.|+..|+++.+.+.  +. .+..|+.+|.+    ..+.++|.++|++..+.|..
T Consensus       197 d~~~A~~~~~~aa~~g~--~~-a~~~LG~~y~~G~g~~~n~~~A~~~~~kAa~~g~~  250 (265)
T d1ouva_         197 NFKEALARYSKACELEN--GG-GCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGAK  250 (265)
T ss_dssp             CHHHHHHHHHHHHHTTC--HH-HHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTCH
T ss_pred             chhhhhhhHhhhhcccC--HH-HHHHHHHHHHcCCCCccCHHHHHHHHHHHHHCcCH
Confidence            89999999999988753  45 88899999976    34788999999988876653

>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=98.27  E-value=7.5e-06  Score=68.51  Aligned_cols=62  Identities=8%  Similarity=-0.060  Sum_probs=51.5

Q ss_pred             HHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhC
Q 008280          369 IFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKEN  431 (571)
Q Consensus       369 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  431 (571)
                      +|+.+..+|.+.|++++|+..++++++++|+++. ++..++.+|...|++++|...|+...+.
T Consensus        64 ~~~nla~~y~k~~~~~~A~~~~~~al~~~p~~~~-a~~~~g~~~~~~g~~~~A~~~~~~al~l  125 (170)
T d1p5qa1          64 SHLNLAMCHLKLQAFSAAIESCNKALELDSNNEK-GLSRRGEAHLAVNDFELARADFQKVLQL  125 (170)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcccccchhhhhhhccccchh-hhHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            5666777788888888888888888888888887 8888888888888888888888887663

>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=98.22  E-value=1.4e-05  Score=66.82  Aligned_cols=133  Identities=15%  Similarity=0.062  Sum_probs=92.9

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHH
Q 008280          266 TWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLL  345 (571)
Q Consensus       266 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~  345 (571)
                      .+......+.+.|++++|+..|++.+..-.....              ..+.-......+        ...+|..+..+|
T Consensus        15 ~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~--------------~~~~~~~~~~~~--------~~~~~~nla~~y   72 (170)
T d1p5qa1          15 IVKERGTVYFKEGKYKQALLQYKKIVSWLEYESS--------------FSNEEAQKAQAL--------RLASHLNLAMCH   72 (170)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCC--------------CCSHHHHHHHHH--------HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccc--------------cchHHHhhhchh--------HHHHHHHHHHHH
Confidence            4455566777778888888888776653110000              000000001111        123566788889


Q ss_pred             HHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHH
Q 008280          346 GRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDV  421 (571)
Q Consensus       346 ~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a  421 (571)
                      .+.|++++|+..+++. ...| ++..|..+..+|...|++++|+..|+++++++|+++. +...+..+..+.+...+.
T Consensus        73 ~k~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~n~~-~~~~l~~~~~~~~~~~~~  149 (170)
T d1p5qa1          73 LKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKA-AKTQLAVCQQRIRRQLAR  149 (170)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHH-HHHHHHHHHHHHHHHHHH
T ss_pred             HhhhhcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHHHHHHHHH
Confidence            9999999999999877 3334 6789999999999999999999999999999999988 888888887766655543

>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=98.18  E-value=4e-06  Score=65.60  Aligned_cols=93  Identities=6%  Similarity=-0.033  Sum_probs=76.9

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHHHHhcC---CHhHHHHHHHHHhccCCCC--CchhHHHHHH
Q 008280          338 YTCMVDLLGRAGKLVEAVDLIKKM-PFK-PQPAIFGTLLSACRVHK---RLDLAEFAAMNLFNLNPAN--AAGCYVQLAN  410 (571)
Q Consensus       338 ~~~li~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~~~g---~~~~a~~~~~~~~~~~p~~--~~~~~~~l~~  410 (571)
                      ...+++.+...+++++|++.|++. ... .++.++..+..++.+.+   ++++|+.+++++++.+|++  .. ++..|+.
T Consensus         2 ~~~l~n~~~~~~~l~~Ae~~Y~~aL~~~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~-~~~~Lg~   80 (122)
T d1nzna_           2 MEAVLNELVSVEDLLKFEKKFQSEKAAGSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRD-YVFYLAV   80 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHH-HHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHH-HHHHHHH
Confidence            346788888999999999999988 222 45788888888887654   4567999999999988765  33 7889999


Q ss_pred             HHhhccChhHHHHHHHHHHhC
Q 008280          411 IYAAMKKWDDVARIRLSMKEN  431 (571)
Q Consensus       411 ~~~~~g~~~~a~~~~~~m~~~  431 (571)
                      +|.+.|++++|.+.|+++.+.
T Consensus        81 ~y~~~g~~~~A~~~~~~aL~~  101 (122)
T d1nzna_          81 GNYRLKEYEKALKYVRGLLQT  101 (122)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhhhHHHHHHHHHHHHh
Confidence            999999999999999999873

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=98.17  E-value=1.8e-05  Score=64.79  Aligned_cols=62  Identities=10%  Similarity=0.002  Sum_probs=56.0

Q ss_pred             hHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHh
Q 008280          368 AIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  430 (571)
Q Consensus       368 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  430 (571)
                      .+|..+..+|.+.|++++|+..++++++++|+++. +|..++.+|...|++++|...|+...+
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            46677888889999999999999999999999988 999999999999999999999988776

>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=98.16  E-value=0.0013  Score=58.75  Aligned_cols=156  Identities=14%  Similarity=0.027  Sum_probs=96.5

Q ss_pred             ChhHHHHHHHHHHhcCCHHHHHHHHhhCCC-CCHHHHHHHHHHHHH----cCChhHHHHHHHHHHHCCCCCCHhHHHHHH
Q 008280          131 SVVAWTAMISGYMKFGKVDLAEKLFDEMPT-KNLVTWNAMIAGYVE----NSWAEDGLKLLRMMIGLGIRPNASSLSSVL  205 (571)
Q Consensus       131 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll  205 (571)
                      |+..+..|...+.+.+++++|.+.|++..+ .|..++..|...|..    ..++..|...+......+   +......+.
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~---~~~a~~~l~   77 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLLG   77 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc---ccchhhccc
Confidence            567788888899999999999999998764 577788888888877    568889999998887765   223333333


Q ss_pred             HHHh----ccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHh----cCCHHHHHHHHHhhC-CCChhhHHHHHHHHHH
Q 008280          206 LGCS----HLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCK----CGDLEDACKLFLEIQ-RKDVVTWNAMISGYAQ  276 (571)
Q Consensus       206 ~~~~----~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~----~g~~~~A~~~~~~~~-~~~~~~~~~li~~~~~  276 (571)
                      ..+.    ...+.+.|...++...+.|..   .....+...+..    ......|...+.... ..+...+..|...|..
T Consensus        78 ~~~~~~~~~~~~~~~a~~~~~~a~~~g~~---~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~L~~~~~~  154 (265)
T d1ouva_          78 NLYYSGQGVSQNTNKALQYYSKACDLKYA---EGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLNDGDGCTILGSLYDA  154 (265)
T ss_dssp             HHHHHTSSSCCCHHHHHHHHHHHHHTTCH---HHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cccccccccchhhHHHHHHHhhhhhhhhh---hHHHhhcccccCCCcccchhHHHHHHhhhhhcccccchhhhhhhhhcc
Confidence            3322    345678888888888776632   222223333332    233455555554433 2355555555555554


