Citrus Sinensis ID: 006388

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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-------580-------590-------600-------610-------620-------630-------640-------
Protein Sequence
MPFHDGVSWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGSPLVDMYAKLGLIYDAKRGFDELPEKNIVMYNTMITGLLRRGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKMPFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREKGVRKDPGCSWIKYKSRVHIFSADDWSSPYSDQIYAELEKLNRKMIKEGYVPDMSSVLHDVELSEKIKMLNHHSEKLAIAFGLLFIPPGLPIRVVKNLRVCSDCHNATKYISKITQREILVRDAVRFHLFKNGECSCGDFW
Secondary Structure (PSIPRED)
ccccccccHHHHHHHHHcccccHHHHHHHHHHHHcccccccccHHHHHHHHHHcccccHHHHHHHHHHHHHcccccccccHHHHHHHHHcccHHHHHHccccccccHHHHHHHHHHHHHccccHHHHHHHHcccccccccHHHHHHHHHHccccHHHHHHHHHHHHHccccccccHHHHHHHHHcccccHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHHHHHHcccccccEEEHHHHHHHHHcccccHHHHHHHHHHHHcccccccHHHHHHHHHHHHHcHHHHHHHHHHHHHHHcccccEEEHHHHHHHHHccccHHHHHHHHccccccccEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHccccHHHHHHHHHHHcHHcccccccccHHHHHHHHHHHcccHHHHHHHHHcccccccHHHHHHHHHHHHHHccHHHHHHHHHHHHHHcccccccHHHHHHHHHHccccHHHHHHHHHHHHccccccccEEEEEEccEEEEEEEcccccccHHHHHHHHHHHHHHHHHcccccccccccccccHHHHHHHHccccHHHHHHHHHccccccccEEEEcccccccHHHHHHHHHHHHcccEEEEcccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccEEHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccccHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccEHHHHHHHHHHHcccHHHHHHHHHHccccccEHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccEHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccEHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccEEEEEEccEEEEEEEcccccccHHHHHHHHHHHHHHHHHccccccccEEEEcccHHHHHHHHHHHHHHHHHHHHHHcccccccEEEEEccEEcccHHHHHHHHHHHcccEEEEEccccccccccccEcccccc
Coil and Loop (DISEMBL)
MPFHDGVSWNLLIsghashgsvNDAVKVYNLMLKdglgnlsriTFSTMLIMSSSRRCVDLGRQIHghilkfgfgsyvfvgspLVDMYAKLGLIYdakrgfdelpekniVMYNTMITGLLRRGLVEESRRLFRgmkdkdsiSWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRndhkdnvfVGSALVDMYCKCKSIKYAESVFRTMAWKNVVSWTAMLVGYGQNGCSEEAVKIFCNMqrngiepddftlGSVISSCANLasleegtqfhgrSLVTGLISFITVSNALVTFYgkcgniedshrlfnemnvrdEVSWTALVSGYAKFGKANETIDLFEKMLshglkpdevTLIGVLSACSraglvekgRHYFEIMVKeygirpihdhYTCMIDILSRAGRLEEAKSFinkmpfppdaiGWATLLSSCRIHGNVEIGKWAAESLleldpynpasYVLLSSIYASKGKWDHVSQLRRTMRekgvrkdpgcswikyksrvhifsaddwsspysdQIYAELEKLNRKMIkegyvpdmssvLHDVELSEKIKMLNHHSEKLAIAFGllfippglpirvvknlrvcsdchnaTKYISKITQREILVRDAVRFHlfkngecscgdfw
Flexible Loop (DISEMBL)
MPFHDGVSWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGSPLVDMYAKLGLIYDAKRGFDELPEKNIVMYNTMITGLLRRGLVEESRRLFrgmkdkdsiswtTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKMPFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRtmrekgvrkdpgcswikyksrVHIFsaddwsspySDQIYAELEKLNRKMIKEGYVPDMSSVLHDVELSEKIKMLNHHSEKLAIAFGLLFIPPGLPIRVVKNLRVCSDCHNAtkyiskitqreiLVRDAVRFHLfkngecscgdfw
Low Complexity Region (SEG)
MPFHDGVSWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGSPLVDMYAKLGLIYDAKRGFDELPEKNIVMYNTMITGLLRRGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKMPFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREKGVRKDPGCSWIKYKSRVHIFSADDWSSPYSDQIYAELEKLNRKMIKEGYVPDMSSVLHDVELSEKIKMLNHHSEKLAIAFGLLFIPPGLPIRVVKNLRVCSDCHNATKYISKITQREILVRDAVRFHLFKNGECSCGDFW
Disordered region (IsUnstruct)
*****GVSWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGSPLVDMYAKLGLIYDAKRGFDELPEKNIVMYNTMITGLLRRGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKMPFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREKGVRKDPGCSWIKYKSRVHIFSADDWSSPYSDQIYAELEKLNRKMIKEGYVPDMSSVLHDVELSEKIKMLNHHSEKLAIAFGLLFIPPGLPIRVVKNLRVCSDCHNATKYISKITQREILVRDAVRFHLFKNGECSCGD**
Disordered Region (DISOPRED)
MPFHDGVSWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGSPLVDMYAKLGLIYDAKRGFDELPEKNIVMYNTMITGLLRRGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKMPFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREKGVRKDPGCSWIKYKSRVHIFSADDWSSPYSDQIYAELEKLNRKMIKEGYVPDMSSVLHDVELSEKIKMLNHHSEKLAIAFGLLFIPPGLPIRVVKNLRVCSDCHNATKYISKITQREILVRDAVRFHLFKNGECSCGDFW
Disordered Region (DISEMBL)
MPFHDGVSWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGSPLVDMYAKLGLIYDAKRGFDELPEKNIVMYNTMITGLLRRGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKMPFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRT*********PGCSWIKYKSRVHIFSADDWSSPYSDQIYAELEKLNRKMIKEGYVPDMSSVLHDVELSEKIKMLNHHSEKLAIAFGLLFIPPGLPIRVVKNLRVCSDCHNATKYISKITQREILVRDAVRFHLFKNGECSCGDFW
Disordered Region (DISPRO)
***HDGVSWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGSPLVDMYAKLGLIYDAKRGFDELPEKNIVMYNTMITGLLRRGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKMPFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREKGVRKDPGCSWIKYKSRVHIFSADDWSSPYSDQIYAELEKLNRKMIKEGYVPDMSSVLHDVELSEKIKMLNHHSEKLAIAFGLLFIPPGLPIRVVKNLRVCSDCHNATKYISKITQREILVRDAVRFHLFKNGECSCGDFW
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MPFHDGVSWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGSPLVDMYAKLGLIYDAKRGFDELPEKNIVMYNTMITGLLRRGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKMPFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREKGVRKDPGCSWIKYKSRVHIFSADDWSSPYSDQIYAELEKLNRKMIKEGYVPDMSSVLHDVELSEKIKMLNHHSEKLAIAFGLLFIPPGLPIRVVKNLRVCSDCHNATKYISKITQREILVRDAVRFHLFKNGECSCGDFW
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	647	2.2.26 [Sep-21-2011]
Q9CAA8	743	Putative pentatricopeptid	yes	no	0.998	0.869	0.667	0.0
Q9SHZ8	786	Pentatricopeptide repeat-	no	no	0.998	0.821	0.403	1e-153
Q9FRI5	790	Pentatricopeptide repeat-	no	no	0.978	0.801	0.387	1e-147
Q9LN01	741	Pentatricopeptide repeat-	no	no	0.986	0.860	0.397	1e-143
Q9LW63	715	Putative pentatricopeptid	no	no	0.907	0.820	0.427	1e-143
Q9SY02	781	Pentatricopeptide repeat-	no	no	0.973	0.806	0.397	1e-143
Q9SVP7	1064	Pentatricopeptide repeat-	no	no	0.939	0.571	0.397	1e-142
Q9ZUW3	868	Pentatricopeptide repeat-	no	no	0.936	0.698	0.395	1e-140
O23169	691	Pentatricopeptide repeat-	no	no	0.933	0.874	0.404	1e-140
Q8S9M4	650	Pentatricopeptide repeat-	no	no	0.973	0.969	0.388	1e-138

>sp|Q9CAA8|PP108_ARATH Putative pentatricopeptide repeat-containing protein At1g68930 OS=Arabidopsis thaliana GN=PCMP-H22 PE=3 SV=1

 Score =  920 bits (2379), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 432/647 (66%), Positives = 531/647 (82%), Gaps = 1/647 (0%)

Query: 1   MPFHDGVSWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDL 60
           +P  DGV+WN+LI G++  G V  AVK YN M++D   NL+R+T  TML +SSS   V L
Sbjct: 98  LPDRDGVTWNVLIEGYSLSGLVGAAVKAYNTMMRDFSANLTRVTLMTMLKLSSSNGHVSL 157

Query: 61  GRQIHGHILKFGFGSYVFVGSPLVDMYAKLGLIYDAKRGFDELPEKNIVMYNTMITGLLR 120
           G+QIHG ++K GF SY+ VGSPL+ MYA +G I DAK+ F  L ++N VMYN+++ GLL 
Sbjct: 158 GKQIHGQVIKLGFESYLLVGSPLLYMYANVGCISDAKKVFYGLDDRNTVMYNSLMGGLLA 217

Query: 121 RGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSV 180
            G++E++ +LFRGM +KDS+SW  MI GL QNGL +EAI+ FREM+++GL MDQ+ FGSV
Sbjct: 218 CGMIEDALQLFRGM-EKDSVSWAAMIKGLAQNGLAKEAIECFREMKVQGLKMDQYPFGSV 276

Query: 181 LTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWKNV 240
           L ACGGL A+ EGKQIHA IIR + +D+++VGSAL+DMYCKCK + YA++VF  M  KNV
Sbjct: 277 LPACGGLGAINEGKQIHACIIRTNFQDHIYVGSALIDMYCKCKCLHYAKTVFDRMKQKNV 336

Query: 241 VSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGR 300
           VSWTAM+VGYGQ G +EEAVKIF +MQR+GI+PD +TLG  IS+CAN++SLEEG+QFHG+
Sbjct: 337 VSWTAMVVGYGQTGRAEEAVKIFLDMQRSGIDPDHYTLGQAISACANVSSLEEGSQFHGK 396

Query: 301 SLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANET 360
           ++ +GLI ++TVSN+LVT YGKCG+I+DS RLFNEMNVRD VSWTA+VS YA+FG+A ET
Sbjct: 397 AITSGLIHYVTVSNSLVTLYGKCGDIDDSTRLFNEMNVRDAVSWTAMVSAYAQFGRAVET 456

Query: 361 IDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMID 420
           I LF+KM+ HGLKPD VTL GV+SACSRAGLVEKG+ YF++M  EYGI P   HY+CMID
Sbjct: 457 IQLFDKMVQHGLKPDGVTLTGVISACSRAGLVEKGQRYFKLMTSEYGIVPSIGHYSCMID 516

Query: 421 ILSRAGRLEEAKSFINKMPFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPAS 480
           + SR+GRLEEA  FIN MPFPPDAIGW TLLS+CR  GN+EIGKWAAESL+ELDP++PA 
Sbjct: 517 LFSRSGRLEEAMRFINGMPFPPDAIGWTTLLSACRNKGNLEIGKWAAESLIELDPHHPAG 576

Query: 481 YVLLSSIYASKGKWDHVSQLRRTMREKGVRKDPGCSWIKYKSRVHIFSADDWSSPYSDQI 540
           Y LLSSIYASKGKWD V+QLRR MREK V+K+PG SWIK+K ++H FSADD SSPY DQI
Sbjct: 577 YTLLSSIYASKGKWDSVAQLRRGMREKNVKKEPGQSWIKWKGKLHSFSADDESSPYLDQI 636

Query: 541 YAELEKLNRKMIKEGYVPDMSSVLHDVELSEKIKMLNHHSEKLAIAFGLLFIPPGLPIRV 600
           YA+LE+LN K+I  GY PD S V HDVE + K+KMLN+HSE+LAIAFGL+F+P G PIRV
Sbjct: 637 YAKLEELNNKIIDNGYKPDTSFVHHDVEEAVKVKMLNYHSERLAIAFGLIFVPSGQPIRV 696

Query: 601 VKNLRVCSDCHNATKYISKITQREILVRDAVRFHLFKNGECSCGDFW 647
            KNLRVC DCHNATK+IS +T REILVRDAVRFH FK+G CSCGDFW
Sbjct: 697 GKNLRVCVDCHNATKHISSVTGREILVRDAVRFHRFKDGTCSCGDFW 743

Arabidopsis thaliana (taxid: 3702)

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

 Score =  541 bits (1394), Expect = e-153,   Method: Compositional matrix adjust.
 Identities = 275/682 (40%), Positives = 426/682 (62%), Gaps = 36/682 (5%)

Query: 1   MPFHDGVSWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDL 60
           +P  D VSW  +I G+ + G  + A++V   M+K+G+   ++ T + +L   ++ RC++ 
Sbjct: 106 LPQRDSVSWTTMIVGYKNIGQYHKAIRVMGDMVKEGI-EPTQFTLTNVLASVAATRCMET 164

Query: 61  GRQIHGHILKFGFGSYVFVGSPLVDMYAKLGLIYDAKRGFDELPEKNIVMYNTMITGLLR 120
           G+++H  I+K G    V V + L++MYAK G    AK  FD +  ++I  +N MI   ++
Sbjct: 165 GKKVHSFIVKLGLRGNVSVSNSLLNMYAKCGDPMMAKFVFDRMVVRDISSWNAMIALHMQ 224

Query: 121 RGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLEREAIDLFREM-RLEGLAMDQFTFGS 179
            G ++ +   F  M ++D ++W +MI+G  Q G +  A+D+F +M R   L+ D+FT  S
Sbjct: 225 VGQMDLAMAQFEQMAERDIVTWNSMISGFNQRGYDLRALDIFSKMLRDSLLSPDRFTLAS 284

Query: 180 VLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIK------------- 226
           VL+AC  L  L  GKQIH+ I+      +  V +AL+ MY +C  ++             
Sbjct: 285 VLSACANLEKLCIGKQIHSHIVTTGFDISGIVLNALISMYSRCGGVETARRLIEQRGTKD 344

Query: 227 --------------------YAESVFRTMAWKNVVSWTAMLVGYGQNGCSEEAVKIFCNM 266
                                A+++F ++  ++VV+WTAM+VGY Q+G   EA+ +F +M
Sbjct: 345 LKIEGFTALLDGYIKLGDMNQAKNIFVSLKDRDVVAWTAMIVGYEQHGSYGEAINLFRSM 404

Query: 267 QRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNI 326
              G  P+ +TL +++S  ++LASL  G Q HG ++ +G I  ++VSNAL+T Y K GNI
Sbjct: 405 VGGGQRPNSYTLAAMLSVASSLASLSHGKQIHGSAVKSGEIYSVSVSNALITMYAKAGNI 464

Query: 327 EDSHRLFNEMNV-RDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSA 385
             + R F+ +   RD VSWT+++   A+ G A E ++LFE ML  GL+PD +T +GV SA
Sbjct: 465 TSASRAFDLIRCERDTVSWTSMIIALAQHGHAEEALELFETMLMEGLRPDHITYVGVFSA 524

Query: 386 CSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKMPFPPDAI 445
           C+ AGLV +GR YF++M     I P   HY CM+D+  RAG L+EA+ FI KMP  PD +
Sbjct: 525 CTHAGLVNQGRQYFDMMKDVDKIIPTLSHYACMVDLFGRAGLLQEAQEFIEKMPIEPDVV 584

Query: 446 GWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMR 505
            W +LLS+CR+H N+++GK AAE LL L+P N  +Y  L+++Y++ GKW+  +++R++M+
Sbjct: 585 TWGSLLSACRVHKNIDLGKVAAERLLLLEPENSGAYSALANLYSACGKWEEAAKIRKSMK 644

Query: 506 EKGVRKDPGCSWIKYKSRVHIFSADDWSSPYSDQIYAELEKLNRKMIKEGYVPDMSSVLH 565
           +  V+K+ G SWI+ K +VH+F  +D + P  ++IY  ++K+  ++ K GYVPD +SVLH
Sbjct: 645 DGRVKKEQGFSWIEVKHKVHVFGVEDGTHPEKNEIYMTMKKIWDEIKKMGYVPDTASVLH 704

Query: 566 DVELSEKIKMLNHHSEKLAIAFGLLFIPPGLPIRVVKNLRVCSDCHNATKYISKITQREI 625
           D+E   K ++L HHSEKLAIAFGL+  P    +R++KNLRVC+DCH A K+ISK+  REI
Sbjct: 705 DLEEEVKEQILRHHSEKLAIAFGLISTPDKTTLRIMKNLRVCNDCHTAIKFISKLVGREI 764

Query: 626 LVRDAVRFHLFKNGECSCGDFW 647
           +VRD  RFH FK+G CSC D+W
Sbjct: 765 IVRDTTRFHHFKDGFCSCRDYW 786

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FRI5|PPR57_ARATH Pentatricopeptide repeat-containing protein At1g25360 OS=Arabidopsis thaliana GN=PCMP-H74 PE=2 SV=1

 Score =  521 bits (1342), Expect = e-147,   Method: Compositional matrix adjust.
 Identities = 267/689 (38%), Positives = 407/689 (59%), Gaps = 56/689 (8%)

Query: 5   DGVSWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTML-----IMSSSRRCVD 59
           D V +N +I+G + +     A+ ++  M  +G       TF+++L     +    ++CV 
Sbjct: 112 DTVMYNAMITGFSHNNDGYSAINLFCKMKHEGF-KPDNFTFASVLAGLALVADDEKQCV- 169

Query: 60  LGRQIHGHILKFGFGSYVFVGSPLVDMYAKLG----LIYDAKRGFDELPEKNIVMYNTMI 115
              Q H   LK G G    V + LV +Y+K      L++ A++ FDE+ EK+   + TM+
Sbjct: 170 ---QFHAAALKSGAGYITSVSNALVSVYSKCASSPSLLHSARKVFDEILEKDERSWTTMM 226

Query: 116 TGLLRRGLVEESRRLFRGMKDK-DSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQ 174
           TG ++ G  +    L  GM D    +++  MI+G +  G  +EA+++ R M   G+ +D+
Sbjct: 227 TGYVKNGYFDLGEELLEGMDDNMKLVAYNAMISGYVNRGFYQEALEMVRRMVSSGIELDE 286

Query: 175 FTFGSVLTACGGLLALEEGKQIHAFIIRND----HKDNVFVGSALVDMYCKCKSIKYAES 230
           FT+ SV+ AC     L+ GKQ+HA+++R +    H DN     +LV +Y KC     A +
Sbjct: 287 FTYPSVIRACATAGLLQLGKQVHAYVLRREDFSFHFDN-----SLVSLYYKCGKFDEARA 341

Query: 231 VFRTMAWKNVVSWTAMLVGY-------------------------------GQNGCSEEA 259
           +F  M  K++VSW A+L GY                                +NG  EE 
Sbjct: 342 IFEKMPAKDLVSWNALLSGYVSSGHIGEAKLIFKEMKEKNILSWMIMISGLAENGFGEEG 401

Query: 260 VKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTF 319
           +K+F  M+R G EP D+     I SCA L +   G Q+H + L  G  S ++  NAL+T 
Sbjct: 402 LKLFSCMKREGFEPCDYAFSGAIKSCAVLGAYCNGQQYHAQLLKIGFDSSLSAGNALITM 461

Query: 320 YGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTL 379
           Y KCG +E++ ++F  M   D VSW AL++   + G   E +D++E+ML  G++PD +TL
Sbjct: 462 YAKCGVVEEARQVFRTMPCLDSVSWNALIAALGQHGHGAEAVDVYEEMLKKGIRPDRITL 521

Query: 380 IGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKMP 439
           + VL+ACS AGLV++GR YF+ M   Y I P  DHY  +ID+L R+G+  +A+S I  +P
Sbjct: 522 LTVLTACSHAGLVDQGRKYFDSMETVYRIPPGADHYARLIDLLCRSGKFSDAESVIESLP 581

Query: 440 FPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQ 499
           F P A  W  LLS CR+HGN+E+G  AA+ L  L P +  +Y+LLS+++A+ G+W+ V++
Sbjct: 582 FKPTAEIWEALLSGCRVHGNMELGIIAADKLFGLIPEHDGTYMLLSNMHAATGQWEEVAR 641

Query: 500 LRRTMREKGVRKDPGCSWIKYKSRVHIFSADDWSSPYSDQIYAELEKLNRKMIKEGYVPD 559
           +R+ MR++GV+K+  CSWI+ +++VH F  DD S P ++ +Y  L+ L ++M + GYVPD
Sbjct: 642 VRKLMRDRGVKKEVACSWIEMETQVHTFLVDDTSHPEAEAVYIYLQDLGKEMRRLGYVPD 701

Query: 560 MSSVLHDVELS-EKIKMLNHHSEKLAIAFGLLFIPPGLPIRVVKNLRVCSDCHNATKYIS 618
            S VLHDVE    K  ML  HSEK+A+AFGL+ +PPG  IR+ KNLR C DCHN  +++S
Sbjct: 702 TSFVLHDVESDGHKEDMLTTHSEKIAVAFGLMKLPPGTTIRIFKNLRTCGDCHNFFRFLS 761

Query: 619 KITQREILVRDAVRFHLFKNGECSCGDFW 647
            + QR+I++RD  RFH F+NGECSCG+FW
Sbjct: 762 WVVQRDIILRDRKRFHHFRNGECSCGNFW 790

Arabidopsis thaliana (taxid: 3702)

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

 Score =  509 bits (1312), Expect = e-143,   Method: Compositional matrix adjust.
 Identities = 255/641 (39%), Positives = 404/641 (63%), Gaps = 3/641 (0%)

Query: 9   WNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHI 68
           WN +  GHA       A+K+Y  M+  GL   S  TF  +L   +  +    G+QIHGH+
Sbjct: 102 WNTMFRGHALSSDPVSALKLYVCMISLGLLPNS-YTFPFVLKSCAKSKAFKEGQQIHGHV 160

Query: 69  LKFGFGSYVFVGSPLVDMYAKLGLIYDAKRGFDELPEKNIVMYNTMITGLLRRGLVEESR 128
           LK G    ++V + L+ MY + G + DA + FD+ P +++V Y  +I G   RG +E ++
Sbjct: 161 LKLGCDLDLYVHTSLISMYVQNGRLEDAHKVFDKSPHRDVVSYTALIKGYASRGYIENAQ 220

Query: 129 RLFRGMKDKDSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSVLTACGGLL 188
           +LF  +  KD +SW  MI+G  + G  +EA++LF++M    +  D+ T  +V++AC    
Sbjct: 221 KLFDEIPVKDVVSWNAMISGYAETGNYKEALELFKDMMKTNVRPDESTMVTVVSACAQSG 280

Query: 189 ALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWKNVVSWTAMLV 248
           ++E G+Q+H +I  +    N+ + +AL+D+Y KC  ++ A  +F  + +K+V+SW  ++ 
Sbjct: 281 SIELGRQVHLWIDDHGFGSNLKIVNALIDLYSKCGELETACGLFERLPYKDVISWNTLIG 340

Query: 249 GYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHG--RSLVTGL 306
           GY      +EA+ +F  M R+G  P+D T+ S++ +CA+L +++ G   H      + G+
Sbjct: 341 GYTHMNLYKEALLLFQEMLRSGETPNDVTMLSILPACAHLGAIDIGRWIHVYIDKRLKGV 400

Query: 307 ISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEK 366
            +  ++  +L+  Y KCG+IE +H++FN +  +   SW A++ G+A  G+A+ + DLF +
Sbjct: 401 TNASSLRTSLIDMYAKCGDIEAAHQVFNSILHKSLSSWNAMIFGFAMHGRADASFDLFSR 460

Query: 367 MLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAG 426
           M   G++PD++T +G+LSACS +G+++ GRH F  M ++Y + P  +HY CMID+L  +G
Sbjct: 461 MRKIGIQPDDITFVGLLSACSHSGMLDLGRHIFRTMTQDYKMTPKLEHYGCMIDLLGHSG 520

Query: 427 RLEEAKSFINKMPFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSS 486
             +EA+  IN M   PD + W +LL +C++HGNVE+G+  AE+L++++P NP SYVLLS+
Sbjct: 521 LFKEAEEMINMMEMEPDGVIWCSLLKACKMHGNVELGESFAENLIKIEPENPGSYVLLSN 580

Query: 487 IYASKGKWDHVSQLRRTMREKGVRKDPGCSWIKYKSRVHIFSADDWSSPYSDQIYAELEK 546
           IYAS G+W+ V++ R  + +KG++K PGCS I+  S VH F   D   P + +IY  LE+
Sbjct: 581 IYASAGRWNEVAKTRALLNDKGMKKVPGCSSIEIDSVVHEFIIGDKFHPRNREIYGMLEE 640

Query: 547 LNRKMIKEGYVPDMSSVLHDVELSEKIKMLNHHSEKLAIAFGLLFIPPGLPIRVVKNLRV 606
           +   + K G+VPD S VL ++E   K   L HHSEKLAIAFGL+   PG  + +VKNLRV
Sbjct: 641 MEVLLEKAGFVPDTSEVLQEMEEEWKEGALRHHSEKLAIAFGLISTKPGTKLTIVKNLRV 700

Query: 607 CSDCHNATKYISKITQREILVRDAVRFHLFKNGECSCGDFW 647
           C +CH ATK ISKI +REI+ RD  RFH F++G CSC D+W
Sbjct: 701 CRNCHEATKLISKIYKREIIARDRTRFHHFRDGVCSCNDYW 741

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 =  508 bits (1309), Expect = e-143,   Method: Compositional matrix adjust.
 Identities = 254/594 (42%), Positives = 374/594 (62%), Gaps = 7/594 (1%)

Query: 60  LGRQIHGHILKFGFGSYVFVGSPLVDMYAKL---GLIYDAKRGFDELPEKNIVMYNTMI- 115
            G  +HG I++ G    ++ G+ L++MYAKL   G        FDE+P++     +  + 
Sbjct: 123 FGESVHGFIVRLGMDCDLYTGNALMNMYAKLLGMGSKISVGNVFDEMPQRTSNSGDEDVK 182

Query: 116 --TGLLRRGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMD 173
             T ++  G ++  RR+F  M  KD +S+ T+I G  Q+G+  +A+ + REM    L  D
Sbjct: 183 AETCIMPFG-IDSVRRVFEVMPRKDVVSYNTIIAGYAQSGMYEDALRMVREMGTTDLKPD 241

Query: 174 QFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFR 233
            FT  SVL      + + +GK+IH ++IR     +V++GS+LVDMY K   I+ +E VF 
Sbjct: 242 SFTLSSVLPIFSEYVDVIKGKEIHGYVIRKGIDSDVYIGSSLVDMYAKSARIEDSERVFS 301

Query: 234 TMAWKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEE 293
            +  ++ +SW +++ GY QNG   EA+++F  M    ++P      SVI +CA+LA+L  
Sbjct: 302 RLYCRDGISWNSLVAGYVQNGRYNEALRLFRQMVTAKVKPGAVAFSSVIPACAHLATLHL 361

Query: 294 GTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAK 353
           G Q HG  L  G  S I +++ALV  Y KCGNI+ + ++F+ MNV DEVSWTA++ G+A 
Sbjct: 362 GKQLHGYVLRGGFGSNIFIASALVDMYSKCGNIKAARKIFDRMNVLDEVSWTAIIMGHAL 421

Query: 354 FGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHD 413
            G  +E + LFE+M   G+KP++V  + VL+ACS  GLV++   YF  M K YG+    +
Sbjct: 422 HGHGHEAVSLFEEMKRQGVKPNQVAFVAVLTACSHVGLVDEAWGYFNSMTKVYGLNQELE 481

Query: 414 HYTCMIDILSRAGRLEEAKSFINKMPFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLEL 473
           HY  + D+L RAG+LEEA +FI+KM   P    W+TLLSSC +H N+E+ +  AE +  +
Sbjct: 482 HYAAVADLLGRAGKLEEAYNFISKMCVEPTGSVWSTLLSSCSVHKNLELAEKVAEKIFTV 541

Query: 474 DPYNPASYVLLSSIYASKGKWDHVSQLRRTMREKGVRKDPGCSWIKYKSRVHIFSADDWS 533
           D  N  +YVL+ ++YAS G+W  +++LR  MR+KG+RK P CSWI+ K++ H F + D S
Sbjct: 542 DSENMGAYVLMCNMYASNGRWKEMAKLRLRMRKKGLRKKPACSWIEMKNKTHGFVSGDRS 601

Query: 534 SPYSDQIYAELEKLNRKMIKEGYVPDMSSVLHDVELSEKIKMLNHHSEKLAIAFGLLFIP 593
            P  D+I   L+ +  +M KEGYV D S VLHDV+   K ++L  HSE+LA+AFG++   
Sbjct: 602 HPSMDKINEFLKAVMEQMEKEGYVADTSGVLHDVDEEHKRELLFGHSERLAVAFGIINTE 661

Query: 594 PGLPIRVVKNLRVCSDCHNATKYISKITQREILVRDAVRFHLFKNGECSCGDFW 647
           PG  IRV KN+R+C+DCH A K+ISKIT+REI+VRD  RFH F  G CSCGD+W
Sbjct: 662 PGTTIRVTKNIRICTDCHVAIKFISKITEREIIVRDNSRFHHFNRGNCSCGDYW 715

Arabidopsis thaliana (taxid: 3702)

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

 Score =  508 bits (1308), Expect = e-143,   Method: Compositional matrix adjust.
 Identities = 257/647 (39%), Positives = 399/647 (61%), Gaps = 17/647 (2%)

Query: 1   MPFHDGVSWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDL 60
           MP  D  SWN ++SG+A +G V+DA  V++ M +      + ++++ +L        ++ 
Sbjct: 152 MPERDVCSWNTMLSGYAQNGCVDDARSVFDRMPEK-----NDVSWNALLSAYVQNSKMEE 206

Query: 61  GRQIHGHILKFGFGSYVFVGSPLVDMYAKLGLIYDAKRGFDELPEKNIVMYNTMITGLLR 120
              +      +   S+    + L+  + K   I +A++ FD +  +++V +NT+ITG  +
Sbjct: 207 ACMLFKSRENWALVSW----NCLLGGFVKKKKIVEARQFFDSMNVRDVVSWNTIITGYAQ 262

Query: 121 RGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSV 180
            G ++E+R+LF     +D  +WT M++G +QN +  EA +LF +M       ++ ++ ++
Sbjct: 263 SGKIDEARQLFDESPVQDVFTWTAMVSGYIQNRMVEEARELFDKMP----ERNEVSWNAM 318

Query: 181 LTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWKNV 240
           L        +E  K++   +       NV   + ++  Y +C  I  A+++F  M  ++ 
Sbjct: 319 LAGYVQGERMEMAKELFDVMPCR----NVSTWNTMITGYAQCGKISEAKNLFDKMPKRDP 374

Query: 241 VSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGR 300
           VSW AM+ GY Q+G S EA+++F  M+R G   +  +  S +S+CA++ +LE G Q HGR
Sbjct: 375 VSWAAMIAGYSQSGHSFEALRLFVQMEREGGRLNRSSFSSALSTCADVVALELGKQLHGR 434

Query: 301 SLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANET 360
            +  G  +   V NAL+  Y KCG+IE+++ LF EM  +D VSW  +++GY++ G     
Sbjct: 435 LVKGGYETGCFVGNALLLMYCKCGSIEEANDLFKEMAGKDIVSWNTMIAGYSRHGFGEVA 494

Query: 361 IDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMID 420
           +  FE M   GLKPD+ T++ VLSACS  GLV+KGR YF  M ++YG+ P   HY CM+D
Sbjct: 495 LRFFESMKREGLKPDDATMVAVLSACSHTGLVDKGRQYFYTMTQDYGVMPNSQHYACMVD 554

Query: 421 ILSRAGRLEEAKSFINKMPFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPAS 480
           +L RAG LE+A + +  MPF PDA  W TLL + R+HGN E+ + AA+ +  ++P N   
Sbjct: 555 LLGRAGLLEDAHNLMKNMPFEPDAAIWGTLLGASRVHGNTELAETAADKIFAMEPENSGM 614

Query: 481 YVLLSSIYASKGKWDHVSQLRRTMREKGVRKDPGCSWIKYKSRVHIFSADDWSSPYSDQI 540
           YVLLS++YAS G+W  V +LR  MR+KGV+K PG SWI+ +++ H FS  D   P  D+I
Sbjct: 615 YVLLSNLYASSGRWGDVGKLRVRMRDKGVKKVPGYSWIEIQNKTHTFSVGDEFHPEKDEI 674

Query: 541 YAELEKLNRKMIKEGYVPDMSSVLHDVELSEKIKMLNHHSEKLAIAFGLLFIPPGLPIRV 600
           +A LE+L+ +M K GYV   S VLHDVE  EK +M+ +HSE+LA+A+G++ +  G PIRV
Sbjct: 675 FAFLEELDLRMKKAGYVSKTSVVLHDVEEEEKERMVRYHSERLAVAYGIMRVSSGRPIRV 734

Query: 601 VKNLRVCSDCHNATKYISKITQREILVRDAVRFHLFKNGECSCGDFW 647
           +KNLRVC DCHNA KY+++IT R I++RD  RFH FK+G CSCGD+W
Sbjct: 735 IKNLRVCEDCHNAIKYMARITGRLIILRDNNRFHHFKDGSCSCGDYW 781

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SVP7|PP307_ARATH Pentatricopeptide repeat-containing protein At4g13650 OS=Arabidopsis thaliana GN=PCMP-H42 PE=2 SV=2

 Score =  504 bits (1298), Expect = e-142,   Method: Compositional matrix adjust.
 Identities = 255/642 (39%), Positives = 398/642 (61%), Gaps = 34/642 (5%)

Query: 7    VSWNLLISGHASHGSVNDAVKVYNLM-LKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIH 65
            V WN+++  +     + ++ +++  M +++ + N  + T+ ++L        ++LG QIH
Sbjct: 456  VLWNVMLVAYGLLDDLRNSFRIFRQMQIEEIVPN--QYTYPSILKTCIRLGDLELGEQIH 513

Query: 66   GHILKFGFGSYVFVGSPLVDMYAKLGLIYDAKRGFDELPEKNIVMYNTMITGLLRRGLVE 125
              I+K  F    +V S L+DMYAKLG +                  +T    L+R     
Sbjct: 514  SQIIKTNFQLNAYVCSVLIDMYAKLGKL------------------DTAWDILIR----- 550

Query: 126  ESRRLFRGMKDKDSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSVLTACG 185
                 F G   KD +SWTTMI G  Q   + +A+  FR+M   G+  D+    + ++AC 
Sbjct: 551  -----FAG---KDVVSWTTMIAGYTQYNFDDKALTTFRQMLDRGIRSDEVGLTNAVSACA 602

Query: 186  GLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWKNVVSWTA 245
            GL AL+EG+QIHA    +    ++   +ALV +Y +C  I+ +   F      + ++W A
Sbjct: 603  GLQALKEGQQIHAQACVSGFSSDLPFQNALVTLYSRCGKIEESYLAFEQTEAGDNIAWNA 662

Query: 246  MLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTG 305
            ++ G+ Q+G +EEA+++F  M R GI+ ++FT GS + + +  A++++G Q H     TG
Sbjct: 663  LVSGFQQSGNNEEALRVFVRMNREGIDNNNFTFGSAVKAASETANMKQGKQVHAVITKTG 722

Query: 306  LISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFE 365
              S   V NAL++ Y KCG+I D+ + F E++ ++EVSW A+++ Y+K G  +E +D F+
Sbjct: 723  YDSETEVCNALISMYAKCGSISDAEKQFLEVSTKNEVSWNAIINAYSKHGFGSEALDSFD 782

Query: 366  KMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRA 425
            +M+   ++P+ VTL+GVLSACS  GLV+KG  YFE M  EYG+ P  +HY C++D+L+RA
Sbjct: 783  QMIHSNVRPNHVTLVGVLSACSHIGLVDKGIAYFESMNSEYGLSPKPEHYVCVVDMLTRA 842

Query: 426  GRLEEAKSFINKMPFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLS 485
            G L  AK FI +MP  PDA+ W TLLS+C +H N+EIG++AA  LLEL+P + A+YVLLS
Sbjct: 843  GLLSRAKEFIQEMPIKPDALVWRTLLSACVVHKNMEIGEFAAHHLLELEPEDSATYVLLS 902

Query: 486  SIYASKGKWDHVSQLRRTMREKGVRKDPGCSWIKYKSRVHIFSADDWSSPYSDQIYAELE 545
            ++YA   KWD     R+ M+EKGV+K+PG SWI+ K+ +H F   D + P +D+I+   +
Sbjct: 903  NLYAVSKKWDARDLTRQKMKEKGVKKEPGQSWIEVKNSIHSFYVGDQNHPLADEIHEYFQ 962

Query: 546  KLNRKMIKEGYVPDMSSVLHDVELSEKIKMLNHHSEKLAIAFGLLFIPPGLPIRVVKNLR 605
             L ++  + GYV D  S+L++++  +K  ++  HSEKLAI+FGLL +P  +PI V+KNLR
Sbjct: 963  DLTKRASEIGYVQDCFSLLNELQHEQKDPIIFIHSEKLAISFGLLSLPATVPINVMKNLR 1022

Query: 606  VCSDCHNATKYISKITQREILVRDAVRFHLFKNGECSCGDFW 647
            VC+DCH   K++SK++ REI+VRDA RFH F+ G CSC D+W
Sbjct: 1023 VCNDCHAWIKFVSKVSNREIIVRDAYRFHHFEGGACSCKDYW 1064

Arabidopsis thaliana (taxid: 3702)

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

 Score =  500 bits (1287), Expect = e-140,   Method: Compositional matrix adjust.
 Identities = 254/643 (39%), Positives = 404/643 (62%), Gaps = 37/643 (5%)

Query: 7   VSWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHG 66
           V+WN +ISG+A++G   +A+ ++  M  + +  LS  +F++++ + ++ + +    Q+H 
Sbjct: 261 VTWNSMISGYAANGLDLEALGMFYSMRLNYV-RLSESSFASVIKLCANLKELRFTEQLHC 319

Query: 67  HILKFGFGSYVFVGSPLVDMYAKLGLIYDAKRGFDELPEKNIVMYNTMITGLLRRGLVEE 126
            ++K+GF     + + L+  Y+K   + DA R F E+                  G V  
Sbjct: 320 SVVKYGFLFDQNIRTALMVAYSKCTAMLDALRLFKEI------------------GCV-- 359

Query: 127 SRRLFRGMKDKDSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSVLTACGG 186
                      + +SWT MI+G +QN  + EA+DLF EM+ +G+  ++FT+  +LTA   
Sbjct: 360 ----------GNVVSWTAMISGFLQNDGKEEAVDLFSEMKRKGVRPNEFTYSVILTA--- 406

Query: 187 LLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWKNVVSWTAM 246
            L +    ++HA +++ +++ +  VG+AL+D Y K   ++ A  VF  +  K++V+W+AM
Sbjct: 407 -LPVISPSEVHAQVVKTNYERSSTVGTALLDAYVKLGKVEEAAKVFSGIDDKDIVAWSAM 465

Query: 247 LVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANL-ASLEEGTQFHGRSLVTG 305
           L GY Q G +E A+K+F  + + GI+P++FT  S+++ CA   AS+ +G QFHG ++ + 
Sbjct: 466 LAGYAQTGETEAAIKMFGELTKGGIKPNEFTFSSILNVCAATNASMGQGKQFHGFAIKSR 525

Query: 306 LISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFE 365
           L S + VS+AL+T Y K GNIE +  +F     +D VSW +++SGYA+ G+A + +D+F+
Sbjct: 526 LDSSLCVSSALLTMYAKKGNIESAEEVFKRQREKDLVSWNSMISGYAQHGQAMKALDVFK 585

Query: 366 KMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRA 425
           +M    +K D VT IGV +AC+ AGLVE+G  YF+IMV++  I P  +H +CM+D+ SRA
Sbjct: 586 EMKKRKVKMDGVTFIGVFAACTHAGLVEEGEKYFDIMVRDCKIAPTKEHNSCMVDLYSRA 645

Query: 426 GRLEEAKSFINKMPFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLS 485
           G+LE+A   I  MP P  +  W T+L++CR+H   E+G+ AAE ++ + P + A+YVLLS
Sbjct: 646 GQLEKAMKVIENMPNPAGSTIWRTILAACRVHKKTELGRLAAEKIIAMKPEDSAAYVLLS 705

Query: 486 SIYASKGKWDHVSQLRRTMREKGVRKDPGCSWIKYKSRVHIFSADDWSSPYSDQIYAELE 545
           ++YA  G W   +++R+ M E+ V+K+PG SWI+ K++ + F A D S P  DQIY +LE
Sbjct: 706 NMYAESGDWQERAKVRKLMNERNVKKEPGYSWIEVKNKTYSFLAGDRSHPLKDQIYMKLE 765

Query: 546 KLNRKMIKEGYVPDMSSVLHDVELSEKIKMLNHHSEKLAIAFGLLFIPPGLPIRVVKNLR 605
            L+ ++   GY PD S VL D++   K  +L  HSE+LAIAFGL+  P G P+ ++KNLR
Sbjct: 766 DLSTRLKDLGYEPDTSYVLQDIDDEHKEAVLAQHSERLAIAFGLIATPKGSPLLIIKNLR 825

Query: 606 VCSDCHNATKYISKITQREILVRDAVRFHLF-KNGECSCGDFW 647
           VC DCH   K I+KI +REI+VRD+ RFH F  +G CSCGDFW
Sbjct: 826 VCGDCHLVIKLIAKIEEREIVVRDSNRFHHFSSDGVCSCGDFW 868

Arabidopsis thaliana (taxid: 3702)

>sp|O23169|PP353_ARATH Pentatricopeptide repeat-containing protein At4g37170 OS=Arabidopsis thaliana GN=PCMP-H5 PE=3 SV=1

 Score =  498 bits (1283), Expect = e-140,   Method: Compositional matrix adjust.
 Identities = 245/605 (40%), Positives = 377/605 (62%), Gaps = 1/605 (0%)

Query: 44  TFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGSPLVDMYAKLGLIYDAKRGFDEL 103
           T+  ++ + S  R ++ G+++H HI   GF   + + + L+ MYAK G + DA++ FDE+
Sbjct: 87  TYCNLIQVCSQTRALEEGKKVHEHIRTSGFVPGIVIWNRLLRMYAKCGSLVDARKVFDEM 146

Query: 104 PEKNIVMYNTMITGLLRRGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLEREAIDLFR 163
           P +++  +N M+ G    GL+EE+R+LF  M +KDS SWT M+TG ++     EA+ L+ 
Sbjct: 147 PNRDLCSWNVMVNGYAEVGLLEEARKLFDEMTEKDSYSWTAMVTGYVKKDQPEEALVLYS 206

Query: 164 EM-RLEGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKC 222
            M R+     + FT    + A   +  +  GK+IH  I+R     +  + S+L+DMY KC
Sbjct: 207 LMQRVPNSRPNIFTVSIAVAAAAAVKCIRRGKEIHGHIVRAGLDSDEVLWSSLMDMYGKC 266

Query: 223 KSIKYAESVFRTMAWKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVI 282
             I  A ++F  +  K+VVSWT+M+  Y ++    E   +F  +  +   P+++T   V+
Sbjct: 267 GCIDEARNIFDKIVEKDVVSWTSMIDRYFKSSRWREGFSLFSELVGSCERPNEYTFAGVL 326

Query: 283 SSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEV 342
           ++CA+L + E G Q HG     G   +   S++LV  Y KCGNIE +  + +     D V
Sbjct: 327 NACADLTTEELGKQVHGYMTRVGFDPYSFASSSLVDMYTKCGNIESAKHVVDGCPKPDLV 386

Query: 343 SWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIM 402
           SWT+L+ G A+ G+ +E +  F+ +L  G KPD VT + VLSAC+ AGLVEKG  +F  +
Sbjct: 387 SWTSLIGGCAQNGQPDEALKYFDLLLKSGTKPDHVTFVNVLSACTHAGLVEKGLEFFYSI 446

Query: 403 VKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKMPFPPDAIGWATLLSSCRIHGNVEI 462
            +++ +    DHYTC++D+L+R+GR E+ KS I++MP  P    WA++L  C  +GN+++
Sbjct: 447 TEKHRLSHTSDHYTCLVDLLARSGRFEQLKSVISEMPMKPSKFLWASVLGGCSTYGNIDL 506

Query: 463 GKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREKGVRKDPGCSWIKYKS 522
            + AA+ L +++P NP +YV +++IYA+ GKW+   ++R+ M+E GV K PG SW + K 
Sbjct: 507 AEEAAQELFKIEPENPVTYVTMANIYAAAGKWEEEGKMRKRMQEIGVTKRPGSSWTEIKR 566

Query: 523 RVHIFSADDWSSPYSDQIYAELEKLNRKMIKEGYVPDMSSVLHDVELSEKIKMLNHHSEK 582
           + H+F A D S P  +QI   L +L +KM +EGYVP  S VLHDVE  +K + L +HSEK
Sbjct: 567 KRHVFIAADTSHPMYNQIVEFLRELRKKMKEEGYVPATSLVLHDVEDEQKEENLVYHSEK 626

Query: 583 LAIAFGLLFIPPGLPIRVVKNLRVCSDCHNATKYISKITQREILVRDAVRFHLFKNGECS 642
           LA+AF +L    G  I+V KNLR C DCH A K+IS IT+R+I VRD+ RFH F+NG+CS
Sbjct: 627 LAVAFAILSTEEGTAIKVFKNLRSCVDCHGAIKFISNITKRKITVRDSTRFHCFENGQCS 686

Query: 643 CGDFW 647
           CGD+W
Sbjct: 687 CGDYW 691

Arabidopsis thaliana (taxid: 3702)

>sp|Q8S9M4|PP198_ARATH Pentatricopeptide repeat-containing protein At2g41080 OS=Arabidopsis thaliana GN=PCMP-H29 PE=2 SV=2

 Score =  493 bits (1268), Expect = e-138,   Method: Compositional matrix adjust.
 Identities = 247/636 (38%), Positives = 393/636 (61%), Gaps = 6/636 (0%)

Query: 13  ISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFG 72
           I+   S G++ +A + + L +     N S   F+  +   ++R+ +  G+Q+H  ++  G
Sbjct: 20  IATLCSKGNLREAFQRFRLNI---FTNTS--LFTPFIQSCTTRQSLPSGKQLHCLLVVSG 74

Query: 73  FGSYVFVGSPLVDMYAKLGLIYDAKRGFDELPEKNIVMYNTMITGLLRRGLVEESRRLFR 132
           F S  F+ + L+ MY+KLG    A   +  + +KN +  N +I G +R G +  +R++F 
Sbjct: 75  FSSDKFICNHLMSMYSKLGDFPSAVAVYGRMRKKNYMSSNILINGYVRAGDLVNARKVFD 134

Query: 133 GMKDKDSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSVLTACGGLLALEE 192
            M D+   +W  MI GL+Q     E + LFREM   G + D++T GSV +   GL ++  
Sbjct: 135 EMPDRKLTTWNAMIAGLIQFEFNEEGLSLFREMHGLGFSPDEYTLGSVFSGSAGLRSVSI 194

Query: 193 GKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWKNVVSWTAMLVGYGQ 252
           G+QIH + I+   + ++ V S+L  MY +   ++  E V R+M  +N+V+W  +++G  Q
Sbjct: 195 GQQIHGYTIKYGLELDLVVNSSLAHMYMRNGKLQDGEIVIRSMPVRNLVAWNTLIMGNAQ 254

Query: 253 NGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITV 312
           NGC E  + ++  M+ +G  P+  T  +V+SSC++LA   +G Q H  ++  G  S + V
Sbjct: 255 NGCPETVLYLYKMMKISGCRPNKITFVTVLSSCSDLAIRGQGQQIHAEAIKIGASSVVAV 314

Query: 313 SNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEKMLSH-G 371
            ++L++ Y KCG + D+ + F+E    DEV W++++S Y   G+ +E I+LF  M     
Sbjct: 315 VSSLISMYSKCGCLGDAAKAFSEREDEDEVMWSSMISAYGFHGQGDEAIELFNTMAEQTN 374

Query: 372 LKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEA 431
           ++ +EV  + +L ACS +GL +KG   F++MV++YG +P   HYTC++D+L RAG L++A
Sbjct: 375 MEINEVAFLNLLYACSHSGLKDKGLELFDMMVEKYGFKPGLKHYTCVVDLLGRAGCLDQA 434

Query: 432 KSFINKMPFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASK 491
           ++ I  MP   D + W TLLS+C IH N E+ +   + +L++DP + A YVLL++++AS 
Sbjct: 435 EAIIRSMPIKTDIVIWKTLLSACNIHKNAEMAQRVFKEILQIDPNDSACYVLLANVHASA 494

Query: 492 GKWDHVSQLRRTMREKGVRKDPGCSWIKYKSRVHIFSADDWSSPYSDQIYAELEKLNRKM 551
            +W  VS++R++MR+K V+K+ G SW ++K  VH F   D S   S +IY+ L++L  +M
Sbjct: 495 KRWRDVSEVRKSMRDKNVKKEAGISWFEHKGEVHQFKMGDRSQSKSKEIYSYLKELTLEM 554

Query: 552 IKEGYVPDMSSVLHDVELSEKIKMLNHHSEKLAIAFGLLFIPPGLPIRVVKNLRVCSDCH 611
             +GY PD +SVLHD++  EK   L  HSEKLA+AF L+ +P G PIR++KNLRVCSDCH
Sbjct: 555 KLKGYKPDTASVLHDMDEEEKESDLVQHSEKLAVAFALMILPEGAPIRIIKNLRVCSDCH 614

Query: 612 NATKYISKITQREILVRDAVRFHLFKNGECSCGDFW 647
            A KYIS I  REI +RD  RFH F NG+CSCGD+W
Sbjct: 615 VAFKYISVIKNREITLRDGSRFHHFINGKCSCGDYW 650

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	647
225425015	743	PREDICTED: putative pentatricopeptide re	0.939	0.818	0.802	0.0
224108621	743	predicted protein [Populus trichocarpa]	1.0	0.870	0.791	0.0
357516843	748	Pentatricopeptide repeat-containing prot	1.0	0.864	0.773	0.0
356545843	747	PREDICTED: putative pentatricopeptide re	0.936	0.811	0.769	0.0
449435276	743	PREDICTED: putative pentatricopeptide re	0.939	0.818	0.769	0.0
242062548	745	hypothetical protein SORBIDRAFT_04g02818	1.0	0.868	0.679	0.0
115443695	751	Os02g0106300 [Oryza sativa Japonica Grou	0.938	0.808	0.667	0.0
125537719	751	hypothetical protein OsI_05496 [Oryza sa	0.938	0.808	0.664	0.0
308080264	745	uncharacterized protein LOC100502275 [Ze	1.0	0.868	0.671	0.0
15221566	743	pentatricopeptide repeat-containing prot	0.998	0.869	0.667	0.0

>gi|225425015|ref|XP_002267613.1| PREDICTED: putative pentatricopeptide repeat-containing protein At1g68930 [Vitis vinifera] gi|297738214|emb|CBI27415.3| unnamed protein product [Vitis vinifera]

 Score = 1096 bits (2835), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 519/647 (80%), Positives = 583/647 (90%)

Query: 1   MPFHDGVSWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDL 60
           MPF DGVSWNL ISG+A++GS +DAV+VY LMLKD   NL+RITFSTMLI+ S  RCVDL
Sbjct: 97  MPFRDGVSWNLAISGYANYGSCSDAVRVYKLMLKDAAMNLNRITFSTMLILCSKFRCVDL 156

Query: 61  GRQIHGHILKFGFGSYVFVGSPLVDMYAKLGLIYDAKRGFDELPEKNIVMYNTMITGLLR 120
           GRQI+G ILKFGFGS VFVGSPLVDMY KLGLIYDAKR FDE+PE+N+VM NTMITGL+R
Sbjct: 157 GRQINGQILKFGFGSDVFVGSPLVDMYTKLGLIYDAKRYFDEMPERNVVMCNTMITGLMR 216

Query: 121 RGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSV 180
            G++EES+RLF G+K++DSISWT MITGLMQNGLEREA+D+FREMRL G AMDQFTFGSV
Sbjct: 217 CGMIEESQRLFCGLKERDSISWTIMITGLMQNGLEREALDMFREMRLAGFAMDQFTFGSV 276

Query: 181 LTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWKNV 240
           LTACG LLAL EGKQIHA++IR DHKDNVFVGSALVDMY KC+SIK AE+VF+ M  KNV
Sbjct: 277 LTACGSLLALGEGKQIHAYVIRTDHKDNVFVGSALVDMYSKCRSIKSAETVFKRMPQKNV 336

Query: 241 VSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGR 300
           +SWTAMLVGYGQNG SEEAVKIF  MQRNG+EPDDFTLGSVISSCANLASLEEG QFH R
Sbjct: 337 ISWTAMLVGYGQNGFSEEAVKIFFEMQRNGVEPDDFTLGSVISSCANLASLEEGAQFHCR 396

Query: 301 SLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANET 360
           +LV+GLISFITVSNAL+T YGKCG+ E+SHRLF EMN+RDEVSWTAL++GYA+FGKANET
Sbjct: 397 ALVSGLISFITVSNALITLYGKCGSTENSHRLFTEMNIRDEVSWTALLAGYAQFGKANET 456

Query: 361 IDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMID 420
           I LFE+ML+HGLKPD VT IGVLSACSRAGLVEKG  YFE M+KE+GI PI DH TC+ID
Sbjct: 457 IGLFERMLAHGLKPDGVTFIGVLSACSRAGLVEKGLQYFESMIKEHGIMPIVDHCTCIID 516

Query: 421 ILSRAGRLEEAKSFINKMPFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPAS 480
           +L RAGRLEEA++FIN MP  PD +GWATLLSSCR+HG++EIGKWAA+SL+ L+P NPAS
Sbjct: 517 LLGRAGRLEEARNFINNMPCHPDVVGWATLLSSCRVHGDMEIGKWAADSLIALEPQNPAS 576

Query: 481 YVLLSSIYASKGKWDHVSQLRRTMREKGVRKDPGCSWIKYKSRVHIFSADDWSSPYSDQI 540
           YVLLSS+YASKGKWD V+QLRR MR+K VRK+PG SWIKYK +VH+FSADD SSP+  QI
Sbjct: 577 YVLLSSLYASKGKWDKVAQLRRGMRDKRVRKEPGYSWIKYKGKVHVFSADDQSSPFLGQI 636

Query: 541 YAELEKLNRKMIKEGYVPDMSSVLHDVELSEKIKMLNHHSEKLAIAFGLLFIPPGLPIRV 600
           YAELEKLN KMI+EGYVPDMSSVLHDVE SEKIKMLNHHSEKLAIAFGL+F+PPGLPIRV
Sbjct: 637 YAELEKLNYKMIEEGYVPDMSSVLHDVEESEKIKMLNHHSEKLAIAFGLIFVPPGLPIRV 696

Query: 601 VKNLRVCSDCHNATKYISKITQREILVRDAVRFHLFKNGECSCGDFW 647
           +KNLRVC DCHNATK+ISKITQREILVRDAVRFHLFK+G CSCGDFW
Sbjct: 697 IKNLRVCGDCHNATKFISKITQREILVRDAVRFHLFKDGTCSCGDFW 743

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224108621|ref|XP_002314911.1| predicted protein [Populus trichocarpa] gi|222863951|gb|EEF01082.1| predicted protein [Populus trichocarpa]

 Score = 1087 bits (2810), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 512/647 (79%), Positives = 585/647 (90%)

Query: 1   MPFHDGVSWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDL 60
           MP  DGVSWN LISG+  +GSV +AVK YN M+KDG+ NL+RITFSTML++ SS+ CVDL
Sbjct: 97  MPNRDGVSWNSLISGYVCYGSVVEAVKTYNSMMKDGVLNLNRITFSTMLLLVSSQGCVDL 156

Query: 61  GRQIHGHILKFGFGSYVFVGSPLVDMYAKLGLIYDAKRGFDELPEKNIVMYNTMITGLLR 120
           GRQIHG I+KFGFG+YVFVGS LVDMYAK+GL+  A + FDE+ E+N+VMYNTMITGLLR
Sbjct: 157 GRQIHGQIVKFGFGAYVFVGSSLVDMYAKMGLVSVASQVFDEVQERNVVMYNTMITGLLR 216

Query: 121 RGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSV 180
            G+V++S+RLF GMK++DSISWTTMITGL+QNGLE EA+DLFR+MR EG+AMDQ+TFGSV
Sbjct: 217 SGMVKDSKRLFHGMKERDSISWTTMITGLIQNGLEAEAMDLFRDMRQEGMAMDQYTFGSV 276