Q ss_pred             ----cCChHHHHHHHHHHHH
Q 008280          277 ----HGKGEKALRLFDKMKD  292 (571)
Q Consensus       277 ----~g~~~~A~~~~~~m~~  292 (571)
                          ..+...+...++...+
T Consensus       155 ~~~~~~~~~~~~~~~~~a~~  174 (265)
T d1ouva_         155 GRGTPKDLKKALASYDKACD  174 (265)
T ss_dssp             TSSSCCCHHHHHHHHHHHHH
T ss_pred             CCCcccccccchhhhhcccc
Confidence                2234444444444444

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.10  E-value=1.3e-05  Score=63.38  Aligned_cols=93  Identities=9%  Similarity=0.036  Sum_probs=71.9

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCc------hhHHHHH
Q 008280          338 YTCMVDLLGRAGKLVEAVDLIKKM-PFK-PQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA------GCYVQLA  409 (571)
Q Consensus       338 ~~~li~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~------~~~~~l~  409 (571)
                      +..+...|.+.|++++|++.|++. ... .+..+|..+..+|...|++++|+..++++++++|+++.      .+|..++
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            345677788888888888888776 222 35778888999999999999999999999998887764      1445566


Q ss_pred             HHHhhccChhHHHHHHHHHHh
Q 008280          410 NIYAAMKKWDDVARIRLSMKE  430 (571)
Q Consensus       410 ~~~~~~g~~~~a~~~~~~m~~  430 (571)
                      ..+...+++++|.+.|+....
T Consensus        87 ~~~~~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          87 NSYFKEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHh
Confidence            777888899999998876553

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=98.06  E-value=4.4e-05  Score=63.51  Aligned_cols=92  Identities=14%  Similarity=0.074  Sum_probs=74.4

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHhC-CC-CCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhh
Q 008280          337 HYTCMVDLLGRAGKLVEAVDLIKKM-PF-KPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAA  414 (571)
Q Consensus       337 ~~~~li~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~  414 (571)
                      .|..+..+|.+.|++++|+..+++. .. +.+...|..+..++...|++++|+..|+++++++|+++. +...+..+...
T Consensus        66 ~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~n~~-~~~~l~~~~~~  144 (168)
T d1kt1a1          66 AFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKA-ARLQIFMCQKK  144 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHH-HHHHHHHHHHH
T ss_pred             HHHhHHHHHHHhhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHH
Confidence            4666788899999999999999887 22 245788999999999999999999999999999999987 88888888777


Q ss_pred             ccChhH-HHHHHHHHH
Q 008280          415 MKKWDD-VARIRLSMK  429 (571)
Q Consensus       415 ~g~~~~-a~~~~~~m~  429 (571)
                      .+...+ ..+++..|-
T Consensus       145 ~~~~~e~~kk~~~~~f  160 (168)
T d1kt1a1         145 AKEHNERDRRTYANMF  160 (168)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHH
Confidence            665543 455555553

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.04  E-value=1.7e-05  Score=66.18  Aligned_cols=64  Identities=11%  Similarity=0.068  Sum_probs=57.0

Q ss_pred             HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhC
Q 008280          367 PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKEN  431 (571)
Q Consensus       367 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  431 (571)
                      ...|..+..++.+.|++++|+..+.++++++|+++. +|..++.+|...|++++|.+.|+...+.
T Consensus        77 ~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~~~~-a~~~~g~~~~~l~~~~~A~~~~~~al~l  140 (169)
T d1ihga1          77 LSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTK-ALYRRAQGWQGLKEYDQALADLKKAQEI  140 (169)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHH-HHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhcccchhhhhhhhhhhhhhhhhh-HHHhHHHHHHHccCHHHHHHHHHHHHHh
Confidence            456777888889999999999999999999999988 9999999999999999999999988763

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.01  E-value=3.2e-05  Score=64.43  Aligned_cols=133  Identities=13%  Similarity=0.039  Sum_probs=93.4

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHH
Q 008280          266 TWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLL  345 (571)
Q Consensus       266 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~  345 (571)
                      .+......+...|++++|+..|.+....            .............      . .  --+.....|..+..+|
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            3455566777888888888888776531            0000000111100      0 0  0122355677888999


Q ss_pred             HHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhH
Q 008280          346 GRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDD  420 (571)
Q Consensus       346 ~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~  420 (571)
                      .+.|++++|+..++++ ...| ++..|..+..++...|++++|+..|+++++++|+++. ++..|..+..+.....+
T Consensus        88 ~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~n~~-~~~~l~~~~~~l~~~~~  163 (169)
T d1ihga1          88 LKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKA-IQAELLKVKQKIKAQKD  163 (169)
T ss_dssp             HHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHHHHHHHH
T ss_pred             HhhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHHHHHHHH
Confidence            9999999999999887 4444 4689999999999999999999999999999999987 88888777655544433

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.00  E-value=0.0055  Score=56.14  Aligned_cols=231  Identities=13%  Similarity=0.089  Sum_probs=88.4

Q ss_pred             HHHHHHHHcCChHHHHHHHhhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCHHHHHHHHHHHHHcCChhHHHHH
Q 008280          106 AMISGYIECGQLDKAVELFKVAPVKSVVAWTAMISGYMKFGKVDLAEKLFDEMPTKNLVTWNAMIAGYVENSWAEDGLKL  185 (571)
Q Consensus       106 ~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  185 (571)
                      .+..-|.+.|.++.|..+|..+.     -|..++..|.+.++++.|.+++.+.  .+..+|..+...+.+.....-|   
T Consensus        19 ~i~~~c~~~~lye~A~~lY~~~~-----d~~rl~~~~v~l~~~~~avd~~~k~--~~~~~~k~~~~~l~~~~e~~la---   88 (336)
T d1b89a_          19 QVGDRCYDEKMYDAAKLLYNNVS-----NFGRLASTLVHLGEYQAAVDGARKA--NSTRTWKEVCFACVDGKEFRLA---   88 (336)
T ss_dssp             ----------CTTTHHHHHHHTT-----CHHHHHHHHHTTTCHHHHHHHHHHH--TCHHHHHHHHHHHHHTTCHHHH---
T ss_pred             HHHHHHHHCCCHHHHHHHHHhCC-----CHHHHHHHHHhhccHHHHHHHHHHc--CCHHHHHHHHHHHHhCcHHHHH---
Confidence            33444444444444444444332     1333344444444444444444332  2333444444444444333221   


Q ss_pred             HHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCCC---
Q 008280          186 LRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDACKLFLEIQRK---  262 (571)
Q Consensus       186 ~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~---  262 (571)
                        ++.......+......++..+...|.+++...+++...... ..+...++-++.+|++.+ .++-.+.+.....+   
T Consensus        89 --~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~-~~~~~~~~~L~~lyak~~-~~kl~e~l~~~s~~y~~  164 (336)
T d1b89a_          89 --QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFK-PQKMREHLELFWSRVNI  164 (336)
T ss_dssp             --HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTC-HHHHHHHHHHHSTTSCH
T ss_pred             --HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCC-ccchHHHHHHHHHHHHhC-hHHHHHHHHhccccCCH
Confidence              11111222233333444444444455554444444443321 233344445555555443 22222222222110   