Query: 181 LTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWKNV 240
           LTACGGL AL+EGK+IH  IIR+ +  NVFVGSALVDMYCKC+S++YAE+VF+ MA KNV
Sbjct: 277 LTACGGLRALKEGKEIHTLIIRSGYNHNVFVGSALVDMYCKCRSVRYAEAVFKRMANKNV 336

Query: 241 VSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGR 300
           VSWTAMLVGYGQNG SEEAV++FC+MQRNGIEPDDFTLGSVISSCANLASLEEG QFH +
Sbjct: 337 VSWTAMLVGYGQNGFSEEAVRVFCDMQRNGIEPDDFTLGSVISSCANLASLEEGAQFHCQ 396

Query: 301 SLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANET 360
           +LV+GLISFITVSNAL+T YGKCG+IEDS++LF+EM+ RDEVSWTALVSGYA+FGKANET
Sbjct: 397 ALVSGLISFITVSNALITLYGKCGSIEDSNQLFDEMSFRDEVSWTALVSGYAQFGKANET 456

Query: 361 IDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMID 420
           IDLFE+ML  GLKPD VT I VLSACSRAGLVE+G+ YFE M+K++GI P  DHYTCMID
Sbjct: 457 IDLFERMLVQGLKPDAVTFIAVLSACSRAGLVERGQQYFESMLKDHGIIPFSDHYTCMID 516

Query: 421 ILSRAGRLEEAKSFINKMPFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPAS 480
           +  RAGRLEEAK+FINKMPF PD+IGWATLLSSCR++GN EIGKWAAESLLELDP NPA 
Sbjct: 517 LFGRAGRLEEAKNFINKMPFSPDSIGWATLLSSCRLYGNEEIGKWAAESLLELDPQNPAG 576

Query: 481 YVLLSSIYASKGKWDHVSQLRRTMREKGVRKDPGCSWIKYKSRVHIFSADDWSSPYSDQI 540
           Y+LLSSIYA+KGKW +V+QLRR MREKG RK+PG SWIKYKS+V+IFSADD SSP+SDQI
Sbjct: 577 YILLSSIYAAKGKWSNVAQLRRGMREKGARKEPGFSWIKYKSKVYIFSADDQSSPFSDQI 636

Query: 541 YAELEKLNRKMIKEGYVPDMSSVLHDVELSEKIKMLNHHSEKLAIAFGLLFIPPGLPIRV 600
           YAELEKLN KMI+EGYVPD SSVLHDVE SEK+KMLNHHSEKLAIAFGLLFIP GLPIRV
Sbjct: 637 YAELEKLNHKMIEEGYVPDASSVLHDVEDSEKMKMLNHHSEKLAIAFGLLFIPHGLPIRV 696

Query: 601 VKNLRVCSDCHNATKYISKITQREILVRDAVRFHLFKNGECSCGDFW 647
           VKNLRVC DCHNATKYISKI+QREILVRDAVRFHLFK+G CSCGDFW
Sbjct: 697 VKNLRVCGDCHNATKYISKISQREILVRDAVRFHLFKDGTCSCGDFW 743

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357516843|ref|XP_003628710.1| Pentatricopeptide repeat-containing protein [Medicago truncatula] gi|355522732|gb|AET03186.1| Pentatricopeptide repeat-containing protein [Medicago truncatula]

 Score = 1066 bits (2758), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 501/648 (77%), Positives = 579/648 (89%), Gaps = 1/648 (0%)

Query: 1   MPFHDGVSWNLLISGHASHGSVNDAVKVYNLMLK-DGLGNLSRITFSTMLIMSSSRRCVD 59
           MP  DGVSWN LISG+A  G +  +VK YNLMLK DG  NL+RITFST+LI++S R CV 
Sbjct: 101 MPRRDGVSWNSLISGYAGCGLIYQSVKAYNLMLKNDGSFNLNRITFSTLLILASKRGCVK 160

Query: 60  LGRQIHGHILKFGFGSYVFVGSPLVDMYAKLGLIYDAKRGFDELPEKNIVMYNTMITGLL 119
           LGRQIHGH++KFGF SYVFVGSPLVDMY+K+G+I  A++ FDELPEKN+VMYNT+I GL+
Sbjct: 161 LGRQIHGHVVKFGFMSYVFVGSPLVDMYSKMGMISCARKVFDELPEKNVVMYNTLIMGLM 220

Query: 120 RRGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGS 179
           R G VE+S+RLF  M+++DSISWT+MITG  QNGL+R+AID+FREM+LE L MDQ+TFGS
Sbjct: 221 RCGRVEDSKRLFFEMRERDSISWTSMITGFTQNGLDRDAIDIFREMKLENLQMDQYTFGS 280

Query: 180 VLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWKN 239
           VLTACGG++AL+EGKQ+HA+IIR D+KDN+FV SALVDMYCKCK+IK AE+VF+ M  KN
Sbjct: 281 VLTACGGVMALQEGKQVHAYIIRTDYKDNIFVASALVDMYCKCKNIKSAEAVFKKMTCKN 340

Query: 240 VVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHG 299
           VVSWTAMLVGYGQNG SEEAVK F +MQ+ GIEPDDFTLGSVISSCANLASLEEG QFH 
Sbjct: 341 VVSWTAMLVGYGQNGYSEEAVKTFSDMQKYGIEPDDFTLGSVISSCANLASLEEGAQFHA 400

Query: 300 RSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANE 359
           R+L +GLISFITVSNALVT YGKCG+IEDSHRLFNE++ +DEV+WTALVSGYA+FGKANE
Sbjct: 401 RALTSGLISFITVSNALVTLYGKCGSIEDSHRLFNEISFKDEVTWTALVSGYAQFGKANE 460

Query: 360 TIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMI 419
           TI LFE ML+HGLKPD+VT IGVLSACSRAGLVEKG   FE M+ E+GI PI DHYTCMI
Sbjct: 461 TIGLFESMLAHGLKPDKVTFIGVLSACSRAGLVEKGNQIFESMINEHGIVPIQDHYTCMI 520

Query: 420 DILSRAGRLEEAKSFINKMPFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPA 479
           D+ SRAGR+EEA++FINKMPF PDAI WATLLSSCR +GN++IGKWAAE L+ELDP+N A
Sbjct: 521 DLFSRAGRIEEARNFINKMPFSPDAISWATLLSSCRFYGNMDIGKWAAEFLMELDPHNTA 580

Query: 480 SYVLLSSIYASKGKWDHVSQLRRTMREKGVRKDPGCSWIKYKSRVHIFSADDWSSPYSDQ 539
           SYVLLSS+YA+KGKW+ V++LR+ MR+KG+RK+PGCSWIKYK++VH+FSADD S+P+SDQ
Sbjct: 581 SYVLLSSVYAAKGKWEEVARLRKDMRDKGLRKEPGCSWIKYKNQVHVFSADDKSNPFSDQ 640

Query: 540 IYAELEKLNRKMIKEGYVPDMSSVLHDVELSEKIKMLNHHSEKLAIAFGLLFIPPGLPIR 599
           IY+ELEKLN KMIKEGYVPDM+SVLHDV  SEKIKMLNHHSEKLAIAFGLLFIPPGLPIR
Sbjct: 641 IYSELEKLNYKMIKEGYVPDMNSVLHDVGDSEKIKMLNHHSEKLAIAFGLLFIPPGLPIR 700

Query: 600 VVKNLRVCSDCHNATKYISKITQREILVRDAVRFHLFKNGECSCGDFW 647
           VVKNLRVCSDCHNATKYISKIT REILVRD  RFHLFK+G CSCGDFW
Sbjct: 701 VVKNLRVCSDCHNATKYISKITNREILVRDTARFHLFKDGTCSCGDFW 748

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356545843|ref|XP_003541343.1| PREDICTED: putative pentatricopeptide repeat-containing protein At1g68930-like [Glycine max]

 Score = 1063 bits (2750), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 498/647 (76%), Positives = 573/647 (88%)

Query: 1   MPFHDGVSWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDL 60
           MP  D VSWN LIS +A  G +  +VK YNLML +G  NL+RI  STMLI++S + CV L
Sbjct: 101 MPTRDMVSWNSLISAYAGRGFLLQSVKAYNLMLYNGPFNLNRIALSTMLILASKQGCVHL 160

Query: 61  GRQIHGHILKFGFGSYVFVGSPLVDMYAKLGLIYDAKRGFDELPEKNIVMYNTMITGLLR 120
           G Q+HGH++KFGF SYVFVGSPLVDMY+K GL++ A++ FDE+PEKN+VMYNT+I GL+R
Sbjct: 161 GLQVHGHVVKFGFQSYVFVGSPLVDMYSKTGLVFCARQAFDEMPEKNVVMYNTLIAGLMR 220

Query: 121 RGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSV 180
              +E+SR+LF  M++KDSISWT MI G  QNGL+REAIDLFREMRLE L MDQ+TFGSV
Sbjct: 221 CSRIEDSRQLFYDMQEKDSISWTAMIAGFTQNGLDREAIDLFREMRLENLEMDQYTFGSV 280

Query: 181 LTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWKNV 240
           LTACGG++AL+EGKQ+HA+IIR D++DN+FVGSALVDMYCKCKSIK AE+VFR M  KNV
Sbjct: 281 LTACGGVMALQEGKQVHAYIIRTDYQDNIFVGSALVDMYCKCKSIKSAETVFRKMNCKNV 340

Query: 241 VSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGR 300
           VSWTAMLVGYGQNG SEEAVKIFC+MQ NGIEPDDFTLGSVISSCANLASLEEG QFH R
Sbjct: 341 VSWTAMLVGYGQNGYSEEAVKIFCDMQNNGIEPDDFTLGSVISSCANLASLEEGAQFHCR 400

Query: 301 SLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANET 360
           +LV+GLISFITVSNALVT YGKCG+IEDSHRLF+EM+  DEVSWTALVSGYA+FGKANET
Sbjct: 401 ALVSGLISFITVSNALVTLYGKCGSIEDSHRLFSEMSYVDEVSWTALVSGYAQFGKANET 460

Query: 361 IDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMID 420
           + LFE ML+HG KPD+VT IGVLSACSRAGLV+KG   FE M+KE+ I PI DHYTCMID
Sbjct: 461 LRLFESMLAHGFKPDKVTFIGVLSACSRAGLVQKGNQIFESMIKEHRIIPIEDHYTCMID 520

Query: 421 ILSRAGRLEEAKSFINKMPFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPAS 480
           + SRAGRLEEA+ FINKMPF PDAIGWA+LLSSCR H N+EIGKWAAESLL+L+P+N AS
Sbjct: 521 LFSRAGRLEEARKFINKMPFSPDAIGWASLLSSCRFHRNMEIGKWAAESLLKLEPHNTAS 580

Query: 481 YVLLSSIYASKGKWDHVSQLRRTMREKGVRKDPGCSWIKYKSRVHIFSADDWSSPYSDQI 540
           Y+LLSSIYA+KGKW+ V+ LR+ MR+KG+RK+PGCSWIKYK++VHIFSADD S+P+SDQI
Sbjct: 581 YILLSSIYAAKGKWEEVANLRKGMRDKGLRKEPGCSWIKYKNQVHIFSADDQSNPFSDQI 640

Query: 541 YAELEKLNRKMIKEGYVPDMSSVLHDVELSEKIKMLNHHSEKLAIAFGLLFIPPGLPIRV 600
           Y+ELEKLN KM++EGYVPDM+SVLHDV+ SEKIKMLNHHSEKLAIAFGL+FIPPGLPIRV
Sbjct: 641 YSELEKLNYKMVQEGYVPDMNSVLHDVDDSEKIKMLNHHSEKLAIAFGLIFIPPGLPIRV 700

Query: 601 VKNLRVCSDCHNATKYISKITQREILVRDAVRFHLFKNGECSCGDFW 647
           VKNLRVC DCHNATKYISKITQREILVRDA RFHLFK+G CSCGDFW
Sbjct: 701 VKNLRVCGDCHNATKYISKITQREILVRDAARFHLFKDGRCSCGDFW 747

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449435276|ref|XP_004135421.1| PREDICTED: putative pentatricopeptide repeat-containing protein At1g68930-like [Cucumis sativus] gi|449493520|ref|XP_004159329.1| PREDICTED: putative pentatricopeptide repeat-containing protein At1g68930-like [Cucumis sativus]

 Score = 1053 bits (2723), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 498/647 (76%), Positives = 575/647 (88%)

Query: 1   MPFHDGVSWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDL 60
           MP HD VSWN L+SG+A +G ++++V+VYN+MLKDG  NL+RITFSTMLI+SS+R  VDL
Sbjct: 97  MPNHDVVSWNSLLSGYAGNGLISESVRVYNMMLKDGSVNLNRITFSTMLILSSNRGFVDL 156

Query: 61  GRQIHGHILKFGFGSYVFVGSPLVDMYAKLGLIYDAKRGFDELPEKNIVMYNTMITGLLR 120
           GRQIHG I KFG+ SY+FVGSPLVDMYAK G I DA R F+E+PEKNIV+YNTMITGLLR
Sbjct: 157 GRQIHGQIFKFGYQSYLFVGSPLVDMYAKTGFINDANRIFEEIPEKNIVVYNTMITGLLR 216

Query: 121 RGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSV 180
              + E+ +LF  M +KDSISWTT+ITGL QNGL +EA+D F+EM +EG  MDQFTFGSV
Sbjct: 217 CRFIVEAEQLFDNMPEKDSISWTTIITGLTQNGLFKEAVDKFKEMGIEGFCMDQFTFGSV 276

Query: 181 LTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWKNV 240
           LTACGG LAL+EGKQIHA+IIR D++DN+FVGSAL+DMYCKC+++KYAE+VFR M  KNV
Sbjct: 277 LTACGGFLALDEGKQIHAYIIRTDYQDNIFVGSALLDMYCKCRNVKYAEAVFRKMRHKNV 336

Query: 241 VSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGR 300
           +SWTAMLVGYGQNG SEEAV+IFC+MQRN I PDDFTLGSVISSCANLASLEEG QFHG+
Sbjct: 337 ISWTAMLVGYGQNGYSEEAVRIFCDMQRNEIHPDDFTLGSVISSCANLASLEEGAQFHGQ 396

Query: 301 SLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANET 360
           +L +GLI F+TVSNAL+T YGKCG++E +H+LF+EM +RDEVSWTALVSGYA+FGKANET
Sbjct: 397 ALASGLICFVTVSNALITLYGKCGSLEHAHQLFHEMKIRDEVSWTALVSGYAQFGKANET 456

Query: 361 IDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMID 420
           I LFE ML+HG+ PD VT +GVLSACSRAGLVEKG HYFE MVKE+ I PI DHYTCMID
Sbjct: 457 ISLFETMLAHGIVPDGVTFVGVLSACSRAGLVEKGYHYFECMVKEHRITPIPDHYTCMID 516

Query: 421 ILSRAGRLEEAKSFINKMPFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPAS 480
           +LSRAGRLEEAK+FIN+MPF PDAIGWATLLSSCR++GN+EIGKWAAESL +L+P NPAS
Sbjct: 517 LLSRAGRLEEAKNFINQMPFSPDAIGWATLLSSCRLNGNLEIGKWAAESLHKLEPQNPAS 576

Query: 481 YVLLSSIYASKGKWDHVSQLRRTMREKGVRKDPGCSWIKYKSRVHIFSADDWSSPYSDQI 540
           Y+LLSSIYA+KGKWD V++LR+ MRE GV+K+PG SWIKYK++VHIFSADD SSP+SDQI
Sbjct: 577 YILLSSIYAAKGKWDDVAKLRKGMREMGVKKEPGHSWIKYKNKVHIFSADDRSSPFSDQI 636

Query: 541 YAELEKLNRKMIKEGYVPDMSSVLHDVELSEKIKMLNHHSEKLAIAFGLLFIPPGLPIRV 600
           YA+LE L  KMI+EGYVPDMS VLHDVE SEKIKMLNHHSEKLAIAFGLLFIP GL IRV
Sbjct: 637 YAKLESLYLKMIEEGYVPDMSFVLHDVEKSEKIKMLNHHSEKLAIAFGLLFIPDGLQIRV 696

Query: 601 VKNLRVCSDCHNATKYISKITQREILVRDAVRFHLFKNGECSCGDFW 647
           VKNLRVC DCHNATKYIS+ITQREILVRDAVRFHLFK+G CSCGDFW
Sbjct: 697 VKNLRVCGDCHNATKYISRITQREILVRDAVRFHLFKDGVCSCGDFW 743

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|242062548|ref|XP_002452563.1| hypothetical protein SORBIDRAFT_04g028180 [Sorghum bicolor] gi|241932394|gb|EES05539.1| hypothetical protein SORBIDRAFT_04g028180 [Sorghum bicolor]

 Score =  937 bits (2423), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 440/648 (67%), Positives = 540/648 (83%), Gaps = 1/648 (0%)

Query: 1   MPFHDGVSWNLLISGHASHGSVNDAVKVYNLMLK-DGLGNLSRITFSTMLIMSSSRRCVD 59
           M   D VS+N +I+G +  GS   AV+VY  +L+ D     SRIT STM++ +S+     
Sbjct: 98  MTQRDIVSYNAVIAGFSGGGSHAQAVRVYLALLQADSSVRPSRITMSTMVMAASALGDRA 157

Query: 60  LGRQIHGHILKFGFGSYVFVGSPLVDMYAKLGLIYDAKRGFDELPEKNIVMYNTMITGLL 119
           LG+Q H  IL+ GFG+  FVGSPLVDMYAK+ L+ DAKR FDE+  KN+VMYNTMITGLL
Sbjct: 158 LGKQFHCQILRLGFGANAFVGSPLVDMYAKMSLVGDAKRAFDEVDSKNVVMYNTMITGLL 217

Query: 120 RRGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGS 179
           R  +VEE+RRLF  M D+DSI+WTTM+TG  QNGLE EA+++FR MR +G+A+DQ+TFGS
Sbjct: 218 RCKMVEEARRLFEVMTDRDSITWTTMVTGFTQNGLESEALEIFRRMRFQGIAIDQYTFGS 277

Query: 180 VLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWKN 239
           +LTACG L ALE+GKQIHA+IIR  + DNVFVGSALVDMY KC+SIK AE+VFR M  KN
Sbjct: 278 ILTACGALSALEQGKQIHAYIIRTRYDDNVFVGSALVDMYSKCRSIKLAETVFRRMTCKN 337

Query: 240 VVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHG 299
           ++SWTA++VGYGQNGCSEEAV++F  MQR+GI+PDD+TLGSVISSCANLASLEEG QFH 
Sbjct: 338 IISWTALIVGYGQNGCSEEAVRVFSEMQRDGIDPDDYTLGSVISSCANLASLEEGAQFHC 397

Query: 300 RSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANE 359
            +LV+GL+ +ITVSNALVT YGKCG+IED+HRLF+EM+  D+VSWTALVSGYA+FG+A E
Sbjct: 398 LALVSGLMHYITVSNALVTLYGKCGSIEDAHRLFDEMSFHDQVSWTALVSGYAQFGRAKE 457

Query: 360 TIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMI 419
           TIDLFEKML+ G+KPD VT IGVLSACSRAG VEKGR YF  M K++GI PI DHYTCMI
Sbjct: 458 TIDLFEKMLAKGVKPDGVTFIGVLSACSRAGFVEKGRSYFHSMQKDHGIVPIDDHYTCMI 517

Query: 420 DILSRAGRLEEAKSFINKMPFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPA 479
           D+ SR+G+L+EA+ FI +MP  PDAIGW TLLS+CR+ G++EIGKWAAE+LLE+DP NPA
Sbjct: 518 DLYSRSGKLKEAEEFIKQMPMHPDAIGWGTLLSACRLRGDMEIGKWAAENLLEIDPQNPA 577

Query: 480 SYVLLSSIYASKGKWDHVSQLRRTMREKGVRKDPGCSWIKYKSRVHIFSADDWSSPYSDQ 539
           SYVLL S++A+KG+W+ V+QLRR MR++ V+K+PGCSWIKYK++VHIFSADD S P S  
Sbjct: 578 SYVLLCSMHAAKGQWNEVAQLRRGMRDRQVKKEPGCSWIKYKNKVHIFSADDQSHPCSKG 637

Query: 540 IYAELEKLNRKMIKEGYVPDMSSVLHDVELSEKIKMLNHHSEKLAIAFGLLFIPPGLPIR 599
           IY +LE LN KM++EGY PD+SSVLHDV  ++K+ M++HHSEKLAIAFGL+F+P  +PIR
Sbjct: 638 IYEKLEWLNSKMLEEGYKPDVSSVLHDVADTDKVHMVSHHSEKLAIAFGLIFVPQEMPIR 697

Query: 600 VVKNLRVCSDCHNATKYISKITQREILVRDAVRFHLFKNGECSCGDFW 647
           +VKNLRVC DCHNATK+ISKIT R+ILVRDAVRFH F +G CSCGDFW
Sbjct: 698 IVKNLRVCVDCHNATKFISKITGRDILVRDAVRFHKFSDGVCSCGDFW 745

Source: Sorghum bicolor

Species: Sorghum bicolor

Genus: Sorghum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|115443695|ref|NP_001045627.1| Os02g0106300 [Oryza sativa Japonica Group] gi|50252103|dbj|BAD28089.1| putative pentatricopeptide (PPR) repeat-containing protein-like protein [Oryza sativa Japonica Group] gi|113535158|dbj|BAF07541.1| Os02g0106300 [Oryza sativa Japonica Group] gi|215766741|dbj|BAG98969.1| unnamed protein product [Oryza sativa Japonica Group]

 Score =  930 bits (2404), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 432/647 (66%), Positives = 537/647 (82%)

Query: 1   MPFHDGVSWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDL 60
           MP  D VS+N LI+G +S GS   +V++Y  +L++     +RIT S M++++S+     L
Sbjct: 105 MPERDAVSYNALITGFSSTGSPARSVQLYRALLREESVRPTRITLSAMIMVASALSDRAL 164

Query: 61  GRQIHGHILKFGFGSYVFVGSPLVDMYAKLGLIYDAKRGFDELPEKNIVMYNTMITGLLR 120
           G  +H  +L+ GFG+Y FVGSPLVDMYAK+GLI DA+R F E+  K +VMYNT+ITGLLR
Sbjct: 165 GHSVHCQVLRLGFGAYAFVGSPLVDMYAKMGLIRDARRVFQEMEAKTVVMYNTLITGLLR 224

Query: 121 RGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSV 180
             ++E+++ LF+ M D+DSI+WTTM+TGL QNGL+ EA+D+FR MR EG+ +DQ+TFGS+
Sbjct: 225 CKMIEDAKGLFQLMVDRDSITWTTMVTGLTQNGLQLEALDVFRRMRAEGVGIDQYTFGSI 284

Query: 181 LTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWKNV 240
           LTACG L ALEEGKQIHA+I R  ++DNVFVGSALVDMY KC+SI+ AE+VFR M  +N+
Sbjct: 285 LTACGALAALEEGKQIHAYITRTWYEDNVFVGSALVDMYSKCRSIRLAEAVFRRMTCRNI 344

Query: 241 VSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGR 300
           +SWTAM+VGYGQN CSEEAV+ F  MQ +GI+PDDFTLGSVISSCANLASLEEG QFH  
Sbjct: 345 ISWTAMIVGYGQNACSEEAVRAFSEMQMDGIKPDDFTLGSVISSCANLASLEEGAQFHCL 404

Query: 301 SLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANET 360
           +LV+GL+ +ITVSNALVT YGKCG+IED+HRLF+EM+  D+VSWTALV+GYA+FGKA ET
Sbjct: 405 ALVSGLMRYITVSNALVTLYGKCGSIEDAHRLFDEMSFHDQVSWTALVTGYAQFGKAKET 464

Query: 361 IDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMID 420
           IDLFEKML++GLKPD VT IGVLSACSRAGLVEKG  YF+ M K++GI PI DHYTCMID
Sbjct: 465 IDLFEKMLANGLKPDGVTFIGVLSACSRAGLVEKGCDYFDSMQKDHGIVPIDDHYTCMID 524

Query: 421 ILSRAGRLEEAKSFINKMPFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPAS 480
           + SR+GR +EA+ FI +MP  PDA GWATLLSSCR+ GN+EIGKWAAE+LLE DP NPAS
Sbjct: 525 LYSRSGRFKEAEEFIKQMPHSPDAFGWATLLSSCRLRGNMEIGKWAAENLLETDPQNPAS 584

Query: 481 YVLLSSIYASKGKWDHVSQLRRTMREKGVRKDPGCSWIKYKSRVHIFSADDWSSPYSDQI 540
           YVLL S++A+KG+W  V+ LRR MR++ V+K+PGCSWIKYK++VHIFSADD S P+S +I
Sbjct: 585 YVLLCSMHAAKGQWTEVAHLRRGMRDRQVKKEPGCSWIKYKNKVHIFSADDQSHPFSSRI 644

Query: 541 YAELEKLNRKMIKEGYVPDMSSVLHDVELSEKIKMLNHHSEKLAIAFGLLFIPPGLPIRV 600
           Y +LE LN KM +EGY PD+SSVLHDV  ++K+ M++HHSEKLAIAFGL+F+P  +PIR+
Sbjct: 645 YEKLEWLNSKMAEEGYKPDVSSVLHDVADADKVHMISHHSEKLAIAFGLIFVPQEMPIRI 704

Query: 601 VKNLRVCSDCHNATKYISKITQREILVRDAVRFHLFKNGECSCGDFW 647
           VKNLRVC DCHNATK+ISKIT R+ILVRDAVRFH F +G CSCGDFW
Sbjct: 705 VKNLRVCVDCHNATKFISKITGRDILVRDAVRFHKFSDGTCSCGDFW 751

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|125537719|gb|EAY84114.1| hypothetical protein OsI_05496 [Oryza sativa Indica Group]

 Score =  924 bits (2387), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 430/647 (66%), Positives = 534/647 (82%)

Query: 1   MPFHDGVSWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDL 60
           MP  D VS+N LI+G +S GS   +V++Y  +L++     +RIT S M++++S+     L
Sbjct: 105 MPERDAVSYNALITGFSSTGSPARSVQLYRALLREESVRPTRITLSAMIMVASALSDRAL 164

Query: 61  GRQIHGHILKFGFGSYVFVGSPLVDMYAKLGLIYDAKRGFDELPEKNIVMYNTMITGLLR 120
           G  +H  +L+ GFG+Y FVGSPLVDMYAK+GLI DA+R F E+  K +VMYNT+ITGLLR
Sbjct: 165 GHSVHCQVLRLGFGAYAFVGSPLVDMYAKMGLIRDARRVFQEMEAKTVVMYNTLITGLLR 224

Query: 121 RGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSV 180
             ++E+++ LF+ M D+DSI+WTTM+TGL QNGL+ EA+D+FR MR EG+ +DQ+TFGS+
Sbjct: 225 CKMIEDAKGLFQLMVDRDSITWTTMVTGLTQNGLQLEALDVFRRMRAEGVGIDQYTFGSI 284

Query: 181 LTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWKNV 240
           LTACG L A EEGKQIHA+I R  ++DNVFVGSALVDMY KC+SI+ AE+VFR M  +N+
Sbjct: 285 LTACGALAASEEGKQIHAYITRTWYEDNVFVGSALVDMYSKCRSIRLAEAVFRRMTCRNI 344

Query: 241 VSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGR 300
           +SWTAM+VGYGQN CSEEAV+ F  MQ +GI+PDDFTLGSVISSCANLASLEEG QFH  
Sbjct: 345 ISWTAMIVGYGQNACSEEAVRAFSEMQMDGIKPDDFTLGSVISSCANLASLEEGAQFHCL 404

Query: 301 SLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANET 360
           +LV+GL+ +ITVSNALVT YGKCG+IED+HRLF+EM+  D+VSWTALV+GYA+FGKA ET
Sbjct: 405 ALVSGLMRYITVSNALVTLYGKCGSIEDAHRLFDEMSFHDQVSWTALVTGYAQFGKAKET 464

Query: 361 IDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMID 420
           IDLFEKML +GLKPD VT IGVLSACSRAGLVEKG  YF+ M K++ I PI DHYTCMID
Sbjct: 465 IDLFEKMLVNGLKPDGVTFIGVLSACSRAGLVEKGCDYFDSMQKDHDIVPIDDHYTCMID 524

Query: 421 ILSRAGRLEEAKSFINKMPFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPAS 480
           + SR+GR +EA+ FI +MP  PDA GWATLLSSCR+ GN+EIGKWAAE+LLE DP NPAS
Sbjct: 525 LYSRSGRFKEAEEFIKQMPHSPDAFGWATLLSSCRLRGNMEIGKWAAENLLETDPQNPAS 584

Query: 481 YVLLSSIYASKGKWDHVSQLRRTMREKGVRKDPGCSWIKYKSRVHIFSADDWSSPYSDQI 540
           YVLL S++A+KG+W  V+ LRR MR++ V+K+PGCSWIKYK++VHIFSADD S P+S +I
Sbjct: 585 YVLLCSMHAAKGQWTEVAHLRRGMRDRQVKKEPGCSWIKYKNKVHIFSADDQSHPFSSRI 644

Query: 541 YAELEKLNRKMIKEGYVPDMSSVLHDVELSEKIKMLNHHSEKLAIAFGLLFIPPGLPIRV 600
           Y +LE LN KM +EGY PD+SSVLHDV  ++K+ M++HHSEKLAIAFGL+F+P  +PIR+
Sbjct: 645 YEKLEWLNSKMAEEGYKPDVSSVLHDVADADKVHMISHHSEKLAIAFGLIFVPQEMPIRI 704

Query: 601 VKNLRVCSDCHNATKYISKITQREILVRDAVRFHLFKNGECSCGDFW 647
           VKNLRVC DCHNATK+ISKIT R+ILVRDAVRFH F +G CSCGDFW
Sbjct: 705 VKNLRVCVDCHNATKFISKITGRDILVRDAVRFHKFSDGTCSCGDFW 751

Source: Oryza sativa Indica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|308080264|ref|NP_001183681.1| uncharacterized protein LOC100502275 [Zea mays] gi|238013832|gb|ACR37951.1| unknown [Zea mays] gi|413938826|gb|AFW73377.1| hypothetical protein ZEAMMB73_579690 [Zea mays]

 Score =  921 bits (2381), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 435/648 (67%), Positives = 533/648 (82%), Gaps = 1/648 (0%)

Query: 1   MPFHDGVSWNLLISGHASHGSVNDAVKVYNLMLKDGLG-NLSRITFSTMLIMSSSRRCVD 59
           M   D VS+N +I+G +  G+   AV++Y+ +L+ G     SRIT S M++ +S+     
Sbjct: 98  MAQRDTVSYNAVIAGFSGGGAHARAVRLYHTLLRAGSSVRPSRITMSAMVMAASALGDRA 157

Query: 60  LGRQIHGHILKFGFGSYVFVGSPLVDMYAKLGLIYDAKRGFDELPEKNIVMYNTMITGLL 119
           LGRQ H  IL+ GFG   FVGSPLV MYAK+GLI DAKR FDE+  KN+VMYNTMITGLL
Sbjct: 158 LGRQFHCQILRLGFGVNAFVGSPLVGMYAKMGLIGDAKRVFDEMDGKNVVMYNTMITGLL 217

Query: 120 RRGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGS 179
           R  +VEE+RRLF  M D+D I+WTTM+TG  QNGLE +A++ FR MR +G+A+DQ+TFGS
Sbjct: 218 RCKMVEEARRLFEVMTDRDCITWTTMVTGFTQNGLESQALNFFRRMRFQGIAIDQYTFGS 277

Query: 180 VLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWKN 239
           +LTACG L ALE+GKQIHA+IIR  + DNVFVGSALVDMY KC+SIK AE+ FR M+ KN
Sbjct: 278 ILTACGALSALEQGKQIHAYIIRTHYDDNVFVGSALVDMYSKCRSIKPAETAFRRMSCKN 337

Query: 240 VVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHG 299
           ++SWTA++VGYGQNGCSEEAV++F  MQR+GI+PDDFTLGSVISSCANLASLEEG QFH 
Sbjct: 338 IISWTALIVGYGQNGCSEEAVRVFSEMQRDGIDPDDFTLGSVISSCANLASLEEGAQFHC 397

Query: 300 RSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANE 359
            +LV+GL+ +ITVSNALVT YGKCG+IED+HRLF+EM   D+VSWTALV+GYA+FG+A E
Sbjct: 398 LALVSGLMHYITVSNALVTLYGKCGSIEDAHRLFDEMLFHDQVSWTALVTGYAQFGRAKE 457

Query: 360 TIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMI 419
           TIDLFEKML+  +KPD VT IGVLSACSRAG VEKG  YF  M K++GI PI DHYTCMI
Sbjct: 458 TIDLFEKMLAKDVKPDGVTFIGVLSACSRAGFVEKGCSYFHSMQKDHGIVPIDDHYTCMI 517

Query: 420 DILSRAGRLEEAKSFINKMPFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPA 479
           D+ SR+GRL+EA+ FI +MP  PDAIGW TLLS+CR+ G++EIG+WAAE+LLE+DP NPA
Sbjct: 518 DLYSRSGRLKEAEEFIKQMPMHPDAIGWGTLLSACRLRGDMEIGQWAAENLLEIDPQNPA 577

Query: 480 SYVLLSSIYASKGKWDHVSQLRRTMREKGVRKDPGCSWIKYKSRVHIFSADDWSSPYSDQ 539
           SYVLL S++A+KG W+ V+QLRR MR++ V+K+PGCSWIKYK++VHIFSADD S P+S  
Sbjct: 578 SYVLLCSMHATKGNWNQVAQLRRGMRDRQVKKEPGCSWIKYKNKVHIFSADDQSHPFSKG 637

Query: 540 IYAELEKLNRKMIKEGYVPDMSSVLHDVELSEKIKMLNHHSEKLAIAFGLLFIPPGLPIR 599
           IY +LE LN KM++EGY PD+SSVLHDV  ++K+ M++HHSEKLAIAFGL+F+P  +PIR
Sbjct: 638 IYEKLEWLNSKMLEEGYKPDVSSVLHDVADTDKVHMVSHHSEKLAIAFGLMFVPHEMPIR 697

Query: 600 VVKNLRVCSDCHNATKYISKITQREILVRDAVRFHLFKNGECSCGDFW 647
           +VKNLRVC DCHNATK ISKIT R+ILVRDAVRFH F NG CSCGDFW
Sbjct: 698 IVKNLRVCVDCHNATKLISKITGRDILVRDAVRFHKFSNGVCSCGDFW 745

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15221566|ref|NP_177059.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|75333633|sp|Q9CAA8.1|PP108_ARATH RecName: Full=Putative pentatricopeptide repeat-containing protein At1g68930 gi|12323213|gb|AAG51585.1|AC011665_6 hypothetical protein [Arabidopsis thaliana] gi|332196743|gb|AEE34864.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score =  920 bits (2379), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 432/647 (66%), Positives = 531/647 (82%), Gaps = 1/647 (0%)

Query: 1   MPFHDGVSWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDL 60
           +P  DGV+WN+LI G++  G V  AVK YN M++D   NL+R+T  TML +SSS   V L
Sbjct: 98  LPDRDGVTWNVLIEGYSLSGLVGAAVKAYNTMMRDFSANLTRVTLMTMLKLSSSNGHVSL 157

Query: 61  GRQIHGHILKFGFGSYVFVGSPLVDMYAKLGLIYDAKRGFDELPEKNIVMYNTMITGLLR 120
           G+QIHG ++K GF SY+ VGSPL+ MYA +G I DAK+ F  L ++N VMYN+++ GLL 
Sbjct: 158 GKQIHGQVIKLGFESYLLVGSPLLYMYANVGCISDAKKVFYGLDDRNTVMYNSLMGGLLA 217

Query: 121 RGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSV 180
            G++E++ +LFRGM +KDS+SW  MI GL QNGL +EAI+ FREM+++GL MDQ+ FGSV
Sbjct: 218 CGMIEDALQLFRGM-EKDSVSWAAMIKGLAQNGLAKEAIECFREMKVQGLKMDQYPFGSV 276

Query: 181 LTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWKNV 240
           L ACGGL A+ EGKQIHA IIR + +D+++VGSAL+DMYCKCK + YA++VF  M  KNV
Sbjct: 277 LPACGGLGAINEGKQIHACIIRTNFQDHIYVGSALIDMYCKCKCLHYAKTVFDRMKQKNV 336

Query: 241 VSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGR 300
           VSWTAM+VGYGQ G +EEAVKIF +MQR+GI+PD +TLG  IS+CAN++SLEEG+QFHG+
Sbjct: 337 VSWTAMVVGYGQTGRAEEAVKIFLDMQRSGIDPDHYTLGQAISACANVSSLEEGSQFHGK 396

Query: 301 SLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANET 360
           ++ +GLI ++TVSN+LVT YGKCG+I+DS RLFNEMNVRD VSWTA+VS YA+FG+A ET
Sbjct: 397 AITSGLIHYVTVSNSLVTLYGKCGDIDDSTRLFNEMNVRDAVSWTAMVSAYAQFGRAVET 456

Query: 361 IDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMID 420
           I LF+KM+ HGLKPD VTL GV+SACSRAGLVEKG+ YF++M  EYGI P   HY+CMID
Sbjct: 457 IQLFDKMVQHGLKPDGVTLTGVISACSRAGLVEKGQRYFKLMTSEYGIVPSIGHYSCMID 516

Query: 421 ILSRAGRLEEAKSFINKMPFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPAS 480
           + SR+GRLEEA  FIN MPFPPDAIGW TLLS+CR  GN+EIGKWAAESL+ELDP++PA 
Sbjct: 517 LFSRSGRLEEAMRFINGMPFPPDAIGWTTLLSACRNKGNLEIGKWAAESLIELDPHHPAG 576

Query: 481 YVLLSSIYASKGKWDHVSQLRRTMREKGVRKDPGCSWIKYKSRVHIFSADDWSSPYSDQI 540
           Y LLSSIYASKGKWD V+QLRR MREK V+K+PG SWIK+K ++H FSADD SSPY DQI
Sbjct: 577 YTLLSSIYASKGKWDSVAQLRRGMREKNVKKEPGQSWIKWKGKLHSFSADDESSPYLDQI 636

Query: 541 YAELEKLNRKMIKEGYVPDMSSVLHDVELSEKIKMLNHHSEKLAIAFGLLFIPPGLPIRV 600
           YA+LE+LN K+I  GY PD S V HDVE + K+KMLN+HSE+LAIAFGL+F+P G PIRV
Sbjct: 637 YAKLEELNNKIIDNGYKPDTSFVHHDVEEAVKVKMLNYHSERLAIAFGLIFVPSGQPIRV 696

Query: 601 VKNLRVCSDCHNATKYISKITQREILVRDAVRFHLFKNGECSCGDFW 647
            KNLRVC DCHNATK+IS +T REILVRDAVRFH FK+G CSCGDFW
Sbjct: 697 GKNLRVCVDCHNATKHISSVTGREILVRDAVRFHRFKDGTCSCGDFW 743

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	647
TAIR|locus:2205425	743	AT1G68930 "AT1G68930" [Arabido	0.998	0.869	0.667	1.3e-240
TAIR|locus:2038603	868	AT2G27610 "AT2G27610" [Arabido	0.800	0.596	0.436	7.2e-139
TAIR|locus:2205200	741	OTP82 "AT1G08070" [Arabidopsis	0.986	0.860	0.397	2.8e-137
TAIR|locus:2125899	990	AT4G33170 [Arabidopsis thalian	0.823	0.538	0.417	2.3e-133
TAIR|locus:2115130	691	AT4G37170 "AT4G37170" [Arabido	0.933	0.874	0.404	1.7e-130
TAIR|locus:2124137	871	DOT4 "DEFECTIVELY ORGANIZED TR	0.828	0.615	0.426	4.8e-129
TAIR|locus:2082886	850	EMB2261 "embryo defective 2261	0.812	0.618	0.424	1e-128
TAIR|locus:2148101	850	AT5G16860 "AT5G16860" [Arabido	0.996	0.758	0.387	2e-127
TAIR|locus:2140235	781	AT4G02750 [Arabidopsis thalian	0.860	0.713	0.426	6.8e-127
TAIR|locus:2196583	866	ECB2 "EARLY CHLOROPLAST BIOGEN	0.826	0.617	0.390	3.4e-126

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

 Score = 2319 (821.4 bits), Expect = 1.3e-240, P = 1.3e-240
 Identities = 432/647 (66%), Positives = 531/647 (82%)

Query:     1 MPFHDGVSWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDL 60
             +P  DGV+WN+LI G++  G V  AVK YN M++D   NL+R+T  TML +SSS   V L
Sbjct:    98 LPDRDGVTWNVLIEGYSLSGLVGAAVKAYNTMMRDFSANLTRVTLMTMLKLSSSNGHVSL 157

Query:    61 GRQIHGHILKFGFGSYVFVGSPLVDMYAKLGLIYDAKRGFDELPEKNIVMYNTMITGLLR 120
             G+QIHG ++K GF SY+ VGSPL+ MYA +G I DAK+ F  L ++N VMYN+++ GLL 
Sbjct:   158 GKQIHGQVIKLGFESYLLVGSPLLYMYANVGCISDAKKVFYGLDDRNTVMYNSLMGGLLA 217

Query:   121 RGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSV 180
              G++E++ +LFRGM +KDS+SW  MI GL QNGL +EAI+ FREM+++GL MDQ+ FGSV
Sbjct:   218 CGMIEDALQLFRGM-EKDSVSWAAMIKGLAQNGLAKEAIECFREMKVQGLKMDQYPFGSV 276

Query:   181 LTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWKNV 240
             L ACGGL A+ EGKQIHA IIR + +D+++VGSAL+DMYCKCK + YA++VF  M  KNV
Sbjct:   277 LPACGGLGAINEGKQIHACIIRTNFQDHIYVGSALIDMYCKCKCLHYAKTVFDRMKQKNV 336

Query:   241 VSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGR 300
             VSWTAM+VGYGQ G +EEAVKIF +MQR+GI+PD +TLG  IS+CAN++SLEEG+QFHG+
Sbjct:   337 VSWTAMVVGYGQTGRAEEAVKIFLDMQRSGIDPDHYTLGQAISACANVSSLEEGSQFHGK 396

Query:   301 SLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANET 360
             ++ +GLI ++TVSN+LVT YGKCG+I+DS RLFNEMNVRD VSWTA+VS YA+FG+A ET
Sbjct:   397 AITSGLIHYVTVSNSLVTLYGKCGDIDDSTRLFNEMNVRDAVSWTAMVSAYAQFGRAVET 456

Query:   361 IDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMID 420
             I LF+KM+ HGLKPD VTL GV+SACSRAGLVEKG+ YF++M  EYGI P   HY+CMID
Sbjct:   457 IQLFDKMVQHGLKPDGVTLTGVISACSRAGLVEKGQRYFKLMTSEYGIVPSIGHYSCMID 516

Query:   421 ILSRAGRLEEAKSFINKMPFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPAS 480
             + SR+GRLEEA  FIN MPFPPDAIGW TLLS+CR  GN+EIGKWAAESL+ELDP++PA 
Sbjct:   517 LFSRSGRLEEAMRFINGMPFPPDAIGWTTLLSACRNKGNLEIGKWAAESLIELDPHHPAG 576

Query:   481 YVLLSSIYASKGKWDHVSQLRRTMREKGVRKDPGCSWIKYKSRVHIFSADDWSSPYSDQI 540
             Y LLSSIYASKGKWD V+QLRR MREK V+K+PG SWIK+K ++H FSADD SSPY DQI
Sbjct:   577 YTLLSSIYASKGKWDSVAQLRRGMREKNVKKEPGQSWIKWKGKLHSFSADDESSPYLDQI 636

Query:   541 YAELEKLNRKMIKEGYVPDMSSVLHDVELSEKIKMLNHHSEKLAIAFGLLFIPPGLPIRV 600
             YA+LE+LN K+I  GY PD S V HDVE + K+KMLN+HSE+LAIAFGL+F+P G PIRV
Sbjct:   637 YAKLEELNNKIIDNGYKPDTSFVHHDVEEAVKVKMLNYHSERLAIAFGLIFVPSGQPIRV 696

Query:   601 VKNLRVCSDCHNATKYISKITQREILVRDAVRFHLFKNGECSCGDFW 647
              KNLRVC DCHNATK+IS +T REILVRDAVRFH FK+G CSCGDFW
Sbjct:   697 GKNLRVCVDCHNATKHISSVTGREILVRDAVRFHRFKDGTCSCGDFW 743

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 1202 (428.2 bits), Expect = 7.2e-139, Sum P(2) = 7.2e-139
 Identities = 229/525 (43%), Positives = 352/525 (67%)

Query:   126 ESRRLFRGMKDKDSI-SWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSVLTAC 184
             ++ RLF+ +    ++ SWT MI+G +QN  + EA+DLF EM+ +G+  ++FT+  +LTA 
Sbjct:   348 DALRLFKEIGCVGNVVSWTAMISGFLQNDGKEEAVDLFSEMKRKGVRPNEFTYSVILTA- 406

Query:   185 GGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWKNVVSWT 244
                L +    ++HA +++ +++ +  VG+AL+D Y K   ++ A  VF  +  K++V+W+
Sbjct:   407 ---LPVISPSEVHAQVVKTNYERSSTVGTALLDAYVKLGKVEEAAKVFSGIDDKDIVAWS 463

Query:   245 AMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANL-ASLEEGTQFHGRSLV 303
             AML GY Q G +E A+K+F  + + GI+P++FT  S+++ CA   AS+ +G QFHG ++ 
Sbjct:   464 AMLAGYAQTGETEAAIKMFGELTKGGIKPNEFTFSSILNVCAATNASMGQGKQFHGFAIK 523

Query:   304 TGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDL 363
             + L S + VS+AL+T Y K GNIE +  +F     +D VSW +++SGYA+ G+A + +D+
Sbjct:   524 SRLDSSLCVSSALLTMYAKKGNIESAEEVFKRQREKDLVSWNSMISGYAQHGQAMKALDV 583

Query:   364 FEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILS 423
             F++M    +K D VT IGV +AC+ AGLVE+G  YF+IMV++  I P  +H +CM+D+ S
Sbjct:   584 FKEMKKRKVKMDGVTFIGVFAACTHAGLVEEGEKYFDIMVRDCKIAPTKEHNSCMVDLYS 643

Query:   424 RAGRLEEAKSFINKMPFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVL 483
             RAG+LE+A   I  MP P  +  W T+L++CR+H   E+G+ AAE ++ + P + A+YVL
Sbjct:   644 RAGQLEKAMKVIENMPNPAGSTIWRTILAACRVHKKTELGRLAAEKIIAMKPEDSAAYVL 703

Query:   484 LSSIYASKGKWDHVSQLRRTMREKGVRKDPGCSWIKYKSRVHIFSADDWSSPYSDQIYAE 543
             LS++YA  G W   +++R+ M E+ V+K+PG SWI+ K++ + F A D S P  DQIY +
Sbjct:   704 LSNMYAESGDWQERAKVRKLMNERNVKKEPGYSWIEVKNKTYSFLAGDRSHPLKDQIYMK 763

Query:   544 LEKLNRKMIKEGYVPDMSSVLHDVELSEKIKMLNHHSEKLAIAFGLLFIPPGLPIRVVKN 603
             LE L+ ++   GY PD S VL D++   K  +L  HSE+LAIAFGL+  P G P+ ++KN
Sbjct:   764 LEDLSTRLKDLGYEPDTSYVLQDIDDEHKEAVLAQHSERLAIAFGLIATPKGSPLLIIKN 823

Query:   604 LRVCSDCHNATKYISKITQREILVRDAVRFHLFKN-GECSCGDFW 647
             LRVC DCH   K I+KI +REI+VRD+ RFH F + G CSCGDFW
Sbjct:   824 LRVCGDCHLVIKLIAKIEEREIVVRDSNRFHHFSSDGVCSCGDFW 868

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 = 1344 (478.2 bits), Expect = 2.8e-137, P = 2.8e-137
 Identities = 255/641 (39%), Positives = 404/641 (63%)

Query:     9 WNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHI 68
             WN +  GHA       A+K+Y  M+  GL   S  TF  +L   +  +    G+QIHGH+
Sbjct:   102 WNTMFRGHALSSDPVSALKLYVCMISLGLLPNS-YTFPFVLKSCAKSKAFKEGQQIHGHV 160

Query:    69 LKFGFGSYVFVGSPLVDMYAKLGLIYDAKRGFDELPEKNIVMYNTMITGLLRRGLVEESR 128
             LK G    ++V + L+ MY + G + DA + FD+ P +++V Y  +I G   RG +E ++
Sbjct:   161 LKLGCDLDLYVHTSLISMYVQNGRLEDAHKVFDKSPHRDVVSYTALIKGYASRGYIENAQ 220

Query:   129 RLFRGMKDKDSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSVLTACGGLL 188
             +LF  +  KD +SW  MI+G  + G  +EA++LF++M    +  D+ T  +V++AC    
Sbjct:   221 KLFDEIPVKDVVSWNAMISGYAETGNYKEALELFKDMMKTNVRPDESTMVTVVSACAQSG 280

Query:   189 ALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWKNVVSWTAMLV 248
             ++E G+Q+H +I  +    N+ + +AL+D+Y KC  ++ A  +F  + +K+V+SW  ++ 
Sbjct:   281 SIELGRQVHLWIDDHGFGSNLKIVNALIDLYSKCGELETACGLFERLPYKDVISWNTLIG 340

Query:   249 GYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGR--SLVTGL 306
             GY      +EA+ +F  M R+G  P+D T+ S++ +CA+L +++ G   H      + G+
Sbjct:   341 GYTHMNLYKEALLLFQEMLRSGETPNDVTMLSILPACAHLGAIDIGRWIHVYIDKRLKGV 400

Query:   307 ISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEK 366
              +  ++  +L+  Y KCG+IE +H++FN +  +   SW A++ G+A  G+A+ + DLF +
Sbjct:   401 TNASSLRTSLIDMYAKCGDIEAAHQVFNSILHKSLSSWNAMIFGFAMHGRADASFDLFSR 460

Query:   367 MLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAG 426
             M   G++PD++T +G+LSACS +G+++ GRH F  M ++Y + P  +HY CMID+L  +G
Sbjct:   461 MRKIGIQPDDITFVGLLSACSHSGMLDLGRHIFRTMTQDYKMTPKLEHYGCMIDLLGHSG 520

Query:   427 RLEEAKSFINKMPFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSS 486
               +EA+  IN M   PD + W +LL +C++HGNVE+G+  AE+L++++P NP SYVLLS+
Sbjct:   521 LFKEAEEMINMMEMEPDGVIWCSLLKACKMHGNVELGESFAENLIKIEPENPGSYVLLSN 580

Query:   487 IYASKGKWDHVSQLRRTMREKGVRKDPGCSWIKYKSRVHIFSADDWSSPYSDQIYAELEK 546
             IYAS G+W+ V++ R  + +KG++K PGCS I+  S VH F   D   P + +IY  LE+
Sbjct:   581 IYASAGRWNEVAKTRALLNDKGMKKVPGCSSIEIDSVVHEFIIGDKFHPRNREIYGMLEE 640

Query:   547 LNRKMIKEGYVPDMSSVLHDVELSEKIKMLNHHSEKLAIAFGLLFIPPGLPIRVVKNLRV 606
             +   + K G+VPD S VL ++E   K   L HHSEKLAIAFGL+   PG  + +VKNLRV
Sbjct:   641 MEVLLEKAGFVPDTSEVLQEMEEEWKEGALRHHSEKLAIAFGLISTKPGTKLTIVKNLRV 700

Query:   607 CSDCHNATKYISKITQREILVRDAVRFHLFKNGECSCGDFW 647
             C +CH ATK ISKI +REI+ RD  RFH F++G CSC D+W
Sbjct:   701 CRNCHEATKLISKIYKREIIARDRTRFHHFRDGVCSCNDYW 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 = 1165 (415.2 bits), Expect = 2.3e-133, Sum P(2) = 2.3e-133
 Identities = 223/534 (41%), Positives = 339/534 (63%)

Query:   114 MITGLLRRGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMD 173
             +I    R   ++E+  LF    + D ++W  M+ G  Q+    + + LF  M  +G   D
Sbjct:   458 LIDAYSRNRCMKEAEILFE-RHNFDLVAWNAMMAGYTQSHDGHKTLKLFALMHKQGERSD 516

Query:   174 QFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFR 233
              FT  +V   CG L A+ +GKQ+HA+ I++ +  +++V S ++DMY KC  +  A+  F 
Sbjct:   517 DFTLATVFKTCGFLFAINQGKQVHAYAIKSGYDLDLWVSSGILDMYVKCGDMSAAQFAFD 576

Query:   234 TMAWKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEE 293
             ++   + V+WT M+ G  +NG  E A  +F  M+  G+ PD+FT+ ++  + + L +LE+
Sbjct:   577 SIPVPDDVAWTTMISGCIENGEEERAFHVFSQMRLMGVLPDEFTIATLAKASSCLTALEQ 636

Query:   294 GTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAK 353
             G Q H  +L     +   V  +LV  Y KCG+I+D++ LF  + + +  +W A++ G A+
Sbjct:   637 GRQIHANALKLNCTNDPFVGTSLVDMYAKCGSIDDAYCLFKRIEMMNITAWNAMLVGLAQ 696

Query:   354 FGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHD 413
              G+  ET+ LF++M S G+KPD+VT IGVLSACS +GLV +   +   M  +YGI+P  +
Sbjct:   697 HGEGKETLQLFKQMKSLGIKPDKVTFIGVLSACSHSGLVSEAYKHMRSMHGDYGIKPEIE 756

Query:   414 HYTCMIDILSRAGRLEEAKSFINKMPFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLEL 473
             HY+C+ D L RAG +++A++ I  M     A  + TLL++CR+ G+ E GK  A  LLEL
Sbjct:   757 HYSCLADALGRAGLVKQAENLIESMSMEASASMYRTLLAACRVQGDTETGKRVATKLLEL 816

Query:   474 DPYNPASYVLLSSIYASKGKWDHVSQLRRTMREKGVRKDPGCSWIKYKSRVHIFSADDWS 533
             +P + ++YVLLS++YA+  KWD +   R  M+   V+KDPG SWI+ K+++HIF  DD S
Sbjct:   817 EPLDSSAYVLLSNMYAAASKWDEMKLARTMMKGHKVKKDPGFSWIEVKNKIHIFVVDDRS 876

Query:   534 SPYSDQIYAELEKLNRKMIKEGYVPDMSSVLHDVELSEKIKMLNHHSEKLAIAFGLLFIP 593
             +  ++ IY +++ + R + +EGYVP+    L DVE  EK + L +HSEKLA+AFGLL  P
Sbjct:   877 NRQTELIYRKVKDMIRDIKQEGYVPETDFTLVDVEEEEKERALYYHSEKLAVAFGLLSTP 936

Query:   594 PGLPIRVVKNLRVCSDCHNATKYISKITQREILVRDAVRFHLFKNGECSCGDFW 647
             P  PIRV+KNLRVC DCHNA KYI+K+  REI++RDA RFH FK+G CSCGD+W
Sbjct:   937 PSTPIRVIKNLRVCGDCHNAMKYIAKVYNREIVLRDANRFHRFKDGICSCGDYW 990

GO:0005739 "mitochondrion" evidence=ISM

TAIR|locus:2115130 AT4G37170 "AT4G37170" [Arabidopsis thaliana (taxid:3702)]

 Score = 1280 (455.6 bits), Expect = 1.7e-130, P = 1.7e-130
 Identities = 245/605 (40%), Positives = 377/605 (62%)

Query:    44 TFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGSPLVDMYAKLGLIYDAKRGFDEL 103
             T+  ++ + S  R ++ G+++H HI   GF   + + + L+ MYAK G + DA++ FDE+
Sbjct:    87 TYCNLIQVCSQTRALEEGKKVHEHIRTSGFVPGIVIWNRLLRMYAKCGSLVDARKVFDEM 146

Query:   104 PEKNIVMYNTMITGLLRRGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLEREAIDLFR 163
             P +++  +N M+ G    GL+EE+R+LF  M +KDS SWT M+TG ++     EA+ L+ 
Sbjct:   147 PNRDLCSWNVMVNGYAEVGLLEEARKLFDEMTEKDSYSWTAMVTGYVKKDQPEEALVLYS 206

Query:   164 EM-RLEGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKC 222
              M R+     + FT    + A   +  +  GK+IH  I+R     +  + S+L+DMY KC
Sbjct:   207 LMQRVPNSRPNIFTVSIAVAAAAAVKCIRRGKEIHGHIVRAGLDSDEVLWSSLMDMYGKC 266

Query:   223 KSIKYAESVFRTMAWKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVI 282
               I  A ++F  +  K+VVSWT+M+  Y ++    E   +F  +  +   P+++T   V+
Sbjct:   267 GCIDEARNIFDKIVEKDVVSWTSMIDRYFKSSRWREGFSLFSELVGSCERPNEYTFAGVL 326

Query:   283 SSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEV 342
             ++CA+L + E G Q HG     G   +   S++LV  Y KCGNIE +  + +     D V
Sbjct:   327 NACADLTTEELGKQVHGYMTRVGFDPYSFASSSLVDMYTKCGNIESAKHVVDGCPKPDLV 386

Query:   343 SWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIM 402
             SWT+L+ G A+ G+ +E +  F+ +L  G KPD VT + VLSAC+ AGLVEKG  +F  +
Sbjct:   387 SWTSLIGGCAQNGQPDEALKYFDLLLKSGTKPDHVTFVNVLSACTHAGLVEKGLEFFYSI 446

Query:   403 VKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKMPFPPDAIGWATLLSSCRIHGNVEI 462
              +++ +    DHYTC++D+L+R+GR E+ KS I++MP  P    WA++L  C  +GN+++
Sbjct:   447 TEKHRLSHTSDHYTCLVDLLARSGRFEQLKSVISEMPMKPSKFLWASVLGGCSTYGNIDL 506

Query:   463 GKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREKGVRKDPGCSWIKYKS 522
              + AA+ L +++P NP +YV +++IYA+ GKW+   ++R+ M+E GV K PG SW + K 
Sbjct:   507 AEEAAQELFKIEPENPVTYVTMANIYAAAGKWEEEGKMRKRMQEIGVTKRPGSSWTEIKR 566

Query:   523 RVHIFSADDWSSPYSDQIYAELEKLNRKMIKEGYVPDMSSVLHDVELSEKIKMLNHHSEK 582
             + H+F A D S P  +QI   L +L +KM +EGYVP  S VLHDVE  +K + L +HSEK
Sbjct:   567 KRHVFIAADTSHPMYNQIVEFLRELRKKMKEEGYVPATSLVLHDVEDEQKEENLVYHSEK 626

Query:   583 LAIAFGLLFIPPGLPIRVVKNLRVCSDCHNATKYISKITQREILVRDAVRFHLFKNGECS 642
             LA+AF +L    G  I+V KNLR C DCH A K+IS IT+R+I VRD+ RFH F+NG+CS
Sbjct:   627 LAVAFAILSTEEGTAIKVFKNLRSCVDCHGAIKFISNITKRKITVRDSTRFHCFENGQCS 686

Query:   643 CGDFW 647
             CGD+W
Sbjct:   687 CGDYW 691

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2124137 DOT4 "DEFECTIVELY ORGANIZED TRIBUTARIES 4" [Arabidopsis thaliana (taxid:3702)]

 Score = 1194 (425.4 bits), Expect = 4.8e-129, Sum P(2) = 4.8e-129
 Identities = 229/537 (42%), Positives = 344/537 (64%)

Query:   112 NTMITGLLRRGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLEREAIDLFREMRLEGLA 171
             NT++    + G ++ ++ +FR M D+  +S+T+MI G  + GL  EA+ LF EM  EG++
Sbjct:   335 NTLLDMYSKCGDLDSAKAVFREMSDRSVVSYTSMIAGYAREGLAGEAVKLFEEMEEEGIS 394

Query:   172 MDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESV 231
              D +T  +VL  C     L+EGK++H +I  ND   ++FV +AL+DMY KC S++ AE V
Sbjct:   395 PDVYTVTAVLNCCARYRLLDEGKRVHEWIKENDLGFDIFVSNALMDMYAKCGSMQEAELV 454

Query:   232 FRTMAWKNVVSWTAMLVGYGQNGCSEEAVKIF-CNMQRNGIEPDDFTLGSVISSCANLAS 290
             F  M  K+++SW  ++ GY +N  + EA+ +F   ++     PD+ T+  V+ +CA+L++
Sbjct:   455 FSEMRVKDIISWNTIIGGYSKNCYANEALSLFNLLLEEKRFSPDERTVACVLPACASLSA 514

Query:   291 LEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSG 350
              ++G + HG  +  G  S   V+N+LV  Y KCG +  +H LF+++  +D VSWT +++G
Sbjct:   515 FDKGREIHGYIMRNGYFSDRHVANSLVDMYAKCGALLLAHMLFDDIASKDLVSWTVMIAG 574

Query:   351 YAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRP 410
             Y   G   E I LF +M   G++ DE++ + +L ACS +GLV++G  +F IM  E  I P
Sbjct:   575 YGMHGFGKEAIALFNQMRQAGIEADEISFVSLLYACSHSGLVDEGWRFFNIMRHECKIEP 634

Query:   411 IHDHYTCMIDILSRAGRLEEAKSFINKMPFPPDAIGWATLLSSCRIHGNVEIGKWAAESL 470
               +HY C++D+L+R G L +A  FI  MP PPDA  W  LL  CRIH +V++ +  AE +
Sbjct:   635 TVEHYACIVDMLARTGDLIKAYRFIENMPIPPDATIWGALLCGCRIHHDVKLAEKVAEKV 694

Query:   471 LELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREKGVRKDPGCSWIKYKSRVHIFSAD 530
              EL+P N   YVL+++IYA   KW+ V +LR+ + ++G+RK+PGCSWI+ K RV+IF A 
Sbjct:   695 FELEPENTGYYVLMANIYAEAEKWEQVKRLRKRIGQRGLRKNPGCSWIEIKGRVNIFVAG 754

Query:   531 DWSSPYSDQIYAELEKLNRKMIKEGYVPDMSSVLHDVELSEKIKMLNHHSEKLAIAFGLL 590
             D S+P ++ I A L K+  +MI+EGY P     L D E  EK + L  HSEKLA+A G++
Sbjct:   755 DSSNPETENIEAFLRKVRARMIEEGYSPLTKYALIDAEEMEKEEALCGHSEKLAMALGII 814

Query:   591 FIPPGLPIRVVKNLRVCSDCHNATKYISKITQREILVRDAVRFHLFKNGECSCGDFW 647
                 G  IRV KNLRVC DCH   K++SK+T+REI++RD+ RFH FK+G CSC  FW
Sbjct:   815 SSGHGKIIRVTKNLRVCGDCHEMAKFMSKLTRREIVLRDSNRFHQFKDGHCSCRGFW 871

GO:0009507 "chloroplast" evidence=ISM

GO:0010087 "phloem or xylem histogenesis" evidence=IMP

GO:0010305 "leaf vascular tissue pattern formation" evidence=IMP

GO:0010588 "cotyledon vascular tissue pattern formation" evidence=IMP

GO:0048366 "leaf development" evidence=IMP

TAIR|locus:2082886 EMB2261 "embryo defective 2261" [Arabidopsis thaliana (taxid:3702)]

 Score = 1174 (418.3 bits), Expect = 1.0e-128, Sum P(2) = 1.0e-128
 Identities = 226/532 (42%), Positives = 337/532 (63%)

Query:   122 GLVEESRRLFRGMKDKDSISWTTMITGLMQN-GLEREAIDLFREMRLEG-LAMDQFTFGS 179
             G V++ R++F  M+D   +SWT +ITG M+N  L  EAI+LF EM  +G +  + FTF S
Sbjct:   319 GSVDDCRKVFDRMEDHSVMSWTALITGYMKNCNLATEAINLFSEMITQGHVEPNHFTFSS 378

Query:   180 VLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWKN 239
                ACG L     GKQ+     +     N  V ++++ M+ K   ++ A+  F +++ KN
Sbjct:   379 AFKACGNLSDPRVGKQVLGQAFKRGLASNSSVANSVISMFVKSDRMEDAQRAFESLSEKN 438

Query:   240 VVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHG 299
             +VS+   L G  +N   E+A K+   +    +    FT  S++S  AN+ S+ +G Q H 
Sbjct:   439 LVSYNTFLDGTCRNLNFEQAFKLLSEITERELGVSAFTFASLLSGVANVGSIRKGEQIHS 498

Query:   300 RSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANE 359
             + +  GL     V NAL++ Y KCG+I+ + R+FN M  R+ +SWT++++G+AK G A  
Sbjct:   499 QVVKLGLSCNQPVCNALISMYSKCGSIDTASRVFNFMENRNVISWTSMITGFAKHGFAIR 558

Query:   360 TIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMI 419
              ++ F +M+  G+KP+EVT + +LSACS  GLV +G  +F  M +++ I+P  +HY CM+
Sbjct:   559 VLETFNQMIEEGVKPNEVTYVAILSACSHVGLVSEGWRHFNSMYEDHKIKPKMEHYACMV 618

Query:   420 DILSRAGRLEEAKSFINKMPFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPA 479
             D+L RAG L +A  FIN MPF  D + W T L +CR+H N E+GK AA  +LELDP  PA
Sbjct:   619 DLLCRAGLLTDAFEFINTMPFQADVLVWRTFLGACRVHSNTELGKLAARKILELDPNEPA 678

Query:   480 SYVLLSSIYASKGKWDHVSQLRRTMREKGVRKDPGCSWIKYKSRVHIFSADDWSSPYSDQ 539
             +Y+ LS+IYA  GKW+  +++RR M+E+ + K+ GCSWI+   ++H F   D + P + Q
Sbjct:   679 AYIQLSNIYACAGKWEESTEMRRKMKERNLVKEGGCSWIEVGDKIHKFYVGDTAHPNAHQ 738

Query:   540 IYAELEKLNRKMIKEGYVPDMSSVLHDVEL----SEKIKMLNHHSEKLAIAFGLLFIPPG 595
             IY EL++L  ++ + GYVPD   VLH +E     +EK ++L  HSEK+A+AFGL+     
Sbjct:   739 IYDELDRLITEIKRCGYVPDTDLVLHKLEEENDEAEKERLLYQHSEKIAVAFGLISTSKS 798

Query:   596 LPIRVVKNLRVCSDCHNATKYISKITQREILVRDAVRFHLFKNGECSCGDFW 647
              P+RV KNLRVC DCHNA KYIS ++ REI++RD  RFH FK+G+CSC D+W
Sbjct:   799 RPVRVFKNLRVCGDCHNAMKYISTVSGREIVLRDLNRFHHFKDGKCSCNDYW 850

GO:0009507 "chloroplast" evidence=ISM

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

TAIR|locus:2148101 AT5G16860 "AT5G16860" [Arabidopsis thaliana (taxid:3702)]

 Score = 1251 (445.4 bits), Expect = 2.0e-127, P = 2.0e-127
 Identities = 258/665 (38%), Positives = 394/665 (59%)

Query:     1 MPFHDGVSWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDL 60
             M   D VSWN +I  +A  G    A+++++ M  +       IT   +L   +S     L
Sbjct:   188 MSVWDVVSWNSIIESYAKLGKPKVALEMFSRMTNEFGCRPDNITLVNVLPPCASLGTHSL 247

Query:    61 GRQIHGHILKFGFGSYVFVGSPLVDMYAKLGLIYDAKRGFDELPEKNIVMYNTMITGLLR 120
             G+Q+H   +       +FVG+ LVDMYAK G++ +A   F  +  K++V +N M+ G  +
Sbjct:   248 GKQLHCFAVTSEMIQNMFVGNCLVDMYAKCGMMDEANTVFSNMSVKDVVSWNAMVAGYSQ 307

Query:   121 RGLVEESRRLFRGMKDK----DSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFT 176
              G  E++ RLF  M+++    D ++W+  I+G  Q GL  EA+ + R+M   G+  ++ T
Sbjct:   308 IGRFEDAVRLFEKMQEEKIKMDVVTWSAAISGYAQRGLGYEALGVCRQMLSSGIKPNEVT 367

Query:   177 FGSVLTACGGLLALEEGKQIHAFIIR-------NDHKDNVFVGSALVDMYCKCKSIKYAE 229
               SVL+ C  + AL  GK+IH + I+       N H D   V + L+DMY KCK +  A 
Sbjct:   368 LISVLSGCASVGALMHGKEIHCYAIKYPIDLRKNGHGDENMVINQLIDMYAKCKKVDTAR 427

Query:   230 SVFRTMAWK--NVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIE--PDDFTLGSVISSC 285
             ++F +++ K  +VV+WT M+ GY Q+G + +A+++   M     +  P+ FT+   + +C
Sbjct:   428 AMFDSLSPKERDVVTWTVMIGGYSQHGDANKALELLSEMFEEDCQTRPNAFTISCALVAC 487

Query:   286 ANLASLEEGTQFHGRSLVTGLISF-ITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSW 344
             A+LA+L  G Q H  +L     +  + VSN L+  Y KCG+I D+  +F+ M  ++EV+W
Sbjct:   488 ASLAALRIGKQIHAYALRNQQNAVPLFVSNCLIDMYAKCGSISDARLVFDNMMAKNEVTW 547

Query:   345 TALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVK 404
             T+L++GY   G   E + +F++M   G K D VTL+ VL ACS +G++++G  YF  M  
Sbjct:   548 TSLMTGYGMHGYGEEALGIFDEMRRIGFKLDGVTLLVVLYACSHSGMIDQGMEYFNRMKT 607

Query:   405 EYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKMPFPPDAIGWATLLSSCRIHGNVEIGK 464
              +G+ P  +HY C++D+L RAGRL  A   I +MP  P  + W   LS CRIHG VE+G+
Sbjct:   608 VFGVSPGPEHYACLVDLLGRAGRLNAALRLIEEMPMEPPPVVWVAFLSCCRIHGKVELGE 667

Query:   465 WAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREKGVRKDPGCSWIKYKSRV 524
             +AAE + EL   +  SY LLS++YA+ G+W  V+++R  MR KGV+K PGCSW++     
Sbjct:   668 YAAEKITELASNHDGSYTLLSNLYANAGRWKDVTRIRSLMRHKGVKKRPGCSWVEGIKGT 727

Query:   525 HIFSADDWSSPYSDQIYAEL-EKLNRKMIKE-GYVPDMSSVLHDVELSEKIKMLNHHSEK 582
               F   D + P++ +IY  L + + R  IK+ GYVP+    LHDV+  EK  +L  HSEK
Sbjct:   728 TTFFVGDKTHPHAKEIYQVLLDHMQR--IKDIGYVPETGFALHDVDDEEKDDLLFEHSEK 785

Query:   583 LAIAFGLLFIPPGLPIRVVKNLRVCSDCHNATKYISKITQREILVRDAVRFHLFKNGECS 642
             LA+A+G+L  P G  IR+ KNLRVC DCH A  Y+S+I   +I++RD+ RFH FKNG CS
Sbjct:   786 LALAYGILTTPQGAAIRITKNLRVCGDCHTAFTYMSRIIDHDIILRDSSRFHHFKNGSCS 845

Query:   643 CGDFW 647
             C  +W
Sbjct:   846 CKGYW 850

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 1246 (443.7 bits), Expect = 6.8e-127, P = 6.8e-127
 Identities = 241/565 (42%), Positives = 363/565 (64%)

Query:    83 LVDMYAKLGLIYDAKRGFDELPEKNIVMYNTMITGLLRRGLVEESRRLFRGMKDKDSISW 142
             L+  + K   I +A++ FD +  +++V +NT+ITG  + G ++E+R+LF     +D  +W
Sbjct:   225 LLGGFVKKKKIVEARQFFDSMNVRDVVSWNTIITGYAQSGKIDEARQLFDESPVQDVFTW 284

Query:   143 TTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIR 202
             T M++G +QN +  EA +LF +M       ++ ++ ++L        +E  K++  F + 
Sbjct:   285 TAMVSGYIQNRMVEEARELFDKMP----ERNEVSWNAMLAGYVQGERMEMAKEL--FDVM 338

Query:   203 NDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWKNVVSWTAMLVGYGQNGCSEEAVKI 262
                  NV   + ++  Y +C  I  A+++F  M  ++ VSW AM+ GY Q+G S EA+++
Sbjct:   339 PCR--NVSTWNTMITGYAQCGKISEAKNLFDKMPKRDPVSWAAMIAGYSQSGHSFEALRL 396

Query:   263 FCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGK 322
             F  M+R G   +  +  S +S+CA++ +LE G Q HGR +  G  +   V NAL+  Y K
Sbjct:   397 FVQMEREGGRLNRSSFSSALSTCADVVALELGKQLHGRLVKGGYETGCFVGNALLLMYCK 456

Query:   323 CGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGV 382
             CG+IE+++ LF EM  +D VSW  +++GY++ G     +  FE M   GLKPD+ T++ V
Sbjct:   457 CGSIEEANDLFKEMAGKDIVSWNTMIAGYSRHGFGEVALRFFESMKREGLKPDDATMVAV 516

Query:   383 LSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKMPFPP 442
             LSACS  GLV+KGR YF  M ++YG+ P   HY CM+D+L RAG LE+A + +  MPF P
Sbjct:   517 LSACSHTGLVDKGRQYFYTMTQDYGVMPNSQHYACMVDLLGRAGLLEDAHNLMKNMPFEP 576

Query:   443 DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRR 502
             DA  W TLL + R+HGN E+ + AA+ +  ++P N   YVLLS++YAS G+W  V +LR 
Sbjct:   577 DAAIWGTLLGASRVHGNTELAETAADKIFAMEPENSGMYVLLSNLYASSGRWGDVGKLRV 636

Query:   503 TMREKGVRKDPGCSWIKYKSRVHIFSADDWSSPYSDQIYAELEKLNRKMIKEGYVPDMSS 562
              MR+KGV+K PG SWI+ +++ H FS  D   P  D+I+A LE+L+ +M K GYV   S 
Sbjct:   637 RMRDKGVKKVPGYSWIEIQNKTHTFSVGDEFHPEKDEIFAFLEELDLRMKKAGYVSKTSV 696

Query:   563 VLHDVELSEKIKMLNHHSEKLAIAFGLLFIPPGLPIRVVKNLRVCSDCHNATKYISKITQ 622
             VLHDVE  EK +M+ +HSE+LA+A+G++ +  G PIRV+KNLRVC DCHNA KY+++IT 
Sbjct:   697 VLHDVEEEEKERMVRYHSERLAVAYGIMRVSSGRPIRVIKNLRVCEDCHNAIKYMARITG 756

Query:   623 REILVRDAVRFHLFKNGECSCGDFW 647
             R I++RD  RFH FK+G CSCGD+W
Sbjct:   757 RLIILRDNNRFHHFKDGSCSCGDYW 781

GO:0005739 "mitochondrion" evidence=ISM

TAIR|locus:2196583 ECB2 "EARLY CHLOROPLAST BIOGENESIS2" [Arabidopsis thaliana (taxid:3702)]

 Score = 1052 (375.4 bits), Expect = 3.4e-126, Sum P(2) = 3.4e-126
 Identities = 211/540 (39%), Positives = 324/540 (60%)

Query:   107 NIVMYNTMITGLLRRGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLEREAIDLFREMR 166
             +I + N++    L  G   E+ +LF  M+ KD +SWTTMI+G   N L  +AID +R M 
Sbjct:   331 DISVCNSLTQMYLNAGSWREAEKLFSRMERKDIVSWTTMISGYEYNFLPDKAIDTYRMMD 390

Query:   167 LEGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIK 226
              + +  D+ T  +VL+AC  L  L+ G ++H   I+      V V + L++MY KCK I 
Sbjct:   391 QDSVKPDEITVAAVLSACATLGDLDTGVELHKLAIKARLISYVIVANNLINMYSKCKCID 450

Query:   227 YAESVFRTMAWKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCA 286
              A  +F  +  KNV+SWT+++ G   N    EA+ IF    +  ++P+  TL + +++CA
Sbjct:   451 KALDIFHNIPRKNVISWTSIIAGLRLNNRCFEAL-IFLRQMKMTLQPNAITLTAALAACA 509

Query:   287 NLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTA 346
              + +L  G + H   L TG+     + NAL+  Y +CG +  +   FN    +D  SW  
Sbjct:   510 RIGALMCGKEIHAHVLRTGVGLDDFLPNALLDMYVRCGRMNTAWSQFNSQK-KDVTSWNI 568

Query:   347 LVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEY 406
             L++GY++ G+ +  ++LF++M+   ++PDE+T I +L  CS++ +V +G  YF  M ++Y
Sbjct:   569 LLTGYSERGQGSMVVELFDRMVKSRVRPDEITFISLLCGCSKSQMVRQGLMYFSKM-EDY 627

Query:   407 GIRPIHDHYTCMIDILSRAGRLEEAKSFINKMPFPPDAIGWATLLSSCRIHGNVEIGKWA 466
             G+ P   HY C++D+L RAG L+EA  FI KMP  PD   W  LL++CRIH  +++G+ +
Sbjct:   628 GVTPNLKHYACVVDLLGRAGELQEAHKFIQKMPVTPDPAVWGALLNACRIHHKIDLGELS 687

Query:   467 AESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREKGVRKDPGCSWIKYKSRVHI 526
             A+ + ELD  +   Y+LL ++YA  GKW  V+++RR M+E G+  D GCSW++ K +VH 
Sbjct:   688 AQHIFELDKKSVGYYILLCNLYADCGKWREVAKVRRMMKENGLTVDAGCSWVEVKGKVHA 747

Query:   527 FSADDWSSPYSDQIYAELEKLNRKMIKEGYVP-DMSSVLHDVELSEKIKMLNHHSEKLAI 585
             F +DD   P + +I   LE    KM + G      SS + + E+S   ++   HSE+ AI
Sbjct:   748 FLSDDKYHPQTKEINTVLEGFYEKMSEVGLTKISESSSMDETEISRD-EIFCGHSERKAI 806

Query:   586 AFGLLFIPPGLPIRVVKNLRVCSDCHNATKYISKITQREILVRDAVRFHLFKNGECSCGD 645
             AFGL+   PG+PI V KNL +C +CH+  K+ISK  +REI VRDA  FH FK+GECSCGD
Sbjct:   807 AFGLINTVPGMPIWVTKNLSMCENCHDTVKFISKTVRREISVRDAEHFHHFKDGECSCGD 866

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0009451 "RNA modification" evidence=IMP

GO:0009658 "chloroplast organization" evidence=IMP

GO:0040007 "growth" evidence=IMP

GO:0009416 "response to light stimulus" evidence=IEP

---

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)
Q9CAA8	PP108_ARATH	No assigned EC number	0.6676	0.9984	0.8694	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: fgenesh4_pm.C_LG_X000539 hypothetical protein (743 aa) (Populus trichocarpa)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	647
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-174
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-164
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	8e-73
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	2e-65
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	6e-50
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	8e-41
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	6e-35
pfam14432	116	pfam14432, DYW_deaminase, DYW family of nucleic ac	2e-24
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	4e-11
pfam13041	50	pfam13041, PPR_2, PPR repeat family	7e-11
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	6e-10
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	3e-09
pfam13041	50	pfam13041, PPR_2, PPR repeat family	9e-09
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-08
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	3e-08
pfam13041	50	pfam13041, PPR_2, PPR repeat family	4e-08
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	5e-07
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-06
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	7e-06
pfam01535	31	pfam01535, PPR, PPR repeat	2e-05
pfam01535	31	pfam01535, PPR, PPR repeat	3e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	1e-04
pfam12854	34	pfam12854, PPR_1, PPR repeat	2e-04
pfam01535	31	pfam01535, PPR, PPR repeat	3e-04
pfam01535	31	pfam01535, PPR, PPR repeat	3e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	5e-04
pfam01535	31	pfam01535, PPR, PPR repeat	6e-04
pfam12854	34	pfam12854, PPR_1, PPR repeat	7e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	8e-04
pfam13041	50	pfam13041, PPR_2, PPR repeat family	0.001
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.002
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	0.002
COG0457	291	COG0457, NrfG, FOG: TPR repeat [General function p	0.004

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

 Score =  518 bits (1335), Expect = e-174
 Identities = 255/647 (39%), Positives = 375/647 (57%), Gaps = 39/647 (6%)

Query: 1   MPFHDGVSWNLLISGHASHGSVNDAVKVYNLMLKDGLG-NLSRITFSTMLI-MSSSRRCV 58
           MP  D +SWN +ISG+  +G   + ++++  M +  +  +L  IT       +    R  
Sbjct: 248 MPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDER-- 305

Query: 59  DLGRQIHGHILKFGFGSYVFVGSPLVDMYAKLGLIYDAKRGFDELPEKNIVMYNTMITGL 118
            LGR++HG+++K GF   V V + L+ MY  LG   +A                      
Sbjct: 306 -LGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEA---------------------- 342

Query: 119 LRRGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFG 178
                     ++F  M+ KD++SWT MI+G  +NGL  +A++ +  M  + ++ D+ T  
Sbjct: 343 ---------EKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIA 393

Query: 179 SVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWK 238
           SVL+AC  L  L+ G ++H    R      V V +AL++MY KCK I  A  VF  +  K
Sbjct: 394 SVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEK 453

Query: 239 NVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFH 298
           +V+SWT+++ G   N    EA+  F  M    ++P+  TL + +S+CA + +L  G + H
Sbjct: 454 DVISWTSIIAGLRLNNRCFEALIFFRQMLLT-LKPNSVTLIAALSACARIGALMCGKEIH 512

Query: 299 GRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKAN 358
              L TG+     + NAL+  Y +CG +  +   FN  + +D VSW  L++GY   GK +
Sbjct: 513 AHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFN-SHEKDVVSWNILLTGYVAHGKGS 571

Query: 359 ETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCM 418
             ++LF +M+  G+ PDEVT I +L ACSR+G+V +G  YF  M ++Y I P   HY C+
Sbjct: 572 MAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACV 631

Query: 419 IDILSRAGRLEEAKSFINKMPFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNP 478
           +D+L RAG+L EA +FINKMP  PD   W  LL++CRIH +VE+G+ AA+ + ELDP + 
Sbjct: 632 VDLLGRAGKLTEAYNFINKMPITPDPAVWGALLNACRIHRHVELGELAAQHIFELDPNSV 691

Query: 479 ASYVLLSSIYASKGKWDHVSQLRRTMREKGVRKDPGCSWIKYKSRVHIFSADDWSSPYSD 538
             Y+LL ++YA  GKWD V+++R+TMRE G+  DPGCSW++ K +VH F  DD S P   
Sbjct: 692 GYYILLCNLYADAGKWDEVARVRKTMRENGLTVDPGCSWVEVKGKVHAFLTDDESHPQIK 751

Query: 539 QIYAELEKLNRKMIKEGYVPDMSSVLHDVELSEKIKMLNHHSEKLAIAFGLLFIPPGLPI 598
           +I   LE    KM   G     SS + ++E+S K  +   HSE+LAIAFGL+   PG+PI
Sbjct: 752 EINTVLEGFYEKMKASGLAGSESSSMDEIEVS-KDDIFCGHSERLAIAFGLINTVPGMPI 810

Query: 599 RVVKNLRVCSDCHNATKYISKITQREILVRDAVRFHLFKNGECSCGD 645
            V KNL +C +CHN  K+ISKI +REI VRD  +FH FK+GECSCGD
Sbjct: 811 WVTKNLYMCENCHNTVKFISKIVRREISVRDTEQFHHFKDGECSCGD 857

Length = 857

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

 Score =  487 bits (1254), Expect = e-164
 Identities = 214/549 (38%), Positives = 335/549 (61%), Gaps = 4/549 (0%)

Query: 99  GFDELPEKNIVMYNTMITGLLRRGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLEREA 158
           GF+  P++   M N ++   ++ G++ ++RRLF  M +++  SW T+I GL+  G  REA
Sbjct: 153 GFE--PDQ--YMMNRVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREA 208

Query: 159 IDLFREMRLEGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDM 218
             LFREM  +G   +  TF  +L A  GL +   G+Q+H  +++     + FV  AL+DM
Sbjct: 209 FALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDM 268

Query: 219 YCKCKSIKYAESVFRTMAWKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTL 278
           Y KC  I+ A  VF  M  K  V+W +ML GY  +G SEEA+ ++  M+ +G+  D FT 
Sbjct: 269 YSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTF 328

Query: 279 GSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNV 338
             +I   + LA LE   Q H   + TG    I  + ALV  Y K G +ED+  +F+ M  
Sbjct: 329 SIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR 388

Query: 339 RDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHY 398
           ++ +SW AL++GY   G+  + +++FE+M++ G+ P+ VT + VLSAC  +GL E+G   
Sbjct: 389 KNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEI 448

Query: 399 FEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKMPFPPDAIGWATLLSSCRIHG 458
           F+ M + + I+P   HY CMI++L R G L+EA + I + PF P    WA LL++CRIH 
Sbjct: 449 FQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIHK 508

Query: 459 NVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREKGVRKDPGCSWI 518
           N+E+G+ AAE L  + P    +YV+L ++Y S G+    +++  T++ KG+   P C+WI
Sbjct: 509 NLELGRLAAEKLYGMGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSMHPACTWI 568

Query: 519 KYKSRVHIFSADDWSSPYSDQIYAELEKLNRKMIKEGYVPDMSSVLHDVELSEKIKMLNH 578
           + K + H F + D   P S +IY +L++L +++ + GYV + + +L DV+  E+     +
Sbjct: 569 EVKKQDHSFFSGDRLHPQSREIYQKLDELMKEISEYGYVAEENELLPDVDEDEEKVSGRY 628

Query: 579 HSEKLAIAFGLLFIPPGLPIRVVKNLRVCSDCHNATKYISKITQREILVRDAVRFHLFKN 638
           HSEKLAIAFGL+      P+++ ++ R+C DCH   K+I+ +T+REI+VRDA RFH FK 
Sbjct: 629 HSEKLAIAFGLINTSEWTPLQITQSHRICKDCHKVIKFIALVTKREIVVRDASRFHHFKL 688

Query: 639 GECSCGDFW 647
           G+CSCGD+W
Sbjct: 689 GKCSCGDYW 697

Length = 697

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

 Score =  250 bits (641), Expect = 8e-73
 Identities = 150/471 (31%), Positives = 238/471 (50%), Gaps = 54/471 (11%)

Query: 1   MPFHDGVSWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRC--- 57
           MP  D  SWN+L+ G+A  G  ++A+ +Y+ ML  G+      TF  +L     R C   
Sbjct: 147 MPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGV-RPDVYTFPCVL-----RTCGGI 200

Query: 58  VDL--GRQIHGHILKFGFGSYVFVGSPLVDMYAKLGLIYDAKRGFDELPEKNIVMYNTMI 115
            DL  GR++H H+++FGF   V V + L+ MY K G +  A                   
Sbjct: 201 PDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSA------------------- 241

Query: 116 TGLLRRGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQF 175
                       R +F  M  +D ISW  MI+G  +NG   E ++LF  MR   +  D  
Sbjct: 242 ------------RLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLM 289

Query: 176 TFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTM 235
           T  SV++AC  L     G+++H ++++     +V V ++L+ MY    S   AE VF  M
Sbjct: 290 TITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRM 349

Query: 236 AWKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGT 295
             K+ VSWTAM+ GY +NG  ++A++ +  M+++ + PD+ T+ SV+S+CA L  L+ G 
Sbjct: 350 ETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGV 409

Query: 296 QFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFG 355
           + H  +   GLIS++ V+NAL+  Y KC  I+ +  +F+ +  +D +SWT++++G     
Sbjct: 410 KLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNN 469

Query: 356 KANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGR----HYFEIMVKEYGIRPI 411
           +  E +  F +ML   LKP+ VTLI  LSAC+R G +  G+    H     +   G  P 
Sbjct: 470 RCFEALIFFRQMLLT-LKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLP- 527

Query: 412 HDHYTCMIDILSRAGRLEEAKSFINKMPFPPDAIGWATLLSSCRIHGNVEI 462
                 ++D+  R GR+  A +  N      D + W  LL+    HG   +
Sbjct: 528 ----NALLDLYVRCGRMNYAWNQFNSH--EKDVVSWNILLTGYVAHGKGSM 572

Length = 857

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

 Score =  230 bits (588), Expect = 2e-65
 Identities = 109/365 (29%), Positives = 193/365 (52%), Gaps = 10/365 (2%)

Query: 97  KRGFDELPEKNIVMYNTMITGLLRRGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLER 156
            R     P   + + N M++  +R G +  +  +F  M ++D  SW  ++ G  + G   
Sbjct: 110 SRALSSHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFD 169

Query: 157 EAIDLFREMRLEGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALV 216
           EA+ L+  M   G+  D +TF  VL  CGG+  L  G+++HA ++R   + +V V +AL+
Sbjct: 170 EALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALI 229

Query: 217 DMYCKCKSIKYAESVFRTMAWKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDF 276
            MY KC  +  A  VF  M  ++ +SW AM+ GY +NG   E +++F  M+   ++PD  
Sbjct: 230 TMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLM 289

Query: 277 TLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEM 336
           T+ SVIS+C  L     G + HG  + TG    ++V N+L+  Y   G+  ++ ++F+ M
Sbjct: 290 TITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRM 349

Query: 337 NVRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGR 396
             +D VSWTA++SGY K G  ++ ++ +  M    + PDE+T+  VLSAC+  G ++ G 
Sbjct: 350 ETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVG- 408

Query: 397 HYFEIMVKEYGIRPIHDHYTC----MIDILSRAGRLEEAKSFINKMPFPPDAIGWATLLS 452
               + + E   R     Y      +I++ S+   +++A    + +P   D I W ++++
Sbjct: 409 ----VKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIP-EKDVISWTSIIA 463

Query: 453 SCRIH 457
             R++
Sbjct: 464 GLRLN 468

Length = 857

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

 Score =  184 bits (469), Expect = 6e-50
 Identities = 96/294 (32%), Positives = 144/294 (48%), Gaps = 32/294 (10%)

Query: 1   MPFHDGVSWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDL 60
           MP  +  SW  +I G    G+  +A  ++  M +DG     R TF  ML  S+       
Sbjct: 184 MPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPR-TFVVMLRASAGLGSARA 242

Query: 61  GRQIHGHILKFGFGSYVFVGSPLVDMYAKLGLIYDAKRGFDELPEKNIVMYNTMITGLLR 120
           G+Q+H  +LK G     FV   L+DMY+K G I DA+  FD +PEK  V           
Sbjct: 243 GQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTV----------- 291

Query: 121 RGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSV 180
                               +W +M+ G   +G   EA+ L+ EMR  G+++DQFTF  +
Sbjct: 292 --------------------AWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIM 331

Query: 181 LTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWKNV 240
           +     L  LE  KQ HA +IR     ++   +ALVD+Y K   ++ A +VF  M  KN+
Sbjct: 332 IRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNL 391

Query: 241 VSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEG 294
           +SW A++ GYG +G   +AV++F  M   G+ P+  T  +V+S+C      E+G
Sbjct: 392 ISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQG 445

Length = 697

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

 Score =  159 bits (403), Expect = 8e-41
 Identities = 90/336 (26%), Positives = 163/336 (48%), Gaps = 7/336 (2%)

Query: 128 RRLFRGMKDKDSISWTTMIT-----GLMQNGLEREAIDLFREMRLEGLAMDQFTFGSVLT 182
           R+  RG+    S S +T  +      L  +G   +A+ L   M+   + +D+  + ++  
Sbjct: 35  RKRSRGLSVAASSSSSTHDSNSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFR 94

Query: 183 ACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWKNVVS 242
            C    A+EEG ++ +  + +     V +G+A++ M+ +   + +A  VF  M  +++ S
Sbjct: 95  LCEWKRAVEEGSRVCSRALSSHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPERDLFS 154

Query: 243 WTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSL 302
           W  ++ GY + G  +EA+ ++  M   G+ PD +T   V+ +C  +  L  G + H   +
Sbjct: 155 WNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVV 214

Query: 303 VTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETID 362
             G    + V NAL+T Y KCG++  +  +F+ M  RD +SW A++SGY + G+  E ++
Sbjct: 215 RFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLE 274

Query: 363 LFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDIL 422
           LF  M    + PD +T+  V+SAC   G    GR     +VK  G          +I + 
Sbjct: 275 LFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKT-GFAVDVSVCNSLIQMY 333

Query: 423 SRAGRLEEAKSFINKMPFPPDAIGWATLLSSCRIHG 458
              G   EA+   ++M    DA+ W  ++S    +G
Sbjct: 334 LSLGSWGEAEKVFSRMET-KDAVSWTAMISGYEKNG 368

Length = 857

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

 Score =  140 bits (354), Expect = 6e-35
 Identities = 84/324 (25%), Positives = 165/324 (50%), Gaps = 5/324 (1%)

Query: 137 KDSISWTTMITGLMQNGLEREAIDLFREMRLEG-LAMDQFTFGSVLTACGGLLALEEGKQ 195
           K  +S  + I  L+  G  REA++LF  +       +   T+ +++ AC  L ++   K 
Sbjct: 85  KSGVSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKA 144

Query: 196 IHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWKNVVSWTAMLVGYGQNGC 255
           ++  +  +  + + ++ + ++ M+ KC  +  A  +F  M  +N+ SW  ++ G    G 
Sbjct: 145 VYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGN 204

Query: 256 SEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNA 315
             EA  +F  M  +G + +  T   ++ + A L S   G Q H   L TG++    VS A
Sbjct: 205 YREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCA 264

Query: 316 LVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPD 375
           L+  Y KCG+IED+  +F+ M  +  V+W ++++GYA  G + E + L+ +M   G+  D
Sbjct: 265 LIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSID 324

Query: 376 EVTLIGVLSACSRAGLVEKGRHYFEIMVKE-YGIRPIHDHYTCMIDILSRAGRLEEAKSF 434
           + T   ++   SR  L+E  +     +++  + +  + +  T ++D+ S+ GR+E+A++ 
Sbjct: 325 QFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVAN--TALVDLYSKWGRMEDARNV 382

Query: 435 INKMPFPPDAIGWATLLSSCRIHG 458
            ++MP   + I W  L++    HG
Sbjct: 383 FDRMPR-KNLISWNALIAGYGNHG 405

Length = 697

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

 Score = 98.2 bits (245), Expect = 2e-24
 Identities = 52/132 (39%), Positives = 71/132 (53%), Gaps = 23/132 (17%)

Query: 513 PGCSWIKYKSRVHIFSADDWSSPYSDQIYAELEKLNRKMIKEGYVPDMSSVLHDVELSE- 571
           PGC W +         + D S P S       E+L +++  EG VP+   + HDV+  E 
Sbjct: 1   PGCVWSE----GKKTLSGDGSHPTSK------EELFQRIKVEGVVPETKEIGHDVDAEEF 50

Query: 572 -----KIKMLNHHSEKLAIAFGLLFIPPGLPIRVVKNL-RVCSDCHNATKYISKITQREI 625
                K K+L  H+EK A+A+GLL        R++K L R+C DCH   +YI+K T REI
Sbjct: 51  RDNGIKGKLLASHAEKQALAYGLL------TTRIIKVLKRMCGDCHEFFRYIAKYTGREI 104

Query: 626 LVRDAVRFHLFK 637
           +VRD  RFH FK
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|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 66.1 bits (161), Expect = 4e-11
 Identities = 75/356 (21%), Positives = 146/356 (41%), Gaps = 59/356 (16%)

Query: 123 LVEESRRLFRGMKDKDSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSVLT 182
           LV+E      G+K  D   +TT+I+   ++G      ++F EM   G+  +  TFG+++ 
Sbjct: 462 LVQE-----AGLK-ADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALID 515

Query: 183 ACG--GLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWKNV 240
            C   G +A    K   A+ I                                 M  KNV
Sbjct: 516 GCARAGQVA----KAFGAYGI---------------------------------MRSKNV 538

Query: 241 ----VSWTAMLVGYGQNGCSEEAVKIFCNM--QRNGIEPDDFTLGSVISSCANLASLEEG 294
               V + A++   GQ+G  + A  +   M  + + I+PD  T+G+++ +CAN   ++  
Sbjct: 539 KPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRA 598

Query: 295 TQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMN----VRDEVSWTALVSG 350
            + +       +     V    V    + G+ + +  ++++M       DEV ++ALV  
Sbjct: 599 KEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDV 658

Query: 351 YAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRP 410
               G  ++  ++ +     G+K   V+   ++ ACS A   +K    +E  +K   +RP
Sbjct: 659 AGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYE-DIKSIKLRP 717

Query: 411 IHDHYTCMIDILSRAGRLEEAKSFINKMP---FPPDAIGWATLLSSCRIHGNVEIG 463
                  +I  L    +L +A   +++M      P+ I ++ LL +     + ++G
Sbjct: 718 TVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVG 773

Length = 1060

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

 Score = 57.4 bits (140), Expect = 7e-11
 Identities = 16/50 (32%), Positives = 30/50 (60%)

Query: 238 KNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCAN 287
            +VV++  ++ GY + G  EEA+K+F  M++ GI+P+ +T   +I     
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 62.2 bits (151), Expect = 6e-10
 Identities = 70/325 (21%), Positives = 133/325 (40%), Gaps = 42/325 (12%)

Query: 105 EKNIVMYNTMITGLLRRGLVEESRRLFRGMKDK----DSISWTTMITGLMQNGLEREAID 160
           E N+  +  +I G  R G V ++   +  M+ K    D + +  +I+   Q+G    A D
Sbjct: 504 EANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFD 563

Query: 161 LFREMRLEGLAM--DQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDM 218
           +  EM+ E   +  D  T G+++ AC     ++  K+++  I   + K    V +  V+ 
Sbjct: 564 VLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNS 623

Query: 219 YCKCKSIKYAESVFRTMAWKNV----VSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPD 274
             +     +A S++  M  K V    V ++A++   G  G  ++A +I  + ++ GI+  
Sbjct: 624 CSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLG 683

Query: 275 DFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFN 334
             +  S++ +C+N  + ++  + +       L   ++  NAL+                 
Sbjct: 684 TVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALI----------------- 726

Query: 335 EMNVRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEK 394
                     TAL  G  +  KA E +    +M   GL P+ +T   +L A  R    + 
Sbjct: 727 ----------TALCEG-NQLPKALEVLS---EMKRLGLCPNTITYSILLVASERKDDADV 772

Query: 395 GRHYFEIMVKEYGIRPIHDHYTCMI 419
           G        KE GI+P      C+ 
Sbjct: 773 GLDLLS-QAKEDGIKPNLVMCRCIT 796

Length = 1060

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

 Score = 60.3 bits (146), Expect = 3e-09
 Identities = 48/182 (26%), Positives = 85/182 (46%), Gaps = 13/182 (7%)

Query: 340 DEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYF 399
           D   +T L+S  AK GK +   ++F +M++ G++ +  T   ++  C+RAG V K    +
Sbjct: 471 DCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAY 530

Query: 400 EIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-----PFPPDAIGWATLLSSC 454
            IM  +  ++P    +  +I    ++G ++ A   + +M     P  PD I    L+ +C
Sbjct: 531 GIMRSK-NVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKAC 589

Query: 455 RIHGNVEIGKWAAESLLELDPYN----PASYVLLSSIYASKGKWDHVSQLRRTMREKGVR 510
              G V+    A E    +  YN    P  Y +  +  + KG WD    +   M++KGV+
Sbjct: 590 ANAGQVD---RAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVK 646

Query: 511 KD 512
            D
Sbjct: 647 PD 648

Length = 1060

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

 Score = 51.3 bits (124), Expect = 9e-09
 Identities = 17/48 (35%), Positives = 30/48 (62%), Gaps = 4/48 (8%)

Query: 106 KNIVMYNTMITGLLRRGLVEESRRLFRGMKDK----DSISWTTMITGL 149
            ++V YNT+I G  ++G VEE+ +LF  MK +    +  +++ +I GL
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 = 50.1 bits (121), Expect = 2e-08
 Identities = 16/49 (32%), Positives = 26/49 (53%)

Query: 340 DEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSR 388
           D V++  L+ GY K GK  E + LF +M   G+KP+  T   ++    +
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 56.8 bits (137), Expect = 3e-08
 Identities = 68/325 (20%), Positives = 144/325 (44%), Gaps = 29/325 (8%)

Query: 149 LMQNGLEREAIDLFREM-RLEGLAMDQFTFGSVLTACGGLLALEEGKQIHAF----IIRN 203
           L+++G  ++ IDL  +M +   L MD+        AC    A++E     AF    +IRN
Sbjct: 380 LLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKE-----AFRFAKLIRN 434

Query: 204 DHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWK----NVVSWTAMLVGYGQNGCSEEA 259
               + F  + L+ +    + I  A  V R +       +   +T ++    ++G  +  
Sbjct: 435 P-TLSTF--NMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAM 491

Query: 260 VKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTF 319
            ++F  M   G+E +  T G++I  CA    + +    +G      +     V NAL++ 
Sbjct: 492 FEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISA 551

Query: 320 YGKCGNIEDSHRLFNEMNVR------DEVSWTALVSGYAKFGKANETIDLFEKMLSHGLK 373
            G+ G ++ +  +  EM         D ++  AL+   A  G+ +   ++++ +  + +K
Sbjct: 552 CGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIK 611

Query: 374 -PDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAK 432
              EV  I V ++CS+ G  +     ++ M K+ G++P    ++ ++D+   AG L++A 
Sbjct: 612 GTPEVYTIAV-NSCSQKGDWDFALSIYDDM-KKKGVKPDEVFFSALVDVAGHAGDLDKAF 669

Query: 433 SFINKMP---FPPDAIGWATLLSSC 454
             +            + +++L+ +C
Sbjct: 670 EILQDARKQGIKLGTVSYSSLMGAC 694

Length = 1060

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

 Score = 49.7 bits (120), Expect = 4e-08
 Identities = 13/48 (27%), Positives = 26/48 (54%)

Query: 137 KDSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSVLTAC 184
            D +++ T+I G  + G   EA+ LF EM+  G+  + +T+  ++   
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

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

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

 Score = 52.6 bits (126), Expect = 5e-07
 Identities = 61/234 (26%), Positives = 95/234 (40%), Gaps = 38/234 (16%)

Query: 369 SHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRL 428
             GLK D      ++S C+++G V+     F  MV   G+      +  +ID  +RAG++
Sbjct: 465 EAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNA-GVEANVHTFGALIDGCARAGQV 523

Query: 429 EEAKSF------INKMPFPPDAIGWATLLSSCRIHGNVEIG-KWAAESLLELDPYNP--A 479
             AK+F       +K    PD + +  L+S+C   G V+      AE   E  P +P   
Sbjct: 524 --AKAFGAYGIMRSK-NVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHI 580

Query: 480 SYVLLSSIYASKGKWDHVSQLRRTMREKGVRKDPGCSWIKYKSRVHIFS-ADDWSSPYSD 538
           +   L    A+ G+ D   ++ + + E  ++  P      Y   V+  S   DW    S 
Sbjct: 581 TVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEV----YTIAVNSCSQKGDWDFALS- 635

Query: 539 QIYAELEKLNRKMIKEGYVPD--MSSVLHDVELSEKIKMLNHHSEKLAIAFGLL 590
            IY +       M K+G  PD    S L DV           H+  L  AF +L
Sbjct: 636 -IYDD-------MKKKGVKPDEVFFSALVDVA---------GHAGDLDKAFEIL 672

Length = 1060

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

 Score = 43.9 bits (105), Expect = 3e-06
 Identities = 15/43 (34%), Positives = 27/43 (62%), Gaps = 1/43 (2%)

Query: 7  VSWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTML 49
          V++N LI G+   G V +A+K++N M K G+   +  T+S ++
Sbjct: 4  VTYNTLIDGYCKKGKVEEALKLFNEMKKRGI-KPNVYTYSILI 45

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

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

 Score = 42.8 bits (102), Expect = 7e-06
 Identities = 13/35 (37%), Positives = 22/35 (62%)

Query: 241 VSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDD 275
           V++  ++ G  + G  EEA+++F  M+  GIEPD 
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 = 41.3 bits (98), Expect = 2e-05
 Identities = 10/31 (32%), Positives = 21/31 (67%)

Query: 241 VSWTAMLVGYGQNGCSEEAVKIFCNMQRNGI 271
           V++ +++ GY + G  EEA+++F  M+  G+
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 40.9 bits (97), Expect = 3e-05
 Identities = 10/31 (32%), Positives = 23/31 (74%)

Query: 140 ISWTTMITGLMQNGLEREAIDLFREMRLEGL 170
           +++ ++I+G  + G   EA++LF+EM+ +G+
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 39.0 bits (92), Expect = 1e-04
 Identities = 12/35 (34%), Positives = 22/35 (62%)

Query: 342 VSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDE 376
           V++  L+ G  K G+  E ++LF++M   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|205109 pfam12854, PPR_1, PPR repeat

 Score = 38.5 bits (91), Expect = 2e-04
 Identities = 13/29 (44%), Positives = 19/29 (65%)

Query: 107 NIVMYNTMITGLLRRGLVEESRRLFRGMK 135
           ++V YNT+I GL R G V+E+  L   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|144943 pfam01535, PPR, PPR repeat

 Score = 38.2 bits (90), Expect = 3e-04
 Identities = 10/31 (32%), Positives = 21/31 (67%)

Query: 7  VSWNLLISGHASHGSVNDAVKVYNLMLKDGL 37
          V++N LISG+   G + +A++++  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|144943 pfam01535, PPR, PPR repeat

 Score = 38.2 bits (90), Expect = 3e-04
 Identities = 13/31 (41%), Positives = 22/31 (70%)

Query: 342 VSWTALVSGYAKFGKANETIDLFEKMLSHGL 372
           V++ +L+SGY K GK  E ++LF++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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 37.4 bits (88), Expect = 5e-04
 Identities = 13/34 (38%), Positives = 23/34 (67%)

Query: 140 ISWTTMITGLMQNGLEREAIDLFREMRLEGLAMD 173
           +++ T+I GL + G   EA++LF+EM+  G+  D
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34

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

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

 Score = 37.0 bits (87), Expect = 6e-04
 Identities = 13/30 (43%), Positives = 21/30 (70%)

Query: 109 VMYNTMITGLLRRGLVEESRRLFRGMKDKD 138
           V YN++I+G  + G +EE+  LF+ MK+K 
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKG 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|205109 pfam12854, PPR_1, PPR repeat

 Score = 36.9 bits (87), Expect = 7e-04
 Identities = 11/29 (37%), Positives = 18/29 (62%)

Query: 138 DSISWTTMITGLMQNGLEREAIDLFREMR 166
           D +++ T+I GL + G   EA++L  EM 
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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 37.1 bits (87), Expect = 8e-04
 Identities = 15/30 (50%), Positives = 21/30 (70%)

Query: 109 VMYNTMITGLLRRGLVEESRRLFRGMKDKD 138
           V YNT+I GL + G VEE+  LF+ MK++ 
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERG 30

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

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

 Score = 37.0 bits (87), Expect = 0.001
 Identities = 15/44 (34%), Positives = 25/44 (56%), Gaps = 4/44 (9%)

Query: 314 NALVTFYGKCGNIEDSHRLFNEMNVR----DEVSWTALVSGYAK 353
           N L+  Y K G +E++ +LFNEM  R    +  +++ L+ G  K
Sbjct: 7   NTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 35.5 bits (83), Expect = 0.002
 Identities = 10/31 (32%), Positives = 19/31 (61%)

Query: 7  VSWNLLISGHASHGSVNDAVKVYNLMLKDGL 37
          V++N LI G    G V +A++++  M + G+
Sbjct: 1  VTYNTLIDGLCKAGRVEEALELFKEMKERGI 31

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

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

 Score = 35.6 bits (83), Expect = 0.002
 Identities = 11/34 (32%), Positives = 19/34 (55%)

Query: 341 EVSWTALVSGYAKFGKANETIDLFEKMLSHGLKP 374
             ++ AL+   AK G  +  + + E+M + GLKP
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|223533 COG0457, NrfG, FOG: TPR repeat [General function prediction only]

 Score = 39.4 bits (90), Expect = 0.004
 Identities = 41/191 (21%), Positives = 68/191 (35%), Gaps = 9/191 (4%)

Query: 314 NALVTFYGKCGNIEDSHRLFNE-----MNVRDEVSWTALVSGYAKFGKANETIDLFEKML 368
             L     K G +E++  L  +     +      +   L       GK  E ++L EK L
Sbjct: 63  LLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKAL 122

Query: 369 SHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYG-IRPIHDHYTCMIDILSRAGR 427
           +    PD    +  L A    G  E+    +E  ++    +  + +    +  +L   GR
Sbjct: 123 ALDPDPDLAEALLALGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGR 182

Query: 428 LEEAKSFINK---MPFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLL 484
            EEA   + K   +    DA     L       G  E      E  LELDP N  +   L
Sbjct: 183 YEEALELLEKALKLNPDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDPDNAEALYNL 242