Q ss_pred             --------ChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCC
Q 008280          263 --------DVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAK  334 (571)
Q Consensus       263 --------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~  334 (571)
                              ....|..++-.|.+.|++++|..+.-   ..  .++.......+..+.+..+.+...+......+.   .  
T Consensus       165 ~k~~~~c~~~~l~~elv~Ly~~~~~~~~A~~~~i---~~--~~~~~~~~~f~e~~~k~~N~e~~~~~i~~yL~~---~--  234 (336)
T d1b89a_         165 PKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMM---NH--PTDAWKEGQFKDIITKVANVELYYRAIQFYLEF---K--  234 (336)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHHH---HS--TTTTCCHHHHHHHHHHCSSTHHHHHHHHHHHHH---C--
T ss_pred             HHHHHHHHHcCChHHHHHHHHhcCCHHHHHHHHH---Hc--chhhhhHHHHHHHHHccCChHHHHHHHHHHHHc---C--
Confidence                    11224445555555666665554432   11  122212222334445555555544444443331   1  


Q ss_pred             hHhHHHHHHHHHHcCCHHHHHHHHHh
Q 008280          335 PDHYTCMVDLLGRAGKLVEAVDLIKK  360 (571)
Q Consensus       335 ~~~~~~li~~~~~~g~~~~A~~~~~~  360 (571)
                      +...+.|+......-+..+..+.+++
T Consensus       235 p~~i~~lL~~v~~~~d~~r~V~~~~k  260 (336)
T d1b89a_         235 PLLLNDLLMVLSPRLDHTRAVNYFSK  260 (336)
T ss_dssp             GGGHHHHHHHHGGGCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccCCCHHHHHHHHHh
Confidence            23334444444444444444444443

>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=97.99  E-value=8.7e-07  Score=88.58  Aligned_cols=109  Identities=9%  Similarity=-0.006  Sum_probs=47.8

Q ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-HhHHHHHHHHHH
Q 008280          301 TFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQ-PAIFGTLLSACR  378 (571)
Q Consensus       301 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~  378 (571)
                      .+..+...+.+.|+.++|...+......   .| ...+..+.+++...|++++|+..|++. ...|+ ...|+.|...+.
T Consensus       122 ~~~~lg~~~~~~~~~~~A~~~~~~al~~---~~-~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~P~~~~~~~~Lg~~~~  197 (497)
T d1ya0a1         122 KSSQLGIISNKQTHTSAIVKPQSSSCSY---IC-QHCLVHLGDIARYRNQTSQAESYYRHAAQLVPSNGQPYNQLAILAS  197 (497)
T ss_dssp             ---------------------CCHHHHH---HH-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTBSHHHHHHHHHHH
T ss_pred             HHHHhHHHHHhCCCHHHHHHHHHHHhCC---CH-HHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCchHHHHHHHHHHH
Confidence            4444555555555555555554443321   11 234555566666666666666666555 22333 355666666666


Q ss_pred             hcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhh
Q 008280          379 VHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAA  414 (571)
Q Consensus       379 ~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~  414 (571)
                      ..|+..+|...|.+++...|..+. ++..|...+.+
T Consensus       198 ~~~~~~~A~~~y~ral~~~~~~~~-a~~nL~~~~~~  232 (497)
T d1ya0a1         198 SKGDHLTTIFYYCRSIAVKFPFPA-ASTNLQKALSK  232 (497)
T ss_dssp             HTTCHHHHHHHHHHHHSSSBCCHH-HHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHhCCCCCHH-HHHHHHHHHHH
Confidence            666666666666666666655555 55565555543

>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=97.97  E-value=7.7e-05  Score=61.94  Aligned_cols=63  Identities=14%  Similarity=0.034  Sum_probs=57.7

Q ss_pred             hHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhC
Q 008280          368 AIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKEN  431 (571)
Q Consensus       368 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  431 (571)
                      .+|..+..+|...|++++|+..++++++++|+++. +|..++.+|...|++++|...|+...+.
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            35666778889999999999999999999999998 9999999999999999999999998764

>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=97.92  E-value=0.0078  Score=55.08  Aligned_cols=274  Identities=12%  Similarity=0.102  Sum_probs=154.5

Q ss_pred             CCCcchHHHHHHHHHhCCCCHHHHHHHHhhCCCCChhhHHHHHHHHHcCCCCHHHHHHHHhhCCCCChhhHHHHHHHHHc
Q 008280            3 VKTTVNWNSVLAGFAKQRGKLKDAQELFDKIPQPDVVSYNIMLSCILLNSDDVVAAFDFFQRLPIKDTASWNTMISGFVQ   82 (571)
Q Consensus         3 ~~~~~~~~~l~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~ll~~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~   82 (571)
                      .||..--..+.+.|.+.| .++.|..+|..+..     |..++..+.+. ++++.|.+++.+.  .+..+|..+...+.+
T Consensus        11 ~~n~~d~~~i~~~c~~~~-lye~A~~lY~~~~d-----~~rl~~~~v~l-~~~~~avd~~~k~--~~~~~~k~~~~~l~~   81 (336)
T d1b89a_          11 GPNNAHIQQVGDRCYDEK-MYDAAKLLYNNVSN-----FGRLASTLVHL-GEYQAAVDGARKA--NSTRTWKEVCFACVD   81 (336)
T ss_dssp             CC-----------------CTTTHHHHHHHTTC-----HHHHHHHHHTT-TCHHHHHHHHHHH--TCHHHHHHHHHHHHH
T ss_pred             CCCcCCHHHHHHHHHHCC-CHHHHHHHHHhCCC-----HHHHHHHHHhh-ccHHHHHHHHHHc--CCHHHHHHHHHHHHh
Confidence            455555666777777888 99999999987664     78888888888 9999999988765  366789999999998


Q ss_pred             CCCHHHHHHHHhhCCCCCcchHHHHHHHHHHcCChHHHHHHHhhCC---CCChhHHHHHHHHHHhcCCHHHHHHHHhhCC
Q 008280           83 KKNMAKARDLFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAP---VKSVVAWTAMISGYMKFGKVDLAEKLFDEMP  159 (571)
Q Consensus        83 ~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~  159 (571)
                      ......|... ......++.....++..|-..|.+++...+++...   ..+...++-++..|++.+.- .-.+.+....
T Consensus        82 ~~e~~la~i~-~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~~~~~~~~~~L~~lyak~~~~-kl~e~l~~~s  159 (336)
T d1b89a_          82 GKEFRLAQMC-GLHIVVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFKPQ-KMREHLELFW  159 (336)
T ss_dssp             TTCHHHHHHT-TTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSTTCCHHHHHHHHHHHHTTCHH-HHHHHHHHHS
T ss_pred             CcHHHHHHHH-HHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCCccchHHHHHHHHHHHHhChH-HHHHHHHhcc
Confidence            8777665332 22222355566788999999999999999998654   44567788999999987643 3333333322


Q ss_pred             C-CCH----------HHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCC
Q 008280          160 T-KNL----------VTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSP  228 (571)
Q Consensus       160 ~-~~~----------~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g  228 (571)
                      . -|+          ..|..++-.|.+.|++++|+.+.   ...  .++..-....+..+.+..+.+..-++....++. 
T Consensus       160 ~~y~~~k~~~~c~~~~l~~elv~Ly~~~~~~~~A~~~~---i~~--~~~~~~~~~f~e~~~k~~N~e~~~~~i~~yL~~-  233 (336)
T d1b89a_         160 SRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITM---MNH--PTDAWKEGQFKDIITKVANVELYYRAIQFYLEF-  233 (336)
T ss_dssp             TTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHH---HHS--TTTTCCHHHHHHHHHHCSSTHHHHHHHHHHHHH-
T ss_pred             ccCCHHHHHHHHHHcCChHHHHHHHHhcCCHHHHHHHH---HHc--chhhhhHHHHHHHHHccCChHHHHHHHHHHHHc-
Confidence            1 111          13556666666666666665543   221  333333444455555656655555555444432 