Query: 485 SSIYASKGKWD 495
           + +    G+++
Sbjct: 243 ALLLLELGRYE 253

Length = 291

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	647
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	100.0
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	100.0
PF14432	116	DYW_deaminase: DYW family of nucleic acid deaminas	99.97
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.94
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.94
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.91
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.91
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.89
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.88
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.86
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.85
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.84
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.83
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.83
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.82
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.81
PRK14574	822	hmsH outer membrane protein; Provisional	99.8
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.79
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.78
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.77
PRK14574	822	hmsH outer membrane protein; Provisional	99.77
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.74
KOG2003	840	consensus TPR repeat-containing protein [General f	99.71
KOG2076	895	consensus RNA polymerase III transcription factor	99.66
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.63
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.61
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.61
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.58
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.56
KOG2076	895	consensus RNA polymerase III transcription factor	99.56
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.52
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.52
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.51
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.5
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.5
KOG2003	840	consensus TPR repeat-containing protein [General f	99.49
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.47
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.46
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.46
KOG1126	638	consensus DNA-binding cell division cycle control	99.45
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.43
KOG1126	638	consensus DNA-binding cell division cycle control	99.43
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.41
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.39
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.36
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.36
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.35
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.34
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.33
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.32
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.32
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.32
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.31
PF13041	50	PPR_2: PPR repeat family	99.29
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.28
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.27
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.25
PF13041	50	PPR_2: PPR repeat family	99.25
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.24
PRK12370	553	invasion protein regulator; Provisional	99.22
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.2
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	99.2
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.13
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.12
PRK12370	553	invasion protein regulator; Provisional	99.11
PRK11189	296	lipoprotein NlpI; Provisional	99.11
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.1
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.09
KOG1129	478	consensus TPR repeat-containing protein [General f	99.09
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.07
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.04
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.02
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.02
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.01
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.99
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.98
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.96
PRK11189	296	lipoprotein NlpI; Provisional	98.95
KOG1129	478	consensus TPR repeat-containing protein [General f	98.9
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.88
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.86
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.84
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.79
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.78
KOG1125	579	consensus TPR repeat-containing protein [General f	98.77
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.77
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	98.77
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.76
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.76
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.76
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.75
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.74
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.73
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.73
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.65
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.64
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.63
PRK04841	903	transcriptional regulator MalT; Provisional	98.63
PRK04841	903	transcriptional regulator MalT; Provisional	98.61
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.6
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.58
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.57
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.56
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.54
PF12854	34	PPR_1: PPR repeat	98.52
PRK15359	144	type III secretion system chaperone protein SscB;	98.5
PLN02789	320	farnesyltranstransferase	98.47
PRK15359	144	type III secretion system chaperone protein SscB;	98.47
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.44
PF12854	34	PPR_1: PPR repeat	98.43
KOG1125	579	consensus TPR repeat-containing protein [General f	98.41
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.4
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.36
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.35
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.34
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.32
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.3
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.28
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.28
PLN02789	320	farnesyltranstransferase	98.26
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.23
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.19
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.19
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.18
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.18
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.17
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.16
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.14
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.08
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.04
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.04
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.03
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.02
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.01
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.95
PRK14720	906	transcript cleavage factor/unknown domain fusion p	97.94
TIGR02552	135	LcrH_SycD type III secretion low calcium response	97.94
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.92
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.86
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.8
KOG3060	289	consensus Uncharacterized conserved protein [Funct	97.78
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.77
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	97.76
KOG3060	289	consensus Uncharacterized conserved protein [Funct	97.75
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.75
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.74
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.74
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.7
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.7
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.66
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.62
KOG0553	304	consensus TPR repeat-containing protein [General f	97.62
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.61
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.6
COG3898	531	Uncharacterized membrane-bound protein [Function u	97.6
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.58
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.57
KOG0553	304	consensus TPR repeat-containing protein [General f	97.56
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.54
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.52
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.51
PRK15331	165	chaperone protein SicA; Provisional	97.44
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.44
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.43
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	97.43
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.42
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.41
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.4
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.37
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	97.33
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.31
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.29
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.24
PF13371	73	TPR_9: Tetratricopeptide repeat	97.23
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.23
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.18
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.17
PF13431	34	TPR_17: Tetratricopeptide repeat	97.17
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.15
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.14
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.14
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.07
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.05
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.02
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.02
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	96.96
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	96.93
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	96.91
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	96.89
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	96.88
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	96.84
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	96.82
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.81
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.79
PRK10803	263	tol-pal system protein YbgF; Provisional	96.77
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	96.76
COG3898	531	Uncharacterized membrane-bound protein [Function u	96.75
PF12688	120	TPR_5: Tetratrico peptide repeat	96.74
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	96.73
PF13428	44	TPR_14: Tetratricopeptide repeat	96.71
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.68
PRK10803	263	tol-pal system protein YbgF; Provisional	96.68
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.67
PF13371	73	TPR_9: Tetratricopeptide repeat	96.67
PF12688	120	TPR_5: Tetratrico peptide repeat	96.59
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.58
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	96.55
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.51
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.45
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.33
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	96.2
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	96.17
KOG1258	577	consensus mRNA processing protein [RNA processing	96.11
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	96.09
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.05
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	95.99
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	95.95
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	95.93
KOG4555	175	consensus TPR repeat-containing protein [Function	95.91
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	95.85
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	95.85
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.62
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	95.57
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	95.54
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	95.53
PRK11906	458	transcriptional regulator; Provisional	95.49
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	95.48
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	95.31
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	95.27
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	95.19
PF13512	142	TPR_18: Tetratricopeptide repeat	95.19
KOG1585	308	consensus Protein required for fusion of vesicles	95.0
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	94.87
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	94.82
PF03704	146	BTAD: Bacterial transcriptional activator domain;	94.73
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	94.71
KOG1941	518	consensus Acetylcholine receptor-associated protei	94.71
PRK11906	458	transcriptional regulator; Provisional	94.7
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	94.63
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	94.63
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	94.62
KOG3941	406	consensus Intermediate in Toll signal transduction	94.57
COG0457	291	NrfG FOG: TPR repeat [General function prediction	94.46
PF13512	142	TPR_18: Tetratricopeptide repeat	94.42
COG3118	304	Thioredoxin domain-containing protein [Posttransla	94.37
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	94.32
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	94.31
KOG2610	491	consensus Uncharacterized conserved protein [Funct	94.25
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	94.2
smart00299	140	CLH Clathrin heavy chain repeat homology.	94.17
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	94.14
KOG2610	491	consensus Uncharacterized conserved protein [Funct	94.11
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	94.08
smart00299	140	CLH Clathrin heavy chain repeat homology.	93.94
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	93.61
PRK11619	644	lytic murein transglycosylase; Provisional	93.46
KOG3941	406	consensus Intermediate in Toll signal transduction	93.26
PRK15331	165	chaperone protein SicA; Provisional	93.15
KOG4555	175	consensus TPR repeat-containing protein [Function	93.15
COG4105	254	ComL DNA uptake lipoprotein [General function pred	93.04
COG4105	254	ComL DNA uptake lipoprotein [General function pred	92.91
PF13428	44	TPR_14: Tetratricopeptide repeat	92.84
COG3118	304	Thioredoxin domain-containing protein [Posttransla	92.8
PRK09687	280	putative lyase; Provisional	92.58
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	92.43
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	92.29
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	91.72
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	91.55
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	91.54
KOG4234	271	consensus TPR repeat-containing protein [General f	91.5
COG3629	280	DnrI DNA-binding transcriptional activator of the	91.08
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	90.97
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	90.85
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	90.85
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	90.27
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	90.26
COG3629	280	DnrI DNA-binding transcriptional activator of the	90.23
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	90.0
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	89.51
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	89.32
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	89.3
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	89.14
PRK09687	280	putative lyase; Provisional	88.55
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	88.44
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	88.2
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	88.05
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	88.03
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	87.97
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	87.26
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	86.86
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	86.48
KOG4648	536	consensus Uncharacterized conserved protein, conta	86.41
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	85.58
KOG1941	518	consensus Acetylcholine receptor-associated protei	85.56
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	85.49
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	85.36
KOG1586	288	consensus Protein required for fusion of vesicles	85.05
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	84.99
KOG4570	418	consensus Uncharacterized conserved protein [Funct	84.93
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	84.49
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	84.49
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	84.49
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	84.41
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	84.1
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	83.78
PF13431	34	TPR_17: Tetratricopeptide repeat	83.77
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	82.94
KOG3364	149	consensus Membrane protein involved in organellar	82.83
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	82.48
KOG1258	577	consensus mRNA processing protein [RNA processing	82.08
KOG1586	288	consensus Protein required for fusion of vesicles	82.03
COG1747	711	Uncharacterized N-terminal domain of the transcrip	81.96
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	81.41
PRK10941	269	hypothetical protein; Provisional	81.15
COG3947	361	Response regulator containing CheY-like receiver a	80.84
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	80.72
KOG4648	536	consensus Uncharacterized conserved protein, conta	80.66
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	80.61
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	80.13
KOG1585	308	consensus Protein required for fusion of vesicles	80.03

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=4.1e-128  Score=1085.26  Aligned_cols=641  Identities=41%  Similarity=0.739  Sum_probs=625.1

Q ss_pred             CCCCCcccHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCCcchHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCchhhH
Q 006388            1 MPFHDGVSWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVG   80 (647)
Q Consensus         1 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~   80 (647)
                      ||+||+++||+||.+|++.|++++|+++|++|...|+ .||..||+.++++|...+++..+.++|..+++.|+.||+.++
T Consensus       147 m~~~d~~~~n~li~~~~~~g~~~~A~~~f~~M~~~g~-~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~  225 (857)
T PLN03077        147 MPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGV-RPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVV  225 (857)
T ss_pred             CCCCCeeEHHHHHHHHHhCCCHHHHHHHHHHHHHcCC-CCChhHHHHHHHHhCCccchhhHHHHHHHHHHcCCCcccchH
Confidence            7899999999999999999999999999999999999 999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcCChHHHHHHhccCCCCCchHHHHHHHHHH-----------------------------------------
Q 006388           81 SPLVDMYAKLGLIYDAKRGFDELPEKNIVMYNTMITGLL-----------------------------------------  119 (647)
Q Consensus        81 ~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~-----------------------------------------  119 (647)
                      |+|+.+|+++|++++|.++|++|++||..+||+||.+|+                                         
T Consensus       226 n~Li~~y~k~g~~~~A~~lf~~m~~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~  305 (857)
T PLN03077        226 NALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDER  305 (857)
T ss_pred             hHHHHHHhcCCCHHHHHHHHhcCCCCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChH
Confidence            999999999999999999999999888777777777665                                         


Q ss_pred             -----------------------------hcCChHHHHHHhhcCCCCCeehHHHHHHHHHhCCChhHHHHHHHHHHHCCC
Q 006388          120 -----------------------------RRGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLEREAIDLFREMRLEGL  170 (647)
Q Consensus       120 -----------------------------~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  170 (647)
                                                   +.|++++|.++|++|.+||+++||+||.+|.+.|++++|+++|++|.+.|+
T Consensus       306 ~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~  385 (857)
T PLN03077        306 LGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNV  385 (857)
T ss_pred             HHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCC
Confidence                                         567777788888888889999999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHH
Q 006388          171 AMDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWKNVVSWTAMLVGY  250 (647)
Q Consensus       171 ~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~  250 (647)
                      .||..||+.++.+|++.|+++.|.++|+.+.+.|+.++..++|+|+++|+++|++++|.++|++|.++|+++||+||.+|
T Consensus       386 ~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~~~  465 (857)
T PLN03077        386 SPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGL  465 (857)
T ss_pred             CCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHH
Q 006388          251 GQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSH  330 (647)
Q Consensus       251 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  330 (647)
                      +++|+.++|+.+|++|.. +++||..||+.+|.+|++.|+++.+.++|..+.+.|+.++..++|+|+++|+++|++++|.
T Consensus       466 ~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~  544 (857)
T PLN03077        466 RLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAW  544 (857)
T ss_pred             HHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHH
Confidence            999999999999999986 5999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCc
Q 006388          331 RLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRP  410 (647)
Q Consensus       331 ~~~~~~~~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p  410 (647)
                      ++|+.+ .+|+.+||+||.+|+++|+.++|+++|++|.+.|+.||..||+.+|.+|++.|++++|.++|+.|.+.+|+.|
T Consensus       545 ~~f~~~-~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P  623 (857)
T PLN03077        545 NQFNSH-EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITP  623 (857)
T ss_pred             HHHHhc-CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCC
Confidence            999999 8999999999999999999999999999999999999999999999999999999999999999997889999


Q ss_pred             ChHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhh
Q 006388          411 IHDHYTCMIDILSRAGRLEEAKSFINKMPFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYAS  490 (647)
Q Consensus       411 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  490 (647)
                      +..+|++|+++|+++|++++|.+++++|+++||..+|++|+.+|+.+|+.+.|+.+.+++++++|+++..|+.|+++|+.
T Consensus       624 ~~~~y~~lv~~l~r~G~~~eA~~~~~~m~~~pd~~~~~aLl~ac~~~~~~e~~e~~a~~l~~l~p~~~~~y~ll~n~ya~  703 (857)
T PLN03077        624 NLKHYACVVDLLGRAGKLTEAYNFINKMPITPDPAVWGALLNACRIHRHVELGELAAQHIFELDPNSVGYYILLCNLYAD  703 (857)
T ss_pred             chHHHHHHHHHHHhCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhhCCCCcchHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCChhHHHHHHHHHHhCCCccCCCcceEeEcCeEEEEEecCCCCcchHHHHHHHHHHHHhhHhcCcccCCcccccccchh
Q 006388          491 KGKWDHVSQLRRTMREKGVRKDPGCSWIKYKSRVHIFSADDWSSPYSDQIYAELEKLNRKMIKEGYVPDMSSVLHDVELS  570 (647)
Q Consensus       491 ~g~~~~a~~~~~~m~~~g~~~~~~~s~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~l~~~m~~~g~~pd~~~~~~~~~~~  570 (647)
                      .|+|++|.++++.|+++|++|+||+|||++++++|.|.+||.+||+.++|+..|+++..+|++.||.||+...+ +++++
T Consensus       704 ~g~~~~a~~vr~~M~~~g~~k~~g~s~ie~~~~~~~f~~~d~~h~~~~~i~~~l~~l~~~~~~~g~~~~~~~~~-~~~~~  782 (857)
T PLN03077        704 AGKWDEVARVRKTMRENGLTVDPGCSWVEVKGKVHAFLTDDESHPQIKEINTVLEGFYEKMKASGLAGSESSSM-DEIEV  782 (857)
T ss_pred             CCChHHHHHHHHHHHHcCCCCCCCccEEEECCEEEEEecCCCCCcchHHHHHHHHHHHHHHHhCCcCCCcchhc-cccHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999877 55788


Q ss_pred             hhhhhcccccHHHHHHHhhccCCCCCcEEEEeccccCCCccchhhhhhhhccceEEEecCCccccccCcccCCCC
Q 006388          571 EKIKMLNHHSEKLAIAFGLLFIPPGLPIRVVKNLRVCSDCHNATKYISKITQREILVRDAVRFHLFKNGECSCGD  645 (647)
Q Consensus       571 ~~~~~~~~~~e~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~h~~~~g~csc~~  645 (647)
                      +|+..+++||||||+||||+++|+|.||||+||||||+|||+++|+||++++|+|||||.+|||||+||+|||+|
T Consensus       783 ~k~~~~~~hse~la~a~~l~~~~~~~~i~i~knlr~c~dch~~~k~~s~~~~r~i~~rd~~rfh~f~~g~csc~d  857 (857)
T PLN03077        783 SKDDIFCGHSERLAIAFGLINTVPGMPIWVTKNLYMCENCHNTVKFISKIVRREISVRDTEQFHHFKDGECSCGD  857 (857)
T ss_pred             HHHHHHHhccHHHHHHHhhhcCCCCCeEEEeCCCEeCccHHHHHHHHHHHhCeEEEEecCCcceeCCCCcccCCC
Confidence            899999999999999999999999999999999999999999999999999999999999999999999999998

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

Probab=100.00  E-value=3.8e-125  Score=1036.69  Aligned_cols=612  Identities=37%  Similarity=0.677  Sum_probs=601.9

Q ss_pred             CCcccHHHHHHHHHcCCChhHHHHHHHHHHHCC-CCCCCcchHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCchhhHHH
Q 006388            4 HDGVSWNLLISGHASHGSVNDAVKVYNLMLKDG-LGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGSP   82 (647)
Q Consensus         4 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~   82 (647)
                      ++.++|+++|.+|.+.|++++|+++|+.|...+ + .||..+|+.++.+|.+.++++.+.++|..|.+.|+.||+.++|.
T Consensus        85 ~~~~~~~~~i~~l~~~g~~~~Al~~f~~m~~~~~~-~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~  163 (697)
T PLN03081         85 KSGVSLCSQIEKLVACGRHREALELFEILEAGCPF-TLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNR  163 (697)
T ss_pred             CCceeHHHHHHHHHcCCCHHHHHHHHHHHHhcCCC-CCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHH
Confidence            466799999999999999999999999999865 5 89999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCChHHHHHHhccCCCCCchHHHHHHHHHHhcCChHHHHHHhhcCCCCCeehHHHHHHHHHhCCChhHHHHHH
Q 006388           83 LVDMYAKLGLIYDAKRGFDELPEKNIVMYNTMITGLLRRGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLEREAIDLF  162 (647)
Q Consensus        83 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~  162 (647)
                      |+.+|+++|++++|.++|++|+                               +||.++||+||.+|++.|++++|+++|
T Consensus       164 Li~~y~k~g~~~~A~~lf~~m~-------------------------------~~~~~t~n~li~~~~~~g~~~~A~~lf  212 (697)
T PLN03081        164 VLLMHVKCGMLIDARRLFDEMP-------------------------------ERNLASWGTIIGGLVDAGNYREAFALF  212 (697)
T ss_pred             HHHHHhcCCCHHHHHHHHhcCC-------------------------------CCCeeeHHHHHHHHHHCcCHHHHHHHH
Confidence            9999999999999999999888                               678899999999999999999999999


Q ss_pred             HHHHHCCCCCChhhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhH
Q 006388          163 REMRLEGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWKNVVS  242 (647)
Q Consensus       163 ~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~  242 (647)
                      ++|.+.|+.||..||+.++.+|+..|..+.+.+++..+.+.|+.+|..++|+|+++|+++|++++|.++|++|+++|+++
T Consensus       213 ~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~~~vt  292 (697)
T PLN03081        213 REMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVA  292 (697)
T ss_pred             HHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCCCChhH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHh
Q 006388          243 WTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGK  322 (647)
Q Consensus       243 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  322 (647)
                      ||+||.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|+++.|.++|..|.+.|+.+|..++++|+++|++
T Consensus       293 ~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k  372 (697)
T PLN03081        293 WNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSK  372 (697)
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHH
Q 006388          323 CGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIM  402 (647)
Q Consensus       323 ~g~~~~A~~~~~~~~~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~  402 (647)
                      +|++++|.++|++|.++|+.+||+||.+|+++|+.++|+++|++|.+.|+.||..||+.++.+|++.|.+++|.++|+.|
T Consensus       373 ~G~~~~A~~vf~~m~~~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m  452 (697)
T PLN03081        373 WGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSM  452 (697)
T ss_pred             CCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHH
Q 006388          403 VKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKMPFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYV  482 (647)
Q Consensus       403 ~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~  482 (647)
                      .+++|+.|+..+|++|+++|++.|++++|.+++++|++.|+..+|++|+.+|+.+|+++.|+.+++++.+++|++..+|.
T Consensus       453 ~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~~p~~~~~y~  532 (697)
T PLN03081        453 SENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNNYV  532 (697)
T ss_pred             HHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhCCCCCCCcchH
Confidence            98889999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhhhhCCChhHHHHHHHHHHhCCCccCCCcceEeEcCeEEEEEecCCCCcchHHHHHHHHHHHHhhHhcCcccCCcc
Q 006388          483 LLSSIYASKGKWDHVSQLRRTMREKGVRKDPGCSWIKYKSRVHIFSADDWSSPYSDQIYAELEKLNRKMIKEGYVPDMSS  562 (647)
Q Consensus       483 ~l~~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~s~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~l~~~m~~~g~~pd~~~  562 (647)
                      .|+++|++.|+|++|.++++.|+++|+++.||+||+++++.+|.|.+||.+||+..+|+..+.++..+|++.||.||+..
T Consensus       533 ~L~~~y~~~G~~~~A~~v~~~m~~~g~~k~~g~s~i~~~~~~~~f~~~d~~h~~~~~i~~~l~~l~~~~~~~gy~~~~~~  612 (697)
T PLN03081        533 VLLNLYNSSGRQAEAAKVVETLKRKGLSMHPACTWIEVKKQDHSFFSGDRLHPQSREIYQKLDELMKEISEYGYVAEENE  612 (697)
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHcCCccCCCeeEEEECCeEEEEccCCCCCccHHHHHHHHHHHHHHHHHcCCCCCcch
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccccchhhhhhhcccccHHHHHHHhhccCCCCCcEEEEeccccCCCccchhhhhhhhccceEEEecCCccccccCcccC
Q 006388          563 VLHDVELSEKIKMLNHHSEKLAIAFGLLFIPPGLPIRVVKNLRVCSDCHNATKYISKITQREILVRDAVRFHLFKNGECS  642 (647)
Q Consensus       563 ~~~~~~~~~~~~~~~~~~e~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~h~~~~g~cs  642 (647)
                      +++++++++++..+.+|||+||+||||+++|+|.||||+||||||+|||+|+|+||++++|+|||||.+|||||+||+||
T Consensus       613 ~~~~~~~~~~~~~~~~hsekla~a~~l~~~~~~~~i~i~knlr~c~dch~~~k~~s~~~~r~i~~rd~~rfh~f~~g~cs  692 (697)
T PLN03081        613 LLPDVDEDEEKVSGRYHSEKLAIAFGLINTSEWTPLQITQSHRICKDCHKVIKFIALVTKREIVVRDASRFHHFKLGKCS  692 (697)
T ss_pred             hhccccHHHHHHHHHhccHHHHHHhhCccCCCCCeEEEecCCEECCCchhhHHHHhhhcceEEEEecCCccccCCCCccc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCC
Q 006388          643 CGDFW  647 (647)
Q Consensus       643 c~~~~  647 (647)
                      |+|||
T Consensus       693 c~d~w  697 (697)
T PLN03081        693 CGDYW  697 (697)
T ss_pred             ccccC
Confidence            99999

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=1.8e-77  Score=674.47  Aligned_cols=615  Identities=24%  Similarity=0.358  Sum_probs=543.9

Q ss_pred             CCCCcccHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCCcchHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCchhhHH
Q 006388            2 PFHDGVSWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGS   81 (647)
Q Consensus         2 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~   81 (647)
                      +.+|+..+|+||++|++.|+.+.|+++|++|.     +||..+|++++.+|.+.|++++|.++|+.|.+.|+.||.++|+
T Consensus       117 ~~~~~~~~n~li~~~~~~g~~~~A~~~f~~m~-----~~d~~~~n~li~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~  191 (857)
T PLN03077        117 PSLGVRLGNAMLSMFVRFGELVHAWYVFGKMP-----ERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFP  191 (857)
T ss_pred             CCCCchHHHHHHHHHHhCCChHHHHHHHhcCC-----CCCeeEHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHH
Confidence            46788899999999999999999999999997     7899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhcCChHHHHHHhccCC----CCCchHHHHHHHHHHhcCChHHHHHHhhcCCCCCeehHHHHHHHHHhCCChhH
Q 006388           82 PLVDMYAKLGLIYDAKRGFDELP----EKNIVMYNTMITGLLRRGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLERE  157 (647)
Q Consensus        82 ~li~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  157 (647)
                      .++..+++.+++..+.+++..|.    .+|+.+||+||.+|+++|++++|.++|++|+++|+++||+||.+|++.|++++
T Consensus       192 ~ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~d~~s~n~li~~~~~~g~~~e  271 (857)
T PLN03077        192 CVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLE  271 (857)
T ss_pred             HHHHHhCCccchhhHHHHHHHHHHcCCCcccchHhHHHHHHhcCCCHHHHHHHHhcCCCCCcchhHHHHHHHHhCCCHHH
Confidence            99999999999999999998876    48999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHCCCCCChhhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC
Q 006388          158 AIDLFREMRLEGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAW  237 (647)
Q Consensus       158 A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~  237 (647)
                      |+++|.+|...|+.||..||+.++.+|++.|+++.|.+++..+.+.|+.||..+||+|+++|+++|++++|.++|++|..
T Consensus       272 Al~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~  351 (857)
T PLN03077        272 GLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMET  351 (857)
T ss_pred             HHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHH
Q 006388          238 KNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALV  317 (647)
Q Consensus       238 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  317 (647)
                      +|+++||+||.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|+++.|.++|+.+.+.|+.++..++|+|+
T Consensus       352 ~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li  431 (857)
T PLN03077        352 KDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALI  431 (857)
T ss_pred             CCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHH
Q 006388          318 TFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRH  397 (647)
Q Consensus       318 ~~~~~~g~~~~A~~~~~~~~~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~  397 (647)
                      ++|+++|++++|.++|++|.++|+++||+||.+|++.|+.++|+.+|++|.. ++.||..||+.+|.+|++.|.++.+.+
T Consensus       432 ~~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~  510 (857)
T PLN03077        432 EMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKE  510 (857)
T ss_pred             HHHHHcCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHH
Confidence            9999999999999999999999999999999999999999999999999986 599999999999999999999999999


Q ss_pred             HHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhccC-CC
Q 006388          398 YFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKMPFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELD-PY  476 (647)
Q Consensus       398 ~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-p~  476 (647)
                      ++..+.+. |+.++..++++|+++|+++|++++|.++|+++  .||..+|++++.+|.++|+.++|.++|++|.+.+ .+
T Consensus       511 i~~~~~~~-g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~--~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~P  587 (857)
T PLN03077        511 IHAHVLRT-GIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH--EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNP  587 (857)
T ss_pred             HHHHHHHh-CCCccceechHHHHHHHHcCCHHHHHHHHHhc--CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCC
Confidence            99999876 99999999999999999999999999999999  7999999999999999999999999999998754 33


Q ss_pred             CchhHHHHHHhhhhCCChhHHHHHHHHHH-hCCCccCCCcceEeEcCeEEEEEecCCCCcchHHHHHHHHHHHHhhHhcC
Q 006388          477 NPASYVLLSSIYASKGKWDHVSQLRRTMR-EKGVRKDPGCSWIKYKSRVHIFSADDWSSPYSDQIYAELEKLNRKMIKEG  555 (647)
Q Consensus       477 ~~~~~~~l~~~~~~~g~~~~a~~~~~~m~-~~g~~~~~~~s~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~l~~~m~~~g  555 (647)
                      |..+|..++.+|++.|++++|.++|+.|. +.|+.|+...    +...+..+.-           ...+++..+.+++++
T Consensus       588 d~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~----y~~lv~~l~r-----------~G~~~eA~~~~~~m~  652 (857)
T PLN03077        588 DEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKH----YACVVDLLGR-----------AGKLTEAYNFINKMP  652 (857)
T ss_pred             CcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHH----HHHHHHHHHh-----------CCCHHHHHHHHHHCC
Confidence            78999999999999999999999999999 7899876531    1111111100           113445555566668


Q ss_pred             cccCCcccccccchhhhhhhcccccHHHH-HHHhhccCCCCCcEEEEeccccCCCccchhhhhhhhccce--------EE
Q 006388          556 YVPDMSSVLHDVELSEKIKMLNHHSEKLA-IAFGLLFIPPGLPIRVVKNLRVCSDCHNATKYISKITQRE--------IL  626 (647)
Q Consensus       556 ~~pd~~~~~~~~~~~~~~~~~~~~~e~la-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~--------~~  626 (647)
                      +.||...|...+..+...+.+. -.|..+ ..+.+.+..++..+-+..-....|+-.++.+....|..+.        .|
T Consensus       653 ~~pd~~~~~aLl~ac~~~~~~e-~~e~~a~~l~~l~p~~~~~y~ll~n~ya~~g~~~~a~~vr~~M~~~g~~k~~g~s~i  731 (857)
T PLN03077        653 ITPDPAVWGALLNACRIHRHVE-LGELAAQHIFELDPNSVGYYILLCNLYADAGKWDEVARVRKTMRENGLTVDPGCSWV  731 (857)
T ss_pred             CCCCHHHHHHHHHHHHHcCChH-HHHHHHHHHHhhCCCCcchHHHHHHHHHHCCChHHHHHHHHHHHHcCCCCCCCccEE
Confidence            9999999876666553322221 112222 2234444434333322233456788888888887666552        22


Q ss_pred             EecCCccccccCcccC
Q 006388          627 VRDAVRFHLFKNGECS  642 (647)
Q Consensus       627 ~~~~~~~h~~~~g~cs  642 (647)
                      .- .+..|-|..|.-|
T Consensus       732 e~-~~~~~~f~~~d~~  746 (857)
T PLN03077        732 EV-KGKVHAFLTDDES  746 (857)
T ss_pred             EE-CCEEEEEecCCCC
Confidence            22 2567788666544

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=2e-67  Score=580.97  Aligned_cols=505  Identities=16%  Similarity=0.212  Sum_probs=470.9

Q ss_pred             CCCcccHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCCcchHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCchhhHHH
Q 006388            3 FHDGVSWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGSP   82 (647)
Q Consensus         3 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~   82 (647)
                      .+|...|..++..+++.|++++|+++|++|.+.|+.+++..+++.++.+|.+.|.+++|..++..|..    ||..+|+.
T Consensus       367 ~~~~~~~~~~y~~l~r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~----pd~~Tyn~  442 (1060)
T PLN03218        367 KRKSPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRN----PTLSTFNM  442 (1060)
T ss_pred             CCCchHHHHHHHHHHHCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcCC----CCHHHHHH
Confidence            46677899999999999999999999999999997578888999999999999999999999998864    89999999


Q ss_pred             HHHHHHhcCChHHHHHHhccCCC----CCchHHHHHHHHHHhcCChHHHHHHhhcCC----CCCeehHHHHHHHHHhCCC
Q 006388           83 LVDMYAKLGLIYDAKRGFDELPE----KNIVMYNTMITGLLRRGLVEESRRLFRGMK----DKDSISWTTMITGLMQNGL  154 (647)
Q Consensus        83 li~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~g~  154 (647)
                      |+.+|++.|+++.|.++|+.|.+    ||..+|++||.+|++.|++++|.++|++|.    .||..+|+.||.+|++.|+
T Consensus       443 LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~  522 (1060)
T PLN03218        443 LMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQ  522 (1060)
T ss_pred             HHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcC
Confidence            99999999999999999999974    899999999999999999999999999998    4799999999999999999


Q ss_pred             hhHHHHHHHHHHHCCCCCChhhHHHHHHHHhcCCChHHHHHHHHHHHH--cCCCCchhHHHHHHHHHHhcCCHHHHHHHH
Q 006388          155 EREAIDLFREMRLEGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIR--NDHKDNVFVGSALVDMYCKCKSIKYAESVF  232 (647)
Q Consensus       155 ~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~--~g~~~~~~~~~~li~~y~~~g~~~~A~~~~  232 (647)
                      +++|+++|++|.+.|+.||..||+.+|.+|++.|++++|.+++++|.+  .|+.||..+|++|+.+|+++|++++|.++|
T Consensus       523 ~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf  602 (1060)
T PLN03218        523 VAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVY  602 (1060)
T ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            999999999999999999999999999999999999999999999987  678999999999999999999999999999


Q ss_pred             hcCCC----CChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCc
Q 006388          233 RTMAW----KNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLIS  308 (647)
Q Consensus       233 ~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~  308 (647)
                      +.|.+    ++..+||++|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|++++|.+++..|.+.|+.|
T Consensus       603 ~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~p  682 (1060)
T PLN03218        603 QMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKL  682 (1060)
T ss_pred             HHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCC
Confidence            99975    46699999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhhcC----CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 006388          309 FITVSNALVTFYGKCGNIEDSHRLFNEMN----VRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLS  384 (647)
Q Consensus       309 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~----~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~  384 (647)
                      +..+|++|+.+|+++|++++|.++|++|.    .||+.+||+||.+|++.|++++|+++|++|.+.|+.||..||+.++.
T Consensus       683 d~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~  762 (1060)
T PLN03218        683 GTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLV  762 (1060)
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            99999999999999999999999999995    78999999999999999999999999999999999999999999999


Q ss_pred             HHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHH----HcC-------------------CHHHHHHHHHhC---
Q 006388          385 ACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILS----RAG-------------------RLEEAKSFINKM---  438 (647)
Q Consensus       385 a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~----~~g-------------------~~~~A~~~~~~~---  438 (647)
                      +|++.|++++|.++|+.|.+. |+.||..+|++|+.++.    +++                   ..++|..+|++|   
T Consensus       763 a~~k~G~le~A~~l~~~M~k~-Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w~~~Al~lf~eM~~~  841 (1060)
T PLN03218        763 ASERKDDADVGLDLLSQAKED-GIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALMVYRETISA  841 (1060)
T ss_pred             HHHHCCCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccchHHHHHHHHHHHHHC
Confidence            999999999999999999876 99999999999997743    222                   346799999999   


Q ss_pred             CCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhc-cCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHhCCCccCCC
Q 006388          439 PFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLE-LDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREKGVRKDPG  514 (647)
Q Consensus       439 ~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~~~~~  514 (647)
                      ++.||..+|+.++.++...+..+.+..+++.+.. -.+++..+|..|++.+.+.  .++|..++++|.+.|+.|+..
T Consensus       842 Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~~~~~~y~~Li~g~~~~--~~~A~~l~~em~~~Gi~p~~~  916 (1060)
T PLN03218        842 GTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGFGEY--DPRAFSLLEEAASLGVVPSVS  916 (1060)
T ss_pred             CCCCCHHHHHHHHHHhcccccHHHHHHHHHHhccCCCCcchhhhHHHHHhhccC--hHHHHHHHHHHHHcCCCCCcc
Confidence            7899999999999877788888888888876543 3456789999999988432  368999999999999988764

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=3.5e-63  Score=547.32  Aligned_cols=508  Identities=13%  Similarity=0.158  Sum_probs=467.1

Q ss_pred             CCCcchHHHHHHHHhCCCChHHHHHHHHHHHHhCC-CCchhhHHHHHHHHHhcCChHHHHHHhccCCCCCchHHHHHHHH
Q 006388           39 NLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGF-GSYVFVGSPLVDMYAKLGLIYDAKRGFDELPEKNIVMYNTMITG  117 (647)
Q Consensus        39 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~  117 (647)
                      .++...|..++..+.+.|++++|.++++.|.+.|+ +++..+++.++..|.+.|.+++|.++|+.|..||..+|+.+|.+
T Consensus       367 ~~~~~~~~~~y~~l~r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~pd~~Tyn~LL~a  446 (1060)
T PLN03218        367 KRKSPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRNPTLSTFNMLMSV  446 (1060)
T ss_pred             CCCchHHHHHHHHHHHCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcCCCCHHHHHHHHHH
Confidence            56778899999999999999999999999999986 57888889999999999999999999999999999999999999


Q ss_pred             HHhcCChHHHHHHhhcCCC----CCeehHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHhcCCChHHH
Q 006388          118 LLRRGLVEESRRLFRGMKD----KDSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSVLTACGGLLALEEG  193 (647)
Q Consensus       118 ~~~~g~~~~A~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a  193 (647)
                      |++.|+++.|.++|+.|.+    ||..+|+.||.+|++.|++++|.++|++|.+.|+.||..||+.+|.+|++.|++++|
T Consensus       447 ~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeA  526 (1060)
T PLN03218        447 CASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKA  526 (1060)
T ss_pred             HHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHH
Confidence            9999999999999999975    699999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCC------CCChhHHHHHHHHHHhcCChhHHHHHHHHHH
Q 006388          194 KQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMA------WKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQ  267 (647)
Q Consensus       194 ~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~------~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  267 (647)
                      .++|+.|.+.|+.||..+|+.||.+|++.|++++|.++|++|.      .||.++|++||.+|++.|++++|.++|++|.
T Consensus       527 l~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~  606 (1060)
T PLN03218        527 FGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIH  606 (1060)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999995      4789999999999999999999999999999


Q ss_pred             HCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcC----CCChhh
Q 006388          268 RNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMN----VRDEVS  343 (647)
Q Consensus       268 ~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~----~~d~~~  343 (647)
                      +.|+.|+..+|+.++.+|++.|++++|..+|..|.+.|+.||..+|++++++|++.|++++|.++|+.|.    .+|..+
T Consensus       607 e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~t  686 (1060)
T PLN03218        607 EYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVS  686 (1060)
T ss_pred             HcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999999999997    569999


Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHH
Q 006388          344 WTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILS  423 (647)
Q Consensus       344 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~  423 (647)
                      |++||.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|++++|.++|+.|.+. |+.||..+|+.++.+|+
T Consensus       687 ynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~-Gi~Pd~~Ty~sLL~a~~  765 (1060)
T PLN03218        687 YSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRL-GLCPNTITYSILLVASE  765 (1060)
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999865 99999999999999999


Q ss_pred             HcCCHHHHHHHHHhC---CCCCChhhHHHHHHHHHh-----------------------cCChhHHHHHHHHHhccC-CC
Q 006388          424 RAGRLEEAKSFINKM---PFPPDAIGWATLLSSCRI-----------------------HGNVEIGKWAAESLLELD-PY  476 (647)
Q Consensus       424 ~~g~~~~A~~~~~~~---~~~p~~~~~~~ll~~~~~-----------------------~~~~~~a~~~~~~~~~~~-p~  476 (647)
                      +.|++++|.+++.+|   ++.||..+|++|+..|.+                       .+..+.|..+|++|.+.+ .+
T Consensus       766 k~G~le~A~~l~~~M~k~Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w~~~Al~lf~eM~~~Gi~P  845 (1060)
T PLN03218        766 RKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALMVYRETISAGTLP  845 (1060)
T ss_pred             HCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccchHHHHHHHHHHHHHCCCCC
Confidence            999999999999999   689999999999977643                       123467889999998865 34


Q ss_pred             CchhHHHHHHhhhhCCChhHHHHHHHHHHhCCCccCCCcceEeEcCeEEEEEecCCCCcchHHHHHHHHHHHHhhHhcCc
Q 006388          477 NPASYVLLSSIYASKGKWDHVSQLRRTMREKGVRKDPGCSWIKYKSRVHIFSADDWSSPYSDQIYAELEKLNRKMIKEGY  556 (647)
Q Consensus       477 ~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~s~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~l~~~m~~~g~  556 (647)
                      |..+|..++..+...+.++.+..+++.|...+..++..    .++..++.+  +  .+      ..++..++++|.+.|+
T Consensus       846 d~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~~~~~----~y~~Li~g~--~--~~------~~~A~~l~~em~~~Gi  911 (1060)
T PLN03218        846 TMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQS----NLSTLVDGF--G--EY------DPRAFSLLEEAASLGV  911 (1060)
T ss_pred             CHHHHHHHHHHhcccccHHHHHHHHHHhccCCCCcchh----hhHHHHHhh--c--cC------hHHHHHHHHHHHHcCC
Confidence            78899999988889999999988888887766654432    233333322  1  11      1357789999999999


Q ss_pred             ccCCc
Q 006388          557 VPDMS  561 (647)
Q Consensus       557 ~pd~~  561 (647)
                      .|+..
T Consensus       912 ~p~~~  916 (1060)
T PLN03218        912 VPSVS  916 (1060)
T ss_pred             CCCcc
Confidence            99986

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

Probab=100.00  E-value=5.5e-59  Score=512.31  Aligned_cols=489  Identities=21%  Similarity=0.334  Sum_probs=425.5

Q ss_pred             CCeehHHHHHHHHHhCCChhHHHHHHHHHHHCC-CCCChhhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHHHH
Q 006388          137 KDSISWTTMITGLMQNGLEREAIDLFREMRLEG-LAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSAL  215 (647)
Q Consensus       137 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l  215 (647)
                      ++..+|+.+|.+|.+.|++++|+++|+.|...+ +.||..||+.++.+|++.++++.+.+++..+.+.|+.||..++|.|
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            477899999999999999999999999998865 7899999999999999999999999999999999999999999999


Q ss_pred             HHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHH
Q 006388          216 VDMYCKCKSIKYAESVFRTMAWKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGT  295 (647)
Q Consensus       216 i~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~  295 (647)
                      +++|+++|++++|.++|++|+++|+++||+||.+|++.|++++|+++|++|.+.|+.||..||+.++.+|+..|..+.+.
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             HHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC
Q 006388          296 QFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPD  375 (647)
Q Consensus       296 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  375 (647)
                      +++..+.+.|+.+|..++|+|+++|+++|++++|.++|++|..+|+++||+||.+|++.|+.++|+++|++|.+.|+.||
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             HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCChhhHHHHHHHHH
Q 006388          376 EVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKMPFPPDAIGWATLLSSCR  455 (647)
Q Consensus       376 ~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~  455 (647)
                      ..||+.++.+|++.|.+++|.++++.|.+. |+.|+..+|++|+++|+++|++++|.++|++|. +||..+|++|+.+|.
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            999999999999999999999999999876 999999999999999999999999999999997 589999999999999


Q ss_pred             hcCChhHHHHHHHHHhccC-CCCchhHHHHHHhhhhCCChhHHHHHHHHHHh-CCCccCCCcceEeEcCeEEEEEecCCC
Q 006388          456 IHGNVEIGKWAAESLLELD-PYNPASYVLLSSIYASKGKWDHVSQLRRTMRE-KGVRKDPGCSWIKYKSRVHIFSADDWS  533 (647)
Q Consensus       456 ~~~~~~~a~~~~~~~~~~~-p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~-~g~~~~~~~s~~~~~~~~~~f~~~~~~  533 (647)
                      ++|+.++|.+++++|.+.+ .+|..+|..++.+|++.|++++|.++|+.|.+ .|+.|+...    +...+..+.    .
T Consensus       403 ~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~----y~~li~~l~----r  474 (697)
T PLN03081        403 NHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMH----YACMIELLG----R  474 (697)
T ss_pred             HcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccc----hHhHHHHHH----h
Confidence            9999999999999998754 33889999999999999999999999999975 688876531    222221111    1


Q ss_pred             CcchHHHHHHHHHHHHhhHhcCcccCCcccccccchhhhhhhcccccHHHHHHHhhccCCCCCcEEEEeccccCCCccch
Q 006388          534 SPYSDQIYAELEKLNRKMIKEGYVPDMSSVLHDVELSEKIKMLNHHSEKLAIAFGLLFIPPGLPIRVVKNLRVCSDCHNA  613 (647)
Q Consensus       534 ~~~~~~~~~~l~~l~~~m~~~g~~pd~~~~~~~~~~~~~~~~~~~~~e~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  613 (647)
                      .       ..+++..+.++++++.||..+|...+..+.+.+.+..--+-....+++.+...+..+.+++-...+|+-.+|
T Consensus       475 ~-------G~~~eA~~~~~~~~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~~p~~~~~y~~L~~~y~~~G~~~~A  547 (697)
T PLN03081        475 E-------GLLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLYNSSGRQAEA  547 (697)
T ss_pred             c-------CCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhCCCCCCCcchHHHHHHHHhCCCHHHH
Confidence            1       134555566677899999999876666655444332111111122344433333334455667889999999


Q ss_pred             hhhhhhhccceEEEe-------cCCccccccCcccC
Q 006388          614 TKYISKITQREILVR-------DAVRFHLFKNGECS  642 (647)
Q Consensus       614 ~~~~s~~~~~~~~~~-------~~~~~h~~~~g~cs  642 (647)
                      .++..+|..+.+-..       -.+..|.|-.|..+
T Consensus       548 ~~v~~~m~~~g~~k~~g~s~i~~~~~~~~f~~~d~~  583 (697)
T PLN03081        548 AKVVETLKRKGLSMHPACTWIEVKKQDHSFFSGDRL  583 (697)
T ss_pred             HHHHHHHHHcCCccCCCeeEEEECCeEEEEccCCCC
Confidence            999998888865322       23456777655443

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

Probab=100.00  E-value=1.3e-30  Score=300.46  Aligned_cols=493  Identities=14%  Similarity=0.057  Sum_probs=375.3

Q ss_pred             CcccHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCCcchHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCchhhHHHHH
Q 006388            5 DGVSWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGSPLV   84 (647)
Q Consensus         5 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li   84 (647)
                      +...|+.+...+.+.|++++|.++|+++.+..  +.+...+..+...+...|++++|...++.+.+.. +........++
T Consensus       362 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~  438 (899)
T TIGR02917       362 DPAALSLLGEAYLALGDFEKAAEYLAKATELD--PENAAARTQLGISKLSQGDPSEAIADLETAAQLD-PELGRADLLLI  438 (899)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhhC-CcchhhHHHHH
Confidence            34456666666666666666666666666554  4445555566666666666666666666666554 22334445566


Q ss_pred             HHHHhcCChHHHHHHhccCCC---CCchHHHHHHHHHHhcCChHHHHHHhhcCCC---CCeehHHHHHHHHHhCCChhHH
Q 006388           85 DMYAKLGLIYDAKRGFDELPE---KNIVMYNTMITGLLRRGLVEESRRLFRGMKD---KDSISWTTMITGLMQNGLEREA  158 (647)
Q Consensus        85 ~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A  158 (647)
                      ..|.+.|++++|..+++.+..   ++..+|..+...+...|++++|.+.|+++.+   .+...+..+...+...|++++|
T Consensus       439 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A  518 (899)
T TIGR02917       439 LSYLRSGQFDKALAAAKKLEKKQPDNASLHNLLGAIYLGKGDLAKAREAFEKALSIEPDFFPAAANLARIDIQEGNPDDA  518 (899)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHCCCHHHH
Confidence            667777777777777766653   3456777777788888888888888876643   2445666777777788888888


Q ss_pred             HHHHHHHHHCCCCCChhhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC-
Q 006388          159 IDLFREMRLEGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAW-  237 (647)
Q Consensus       159 ~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~-  237 (647)
                      .+.|+++...+. .+..++..+...+...|+.++|...+..+.+.+ +.+...+..++..|.+.|++++|..+++.+.. 
T Consensus       519 ~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  596 (899)
T TIGR02917       519 IQRFEKVLTIDP-KNLRAILALAGLYLRTGNEEEAVAWLEKAAELN-PQEIEPALALAQYYLGKGQLKKALAILNEAADA  596 (899)
T ss_pred             HHHHHHHHHhCc-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHc
Confidence            888888776532 255567777777777888888888888877664 44556677788888888888888888887753 


Q ss_pred             --CChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHH
Q 006388          238 --KNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNA  315 (647)
Q Consensus       238 --~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  315 (647)
                        .+...|..+...|...|++++|+..|+++.+.. +.+...+..+..++...|++++|..++..+.+.. +.+...+..
T Consensus       597 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~  674 (899)
T TIGR02917       597 APDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIG  674 (899)
T ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHH
Confidence              356788888888888888888888888887653 3345667777788888888888888888887764 445777888


Q ss_pred             HHHHHHhcCCHHHHHHHHhhcCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcH
Q 006388          316 LVTFYGKCGNIEDSHRLFNEMNV---RDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLV  392 (647)
Q Consensus       316 li~~~~~~g~~~~A~~~~~~~~~---~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~  392 (647)
                      ++..+...|++++|.++++.+..   .+...|..+...+...|++++|+..|+++...  .|+..++..+..++.+.|++
T Consensus       675 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~  752 (899)
T TIGR02917       675 LAQLLLAAKRTESAKKIAKSLQKQHPKAALGFELEGDLYLRQKDYPAAIQAYRKALKR--APSSQNAIKLHRALLASGNT  752 (899)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhhCcCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHCCCH
Confidence            88888888999988888888762   35667888888889999999999999998885  45557777888889999999


Q ss_pred             HHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-C-CCCChhhHHHHHHHHHhcCChhHHHHHHHHH
Q 006388          393 EKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-P-FPPDAIGWATLLSSCRIHGNVEIGKWAAESL  470 (647)
Q Consensus       393 ~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~  470 (647)
                      ++|.+.++.+.+.  .+.+...+..+...|.+.|++++|.+.|+++ . .++++.+++.+...+...|+ ++|+..++++
T Consensus       753 ~~A~~~~~~~l~~--~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~  829 (899)
T TIGR02917       753 AEAVKTLEAWLKT--HPNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKAPDNAVVLNNLAWLYLELKD-PRALEYAEKA  829 (899)
T ss_pred             HHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCc-HHHHHHHHHH
Confidence            9999999988763  4557788899999999999999999999987 2 33468889999999999999 8899999999


Q ss_pred             hccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHhCCC
Q 006388          471 LELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREKGV  509 (647)
Q Consensus       471 ~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~  509 (647)
                      ++..|+++..+..++.+|...|++++|.++++++.+.+.
T Consensus       830 ~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~  868 (899)
T TIGR02917       830 LKLAPNIPAILDTLGWLLVEKGEADRALPLLRKAVNIAP  868 (899)
T ss_pred             HhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            999999999999999999999999999999999988654

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=100.00  E-value=1.6e-30  Score=299.69  Aligned_cols=491  Identities=10%  Similarity=-0.004  Sum_probs=431.4

Q ss_pred             CcccHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCCcchHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCchhhHHHHH
Q 006388            5 DGVSWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGSPLV   84 (647)
Q Consensus         5 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li   84 (647)
                      +...|..+...+...|++++|.+.|+.+.+..  +.+......++..+.+.|++++|..+++.+.+.. +.++.+++.+.
T Consensus       396 ~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~  472 (899)
T TIGR02917       396 NAAARTQLGISKLSQGDPSEAIADLETAAQLD--PELGRADLLLILSYLRSGQFDKALAAAKKLEKKQ-PDNASLHNLLG  472 (899)
T ss_pred             CHHHHHHHHHHHHhCCChHHHHHHHHHHHhhC--CcchhhHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CCCcHHHHHHH
Confidence            45678888999999999999999999999876  4556677778888999999999999999998764 56788899999


Q ss_pred             HHHHhcCChHHHHHHhccCCC---CCchHHHHHHHHHHhcCChHHHHHHhhcCCC---CCeehHHHHHHHHHhCCChhHH
Q 006388           85 DMYAKLGLIYDAKRGFDELPE---KNIVMYNTMITGLLRRGLVEESRRLFRGMKD---KDSISWTTMITGLMQNGLEREA  158 (647)
Q Consensus        85 ~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A  158 (647)
                      ..|...|++++|.+.|+++.+   .+...+..+...+...|++++|.+.|+.+.+   .+..++..+...+.+.|++++|
T Consensus       473 ~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  552 (899)
T TIGR02917       473 AIYLGKGDLAKAREAFEKALSIEPDFFPAAANLARIDIQEGNPDDAIQRFEKVLTIDPKNLRAILALAGLYLRTGNEEEA  552 (899)
T ss_pred             HHHHhCCCHHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHcCCHHHH
Confidence            999999999999999998763   3556788899999999999999999998864   3667889999999999999999


Q ss_pred             HHHHHHHHHCCCCCChhhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC-
Q 006388          159 IDLFREMRLEGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAW-  237 (647)
Q Consensus       159 ~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~-  237 (647)
                      ...|.++...+ +.+...+..+...+...|++++|.++++.+.+.. +.+..++..+...|.+.|++++|...|+.+.+ 
T Consensus       553 ~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  630 (899)
T TIGR02917       553 VAWLEKAAELN-PQEIEPALALAQYYLGKGQLKKALAILNEAADAA-PDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLAL  630 (899)
T ss_pred             HHHHHHHHHhC-ccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            99999998764 2355677888999999999999999999998764 56778899999999999999999999998753 


Q ss_pred             --CChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHH
Q 006388          238 --KNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNA  315 (647)
Q Consensus       238 --~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  315 (647)
                        .+...|..+...+.+.|++++|...|+++.+.. +.+..++..+...+...|++++|..++..+.+.. +.+...+..
T Consensus       631 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~  708 (899)
T TIGR02917       631 QPDSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQH-PKAALGFEL  708 (899)
T ss_pred             CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCChHHHHH
Confidence              367789999999999999999999999998753 3457788899999999999999999999998876 567778888


Q ss_pred             HHHHHHhcCCHHHHHHHHhhcC--CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHH
Q 006388          316 LVTFYGKCGNIEDSHRLFNEMN--VRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVE  393 (647)
Q Consensus       316 li~~~~~~g~~~~A~~~~~~~~--~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~  393 (647)
                      +...|.+.|++++|.+.|+.+.  .|+..++..++..+.+.|++++|.+.++++.+.. +.+...+..+...|...|+.+
T Consensus       709 ~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~  787 (899)
T TIGR02917       709 EGDLYLRQKDYPAAIQAYRKALKRAPSSQNAIKLHRALLASGNTAEAVKTLEAWLKTH-PNDAVLRTALAELYLAQKDYD  787 (899)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHH
Confidence            9999999999999999999886  4555778889999999999999999999999863 445668888889999999999


Q ss_pred             HHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHh
Q 006388          394 KGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLL  471 (647)
Q Consensus       394 ~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  471 (647)
                      +|.++|+.+.+.  .+++...+..+..++...|+ ++|+++++++ ...| +..++..+...+...|++++|...+++++
T Consensus       788 ~A~~~~~~~~~~--~p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~  864 (899)
T TIGR02917       788 KAIKHYRTVVKK--APDNAVVLNNLAWLYLELKD-PRALEYAEKALKLAPNIPAILDTLGWLLVEKGEADRALPLLRKAV  864 (899)
T ss_pred             HHHHHHHHHHHh--CCCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            999999999864  35678899999999999999 8899999987 4444 46788899999999999999999999999


Q ss_pred             ccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHh
Q 006388          472 ELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       472 ~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      +.+|.++.++..++.+|.+.|++++|.+++++|.+
T Consensus       865 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  899 (899)
T TIGR02917       865 NIAPEAAAIRYHLALALLATGRKAEARKELDKLLN  899 (899)
T ss_pred             hhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHhC
Confidence            99999999999999999999999999999999863

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=99.97  E-value=1e-32  Score=223.46  Aligned_cols=106  Identities=63%  Similarity=0.962  Sum_probs=97.3

Q ss_pred             CcceEeEcCeEEEEEecCCCCcchHHHHHHHHHHHHhhHhcCcccCCcccccccchhhh--------hhhcccccHHHHH
Q 006388          514 GCSWIKYKSRVHIFSADDWSSPYSDQIYAELEKLNRKMIKEGYVPDMSSVLHDVELSEK--------IKMLNHHSEKLAI  585 (647)
Q Consensus       514 ~~s~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~l~~~m~~~g~~pd~~~~~~~~~~~~~--------~~~~~~~~e~la~  585 (647)
                      ||||+++    |.|++||.+||+.        ++..++...||.|++....++++++++        ...+..||||||+
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            6899987    9999999999997        566777888999999999988877665        4578999999999


Q ss_pred             HHhhccCCCCCcEEEEecc-ccCCCccchhhhhhhhccceEEEecCCcccccc
Q 006388          586 AFGLLFIPPGLPIRVVKNL-RVCSDCHNATKYISKITQREILVRDAVRFHLFK  637 (647)
Q Consensus       586 ~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~s~~~~~~~~~~~~~~~h~~~  637 (647)
                      ||||+++      ||+||+ |||+|||+|+|+||++++|+|+|||++|||||+
T Consensus        70 afgli~~------~vvkn~~RvC~DCH~~~K~iS~~~~ReIiVRD~~rfHhFk  116 (116)
T PF14432_consen   70 AFGLINT------RVVKNLKRVCGDCHSFIKFISKITGREIIVRDSNRFHHFK  116 (116)
T ss_pred             Hhcccce------eEEecCCccchHHHHHHHHHHHHHCeEEEEeCCCeeeeCC
Confidence            9999988      899999 999999999999999999999999999999996

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.94  E-value=4.9e-22  Score=230.13  Aligned_cols=489  Identities=10%  Similarity=0.005  Sum_probs=261.2

Q ss_pred             CcccHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCCcchH----------------HHHHHHHhCCCChHHHHHHHHHH
Q 006388            5 DGVSWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITF----------------STMLIMSSSRRCVDLGRQIHGHI   68 (647)
Q Consensus         5 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~----------------~~ll~~~~~~~~~~~a~~~~~~~   68 (647)
                      |+..+..++..+.+.|+.++|.+.+++..+..  |.+....                ..+...+...|++++|.+.++.+
T Consensus        61 ~p~~~~~~~~~~l~~g~~~~A~~~l~~l~~~~--P~~~~~~~~~~~~~~~~~~~~~~l~~A~ll~~~g~~~eA~~~~~~~  138 (1157)
T PRK11447         61 NPDVIAARFRLLLRQGDSDGAQKLLDRLSQLA--PDSNAYRSSRTTMLLSTPEGRQALQQARLLATTGRTEEALASYDKL  138 (1157)
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHHHHhhC--CCChHHHHHHHHHHhcCCchhhHHHHHHHHHhCCCHHHHHHHHHHH
Confidence            34455556666666666666666666666654  3332221                11223455566666666666666


Q ss_pred             HHhCCCCchhhH-HHHHHHHHhcCChHHHHHHhccCCC--C-CchHHHHHHHHHHhcCChHHHHHHhhcCCCCCe-----
Q 006388           69 LKFGFGSYVFVG-SPLVDMYAKLGLIYDAKRGFDELPE--K-NIVMYNTMITGLLRRGLVEESRRLFRGMKDKDS-----  139 (647)
Q Consensus        69 ~~~g~~~~~~~~-~~li~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~-----  139 (647)
                      .+.. +++.... ..+.......|+.++|++.|+++.+  | +...+..+...+...|+.++|+..|+++.+...     
T Consensus       139 l~~~-p~~~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~P~~~~~~~~LA~ll~~~g~~~eAl~~l~~~~~~~~~~~~a  217 (1157)
T PRK11447        139 FNGA-PPELDLAVEYWRLVAKLPAQRPEAINQLQRLNADYPGNTGLRNTLALLLFSSGRRDEGFAVLEQMAKSPAGRDAA  217 (1157)
T ss_pred             ccCC-CCChHHHHHHHHHHhhCCccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHhhCCCchHHH
Confidence            5543 2222111 1111112233666666666666653  2 333455566666666666666666655432100     


Q ss_pred             -eh-----------------HH----------------------------------HHHHHHHhCCChhHHHHHHHHHHH
Q 006388          140 -IS-----------------WT----------------------------------TMITGLMQNGLEREAIDLFREMRL  167 (647)
Q Consensus       140 -~~-----------------~~----------------------------------~li~~~~~~g~~~~A~~~~~~m~~  167 (647)
                       ..                 +.                                  .+...+...|++++|+..|++..+
T Consensus       218 a~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~dp~~~~~~~G~~~~~~g~~~~A~~~l~~aL~  297 (1157)
T PRK11447        218 AQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLADPAFRARAQGLAAVDSGQGGKAIPELQQAVR  297 (1157)
T ss_pred             HHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccCcchHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence             00                 00                                  011233445666666666666555


Q ss_pred             CCCCCChhhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCc-hhHH------------HHHHHHHHhcCCHHHHHHHHhc
Q 006388          168 EGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDN-VFVG------------SALVDMYCKCKSIKYAESVFRT  234 (647)
Q Consensus       168 ~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~-~~~~------------~~li~~y~~~g~~~~A~~~~~~  234 (647)
                      ... .+...+..+..++.+.|++++|...++..++...... ...+            ..+...+.+.|++++|...|++
T Consensus       298 ~~P-~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~~~g~~~~~~g~~~eA~~~~~~  376 (1157)
T PRK11447        298 ANP-KDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLIQQGDAALKANNLAQAERLYQQ  376 (1157)
T ss_pred             hCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            321 1344555555555666666666666666555432111 1111            1123345555666666666655


Q ss_pred             CCC---CChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhccCChHHHHHHHHHHHHhCCC---
Q 006388          235 MAW---KNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPD-DFTLGSVISSCANLASLEEGTQFHGRSLVTGLI---  307 (647)
Q Consensus       235 ~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~---  307 (647)
                      ...   .+..++..+...+...|++++|++.|++..+.  .|+ ...+..+...+. .++.++|..++..+......   
T Consensus       377 Al~~~P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~--~p~~~~a~~~L~~l~~-~~~~~~A~~~l~~l~~~~~~~~~  453 (1157)
T PRK11447        377 ARQVDNTDSYAVLGLGDVAMARKDYAAAERYYQQALRM--DPGNTNAVRGLANLYR-QQSPEKALAFIASLSASQRRSID  453 (1157)
T ss_pred             HHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHH-hcCHHHHHHHHHhCCHHHHHHHH
Confidence            543   23445555556666666666666666665543  222 222222222221 12233333332221110000   