Q ss_pred             CCCCcchHHHHHHHHHhcCCHHHHHHHHHhhCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 008280          229 LCKDTTALTPLISMYCKCGDLEDACKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLA  308 (571)
Q Consensus       229 ~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a  308 (571)
                         ++...+.|+......-+.....+.|+                  +.++..-....++.....|   +....+++...
T Consensus       234 ---~p~~i~~lL~~v~~~~d~~r~V~~~~------------------k~~~l~li~p~Le~v~~~n---~~~vn~al~~l  289 (336)
T d1b89a_         234 ---KPLLLNDLLMVLSPRLDHTRAVNYFS------------------KVKQLPLVKPYLRSVQNHN---NKSVNESLNNL  289 (336)
T ss_dssp             ---CGGGHHHHHHHHGGGCCHHHHHHHHH------------------HTTCTTTTHHHHHHHHTTC---CHHHHHHHHHH
T ss_pred             ---CHHHHHHHHHHhccCCCHHHHHHHHH------------------hcCCcHHHHHHHHHHHHcC---hHHHHHHHHHH
Confidence               12333444444444444444444433                  3334444444444433322   23445555555


Q ss_pred             HHhcCcHHH
Q 008280          309 CNHAGLVDL  317 (571)
Q Consensus       309 ~~~~g~~~~  317 (571)
                      |...++++.
T Consensus       290 yie~~d~~~  298 (336)
T d1b89a_         290 FITEEDYQA  298 (336)
T ss_dssp             HHHTTCHHH
T ss_pred             HhCcchhHH
Confidence            555555443

>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=97.90  E-value=6.2e-05  Score=61.39  Aligned_cols=122  Identities=12%  Similarity=0.026  Sum_probs=88.7

Q ss_pred             hhHHHHHHHHHHcCChHHHHHHHHHHHHcCCC----CCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHH
Q 008280          265 VTWNAMISGYAQHGKGEKALRLFDKMKDEGMK----PDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTC  340 (571)
Q Consensus       265 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~----p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~  340 (571)
                      ..+......+.+.|++.+|+..|.+....-..    ++....                 ....        .....+|..
T Consensus        18 ~~~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~-----------------~~~~--------~~~~~~~~N   72 (153)
T d2fbna1          18 FDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILL-----------------DKKK--------NIEISCNLN   72 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHH-----------------HHHH--------HHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHH-----------------Hhhh--------hHHHHHHhh
Confidence            45666777788888888888888887653110    111100                 0000        112346777


Q ss_pred             HHHHHHHcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHH
Q 008280          341 MVDLLGRAGKLVEAVDLIKKM-PFKP-QPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIY  412 (571)
Q Consensus       341 li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~  412 (571)
                      +..+|.+.|++++|++.+++. ...| +..+|..+..++...|++++|+..|+++++++|+++. +...+..+.
T Consensus        73 la~~~~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~n~~-~~~~l~~~~  145 (153)
T d2fbna1          73 LATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLD-IRNSYELCV  145 (153)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHH-HHHHHHHHH
T ss_pred             HHHHHHHhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCCCCHH-HHHHHHHHH
Confidence            888999999999999999887 3334 5789999999999999999999999999999999987 666665544

>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=97.90  E-value=4.7e-05  Score=58.38  Aligned_cols=87  Identities=8%  Similarity=-0.084  Sum_probs=41.2

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcC
Q 008280          270 MISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAG  349 (571)
Q Consensus       270 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  349 (571)
                      +...+.+.|++++|+..|++...... -+..+|..+..++.+.|++++|...|+...+-  .+.+...+..+...|...|
T Consensus        22 ~g~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~a~~~la~~y~~~g   98 (112)
T d1hxia_          22 EGLSMLKLANLAEAALAFEAVCQKEP-EREEAWRSLGLTQAENEKDGLAIIALNHARML--DPKDIAVHAALAVSHTNEH   98 (112)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHhhhccccc-ccchhhhhhhhhhhhhhhHHHhhccccccccc--ccccccchHHHHHHHHHCC
Confidence            33444455555555555555544321 13344444555555555555555555554431  1222444445555555555


Q ss_pred             CHHHHHHHHH
Q 008280          350 KLVEAVDLIK  359 (571)
Q Consensus       350 ~~~~A~~~~~  359 (571)
                      ++++|++.++
T Consensus        99 ~~~~A~~~l~  108 (112)
T d1hxia_          99 NANAALASLR  108 (112)
T ss_dssp             HHHHHHHHHH
T ss_pred             CHHHHHHHHH
Confidence            5555555444

>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=97.67  E-value=0.00013  Score=61.05  Aligned_cols=113  Identities=12%  Similarity=0.024  Sum_probs=79.8

Q ss_pred             HHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCH-HHHHHHHHhCCCCCCHhHHHHHHHHHHhcCC
Q 008280          304 ALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKL-VEAVDLIKKMPFKPQPAIFGTLLSACRVHKR  382 (571)
Q Consensus       304 ~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~-~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~  382 (571)
                      .........|++++|.+.|.....-+.-.+-...         ..+.+ .....-++.    .....+..+...+...|+
T Consensus        16 ~~g~~~~~~g~~e~A~~~~~~AL~l~rG~~l~~~---------~~~~w~~~~r~~l~~----~~~~a~~~la~~~~~~g~   82 (179)
T d2ff4a2          16 TAGVHAAAAGRFEQASRHLSAALREWRGPVLDDL---------RDFQFVEPFATALVE----DKVLAHTAKAEAEIACGR   82 (179)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTCCSSTTGGG---------TTSTTHHHHHHHHHH----HHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhhCcccccccC---------cchHHHHHHHHHHHH----HHHHHHHHHHHHHHHCCC
Confidence            3345667788888888888887753221111100         00000 000111111    123567888999999999


Q ss_pred             HhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHh
Q 008280          383 LDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  430 (571)
Q Consensus       383 ~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  430 (571)
                      +++|+..++++++.+|.+.. .|..|+.+|.+.|++++|.+.|+++.+
T Consensus        83 ~~~Al~~~~~al~~~P~~e~-~~~~l~~al~~~Gr~~eAl~~y~~~~~  129 (179)
T d2ff4a2          83 ASAVIAELEALTFEHPYREP-LWTQLITAYYLSDRQSDALGAYRRVKT  129 (179)
T ss_dssp             HHHHHHHHHHHHHHSTTCHH-HHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHhCCccHH-HHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            99999999999999999988 999999999999999999999998753

>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=97.60  E-value=0.00026  Score=55.47  Aligned_cols=105  Identities=8%  Similarity=0.013  Sum_probs=52.6

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHH
Q 008280          267 WNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLG  346 (571)
Q Consensus       267 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~  346 (571)
                      +..+...|.+.|++++|+..|++.++.+ +.+...+..+..+|.+.|++++|.+.+..+++-.  +.+...+..+     
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~--~~~~~~~~~~-----   78 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVG--RENREDYRQI-----   78 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH--HHSTTCHHHH-----
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhC--cccHHHHHHH-----
Confidence            3344555555566666666665555543 2234455555555555555555555555544310  0011111111     