Q ss_pred             -----cchhHHHHHHHHHHhcCCHHHHHHHHhhcCC--C-ChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHH-H
Q 006388          308 -----SFITVSNALVTFYGKCGNIEDSHRLFNEMNV--R-DEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEV-T  378 (647)
Q Consensus       308 -----~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t  378 (647)
                           .....+..+...+...|++++|.+.|++...  | +...+..+...|.+.|++++|...|++..+.  .|+.. .
T Consensus       454 ~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~--~P~~~~~  531 (1157)
T PRK11447        454 DIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDPGSVWLTYRLAQDLRQAGQRSQADALMRRLAQQ--KPNDPEQ  531 (1157)
T ss_pred             HHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHH
Confidence                 0001122233444555666666666665541  2 3444555555666666666666666665542  22211 1


Q ss_pred             HH--------------------------------------------HHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHH
Q 006388          379 LI--------------------------------------------GVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDH  414 (647)
Q Consensus       379 ~~--------------------------------------------~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~  414 (647)
                      +.                                            .....+...|+.++|..+++      ..+++...
T Consensus       532 ~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~------~~p~~~~~  605 (1157)
T PRK11447        532 VYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLR------QQPPSTRI  605 (1157)
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHH------hCCCCchH
Confidence            11                                            22333445555555555544      12345556


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCC
Q 006388          415 YTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKG  492 (647)
Q Consensus       415 ~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  492 (647)
                      +..+.+.|.+.|++++|++.+++. ...| +...+..++..+...|++++|+..++++.+..|+++..+..++.++...|
T Consensus       606 ~~~La~~~~~~g~~~~A~~~y~~al~~~P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~p~~~~~~~~la~~~~~~g  685 (1157)
T PRK11447        606 DLTLADWAQQRGDYAAARAAYQRVLTREPGNADARLGLIEVDIAQGDLAAARAQLAKLPATANDSLNTQRRVALAWAALG  685 (1157)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccCCCChHHHHHHHHHHHhCC
Confidence            677888888888888888888877 3445 47778888888888888888888888888888888888888888888888


Q ss_pred             ChhHHHHHHHHHHhCC
Q 006388          493 KWDHVSQLRRTMREKG  508 (647)
Q Consensus       493 ~~~~a~~~~~~m~~~g  508 (647)
                      ++++|.++++++....
T Consensus       686 ~~~eA~~~~~~al~~~  701 (1157)
T PRK11447        686 DTAAAQRTFNRLIPQA  701 (1157)
T ss_pred             CHHHHHHHHHHHhhhC
Confidence            8888888888887643

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.94  E-value=3.1e-21  Score=223.46  Aligned_cols=488  Identities=10%  Similarity=0.014  Sum_probs=350.9

Q ss_pred             HHHHHHHHcCCChhHHHHHHHHHHHCCCCCCCcch-HHHHHHHHhCCCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHH
Q 006388           10 NLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRIT-FSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGSPLVDMYA   88 (647)
Q Consensus        10 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~-~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~   88 (647)
                      -.+...+.+.|++++|++.|+++.+.+  +|+... ...........|+.++|...++.+++.. +.+......+..++.
T Consensus       116 l~~A~ll~~~g~~~eA~~~~~~~l~~~--p~~~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~-P~~~~~~~~LA~ll~  192 (1157)
T PRK11447        116 LQQARLLATTGRTEEALASYDKLFNGA--PPELDLAVEYWRLVAKLPAQRPEAINQLQRLNADY-PGNTGLRNTLALLLF  192 (1157)
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHccCC--CCChHHHHHHHHHHhhCCccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            344556888999999999999998765  555421 1111222335688999999999998876 556778888999999


Q ss_pred             hcCChHHHHHHhccCCCCCc------hH-----------------HH---------------------------------
Q 006388           89 KLGLIYDAKRGFDELPEKNI------VM-----------------YN---------------------------------  112 (647)
Q Consensus        89 ~~g~~~~A~~~~~~~~~~~~------~~-----------------~~---------------------------------  112 (647)
                      ..|+.++|...|+++.+...      ..                 +.                                 
T Consensus       193 ~~g~~~eAl~~l~~~~~~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~dp~~~~  272 (1157)
T PRK11447        193 SSGRRDEGFAVLEQMAKSPAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLADPAFRA  272 (1157)
T ss_pred             ccCCHHHHHHHHHHHhhCCCchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccCcchHH
Confidence            99999999998887642100      00                 00                                 


Q ss_pred             -HHHHHHHhcCChHHHHHHhhcCCC--C-CeehHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCh-hhH----------
Q 006388          113 -TMITGLLRRGLVEESRRLFRGMKD--K-DSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQ-FTF----------  177 (647)
Q Consensus       113 -~li~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~-~t~----------  177 (647)
                       .+...+...|++++|+..|++..+  | +...+..|...|.+.|++++|+..|++..+....... ..+          
T Consensus       273 ~~~G~~~~~~g~~~~A~~~l~~aL~~~P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~  352 (1157)
T PRK11447        273 RAQGLAAVDSGQGGKAIPELQQAVRANPKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYW  352 (1157)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHH
Confidence             112345578999999999988765  3 6678888999999999999999999998875422111 111          


Q ss_pred             --HHHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCC---ChhHHHHHH-----
Q 006388          178 --GSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWK---NVVSWTAML-----  247 (647)
Q Consensus       178 --~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~---~~~~~~~li-----  247 (647)
                        ......+.+.|++++|...++.+++.. +.+...+..|..+|...|++++|++.|++....   +...+..+.     
T Consensus       353 ~~~~~g~~~~~~g~~~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~~~~a~~~L~~l~~~  431 (1157)
T PRK11447        353 LLIQQGDAALKANNLAQAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPGNTNAVRGLANLYRQ  431 (1157)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHh
Confidence              112345668899999999999998875 445667778889999999999999999887632   333333333     


Q ss_pred             -------------------------------------HHHHhcCChhHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhccC
Q 006388          248 -------------------------------------VGYGQNGCSEEAVKIFCNMQRNGIEPD-DFTLGSVISSCANLA  289 (647)
Q Consensus       248 -------------------------------------~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~~  289 (647)
                                                           ..+...|++++|++.|++..+.  .|+ ...+..+...+...|
T Consensus       432 ~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~--~P~~~~~~~~LA~~~~~~G  509 (1157)
T PRK11447        432 QSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLAL--DPGSVWLTYRLAQDLRQAG  509 (1157)
T ss_pred             cCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcC
Confidence                                                 3344567777777777777664  343 344556666677777


Q ss_pred             ChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCC----h---------hhHHHHHHHHHHcCC
Q 006388          290 SLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRD----E---------VSWTALVSGYAKFGK  356 (647)
Q Consensus       290 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~d----~---------~~~~~li~~~~~~g~  356 (647)
                      ++++|...++.+.+.. +.+......+...+.+.++.++|...++.+....    .         ..+..+...+...|+
T Consensus       510 ~~~~A~~~l~~al~~~-P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~  588 (1157)
T PRK11447        510 QRSQADALMRRLAQQK-PNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGK  588 (1157)
T ss_pred             CHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCC
Confidence            7777777777776543 2334444445555666777777777777765321    1         112234556778888


Q ss_pred             hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHH
Q 006388          357 ANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFIN  436 (647)
Q Consensus       357 ~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~  436 (647)
                      .++|+.+++.     .+++...+..+...+.+.|++++|...|+...+.  -+.+...+..++.+|...|++++|.+.++
T Consensus       589 ~~eA~~~l~~-----~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~--~P~~~~a~~~la~~~~~~g~~~eA~~~l~  661 (1157)
T PRK11447        589 EAEAEALLRQ-----QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTR--EPGNADARLGLIEVDIAQGDLAAARAQLA  661 (1157)
T ss_pred             HHHHHHHHHh-----CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            8888888772     2344556777888899999999999999999864  24457889999999999999999999999


Q ss_pred             hC-CCCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCc------hhHHHHHHhhhhCCChhHHHHHHHHHH-hC
Q 006388          437 KM-PFPPD-AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNP------ASYVLLSSIYASKGKWDHVSQLRRTMR-EK  507 (647)
Q Consensus       437 ~~-~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~------~~~~~l~~~~~~~g~~~~a~~~~~~m~-~~  507 (647)
                      .. ...|+ ...+..+..++...|++++|...++++++..|+++      ..+..++.++...|++++|.+.+++.. ..
T Consensus       662 ~ll~~~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al~~~  741 (1157)
T PRK11447        662 KLPATANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDAMVAS  741 (1157)
T ss_pred             HHhccCCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc
Confidence            87 34454 66778888889999999999999999998876543      356678999999999999999998875 44


Q ss_pred             CCcc
Q 006388          508 GVRK  511 (647)
Q Consensus       508 g~~~  511 (647)
                      |+.|
T Consensus       742 ~~~~  745 (1157)
T PRK11447        742 GITP  745 (1157)
T ss_pred             CCCC
Confidence            5543

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

Probab=99.91  E-value=1.9e-21  Score=190.95  Aligned_cols=447  Identities=15%  Similarity=0.119  Sum_probs=359.1

Q ss_pred             HHHHHHHHhCCCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHHhcCChHHHHHHhccCCC---CCchHHHHHHHHHHhc
Q 006388           45 FSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGSPLVDMYAKLGLIYDAKRGFDELPE---KNIVMYNTMITGLLRR  121 (647)
Q Consensus        45 ~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~  121 (647)
                      ...|..-..+.|++++|.+.-..+-... +.+....-.+-..+.+..+++....--....+   .-..+|..+...+-..
T Consensus        51 ~l~lah~~yq~gd~~~a~~h~nmv~~~d-~t~~~~llll~ai~~q~~r~d~s~a~~~~a~r~~~q~ae~ysn~aN~~ker  129 (966)
T KOG4626|consen   51 RLELAHRLYQGGDYKQAEKHCNMVGQED-PTNTERLLLLSAIFFQGSRLDKSSAGSLLAIRKNPQGAEAYSNLANILKER  129 (966)
T ss_pred             HHHHHHHHHhccCHHHHHHHHhHhhccC-CCcccceeeehhhhhcccchhhhhhhhhhhhhccchHHHHHHHHHHHHHHh
Confidence            5556666778899999887555443332 33333333344456666666654433222222   2346888999999999


Q ss_pred             CChHHHHHHhhcCCCC---CeehHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHH-HHHHHhcCCChHHHHHHH
Q 006388          122 GLVEESRRLFRGMKDK---DSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGS-VLTACGGLLALEEGKQIH  197 (647)
Q Consensus       122 g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~-ll~~~~~~~~~~~a~~~~  197 (647)
                      |++++|+.+++.+.+.   .+..|..+..++...|+.+.|.+.|.+..+  +.|+.....+ +-......|.+++|...+
T Consensus       130 g~~~~al~~y~~aiel~p~fida~inla~al~~~~~~~~a~~~~~~alq--lnP~l~ca~s~lgnLlka~Grl~ea~~cY  207 (966)
T KOG4626|consen  130 GQLQDALALYRAAIELKPKFIDAYINLAAALVTQGDLELAVQCFFEALQ--LNPDLYCARSDLGNLLKAEGRLEEAKACY  207 (966)
T ss_pred             chHHHHHHHHHHHHhcCchhhHHHhhHHHHHHhcCCCcccHHHHHHHHh--cCcchhhhhcchhHHHHhhcccchhHHHH
Confidence            9999999999988763   567899999999999999999999999887  4566554333 223334568899999998


Q ss_pred             HHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCC---hhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC
Q 006388          198 AFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWKN---VVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPD  274 (647)
Q Consensus       198 ~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  274 (647)
                      .+.++.. +.-..+|+.|...+-..|++..|+..|++...-|   ..+|-.|...|-..+.+++|+..|.+....  .|+
T Consensus       208 lkAi~~q-p~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~l--rpn  284 (966)
T KOG4626|consen  208 LKAIETQ-PCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPNFLDAYINLGNVYKEARIFDRAVSCYLRALNL--RPN  284 (966)
T ss_pred             HHHHhhC-CceeeeehhcchHHhhcchHHHHHHHHHHhhcCCCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhc--CCc
Confidence            8888764 3345678889999999999999999999987644   357888999999999999999999988764  565


Q ss_pred             H-HHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHH
Q 006388          275 D-FTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMN---VRDEVSWTALVSG  350 (647)
Q Consensus       275 ~-~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~d~~~~~~li~~  350 (647)
                      . ..+..+...|-..|.++.|...+++.++.. +.-...|+.|..++-..|++.+|...+.+..   .....+.+.|...
T Consensus       285 ~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~-P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p~hadam~NLgni  363 (966)
T KOG4626|consen  285 HAVAHGNLACIYYEQGLLDLAIDTYKRALELQ-PNFPDAYNNLANALKDKGSVTEAVDCYNKALRLCPNHADAMNNLGNI  363 (966)
T ss_pred             chhhccceEEEEeccccHHHHHHHHHHHHhcC-CCchHHHhHHHHHHHhccchHHHHHHHHHHHHhCCccHHHHHHHHHH
Confidence            4 677777778889999999999999998875 4456789999999999999999999999876   3356788999999


Q ss_pred             HHHcCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcCh-HHHHHHHHHHHHcCCH
Q 006388          351 YAKFGKANETIDLFEKMLSHGLKPDEV-TLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIH-DHYTCMIDILSRAGRL  428 (647)
Q Consensus       351 ~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~-~~~~~li~~~~~~g~~  428 (647)
                      |...|.+++|..+|....+  +.|.-. .++.|...|-+.|++++|+..+++.+   .+.|+. ..|+.+...|-..|+.
T Consensus       364 ~~E~~~~e~A~~ly~~al~--v~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykeal---rI~P~fAda~~NmGnt~ke~g~v  438 (966)
T KOG4626|consen  364 YREQGKIEEATRLYLKALE--VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEAL---RIKPTFADALSNMGNTYKEMGDV  438 (966)
T ss_pred             HHHhccchHHHHHHHHHHh--hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHH---hcCchHHHHHHhcchHHHHhhhH
Confidence            9999999999999999887  577754 78899999999999999999999887   678874 7899999999999999


Q ss_pred             HHHHHHHHhC-CCCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHH
Q 006388          429 EEAKSFINKM-PFPPD-AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRT  503 (647)
Q Consensus       429 ~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  503 (647)
                      ++|.+.+.++ .+.|. +...+.|...|...|++.+|+..++.++++.|+-+.+|..++....--.+|.+-.+-+++
T Consensus       439 ~~A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkPDfpdA~cNllh~lq~vcdw~D~d~~~~k  515 (966)
T KOG4626|consen  439 SAAIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKPDFPDAYCNLLHCLQIVCDWTDYDKRMKK  515 (966)
T ss_pred             HHHHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCCCCchhhhHHHHHHHHHhcccchHHHHHH
Confidence            9999999888 67787 778999999999999999999999999999999999999999888777777664433333

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.91  E-value=1.9e-19  Score=199.36  Aligned_cols=468  Identities=10%  Similarity=-0.014  Sum_probs=326.3

Q ss_pred             cCCChhHHHHHHHHHHHCCCCCCCcchHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHHhcCChHHHH
Q 006388           18 SHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGSPLVDMYAKLGLIYDAK   97 (647)
Q Consensus        18 ~~g~~~~A~~~~~~m~~~g~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~   97 (647)
                      ..|++++|+..|++..+..  |.+..++..|...+...|+.++|....++.++.. +.|...+..|...    +++++|.
T Consensus        56 ~~Gd~~~A~~~l~~Al~~d--P~n~~~~~~LA~~yl~~g~~~~A~~~~~kAv~ld-P~n~~~~~~La~i----~~~~kA~  128 (987)
T PRK09782         56 KNNDEATAIREFEYIHQQV--PDNIPLTLYLAEAYRHFGHDDRARLLLEDQLKRH-PGDARLERSLAAI----PVEVKSV  128 (987)
T ss_pred             hCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-cccHHHHHHHHHh----ccChhHH
Confidence            3599999999999999886  6678889999999999999999999999998876 3555555554222    8899999


Q ss_pred             HHhccCCC--C-CchHHHHHHHH--------HHhcCChHHHHHHhhcCCCCC--eehHHHH-HHHHHhCCChhHHHHHHH
Q 006388           98 RGFDELPE--K-NIVMYNTMITG--------LLRRGLVEESRRLFRGMKDKD--SISWTTM-ITGLMQNGLEREAIDLFR  163 (647)
Q Consensus        98 ~~~~~~~~--~-~~~~~~~li~~--------~~~~g~~~~A~~~~~~~~~~~--~~~~~~l-i~~~~~~g~~~~A~~~~~  163 (647)
                      .+++++.+  | +...+..+...        |.+.+....+++  .....++  ..+.... ...|.+.|++++|++++.
T Consensus       129 ~~ye~l~~~~P~n~~~~~~la~~~~~~~~l~y~q~eqAl~AL~--lr~~~~~~~~~vL~L~~~rlY~~l~dw~~Ai~lL~  206 (987)
T PRK09782        129 TTVEELLAQQKACDAVPTLRCRSEVGQNALRLAQLPVARAQLN--DATFAASPEGKTLRTDLLQRAIYLKQWSQADTLYN  206 (987)
T ss_pred             HHHHHHHHhCCCChhHHHHHHHHhhccchhhhhhHHHHHHHHH--HhhhCCCCCcHHHHHHHHHHHHHHhCHHHHHHHHH
Confidence            99999874  3 33445555554        777766666666  3333343  3333444 789999999999999999


Q ss_pred             HHHHCCCCCChhhHHHHHHHHhc-CCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCC----
Q 006388          164 EMRLEGLAMDQFTFGSVLTACGG-LLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWK----  238 (647)
Q Consensus       164 ~m~~~g~~pd~~t~~~ll~~~~~-~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~----  238 (647)
                      ++.+.+.. +..-...+-.++.. .++ +.+..++..    .+..+..+...+++.|.+.|+.++|.+++++++.-    
T Consensus       207 ~L~k~~pl-~~~~~~~L~~ay~q~l~~-~~a~al~~~----~lk~d~~l~~ala~~yi~~G~~~~A~~~L~~~~~~~~~~  280 (987)
T PRK09782        207 EARQQNTL-SAAERRQWFDVLLAGQLD-DRLLALQSQ----GIFTDPQSRITYATALAYRGEKARLQHYLIENKPLFTTD  280 (987)
T ss_pred             HHHhcCCC-CHHHHHHHHHHHHHhhCH-HHHHHHhch----hcccCHHHHHHHHHHHHHCCCHHHHHHHHHhCcccccCC
Confidence            99987643 33335555556666 355 666666442    33467888889999999999999999888877521    


Q ss_pred             -ChhHH-------------------------------------------H------------------------------
Q 006388          239 -NVVSW-------------------------------------------T------------------------------  244 (647)
Q Consensus       239 -~~~~~-------------------------------------------~------------------------------  244 (647)
                       ...+|                                           .                              
T Consensus       281 ~~~~~~~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~  360 (987)
T PRK09782        281 AQEKSWLYLLSKYSANPVQALANYTVQFADNRQYVVGATLPVLLKEGQYDAAQKLLATLPANEMLEERYAVSVATRNKAE  360 (987)
T ss_pred             CccHHHHHHHHhccCchhhhccchhhhhHHHHHHHHHHHHHHHHhccHHHHHHHHhcCCCcchHHHHHHhhccccCchhH
Confidence             00000                                           0                              


Q ss_pred             --------------------HHHHHHHhcCChhHHHHHHHHHHHC-C-CCCCHHHHHHHHHHHhcc--------------
Q 006388          245 --------------------AMLVGYGQNGCSEEAVKIFCNMQRN-G-IEPDDFTLGSVISSCANL--------------  288 (647)
Q Consensus       245 --------------------~li~~~~~~g~~~~A~~~~~~m~~~-g-~~p~~~t~~~ll~a~~~~--------------  288 (647)
                                          -+-....+.|+.++|.++|++.... + -.++......++..+...              
T Consensus       361 ~~~~~~~~y~~~~~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~  440 (987)
T PRK09782        361 ALRLARLLYQQEPANLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPAKVAILSK  440 (987)
T ss_pred             HHHHHHHHHhcCCCCHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchHHHHHhcc
Confidence                                0001123455566666666655431 1 111111121222222222              


Q ss_pred             -------------------------------------------------CChHHHHHHHHHHHHhCCCcchhHHHHHHHH
Q 006388          289 -------------------------------------------------ASLEEGTQFHGRSLVTGLISFITVSNALVTF  319 (647)
Q Consensus       289 -------------------------------------------------~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  319 (647)
                                                                       +..++|...+.......  |+......+...
T Consensus       441 ~~~~~~~~~~~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~~~~~eAi~a~~~Al~~~--Pd~~~~L~lA~a  518 (987)
T PRK09782        441 PLPLAEQRQWQSQLPGIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRDTLPGVALYAWLQAEQRQ--PDAWQHRAVAYQ  518 (987)
T ss_pred             ccccchhHHHHhhhhhhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHhCCcHHHHHHHHHHHHhC--CchHHHHHHHHH
Confidence                                                             33344555444444332  333333334444


Q ss_pred             HHhcCCHHHHHHHHhhcCC--CChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhcCCcHHHHH
Q 006388          320 YGKCGNIEDSHRLFNEMNV--RDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEV-TLIGVLSACSRAGLVEKGR  396 (647)
Q Consensus       320 ~~~~g~~~~A~~~~~~~~~--~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~  396 (647)
                      +...|++++|...|+++..  ++...+..+...+.+.|+.++|...+++..+..  |+.. .+..+.......|++++|.
T Consensus       519 l~~~Gr~eeAi~~~rka~~~~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~--P~~~~l~~~La~~l~~~Gr~~eAl  596 (987)
T PRK09782        519 AYQVEDYATALAAWQKISLHDMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRG--LGDNALYWWLHAQRYIPGQPELAL  596 (987)
T ss_pred             HHHCCCHHHHHHHHHHHhccCCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CccHHHHHHHHHHHHhCCCHHHHH
Confidence            5678888888888887652  344556667777888888888888888888753  4433 3333444555679999999


Q ss_pred             HHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHhccC
Q 006388          397 HYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPPD-AIGWATLLSSCRIHGNVEIGKWAAESLLELD  474 (647)
Q Consensus       397 ~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  474 (647)
                      ..++...+   ..|+...|..+..++.+.|++++|...+++. ...|+ ...+..+..++...|+.++|+..++++++.+
T Consensus       597 ~~~~~AL~---l~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~  673 (987)
T PRK09782        597 NDLTRSLN---IAPSANAYVARATIYRQRHNVPAAVSDLRAALELEPNNSNYQAALGYALWDSGDIAQSREMLERAHKGL  673 (987)
T ss_pred             HHHHHHHH---hCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            99998874   4677888999999999999999999999988 55665 6788888889999999999999999999999


Q ss_pred             CCCchhHHHHHHhhhhCCChhHHHHHHHHHHhC
Q 006388          475 PYNPASYVLLSSIYASKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       475 p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  507 (647)
                      |+++..+..++.+|...|++++|...+++..+.
T Consensus       674 P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l  706 (987)
T PRK09782        674 PDDPALIRQLAYVNQRLDDMAATQHYARLVIDD  706 (987)
T ss_pred             CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            999999999999999999999999999998764

>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=1.8e-20  Score=184.17  Aligned_cols=415  Identities=13%  Similarity=0.123  Sum_probs=339.2

Q ss_pred             HHHHHHHHHhcCChHHHHHHhccCCCCCc---hHHHHHHHHHHhcCChHHHHHHhhcCCCC---CeehHHHHHHHHHhCC
Q 006388           80 GSPLVDMYAKLGLIYDAKRGFDELPEKNI---VMYNTMITGLLRRGLVEESRRLFRGMKDK---DSISWTTMITGLMQNG  153 (647)
Q Consensus        80 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g  153 (647)
                      ...|..-..+.|++.+|++--...-+.|.   ...-.+-.++.+..+++....--....+.   -..+|..+...+-..|
T Consensus        51 ~l~lah~~yq~gd~~~a~~h~nmv~~~d~t~~~~llll~ai~~q~~r~d~s~a~~~~a~r~~~q~ae~ysn~aN~~kerg  130 (966)
T KOG4626|consen   51 RLELAHRLYQGGDYKQAEKHCNMVGQEDPTNTERLLLLSAIFFQGSRLDKSSAGSLLAIRKNPQGAEAYSNLANILKERG  130 (966)
T ss_pred             HHHHHHHHHhccCHHHHHHHHhHhhccCCCcccceeeehhhhhcccchhhhhhhhhhhhhccchHHHHHHHHHHHHHHhc
Confidence            34455666688999999887665554322   12222334555666666544333222222   3568999999999999


Q ss_pred             ChhHHHHHHHHHHHCCCCC-ChhhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCchh-HHHHHHHHHHhcCCHHHHHHH
Q 006388          154 LEREAIDLFREMRLEGLAM-DQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVF-VGSALVDMYCKCKSIKYAESV  231 (647)
Q Consensus       154 ~~~~A~~~~~~m~~~g~~p-d~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~-~~~~li~~y~~~g~~~~A~~~  231 (647)
                      ++++|+.+++.|.+.  +| ....|..+..++...|+.+.|.+.+.+.++..  |+.. +.+.+.......|++++|...
T Consensus       131 ~~~~al~~y~~aiel--~p~fida~inla~al~~~~~~~~a~~~~~~alqln--P~l~ca~s~lgnLlka~Grl~ea~~c  206 (966)
T KOG4626|consen  131 QLQDALALYRAAIEL--KPKFIDAYINLAAALVTQGDLELAVQCFFEALQLN--PDLYCARSDLGNLLKAEGRLEEAKAC  206 (966)
T ss_pred             hHHHHHHHHHHHHhc--CchhhHHHhhHHHHHHhcCCCcccHHHHHHHHhcC--cchhhhhcchhHHHHhhcccchhHHH
Confidence            999999999999985  45 45689999999999999999999999998864  4433 334456666778999999998


Q ss_pred             HhcCCCCC---hhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCH-HHHHHHHHHHhccCChHHHHHHHHHHHHhCCC
Q 006388          232 FRTMAWKN---VVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDD-FTLGSVISSCANLASLEEGTQFHGRSLVTGLI  307 (647)
Q Consensus       232 ~~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~  307 (647)
                      +.+..+.+   .++|+.|...+-.+|+...|++.|++..+.  .|+- ..|..+...+...+.++.|...+.+..... +
T Consensus       207 YlkAi~~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkl--dP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lr-p  283 (966)
T KOG4626|consen  207 YLKAIETQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKL--DPNFLDAYINLGNVYKEARIFDRAVSCYLRALNLR-P  283 (966)
T ss_pred             HHHHHhhCCceeeeehhcchHHhhcchHHHHHHHHHHhhcC--CCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhcC-C
Confidence            88766433   478999999999999999999999999874  5654 578888888888899999998888877653 3


Q ss_pred             cchhHHHHHHHHHHhcCCHHHHHHHHhhcCCC---ChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHH-HHHHHH
Q 006388          308 SFITVSNALVTFYGKCGNIEDSHRLFNEMNVR---DEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEV-TLIGVL  383 (647)
Q Consensus       308 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll  383 (647)
                      ....++..+...|-.+|.++-|...+++....   =+..|+.|..++-..|++.+|.+.|.+.+.  +.|+.. ..+.|.
T Consensus       284 n~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~--l~p~hadam~NLg  361 (966)
T KOG4626|consen  284 NHAVAHGNLACIYYEQGLLDLAIDTYKRALELQPNFPDAYNNLANALKDKGSVTEAVDCYNKALR--LCPNHADAMNNLG  361 (966)
T ss_pred             cchhhccceEEEEeccccHHHHHHHHHHHHhcCCCchHHHhHHHHHHHhccchHHHHHHHHHHHH--hCCccHHHHHHHH
Confidence            45666777888899999999999999998733   367899999999999999999999999988  466655 888999


Q ss_pred             HHHhcCCcHHHHHHHHHHHHHhcCCCcC-hHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-hhhHHHHHHHHHhcCCh
Q 006388          384 SACSRAGLVEKGRHYFEIMVKEYGIRPI-HDHYTCMIDILSRAGRLEEAKSFINKM-PFPPD-AIGWATLLSSCRIHGNV  460 (647)
Q Consensus       384 ~a~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~~~~  460 (647)
                      ..+...|.+++|..+|....+   +.|. ...++.|...|-..|++++|...+++. .++|+ +..++.+...|...|++
T Consensus       362 ni~~E~~~~e~A~~ly~~al~---v~p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI~P~fAda~~NmGnt~ke~g~v  438 (966)
T KOG4626|consen  362 NIYREQGKIEEATRLYLKALE---VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALRIKPTFADALSNMGNTYKEMGDV  438 (966)
T ss_pred             HHHHHhccchHHHHHHHHHHh---hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhcCchHHHHHHhcchHHHHhhhH
Confidence            999999999999999998764   4554 477899999999999999999999988 78898 78999999999999999


Q ss_pred             hHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHh
Q 006388          461 EIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       461 ~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      +.|...+.+++..+|.-..++..|+.+|-..|++.+|.+-++...+
T Consensus       439 ~~A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLk  484 (966)
T KOG4626|consen  439 SAAIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALK  484 (966)
T ss_pred             HHHHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHc
Confidence            9999999999999999999999999999999999999999998776

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.88  E-value=9.1e-18  Score=186.07  Aligned_cols=476  Identities=9%  Similarity=-0.014  Sum_probs=313.4

Q ss_pred             HHHHHcCCChhHHHHHHHHHHHCCCCCCCcchHHHHHHHHhC-CCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHHhcC
Q 006388           13 ISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSS-RRCVDLGRQIHGHILKFGFGSYVFVGSPLVDMYAKLG   91 (647)
Q Consensus        13 i~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~~ll~~~~~-~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g   91 (647)
                      ...|.+.|++++|++++.++.+.+  +.+..-...|..++.+ .++ +.+..++..    .+..++.+...++..|.+.|
T Consensus       189 ~rlY~~l~dw~~Ai~lL~~L~k~~--pl~~~~~~~L~~ay~q~l~~-~~a~al~~~----~lk~d~~l~~ala~~yi~~G  261 (987)
T PRK09782        189 LQRAIYLKQWSQADTLYNEARQQN--TLSAAERRQWFDVLLAGQLD-DRLLALQSQ----GIFTDPQSRITYATALAYRG  261 (987)
T ss_pred             HHHHHHHhCHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHhhCH-HHHHHHhch----hcccCHHHHHHHHHHHHHCC
Confidence            555555666666666666666554  3334434444444444 233 444444321    22244555556666666666


Q ss_pred             ChHHHHHHhccCCC-----CCchHHHH------------------------------HHHHHHhcCChHHHHHHhhcCCC
Q 006388           92 LIYDAKRGFDELPE-----KNIVMYNT------------------------------MITGLLRRGLVEESRRLFRGMKD  136 (647)
Q Consensus        92 ~~~~A~~~~~~~~~-----~~~~~~~~------------------------------li~~~~~~g~~~~A~~~~~~~~~  136 (647)
                      +.++|.+++.+++.     |+..+|--                              ++..+.+.++++.+.++... ..
T Consensus       262 ~~~~A~~~L~~~~~~~~~~~~~~~~~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~  340 (987)
T PRK09782        262 EKARLQHYLIENKPLFTTDAQEKSWLYLLSKYSANPVQALANYTVQFADNRQYVVGATLPVLLKEGQYDAAQKLLAT-LP  340 (987)
T ss_pred             CHHHHHHHHHhCcccccCCCccHHHHHHHHhccCchhhhccchhhhhHHHHHHHHHHHHHHHHhccHHHHHHHHhcC-CC
Confidence            66666666555542     11111111                              12223344444444444221 11


Q ss_pred             CCeehHHHHHHHH--HhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHhcCCChHHHHHHHHHHHHc-C-CCCchhHH
Q 006388          137 KDSISWTTMITGL--MQNGLEREAIDLFREMRLEGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRN-D-HKDNVFVG  212 (647)
Q Consensus       137 ~~~~~~~~li~~~--~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~-g-~~~~~~~~  212 (647)
                      .+. .  ..++..  ...+...++.+.+..|.+... -+....--+--.....|+.++|.+++...... + -..+....
T Consensus       341 ~~~-~--~~~r~~~~~~~~~~~~~~~~~~~~y~~~~-~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~  416 (987)
T PRK09782        341 ANE-M--LEERYAVSVATRNKAEALRLARLLYQQEP-ANLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLM  416 (987)
T ss_pred             cch-H--HHHHHhhccccCchhHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHH
Confidence            111 1  122211  122444555555555544311 12222222222345678899999999888763 1 12244556


Q ss_pred             HHHHHHHHhcCC---HHHHHHH-------------------------HhcCCC---C--ChhHHHHHHHHHHhcCChhHH
Q 006388          213 SALVDMYCKCKS---IKYAESV-------------------------FRTMAW---K--NVVSWTAMLVGYGQNGCSEEA  259 (647)
Q Consensus       213 ~~li~~y~~~g~---~~~A~~~-------------------------~~~~~~---~--~~~~~~~li~~~~~~g~~~~A  259 (647)
                      +-|+..|.+.+.   ..++..+                         +.....   .  +...|..+..++.. ++.++|
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            678888888876   3333332                         111111   2  55678888887776 899999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCC
Q 006388          260 VKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVR  339 (647)
Q Consensus       260 ~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  339 (647)
                      +..|.+....  .|+......+..++...|++++|...++.+...  +|+...+..+...+.+.|++++|...|++....
T Consensus       496 i~a~~~Al~~--~Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l  571 (987)
T PRK09782        496 LYAWLQAEQR--QPDAWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQR  571 (987)
T ss_pred             HHHHHHHHHh--CCchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            9988888765  477665545555667899999999999987654  344445567788899999999999999988755


Q ss_pred             ChhhHHHHH---HHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHH
Q 006388          340 DEVSWTALV---SGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYT  416 (647)
Q Consensus       340 d~~~~~~li---~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~  416 (647)
                      ++..++...   ......|++++|+..|++..+.  .|+...+..+..++.+.|++++|...++.....  -+.+...+.
T Consensus       572 ~P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l--~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l--~Pd~~~a~~  647 (987)
T PRK09782        572 GLGDNALYWWLHAQRYIPGQPELALNDLTRSLNI--APSANAYVARATIYRQRHNVPAAVSDLRAALEL--EPNNSNYQA  647 (987)
T ss_pred             CCccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHH
Confidence            444333333   3334459999999999999984  678788999999999999999999999999853  234567888


Q ss_pred             HHHHHHHHcCCHHHHHHHHHhC-CCCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCCh
Q 006388          417 CMIDILSRAGRLEEAKSFINKM-PFPPD-AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKW  494 (647)
Q Consensus       417 ~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  494 (647)
                      .+...+...|++++|++.+++. ...|+ ...+..+..++...|++++|+..++++++++|++..+....+++..+..++
T Consensus       648 nLG~aL~~~G~~eeAi~~l~~AL~l~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~P~~a~i~~~~g~~~~~~~~~  727 (987)
T PRK09782        648 ALGYALWDSGDIAQSREMLERAHKGLPDDPALIRQLAYVNQRLDDMAATQHYARLVIDDIDNQALITPLTPEQNQQRFNF  727 (987)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCchhhhhhhHHHHHHHHH
Confidence            8999999999999999999987 45564 788999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHhCCC
Q 006388          495 DHVSQLRRTMREKGV  509 (647)
Q Consensus       495 ~~a~~~~~~m~~~g~  509 (647)
                      +.|.+-+++.-....
T Consensus       728 ~~a~~~~~r~~~~~~  742 (987)
T PRK09782        728 RRLHEEVGRRWTFSF  742 (987)
T ss_pred             HHHHHHHHHHhhcCc
Confidence            999988877655443

>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=99.86  E-value=6.5e-18  Score=183.99  Aligned_cols=414  Identities=11%  Similarity=-0.002  Sum_probs=277.2

Q ss_pred             HHHHHHHhcCChHHHHHHhccCCC--CCchHHHHHHHHHHhcCChHHHHHHhhcCCCC---CeehHHHHHHHHHhCCChh
Q 006388           82 PLVDMYAKLGLIYDAKRGFDELPE--KNIVMYNTMITGLLRRGLVEESRRLFRGMKDK---DSISWTTMITGLMQNGLER  156 (647)
Q Consensus        82 ~li~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~  156 (647)
                      .+...|.+.|++++|...|++..+  |+...|..+..+|.+.|++++|++.++...+.   +...|..+..+|...|+++
T Consensus       132 ~~G~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~a~a~~~lg~~~  211 (615)
T TIGR00990       132 EKGNKAYRNKDFNKAIKLYSKAIECKPDPVYYSNRAACHNALGDWEKVVEDTTAALELDPDYSKALNRRANAYDGLGKYA  211 (615)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCHH
Confidence            445566677777777777776553  56666777777777777777777777665543   3446666777777777777


Q ss_pred             HHHHHHHHHHHCCCCCChhhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCC
Q 006388          157 EAIDLFREMRLEGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMA  236 (647)
Q Consensus       157 ~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~  236 (647)
                      +|+.-|......+-. +......++.....    ..+.......++.. +.+...+..+.. |........+..-++...
T Consensus       212 eA~~~~~~~~~~~~~-~~~~~~~~~~~~l~----~~a~~~~~~~l~~~-~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~  284 (615)
T TIGR00990       212 DALLDLTASCIIDGF-RNEQSAQAVERLLK----KFAESKAKEILETK-PENLPSVTFVGN-YLQSFRPKPRPAGLEDSN  284 (615)
T ss_pred             HHHHHHHHHHHhCCC-ccHHHHHHHHHHHH----HHHHHHHHHHHhcC-CCCCCCHHHHHH-HHHHccCCcchhhhhccc
Confidence            777776655443211 11111111111110    11122222222221 222222222222 222111111111111111


Q ss_pred             CCCh---hHHHHHHHH---HHhcCChhHHHHHHHHHHHCC-CCCC-HHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCc
Q 006388          237 WKNV---VSWTAMLVG---YGQNGCSEEAVKIFCNMQRNG-IEPD-DFTLGSVISSCANLASLEEGTQFHGRSLVTGLIS  308 (647)
Q Consensus       237 ~~~~---~~~~~li~~---~~~~g~~~~A~~~~~~m~~~g-~~p~-~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~  308 (647)
                      +.+.   ..+..+...   ....+++++|++.|++....+ ..|+ ...+..+...+...|++++|...+...++.. +.
T Consensus       285 ~~~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~-P~  363 (615)
T TIGR00990       285 ELDEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELD-PR  363 (615)
T ss_pred             ccccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CC
Confidence            1111   111111111   123478999999999998765 3443 3456677777788999999999999998764 33


Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHH
Q 006388          309 FITVSNALVTFYGKCGNIEDSHRLFNEMN---VRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPD-EVTLIGVLS  384 (647)
Q Consensus       309 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~  384 (647)
                      ....+..+...+...|++++|...|++..   ..+...|..+...+...|++++|+..|++..+.  .|+ ...+..+..
T Consensus       364 ~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l--~P~~~~~~~~la~  441 (615)
T TIGR00990       364 VTQSYIKRASMNLELGDPDKAEEDFDKALKLNSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDL--DPDFIFSHIQLGV  441 (615)
T ss_pred             cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CccCHHHHHHHHH
Confidence            46678888999999999999999999875   336788999999999999999999999999885  454 456777888


Q ss_pred             HHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCh-h-------hHHHHHHHHH
Q 006388          385 ACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPPDA-I-------GWATLLSSCR  455 (647)
Q Consensus       385 a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~-~-------~~~~ll~~~~  455 (647)
                      ++.+.|++++|...|+...+.  .+.+...++.+..++...|++++|.+.|++. ...|+. .       .++..+..+.
T Consensus       442 ~~~~~g~~~eA~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~  519 (615)
T TIGR00990       442 TQYKEGSIASSMATFRRCKKN--FPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQ  519 (615)
T ss_pred             HHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHH
Confidence            899999999999999998863  3445788999999999999999999999986 344431 1       1122222334


Q ss_pred             hcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHhC
Q 006388          456 IHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       456 ~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  507 (647)
                      ..|++++|...++++++++|++...+..++.+|...|++++|.+.+++..+.
T Consensus       520 ~~~~~~eA~~~~~kAl~l~p~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l  571 (615)
T TIGR00990       520 WKQDFIEAENLCEKALIIDPECDIAVATMAQLLLQQGDVDEALKLFERAAEL  571 (615)
T ss_pred             HhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            4699999999999999999999999999999999999999999999998764

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.85  E-value=6.9e-19  Score=181.95  Aligned_cols=290  Identities=13%  Similarity=0.075  Sum_probs=189.7

Q ss_pred             HhcCCHHHHHHHHhcCCCC---ChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC---HHHHHHHHHHHhccCChHH
Q 006388          220 CKCKSIKYAESVFRTMAWK---NVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPD---DFTLGSVISSCANLASLEE  293 (647)
Q Consensus       220 ~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~---~~t~~~ll~a~~~~~~~~~  293 (647)
                      ...|++++|...|+++...   +..+|..+...+...|++++|..+++.+...+..++   ...+..+...+...|+++.
T Consensus        46 ~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~~~  125 (389)
T PRK11788         46 LLNEQPDKAIDLFIEMLKVDPETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLLDR  125 (389)
T ss_pred             HhcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCHHH
Confidence            3444444555555444321   223444455555555555555555555544321111   1233444444555555555


Q ss_pred             HHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCC--------hhhHHHHHHHHHHcCChHHHHHHHH
Q 006388          294 GTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRD--------EVSWTALVSGYAKFGKANETIDLFE  365 (647)
Q Consensus       294 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~d--------~~~~~~li~~~~~~g~~~~A~~~~~  365 (647)
                      |..++..+.+.. +.+..+++.++..|.+.|++++|.+.|+.+...+        ...|..+...+.+.|++++|...|+
T Consensus       126 A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~  204 (389)
T PRK11788        126 AEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALLK  204 (389)
T ss_pred             HHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHH
Confidence            555555554432 2334455556666666666666666666554221        1134556677778888888888888


Q ss_pred             HHHHCCCCCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC
Q 006388          366 KMLSHGLKPD-EVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPPD  443 (647)
Q Consensus       366 ~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~  443 (647)
                      ++.+.  .|+ ...+..+...+.+.|++++|.++|+.+.+. +.......+..++.+|.+.|++++|.+.++++ ...|+
T Consensus       205 ~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~p~  281 (389)
T PRK11788        205 KALAA--DPQCVRASILLGDLALAQGDYAAAIEALERVEEQ-DPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEEYPG  281 (389)
T ss_pred             HHHhH--CcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH-ChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC
Confidence            88774  344 446667778888889999999998888753 21122456788889999999999999999887 45677


Q ss_pred             hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhh---CCChhHHHHHHHHHHhCCCccCCC
Q 006388          444 AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYAS---KGKWDHVSQLRRTMREKGVRKDPG  514 (647)
Q Consensus       444 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~---~g~~~~a~~~~~~m~~~g~~~~~~  514 (647)
                      ...+..++..+.+.|++++|...++++++..|++. .+..+...+..   .|+.+++..++++|.+++++++|.
T Consensus       282 ~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~P~~~-~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p~  354 (389)
T PRK11788        282 ADLLLALAQLLEEQEGPEAAQALLREQLRRHPSLR-GFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKPR  354 (389)
T ss_pred             chHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcCHH-HHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCCC
Confidence            66778888999999999999999999999999765 55555555443   569999999999999999999986

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.84  E-value=1e-18  Score=180.61  Aligned_cols=292  Identities=11%  Similarity=-0.024  Sum_probs=178.1

Q ss_pred             HHHHcCCChhHHHHHHHHHHHCCCCCCCcchHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCc---hhhHHHHHHHHHhc
Q 006388           14 SGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSY---VFVGSPLVDMYAKL   90 (647)
Q Consensus        14 ~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~---~~~~~~li~~~~~~   90 (647)
                      ..+...|++++|+..|+++.+.+  |.+..++..+...+...|++++|..+++.+++.+..++   ...+..+...|.+.
T Consensus        43 ~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~  120 (389)
T PRK11788         43 LNFLLNEQPDKAIDLFIEMLKVD--PETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKA  120 (389)
T ss_pred             HHHHhcCChHHHHHHHHHHHhcC--cccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHC
Confidence            34456677888888888887765  55666777777777778888888887777776432221   24566677777777


Q ss_pred             CChHHHHHHhccCCC---CCchHHHHHHHHHHhcCChHHHHHHhhcCCCCCe--------ehHHHHHHHHHhCCChhHHH
Q 006388           91 GLIYDAKRGFDELPE---KNIVMYNTMITGLLRRGLVEESRRLFRGMKDKDS--------ISWTTMITGLMQNGLEREAI  159 (647)
Q Consensus        91 g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~--------~~~~~li~~~~~~g~~~~A~  159 (647)
                      |++++|..+|+++.+   .+..+++.++..+.+.|++++|.+.|+.+.+.+.        ..|..+...+.+.|++++|.
T Consensus       121 g~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~  200 (389)
T PRK11788        121 GLLDRAEELFLQLVDEGDFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAAR  200 (389)
T ss_pred             CCHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHH
Confidence            777777777777764   3445666666666667777777666666543211        12344555566666666666


Q ss_pred             HHHHHHHHCCCCCChhhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC--
Q 006388          160 DLFREMRLEGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAW--  237 (647)
Q Consensus       160 ~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--  237 (647)
                      ..|+++.+.. +.+...+..+...+.+.|++++|.++++.+.+.+......+++.++.+|.+.|++++|...|+++..  
T Consensus       201 ~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~  279 (389)
T PRK11788        201 ALLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEEY  279 (389)
T ss_pred             HHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            6666665532 1123345555566666666666666666666543222234455666666666666666666665542  


Q ss_pred             CChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc---cCChHHHHHHHHHHHHhCCCcch
Q 006388          238 KNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCAN---LASLEEGTQFHGRSLVTGLISFI  310 (647)
Q Consensus       238 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~---~~~~~~a~~~~~~~~~~~~~~~~  310 (647)
                      |+...+..++..+.+.|++++|..+|+++.+.  .|+..++..++..+..   .|+.+++..+++.+.+.++.+++
T Consensus       280 p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p  353 (389)
T PRK11788        280 PGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKP  353 (389)
T ss_pred             CCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCC
Confidence            34444456666666666666666666666553  4666666655555443   33556666666666655544443

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.83  E-value=6.3e-17  Score=175.65  Aligned_cols=330  Identities=10%  Similarity=-0.017  Sum_probs=242.5

Q ss_pred             hHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHH
Q 006388          141 SWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYC  220 (647)
Q Consensus       141 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~  220 (647)
                      ....++..+.+.|++++|..+++........+ ...+..++.++...|+++.|.+.++.+++.. +.+...+..+...+.
T Consensus        44 ~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~~-~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~-P~~~~a~~~la~~l~  121 (656)
T PRK15174         44 NIILFAIACLRKDETDVGLTLLSDRVLTAKNG-RDLLRRWVISPLASSQPDAVLQVVNKLLAVN-VCQPEDVLLVASVLL  121 (656)
T ss_pred             CHHHHHHHHHhcCCcchhHHHhHHHHHhCCCc-hhHHHHHhhhHhhcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHH
Confidence            34456667777888888888888877754433 3334444455666888888888888887764 445666777888888


Q ss_pred             hcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHH
Q 006388          221 KCKSIKYAESVFRTMAW---KNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQF  297 (647)
Q Consensus       221 ~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~  297 (647)
                      +.|++++|...|++...   .+...|..+...+...|++++|...++++....  |+.......+..+...|++++|...
T Consensus       122 ~~g~~~~Ai~~l~~Al~l~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~--P~~~~a~~~~~~l~~~g~~~eA~~~  199 (656)
T PRK15174        122 KSKQYATVADLAEQAWLAFSGNSQIFALHLRTLVLMDKELQAISLARTQAQEV--PPRGDMIATCLSFLNKSRLPEDHDL  199 (656)
T ss_pred             HcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHcCCHHHHHHH
Confidence            88888888888887754   356678888888888888888888888776653  3332222223346778888888888


Q ss_pred             HHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHHHHHcCChHH----HHHHHHHHHHC
Q 006388          298 HGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMN---VRDEVSWTALVSGYAKFGKANE----TIDLFEKMLSH  370 (647)
Q Consensus       298 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~d~~~~~~li~~~~~~g~~~~----A~~~~~~m~~~  370 (647)
                      +..+.+....++......+...+.+.|++++|...|++..   ..+...+..+...|.+.|++++    |+..|++..+.
T Consensus       200 ~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l  279 (656)
T PRK15174        200 ARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARGLDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQF  279 (656)
T ss_pred             HHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhh
Confidence            8887766433444445556677888899999988888776   2356778888888888998885    78889988874


Q ss_pred             CCCCCH-HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCChhh-H
Q 006388          371 GLKPDE-VTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPPDAIG-W  447 (647)
Q Consensus       371 g~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~~~-~  447 (647)
                        .|+. ..+..+...+...|++++|...++.....  -+.+...+..+..+|.+.|++++|.+.++++ ...|+... +
T Consensus       280 --~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l--~P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~P~~~~~~  355 (656)
T PRK15174        280 --NSDNVRIVTLYADALIRTGQNEKAIPLLQQSLAT--HPDLPYVRAMYARALRQVGQYTAASDEFVQLAREKGVTSKWN  355 (656)
T ss_pred             --CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCccchHHH
Confidence              4554 47778888889999999999999988753  2234566777888899999999999999887 35566433 3


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHhccCCCCc
Q 006388          448 ATLLSSCRIHGNVEIGKWAAESLLELDPYNP  478 (647)
Q Consensus       448 ~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~  478 (647)
                      ..+..++...|+.++|...++++++..|++.
T Consensus       356 ~~~a~al~~~G~~deA~~~l~~al~~~P~~~  386 (656)
T PRK15174        356 RYAAAALLQAGKTSEAESVFEHYIQARASHL  386 (656)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhChhhc
Confidence            3456678889999999999999999988753

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.83  E-value=3.3e-16  Score=173.77  Aligned_cols=398  Identities=8%  Similarity=-0.039  Sum_probs=203.8

Q ss_pred             HHHHHHHHhCCCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHHhcCChHHHHHHhccCCCCCchHHHHHHHHHHhcCCh
Q 006388           45 FSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGSPLVDMYAKLGLIYDAKRGFDELPEKNIVMYNTMITGLLRRGLV  124 (647)
Q Consensus        45 ~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~  124 (647)
                      ..-.+......|+.++|.+++....... +.+...+..+...+.+.|++++|..+|++..+.                  
T Consensus        18 ~~d~~~ia~~~g~~~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~------------------   78 (765)
T PRK10049         18 IADWLQIALWAGQDAEVITVYNRYRVHM-QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSL------------------   78 (765)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh------------------
Confidence            3333444445555555555555554322 233334445555555555555555555443211                  


Q ss_pred             HHHHHHhhcCCCCCeehHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHhcCCChHHHHHHHHHHHHcC
Q 006388          125 EESRRLFRGMKDKDSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRND  204 (647)
Q Consensus       125 ~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g  204 (647)
                                ...+...+..+...+...|++++|+..+++..+.  .|+...+..+..++...|+.++|...++.+++..
T Consensus        79 ----------~P~~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~--~P~~~~~~~la~~l~~~g~~~~Al~~l~~al~~~  146 (765)
T PRK10049         79 ----------EPQNDDYQRGLILTLADAGQYDEALVKAKQLVSG--APDKANLLALAYVYKRAGRHWDELRAMTQALPRA  146 (765)
T ss_pred             ----------CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence                      0113444556666666667777777777666654  2322225555556666677777777776666654


Q ss_pred             CCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChh--------HHHHHHHHHH-----hcCCh---hHHHHHHHHHHH
Q 006388          205 HKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWKNVV--------SWTAMLVGYG-----QNGCS---EEAVKIFCNMQR  268 (647)
Q Consensus       205 ~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~--------~~~~li~~~~-----~~g~~---~~A~~~~~~m~~  268 (647)
                       +.+..++..+..++.+.|..+.|...++.... ++.        ....++....     ..+++   ++|++.++.+.+
T Consensus       147 -P~~~~~~~~la~~l~~~~~~e~Al~~l~~~~~-~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~  224 (765)
T PRK10049        147 -PQTQQYPTEYVQALRNNRLSAPALGAIDDANL-TPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEA  224 (765)
T ss_pred             -CCCHHHHHHHHHHHHHCCChHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHh
Confidence             33444555566677777777777777776664 211        1111222221     11223   567777777764


Q ss_pred             C-CCCCCHH-HHH----HHHHHHhccCChHHHHHHHHHHHHhCCC-cchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCC-
Q 006388          269 N-GIEPDDF-TLG----SVISSCANLASLEEGTQFHGRSLVTGLI-SFITVSNALVTFYGKCGNIEDSHRLFNEMNVRD-  340 (647)
Q Consensus       269 ~-g~~p~~~-t~~----~ll~a~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~d-  340 (647)
                      . ...|+.. .+.    ..+.++...++.++|...++.+.+.+.+ |+. ....+...|...|++++|+..|+++...+ 
T Consensus       225 ~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~~l~~~p  303 (765)
T PRK10049        225 LWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQSILTELFYHPE  303 (765)
T ss_pred             hcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHHHhhcCC
Confidence            3 1223221 111    1123334556667777777766665421 211 11224556666667777766666654221 


Q ss_pred             ------hhhHHHHHHHHHHcCChHHHHHHHHHHHHCC-----------CCCCH---HHHHHHHHHHhcCCcHHHHHHHHH
Q 006388          341 ------EVSWTALVSGYAKFGKANETIDLFEKMLSHG-----------LKPDE---VTLIGVLSACSRAGLVEKGRHYFE  400 (647)
Q Consensus       341 ------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-----------~~p~~---~t~~~ll~a~~~~g~~~~a~~~~~  400 (647)
                            ...+..+..++...|++++|..+++++....           -.|+.   ..+..+...+...|+.++|++.++
T Consensus       304 ~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~  383 (765)
T PRK10049        304 TIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRAR  383 (765)
T ss_pred             CCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence                  1234444555666677777777766666531           01221   122333444555566666666655


Q ss_pred             HHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCc
Q 006388          401 IMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPPD-AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNP  478 (647)
Q Consensus       401 ~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~  478 (647)
                      .+...  .+.+...+..+..++...|++++|++.+++. ...|+ ...+..+...+...|++++|+.+++++++..|+++
T Consensus       384 ~al~~--~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~~Pd~~  461 (765)
T PRK10049        384 ELAYN--APGNQGLRIDYASVLQARGWPRAAENELKKAEVLEPRNINLEVEQAWTALDLQEWRQMDVLTDDVVAREPQDP  461 (765)
T ss_pred             HHHHh--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCH
Confidence            55432  2333455555555555556666666555555 33343 34444444455555556666666666655555554

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

Probab=99.82  E-value=3.7e-16  Score=170.32  Aligned_cols=421  Identities=11%  Similarity=-0.004  Sum_probs=231.7

Q ss_pred             HHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCCcchHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHH
Q 006388            9 WNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGSPLVDMYA   88 (647)
Q Consensus         9 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~   88 (647)
                      +......|.+.|++++|+..|++..+.   .|+...|..+..++...|++++|...+...++.. +.+...+..+..+|.
T Consensus       130 ~k~~G~~~~~~~~~~~Ai~~y~~al~~---~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~a~a~~  205 (615)
T TIGR00990       130 LKEKGNKAYRNKDFNKAIKLYSKAIEC---KPDPVYYSNRAACHNALGDWEKVVEDTTAALELD-PDYSKALNRRANAYD  205 (615)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhc---CCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHH
Confidence            345566677777888888888777765   4566677777777777777777777777777665 345566667777777


Q ss_pred             hcCChHHHHHHhccCCCC---CchHHHHHHHHHHhcCChHHHHHHhhcCCCCCeehHHHHHHHHHhCCChhHHHHHHHHH
Q 006388           89 KLGLIYDAKRGFDELPEK---NIVMYNTMITGLLRRGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLEREAIDLFREM  165 (647)
Q Consensus        89 ~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  165 (647)
                      ..|++++|..-|......   +......++..+........+...++.-+ ++..++..+.. |........+..-+.+-
T Consensus       206 ~lg~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~~~a~~~~~~~l~~~~-~~~~~~~~~~~-~~~~~~~~~~~~~~~~~  283 (615)
T TIGR00990       206 GLGKYADALLDLTASCIIDGFRNEQSAQAVERLLKKFAESKAKEILETKP-ENLPSVTFVGN-YLQSFRPKPRPAGLEDS  283 (615)
T ss_pred             HcCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHHhcCC-CCCCCHHHHHH-HHHHccCCcchhhhhcc
Confidence            777777777666443211   11111111111111111223333332221 12223322222 21111111111111110