Q ss_pred             HcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCC
Q 008280          347 RAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPA  399 (571)
Q Consensus       347 ~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~  399 (571)
                                          ..+|..+...+...+++++|+..+++.+..+|+
T Consensus        79 --------------------a~~~~~lg~~~~~~~~~~~A~~~~~kal~~~~~  111 (128)
T d1elra_          79 --------------------AKAYARIGNSYFKEEKYKDAIHFYNKSLAEHRT  111 (128)
T ss_dssp             --------------------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC
T ss_pred             --------------------HHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCC
Confidence                                124445555566666666666666666665554

>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=97.58  E-value=0.00015  Score=53.50  Aligned_cols=75  Identities=12%  Similarity=0.071  Sum_probs=56.4

Q ss_pred             HhHHHHHHHHHHcCCHHHHHHHHHhC----C----CCCC-HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHH
Q 008280          336 DHYTCMVDLLGRAGKLVEAVDLIKKM----P----FKPQ-PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYV  406 (571)
Q Consensus       336 ~~~~~li~~~~~~g~~~~A~~~~~~~----~----~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~  406 (571)
                      +.+-.+...+.+.|++++|+..|++.    +    ..++ ..++..|..++.+.|++++|+..++++++++|+++. ++.
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            33445666777777777777777655    1    1223 467888999999999999999999999999999987 777


Q ss_pred             HHHHH
Q 008280          407 QLANI  411 (571)
Q Consensus       407 ~l~~~  411 (571)
                      .+...
T Consensus        85 Nl~~~   89 (95)
T d1tjca_          85 NLKYF   89 (95)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            66443

>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=97.57  E-value=6.6e-05  Score=60.55  Aligned_cols=128  Identities=11%  Similarity=0.060  Sum_probs=67.3

Q ss_pred             HHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC----------cHHHHHHHHHHhHHhcCCCCChHhHHHHHH
Q 008280          274 YAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAG----------LVDLGIQYFDSMVNDYGIAAKPDHYTCMVD  343 (571)
Q Consensus       274 ~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g----------~~~~a~~~~~~~~~~~~~~~~~~~~~~li~  343 (571)
                      |-+.+.+++|+..|+...+.. +.+..++..+..++...+          .+++|...|++.++-  -+.+...|..+..
T Consensus         7 ~~r~~~fe~A~~~~e~al~~~-P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l--~P~~~~a~~~lG~   83 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLI--DPKKDEAVWCIGN   83 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhhC-CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHh--cchhhHHHhhHHH
Confidence            344556667777777666543 224445555555554332          234444444444431  1222344444444


Q ss_pred             HHHHcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHH
Q 008280          344 LLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVAR  423 (571)
Q Consensus       344 ~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~  423 (571)
                      +|...|++.            ++...         ..+++++|...|+++++++|++.. .+..|...       ..|.+
T Consensus        84 ~y~~~g~~~------------~~~~~---------~~~~~~~A~~~~~kal~l~P~~~~-~~~~L~~~-------~ka~~  134 (145)
T d1zu2a1          84 AYTSFAFLT------------PDETE---------AKHNFDLATQFFQQAVDEQPDNTH-YLKSLEMT-------AKAPQ  134 (145)
T ss_dssp             HHHHHHHHC------------CCHHH---------HHHHHHHHHHHHHHHHHHCTTCHH-HHHHHHHH-------HTHHH
T ss_pred             HHHHcccch------------hhHHH---------HHHhHHHhhhhhhcccccCCCHHH-HHHHHHHH-------HHHHH
Confidence            443332210            11110         112468899999999999999875 55555544       35566


Q ss_pred             HHHHHHhCCC
Q 008280          424 IRLSMKENNV  433 (571)
Q Consensus       424 ~~~~m~~~~~  433 (571)
                      ++.+..++|+
T Consensus       135 ~~~e~~k~~~  144 (145)
T d1zu2a1         135 LHAEAYKQGL  144 (145)
T ss_dssp             HHHHHHHSSS
T ss_pred             HHHHHHHHhc
Confidence            6666665553

>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=97.50  E-value=2.7e-05  Score=77.49  Aligned_cols=72  Identities=11%  Similarity=0.014  Sum_probs=31.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhhCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 008280          236 LTPLISMYCKCGDLEDACKLFLEIQR---KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLA  308 (571)
Q Consensus       236 ~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a  308 (571)
                      +..+++++...|++++|...|++..+   .+..+|+.|...+...|+..+|+..|.+..... +|-..++..|...
T Consensus       155 ~~~LG~l~~~~~~~~~A~~~y~~A~~l~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~  229 (497)
T d1ya0a1         155 LVHLGDIARYRNQTSQAESYYRHAAQLVPSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKA  229 (497)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHHCCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHH
Confidence            33444444444455555444444331   223444444444444455444544444444332 2333344444333

>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=97.47  E-value=0.00022  Score=58.16  Aligned_cols=88  Identities=14%  Similarity=-0.017  Sum_probs=62.2

Q ss_pred             HHHHHHcCCHHHHHHHHHhC----CCCCC----------HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCC--------
Q 008280          342 VDLLGRAGKLVEAVDLIKKM----PFKPQ----------PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPA--------  399 (571)
Q Consensus       342 i~~~~~~g~~~~A~~~~~~~----~~~p~----------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~--------  399 (571)
                      ...+.+.|++++|++.|++.    +..|+          ...|+.+..+|...|++++|...+++++++.|.        
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            33445556666666666554    11121          356777888888899999998888888764332        


Q ss_pred             ---CCchhHHHHHHHHhhccChhHHHHHHHHHHh
Q 008280          400 ---NAAGCYVQLANIYAAMKKWDDVARIRLSMKE  430 (571)
Q Consensus       400 ---~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  430 (571)
                         ... +|..++.+|...|++++|.+.|++..+
T Consensus        96 ~~~~~~-a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          96 GKLWIS-AVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HHHHHH-HHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cchhHH-HHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence               112 577899999999999999999998765

>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=97.31  E-value=9.8e-05  Score=59.50  Aligned_cols=96  Identities=11%  Similarity=0.066  Sum_probs=62.8

Q ss_pred             HhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHHhcCCHhHHHHH
Q 008280          310 NHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFA  389 (571)
Q Consensus       310 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~  389 (571)
                      .+.+.+++|...|+...+.  -+.++..+..+..+|...+++..+.+                      ..+.+++|+..
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            3445555555555555542  23334455555555444443333322                      23446789999


Q ss_pred             HHHHhccCCCCCchhHHHHHHHHhhccC-----------hhHHHHHHHHHHh
Q 008280          390 AMNLFNLNPANAAGCYVQLANIYAAMKK-----------WDDVARIRLSMKE  430 (571)
Q Consensus       390 ~~~~~~~~p~~~~~~~~~l~~~~~~~g~-----------~~~a~~~~~~m~~  430 (571)
                      |+++++++|+++. +|..++.+|...|+           +++|.+.|++..+
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            9999999999998 99999999988764           5778888877765

>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=97.28  E-value=0.00039  Score=62.03  Aligned_cols=124  Identities=9%  Similarity=-0.035  Sum_probs=77.1