Q ss_pred             HHCCCCCCh-hhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCC------
Q 006388          166 RLEGLAMDQ-FTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWK------  238 (647)
Q Consensus       166 ~~~g~~pd~-~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~------  238 (647)
                      .+  ..|+. ..+..+....                                .-....+++++|.+.|+.....      
T Consensus       284 ~~--~~~~~~~~~~~l~~~~--------------------------------~e~~~~~~y~~A~~~~~~al~~~~~~~~  329 (615)
T TIGR00990       284 NE--LDEETGNGQLQLGLKS--------------------------------PESKADESYEEAARAFEKALDLGKLGEK  329 (615)
T ss_pred             cc--cccccccchHHHHHHH--------------------------------HHhhhhhhHHHHHHHHHHHHhcCCCChh
Confidence            00  00100 0000000000                                0001224455555555544321      


Q ss_pred             ChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHH
Q 006388          239 NVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPD-DFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALV  317 (647)
Q Consensus       239 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  317 (647)
                      +...|+.+...+...|++++|+..|++....  .|+ ...|..+...+...|++++|...+..+++.. +.+..++..+.
T Consensus       330 ~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l--~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg  406 (615)
T TIGR00990       330 EAIALNLRGTFKCLKGKHLEALADLSKSIEL--DPRVTQSYIKRASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRA  406 (615)
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            2334555555555666666666666665543  333 3345555555555666666666666655543 33455666666


Q ss_pred             HHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhcCCcHH
Q 006388          318 TFYGKCGNIEDSHRLFNEMN---VRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPD-EVTLIGVLSACSRAGLVE  393 (647)
Q Consensus       318 ~~~~~~g~~~~A~~~~~~~~---~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~  393 (647)
                      ..|...|++++|...|++..   ..+...|..+...+.+.|++++|+..|++..+.  .|+ ...+..+...+...|+++
T Consensus       407 ~~~~~~g~~~~A~~~~~kal~l~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~  484 (615)
T TIGR00990       407 QLHFIKGEFAQAGKDYQKSIDLDPDFIFSHIQLGVTQYKEGSIASSMATFRRCKKN--FPEAPDVYNYYGELLLDQNKFD  484 (615)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHccCHH
Confidence            67777777777777777664   224556666677777777777777777777663  343 446666777777777888


Q ss_pred             HHHHHHHHHHHhcCCCcC-------h-HHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-hhhHHHHHHHHHhcCChhHH
Q 006388          394 KGRHYFEIMVKEYGIRPI-------H-DHYTCMIDILSRAGRLEEAKSFINKM-PFPPD-AIGWATLLSSCRIHGNVEIG  463 (647)
Q Consensus       394 ~a~~~~~~~~~~~~~~p~-------~-~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~~~~~~a  463 (647)
                      +|...|+.....   .|+       . ..++.....+...|++++|.+++++. ...|+ ...+..+...+...|++++|
T Consensus       485 ~A~~~~~~Al~l---~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~p~~~~a~~~la~~~~~~g~~~eA  561 (615)
T TIGR00990       485 EAIEKFDTAIEL---EKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIIDPECDIAVATMAQLLLQQGDVDEA  561 (615)
T ss_pred             HHHHHHHHHHhc---CCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHccCHHHH
Confidence            887777776542   221       1 11222233344568888888888875 45554 45678888888888888888


Q ss_pred             HHHHHHHhccCCCC
Q 006388          464 KWAAESLLELDPYN  477 (647)
Q Consensus       464 ~~~~~~~~~~~p~~  477 (647)
                      ...++++.++.+..
T Consensus       562 i~~~e~A~~l~~~~  575 (615)
T TIGR00990       562 LKLFERAAELARTE  575 (615)
T ss_pred             HHHHHHHHHHhccH
Confidence            88888888877643

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.81  E-value=3.4e-16  Score=173.65  Aligned_cols=387  Identities=9%  Similarity=-0.001  Sum_probs=287.0

Q ss_pred             HHHHHHhcCChHHHHHHhhcCCC---CCeehHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCC-hhhHHHHHHHHhcCCC
Q 006388          114 MITGLLRRGLVEESRRLFRGMKD---KDSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMD-QFTFGSVLTACGGLLA  189 (647)
Q Consensus       114 li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd-~~t~~~ll~~~~~~~~  189 (647)
                      .+......|+.++|++++.....   .+...+..+...+.+.|++++|.++|++..+.  .|+ ......+...+...|+
T Consensus        21 ~~~ia~~~g~~~~A~~~~~~~~~~~~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~la~~l~~~g~   98 (765)
T PRK10049         21 WLQIALWAGQDAEVITVYNRYRVHMQLPARGYAAVAVAYRNLKQWQNSLTLWQKALSL--EPQNDDYQRGLILTLADAGQ   98 (765)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCC
Confidence            34444455555555555555443   23445889999999999999999999998874  343 4556677788889999


Q ss_pred             hHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCC---ChhHHHHHHHHHHhcCChhHHHHHHHHH
Q 006388          190 LEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWK---NVVSWTAMLVGYGQNGCSEEAVKIFCNM  266 (647)
Q Consensus       190 ~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m  266 (647)
                      .++|...++.+++.. +.+.. +..+..++...|+.++|...++++...   +...+..+...+...|..++|++.++..
T Consensus        99 ~~eA~~~l~~~l~~~-P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P~~~~~~~~la~~l~~~~~~e~Al~~l~~~  176 (765)
T PRK10049         99 YDEALVKAKQLVSGA-PDKAN-LLALAYVYKRAGRHWDELRAMTQALPRAPQTQQYPTEYVQALRNNRLSAPALGAIDDA  176 (765)
T ss_pred             HHHHHHHHHHHHHhC-CCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCChHHHHHHHHhC
Confidence            999999999999874 44555 888999999999999999999988643   5567777888899999999999998766


Q ss_pred             HHCCCCCCHH------HHHHHHHHHh-----ccCCh---HHHHHHHHHHHHh-CCCcchh-H-HHH---HHHHHHhcCCH
Q 006388          267 QRNGIEPDDF------TLGSVISSCA-----NLASL---EEGTQFHGRSLVT-GLISFIT-V-SNA---LVTFYGKCGNI  326 (647)
Q Consensus       267 ~~~g~~p~~~------t~~~ll~a~~-----~~~~~---~~a~~~~~~~~~~-~~~~~~~-~-~~~---li~~~~~~g~~  326 (647)
                      ..   .|+..      .....+....     ..+.+   +.|.+.++.+.+. ...|+.. . ..+   .+..+...|++
T Consensus       177 ~~---~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~  253 (765)
T PRK10049        177 NL---TPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRY  253 (765)
T ss_pred             CC---CHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhH
Confidence            53   33320      1111222211     11223   6677777777754 2222221 1 111   12344577999


Q ss_pred             HHHHHHHhhcCCCC---hh-hHHHHHHHHHHcCChHHHHHHHHHHHHCCCCC---CHHHHHHHHHHHhcCCcHHHHHHHH
Q 006388          327 EDSHRLFNEMNVRD---EV-SWTALVSGYAKFGKANETIDLFEKMLSHGLKP---DEVTLIGVLSACSRAGLVEKGRHYF  399 (647)
Q Consensus       327 ~~A~~~~~~~~~~d---~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p---~~~t~~~ll~a~~~~g~~~~a~~~~  399 (647)
                      ++|...|+.+...+   +. .-..+...|...|++++|+..|+++.+.....   .......+..++...|++++|.+++
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            99999999988542   11 12225678999999999999999988643111   1235666677889999999999999


Q ss_pred             HHHHHhcC----------CCcC---hHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHH
Q 006388          400 EIMVKEYG----------IRPI---HDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGK  464 (647)
Q Consensus       400 ~~~~~~~~----------~~p~---~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~  464 (647)
                      +.+.....          -.|+   ...+..+...+...|++++|+++++++ ...| +...+..+...+...|++++|+
T Consensus       334 ~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~P~n~~l~~~lA~l~~~~g~~~~A~  413 (765)
T PRK10049        334 AHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNAPGNQGLRIDYASVLQARGWPRAAE  413 (765)
T ss_pred             HHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHH
Confidence            99876421          1123   235567788999999999999999997 3345 4788999999999999999999


Q ss_pred             HHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHhC
Q 006388          465 WAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       465 ~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  507 (647)
                      ..++++++++|+++..+..++..+...|+|++|..+++++.+.
T Consensus       414 ~~l~~al~l~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~  456 (765)
T PRK10049        414 NELKKAEVLEPRNINLEVEQAWTALDLQEWRQMDVLTDDVVAR  456 (765)
T ss_pred             HHHHHHHhhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence            9999999999999999999999999999999999999999874

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.80  E-value=5.1e-15  Score=161.09  Aligned_cols=423  Identities=8%  Similarity=-0.034  Sum_probs=281.0

Q ss_pred             HhCCCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHHhcCChHHHHHHhccCCCCCch-HHHHH--HHHHHhcCChHHHH
Q 006388           52 SSSRRCVDLGRQIHGHILKFGFGSYVFVGSPLVDMYAKLGLIYDAKRGFDELPEKNIV-MYNTM--ITGLLRRGLVEESR  128 (647)
Q Consensus        52 ~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~l--i~~~~~~g~~~~A~  128 (647)
                      ..+.|++..|...+.++++......+.++ .++..+...|+.++|+..+++...|+.. .+..+  ...+...|++++|.
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 RARAGDTAPVLDYLQEESKAGPLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQSSMNISSRGLASAARAYRNEKRWDQAL  122 (822)
T ss_pred             HHhCCCHHHHHHHHHHHHhhCccchhhHH-HHHHHHHHcCCcHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHH
Confidence            45667777777777777665422112233 6666677777777777777777655333 23333  34566667777777


Q ss_pred             HHhhcCCCC---CeehHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHhcCCChHHHHHHHHHHHHcCC
Q 006388          129 RLFRGMKDK---DSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDH  205 (647)
Q Consensus       129 ~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~  205 (647)
                      ++|+++.+.   |...+..++..+.+.++.++|++.++++...  .|+...+..++..+...++..+|.+.++.+++.. 
T Consensus       123 ely~kaL~~dP~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~~AL~~~ekll~~~-  199 (822)
T PRK14574        123 ALWQSSLKKDPTNPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNYDALQASSEAVRLA-  199 (822)
T ss_pred             HHHHHHHhhCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHHHHHHHHHHHHHhC-
Confidence            777776653   3455666677777778888888888777664  4555555444444444555555777777777764 


Q ss_pred             CCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCC-ChhHHH----HHHHHHH---------hcCC---hhHHHHHHHHHHH
Q 006388          206 KDNVFVGSALVDMYCKCKSIKYAESVFRTMAWK-NVVSWT----AMLVGYG---------QNGC---SEEAVKIFCNMQR  268 (647)
Q Consensus       206 ~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~-~~~~~~----~li~~~~---------~~g~---~~~A~~~~~~m~~  268 (647)
                      +.+...+..++....+.|-...|.++..+-+.- +...+.    ..+.-.+         ...+   .+.|+.-++.+..
T Consensus       200 P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~~~l~~  279 (822)
T PRK14574        200 PTSEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKALADYQNLLT  279 (822)
T ss_pred             CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHHHHHHh
Confidence            456666677777788888877777777765521 111100    0001111         1112   3445555555554


Q ss_pred             C-CCCCCH-H----HHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCC---
Q 006388          269 N-GIEPDD-F----TLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVR---  339 (647)
Q Consensus       269 ~-g~~p~~-~----t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---  339 (647)
                      . +-.|.. .    ...-.+-++...++..++...++.+...+.+....+-.++.++|...+++++|..+++.+...   
T Consensus       280 ~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~  359 (822)
T PRK14574        280 RWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGK  359 (822)
T ss_pred             hccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhcccc
Confidence            2 222322 1    222345677788888899999988888887666677888899999999999999999887432   


Q ss_pred             ------ChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCC-----------CC--CHH-HHHHHHHHHhcCCcHHHHHHHH
Q 006388          340 ------DEVSWTALVSGYAKFGKANETIDLFEKMLSHGL-----------KP--DEV-TLIGVLSACSRAGLVEKGRHYF  399 (647)
Q Consensus       340 ------d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-----------~p--~~~-t~~~ll~a~~~~g~~~~a~~~~  399 (647)
                            +......|.-+|...+++++|..+++++.+.-.           .|  |-. .+..++..+...|++.+|.+.+
T Consensus       360 ~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~l  439 (822)
T PRK14574        360 TFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKL  439 (822)
T ss_pred             ccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence                  223346778888889999999999999887311           12  222 3334456678889999999999


Q ss_pred             HHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCC
Q 006388          400 EIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPPD-AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYN  477 (647)
Q Consensus       400 ~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~  477 (647)
                      +.+..  .-+-|......+.+++...|.+.+|++.++.. ...|+ ..+....+.+....+++++|..+.+.+.+..|++
T Consensus       440 e~l~~--~aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l~P~~~~~~~~~~~~al~l~e~~~A~~~~~~l~~~~Pe~  517 (822)
T PRK14574        440 EDLSS--TAPANQNLRIALASIYLARDLPRKAEQELKAVESLAPRSLILERAQAETAMALQEWHQMELLTDDVISRSPED  517 (822)
T ss_pred             HHHHH--hCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhCCccHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhCCCc
Confidence            99875  34557788888999999999999999999776 45565 5566677777888899999999999999999987


Q ss_pred             chh
Q 006388          478 PAS  480 (647)
Q Consensus       478 ~~~  480 (647)
                      +.+
T Consensus       518 ~~~  520 (822)
T PRK14574        518 IPS  520 (822)
T ss_pred             hhH
Confidence            644

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.79  E-value=7.9e-16  Score=167.11  Aligned_cols=347  Identities=12%  Similarity=-0.010  Sum_probs=197.6

Q ss_pred             HcCCChhHHHHHHHHHHHCCCC-CCCcchHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHHhcCChHH
Q 006388           17 ASHGSVNDAVKVYNLMLKDGLG-NLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGSPLVDMYAKLGLIYD   95 (647)
Q Consensus        17 ~~~g~~~~A~~~~~~m~~~g~~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~   95 (647)
                      .+..+++.-.-.|....+..-. ..+..-...++..+.+.|+.+.|..+++.++.... .+......++......|++++
T Consensus        16 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p-~~~~~l~~l~~~~l~~g~~~~   94 (656)
T PRK15174         16 LKQEDWEGLCLYFSQHPEKVRDSAGNEQNIILFAIACLRKDETDVGLTLLSDRVLTAK-NGRDLLRRWVISPLASSQPDA   94 (656)
T ss_pred             hhhhchhhHhHHhhcccHhhhhhcccccCHHHHHHHHHhcCCcchhHHHhHHHHHhCC-CchhHHHHHhhhHhhcCCHHH
Confidence            3455555555555444332100 22344455666777777888888888777777653 334444445555666788888


Q ss_pred             HHHHhccCCC--C-CchHHHHHHHHHHhcCChHHHHHHhhcCCC--C-CeehHHHHHHHHHhCCChhHHHHHHHHHHHCC
Q 006388           96 AKRGFDELPE--K-NIVMYNTMITGLLRRGLVEESRRLFRGMKD--K-DSISWTTMITGLMQNGLEREAIDLFREMRLEG  169 (647)
Q Consensus        96 A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  169 (647)
                      |...|+++.+  | +...|..+...+.+.|++++|...|++..+  | +...|..+...+.+.|++++|...++.+....
T Consensus        95 A~~~l~~~l~~~P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~  174 (656)
T PRK15174         95 VLQVVNKLLAVNVCQPEDVLLVASVLLKSKQYATVADLAEQAWLAFSGNSQIFALHLRTLVLMDKELQAISLARTQAQEV  174 (656)
T ss_pred             HHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhC
Confidence            8888877764  3 334566666666666666666666666544  2 44566667777777777777777777665533


Q ss_pred             CCCChhhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CChhHHHHH
Q 006388          170 LAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAW---KNVVSWTAM  246 (647)
Q Consensus       170 ~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~l  246 (647)
                        |+.......+..+...|++++|...++.+++....++......+...+.+.|++++|...|++...   .+...+..+
T Consensus       175 --P~~~~a~~~~~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p~~~~~~~~L  252 (656)
T PRK15174        175 --PPRGDMIATCLSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARGLDGAALRRSL  252 (656)
T ss_pred             --CCCHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHH
Confidence              222221111223556667777777666665553333333344445566666666666666666543   244556666


Q ss_pred             HHHHHhcCChhH----HHHHHHHHHHCCCCCC-HHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHH
Q 006388          247 LVGYGQNGCSEE----AVKIFCNMQRNGIEPD-DFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYG  321 (647)
Q Consensus       247 i~~~~~~g~~~~----A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  321 (647)
                      ...|...|++++    |+..|++....  .|+ ...+..+...+...|++++|...++.+.+.. +.+..+...+...|.
T Consensus       253 g~~l~~~G~~~eA~~~A~~~~~~Al~l--~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~-P~~~~a~~~La~~l~  329 (656)
T PRK15174        253 GLAYYQSGRSREAKLQAAEHWRHALQF--NSDNVRIVTLYADALIRTGQNEKAIPLLQQSLATH-PDLPYVRAMYARALR  329 (656)
T ss_pred             HHHHHHcCCchhhHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            666666666664    56666666553  333 3455555555666666666666666655543 223444455556666


Q ss_pred             hcCCHHHHHHHHhhcC--CCCh-hhHHHHHHHHHHcCChHHHHHHHHHHHH
Q 006388          322 KCGNIEDSHRLFNEMN--VRDE-VSWTALVSGYAKFGKANETIDLFEKMLS  369 (647)
Q Consensus       322 ~~g~~~~A~~~~~~~~--~~d~-~~~~~li~~~~~~g~~~~A~~~~~~m~~  369 (647)
                      +.|++++|...|+++.  .|+. ..+..+..++...|+.++|+..|++..+
T Consensus       330 ~~G~~~eA~~~l~~al~~~P~~~~~~~~~a~al~~~G~~deA~~~l~~al~  380 (656)
T PRK15174        330 QVGQYTAASDEFVQLAREKGVTSKWNRYAAAALLQAGKTSEAESVFEHYIQ  380 (656)
T ss_pred             HCCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            6666666666665554  2222 2222234455566666666666666555

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

Probab=99.78  E-value=5.5e-15  Score=153.72  Aligned_cols=443  Identities=11%  Similarity=0.029  Sum_probs=278.9

Q ss_pred             hHHHHHHHHHHHHhCCCCchhhHHHHHHHHHhcCChHHHHHHhccCCCCC------chHHHHHHHHHHhcCChHHHHHHh
Q 006388           58 VDLGRQIHGHILKFGFGSYVFVGSPLVDMYAKLGLIYDAKRGFDELPEKN------IVMYNTMITGLLRRGLVEESRRLF  131 (647)
Q Consensus        58 ~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~------~~~~~~li~~~~~~g~~~~A~~~~  131 (647)
                      +..|.+.+...-... +.++.+.+.|...|.-.|++..+..+...+...+      ..+|-.+.++|-..|++++|...|
T Consensus       252 ~~~~~~ll~~ay~~n-~~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY  330 (1018)
T KOG2002|consen  252 YKKGVQLLQRAYKEN-NENPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYY  330 (1018)
T ss_pred             HHHHHHHHHHHHhhc-CCCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHH
Confidence            334444444443333 3455566666666666666666666655554321      124555666666666666666666


Q ss_pred             hcCCCC---C-eehHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCC-hhhHHHHHHHHhcCC----ChHHHHHHHHHHHH
Q 006388          132 RGMKDK---D-SISWTTMITGLMQNGLEREAIDLFREMRLEGLAMD-QFTFGSVLTACGGLL----ALEEGKQIHAFIIR  202 (647)
Q Consensus       132 ~~~~~~---~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd-~~t~~~ll~~~~~~~----~~~~a~~~~~~~~~  202 (647)
                      .+..+.   + +..+--|...|.+.|+.+.+...|+.....  .|| ..|...+...|+..+    ..+.|..++....+
T Consensus       331 ~~s~k~~~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~--~p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~  408 (1018)
T KOG2002|consen  331 MESLKADNDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQ--LPNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLE  408 (1018)
T ss_pred             HHHHccCCCCccccccchhHHHHHhchHHHHHHHHHHHHHh--CcchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHh
Confidence            555432   1 233444556666666666666666666553  233 334444444444443    34445555555444


Q ss_pred             cCCCCchhHHHHHHHHHHhcCCH------HHHHHHHhc-CCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHC---CCC
Q 006388          203 NDHKDNVFVGSALVDMYCKCKSI------KYAESVFRT-MAWKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRN---GIE  272 (647)
Q Consensus       203 ~g~~~~~~~~~~li~~y~~~g~~------~~A~~~~~~-~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~---g~~  272 (647)
                      .- +.|...|-.+..+|-...-+      ..|..++.. +....+...|.+...+...|++++|...|.+....   -..
T Consensus       409 ~~-~~d~~a~l~laql~e~~d~~~sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n  487 (1018)
T KOG2002|consen  409 QT-PVDSEAWLELAQLLEQTDPWASLDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVAN  487 (1018)
T ss_pred             cc-cccHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcC
Confidence            33 44555555555555443322      222222222 12234556677777777888888888888777654   123


Q ss_pred             CCH-----H-HHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhh
Q 006388          273 PDD-----F-TLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMN---VRDEVS  343 (647)
Q Consensus       273 p~~-----~-t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~d~~~  343 (647)
                      +|.     . +--.+....-..++.+.|.++|..+.+.. +.-+..|-.|+-+.-..+...+|...++...   ..++..
T Consensus       488 ~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilkeh-p~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d~~np~a  566 (1018)
T KOG2002|consen  488 KDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKEH-PGYIDAYLRLGCMARDKNNLYEASLLLKDALNIDSSNPNA  566 (1018)
T ss_pred             ccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHC-chhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcccCCcHH
Confidence            333     1 22223334455667888888888877763 2222333333333333456778888887765   457788


Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHhc------------CCcHHHHHHHHHHHHHhcCCCc
Q 006388          344 WTALVSGYAKFGKANETIDLFEKMLSH-GLKPDEVTLIGVLSACSR------------AGLVEKGRHYFEIMVKEYGIRP  410 (647)
Q Consensus       344 ~~~li~~~~~~g~~~~A~~~~~~m~~~-g~~p~~~t~~~ll~a~~~------------~g~~~~a~~~~~~~~~~~~~~p  410 (647)
                      |+.+...|.....+..|.+-|....+. ...+|..+..+|.+.|..            .+..++|+++|....+  .-+.
T Consensus       567 rsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~--~dpk  644 (1018)
T KOG2002|consen  567 RSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLR--NDPK  644 (1018)
T ss_pred             HHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHh--cCcc
Confidence            888888888888888888877766543 234677777777665542            2356788888888875  3455


Q ss_pred             ChHHHHHHHHHHHHcCCHHHHHHHHHhCC--CCCChhhHHHHHHHHHhcCChhHHHHHHHHHhcc-C-CCCchhHHHHHH
Q 006388          411 IHDHYTCMIDILSRAGRLEEAKSFINKMP--FPPDAIGWATLLSSCRIHGNVEIGKWAAESLLEL-D-PYNPASYVLLSS  486 (647)
Q Consensus       411 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~-p~~~~~~~~l~~  486 (647)
                      +...-|-+.-.++..|++.+|..+|.+..  ......+|-.+...|...|++..|+++|+..++. . .+++.....|+.
T Consensus       645 N~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lar  724 (1018)
T KOG2002|consen  645 NMYAANGIGIVLAEKGRFSEARDIFSQVREATSDFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLAR  724 (1018)
T ss_pred             hhhhccchhhhhhhccCchHHHHHHHHHHHHHhhCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHH
Confidence            77778888999999999999999999882  2235678999999999999999999999997764 3 347788899999


Q ss_pred             hhhhCCChhHHHHHHHHHHhC
Q 006388          487 IYASKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       487 ~~~~~g~~~~a~~~~~~m~~~  507 (647)
                      ++...|+|.+|.+........
T Consensus       725 a~y~~~~~~eak~~ll~a~~~  745 (1018)
T KOG2002|consen  725 AWYEAGKLQEAKEALLKARHL  745 (1018)
T ss_pred             HHHHhhhHHHHHHHHHHHHHh
Confidence            999999999999998877654

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

Probab=99.77  E-value=2.1e-14  Score=149.46  Aligned_cols=475  Identities=12%  Similarity=0.093  Sum_probs=340.8

Q ss_pred             hhHHHHHHHHHHHCCCCCCCcchHHHHHHHHh--CCCChHHHHHHHHHHHHhCC--CCchhhHHHHHHHHHhcCChHHHH
Q 006388           22 VNDAVKVYNLMLKDGLGNLSRITFSTMLIMSS--SRRCVDLGRQIHGHILKFGF--GSYVFVGSPLVDMYAKLGLIYDAK   97 (647)
Q Consensus        22 ~~~A~~~~~~m~~~g~~~~~~~~~~~ll~~~~--~~~~~~~a~~~~~~~~~~g~--~~~~~~~~~li~~~~~~g~~~~A~   97 (647)
                      ++.|...|....+..  |+|.  ...|.+||.  ..+++..|..+|..++....  .+|+.+.  +-.++.++|+.+.|+
T Consensus       146 ~~~A~a~F~~Vl~~s--p~Ni--l~LlGkA~i~ynkkdY~~al~yyk~al~inp~~~aD~rIg--ig~Cf~kl~~~~~a~  219 (1018)
T KOG2002|consen  146 MDDADAQFHFVLKQS--PDNI--LALLGKARIAYNKKDYRGALKYYKKALRINPACKADVRIG--IGHCFWKLGMSEKAL  219 (1018)
T ss_pred             HHHHHHHHHHHHhhC--Ccch--HHHHHHHHHHhccccHHHHHHHHHHHHhcCcccCCCccch--hhhHHHhccchhhHH
Confidence            589999999999876  5554  344666664  67899999999999777643  5665543  346778999999999


Q ss_pred             HHhccCCCCCchHHHHHHHHHH------hcCChHHHHHHhhcCC---CCCeehHHHHHHHHHhCCChhHHHHHHHHHHHC
Q 006388           98 RGFDELPEKNIVMYNTMITGLL------RRGLVEESRRLFRGMK---DKDSISWTTMITGLMQNGLEREAIDLFREMRLE  168 (647)
Q Consensus        98 ~~~~~~~~~~~~~~~~li~~~~------~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  168 (647)
                      ..|.+..+-|+..-++++....      ....+..+..++...-   ..|++..+.|...|.-.|+++.++.+...+...
T Consensus       220 ~a~~ralqLdp~~v~alv~L~~~~l~~~d~~s~~~~~~ll~~ay~~n~~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~  299 (1018)
T KOG2002|consen  220 LAFERALQLDPTCVSALVALGEVDLNFNDSDSYKKGVQLLQRAYKENNENPVALNHLANHFYFKKDYERVWHLAEHAIKN  299 (1018)
T ss_pred             HHHHHHHhcChhhHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhhcCCCcHHHHHHHHHHhhcccHHHHHHHHHHHHHh
Confidence            9999988755544444433222      2334445555554432   248899999999999999999999999998764


Q ss_pred             CCC--CChhhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCC---ChhHH
Q 006388          169 GLA--MDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWK---NVVSW  243 (647)
Q Consensus       169 g~~--pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~---~~~~~  243 (647)
                      -..  .-...|-.+.+++-..|+++.|...|-+..+..-...+..+--|..+|.+.|+++.+...|+.+...   +..+.
T Consensus       300 t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~~p~~~etm  379 (1018)
T KOG2002|consen  300 TENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQLPNNYETM  379 (1018)
T ss_pred             hhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCccccccchhHHHHHhchHHHHHHHHHHHHHhCcchHHHH
Confidence            311  1233577888999999999999999988887643322444557899999999999999999998643   45677


Q ss_pred             HHHHHHHHhcC----ChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHH----HhCCCcchhHHHH
Q 006388          244 TAMLVGYGQNG----CSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSL----VTGLISFITVSNA  315 (647)
Q Consensus       244 ~~li~~~~~~g----~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~----~~~~~~~~~~~~~  315 (647)
                      ..|...|+..+    ..+.|..++.+..+.- +-|...|..+-..+-. +++......+..+.    ..+-.+.+.+.|.
T Consensus       380 ~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~laql~e~-~d~~~sL~~~~~A~d~L~~~~~~ip~E~LNN  457 (1018)
T KOG2002|consen  380 KILGCLYAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELAQLLEQ-TDPWASLDAYGNALDILESKGKQIPPEVLNN  457 (1018)
T ss_pred             HHHHhHHHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHHHHHHh-cChHHHHHHHHHHHHHHHHcCCCCCHHHHHh
Confidence            77777777775    4466666666665542 3355566555555543 44444455555443    4455677889999


Q ss_pred             HHHHHHhcCCHHHHHHHHhhcCCC-------Chh-------hHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHH-HHH
Q 006388          316 LVTFYGKCGNIEDSHRLFNEMNVR-------DEV-------SWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEV-TLI  380 (647)
Q Consensus       316 li~~~~~~g~~~~A~~~~~~~~~~-------d~~-------~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~  380 (647)
                      +...+...|++.+|...|......       |..       -|| +...+-..++.+.|.+.|+.....  .|+-+ .|.
T Consensus       458 vaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YN-larl~E~l~~~~~A~e~Yk~Ilke--hp~YId~yl  534 (1018)
T KOG2002|consen  458 VASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYN-LARLLEELHDTEVAEEMYKSILKE--HPGYIDAYL  534 (1018)
T ss_pred             HHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHH-HHHHHHhhhhhhHHHHHHHHHHHH--CchhHHHHH
Confidence            999999999999999999876522       221       233 445566678899999999999885  67765 444


Q ss_pred             HHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHH----hCCCCCChhhHHHHHHHHHh
Q 006388          381 GVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFIN----KMPFPPDAIGWATLLSSCRI  456 (647)
Q Consensus       381 ~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~----~~~~~p~~~~~~~ll~~~~~  456 (647)
                      .++......+...+|...+.....  ....++..++.+.+.+.+...+.-|.+-|.    +....+|+.+.-+|++.|.+
T Consensus       535 Rl~~ma~~k~~~~ea~~~lk~~l~--~d~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~  612 (1018)
T KOG2002|consen  535 RLGCMARDKNNLYEASLLLKDALN--IDSSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQ  612 (1018)
T ss_pred             HhhHHHHhccCcHHHHHHHHHHHh--cccCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHH
Confidence            444333345778889888888876  445566677778888888888877777444    33344777777788876652


Q ss_pred             ------------cCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHhCCC
Q 006388          457 ------------HGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREKGV  509 (647)
Q Consensus       457 ------------~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~  509 (647)
                                  .+..+.|++.|.+++..+|.|..+-+.++-+++..|++.+|..+|.+..+...
T Consensus       613 ~l~~~~rn~ek~kk~~~KAlq~y~kvL~~dpkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~  677 (1018)
T KOG2002|consen  613 ALHNPSRNPEKEKKHQEKALQLYGKVLRNDPKNMYAANGIGIVLAEKGRFSEARDIFSQVREATS  677 (1018)
T ss_pred             HhcccccChHHHHHHHHHHHHHHHHHHhcCcchhhhccchhhhhhhccCchHHHHHHHHHHHHHh
Confidence                        23467788888888889999888888888999999999999999999887655

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.77  E-value=1.4e-14  Score=157.60  Aligned_cols=419  Identities=9%  Similarity=-0.010  Sum_probs=307.6

Q ss_pred             HHHHhcCChHHHHHHhccCCC--CCch-HHHHHHHHHHhcCChHHHHHHhhcCCCCCeehHHH-H--HHHHHhCCChhHH
Q 006388           85 DMYAKLGLIYDAKRGFDELPE--KNIV-MYNTMITGLLRRGLVEESRRLFRGMKDKDSISWTT-M--ITGLMQNGLEREA  158 (647)
Q Consensus        85 ~~~~~~g~~~~A~~~~~~~~~--~~~~-~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~-l--i~~~~~~g~~~~A  158 (647)
                      -...+.|+++.|...|++..+  |+.. ....++..+...|+.++|+..+++...|+...+.. +  ...|...|++++|
T Consensus        42 ii~~r~Gd~~~Al~~L~qaL~~~P~~~~av~dll~l~~~~G~~~~A~~~~eka~~p~n~~~~~llalA~ly~~~gdyd~A  121 (822)
T PRK14574         42 IIRARAGDTAPVLDYLQEESKAGPLQSGQVDDWLQIAGWAGRDQEVIDVYERYQSSMNISSRGLASAARAYRNEKRWDQA  121 (822)
T ss_pred             HHHHhCCCHHHHHHHHHHHHhhCccchhhHHHHHHHHHHcCCcHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHH
Confidence            345699999999999999986  4321 23388899999999999999999998775444443 3  4477788999999


Q ss_pred             HHHHHHHHHCCCCCChhhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCC
Q 006388          159 IDLFREMRLEGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWK  238 (647)
Q Consensus       159 ~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~  238 (647)
                      +++|+++.+.... +...+..++..+...++.++|.+.+..+.+.  .|+...+..++..+...++..+|.+.++++.+.
T Consensus       122 iely~kaL~~dP~-n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~~AL~~~ekll~~  198 (822)
T PRK14574        122 LALWQSSLKKDPT-NPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNYDALQASSEAVRL  198 (822)
T ss_pred             HHHHHHHHhhCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHHHHHHHHHHHHHh
Confidence            9999999886432 3455667778888999999999999998876  445555555555665566776799999998753


Q ss_pred             ---ChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHH------HHHHHH-Hh----ccCCh---HHHHHHHHHH
Q 006388          239 ---NVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTL------GSVISS-CA----NLASL---EEGTQFHGRS  301 (647)
Q Consensus       239 ---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~------~~ll~a-~~----~~~~~---~~a~~~~~~~  301 (647)
                         +...+..+..++.+.|-...|+++..+-... +.|...-.      ...+.. ..    ....+   +.|..-++.+
T Consensus       199 ~P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~-f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~~~l  277 (822)
T PRK14574        199 APTSEEVLKNHLEILQRNRIVEPALRLAKENPNL-VSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKALADYQNL  277 (822)
T ss_pred             CCCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccc-cCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHHHHH
Confidence               5667788889999999999999876653211 11111111      111110 00    11222   3333344444


Q ss_pred             HHh-C-CCcchhH-HHH---HHHHHHhcCCHHHHHHHHhhcCCC----ChhhHHHHHHHHHHcCChHHHHHHHHHHHHCC
Q 006388          302 LVT-G-LISFITV-SNA---LVTFYGKCGNIEDSHRLFNEMNVR----DEVSWTALVSGYAKFGKANETIDLFEKMLSHG  371 (647)
Q Consensus       302 ~~~-~-~~~~~~~-~~~---li~~~~~~g~~~~A~~~~~~~~~~----d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  371 (647)
                      ... + .++.... ..+   -+-++.+.|+..++.+.|+.+...    ...+-.++..+|...+++++|+.+|++.....
T Consensus       278 ~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~  357 (822)
T PRK14574        278 LTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSD  357 (822)
T ss_pred             HhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhcc
Confidence            432 1 1222222 222   345567889999999999999833    33456678899999999999999999997643


Q ss_pred             -----CCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcC----------CCcC---hHHHHHHHHHHHHcCCHHHHHH
Q 006388          372 -----LKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYG----------IRPI---HDHYTCMIDILSRAGRLEEAKS  433 (647)
Q Consensus       372 -----~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~----------~~p~---~~~~~~li~~~~~~g~~~~A~~  433 (647)
                           ..++......|.-++..++++++|..+++.+.+...          -.|+   ...+..++..+...|++.+|++
T Consensus       358 ~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~  437 (822)
T PRK14574        358 GKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQK  437 (822)
T ss_pred             ccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHH
Confidence                 122333457788999999999999999999986311          0122   2445567788899999999999


Q ss_pred             HHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHhC
Q 006388          434 FINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       434 ~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  507 (647)
                      .++++ ...| |...+..+...+...|.+.+|+..++.+..++|++..+...++.++...|+|++|..+.+.+.+.
T Consensus       438 ~le~l~~~aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l~P~~~~~~~~~~~~al~l~e~~~A~~~~~~l~~~  513 (822)
T PRK14574        438 KLEDLSSTAPANQNLRIALASIYLARDLPRKAEQELKAVESLAPRSLILERAQAETAMALQEWHQMELLTDDVISR  513 (822)
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhCCccHHHHHHHHHHHHhhhhHHHHHHHHHHHHhh
Confidence            99998 3344 68889999999999999999999999999999999999999999999999999999999887664

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.74  E-value=1.1e-13  Score=131.12  Aligned_cols=415  Identities=16%  Similarity=0.156  Sum_probs=268.1

Q ss_pred             chHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCchhhHHHHHHH--HHhcCChHHH-HHHhccCCC---CCchHHHHHHH
Q 006388           43 ITFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGSPLVDM--YAKLGLIYDA-KRGFDELPE---KNIVMYNTMIT  116 (647)
Q Consensus        43 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~--~~~~g~~~~A-~~~~~~~~~---~~~~~~~~li~  116 (647)
                      .+=+.|++. ...|.++.+.-+++.|...|.+.+..+-..|+..  |....++.-| .+-|-.|..   ....+|     
T Consensus       117 ~~E~nL~km-IS~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S~~sW-----  190 (625)
T KOG4422|consen  117 ETENNLLKM-ISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDSTSSW-----  190 (625)
T ss_pred             cchhHHHHH-HhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhcccccccccccc-----
Confidence            455555553 4456777788888888888877666666655543  3333333322 234444442   334444     


Q ss_pred             HHHhcCChHHHHHHhhcCCCCCeehHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHhcCCChHHHHHH
Q 006388          117 GLLRRGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSVLTACGGLLALEEGKQI  196 (647)
Q Consensus       117 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~  196 (647)
                         +.|.+.+   ++-+...+...++..||.++++--..+.|.+++++-.....+.+..+||.+|.+-+    +..++++
T Consensus       191 ---K~G~vAd---L~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S----~~~~K~L  260 (625)
T KOG4422|consen  191 ---KSGAVAD---LLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASS----YSVGKKL  260 (625)
T ss_pred             ---ccccHHH---HHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHH----hhccHHH
Confidence               3454444   44444445667888888888888888888888888888778888888888887654    3334778


Q ss_pred             HHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHH----hcCC----CCChhHHHHHHHHHHhcCChhH-HHHHHHHHH
Q 006388          197 HAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVF----RTMA----WKNVVSWTAMLVGYGQNGCSEE-AVKIFCNMQ  267 (647)
Q Consensus       197 ~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~----~~~~----~~~~~~~~~li~~~~~~g~~~~-A~~~~~~m~  267 (647)
                      ..+|+...+.||..++|+++.+..+.|+++.|++.+    .+|+    +|...+|..+|..+.+.++..+ |..++.++.
T Consensus       261 v~EMisqkm~Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~  340 (625)
T KOG4422|consen  261 VAEMISQKMTPNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQ  340 (625)
T ss_pred             HHHHHHhhcCCchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHH
Confidence            888888888888888888888888888887766544    3443    4677788888888888777644 455555554


Q ss_pred             HC----CCCC----CHHHHHHHHHHHhccCChHHHHHHHHHHHHhC----CCcc---hhHHHHHHHHHHhcCCHHHHHHH
Q 006388          268 RN----GIEP----DDFTLGSVISSCANLASLEEGTQFHGRSLVTG----LISF---ITVSNALVTFYGKCGNIEDSHRL  332 (647)
Q Consensus       268 ~~----g~~p----~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~----~~~~---~~~~~~li~~~~~~g~~~~A~~~  332 (647)
                      ..    .++|    |..-|...+..|.+..+.+.|.+++..+....    +.++   ..-|..+....+....++.-...
T Consensus       341 N~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~  420 (625)
T KOG4422|consen  341 NSLTGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKW  420 (625)
T ss_pred             HhhccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            32    2333    34567788999999999999999988775431    2222   34456677888888889999999


Q ss_pred             HhhcCC----CChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCC-c---H-----H-----H
Q 006388          333 FNEMNV----RDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAG-L---V-----E-----K  394 (647)
Q Consensus       333 ~~~~~~----~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g-~---~-----~-----~  394 (647)
                      ++.|..    |+..+-..++.+....|.++-.-+++..|+..|..-+...-.-++.-+++.. .   .     .     -
T Consensus       421 Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k~hp~tp~r~Ql~~~~ak~  500 (625)
T KOG4422|consen  421 YEDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDKLHPLTPEREQLQVAFAKC  500 (625)
T ss_pred             HHHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHH
Confidence            998873    4666667777888888888888888888888775555444444444443332 1   0     0     0


Q ss_pred             HHHHHHHH----HHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-------CCCCChhhHHHHHHHHHhcCChhHH
Q 006388          395 GRHYFEIM----VKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-------PFPPDAIGWATLLSSCRIHGNVEIG  463 (647)
Q Consensus       395 a~~~~~~~----~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-------~~~p~~~~~~~ll~~~~~~~~~~~a  463 (647)
                      |..+++..    ++....+......++..-++.|.|..++|.+++.-.       +..|......-|+.+-.+.++...|
T Consensus       501 aad~~e~~e~~~~R~r~~~~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~~spsqA  580 (625)
T KOG4422|consen  501 AADIKEAYESQPIRQRAQDWPATSLNCIAILLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSAKVSNSPSQA  580 (625)
T ss_pred             HHHHHHHHHhhHHHHHhccCChhHHHHHHHHHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHHHhcCCHHHH
Confidence            11111110    001123344556778888888888888888887654       3334433344555555566666666


Q ss_pred             HHHHHHHhcc
Q 006388          464 KWAAESLLEL  473 (647)
Q Consensus       464 ~~~~~~~~~~  473 (647)
                      ..+++-+.+.
T Consensus       581 ~~~lQ~a~~~  590 (625)
T KOG4422|consen  581 IEVLQLASAF  590 (625)
T ss_pred             HHHHHHHHHc
Confidence            6666665443

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

Probab=99.71  E-value=4.8e-14  Score=134.36  Aligned_cols=462  Identities=13%  Similarity=0.070  Sum_probs=303.1

Q ss_pred             HHHHHHcCCChhHHHHHHHHHHHCCCCCCCcch-HHHHHHHHhCCCChHHHHHHHHHHHHhCCCCch----hhHHHHHHH
Q 006388           12 LISGHASHGSVNDAVKVYNLMLKDGLGNLSRIT-FSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYV----FVGSPLVDM   86 (647)
Q Consensus        12 li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~-~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~----~~~~~li~~   86 (647)
                      |.+-|..+..+.+|+..|+-..+... -||.-. --.+...+.+.+++.+|.+.++..+..-...+.    .+.+.+-..
T Consensus       207 laqqy~~ndm~~ealntyeiivknkm-f~nag~lkmnigni~~kkr~fskaikfyrmaldqvpsink~~rikil~nigvt  285 (840)
T KOG2003|consen  207 LAQQYEANDMTAEALNTYEIIVKNKM-FPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQVPSINKDMRIKILNNIGVT  285 (840)
T ss_pred             HHHHhhhhHHHHHHhhhhhhhhcccc-cCCCceeeeeecceeeehhhHHHHHHHHHHHHhhccccchhhHHHHHhhcCee
Confidence            45667778888899999988887766 455432 233445567777888888888887766433332    234444445


Q ss_pred             HHhcCChHHHHHHhccCCC--CCchHHHHHHHHHHhcCChHHHHHHhhcCCC----------------CCeehHHHHH--
Q 006388           87 YAKLGLIYDAKRGFDELPE--KNIVMYNTMITGLLRRGLVEESRRLFRGMKD----------------KDSISWTTMI--  146 (647)
Q Consensus        87 ~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~----------------~~~~~~~~li--  146 (647)
                      +.+.|++++|..-|+...+  ||..+--.|+-.+.--|+-++..+.|.+|..                |+....|.-|  
T Consensus       286 fiq~gqy~dainsfdh~m~~~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~~ll~eai~n  365 (840)
T KOG2003|consen  286 FIQAGQYDDAINSFDHCMEEAPNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDDNLLNEAIKN  365 (840)
T ss_pred             EEecccchhhHhhHHHHHHhCccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcchHHHHHHHhh
Confidence            7788999999999887764  6766655556566667888888888887753                1111122111  


Q ss_pred             ---HHHHhCC--ChhHHHHHHHHHHHCCCCCChhh-HHHHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHH
Q 006388          147 ---TGLMQNG--LEREAIDLFREMRLEGLAMDQFT-FGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYC  220 (647)
Q Consensus       147 ---~~~~~~g--~~~~A~~~~~~m~~~g~~pd~~t-~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~  220 (647)
                         +-.-+.+  +.++++-.-.++..--+.||-.. +...+...-.....+.             ..+..  -.-..-|.
T Consensus       366 d~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~l-------------a~dle--i~ka~~~l  430 (840)
T KOG2003|consen  366 DHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAEL-------------AIDLE--INKAGELL  430 (840)
T ss_pred             HHHHHHHHhhhhhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhh-------------hhhhh--hhHHHHHH
Confidence               1111111  11222222222222122222110 1111111110001111             11111  11233578


Q ss_pred             hcCCHHHHHHHHhcCCCCChhHH----HHHHH-HHHh-cCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHH
Q 006388          221 KCKSIKYAESVFRTMAWKNVVSW----TAMLV-GYGQ-NGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEG  294 (647)
Q Consensus       221 ~~g~~~~A~~~~~~~~~~~~~~~----~~li~-~~~~-~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a  294 (647)
                      +.|+++.|.+++.-...+|..+-    |.|-. -|.+ ..++.+|.+.-+...... +-+......-.......|++++|
T Consensus       431 k~~d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d-ryn~~a~~nkgn~~f~ngd~dka  509 (840)
T KOG2003|consen  431 KNGDIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNID-RYNAAALTNKGNIAFANGDLDKA  509 (840)
T ss_pred             hccCHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc-ccCHHHhhcCCceeeecCcHHHH
Confidence            99999999998888776654332    22222 2223 345666766665554332 22333333333334457899999


Q ss_pred             HHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCC
Q 006388          295 TQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMN---VRDEVSWTALVSGYAKFGKANETIDLFEKMLSHG  371 (647)
Q Consensus       295 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  371 (647)
                      ...+.+.+..+-.-....|| +.-.+-+.|++++|+..|-++.   ..++...-.+...|-...+...|++++.+.... 
T Consensus       510 ~~~ykeal~ndasc~ealfn-iglt~e~~~~ldeald~f~klh~il~nn~evl~qianiye~led~aqaie~~~q~~sl-  587 (840)
T KOG2003|consen  510 AEFYKEALNNDASCTEALFN-IGLTAEALGNLDEALDCFLKLHAILLNNAEVLVQIANIYELLEDPAQAIELLMQANSL-  587 (840)
T ss_pred             HHHHHHHHcCchHHHHHHHH-hcccHHHhcCHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhccc-
Confidence            99999998776444445555 3445778899999999998765   557777778888899999999999999777653 


Q ss_pred             CCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCChhhHHHH
Q 006388          372 LKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPPDAIGWATL  450 (647)
Q Consensus       372 ~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l  450 (647)
                      ++.|...+..|...|-+.|+-.+|.+.+-.--+  -++.+.++..-|..-|....-+++|+.+|++. -++|+.+-|..+
T Consensus       588 ip~dp~ilskl~dlydqegdksqafq~~ydsyr--yfp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~~kwqlm  665 (840)
T KOG2003|consen  588 IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYR--YFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQSKWQLM  665 (840)
T ss_pred             CCCCHHHHHHHHHHhhcccchhhhhhhhhhccc--ccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccHHHHHHH
Confidence            444556888888999999999999887654322  35567889888999999999999999999998 478999999999


Q ss_pred             HHHHH-hcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCCh
Q 006388          451 LSSCR-IHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKW  494 (647)
Q Consensus       451 l~~~~-~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  494 (647)
                      +.+|. +.|++..|..+++.....-|.+...+..|..++...|.-
T Consensus       666 iasc~rrsgnyqka~d~yk~~hrkfpedldclkflvri~~dlgl~  710 (840)
T KOG2003|consen  666 IASCFRRSGNYQKAFDLYKDIHRKFPEDLDCLKFLVRIAGDLGLK  710 (840)
T ss_pred             HHHHHHhcccHHHHHHHHHHHHHhCccchHHHHHHHHHhccccch
Confidence            99884 679999999999999999999999999999998888753

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

Probab=99.66  E-value=7.9e-12  Score=129.80  Aligned_cols=497  Identities=13%  Similarity=0.106  Sum_probs=300.3

Q ss_pred             cccHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCCcchHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCchhhHHHHHH
Q 006388            6 GVSWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGSPLVD   85 (647)
Q Consensus         6 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~   85 (647)
                      ...|-+|...|-+.|+.++++..+-..-...  |.|...|..+..-..+.|++++|.-++.++++.. +++....---..
T Consensus       173 ~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~--p~d~e~W~~ladls~~~~~i~qA~~cy~rAI~~~-p~n~~~~~ers~  249 (895)
T KOG2076|consen  173 PIAYYTLGEIYEQRGDIEKALNFWLLAAHLN--PKDYELWKRLADLSEQLGNINQARYCYSRAIQAN-PSNWELIYERSS  249 (895)
T ss_pred             hhhHHHHHHHHHHcccHHHHHHHHHHHHhcC--CCChHHHHHHHHHHHhcccHHHHHHHHHHHHhcC-CcchHHHHHHHH
Confidence            3445555555555555555554443333332  3444455555555555555555555555555554 233333333445


Q ss_pred             HHHhcCChHHHHHHhccCCCCCc----h----HHHHHHHHHHhcCChHHHHHHhhcCCC--C---CeehHHHHHHHHHhC
Q 006388           86 MYAKLGLIYDAKRGFDELPEKNI----V----MYNTMITGLLRRGLVEESRRLFRGMKD--K---DSISWTTMITGLMQN  152 (647)
Q Consensus        86 ~~~~~g~~~~A~~~~~~~~~~~~----~----~~~~li~~~~~~g~~~~A~~~~~~~~~--~---~~~~~~~li~~~~~~  152 (647)
                      +|-+.|+...|..-|.++.+.+.    .    +--..+..+...++-+.|.+.++....  .   +...++.++..|.+.
T Consensus       250 L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s~~~~~~~~ed~ni~ael~l~~  329 (895)
T KOG2076|consen  250 LYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGALSKEKDEASLEDLNILAELFLKN  329 (895)
T ss_pred             HHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHh
Confidence            55555666665555554443111    1    111123444455555666666655543  1   345678888888888


Q ss_pred             CChhHHHHHHHHHHHCCCCC----------------------ChhhHH----HHHHHHhcCCChHHHHHHHHHHHHcC--
Q 006388          153 GLEREAIDLFREMRLEGLAM----------------------DQFTFG----SVLTACGGLLALEEGKQIHAFIIRND--  204 (647)
Q Consensus       153 g~~~~A~~~~~~m~~~g~~p----------------------d~~t~~----~ll~~~~~~~~~~~a~~~~~~~~~~g--  204 (647)
                      ..++.|......+......+                      +...|.    -+.-++.+....+....+...+.+..  
T Consensus       330 ~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~rl~icL~~L~~~e~~e~ll~~l~~~n~~  409 (895)
T KOG2076|consen  330 KQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVIRLMICLVHLKERELLEALLHFLVEDNVW  409 (895)
T ss_pred             HHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhHhHhhhhhcccccchHHHHHHHHHHhcCC
Confidence            88888888888877621111                      111111    12223345555555666666666666  


Q ss_pred             CCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC----CChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCH-HHHH
Q 006388          205 HKDNVFVGSALVDMYCKCKSIKYAESVFRTMAW----KNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDD-FTLG  279 (647)
Q Consensus       205 ~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~t~~  279 (647)
                      +..+...+.-+.++|...|++.+|.++|..+..    .+...|--+..+|...|..++|.+.|......  .|+. ..-.
T Consensus       410 ~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~--~p~~~D~Ri  487 (895)
T KOG2076|consen  410 VSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEEAIEFYEKVLIL--APDNLDARI  487 (895)
T ss_pred             hhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHHHHHHHHHHHhc--CCCchhhhh
Confidence            344567788899999999999999999998874    36778999999999999999999999999875  5554 3444


Q ss_pred             HHHHHHhccCChHHHHHHHHHHH--------HhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcC--------------
Q 006388          280 SVISSCANLASLEEGTQFHGRSL--------VTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMN--------------  337 (647)
Q Consensus       280 ~ll~a~~~~~~~~~a~~~~~~~~--------~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~--------------  337 (647)
                      .+-..+.+.|+.++|.+.+..+.        ..+..|+..+.-...+.|.+.|+.++=..+-..|.              
T Consensus       488 ~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~~gk~E~fi~t~~~Lv~~~~~~~~~f~~~~  567 (895)
T KOG2076|consen  488 TLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQVGKREEFINTASTLVDDFLKKRYIFPRNK  567 (895)
T ss_pred             hHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhcchHH
Confidence            55566778999999999988853        23345555565666677777777655322211110              


Q ss_pred             --------------------------CC-------------------------ChhhH----HHHHHHHHHcCChHHHHH
Q 006388          338 --------------------------VR-------------------------DEVSW----TALVSGYAKFGKANETID  362 (647)
Q Consensus       338 --------------------------~~-------------------------d~~~~----~~li~~~~~~g~~~~A~~  362 (647)
                                                .+                         ...-|    .-++.++++.+++++|+.
T Consensus       568 k~r~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~l~d~~~~~~~e~~~Lsiddwfel~~e~i~~L~k~~r~qeAl~  647 (895)
T KOG2076|consen  568 KKRRRAIAGTTSKRYSELLKQIIRAREKATDDNVMEKALSDGTEFRAVELRGLSIDDWFELFRELILSLAKLQRVQEALS  647 (895)
T ss_pred             HHHHHhhccccccccchhHHHHHHHHhccCchHHhhhcccchhhhhhhhhccCcHHHHHHHHHHHHHHHHHHHhHHHHHH
Confidence                                      00                         01112    345667889999999999


Q ss_pred             HHHHHHHCCC--CCCHH--HH-HHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcC---hHHHHHHHHHH------------
Q 006388          363 LFEKMLSHGL--KPDEV--TL-IGVLSACSRAGLVEKGRHYFEIMVKEYGIRPI---HDHYTCMIDIL------------  422 (647)
Q Consensus       363 ~~~~m~~~g~--~p~~~--t~-~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~---~~~~~~li~~~------------  422 (647)
                      +...+.....  .++..  .+ ...+.++...+++..|...++.|...++...+   ...|++.....            
T Consensus       648 vv~~a~~~~~f~~~~~~~k~l~~~~l~~s~~~~d~~~a~~~lR~~i~~~~~~~~~~q~~l~n~~~s~~~~~~q~v~~~R~  727 (895)
T KOG2076|consen  648 VVFTALEAYIFFQDSEIRKELQFLGLKASLYARDPGDAFSYLRSVITQFQFYLDVYQLNLWNLDFSYFSKYGQRVCYLRL  727 (895)
T ss_pred             HHHHHHhhhhhhccHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9988876532  22221  22 33456777889999999999999876443322   23344222222            


Q ss_pred             -----------------------HHcCCHHHHHHHHHhC-CCCCChhhHHHHHHH-H----------HhcCChhHHHHHH
Q 006388          423 -----------------------SRAGRLEEAKSFINKM-PFPPDAIGWATLLSS-C----------RIHGNVEIGKWAA  467 (647)
Q Consensus       423 -----------------------~~~g~~~~A~~~~~~~-~~~p~~~~~~~ll~~-~----------~~~~~~~~a~~~~  467 (647)
                                             ..++.+.-|+..+-+. ...||....+.+++. +          .+|-..-++..++
T Consensus       728 ~~~~~~~~~~~~~~l~~i~gh~~~~~~s~~~Al~~y~ra~~~~pd~Pl~nl~lglafih~a~qr~v~~Rh~~i~qG~afL  807 (895)
T KOG2076|consen  728 IMRLLVKNKDDTPPLALIYGHNLFVNASFKHALQEYMRAFRQNPDSPLINLCLGLAFIHLALQRRVSNRHAQIAQGFAFL  807 (895)
T ss_pred             HHHHhccCccCCcceeeeechhHhhccchHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence                                   2234566666554443 233453333333322 1          1233455667777


Q ss_pred             HHHhccCCC--CchhHHHHHHhhhhCCChhHHHHHHHHHHhC
Q 006388          468 ESLLELDPY--NPASYVLLSSIYASKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       468 ~~~~~~~p~--~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  507 (647)
                      .+..++...  .-.++.+++.+|-..|-..-|..++++..+-
T Consensus       808 ~RY~~lR~~~~~QEa~YNigRayh~~gl~~LA~~YYekvL~~  849 (895)
T KOG2076|consen  808 KRYKELRRCEEKQEAFYNIGRAYHQIGLVHLAVSYYEKVLEV  849 (895)
T ss_pred             HHHHHhhccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhCC
Confidence            666665433  4578889999999999999999999998763

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

Probab=99.63  E-value=7e-11  Score=118.21  Aligned_cols=490  Identities=10%  Similarity=0.021  Sum_probs=382.1