Q ss_pred             HHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCC-hHhHHHHHHHHHHcCCHHH
Q 008280          275 AQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAK-PDHYTCMVDLLGRAGKLVE  353 (571)
Q Consensus       275 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~  353 (571)
                      .+.|++++|+..+++.++.. +-|...+..+...++..|++++|...++...+.   .|+ ...+..+..++...+..++
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            34677888888888777753 335567777777888888888888888777653   344 4444445555544444444


Q ss_pred             HHHHHHhC--CCCCC-HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCc
Q 008280          354 AVDLIKKM--PFKPQ-PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA  402 (571)
Q Consensus       354 A~~~~~~~--~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~  402 (571)
                      +..-....  ...|+ ...+......+...|+.++|...++++.+..|+.+.
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 233344455677788888888888888888887765

>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=97.24  E-value=0.0031  Score=52.28  Aligned_cols=73  Identities=14%  Similarity=0.158  Sum_probs=54.5

Q ss_pred             hhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHH----hcCCCCChHh
Q 008280          264 VVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVN----DYGIAAKPDH  337 (571)
Q Consensus       264 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~----~~~~~~~~~~  337 (571)
                      ...+..++..+...|++++|+..++++.... +-+...|..++.++...|+..+|.+.|+++.+    ..|+.|+..+
T Consensus        67 ~~a~~~la~~~~~~g~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          67 VLAHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHHHHHCCCchHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            4567777888888888888888888887754 33667788888888888888888888877633    3577777654

>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=97.20  E-value=0.0015  Score=52.93  Aligned_cols=65  Identities=11%  Similarity=-0.056  Sum_probs=43.3

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHhC--------CCCCC-----HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCC
Q 008280          337 HYTCMVDLLGRAGKLVEAVDLIKKM--------PFKPQ-----PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANA  401 (571)
Q Consensus       337 ~~~~li~~~~~~g~~~~A~~~~~~~--------~~~p~-----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~  401 (571)
                      .|+.+..+|...|++++|.+.+++.        ...++     ...+..+..+|...|++++|+..|++++++.|+..
T Consensus        57 ~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l~~~~~  134 (156)
T d2hr2a1          57 CHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERK  134 (156)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhHHhh
Confidence            4555566666666666666555543        11122     22567788889999999999999999988766543

>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=97.06  E-value=0.0011  Score=48.54  Aligned_cols=65  Identities=8%  Similarity=-0.108  Sum_probs=54.2

Q ss_pred             HhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCC-------CchhHHHHHHHHhhccChhHHHHHHHHHHhCC
Q 008280          367 PAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPAN-------AAGCYVQLANIYAAMKKWDDVARIRLSMKENN  432 (571)
Q Consensus       367 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~-------~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  432 (571)
                      ...+-.+...+.+.|+++.|+..|++++++.|.+       .. ++..|+.+|.+.|++++|+..+++..+..
T Consensus         5 addc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~-~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~   76 (95)
T d1tjca_           5 AEDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVS-VLDYLSYAVYQQGDLDKALLLTKKLLELD   76 (95)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHH-HHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHH-HHHHHhhHHHhcCChHHHHHHHHHHHHhC
Confidence            4445577888999999999999999998865443       23 68899999999999999999999988743

>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=96.87  E-value=0.00048  Score=61.40  Aligned_cols=120  Identities=10%  Similarity=0.088  Sum_probs=85.4

Q ss_pred             HHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-HhHHHHHHHHHHhcCCHhHH
Q 008280          309 CNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLIKKM-PFKPQ-PAIFGTLLSACRVHKRLDLA  386 (571)
Q Consensus       309 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~g~~~~a  386 (571)
                      ..+.|++++|...+++.++  .-+.+...+..++..|+..|++++|.+.++.. ...|+ ...+..+...+...+..+++
T Consensus         6 aL~~G~l~eAl~~l~~al~--~~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~P~~~~~~~~l~~ll~a~~~~~~a   83 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIK--ASPKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKAAQARKDF   83 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHH--TCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhccccHHH
Confidence            3467999999999999987  34667899999999999999999999999887 33455 35555555555444443333


Q ss_pred             HHHHHHHhc-cCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhC
Q 008280          387 EFAAMNLFN-LNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKEN  431 (571)
Q Consensus       387 ~~~~~~~~~-~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  431 (571)
                      ......... .+|++.. .+...+..+...|+.++|.+.+++..+.
T Consensus        84 ~~~~~~~~~~~~p~~~~-~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          84 AQGAATAKVLGENEELT-KSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             TTSCCCEECCCSCHHHH-HHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHhhhhhcccCchHHH-HHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            222222111 2344434 5566778889999999999999988764

>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=96.33  E-value=0.47  Score=45.01  Aligned_cols=113  Identities=5%  Similarity=-0.050  Sum_probs=54.8

Q ss_pred             HHcCCCHHHHHHHHhhCCCCCcchHHHHHHHHH--HcCChHHHHHHHhhCCCCCh--hHHHHHHHHHHhcCCHHHHHHHH
Q 008280           80 FVQKKNMAKARDLFLAMPEKNSVSWSAMISGYI--ECGQLDKAVELFKVAPVKSV--VAWTAMISGYMKFGKVDLAEKLF  155 (571)
Q Consensus        80 ~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~--~~g~~~~A~~~~~~~~~~~~--~~~~~li~~~~~~g~~~~A~~~~  155 (571)
                      ..+.|+.+.+.++...+..--...|-..-..-.  .....++...+++.-.....  ......+..+.+.++++.....+
T Consensus        16 a~~~~~~~~~~~~~~~L~dypL~pYl~~~~l~~~~~~~~~~~i~~Fl~~~p~~P~~~~lr~~~l~~L~~~~~w~~~~~~~   95 (450)
T d1qsaa1          16 AWDNRQMDVVEQMMPGLKDYPLYPYLEYRQITDDLMNQPAVTVTNFVRANPTLPPARTLQSRFVNELARREDWRGLLAFS   95 (450)
T ss_dssp             HHHTTCHHHHHHHSGGGTTSTTHHHHHHHHHHHTGGGCCHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHTTCHHHHHHHC
T ss_pred             HHHCCCHHHHHHHHhhhcCCCCHHHHHHHHHHhccccCCHHHHHHHHHHCCCChhHHHHHHHHHHHHHhccCHHHHHHhc
Confidence            345666666666666653211222222211111  12344455555544332211  12233445566677776666555


Q ss_pred             hhCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCC
Q 008280          156 DEMPTKNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLG  193 (571)
Q Consensus       156 ~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  193 (571)
                      ..-+ .+...-.....+....|+..+|...+..+-..|
T Consensus        96 ~~~p-~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~  132 (450)
T d1qsaa1          96 PEKP-GTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTG  132 (450)
T ss_dssp             CSCC-SSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCS
T ss_pred             cCCC-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC
Confidence            4322 233333455566667777777777666665544

>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=95.07  E-value=0.065  Score=40.22  Aligned_cols=66  Identities=8%  Similarity=-0.059  Sum_probs=38.9

Q ss_pred             CCHhHHHHHHHHHHhcC---CHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHh
Q 008280          365 PQPAIFGTLLSACRVHK---RLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKE  430 (571)
Q Consensus       365 p~~~~~~~l~~~~~~~g---~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  430 (571)
                      |.+.+.-....++.++.   +.++|+.+++++++.+|.+....+..|+.+|.+.|++++|.+.++.+.+
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~  101 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  101 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHc
Confidence            33444444444554443   3456667777776666654322566777777777777777777766655