Q ss_pred             HHcCCChhHHHHHHHHHHHCCCCCCCcchHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHHhcCChHH
Q 006388           16 HASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGSPLVDMYAKLGLIYD   95 (647)
Q Consensus        16 ~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~   95 (647)
                      -+...+.++|.-++.+..+.-  |.+...|    -++++...++.|+.++....+. ++.+..++.+-...--.+|..+.
T Consensus       386 AVelE~~~darilL~rAvecc--p~s~dLw----lAlarLetYenAkkvLNkaRe~-iptd~~IWitaa~LEE~ngn~~m  458 (913)
T KOG0495|consen  386 AVELEEPEDARILLERAVECC--PQSMDLW----LALARLETYENAKKVLNKAREI-IPTDREIWITAAKLEEANGNVDM  458 (913)
T ss_pred             HHhccChHHHHHHHHHHHHhc--cchHHHH----HHHHHHHHHHHHHHHHHHHHhh-CCCChhHHHHHHHHHHhcCCHHH
Confidence            344567778888888888763  4343433    4556667788899998888665 57778888877777778888888


Q ss_pred             HHHHhccCCC--------CCchHHHHHHHHHHhcCChHHHHHHhhcCCC------CCeehHHHHHHHHHhCCChhHHHHH
Q 006388           96 AKRGFDELPE--------KNIVMYNTMITGLLRRGLVEESRRLFRGMKD------KDSISWTTMITGLMQNGLEREAIDL  161 (647)
Q Consensus        96 A~~~~~~~~~--------~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~------~~~~~~~~li~~~~~~g~~~~A~~~  161 (647)
                      ..++.++-..        -+...|-.-...+-+.|..-.+..+......      .--.+|+.-...|.+.+.++-|..+
T Consensus       459 v~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e~agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAV  538 (913)
T KOG0495|consen  459 VEKIIDRGLSELQANGVEINRDQWLKEAEACEDAGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAV  538 (913)
T ss_pred             HHHHHHHHHHHHhhcceeecHHHHHHHHHHHhhcCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHH
Confidence            8887765431        2445566666666677777777766665442      1345899999999999999999999


Q ss_pred             HHHHHHCCCCCChhhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCC---
Q 006388          162 FREMRLEGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWK---  238 (647)
Q Consensus       162 ~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~---  238 (647)
                      |....+. .+-+...|......--..|..+.-..+++.++..- +.....|.....-+-..|++..|+.++...-+.   
T Consensus       539 ya~alqv-fp~k~slWlra~~~ek~hgt~Esl~Allqkav~~~-pkae~lwlM~ake~w~agdv~~ar~il~~af~~~pn  616 (913)
T KOG0495|consen  539 YAHALQV-FPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQC-PKAEILWLMYAKEKWKAGDVPAARVILDQAFEANPN  616 (913)
T ss_pred             HHHHHhh-ccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCC
Confidence            9988874 22345566666666667788999999999888764 445556666777888889999999988876542   


Q ss_pred             ChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHH
Q 006388          239 NVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVT  318 (647)
Q Consensus       239 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  318 (647)
                      +...|-+-+..-..+.++++|..+|.+....  .|+...|.--+..---.+..++|.+++++.++. ++.-...|-.+.+
T Consensus       617 seeiwlaavKle~en~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~-fp~f~Kl~lmlGQ  693 (913)
T KOG0495|consen  617 SEEIWLAAVKLEFENDELERARDLLAKARSI--SGTERVWMKSANLERYLDNVEEALRLLEEALKS-FPDFHKLWLMLGQ  693 (913)
T ss_pred             cHHHHHHHHHHhhccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh-CCchHHHHHHHhH
Confidence            5568888899999999999999999998875  567766665555555678899999999888876 3556678889999


Q ss_pred             HHHhcCCHHHHHHHHhhcCC--C-ChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHH
Q 006388          319 FYGKCGNIEDSHRLFNEMNV--R-DEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKG  395 (647)
Q Consensus       319 ~~~~~g~~~~A~~~~~~~~~--~-d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a  395 (647)
                      .+-+.++++.|.+.|..-.+  | .+-.|-.+...--+.|+.-.|..+|++....+ +-|...|...+..-.+.|+.+.|
T Consensus       694 i~e~~~~ie~aR~aY~~G~k~cP~~ipLWllLakleEk~~~~~rAR~ildrarlkN-Pk~~~lwle~Ir~ElR~gn~~~a  772 (913)
T KOG0495|consen  694 IEEQMENIEMAREAYLQGTKKCPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKN-PKNALLWLESIRMELRAGNKEQA  772 (913)
T ss_pred             HHHHHHHHHHHHHHHHhccccCCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcC-CCcchhHHHHHHHHHHcCCHHHH
Confidence            99999999999999987653  2 45678888887788899999999999988764 34566888999999999999999


Q ss_pred             HHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhccCC
Q 006388          396 RHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKMPFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDP  475 (647)
Q Consensus       396 ~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p  475 (647)
                      ..+.....+  .++.+...|..-|.+..+.++-..+.+.+++..  -|+.+.-++...+-...+++.|..-|+++.+.+|
T Consensus       773 ~~lmakALQ--ecp~sg~LWaEaI~le~~~~rkTks~DALkkce--~dphVllaia~lfw~e~k~~kar~Wf~Ravk~d~  848 (913)
T KOG0495|consen  773 ELLMAKALQ--ECPSSGLLWAEAIWLEPRPQRKTKSIDALKKCE--HDPHVLLAIAKLFWSEKKIEKAREWFERAVKKDP  848 (913)
T ss_pred             HHHHHHHHH--hCCccchhHHHHHHhccCcccchHHHHHHHhcc--CCchhHHHHHHHHHHHHHHHHHHHHHHHHHccCC
Confidence            999988876  456677888888988888888888888888875  3556666777778888899999999999999999


Q ss_pred             CCchhHHHHHHhhhhCCChhHHHHHHHHHHhCCCccCCCcceEeEcCeE
Q 006388          476 YNPASYVLLSSIYASKGKWDHVSQLRRTMREKGVRKDPGCSWIKYKSRV  524 (647)
Q Consensus       476 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~s~~~~~~~~  524 (647)
                      ++..+|..+...+...|.-++-.+++.+...  ..|..|..|..+...+
T Consensus       849 d~GD~wa~fykfel~hG~eed~kev~~~c~~--~EP~hG~~W~avSK~i  895 (913)
T KOG0495|consen  849 DNGDAWAWFYKFELRHGTEEDQKEVLKKCET--AEPTHGELWQAVSKDI  895 (913)
T ss_pred             ccchHHHHHHHHHHHhCCHHHHHHHHHHHhc--cCCCCCcHHHHHhhhH
Confidence            9999999999999999999999999998776  3466777888776544

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.61  E-value=4.3e-12  Score=120.61  Aligned_cols=361  Identities=14%  Similarity=0.148  Sum_probs=193.2

Q ss_pred             CCcccHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCCcchHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCchhhHHHH
Q 006388            4 HDGVSWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGSPL   83 (647)
Q Consensus         4 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l   83 (647)
                      ++..++..||.+.++....+.|.++|++.....+ +.+..+||.++.+-+    +..++.+...|+.....||.+|+|++
T Consensus       205 KT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~-kv~~~aFN~lI~~~S----~~~~K~Lv~EMisqkm~Pnl~TfNal  279 (625)
T KOG4422|consen  205 KTDETVSIMIAGLCKFSSLERARELYKEHRAAKG-KVYREAFNGLIGASS----YSVGKKLVAEMISQKMTPNLFTFNAL  279 (625)
T ss_pred             CCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhh-eeeHHhhhhhhhHHH----hhccHHHHHHHHHhhcCCchHhHHHH
Confidence            3456788888888888888888888888777665 777788888776654    33347777778777778888888888


Q ss_pred             HHHHHhcCChHHHHHHhccCCCCCchHHHHHHHHHHhcCChHHHHHHhhcCC----CCCeehHHHHHHHHHhCCChhH-H
Q 006388           84 VDMYAKLGLIYDAKRGFDELPEKNIVMYNTMITGLLRRGLVEESRRLFRGMK----DKDSISWTTMITGLMQNGLERE-A  158 (647)
Q Consensus        84 i~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~-A  158 (647)
                      +...++.|+++.|++.+-++.                           .+|.    +|...+|..+|..+.+.+++.+ |
T Consensus       280 L~c~akfg~F~~ar~aalqil---------------------------~EmKeiGVePsLsSyh~iik~f~re~dp~k~a  332 (625)
T KOG4422|consen  280 LSCAAKFGKFEDARKAALQIL---------------------------GEMKEIGVEPSLSSYHLIIKNFKRESDPQKVA  332 (625)
T ss_pred             HHHHHHhcchHHHHHHHHHHH---------------------------HHHHHhCCCcchhhHHHHHHHhcccCCchhhh
Confidence            888888887777665432211                           1111    3455555555555555554432 3


Q ss_pred             HHHHHHHHH----CCCCC----ChhhHHHHHHHHhcCCChHHHHHHHHHHHHcC----CCCchhHHHHHHHHHHhcCCHH
Q 006388          159 IDLFREMRL----EGLAM----DQFTFGSVLTACGGLLALEEGKQIHAFIIRND----HKDNVFVGSALVDMYCKCKSIK  226 (647)
Q Consensus       159 ~~~~~~m~~----~g~~p----d~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g----~~~~~~~~~~li~~y~~~g~~~  226 (647)
                      ..++.+...    .-++|    |...|...+..|.+..+.+.|.+++..+....    +.|+.                 
T Consensus       333 s~~i~dI~N~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~-----------------  395 (625)
T KOG4422|consen  333 SSWINDIQNSLTGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQ-----------------  395 (625)
T ss_pred             HHHHHHHHHhhccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHH-----------------
Confidence            333333332    11222    23334555555555555555555554433210    01110                 


Q ss_pred             HHHHHHhcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCC
Q 006388          227 YAESVFRTMAWKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGL  306 (647)
Q Consensus       227 ~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~  306 (647)
                                 ....-|..+....++....+.-+..|+.|.-.-+-|+..+...++.|....+.++-..+++..++..|.
T Consensus       396 -----------~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~gh  464 (625)
T KOG4422|consen  396 -----------HRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGH  464 (625)
T ss_pred             -----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhh
Confidence                       011223445555566666677777777777666677777777777777777777777777777776664


Q ss_pred             CcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHH--cCChHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 006388          307 ISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAK--FGKANETIDLFEKMLSHGLKPDEVTLIGVLS  384 (647)
Q Consensus       307 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~d~~~~~~li~~~~~--~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~  384 (647)
                      ........-++..+++..            ..|+...-..+-...++  ..-.+.....-.+|.+..+.|.  ..+.++.
T Consensus       465 t~r~~l~eeil~~L~~~k------------~hp~tp~r~Ql~~~~ak~aad~~e~~e~~~~R~r~~~~~~t--~l~~ia~  530 (625)
T KOG4422|consen  465 TFRSDLREEILMLLARDK------------LHPLTPEREQLQVAFAKCAADIKEAYESQPIRQRAQDWPAT--SLNCIAI  530 (625)
T ss_pred             hhhHHHHHHHHHHHhcCC------------CCCCChHHHHHHHHHHHHHHHHHHHHHhhHHHHHhccCChh--HHHHHHH
Confidence            333333222222222211            01111100111111111  0011111222233444333333  3344444


Q ss_pred             HHhcCCcHHHHHHHHHHHHHhcCCCcChHHHH---HHHHHHHHcCCHHHHHHHHHhC
Q 006388          385 ACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYT---CMIDILSRAGRLEEAKSFINKM  438 (647)
Q Consensus       385 a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~---~li~~~~~~g~~~~A~~~~~~~  438 (647)
                      .+.+.|..++|.++|....+...-.|-....+   -+++.-.+......|...++-|
T Consensus       531 Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~~spsqA~~~lQ~a  587 (625)
T KOG4422|consen  531 LLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSAKVSNSPSQAIEVLQLA  587 (625)
T ss_pred             HHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            45666777777777776654433334433444   3344445566666666666655

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

Probab=99.61  E-value=3.9e-10  Score=113.02  Aligned_cols=458  Identities=12%  Similarity=0.052  Sum_probs=258.7

Q ss_pred             HHHHHHHHHCCCCCCCcchHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHHhcCChHHHHHHhccCCC
Q 006388           26 VKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGSPLVDMYAKLGLIYDAKRGFDELPE  105 (647)
Q Consensus        26 ~~~~~~m~~~g~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  105 (647)
                      .+++++.++.-  |.+...|-    +.....+.+.|+.++.+.++.= +.+..    |..+|++..-++.|.++++...+
T Consensus       366 ~RVlRKALe~i--P~sv~LWK----aAVelE~~~darilL~rAvecc-p~s~d----LwlAlarLetYenAkkvLNkaRe  434 (913)
T KOG0495|consen  366 KRVLRKALEHI--PRSVRLWK----AAVELEEPEDARILLERAVECC-PQSMD----LWLALARLETYENAKKVLNKARE  434 (913)
T ss_pred             HHHHHHHHHhC--CchHHHHH----HHHhccChHHHHHHHHHHHHhc-cchHH----HHHHHHHHHHHHHHHHHHHHHHh
Confidence            34555555542  33333332    3334444555666666666542 22323    33344455556666666665543


Q ss_pred             ---CCchHHHHHHHHHHhcCChHHHHHHhhcCCC--------CCeehHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCC-
Q 006388          106 ---KNIVMYNTMITGLLRRGLVEESRRLFRGMKD--------KDSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMD-  173 (647)
Q Consensus       106 ---~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd-  173 (647)
                         .+...|.+-...--..|..+...++.++-..        -+...|-.=...+-..|..-.+..+......-|+.-. 
T Consensus       435 ~iptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e~agsv~TcQAIi~avigigvEeed  514 (913)
T KOG0495|consen  435 IIPTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEACEDAGSVITCQAIIRAVIGIGVEEED  514 (913)
T ss_pred             hCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHHhhcCChhhHHHHHHHHHhhccccch
Confidence               3555666555555566666666666554321        1333444444455555555555555555555554321 


Q ss_pred             -hhhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CChhHHHHHHHH
Q 006388          174 -QFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAW---KNVVSWTAMLVG  249 (647)
Q Consensus       174 -~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~  249 (647)
                       ..|+..-...|.+.+.++.++.+|...++- ++.+..+|...+..--..|..+.-..+|++...   +..+.|-....-
T Consensus       515 ~~~tw~~da~~~~k~~~~~carAVya~alqv-fp~k~slWlra~~~ek~hgt~Esl~Allqkav~~~pkae~lwlM~ake  593 (913)
T KOG0495|consen  515 RKSTWLDDAQSCEKRPAIECARAVYAHALQV-FPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQCPKAEILWLMYAKE  593 (913)
T ss_pred             hHhHHhhhHHHHHhcchHHHHHHHHHHHHhh-ccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhCCcchhHHHHHHHH
Confidence             235666666677777777777777666654 244555666666555556666666666665542   244556666666


Q ss_pred             HHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHH
Q 006388          250 YGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDS  329 (647)
Q Consensus       250 ~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  329 (647)
                      +-..|+...|..++.+..+.. +-+...+...+..-.....++.|+.++......  .++..+|.--+...--.++.++|
T Consensus       594 ~w~agdv~~ar~il~~af~~~-pnseeiwlaavKle~en~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld~~eeA  670 (913)
T KOG0495|consen  594 KWKAGDVPAARVILDQAFEAN-PNSEEIWLAAVKLEFENDELERARDLLAKARSI--SGTERVWMKSANLERYLDNVEEA  670 (913)
T ss_pred             HHhcCCcHHHHHHHHHHHHhC-CCcHHHHHHHHHHhhccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHHHH
Confidence            666677777777776666553 113445555566666666677777777666553  35555665555555556667777


Q ss_pred             HHHHhhcCCC--C-hhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhcCCcHHHHHHHHHHHHHh
Q 006388          330 HRLFNEMNVR--D-EVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEV-TLIGVLSACSRAGLVEKGRHYFEIMVKE  405 (647)
Q Consensus       330 ~~~~~~~~~~--d-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~  405 (647)
                      .+++++..+.  + ...|-.+.+.+-+.++.+.|.+.|..-.+  .-|+.. .|..+...=.+.|.+-.|+.+++.... 
T Consensus       671 ~rllEe~lk~fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k--~cP~~ipLWllLakleEk~~~~~rAR~ildrarl-  747 (913)
T KOG0495|consen  671 LRLLEEALKSFPDFHKLWLMLGQIEEQMENIEMAREAYLQGTK--KCPNSIPLWLLLAKLEEKDGQLVRARSILDRARL-  747 (913)
T ss_pred             HHHHHHHHHhCCchHHHHHHHhHHHHHHHHHHHHHHHHHhccc--cCCCCchHHHHHHHHHHHhcchhhHHHHHHHHHh-
Confidence            7776665522  2 33566666666666666666666655443  245444 444444444556666777777766643 


Q ss_pred             cCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC--CCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHH
Q 006388          406 YGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM--PFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVL  483 (647)
Q Consensus       406 ~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~  483 (647)
                       ..+.+...|-..|.+-.|.|..+.|..++.++  .++.+...|..-|....+.++-..+..++++    -..|+.....
T Consensus       748 -kNPk~~~lwle~Ir~ElR~gn~~~a~~lmakALQecp~sg~LWaEaI~le~~~~rkTks~DALkk----ce~dphVlla  822 (913)
T KOG0495|consen  748 -KNPKNALLWLESIRMELRAGNKEQAELLMAKALQECPSSGLLWAEAIWLEPRPQRKTKSIDALKK----CEHDPHVLLA  822 (913)
T ss_pred             -cCCCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccchhHHHHHHhccCcccchHHHHHHHh----ccCCchhHHH
Confidence             33445566666677777777777776666555  2333455666666555555543333333332    2234556666


Q ss_pred             HHHhhhhCCChhHHHHHHHHHHh
Q 006388          484 LSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       484 l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      .+..+....+++.|++.|.+..+
T Consensus       823 ia~lfw~e~k~~kar~Wf~Ravk  845 (913)
T KOG0495|consen  823 IAKLFWSEKKIEKAREWFERAVK  845 (913)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHc
Confidence            66666677777777777766655

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

Probab=99.58  E-value=1e-11  Score=120.16  Aligned_cols=186  Identities=19%  Similarity=0.227  Sum_probs=134.8

Q ss_pred             HHHHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhcCCc
Q 006388          316 LVTFYGKCGNIEDSHRLFNEMN---VRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEV-TLIGVLSACSRAGL  391 (647)
Q Consensus       316 li~~~~~~g~~~~A~~~~~~~~---~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~  391 (647)
                      +..+|....+.++-.+.|+...   ..|+.+|..-...+.-.+++++|..=|++.+.  +.|+.. .|..+--+.-+.+.
T Consensus       366 ~a~~y~d~~~~~~~~~~F~~A~~ldp~n~dvYyHRgQm~flL~q~e~A~aDF~Kai~--L~pe~~~~~iQl~~a~Yr~~k  443 (606)
T KOG0547|consen  366 RAAAYADENQSEKMWKDFNKAEDLDPENPDVYYHRGQMRFLLQQYEEAIADFQKAIS--LDPENAYAYIQLCCALYRQHK  443 (606)
T ss_pred             HHHHHhhhhccHHHHHHHHHHHhcCCCCCchhHhHHHHHHHHHHHHHHHHHHHHHhh--cChhhhHHHHHHHHHHHHHHH
Confidence            3344555555555555555443   22455555555556666777888888887776  355543 66666666677888


Q ss_pred             HHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC---------hhhHHHHHHHHHhcCChh
Q 006388          392 VEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPPD---------AIGWATLLSSCRIHGNVE  461 (647)
Q Consensus       392 ~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~---------~~~~~~ll~~~~~~~~~~  461 (647)
                      ++++...|++.+++  ++-.++.|+.....+...++++.|.+.|+.. .++|+         +.+-.+++-.-- .+++.
T Consensus       444 ~~~~m~~Fee~kkk--FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~~~v~~~plV~Ka~l~~qw-k~d~~  520 (606)
T KOG0547|consen  444 IAESMKTFEEAKKK--FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPREHLIIVNAAPLVHKALLVLQW-KEDIN  520 (606)
T ss_pred             HHHHHHHHHHHHHh--CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccccccccccchhhhhhhHhhhch-hhhHH
Confidence            89999999988874  4556688888899999999999999999876 33443         222223332222 38999


Q ss_pred             HHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHh
Q 006388          462 IGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       462 ~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      .|+.+++++++++|....+|..|+.+-.+.|+.++|.++|++-..
T Consensus       521 ~a~~Ll~KA~e~Dpkce~A~~tlaq~~lQ~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  521 QAENLLRKAIELDPKCEQAYETLAQFELQRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             HHHHHHHHHHccCchHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999997643

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

Probab=99.56  E-value=1.3e-14  Score=142.11  Aligned_cols=253  Identities=18%  Similarity=0.195  Sum_probs=111.0

Q ss_pred             HHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHH-HHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCH
Q 006388          248 VGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVI-SSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNI  326 (647)
Q Consensus       248 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll-~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  326 (647)
                      ..+.+.|++++|++++.+......+|+...|-.++ ..+-..++.+.|.+.++.+...+. .++..+..++.. ...+++
T Consensus        16 ~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~-~~~~~~~~l~~l-~~~~~~   93 (280)
T PF13429_consen   16 RLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDK-ANPQDYERLIQL-LQDGDP   93 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-cccccccccccc-cccccc
Confidence            33444455555555553332221123333333222 223334555555555555554432 234445555555 567777


Q ss_pred             HHHHHHHhhcC--CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHH
Q 006388          327 EDSHRLFNEMN--VRDEVSWTALVSGYAKFGKANETIDLFEKMLSHG-LKPDEVTLIGVLSACSRAGLVEKGRHYFEIMV  403 (647)
Q Consensus       327 ~~A~~~~~~~~--~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~  403 (647)
                      ++|.+++...-  .++...+..++..+.+.++++++.+++++..... ..++...|..+...+.+.|+.++|.+.++...
T Consensus        94 ~~A~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al  173 (280)
T PF13429_consen   94 EEALKLAEKAYERDGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKAL  173 (280)
T ss_dssp             ------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHH
T ss_pred             cccccccccccccccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            77777776653  3466677788888889999999999999877543 34566677788888899999999999999988


Q ss_pred             HhcCCCc-ChHHHHHHHHHHHHcCCHHHHHHHHHhCC--CCCChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchh
Q 006388          404 KEYGIRP-IHDHYTCMIDILSRAGRLEEAKSFINKMP--FPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPAS  480 (647)
Q Consensus       404 ~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~  480 (647)
                      +.   .| +......++..+...|+.+++.++++...  .+.|+..|..+..++...|+.++|...++++.+.+|+|+..
T Consensus       174 ~~---~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p~d~~~  250 (280)
T PF13429_consen  174 EL---DPDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNPDDPLW  250 (280)
T ss_dssp             HH----TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHSTT-HHH
T ss_pred             Hc---CCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHHhcccccccccccccccccccccccccc
Confidence            64   45 46778889999999999999888887661  23567788999999999999999999999999999999999


Q ss_pred             HHHHHHhhhhCCChhHHHHHHHHHH
Q 006388          481 YVLLSSIYASKGKWDHVSQLRRTMR  505 (647)
Q Consensus       481 ~~~l~~~~~~~g~~~~a~~~~~~m~  505 (647)
                      ...++.++...|+.++|.+++++..
T Consensus       251 ~~~~a~~l~~~g~~~~A~~~~~~~~  275 (280)
T PF13429_consen  251 LLAYADALEQAGRKDEALRLRRQAL  275 (280)
T ss_dssp             HHHHHHHHT----------------
T ss_pred             ccccccccccccccccccccccccc
Confidence            9999999999999999999988764

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

Probab=99.56  E-value=1.6e-11  Score=127.62  Aligned_cols=326  Identities=16%  Similarity=0.139  Sum_probs=182.9

Q ss_pred             CChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhc---CCCCChhHHHHHHHHHHhcCChhHHHHHHH
Q 006388          188 LALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRT---MAWKNVVSWTAMLVGYGQNGCSEEAVKIFC  264 (647)
Q Consensus       188 ~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~---~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  264 (647)
                      |++++|..++.++++.. +.+...|.+|...|-..|+.+++...+--   +...|..-|-.+..-..+.|++++|.-.|.
T Consensus       153 g~~eeA~~i~~EvIkqd-p~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~d~e~W~~ladls~~~~~i~qA~~cy~  231 (895)
T KOG2076|consen  153 GDLEEAEEILMEVIKQD-PRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPKDYELWKRLADLSEQLGNINQARYCYS  231 (895)
T ss_pred             CCHHHHHHHHHHHHHhC-ccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcccHHHHHHHHH
Confidence            44444444444444443 23333444444444444444444433321   122233444444444444444444444444


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHH----HHHHHHHHhcCCHHHHHHHHhhcCC--
Q 006388          265 NMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVS----NALVTFYGKCGNIEDSHRLFNEMNV--  338 (647)
Q Consensus       265 ~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~----~~li~~~~~~g~~~~A~~~~~~~~~--  338 (647)
                      +..+.. +++...+---...|-+.|+...|..-+.++....-+.|..-.    ...+..|...++-+.|.+.++....  
T Consensus       232 rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s~~  310 (895)
T KOG2076|consen  232 RAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGALSKE  310 (895)
T ss_pred             HHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhc
Confidence            444431 222222223333444444444444444444443221111111    1123334444444555555554432  


Q ss_pred             C---ChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCC---------------------------CCCHHHHHHHHHHHhc
Q 006388          339 R---DEVSWTALVSGYAKFGKANETIDLFEKMLSHGL---------------------------KPDEVTLIGVLSACSR  388 (647)
Q Consensus       339 ~---d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~---------------------------~p~~~t~~~ll~a~~~  388 (647)
                      .   +...++.++..|.+...++.|......+.....                           .++... ..+.-++.+
T Consensus       311 ~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v-~rl~icL~~  389 (895)
T KOG2076|consen  311 KDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRV-IRLMICLVH  389 (895)
T ss_pred             cccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchh-HhHhhhhhc
Confidence            1   233455666666666666666666655554212                           222222 112223333


Q ss_pred             CCcHHHHHHHHHHHHHhcC--CCcChHHHHHHHHHHHHcCCHHHHHHHHHhCC---CCCChhhHHHHHHHHHhcCChhHH
Q 006388          389 AGLVEKGRHYFEIMVKEYG--IRPIHDHYTCMIDILSRAGRLEEAKSFINKMP---FPPDAIGWATLLSSCRIHGNVEIG  463 (647)
Q Consensus       389 ~g~~~~a~~~~~~~~~~~~--~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~p~~~~~~~ll~~~~~~~~~~~a  463 (647)
                      ....+....+....... .  ..-+...|.-+.++|...|++.+|+.++..+-   ...+..+|--+...|...|.+++|
T Consensus       390 L~~~e~~e~ll~~l~~~-n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A  468 (895)
T KOG2076|consen  390 LKERELLEALLHFLVED-NVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEEA  468 (895)
T ss_pred             ccccchHHHHHHHHHHh-cCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHHH
Confidence            33333333333333332 4  33456889999999999999999999999882   223477999999999999999999


Q ss_pred             HHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHhCCCccCCCcce
Q 006388          464 KWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREKGVRKDPGCSW  517 (647)
Q Consensus       464 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~s~  517 (647)
                      .+.+++++...|++..+-..|+.+|...|+.++|.+++..+..-+-+..+++.|
T Consensus       469 ~e~y~kvl~~~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~  522 (895)
T KOG2076|consen  469 IEFYEKVLILAPDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAW  522 (895)
T ss_pred             HHHHHHHHhcCCCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccc
Confidence            999999999999999999999999999999999999999887433333355554

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

Probab=99.52  E-value=1.9e-09  Score=104.21  Aligned_cols=480  Identities=13%  Similarity=0.099  Sum_probs=333.8

Q ss_pred             HcCCChhHHHHHHHHHHHCCCCCCCcchHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHHhcCChHHH
Q 006388           17 ASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGSPLVDMYAKLGLIYDA   96 (647)
Q Consensus        17 ~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A   96 (647)
                      ...+++..|..+|++.+.-.  ..+...|..-+..-.+...+..|+.+++..+..-+..|. .+-..+-+--..|++..|
T Consensus        84 esq~e~~RARSv~ERALdvd--~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVdq-lWyKY~ymEE~LgNi~ga  160 (677)
T KOG1915|consen   84 ESQKEIQRARSVFERALDVD--YRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVDQ-LWYKYIYMEEMLGNIAGA  160 (677)
T ss_pred             HhHHHHHHHHHHHHHHHhcc--cccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHHH-HHHHHHHHHHHhcccHHH
Confidence            34567788889999888765  456667777777777888899999999998876533343 344455566677999999


Q ss_pred             HHHhccCC--CCCchHHHHHHHHHHhcCChHHHHHHhhcCC--CCCeehHHHHHHHHHhCCChhHHHHHHHHHHHCCCCC
Q 006388           97 KRGFDELP--EKNIVMYNTMITGLLRRGLVEESRRLFRGMK--DKDSISWTTMITGLMQNGLEREAIDLFREMRLEGLAM  172 (647)
Q Consensus        97 ~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  172 (647)
                      +++|++-.  +||.-.|++.|.--.+...++.|..+++...  .|++.+|--..+.=.++|+...|..+|....+.  -.
T Consensus       161 RqiferW~~w~P~eqaW~sfI~fElRykeieraR~IYerfV~~HP~v~~wikyarFE~k~g~~~~aR~VyerAie~--~~  238 (677)
T KOG1915|consen  161 RQIFERWMEWEPDEQAWLSFIKFELRYKEIERARSIYERFVLVHPKVSNWIKYARFEEKHGNVALARSVYERAIEF--LG  238 (677)
T ss_pred             HHHHHHHHcCCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHheecccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH--hh
Confidence            99999876  5999999999999999999999999998754  588888888888888899999999999887653  12


Q ss_pred             ChhhHHHHHHHH----hcCCChHHHHHHHHHHHHcCCCC-chhHHHHHHHHHHhcCCHHHHHHH--------HhcCCCC-
Q 006388          173 DQFTFGSVLTAC----GGLLALEEGKQIHAFIIRNDHKD-NVFVGSALVDMYCKCKSIKYAESV--------FRTMAWK-  238 (647)
Q Consensus       173 d~~t~~~ll~~~----~~~~~~~~a~~~~~~~~~~g~~~-~~~~~~~li~~y~~~g~~~~A~~~--------~~~~~~~-  238 (647)
                      |...-..++.++    .+...++.|.-++...+..-... ....|..+...--+.|+.....+.        ++.+... 
T Consensus       239 ~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~~n  318 (677)
T KOG1915|consen  239 DDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEVSKN  318 (677)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHHHhC
Confidence            333333344444    35567888888888888763221 134555555555555654433332        2222233 


Q ss_pred             --ChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCH-------HHHHHHHHHH---hccCChHHHHHHHHHHHHhCC
Q 006388          239 --NVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDD-------FTLGSVISSC---ANLASLEEGTQFHGRSLVTGL  306 (647)
Q Consensus       239 --~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-------~t~~~ll~a~---~~~~~~~~a~~~~~~~~~~~~  306 (647)
                        |-.+|--.+..--..|+.+...++|++.... ++|-.       ..|.-+=-+|   ....+.+.++++++..++. +
T Consensus       319 p~nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~l-I  396 (677)
T KOG1915|consen  319 PYNYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACLDL-I  396 (677)
T ss_pred             CCCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh-c
Confidence              4567777777778889999999999999865 56632       1222221222   3467889999999988883 3


Q ss_pred             CcchhHHHHHHHHH----HhcCCHHHHHHHHhhcC--CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHH
Q 006388          307 ISFITVSNALVTFY----GKCGNIEDSHRLFNEMN--VRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLI  380 (647)
Q Consensus       307 ~~~~~~~~~li~~~----~~~g~~~~A~~~~~~~~--~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~  380 (647)
                      +....++.-+=-+|    .++.++..|.+++....  .|-..++..-|..-.+.++++....++++.++.+ +-|..+|.
T Consensus       397 PHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~-Pe~c~~W~  475 (677)
T KOG1915|consen  397 PHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGKCPKDKLFKGYIELELQLREFDRCRKLYEKFLEFS-PENCYAWS  475 (677)
T ss_pred             CcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-hHhhHHHH
Confidence            44455555444444    46788999999998876  4566677777888888999999999999999853 33556787


Q ss_pred             HHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCChhhHHHHHHHHH----
Q 006388          381 GVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPPDAIGWATLLSSCR----  455 (647)
Q Consensus       381 ~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~ll~~~~----  455 (647)
                      .....-...|+.+.|..+|+-.+..-.+..-...|.+.|+.=...|.++.|..++++. ...+...+|-++..--.    
T Consensus       476 kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~rt~h~kvWisFA~fe~s~~~  555 (677)
T KOG1915|consen  476 KYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDRTQHVKVWISFAKFEASASE  555 (677)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHhcccchHHHhHHHHhccccc
Confidence            7777777889999999999988875333334466778888888899999999999887 33445557877765433    


Q ss_pred             -hcC-----------ChhHHHHHHHHHhcc----CCCC--chhHHHHHHhhhhCCChhHHHHHHHHH
Q 006388          456 -IHG-----------NVEIGKWAAESLLEL----DPYN--PASYVLLSSIYASKGKWDHVSQLRRTM  504 (647)
Q Consensus       456 -~~~-----------~~~~a~~~~~~~~~~----~p~~--~~~~~~l~~~~~~~g~~~~a~~~~~~m  504 (647)
                       +.+           +...|..+|+++...    +|..  ...+..+.+.=...|...+...+-.+|
T Consensus       556 ~~~~~~~~~~e~~~~~~~~AR~iferAn~~~k~~~~KeeR~~LLEaw~~~E~~~G~~~d~~~V~s~m  622 (677)
T KOG1915|consen  556 GQEDEDLAELEITDENIKRARKIFERANTYLKESTPKEERLMLLEAWKNMEETFGTEGDVERVQSKM  622 (677)
T ss_pred             cccccchhhhhcchhHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCchhhHHHHHHhc
Confidence             233           566788888877643    3321  122333334444556666665555555

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

Probab=99.52  E-value=5.3e-11  Score=123.07  Aligned_cols=475  Identities=14%  Similarity=0.070  Sum_probs=267.6

Q ss_pred             CCCcccHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCCcchHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCchhhHHH
Q 006388            3 FHDGVSWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGSP   82 (647)
Q Consensus         3 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~   82 (647)
                      .||-+||.++|.-|+..|+.+.|- +|.-|.-... +.+...|+.++.+..+.++.+.++           .|-+.+|+.
T Consensus        22 ~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksL-pv~e~vf~~lv~sh~~And~Enpk-----------ep~aDtyt~   88 (1088)
T KOG4318|consen   22 LPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSL-PVREGVFRGLVASHKEANDAENPK-----------EPLADTYTN   88 (1088)
T ss_pred             CCchhhHHHHHHHHcccCCCcccc-chhhhhcccc-cccchhHHHHHhcccccccccCCC-----------CCchhHHHH
Confidence            366688888888888888888877 8888877776 667788888888888888776665           577788999


Q ss_pred             HHHHHHhcCChHH---HHHHhccCCC---------------------C-CchHHHHHHHHHHhcCChHHHHHHhhcCCC-
Q 006388           83 LVDMYAKLGLIYD---AKRGFDELPE---------------------K-NIVMYNTMITGLLRRGLVEESRRLFRGMKD-  136 (647)
Q Consensus        83 li~~~~~~g~~~~---A~~~~~~~~~---------------------~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-  136 (647)
                      |...|.+.|++..   .++.++.+.+                     | -...-.+.+.-....|.++.+.+++..++. 
T Consensus        89 Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllkll~~~Pvs  168 (1088)
T KOG4318|consen   89 LLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKLLAKVPVS  168 (1088)
T ss_pred             HHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHHHHhhCCcc
Confidence            9999999988654   3332222211                     0 000111233334445555555555544431 


Q ss_pred             ---------------------------------CCeehHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHH
Q 006388          137 ---------------------------------KDSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSVLTA  183 (647)
Q Consensus       137 ---------------------------------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~  183 (647)
                                                       +++.++.+++..-.-+|+.+.|..++.+|.+.|++.+.+-|-.++-+
T Consensus       169 a~~~p~~vfLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwpLl~g  248 (1088)
T KOG4318|consen  169 AWNAPFQVFLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWPLLLG  248 (1088)
T ss_pred             cccchHHHHHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchhhhhc
Confidence                                             35566777777777777777777777777777777777766666654


Q ss_pred             HhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChh-----H
Q 006388          184 CGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWKNVVSWTAMLVGYGQNGCSE-----E  258 (647)
Q Consensus       184 ~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~-----~  258 (647)
                         .++......+..-|...|+.|+..|+.-.+-...+.|....+....+.-..-....+..+..+...+.+.+     -
T Consensus       249 ---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~t~~~~e~sq~~hg~tAavrsaa~rg~~a~k~l~~nl~~~  325 (1088)
T KOG4318|consen  249 ---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQTKYGEEGSQLAHGFTAAVRSAACRGLLANKRLRQNLRKS  325 (1088)
T ss_pred             ---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchhhhhcccccchhhhhhHHHHHHHhcccHhHHHHHHHHHHH
Confidence               66667777777777777777777777766666655544322221111100001112222222211111111     1


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCC---cchhHHHHHHHHHHhcCCHHHHHHHHhh
Q 006388          259 AVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLI---SFITVSNALVTFYGKCGNIEDSHRLFNE  335 (647)
Q Consensus       259 A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~  335 (647)
                      ....+.+..-.|+......|...... ...|.-+..+++-..+..--..   .++..+..+            +.+.|.+
T Consensus       326 v~~s~k~~fLlg~d~~~aiws~c~~l-~hQgk~e~veqlvg~l~npt~r~s~~~V~a~~~~------------lrqyFrr  392 (1088)
T KOG4318|consen  326 VIGSTKKLFLLGTDILEAIWSMCEKL-RHQGKGEEVEQLVGQLLNPTLRDSGQNVDAFGAL------------LRQYFRR  392 (1088)
T ss_pred             HHHHhhHHHHhccccchHHHHHHHHH-HHcCCCchHHHHHhhhcCCccccCcchHHHHHHH------------HHHHHHH
Confidence            12222222223433333333322222 2255555666655555322111   112222222            3334444


Q ss_pred             cCCCChh-hHHHHHHHHHH---cCChHHHHHHHHHH------------HH----CCCCC-------CHHHHHHHHHHHhc
Q 006388          336 MNVRDEV-SWTALVSGYAK---FGKANETIDLFEKM------------LS----HGLKP-------DEVTLIGVLSACSR  388 (647)
Q Consensus       336 ~~~~d~~-~~~~li~~~~~---~g~~~~A~~~~~~m------------~~----~g~~p-------~~~t~~~ll~a~~~  388 (647)
                      +..+... .++ ...+...   ..+..+..++....            ..    .-..|       =...-+.++..|.+
T Consensus       393 ~e~~~~~~i~~-~~qgls~~l~se~tp~vsell~~lrkns~lr~lv~Lss~Eler~he~~~~~~h~irdi~~ql~l~l~s  471 (1088)
T KOG4318|consen  393 IERHICSRIYY-AGQGLSLNLNSEDTPRVSELLENLRKNSFLRQLVGLSSTELERSHEPWPLIAHLIRDIANQLHLTLNS  471 (1088)
T ss_pred             HHhhHHHHHHH-HHHHHHhhhchhhhHHHHHHHHHhCcchHHHHHhhhhHHHHhcccccchhhhhHHHHHHHHHHHHHHH
Confidence            4333211 111 1111111   11111222221111            00    00011       01122344555555


Q ss_pred             CCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhCC-----CCCChhhHHHHHHHHHhcCChhHH
Q 006388          389 AGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKMP-----FPPDAIGWATLLSSCRIHGNVEIG  463 (647)
Q Consensus       389 ~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~-----~~p~~~~~~~ll~~~~~~~~~~~a  463 (647)
                      .-+..+++..-+.... +-+   ...|..||+.+......++|..+.++..     +.-|..-+..+.+...+++....+
T Consensus       472 e~n~lK~l~~~ekye~-~lf---~g~ya~Li~l~~~hdkle~Al~~~~e~d~~d~s~~Ld~~~m~~l~dLL~r~~~l~dl  547 (1088)
T KOG4318|consen  472 EYNKLKILCDEEKYED-LLF---AGLYALLIKLMDLHDKLEYALSFVDEIDTRDESIHLDLPLMTSLQDLLQRLAILYDL  547 (1088)
T ss_pred             HHHHHHHHHHHHHHHH-HHh---hhHHHHHhhhHHHHHHHHHHHhchhhhcccchhhhcccHhHHHHHHHHHHhHHHHHH
Confidence            5555555544333322 122   1578999999999999999999998883     233455677888888899988888


Q ss_pred             HHHHHHHhcc---CCCCchhHHHHHHhhhhCCChhHHHHHHHHHHhCCCcc
Q 006388          464 KWAAESLLEL---DPYNPASYVLLSSIYASKGKWDHVSQLRRTMREKGVRK  511 (647)
Q Consensus       464 ~~~~~~~~~~---~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~~  511 (647)
                      ..+++...+.   .|.-..++..+.+.-+..|+.+...++++-+...|+.-
T Consensus       548 ~tiL~e~ks~a~n~~~~a~~~f~~lns~a~agqqe~Lkkl~d~lvslgl~e  598 (1088)
T KOG4318|consen  548 STILYEDKSSAENEPLVAIILFPLLNSGAPAGQQEKLKKLADILVSLGLSE  598 (1088)
T ss_pred             HHHHhhhhHHhhCCchHHHHHHHHHhhhhhccCHHHHHHHHHHHHHhhhhh
Confidence            8888877653   34445667788888899999999999999999999865

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

Probab=99.51  E-value=1.3e-09  Score=105.27  Aligned_cols=456  Identities=9%  Similarity=0.071  Sum_probs=330.6

Q ss_pred             CcchHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHHhcCChHHHHHHhccCCC--CCc-hHHHHHHHH
Q 006388           41 SRITFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGSPLVDMYAKLGLIYDAKRGFDELPE--KNI-VMYNTMITG  117 (647)
Q Consensus        41 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~-~~~~~li~~  117 (647)
                      +...|..-.+--...+++..|+.+++.++... ..+...+-..+.+-.++.++..|+.++++...  |-+ ..|--.+-.
T Consensus        72 ~~~~WikYaqwEesq~e~~RARSv~ERALdvd-~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVdqlWyKY~ym  150 (677)
T KOG1915|consen   72 NMQVWIKYAQWEESQKEIQRARSVFERALDVD-YRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVDQLWYKYIYM  150 (677)
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHhcc-cccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHHHHHHHHHHH
Confidence            33444444445556778889999999998876 57778888899999999999999999998763  322 356666777


Q ss_pred             HHhcCChHHHHHHhhcCC--CCCeehHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHhcCCChHHHHH
Q 006388          118 LLRRGLVEESRRLFRGMK--DKDSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSVLTACGGLLALEEGKQ  195 (647)
Q Consensus       118 ~~~~g~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~  195 (647)
                      --..|++..|.++|+.-.  +|+..+|++.|..=.+....+.|..+|++.+-  +.|+..+|..-.+.=-+.|+...+.+
T Consensus       151 EE~LgNi~gaRqiferW~~w~P~eqaW~sfI~fElRykeieraR~IYerfV~--~HP~v~~wikyarFE~k~g~~~~aR~  228 (677)
T KOG1915|consen  151 EEMLGNIAGARQIFERWMEWEPDEQAWLSFIKFELRYKEIERARSIYERFVL--VHPKVSNWIKYARFEEKHGNVALARS  228 (677)
T ss_pred             HHHhcccHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhe--ecccHHHHHHHHHHHHhcCcHHHHHH
Confidence            778899999999998754  58999999999999999999999999999876  45999999988888889999999999


Q ss_pred             HHHHHHHc-CC-CCchhHHHHHHHHHHhcCCHHHHHHHHhcC----CCCC-hhHHHHHHHHHHhcCCh---hHHHHH---
Q 006388          196 IHAFIIRN-DH-KDNVFVGSALVDMYCKCKSIKYAESVFRTM----AWKN-VVSWTAMLVGYGQNGCS---EEAVKI---  262 (647)
Q Consensus       196 ~~~~~~~~-g~-~~~~~~~~~li~~y~~~g~~~~A~~~~~~~----~~~~-~~~~~~li~~~~~~g~~---~~A~~~---  262 (647)
                      ++..+++. |- ..+..++++....-.++..++.|.-+|.-.    +... ...|.....-=-+-|+-   ++++--   
T Consensus       229 VyerAie~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk  308 (677)
T KOG1915|consen  229 VYERAIEFLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRK  308 (677)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhh
Confidence            99988764 21 123345555555566677788888887543    3322 23333333333334443   333322   


Q ss_pred             --HHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcch--hHHHHHHHH--------HHhcCCHHHHH
Q 006388          263 --FCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFI--TVSNALVTF--------YGKCGNIEDSH  330 (647)
Q Consensus       263 --~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~li~~--------~~~~g~~~~A~  330 (647)
                        |+.+.+.+ +-|-.++--.+..-...|+.+...++++.++..- +|-.  ..|...|-.        -....+.+.+.
T Consensus       309 ~qYE~~v~~n-p~nYDsWfdylrL~e~~g~~~~Ire~yErAIanv-pp~~ekr~W~RYIYLWinYalyeEle~ed~ertr  386 (677)
T KOG1915|consen  309 FQYEKEVSKN-PYNYDSWFDYLRLEESVGDKDRIRETYERAIANV-PPASEKRYWRRYIYLWINYALYEELEAEDVERTR  386 (677)
T ss_pred             hHHHHHHHhC-CCCchHHHHHHHHHHhcCCHHHHHHHHHHHHccC-CchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHH
Confidence              33444432 4466777777888888899999999999988653 4421  112222211        13467888888


Q ss_pred             HHHhhcC---CCChhh----HHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHH
Q 006388          331 RLFNEMN---VRDEVS----WTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMV  403 (647)
Q Consensus       331 ~~~~~~~---~~d~~~----~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~  403 (647)
                      ++|+...   .....|    |-....--.++.+...|.+++...+  |.-|-..+|...|..-.+.+.+|....+++..+
T Consensus       387 ~vyq~~l~lIPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AI--G~cPK~KlFk~YIelElqL~efDRcRkLYEkfl  464 (677)
T KOG1915|consen  387 QVYQACLDLIPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAI--GKCPKDKLFKGYIELELQLREFDRCRKLYEKFL  464 (677)
T ss_pred             HHHHHHHhhcCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHh--ccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            8887655   223344    4333444456788999999988765  578999999999999999999999999999987


Q ss_pred             HhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCC----hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCch
Q 006388          404 KEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKMPFPPD----AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPA  479 (647)
Q Consensus       404 ~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~  479 (647)
                      .  --+-+..+|......=...|+.+.|..+|+-+-.+|.    ...|.+.|.--...|.++.|..+++++++..+.. .
T Consensus       465 e--~~Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~rt~h~-k  541 (677)
T KOG1915|consen  465 E--FSPENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDRTQHV-K  541 (677)
T ss_pred             h--cChHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHhcccc-h
Confidence            4  2233567888888888889999999999988743442    5678888888889999999999999999988744 3


Q ss_pred             hHHHHHHhhh-----hCC-----------ChhHHHHHHHHHHh
Q 006388          480 SYVLLSSIYA-----SKG-----------KWDHVSQLRRTMRE  506 (647)
Q Consensus       480 ~~~~l~~~~~-----~~g-----------~~~~a~~~~~~m~~  506 (647)
                      ++.+.+.--.     +.|           ....|.++|++...
T Consensus       542 vWisFA~fe~s~~~~~~~~~~~~~e~~~~~~~~AR~iferAn~  584 (677)
T KOG1915|consen  542 VWISFAKFEASASEGQEDEDLAELEITDENIKRARKIFERANT  584 (677)
T ss_pred             HHHhHHHHhccccccccccchhhhhcchhHHHHHHHHHHHHHH
Confidence            6666665443     444           56678888877643

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.50  E-value=3.6e-11  Score=123.27  Aligned_cols=287  Identities=12%  Similarity=0.015  Sum_probs=184.4

Q ss_pred             CCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHH
Q 006388          152 NGLEREAIDLFREMRLEGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESV  231 (647)
Q Consensus       152 ~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~  231 (647)
                      .|++++|.+.+....+..-.| ...|.....+....|+.+.+.+.+..+.+....+...........+...|+.+.|...
T Consensus        97 eGd~~~A~k~l~~~~~~~~~p-~l~~llaA~aA~~~g~~~~A~~~l~~A~~~~~~~~~~~~l~~a~l~l~~g~~~~Al~~  175 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHAEQP-VVNYLLAAEAAQQRGDEARANQHLERAAELADNDQLPVEITRVRIQLARNENHAARHG  175 (398)
T ss_pred             CCCHHHHHHHHHHHHhcccch-HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHCCCHHHHHHH
Confidence            477777776666654432111 1223333344456777777777777776543222222222345677778888888888


Q ss_pred             HhcCCC---CChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCc
Q 006388          232 FRTMAW---KNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLIS  308 (647)
Q Consensus       232 ~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~  308 (647)
                      +++..+   .++.....+...|.+.|++++|.+++..+.+.+..++. .+..+-.                         
T Consensus       176 l~~~~~~~P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~-~~~~l~~-------------------------  229 (398)
T PRK10747        176 VDKLLEVAPRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEE-HRAMLEQ-------------------------  229 (398)
T ss_pred             HHHHHhcCCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHH-HHHHHHH-------------------------
Confidence            777654   25567777788888888888888888888877643222 1110000                         


Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 006388          309 FITVSNALVTFYGKCGNIEDSHRLFNEMN---VRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSA  385 (647)
Q Consensus       309 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a  385 (647)
                        ..+..++.......+.+...++++.++   ..++.....+..++...|+.++|..++++..+.  .||...  .++.+
T Consensus       230 --~a~~~l~~~~~~~~~~~~l~~~w~~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l--~~l~~  303 (398)
T PRK10747        230 --QAWIGLMDQAMADQGSEGLKRWWKNQSRKTRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERL--VLLIP  303 (398)
T ss_pred             --HHHHHHHHHHHHhcCHHHHHHHHHhCCHHHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHH--HHHHh
Confidence              011112222223334455555566554   336667777888888888888888888888773  444421  12333


Q ss_pred             HhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCChhhHHHHHHHHHhcCChhHHH
Q 006388          386 CSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPPDAIGWATLLSSCRIHGNVEIGK  464 (647)
Q Consensus       386 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~ll~~~~~~~~~~~a~  464 (647)
                      ....++.+++.+..+...+.  .+-|...+.++..++.+.|++++|.+.|++. ...|+...+..|...+.+.|+.++|.
T Consensus       304 ~l~~~~~~~al~~~e~~lk~--~P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~~~~~~~La~~~~~~g~~~~A~  381 (398)
T PRK10747        304 RLKTNNPEQLEKVLRQQIKQ--HGDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQRPDAYDYAWLADALDRLHKPEEAA  381 (398)
T ss_pred             hccCCChHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCHHHHH
Confidence            34558888888888888764  3445567778888888888888888888887 56788888888888888888888888


Q ss_pred             HHHHHHhcc
Q 006388          465 WAAESLLEL  473 (647)
Q Consensus       465 ~~~~~~~~~  473 (647)
                      ..+++.+.+
T Consensus       382 ~~~~~~l~~  390 (398)
T PRK10747        382 AMRRDGLML  390 (398)
T ss_pred             HHHHHHHhh
Confidence            888887664

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

Probab=99.50  E-value=3.7e-10  Score=108.96  Aligned_cols=356  Identities=14%  Similarity=0.121  Sum_probs=193.7

Q ss_pred             CCchHHHHHHHHHHhcCChHHHHHHhhcCCCCCeehHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHH--HHHHH
Q 006388          106 KNIVMYNTMITGLLRRGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFG--SVLTA  183 (647)
Q Consensus       106 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~--~ll~~  183 (647)
                      .|...+-.....+.+.|....|++.|......-+..|.+-+....-.-+.+.+.    .... |...|..-+.  .+..+
T Consensus       162 ~D~fllYL~Gvv~k~~~~~s~A~~sfv~~v~~~P~~W~AWleL~~lit~~e~~~----~l~~-~l~~~~h~M~~~F~~~a  236 (559)
T KOG1155|consen  162 KDEFLLYLYGVVLKELGLLSLAIDSFVEVVNRYPWFWSAWLELSELITDIEILS----ILVV-GLPSDMHWMKKFFLKKA  236 (559)
T ss_pred             chhHHHHHHHHHHHhhchHHHHHHHHHHHHhcCCcchHHHHHHHHhhchHHHHH----HHHh-cCcccchHHHHHHHHHH
Confidence            344434344444556666666776666655544444444333222222222221    1111 1111222111  23344


Q ss_pred             HhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCC------ChhHHHHHHHHHHhcCChh
Q 006388          184 CGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWK------NVVSWTAMLVGYGQNGCSE  257 (647)
Q Consensus       184 ~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~------~~~~~~~li~~~~~~g~~~  257 (647)
                      +......+++.+-.......|++.+...-+....++-...+++.|+.+|+++...      |..+|+.++  |+++.+..
T Consensus       237 ~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~L--Yv~~~~sk  314 (559)
T KOG1155|consen  237 YQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVL--YVKNDKSK  314 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHH--HHHhhhHH
Confidence            4455566666666666666666666665555555666666777777777776643      334555444  33332222


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcC
Q 006388          258 EAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMN  337 (647)
Q Consensus       258 ~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~  337 (647)
                        +..+.+-...=-+--+.|...+.+-++-.++.++|..+|++.++.+ +....+|+.+..-|....+...|.+-++...
T Consensus       315 --Ls~LA~~v~~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLN-p~~~~aWTLmGHEyvEmKNt~AAi~sYRrAv  391 (559)
T KOG1155|consen  315 --LSYLAQNVSNIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLN-PKYLSAWTLMGHEYVEMKNTHAAIESYRRAV  391 (559)
T ss_pred             --HHHHHHHHHHhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcC-cchhHHHHHhhHHHHHhcccHHHHHHHHHHH
Confidence              1111111111012233455556666666667777777777776665 4455666666777777777777777776654


Q ss_pred             ---CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChH
Q 006388          338 ---VRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPD-EVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHD  413 (647)
Q Consensus       338 ---~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~  413 (647)
                         ..|-..|-.+.++|.-.+.+.-|+-.|++..+.  +|+ ...|.+|..+|.+.++.++|+..|.....-  -..+..
T Consensus       392 di~p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~--kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~--~dte~~  467 (559)
T KOG1155|consen  392 DINPRDYRAWYGLGQAYEIMKMHFYALYYFQKALEL--KPNDSRLWVALGECYEKLNRLEEAIKCYKRAILL--GDTEGS  467 (559)
T ss_pred             hcCchhHHHHhhhhHHHHHhcchHHHHHHHHHHHhc--CCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhc--cccchH
Confidence               346666777777777777777777777776663  444 346677777777777777777777766542  233446


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHhC-------C-CCCChh-hHHHHHHHHHhcCChhHHHHHHHHHhccCC
Q 006388          414 HYTCMIDILSRAGRLEEAKSFINKM-------P-FPPDAI-GWATLLSSCRIHGNVEIGKWAAESLLELDP  475 (647)
Q Consensus       414 ~~~~li~~~~~~g~~~~A~~~~~~~-------~-~~p~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p  475 (647)
                      .+..|.++|-+.++.++|...|++.       + ..|... .-.-|..-+.+.+++++|.........-++
T Consensus       468 ~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~~~~~~  538 (559)
T KOG1155|consen  468 ALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYATLVLKGET  538 (559)
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHHHHHhcCCc
Confidence            6677777777777777777666543       1 222211 111133344566677776666555554433

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

Probab=99.49  E-value=4.1e-11  Score=114.64  Aligned_cols=424  Identities=13%  Similarity=0.088  Sum_probs=272.4

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHhccCCC----CCchH-HHHHHHHHHhcCChHHHHHHhhcCCCC----C----eehHHH
Q 006388           78 FVGSPLVDMYAKLGLIYDAKRGFDELPE----KNIVM-YNTMITGLLRRGLVEESRRLFRGMKDK----D----SISWTT  144 (647)
Q Consensus        78 ~~~~~li~~~~~~g~~~~A~~~~~~~~~----~~~~~-~~~li~~~~~~g~~~~A~~~~~~~~~~----~----~~~~~~  144 (647)
                      .+...|..-|.......+|...++-+.+    ||... --.+...+.+...+.+|++.++.....    +    +...+.
T Consensus       202 svl~nlaqqy~~ndm~~ealntyeiivknkmf~nag~lkmnigni~~kkr~fskaikfyrmaldqvpsink~~rikil~n  281 (840)
T KOG2003|consen  202 SVLFNLAQQYEANDMTAEALNTYEIIVKNKMFPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQVPSINKDMRIKILNN  281 (840)
T ss_pred             HHHHHHHHHhhhhHHHHHHhhhhhhhhcccccCCCceeeeeecceeeehhhHHHHHHHHHHHHhhccccchhhHHHHHhh
Confidence            3444566667777777778777776654    33221 123445667778888888887654431    1    223444