>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=94.40  E-value=0.65  Score=34.36  Aligned_cols=141  Identities=10%  Similarity=0.079  Sum_probs=97.2

Q ss_pred             HHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHH
Q 008280          274 YAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVE  353 (571)
Q Consensus       274 ~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  353 (571)
                      +...|..++..+++.+....   .+..-|+.++.-....-+-+...+.++.+-+-|.+.              .++++..
T Consensus        12 ~ildG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~FDls--------------~C~Nlk~   74 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLD--------------KCQNLKS   74 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGG--------------GCSCTHH
T ss_pred             HHHhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhhhcCch--------------hhhcHHH
Confidence            34467777888888777653   355566666665555666666666666665433332              3444455


Q ss_pred             HHHHHHhCCCCCCHhHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHHhCCC
Q 008280          354 AVDLIKKMPFKPQPAIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMKENNV  433 (571)
Q Consensus       354 A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  433 (571)
                      ....+-.++  .+...+...+.....+|+-+.-.++++.+++-+.-++. ....++++|.+.|...++-+++.+.-++|+
T Consensus        75 vv~C~~~~n--~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~~i~~~-~llkia~A~kkig~~re~nell~~ACe~G~  151 (161)
T d1wy6a1          75 VVECGVINN--TLNEHVNKALDILVIQGKRDKLEEIGREILKNNEVSAS-ILVAIANALRRVGDERDATTLLIEACKKGE  151 (161)
T ss_dssp             HHHHHHHTT--CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHH-HHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHhc--chHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCCCCHH-HHHHHHHHHHHhcchhhHHHHHHHHHHHhH
Confidence            444454443  34556666778888999999999999988775544555 888999999999999999999999998887


Q ss_pred             c
Q 008280          434 V  434 (571)
Q Consensus       434 ~  434 (571)
                      +
T Consensus       152 K  152 (161)
T d1wy6a1         152 K  152 (161)
T ss_dssp             H
T ss_pred             H
Confidence            5

>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=93.93  E-value=0.53  Score=35.77  Aligned_cols=16  Identities=6%  Similarity=-0.028  Sum_probs=9.9

Q ss_pred             ChhHHHHHHHHHHHCC
Q 008280          178 WAEDGLKLLRMMIGLG  193 (571)
Q Consensus       178 ~~~~A~~~~~~m~~~g  193 (571)
                      ++++|+++|++..+.|
T Consensus         8 d~~~A~~~~~kaa~~g   23 (133)
T d1klxa_           8 DLKKAIQYYVKACELN   23 (133)
T ss_dssp             HHHHHHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHHHCC
Confidence            4566666666666554

>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=93.91  E-value=0.2  Score=38.31  Aligned_cols=50  Identities=16%  Similarity=-0.040  Sum_probs=32.9

Q ss_pred             CCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhh----ccChhHHHHHHHHHHhCCC
Q 008280          381 KRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAA----MKKWDDVARIRLSMKENNV  433 (571)
Q Consensus       381 g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~m~~~~~  433 (571)
                      .+.++|.+.|++..+.+.  +. +...|+.+|.+    ..+.++|.+++++..+.|.
T Consensus        73 ~d~~~A~~~~~~aa~~g~--~~-a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G~  126 (133)
T d1klxa_          73 KDLRKAAQYYSKACGLND--QD-GCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  126 (133)
T ss_dssp             CCHHHHHHHHHHHHHTTC--HH-HHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             hhhHHHHHHHhhhhccCc--ch-HHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCCC
Confidence            456777777777766542  33 66677777765    3467778788777766664

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=93.21  E-value=1.1  Score=33.08  Aligned_cols=140  Identities=13%  Similarity=0.082  Sum_probs=85.4

Q ss_pred             HHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCchHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCHHHH
Q 008280          173 YVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSHLSSLQLGKQVHQLVFKSPLCKDTTALTPLISMYCKCGDLEDA  252 (571)
Q Consensus       173 ~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A  252 (571)
                      +.-.|..++..++..+....   .+..-|+.++--....-+-+...+.++.+-+.   .|          ..+|+++...
T Consensus        12 ~ildG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~---FD----------ls~C~Nlk~v   75 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FD----------LDKCQNLKSV   75 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SC----------GGGCSCTHHH
T ss_pred             HHHhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhhh---cC----------chhhhcHHHH
Confidence            34456677777777666552   23444555544444444444444444433321   11          1235555555


Q ss_pred             HHHHHhhCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCC
Q 008280          253 CKLFLEIQRKDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGI  331 (571)
Q Consensus       253 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~  331 (571)
                      ...+-.+. .+....+..++...++|+-++-.++++.+.+.+ +|++.....+..||.+.|+..++.+++.+..++ |+
T Consensus        76 v~C~~~~n-~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~-G~  151 (161)
T d1wy6a1          76 VECGVINN-TLNEHVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKK-GE  151 (161)
T ss_dssp             HHHHHHTT-CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT-TC
T ss_pred             HHHHHHhc-chHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHH-hH
Confidence            55544432 234445666777888888888888888866643 677778888888999999999888888888765 54

>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=91.52  E-value=0.86  Score=33.86  Aligned_cols=70  Identities=13%  Similarity=0.013  Sum_probs=45.6

Q ss_pred             CChHhHHHHHHHHHHcC---CHHHHHHHHHhC-CCCC-CH-hHHHHHHHHHHhcCCHhHHHHHHHHHhccCCCCCc
Q 008280          333 AKPDHYTCMVDLLGRAG---KLVEAVDLIKKM-PFKP-QP-AIFGTLLSACRVHKRLDLAEFAAMNLFNLNPANAA  402 (571)
Q Consensus       333 ~~~~~~~~li~~~~~~g---~~~~A~~~~~~~-~~~p-~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~  402 (571)
                      +++.+--...-++.+..   +.++++.++++. ...| +. ..|..|.-+|.+.|++++|...++++++.+|++..
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            33444444555555443   344566666555 1123 22 46667777888999999999999999999998864

>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=88.33  E-value=9.8  Score=35.24  Aligned_cols=386  Identities=12%  Similarity=0.045  Sum_probs=201.8

Q ss_pred             HhCCCCHHHHHHHHhhCCC-CChhhHHHH--HHHHHcCCCCHHHHHHHHhhCCCCC--hhhHHHHHHHHHcCCCHHHHHH
Q 008280           17 AKQRGKLKDAQELFDKIPQ-PDVVSYNIM--LSCILLNSDDVVAAFDFFQRLPIKD--TASWNTMISGFVQKKNMAKARD   91 (571)
Q Consensus        17 ~~~~g~~~~A~~~~~~~~~-~~~~~~~~l--l~~~~~~~g~~~~A~~~~~~m~~~d--~~~~~~li~~~~~~g~~~~A~~   91 (571)
                      .+.| +...+.++...+.. | ...|-..  +..-... ....+...++++-+..-  ...-...+..+.+.++++..+.
T Consensus        17 ~~~~-~~~~~~~~~~~L~dyp-L~pYl~~~~l~~~~~~-~~~~~i~~Fl~~~p~~P~~~~lr~~~l~~L~~~~~w~~~~~   93 (450)
T d1qsaa1          17 WDNR-QMDVVEQMMPGLKDYP-LYPYLEYRQITDDLMN-QPAVTVTNFVRANPTLPPARTLQSRFVNELARREDWRGLLA   93 (450)
T ss_dssp             HHTT-CHHHHHHHSGGGTTST-THHHHHHHHHHHTGGG-CCHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHCC-CHHHHHHHHhhhcCCC-CHHHHHHHHHHhcccc-CCHHHHHHHHHHCCCChhHHHHHHHHHHHHHhccCHHHHHH
Confidence            3455 88999888888854 2 2222211  1111233 56677777777655421  1122334556777888887776


Q ss_pred             HHhhCCCCCcchHHHHHHHHHHcCChHHHHHHHhhCC---CCChhHHH------------------HHHHHHHhcCCHHH
Q 008280           92 LFLAMPEKNSVSWSAMISGYIECGQLDKAVELFKVAP---VKSVVAWT------------------AMISGYMKFGKVDL  150 (571)
Q Consensus        92 ~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~------------------~li~~~~~~g~~~~  150 (571)
                      .+..-+ .+...--....+....|+.++|.+.+..+-   ...+..+.                  .-+......|+...
T Consensus        94 ~~~~~p-~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~~~~p~~c~~l~~~~~~~~~lt~~~~~~R~~~~l~~~~~~~  172 (450)
T d1qsaa1          94 FSPEKP-GTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGKSQPNACDKLFSVWRASGKQDPLAYLERIRLAMKAGNTGL  172 (450)
T ss_dssp             HCCSCC-SSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSSCCCTHHHHHHHHHHHTTCSCHHHHHHHHHHHHHTTCHHH
T ss_pred             hccCCC-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCChhh
Confidence            654322 233333456667777888888777665331   11222222                  33344555666777


Q ss_pred             HHHHHhhCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhc--cCchHHHHHHHHHHHhCC
Q 008280          151 AEKLFDEMPTKNLVTWNAMIAGYVENSWAEDGLKLLRMMIGLGIRPNASSLSSVLLGCSH--LSSLQLGKQVHQLVFKSP  228 (571)
Q Consensus       151 A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~--~~~~~~a~~~~~~~~~~g  228 (571)
                      |..+...++..........+.....   +..+......     ..++......+..+..+  ..+.+.+..++.......
T Consensus       173 a~~l~~~l~~~~~~~~~a~~~l~~~---p~~~~~~~~~-----~~~~~~~~~~~~~~l~rla~~d~~~a~~~l~~~~~~~  244 (450)
T d1qsaa1         173 VTVLAGQMPADYQTIASAIISLANN---PNTVLTFART-----TGATDFTRQMAAVAFASVARQDAENARLMIPSLAQAQ  244 (450)
T ss_dssp             HHHHHHTCCGGGHHHHHHHHHHHHC---GGGHHHHHHH-----SCCCHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHT
T ss_pred             HHHHHhhCChhHHHHHHHHHHHHhC---hHhHHHHHhc-----CCCChhhhHHHHHHHHHHhccChhHHHHHHHhhhhcc
Confidence            7777766655444444444444322   2222222211     12233333333333332  245666777666655432


Q ss_pred             CCCCcch---HHHHHHHHHhcCCHHHHHHHHHhhCC--CChhhHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHH
Q 008280          229 LCKDTTA---LTPLISMYCKCGDLEDACKLFLEIQR--KDVVTWNAMISGYAQHGKGEKALRLFDKMKDEGMKPDSITFV  303 (571)
Q Consensus       229 ~~~~~~~---~~~li~~y~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~  303 (571)
                      .......   ...+...+...+..+.+...+.....  .+.....-.+......+++..+...+..|... ......-..
T Consensus       245 ~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~w~~~~al~~~~~~~~~~~~~~l~~~-~~~~~r~~Y  323 (450)
T d1qsaa1         245 QLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRSQSTSLIERRVRMALGTGDRRGLNTWLARLPME-AKEKDEWRY  323 (450)
T ss_dssp             TCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTCCCHHHHHHHHHHHHHHTCHHHHHHHHHHSCTT-GGGSHHHHH
T ss_pred             cccHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhcccccchHHHHHHHHHHHHcCChHHHHHHHHhcCcc-cccHHHHHH
Confidence            1111111   11222233344556666666655432  23333233444455677888888888776432 122233445


Q ss_pred             HHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHHHHHHcCCHHHHHHHH-HhCCCCCCH-h---HHHHHHHHHH
Q 008280          304 ALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVDLLGRAGKLVEAVDLI-KKMPFKPQP-A---IFGTLLSACR  378 (571)
Q Consensus       304 ~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~-~~~~~~p~~-~---~~~~l~~~~~  378 (571)
                      -+..+....|+.+.|..+|..+..    .++  -|.-|..  .+.|..-.   +- ...+..++. .   .-...+..+.
T Consensus       324 W~gRa~~~~G~~~~A~~~~~~~a~----~~~--fYG~LAa--~~Lg~~~~---~~~~~~~~~~~~~~~~~~~~~ra~~L~  392 (450)
T d1qsaa1         324 WQADLLLERGREAEAKEILHQLMQ----QRG--FYPMVAA--QRIGEEYE---LKIDKAPQNVDSALTQGPEMARVRELM  392 (450)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHT----SCS--HHHHHHH--HHTTCCCC---CCCCCCCSCCCCHHHHSHHHHHHHHHH
T ss_pred             HHHHHHHHcCChhhHHHHHHHHhc----CCC--hHHHHHH--HHcCCCCC---CCcCCCCccHHHhhhcChHHHHHHHHH
Confidence            677788888888888888887753    233  2332221  12221100   00 000111111 0   1112344567


Q ss_pred             hcCCHhHHHHHHHHHhccCCCCCchhHHHHHHHHhhccChhHHHHHHHHHH
Q 008280          379 VHKRLDLAEFAAMNLFNLNPANAAGCYVQLANIYAAMKKWDDVARIRLSMK  429 (571)
Q Consensus       379 ~~g~~~~a~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  429 (571)
                      ..|....|...+..+....+  +. -...++....+.|.++.|+.......
T Consensus       393 ~~g~~~~A~~e~~~l~~~~~--~~-~~~~la~lA~~~g~~~~aI~a~~~~~  440 (450)
T d1qsaa1         393 YWNLDNTARSEWANLVKSKS--KT-EQAQLARYAFNNQWWDLSVQATIAGK  440 (450)
T ss_dssp             HTTCHHHHHHHHHHHHTTCC--HH-HHHHHHHHHHHTTCHHHHHHHHHHTT
T ss_pred             HcCCchHHHHHHHHHHhCCC--HH-HHHHHHHHHHHCCChhHHHHHHHHHH
Confidence            88999999999888875432  33 67788888899999999998776653

>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=86.52  E-value=1.6  Score=30.54  Aligned_cols=63  Identities=11%  Similarity=0.225  Sum_probs=48.7

Q ss_pred             ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHhHHhcCCCCChHhHHHHHH
Q 008280          279 KGEKALRLFDKMKDEGMKPDSITFVALLLACNHAGLVDLGIQYFDSMVNDYGIAAKPDHYTCMVD  343 (571)
Q Consensus       279 ~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~  343 (571)
                      +.-++.+-+..+....+-|++....+.+.||.+.+++..|.++|+.+..+.+  ++...|..+++
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            3446666677777777889999999999999999999999999998876533  34556766654