Q ss_pred             HHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHhcCCChHHHHHHHHHHHHcCCC------------CchhHH
Q 006388          145 MITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHK------------DNVFVG  212 (647)
Q Consensus       145 li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~------------~~~~~~  212 (647)
                      +--.+.+.|+++.|+..|+...+.  .|+-.+-..++-.+...|+-++.++.|..++.....            |+....
T Consensus       282 igvtfiq~gqy~dainsfdh~m~~--~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~~ll  359 (840)
T KOG2003|consen  282 IGVTFIQAGQYDDAINSFDHCMEE--APNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDDNLL  359 (840)
T ss_pred             cCeeEEecccchhhHhhHHHHHHh--CccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcchHHH
Confidence            445677888888888888887764  477666555555556678888888888888764322            222222


Q ss_pred             HHHH-----HHHHhcCC--HHH----HHHHHhcCCCCChh---HHH------------------HHHHHHHhcCChhHHH
Q 006388          213 SALV-----DMYCKCKS--IKY----AESVFRTMAWKNVV---SWT------------------AMLVGYGQNGCSEEAV  260 (647)
Q Consensus       213 ~~li-----~~y~~~g~--~~~----A~~~~~~~~~~~~~---~~~------------------~li~~~~~~g~~~~A~  260 (647)
                      |.-+     .-.-+.+.  .++    |.++..-+..++-.   -|.                  .-..-|.++|+++.|+
T Consensus       360 ~eai~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~d~~~ai  439 (840)
T KOG2003|consen  360 NEAIKNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDLEINKAGELLKNGDIEGAI  439 (840)
T ss_pred             HHHHhhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhccCHHHHH
Confidence            2211     11111111  111    12222222233211   011                  1123578999999999


Q ss_pred             HHHHHHHHCCCCCCHHHHH--HHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCC
Q 006388          261 KIFCNMQRNGIEPDDFTLG--SVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNV  338 (647)
Q Consensus       261 ~~~~~m~~~g~~p~~~t~~--~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  338 (647)
                      +++.-+.+..-+.-...-+  +++.-...-.++..|.++-+..+..+ .-+....+.-.+.-...|++++|.+.+++...
T Consensus       440 eilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d-ryn~~a~~nkgn~~f~ngd~dka~~~ykeal~  518 (840)
T KOG2003|consen  440 EILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNID-RYNAAALTNKGNIAFANGDLDKAAEFYKEALN  518 (840)
T ss_pred             HHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc-ccCHHHhhcCCceeeecCcHHHHHHHHHHHHc
Confidence            9998887654332222222  23333333456777777766665443 22222222223334457999999999999998


Q ss_pred             CChhhHHHHHH---HHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHH
Q 006388          339 RDEVSWTALVS---GYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHY  415 (647)
Q Consensus       339 ~d~~~~~~li~---~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~  415 (647)
                      .|...-.+|..   .+-..|+.++|++.|-++... +..+...+..+.+.|....+..+|++++.....  -++.|+...
T Consensus       519 ndasc~ealfniglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~q~~s--lip~dp~il  595 (840)
T KOG2003|consen  519 NDASCTEALFNIGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLMQANS--LIPNDPAIL  595 (840)
T ss_pred             CchHHHHHHHHhcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhcc--cCCCCHHHH
Confidence            87765555443   467789999999999988753 344666788888889999999999999877753  556678899


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHhC-C-CCCChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCC
Q 006388          416 TCMIDILSRAGRLEEAKSFINKM-P-FPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGK  493 (647)
Q Consensus       416 ~~li~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  493 (647)
                      ..|.++|-+.|+-..|.+..-.- . ++.+..+..-|..-|....-.+.++..++++.-+.|+-..--..++..+.+.|+
T Consensus       596 skl~dlydqegdksqafq~~ydsyryfp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~~kwqlmiasc~rrsgn  675 (840)
T KOG2003|consen  596 SKLADLYDQEGDKSQAFQCHYDSYRYFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQSKWQLMIASCFRRSGN  675 (840)
T ss_pred             HHHHHHhhcccchhhhhhhhhhcccccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccHHHHHHHHHHHHHhccc
Confidence            99999999999999998875443 3 333455555455666666677899999999998999654444555666778999


Q ss_pred             hhHHHHHHHHHHhC
Q 006388          494 WDHVSQLRRTMREK  507 (647)
Q Consensus       494 ~~~a~~~~~~m~~~  507 (647)
                      +..|.++++....+
T Consensus       676 yqka~d~yk~~hrk  689 (840)
T KOG2003|consen  676 YQKAFDLYKDIHRK  689 (840)
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999999987653

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.47  E-value=6.9e-11  Score=121.23  Aligned_cols=275  Identities=11%  Similarity=0.030  Sum_probs=197.0

Q ss_pred             cCCHHHHHHHHhcCCCC--Ch-hHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHH--HHHHHHhccCChHHHHH
Q 006388          222 CKSIKYAESVFRTMAWK--NV-VSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLG--SVISSCANLASLEEGTQ  296 (647)
Q Consensus       222 ~g~~~~A~~~~~~~~~~--~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~--~ll~a~~~~~~~~~a~~  296 (647)
                      .|+++.|++.+....+.  ++ ..+-....+..+.|+++.|.+.|.++.+.  .|+.....  .....+...|+++.|..
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            47777777777665443  12 23333334446778888888888888764  45543332  22446667788888888


Q ss_pred             HHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCCh-----------hhHHHHHHHHHHcCChHHHHHHHH
Q 006388          297 FHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDE-----------VSWTALVSGYAKFGKANETIDLFE  365 (647)
Q Consensus       297 ~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~d~-----------~~~~~li~~~~~~g~~~~A~~~~~  365 (647)
                      .++.+.+.. +.++.+...+...|.+.|++++|.+++..+.+...           .+|..++.......+.+...++++
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            888887765 55677778888888888888888888887763321           133334444444455566666666


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-
Q 006388          366 KMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPPD-  443 (647)
Q Consensus       366 ~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-  443 (647)
                      .+.+. .+.+......+..++...|+.++|...++...+.   .|+....  ++.+....|+.+++.+.+++. +..|+ 
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            65432 3446668888899999999999999999988753   4554322  223333559999999999887 44554 


Q ss_pred             hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHh
Q 006388          444 AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       444 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      +..+.++...|...+++++|...++++.+..|++ ..+..|+.++.+.|+.++|.+++++-..
T Consensus       328 ~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~~-~~~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        328 PLLWSTLGQLLMKHGEWQEASLAFRAALKQRPDA-YDYAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCH-HHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            6678899999999999999999999999999954 6688999999999999999999987644

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

Probab=99.46  E-value=1.8e-09  Score=104.31  Aligned_cols=315  Identities=10%  Similarity=0.036  Sum_probs=219.5

Q ss_pred             HHhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChh-HHHHHHHHHHhcCChhHHHH
Q 006388          183 ACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWKNVV-SWTAMLVGYGQNGCSEEAVK  261 (647)
Q Consensus       183 ~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~-~~~~li~~~~~~g~~~~A~~  261 (647)
                      ...+.|....|...+...+..    -+..|.+-+....-..+.+.+..+-...+..+.. .--.+..++....+.+++++
T Consensus       173 v~k~~~~~s~A~~sfv~~v~~----~P~~W~AWleL~~lit~~e~~~~l~~~l~~~~h~M~~~F~~~a~~el~q~~e~~~  248 (559)
T KOG1155|consen  173 VLKELGLLSLAIDSFVEVVNR----YPWFWSAWLELSELITDIEILSILVVGLPSDMHWMKKFFLKKAYQELHQHEEALQ  248 (559)
T ss_pred             HHHhhchHHHHHHHHHHHHhc----CCcchHHHHHHHHhhchHHHHHHHHhcCcccchHHHHHHHHHHHHHHHHHHHHHH
Confidence            344556666666666555432    1222333333333333444444444333332211 11223455666667788888


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCC--CcchhHHHHHHHHHHhcCCHH-HHHHHHhhcCC
Q 006388          262 IFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGL--ISFITVSNALVTFYGKCGNIE-DSHRLFNEMNV  338 (647)
Q Consensus       262 ~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~li~~~~~~g~~~-~A~~~~~~~~~  338 (647)
                      -.......|+.-+...-+....+.-...++++|+.+|+.+.+.+.  -.|..+|+.++-.-..+..+. -|..+++ +.+
T Consensus       249 k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skLs~LA~~v~~-idK  327 (559)
T KOG1155|consen  249 KKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKLSYLAQNVSN-IDK  327 (559)
T ss_pred             HHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHHHHHHHHHHH-hcc
Confidence            888888777655555444445555677888999999998888742  125566665553332222222 2222222 222


Q ss_pred             CChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHH
Q 006388          339 RDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEV-TLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTC  417 (647)
Q Consensus       339 ~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~  417 (647)
                      --+.|...+..-|.-.++.++|...|++.++.  .|... .|+.+..-|....+...|.+.++..++  -.+.|-..|-.
T Consensus       328 yR~ETCCiIaNYYSlr~eHEKAv~YFkRALkL--Np~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvd--i~p~DyRAWYG  403 (559)
T KOG1155|consen  328 YRPETCCIIANYYSLRSEHEKAVMYFKRALKL--NPKYLSAWTLMGHEYVEMKNTHAAIESYRRAVD--INPRDYRAWYG  403 (559)
T ss_pred             CCccceeeehhHHHHHHhHHHHHHHHHHHHhc--CcchhHHHHHhhHHHHHhcccHHHHHHHHHHHh--cCchhHHHHhh
Confidence            23456666677788889999999999999884  56544 677777889999999999999999884  23446688999


Q ss_pred             HHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChh
Q 006388          418 MIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWD  495 (647)
Q Consensus       418 li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~  495 (647)
                      |..+|.-.+...-|+-+|+++ ..+| |...|.+|+..|.+.++.++|++.+.++...+..+..+++.|+++|-+.++.+
T Consensus       404 LGQaYeim~Mh~YaLyYfqkA~~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~~l~~LakLye~l~d~~  483 (559)
T KOG1155|consen  404 LGQAYEIMKMHFYALYYFQKALELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGSALVRLAKLYEELKDLN  483 (559)
T ss_pred             hhHHHHHhcchHHHHHHHHHHHhcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHhHH
Confidence            999999999999999999998 5666 68999999999999999999999999999988878899999999999999999


Q ss_pred             HHHHHHHHHHh
Q 006388          496 HVSQLRRTMRE  506 (647)
Q Consensus       496 ~a~~~~~~m~~  506 (647)
                      +|.+.+++-.+
T Consensus       484 eAa~~yek~v~  494 (559)
T KOG1155|consen  484 EAAQYYEKYVE  494 (559)
T ss_pred             HHHHHHHHHHH
Confidence            99999988765

>TIGR00540 hemY_coli hemY protein

Probab=99.46  E-value=2.8e-10  Score=117.36  Aligned_cols=289  Identities=13%  Similarity=0.036  Sum_probs=160.2

Q ss_pred             hCCChhHHHHHHHHHHHCCCCCChh-hHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHH
Q 006388          151 QNGLEREAIDLFREMRLEGLAMDQF-TFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAE  229 (647)
Q Consensus       151 ~~g~~~~A~~~~~~m~~~g~~pd~~-t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~  229 (647)
                      ..|+++.|.+.+.+..+.  .|+.. .+.....+....|+.+.+.+.+....+....+...+.......+...|+++.|.
T Consensus        96 ~~g~~~~A~~~l~~~~~~--~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al  173 (409)
T TIGR00540        96 AEGDYAKAEKLIAKNADH--AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAAR  173 (409)
T ss_pred             hCCCHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHH
Confidence            467777777777766553  23322 233334555566777777777777665432222233444466666677777777


Q ss_pred             HHHhcCCC---CChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCC
Q 006388          230 SVFRTMAW---KNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGL  306 (647)
Q Consensus       230 ~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~  306 (647)
                      ..++.+.+   .+...+..+...+.+.|++++|.+++..+.+.++.+ ...+..+-.                       
T Consensus       174 ~~l~~l~~~~P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~-~~~~~~l~~-----------------------  229 (409)
T TIGR00540       174 HGVDKLLEMAPRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFD-DEEFADLEQ-----------------------  229 (409)
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCC-HHHHHHHHH-----------------------
Confidence            77666653   244566666667777777777777777776665322 111111000                       


Q ss_pred             CcchhHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHH---H
Q 006388          307 ISFITVSNALVTFYGKCGNIEDSHRLFNEMNV---RDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTL---I  380 (647)
Q Consensus       307 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~---~  380 (647)
                          ..+..+++.-......+...+.++..+.   .++..+..+...+...|+.++|.+++++..+.  .||....   .
T Consensus       230 ----~a~~~~l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~--~pd~~~~~~~~  303 (409)
T TIGR00540       230 ----KAEIGLLDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKK--LGDDRAISLPL  303 (409)
T ss_pred             ----HHHHHHHHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhh--CCCcccchhHH
Confidence                0001111111112223344445555542   36777777888888888888888888888775  3444321   1


Q ss_pred             HHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHh--C-CCCCChhhHHHHHHHHHhc
Q 006388          381 GVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINK--M-PFPPDAIGWATLLSSCRIH  457 (647)
Q Consensus       381 ~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~--~-~~~p~~~~~~~ll~~~~~~  457 (647)
                      .........++.+.+.+.++...+...-.|+.....++...+.+.|++++|.+.|+.  . ...|+...+..+...+.+.
T Consensus       304 l~~~~~l~~~~~~~~~~~~e~~lk~~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~  383 (409)
T TIGR00540       304 CLPIPRLKPEDNEKLEKLIEKQAKNVDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQA  383 (409)
T ss_pred             HHHhhhcCCCChHHHHHHHHHHHHhCCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHc
Confidence            111122334566666666666655432222224455666666666666666666662  2 3456665566666666666


Q ss_pred             CChhHHHHHHHHHh
Q 006388          458 GNVEIGKWAAESLL  471 (647)
Q Consensus       458 ~~~~~a~~~~~~~~  471 (647)
                      |+.++|.+++++.+
T Consensus       384 g~~~~A~~~~~~~l  397 (409)
T TIGR00540       384 GDKAEAAAMRQDSL  397 (409)
T ss_pred             CCHHHHHHHHHHHH
Confidence            66666666666543

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.

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

Probab=99.45  E-value=1.5e-11  Score=123.98  Aligned_cols=276  Identities=15%  Similarity=0.089  Sum_probs=215.8

Q ss_pred             CHHHHHHHHhcCCCC--Ch-hHHHHHHHHHHhcCChhHHHHHHHHHHHCC--CCCCHHHHHHHHHHHhccCChHHHHHHH
Q 006388          224 SIKYAESVFRTMAWK--NV-VSWTAMLVGYGQNGCSEEAVKIFCNMQRNG--IEPDDFTLGSVISSCANLASLEEGTQFH  298 (647)
Q Consensus       224 ~~~~A~~~~~~~~~~--~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~g--~~p~~~t~~~ll~a~~~~~~~~~a~~~~  298 (647)
                      +..+|...|...+..  |+ .....+..+|...+++++|.++|+...+..  ..-+...|+++|.-+-+.    .+...+
T Consensus       334 ~~~~A~~~~~klp~h~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~----v~Ls~L  409 (638)
T KOG1126|consen  334 NCREALNLFEKLPSHHYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDE----VALSYL  409 (638)
T ss_pred             HHHHHHHHHHhhHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhh----HHHHHH
Confidence            467888889886542  33 334567789999999999999999998752  112556788877654321    122222


Q ss_pred             HHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCC---ChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC
Q 006388          299 GRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVR---DEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPD  375 (647)
Q Consensus       299 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  375 (647)
                      .+-.-.--+..+.+|.++.++|.-+++.+.|++.|++..+-   ...+|+.+..-+.....++.|...|+..+.  +.|.
T Consensus       410 aq~Li~~~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~--~~~r  487 (638)
T KOG1126|consen  410 AQDLIDTDPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPRFAYAYTLLGHESIATEEFDKAMKSFRKALG--VDPR  487 (638)
T ss_pred             HHHHHhhCCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCccchhhhhcCChhhhhHHHHhHHHHHHhhhc--CCch
Confidence            22222222557889999999999999999999999998854   457888888888999999999999998875  4555


Q ss_pred             HH-HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCc-ChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHH
Q 006388          376 EV-TLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRP-IHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLL  451 (647)
Q Consensus       376 ~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll  451 (647)
                      .. .|-.+...|.+.++++.|.-.|+.+.   .+.| +.....++...+-+.|+.++|+.+++++ -.+| |+..--..+
T Consensus       488 hYnAwYGlG~vy~Kqek~e~Ae~~fqkA~---~INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~~~  564 (638)
T KOG1126|consen  488 HYNAWYGLGTVYLKQEKLEFAEFHFQKAV---EINPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYHRA  564 (638)
T ss_pred             hhHHHHhhhhheeccchhhHHHHHHHhhh---cCCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHHHH
Confidence            44 66777888999999999999999887   5566 4566778888999999999999999998 3334 444445566


Q ss_pred             HHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHhCC
Q 006388          452 SSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREKG  508 (647)
Q Consensus       452 ~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g  508 (647)
                      ..+...+++++|...+|++.++-|++...|..++.+|-+.|+.+.|..-|.-+.+..
T Consensus       565 ~il~~~~~~~eal~~LEeLk~~vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~ld  621 (638)
T KOG1126|consen  565 SILFSLGRYVEALQELEELKELVPQESSVFALLGKIYKRLGNTDLALLHFSWALDLD  621 (638)
T ss_pred             HHHHhhcchHHHHHHHHHHHHhCcchHHHHHHHHHHHHHHccchHHHHhhHHHhcCC
Confidence            677788999999999999999999999999999999999999999999888877643

>TIGR00540 hemY_coli hemY protein

Probab=99.43  E-value=2e-10  Score=118.50  Aligned_cols=282  Identities=13%  Similarity=0.082  Sum_probs=188.0

Q ss_pred             HhcCChHHHHHHhhcCCCC--Ce-ehHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChh--hHHHHHHHHhcCCChHHH
Q 006388          119 LRRGLVEESRRLFRGMKDK--DS-ISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQF--TFGSVLTACGGLLALEEG  193 (647)
Q Consensus       119 ~~~g~~~~A~~~~~~~~~~--~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~--t~~~ll~~~~~~~~~~~a  193 (647)
                      ...|+++.|.+.+.+..+.  +. ..+-.....+.+.|+++.|.+.|.+..+..  |+..  ........+...|+++.|
T Consensus        95 ~~~g~~~~A~~~l~~~~~~~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~--p~~~l~~~~~~a~l~l~~~~~~~A  172 (409)
T TIGR00540        95 LAEGDYAKAEKLIAKNADHAAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELA--GNDNILVEIARTRILLAQNELHAA  172 (409)
T ss_pred             HhCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CcCchHHHHHHHHHHHHCCCHHHH
Confidence            3789999999999887653  22 223344566788899999999999987643  5543  333346777889999999


Q ss_pred             HHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCC---ChhHHHHHH----HHHHhcCChhHHHHHHHHH
Q 006388          194 KQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWK---NVVSWTAML----VGYGQNGCSEEAVKIFCNM  266 (647)
Q Consensus       194 ~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~---~~~~~~~li----~~~~~~g~~~~A~~~~~~m  266 (647)
                      .+.++.+.+.. +.+..+...+...|.+.|+++.|.+.++...+.   +...+..+-    .+....+..+++.+.+..+
T Consensus       173 l~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~  251 (409)
T TIGR00540       173 RHGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEGIDGLLNW  251 (409)
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHH
Confidence            99999999986 556778889999999999999999999988754   222222111    1112122222222222222


Q ss_pred             HHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCC--Chhh-
Q 006388          267 QRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVR--DEVS-  343 (647)
Q Consensus       267 ~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~--d~~~-  343 (647)
                      ...  .|                             + ..+.++..+..+...+...|+.++|.+++++..+.  |... 
T Consensus       252 ~~~--~p-----------------------------~-~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~~~~  299 (409)
T TIGR00540       252 WKN--QP-----------------------------R-HRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKLGDDRAI  299 (409)
T ss_pred             HHH--CC-----------------------------H-HHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhCCCcccc
Confidence            221  11                             0 01234555666666777777777777777766532  2221 


Q ss_pred             --HHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHH---HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHH
Q 006388          344 --WTALVSGYAKFGKANETIDLFEKMLSHGLKPDEV---TLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCM  418 (647)
Q Consensus       344 --~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~---t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l  418 (647)
                        +..........++.+.+++.+++..+.  .|+..   ...++...|.+.|++++|.++|+.... ....|+...+..+
T Consensus       300 ~~~~l~~~~~l~~~~~~~~~~~~e~~lk~--~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a-~~~~p~~~~~~~L  376 (409)
T TIGR00540       300 SLPLCLPIPRLKPEDNEKLEKLIEKQAKN--VDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAA-CKEQLDANDLAMA  376 (409)
T ss_pred             hhHHHHHhhhcCCCChHHHHHHHHHHHHh--CCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHH-hhcCCCHHHHHHH
Confidence              111222223356777888888887764  55554   445777888899999999999985322 2557888888899


Q ss_pred             HHHHHHcCCHHHHHHHHHhC
Q 006388          419 IDILSRAGRLEEAKSFINKM  438 (647)
Q Consensus       419 i~~~~~~g~~~~A~~~~~~~  438 (647)
                      ..++.+.|+.++|.+++++.
T Consensus       377 a~ll~~~g~~~~A~~~~~~~  396 (409)
T TIGR00540       377 ADAFDQAGDKAEAAAMRQDS  396 (409)
T ss_pred             HHHHHHcCCHHHHHHHHHHH
Confidence            99999999999999998874

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.

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

Probab=99.43  E-value=2.6e-11  Score=122.27  Aligned_cols=277  Identities=16%  Similarity=0.125  Sum_probs=211.3

Q ss_pred             ChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCC------ChhHHHHHHHHHHhcCChhHHHHH
Q 006388          189 ALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWK------NVVSWTAMLVGYGQNGCSEEAVKI  262 (647)
Q Consensus       189 ~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~------~~~~~~~li~~~~~~g~~~~A~~~  262 (647)
                      +.++|...|..+.+. ......+..-+..+|...+++++|+++|+.+.+.      +...|.+.+..+.+    +-++..
T Consensus       334 ~~~~A~~~~~klp~h-~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~----~v~Ls~  408 (638)
T KOG1126|consen  334 NCREALNLFEKLPSH-HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQD----EVALSY  408 (638)
T ss_pred             HHHHHHHHHHhhHHh-cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHh----hHHHHH
Confidence            455666666664333 3334477777888899999999999999887643      56677777665433    223333


Q ss_pred             HHH-HHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCCh
Q 006388          263 FCN-MQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDE  341 (647)
Q Consensus       263 ~~~-m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~d~  341 (647)
                      +.+ +... -+-.+.||..+.+.++-.++.+.|.+.|++.+..+ +....+|+.+..-+....++|.|...|+.....|+
T Consensus       409 Laq~Li~~-~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQld-p~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~~  486 (638)
T KOG1126|consen  409 LAQDLIDT-DPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLD-PRFAYAYTLLGHESIATEEFDKAMKSFRKALGVDP  486 (638)
T ss_pred             HHHHHHhh-CCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccC-CccchhhhhcCChhhhhHHHHhHHHHHHhhhcCCc
Confidence            322 2222 23456789999999999999999999999888765 34778888888889999999999999999987777


Q ss_pred             hhHHH---HHHHHHHcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCc-ChHHHH
Q 006388          342 VSWTA---LVSGYAKFGKANETIDLFEKMLSHGLKPD-EVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRP-IHDHYT  416 (647)
Q Consensus       342 ~~~~~---li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~  416 (647)
                      ..||+   +...|.+.++++.|+-.|++..+.  .|. .+....+...+-+.|+.++|+++++.+..   +.| ++..--
T Consensus       487 rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~I--NP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~---ld~kn~l~~~  561 (638)
T KOG1126|consen  487 RHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEI--NPSNSVILCHIGRIQHQLKRKDKALQLYEKAIH---LDPKNPLCKY  561 (638)
T ss_pred             hhhHHHHhhhhheeccchhhHHHHHHHhhhcC--CccchhHHhhhhHHHHHhhhhhHHHHHHHHHHh---cCCCCchhHH
Confidence            66555   567899999999999999999884  554 44666667778889999999999998874   333 333334


Q ss_pred             HHHHHHHHcCCHHHHHHHHHhC-CCCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCC
Q 006388          417 CMIDILSRAGRLEEAKSFINKM-PFPPD-AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYN  477 (647)
Q Consensus       417 ~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~  477 (647)
                      ..+..+...+++++|+..+++. .+.|+ ..++..++..|.+.|+.+.|+.-|.-+..++|.-
T Consensus       562 ~~~~il~~~~~~~eal~~LEeLk~~vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~ldpkg  624 (638)
T KOG1126|consen  562 HRASILFSLGRYVEALQELEELKELVPQESSVFALLGKIYKRLGNTDLALLHFSWALDLDPKG  624 (638)
T ss_pred             HHHHHHHhhcchHHHHHHHHHHHHhCcchHHHHHHHHHHHHHHccchHHHHhhHHHhcCCCcc
Confidence            4566778899999999999999 35565 7788888899999999999999999999999963

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

Probab=99.41  E-value=1.7e-12  Score=127.10  Aligned_cols=255  Identities=15%  Similarity=0.121  Sum_probs=87.6

Q ss_pred             HHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHH-HHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcC
Q 006388          145 MITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGS-VLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCK  223 (647)
Q Consensus       145 li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~-ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g  223 (647)
                      +...+.+.|++++|++++.+-......|+...|-. +...+...++.+.|.+.++.+.+.+.. +...+..++.. ...+
T Consensus        14 ~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~~~   91 (280)
T PF13429_consen   14 LARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQDG   91 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccc-cccc
Confidence            45566677777888777755444332344444433 333444567777777777777766532 45556666666 5777


Q ss_pred             CHHHHHHHHhcCCC--CChhHHHHHHHHHHhcCChhHHHHHHHHHHHCC-CCCCHHHHHHHHHHHhccCChHHHHHHHHH
Q 006388          224 SIKYAESVFRTMAW--KNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNG-IEPDDFTLGSVISSCANLASLEEGTQFHGR  300 (647)
Q Consensus       224 ~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~  300 (647)
                      ++++|.++++..-+  ++...+..++..+.+.++++++.+++++..... .+++...|..+...+.+.|+.++|...++.
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            77777777766532  355667777777778888888888887766432 234555566666667777777777777777


Q ss_pred             HHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHH
Q 006388          301 SLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMN---VRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEV  377 (647)
Q Consensus       301 ~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~  377 (647)
                      .++.. +.+..+.+.++..+...|+.+++.++++...   ..|...|..+..+|...|++++|+..|++..... +.|..
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            77764 3356666777777777777777655555443   3456667777777777777777777777776631 23455


Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHH
Q 006388          378 TLIGVLSACSRAGLVEKGRHYFEIMV  403 (647)
Q Consensus       378 t~~~ll~a~~~~g~~~~a~~~~~~~~  403 (647)
                      +...+..++...|+.++|.++.+...
T Consensus       250 ~~~~~a~~l~~~g~~~~A~~~~~~~~  275 (280)
T PF13429_consen  250 WLLAYADALEQAGRKDEALRLRRQAL  275 (280)
T ss_dssp             HHHHHHHHHT----------------
T ss_pred             cccccccccccccccccccccccccc
Confidence            66666677777777777777665543

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

Probab=99.39  E-value=2.7e-09  Score=105.73  Aligned_cols=262  Identities=13%  Similarity=0.046  Sum_probs=206.3

Q ss_pred             ChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHH
Q 006388          239 NVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVT  318 (647)
Q Consensus       239 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  318 (647)
                      ++........-+-..+++.+.+++++...+.. ++....+..-|.++...|+-.+-..+-..+++. .|....+|-++.-
T Consensus       243 ~~dll~~~ad~~y~~c~f~~c~kit~~lle~d-pfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~-yP~~a~sW~aVg~  320 (611)
T KOG1173|consen  243 NLDLLAEKADRLYYGCRFKECLKITEELLEKD-PFHLPCLPLHIACLYELGKSNKLFLLSHKLVDL-YPSKALSWFAVGC  320 (611)
T ss_pred             cHHHHHHHHHHHHHcChHHHHHHHhHHHHhhC-CCCcchHHHHHHHHHHhcccchHHHHHHHHHHh-CCCCCcchhhHHH
Confidence            34445555666778899999999999988763 455555555566777777766666665566655 3667788999999


Q ss_pred             HHHhcCCHHHHHHHHhhcCCCC---hhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHH
Q 006388          319 FYGKCGNIEDSHRLFNEMNVRD---EVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKG  395 (647)
Q Consensus       319 ~~~~~g~~~~A~~~~~~~~~~d---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a  395 (647)
                      .|.-.|+..+|++.|.+...-|   ...|-....+|+-.|..++|+..+...-+. ++-...-+.-+.--|.+.++.+.|
T Consensus       321 YYl~i~k~seARry~SKat~lD~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl-~~G~hlP~LYlgmey~~t~n~kLA  399 (611)
T KOG1173|consen  321 YYLMIGKYSEARRYFSKATTLDPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARL-MPGCHLPSLYLGMEYMRTNNLKLA  399 (611)
T ss_pred             HHHHhcCcHHHHHHHHHHhhcCccccHHHHHHhHHhhhcchHHHHHHHHHHHHHh-ccCCcchHHHHHHHHHHhccHHHH
Confidence            9999999999999999877444   458999999999999999999999887663 121222333444568889999999


Q ss_pred             HHHHHHHHHhcCCCc-ChHHHHHHHHHHHHcCCHHHHHHHHHhCC-----C---CC-ChhhHHHHHHHHHhcCChhHHHH
Q 006388          396 RHYFEIMVKEYGIRP-IHDHYTCMIDILSRAGRLEEAKSFINKMP-----F---PP-DAIGWATLLSSCRIHGNVEIGKW  465 (647)
Q Consensus       396 ~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~-----~---~p-~~~~~~~ll~~~~~~~~~~~a~~  465 (647)
                      .++|....   ++.| |+..++-+.-+....+.+.+|..+|+..-     .   .+ -..+|+.|+.+|++.+.+++|+.
T Consensus       400 e~Ff~~A~---ai~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~  476 (611)
T KOG1173|consen  400 EKFFKQAL---AIAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAID  476 (611)
T ss_pred             HHHHHHHH---hcCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHH
Confidence            99999886   5555 55677777777778899999999998761     1   11 24568899999999999999999


Q ss_pred             HHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHh
Q 006388          466 AAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       466 ~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      .+++.+.+.|.++.+|.+++-+|...|+++.|.+.|.+..-
T Consensus       477 ~~q~aL~l~~k~~~~~asig~iy~llgnld~Aid~fhKaL~  517 (611)
T KOG1173|consen  477 YYQKALLLSPKDASTHASIGYIYHLLGNLDKAIDHFHKALA  517 (611)
T ss_pred             HHHHHHHcCCCchhHHHHHHHHHHHhcChHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999998644

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

Probab=99.36  E-value=6.2e-09  Score=99.24  Aligned_cols=294  Identities=14%  Similarity=0.099  Sum_probs=199.3

Q ss_pred             HHHHHHHHh--CCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHH
Q 006388          143 TTMITGLMQ--NGLEREAIDLFREMRLEGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYC  220 (647)
Q Consensus       143 ~~li~~~~~--~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~  220 (647)
                      ..+..+..+  .|+|.+|.++..+-.+.+-.| ...|..-..+.-..|+.+.+-+++.++-+..-.++..+.-+......
T Consensus        86 ~~~~egl~~l~eG~~~qAEkl~~rnae~~e~p-~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll  164 (400)
T COG3071          86 KALNEGLLKLFEGDFQQAEKLLRRNAEHGEQP-VLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLL  164 (400)
T ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHhhhcCcch-HHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHH
Confidence            344455444  589999999988877766443 34466666777788999999999888888755677777888888888


Q ss_pred             hcCCHHHHHHHHhcC---CCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHH
Q 006388          221 KCKSIKYAESVFRTM---AWKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQF  297 (647)
Q Consensus       221 ~~g~~~~A~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~  297 (647)
                      ..|+.+.|..-.++.   ..+++........+|.+.|++.....++.+|.+.|+--|+..-                 ++
T Consensus       165 ~~~d~~aA~~~v~~ll~~~pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~-----------------~l  227 (400)
T COG3071         165 NRRDYPAARENVDQLLEMTPRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAA-----------------RL  227 (400)
T ss_pred             hCCCchhHHHHHHHHHHhCcCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHH-----------------HH
Confidence            888888888776654   3457788888889999999999999999999888754443211                 00


Q ss_pred             HHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCC
Q 006388          298 HGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMN---VRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKP  374 (647)
Q Consensus       298 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  374 (647)
                                 ...+++.+++-....+..+.-...++..+   +.++..-.+++.-+.+.|+.++|.++.++..+.+..|
T Consensus       228 -----------e~~a~~glL~q~~~~~~~~gL~~~W~~~pr~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~  296 (400)
T COG3071         228 -----------EQQAWEGLLQQARDDNGSEGLKTWWKNQPRKLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDP  296 (400)
T ss_pred             -----------HHHHHHHHHHHHhccccchHHHHHHHhccHHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccCh
Confidence                       01122333333333333333334445544   2355556666777777888888888888887777666


Q ss_pred             CHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCChhhHHHHHHH
Q 006388          375 DEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPPDAIGWATLLSS  453 (647)
Q Consensus       375 ~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~ll~~  453 (647)
                      +-    ..+-.+.+.++...-++..+...+.++..|  ..+.+|...|.+.+.+.+|.+.|+.. +..|+..+|+-+..+
T Consensus       297 ~L----~~~~~~l~~~d~~~l~k~~e~~l~~h~~~p--~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s~~~~~~la~~  370 (400)
T COG3071         297 RL----CRLIPRLRPGDPEPLIKAAEKWLKQHPEDP--LLLSTLGRLALKNKLWGKASEALEAALKLRPSASDYAELADA  370 (400)
T ss_pred             hH----HHHHhhcCCCCchHHHHHHHHHHHhCCCCh--hHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCChhhHHHHHHH
Confidence            62    222345666777776666666666555544  56667777777777777777777765 566777777777777


Q ss_pred             HHhcCChhHHHHHHHHHh
Q 006388          454 CRIHGNVEIGKWAAESLL  471 (647)
Q Consensus       454 ~~~~~~~~~a~~~~~~~~  471 (647)
                      +.+.|+.+.|.+..++.+
T Consensus       371 ~~~~g~~~~A~~~r~e~L  388 (400)
T COG3071         371 LDQLGEPEEAEQVRREAL  388 (400)
T ss_pred             HHHcCChHHHHHHHHHHH
Confidence            777777777777776655

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.36  E-value=1.5e-08  Score=101.10  Aligned_cols=429  Identities=13%  Similarity=0.106  Sum_probs=226.5

Q ss_pred             CCCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHHhcCChHHHHHHhccCCCCCchHHHH--HHHHHH--hcCChHHHHH
Q 006388           54 SRRCVDLGRQIHGHILKFGFGSYVFVGSPLVDMYAKLGLIYDAKRGFDELPEKNIVMYNT--MITGLL--RRGLVEESRR  129 (647)
Q Consensus        54 ~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~--li~~~~--~~g~~~~A~~  129 (647)
                      ..|++++|.+.-.+++..+ +.+......-+-+..+.+++++|..+.+.-...  .+++.  +=.+||  +.+..++|..
T Consensus        24 ~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~--~~~~~~~fEKAYc~Yrlnk~Dealk  100 (652)
T KOG2376|consen   24 KNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKKNGAL--LVINSFFFEKAYCEYRLNKLDEALK  100 (652)
T ss_pred             cchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchh--hhcchhhHHHHHHHHHcccHHHHHH
Confidence            3344444444444444443 233333333333444444455554333322210  11111  233343  5556666666


Q ss_pred             HhhcCCCCCeehHHHHHHHHHhCCChhHHHHHHHHHHHCCCCC-ChhhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCc
Q 006388          130 LFRGMKDKDSISWTTMITGLMQNGLEREAIDLFREMRLEGLAM-DQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDN  208 (647)
Q Consensus       130 ~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-d~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~  208 (647)
                      .++.....+..+...-...+.+.|++++|+++|+.+.+.+..- |...-..++.+-...       .. ..+......|+
T Consensus       101 ~~~~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l-------~~-~~~q~v~~v~e  172 (652)
T KOG2376|consen  101 TLKGLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAAL-------QV-QLLQSVPEVPE  172 (652)
T ss_pred             HHhcccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhh-------hH-HHHHhccCCCc
Confidence            6664434344344444556667777777777777776554321 111111121111100       00 01111111111


Q ss_pred             ---hhHHHHHHHHHHhcCCHHHHHHHHhcC--------CCCC-----h-----hHHHHHHHHHHhcCChhHHHHHHHHHH
Q 006388          209 ---VFVGSALVDMYCKCKSIKYAESVFRTM--------AWKN-----V-----VSWTAMLVGYGQNGCSEEAVKIFCNMQ  267 (647)
Q Consensus       209 ---~~~~~~li~~y~~~g~~~~A~~~~~~~--------~~~~-----~-----~~~~~li~~~~~~g~~~~A~~~~~~m~  267 (647)
                         ...|| ....+...|++.+|+++++..        .+.|     .     ..---|.-.+...|+.++|..++....
T Consensus       173 ~syel~yN-~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy~~~i  251 (652)
T KOG2376|consen  173 DSYELLYN-TACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSIYVDII  251 (652)
T ss_pred             chHHHHHH-HHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHH
Confidence               11222 334556667777777777665        1111     1     112234556778899999999999988


Q ss_pred             HCCCCCCHHHHHHH---HHHHhccCChHH--HHHHHH-----------HHHHhCCCcchhHHHHHHHHHHhcCCHHHHHH
Q 006388          268 RNGIEPDDFTLGSV---ISSCANLASLEE--GTQFHG-----------RSLVTGLISFITVSNALVTFYGKCGNIEDSHR  331 (647)
Q Consensus       268 ~~g~~p~~~t~~~l---l~a~~~~~~~~~--a~~~~~-----------~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  331 (647)
                      +.. .+|.......   |.+...-.++..  ....++           .+....-......-+.++.+|.  +..+.+.+
T Consensus       252 ~~~-~~D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~t--nk~~q~r~  328 (652)
T KOG2376|consen  252 KRN-PADEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALFT--NKMDQVRE  328 (652)
T ss_pred             Hhc-CCCchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHh--hhHHHHHH
Confidence            774 4454322222   122222222211  111111           1111111112222345555554  55677777


Q ss_pred             HHhhcCCCC-hhhHHHHHHHH--HHcCChHHHHHHHHHHHHCCCCCCH--HHHHHHHHHHhcCCcHHHHHHHHH------
Q 006388          332 LFNEMNVRD-EVSWTALVSGY--AKFGKANETIDLFEKMLSHGLKPDE--VTLIGVLSACSRAGLVEKGRHYFE------  400 (647)
Q Consensus       332 ~~~~~~~~d-~~~~~~li~~~--~~~g~~~~A~~~~~~m~~~g~~p~~--~t~~~ll~a~~~~g~~~~a~~~~~------  400 (647)
                      +-...+... ...+..++...  .+...+.+|.+++...-+.  .|..  ......+.-....|+++.|.+++.      
T Consensus       329 ~~a~lp~~~p~~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~--~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~~~  406 (652)
T KOG2376|consen  329 LSASLPGMSPESLFPILLQEATKVREKKHKKAIELLLQFADG--HPEKSKVVLLLRAQLKISQGNPEVALEILSLFLESW  406 (652)
T ss_pred             HHHhCCccCchHHHHHHHHHHHHHHHHHHhhhHHHHHHHhcc--CCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhh
Confidence            777776432 33444444433  2333577888888887764  3443  344555566778999999999988      


Q ss_pred             --HHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC--------CCCCC-hhhHHHHHHHHHhcCChhHHHHHHHH
Q 006388          401 --IMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM--------PFPPD-AIGWATLLSSCRIHGNVEIGKWAAES  469 (647)
Q Consensus       401 --~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~--------~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~  469 (647)
                        .+.+ .+.  .+.+...++.++.+.++-+-|..++.+.        ...+. ..+|.-+...-.++|+-++|...+++
T Consensus       407 ~ss~~~-~~~--~P~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~lee  483 (652)
T KOG2376|consen  407 KSSILE-AKH--LPGTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSLLEE  483 (652)
T ss_pred             hhhhhh-hcc--ChhHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHHHHH
Confidence              4432 233  3456667888899888876666666554        22222 33444555555678999999999999


Q ss_pred             HhccCCCCchhHHHHHHhhhhCCChhHHHHHHHH
Q 006388          470 LLELDPYNPASYVLLSSIYASKGKWDHVSQLRRT  503 (647)
Q Consensus       470 ~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  503 (647)
                      +.+.+|++....+.+..+|++. +.+.|..+-+.
T Consensus       484 l~k~n~~d~~~l~~lV~a~~~~-d~eka~~l~k~  516 (652)
T KOG2376|consen  484 LVKFNPNDTDLLVQLVTAYARL-DPEKAESLSKK  516 (652)
T ss_pred             HHHhCCchHHHHHHHHHHHHhc-CHHHHHHHhhc
Confidence            9999999999999999999876 34555555443

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

Probab=99.35  E-value=2e-09  Score=99.39  Aligned_cols=269  Identities=13%  Similarity=0.130  Sum_probs=168.7

Q ss_pred             CCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCC---chhHHHHHHHHHHhcCCHHHH
Q 006388          152 NGLEREAIDLFREMRLEGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKD---NVFVGSALVDMYCKCKSIKYA  228 (647)
Q Consensus       152 ~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~---~~~~~~~li~~y~~~g~~~~A  228 (647)
                      +.++++|.++|-+|.+... -+..+-.++-+.+.+.|..+.|..+|..+.++.--+   .....-.|..-|.+.|-+|.|
T Consensus        48 s~Q~dKAvdlF~e~l~~d~-~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRA  126 (389)
T COG2956          48 SNQPDKAVDLFLEMLQEDP-ETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRA  126 (389)
T ss_pred             hcCcchHHHHHHHHHhcCc-hhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHH
Confidence            4789999999999988421 123345577788899999999999999988753111   123445677889999999999


Q ss_pred             HHHHhcCCCCC---hhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhC
Q 006388          229 ESVFRTMAWKN---VVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTG  305 (647)
Q Consensus       229 ~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~  305 (647)
                      +.+|..+.+..   ..+.-.|+..|....+|++|++.-+++.+.|-++..+-    |.                      
T Consensus       127 E~~f~~L~de~efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~e----IA----------------------  180 (389)
T COG2956         127 EDIFNQLVDEGEFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVE----IA----------------------  180 (389)
T ss_pred             HHHHHHHhcchhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhH----HH----------------------
Confidence            99999887643   34667788999999999999999888887654443221    10                      


Q ss_pred             CCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCC---ChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHH
Q 006388          306 LISFITVSNALVTFYGKCGNIEDSHRLFNEMNVR---DEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGV  382 (647)
Q Consensus       306 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~l  382 (647)
                           ..|.-|...+....+++.|..++.+..+-   .+..--.+...+...|+++.|++.++...+.+..--..+...|
T Consensus       181 -----qfyCELAq~~~~~~~~d~A~~~l~kAlqa~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L  255 (389)
T COG2956         181 -----QFYCELAQQALASSDVDRARELLKKALQADKKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEML  255 (389)
T ss_pred             -----HHHHHHHHHHhhhhhHHHHHHHHHHHHhhCccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHH
Confidence                 11122333333344455555555544322   2223333445566667777777777776665322223355666


Q ss_pred             HHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHH-HhCCCCCChhhHHHHHHHHH
Q 006388          383 LSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFI-NKMPFPPDAIGWATLLSSCR  455 (647)
Q Consensus       383 l~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~-~~~~~~p~~~~~~~ll~~~~  455 (647)
                      ..+|.+.|+.+++..++..+.+.   .+....-..+.+......-.+.|...+ ++..-+|+...+..|+..-.
T Consensus       256 ~~~Y~~lg~~~~~~~fL~~~~~~---~~g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r~Pt~~gf~rl~~~~l  326 (389)
T COG2956         256 YECYAQLGKPAEGLNFLRRAMET---NTGADAELMLADLIELQEGIDAAQAYLTRQLRRKPTMRGFHRLMDYHL  326 (389)
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHc---cCCccHHHHHHHHHHHhhChHHHHHHHHHHHhhCCcHHHHHHHHHhhh
Confidence            67777777777777777766543   334444444444444444445555444 34455677777777776644

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.34  E-value=2.8e-10  Score=108.27  Aligned_cols=198  Identities=14%  Similarity=0.130  Sum_probs=164.6

Q ss_pred             cchhHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 006388          308 SFITVSNALVTFYGKCGNIEDSHRLFNEMN---VRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLS  384 (647)
Q Consensus       308 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~  384 (647)
                      .....+..+...|...|++++|.+.|++..   ..+...+..+...+...|++++|.+.+++..+.. +.+...+..+..
T Consensus        29 ~~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~  107 (234)
T TIGR02521        29 KAAKIRVQLALGYLEQGDLEVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGT  107 (234)
T ss_pred             cHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHH
Confidence            345667778889999999999999998765   2356778888899999999999999999998863 334557777888


Q ss_pred             HHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhH
Q 006388          385 ACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEI  462 (647)
Q Consensus       385 a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~  462 (647)
                      .+...|++++|.+.++...+..........+..+...+.+.|++++|.+.+++. ...| +...|..+...+...|++++
T Consensus       108 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~  187 (234)
T TIGR02521       108 FLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRPESLLELAELYYLRGQYKD  187 (234)
T ss_pred             HHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCChHHHHHHHHHHHHcCCHHH
Confidence            899999999999999998764222334567778889999999999999999887 3344 46678889999999999999


Q ss_pred             HHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHh
Q 006388          463 GKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       463 a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      |...++++.+..|.++..+..++.++...|++++|..+.+.+..
T Consensus       188 A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       188 ARAYLERYQQTYNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            99999999998888888888999999999999999999888765

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.

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

Probab=99.33  E-value=1.3e-09  Score=100.49  Aligned_cols=221  Identities=15%  Similarity=0.089  Sum_probs=143.4

Q ss_pred             CCChhHHHHHHHHHHHCCCCCCCcchHHHHHHHHhCCCChHHHHHHHHHHHHhCC-CCc--hhhHHHHHHHHHhcCChHH
Q 006388           19 HGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGF-GSY--VFVGSPLVDMYAKLGLIYD   95 (647)
Q Consensus        19 ~g~~~~A~~~~~~m~~~g~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~-~~~--~~~~~~li~~~~~~g~~~~   95 (647)
                      +.++++|.++|-+|.+..  +-+..+-.+|.+.+.+.|..+.|..+|+.+.+..- ..+  ....-.|..-|...|-+|.
T Consensus        48 s~Q~dKAvdlF~e~l~~d--~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DR  125 (389)
T COG2956          48 SNQPDKAVDLFLEMLQED--PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDR  125 (389)
T ss_pred             hcCcchHHHHHHHHHhcC--chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhH
Confidence            456777777777777654  44555666777777777777777777777765321 110  1222334444555566666


Q ss_pred             HHHHhccCCCCCchHHHHHHHHHHhcCChHHHHHHhhcCCCCCeehHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChh
Q 006388           96 AKRGFDELPEKNIVMYNTMITGLLRRGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQF  175 (647)
Q Consensus        96 A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~  175 (647)
                      |+.+|..+.+-+.                            --..+...|+..|-+..+|++|++.-+++.+.+-++...
T Consensus       126 AE~~f~~L~de~e----------------------------fa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~  177 (389)
T COG2956         126 AEDIFNQLVDEGE----------------------------FAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRV  177 (389)
T ss_pred             HHHHHHHHhcchh----------------------------hhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchh
Confidence            6666555543111                            123456678888889999999999998888866554432


Q ss_pred             ----hHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChh----HHHHHH
Q 006388          176 ----TFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWKNVV----SWTAML  247 (647)
Q Consensus       176 ----t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~----~~~~li  247 (647)
                          .|.-+........+++.|..++....+.. +..+...-.+.+.+...|+++.|.+.++.+.+.|+.    +...|.
T Consensus       178 eIAqfyCELAq~~~~~~~~d~A~~~l~kAlqa~-~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~  256 (389)
T COG2956         178 EIAQFYCELAQQALASSDVDRARELLKKALQAD-KKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLY  256 (389)
T ss_pred             HHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhhC-ccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHH
Confidence                24444455556677788888877777665 445555566777778888888888888877766643    456677


Q ss_pred             HHHHhcCChhHHHHHHHHHHHCC
Q 006388          248 VGYGQNGCSEEAVKIFCNMQRNG  270 (647)
Q Consensus       248 ~~~~~~g~~~~A~~~~~~m~~~g  270 (647)
                      .+|.+.|+.++.+..+.++.+..
T Consensus       257 ~~Y~~lg~~~~~~~fL~~~~~~~  279 (389)
T COG2956         257 ECYAQLGKPAEGLNFLRRAMETN  279 (389)
T ss_pred             HHHHHhCCHHHHHHHHHHHHHcc
Confidence            77778888887777777776653

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.32  E-value=6.4e-08  Score=99.67  Aligned_cols=127  Identities=17%  Similarity=0.133  Sum_probs=107.2

Q ss_pred             HHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-hhhHHHHHHHHHh
Q 006388          379 LIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPPD-AIGWATLLSSCRI  456 (647)
Q Consensus       379 ~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~  456 (647)
                      |......+...+..++|...+.+..+  -..-....|......+...|.++||.+.|... -+.|+ +.+..++...+.+
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            44455677888999999887777753  22334567777888899999999999999877 57776 7788899999999


Q ss_pred             cCChhHHHH--HHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHhC
Q 006388          457 HGNVEIGKW--AAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       457 ~~~~~~a~~--~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  507 (647)
                      .|+...|..  ++..+++.+|.++..|..|+.++-+.|+.++|.+.|+...+.
T Consensus       731 ~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qL  783 (799)
T KOG4162|consen  731 LGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLGDSKQAAECFQAALQL  783 (799)
T ss_pred             hCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccchHHHHHHHHHHHhh
Confidence            999888888  999999999999999999999999999999999999988754

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

Probab=99.32  E-value=9e-11  Score=121.42  Aligned_cols=267  Identities=18%  Similarity=0.177  Sum_probs=196.4

Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCC
Q 006388          261 KIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRD  340 (647)
Q Consensus       261 ~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~d  340 (647)
                      .++..+...|+.|+.+||..++.-||..|+.+.|. +|..|.-..++....+++.++......++.+.+.       .|.
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            45677889999999999999999999999999999 9999999999999999999999988888877765       677


Q ss_pred             hhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHH
Q 006388          341 EVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMID  420 (647)
Q Consensus       341 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~  420 (647)
                      ..+|+.|..+|.++||... ++..++           -...+...++..|.-..-..++..+.-.-+.-||..   ..+.
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            8899999999999999865 333333           122344455666665555555554322223445543   3556


Q ss_pred             HHHHcCCHHHHHHHHHhCCCCCChhhHHHHHHHHHhc-CChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHH
Q 006388          421 ILSRAGRLEEAKSFINKMPFPPDAIGWATLLSSCRIH-GNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQ  499 (647)
Q Consensus       421 ~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~-~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~  499 (647)
                      .+.-.|.++.+++++..+|...-......++.-+... ..+++-........+ .| ++.+|..+...-..+|+.+.|..
T Consensus       148 llv~eglwaqllkll~~~Pvsa~~~p~~vfLrqnv~~ntpvekLl~~cksl~e-~~-~s~~l~a~l~~alaag~~d~Ak~  225 (1088)
T KOG4318|consen  148 LLVLEGLWAQLLKLLAKVPVSAWNAPFQVFLRQNVVDNTPVEKLLNMCKSLVE-AP-TSETLHAVLKRALAAGDVDGAKN  225 (1088)
T ss_pred             HHHHHHHHHHHHHHHhhCCcccccchHHHHHHHhccCCchHHHHHHHHHHhhc-CC-ChHHHHHHHHHHHhcCchhhHHH
Confidence            6777899999999999997432211222235555443 344444444444444 44 78999999999999999999999


Q ss_pred             HHHHHHhCCCccCCCcceEeEcCeEEEEEecCCCCcchHHHHHHHHHHHHhhHhcCcccCCccccccc
Q 006388          500 LRRTMREKGVRKDPGCSWIKYKSRVHIFSADDWSSPYSDQIYAELEKLNRKMIKEGYVPDMSSVLHDV  567 (647)
Q Consensus       500 ~~~~m~~~g~~~~~~~s~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~l~~~m~~~g~~pd~~~~~~~~  567 (647)
                      +...|+++|+.-.+..-|..+-+      .++         ...++.+.+-|++.|+.|+..|...-+
T Consensus       226 ll~emke~gfpir~HyFwpLl~g------~~~---------~q~~e~vlrgmqe~gv~p~seT~adyv  278 (1088)
T KOG4318|consen  226 LLYEMKEKGFPIRAHYFWPLLLG------INA---------AQVFEFVLRGMQEKGVQPGSETQADYV  278 (1088)
T ss_pred             HHHHHHHcCCCcccccchhhhhc------Ccc---------chHHHHHHHHHHHhcCCCCcchhHHHH
Confidence            99999999999888877876544      111         235677889999999999999875433

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=99.32  E-value=3.4e-07  Score=92.29  Aligned_cols=379  Identities=14%  Similarity=0.126  Sum_probs=215.2

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHhhcCCCC--CeehHHHHHHHHHhC----------------C------ChhHHHHHHHH
Q 006388          109 VMYNTMITGLLRRGLVEESRRLFRGMKDK--DSISWTTMITGLMQN----------------G------LEREAIDLFRE  164 (647)
Q Consensus       109 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~li~~~~~~----------------g------~~~~A~~~~~~  164 (647)
                      ..|.+|..-|++.|.+++|..+|++..+.  .+.-++.+.++|++-                |      +++-.+.-|+.
T Consensus       249 ~Lw~SLAdYYIr~g~~ekarDvyeeai~~v~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~  328 (835)
T KOG2047|consen  249 FLWCSLADYYIRSGLFEKARDVYEEAIQTVMTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFES  328 (835)
T ss_pred             HHHHHHHHHHHHhhhhHHHHHHHHHHHHhheehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHH
Confidence            46888889999999999999999876653  233344444444332                1      11223333444


Q ss_pred             HHHCCCC----------C-ChhhHHHHHHHHhcCCChHHHHHHHHHHHHcC-----CCCchhHHHHHHHHHHhcCCHHHH
Q 006388          165 MRLEGLA----------M-DQFTFGSVLTACGGLLALEEGKQIHAFIIRND-----HKDNVFVGSALVDMYCKCKSIKYA  228 (647)
Q Consensus       165 m~~~g~~----------p-d~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g-----~~~~~~~~~~li~~y~~~g~~~~A  228 (647)
                      +...+..          | +..+|..-..  ...|+..+-...+.++++.-     ...-...|..+.+.|-..|+++.|
T Consensus       329 lm~rr~~~lNsVlLRQn~~nV~eW~kRV~--l~e~~~~~~i~tyteAv~~vdP~ka~Gs~~~Lw~~faklYe~~~~l~~a  406 (835)
T KOG2047|consen  329 LMNRRPLLLNSVLLRQNPHNVEEWHKRVK--LYEGNAAEQINTYTEAVKTVDPKKAVGSPGTLWVEFAKLYENNGDLDDA  406 (835)
T ss_pred             HHhccchHHHHHHHhcCCccHHHHHhhhh--hhcCChHHHHHHHHHHHHccCcccCCCChhhHHHHHHHHHHhcCcHHHH
Confidence            3332110          0 1111211111  22355666667777776642     112234688899999999999999


Q ss_pred             HHHHhcCCCCC-------hhHHHHHHHHHHhcCChhHHHHHHHHHHHCCC----------CC-------CHHHHHHHHHH
Q 006388          229 ESVFRTMAWKN-------VVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGI----------EP-------DDFTLGSVISS  284 (647)
Q Consensus       229 ~~~~~~~~~~~-------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~----------~p-------~~~t~~~ll~a  284 (647)
                      +.+|++...-+       ...|......=.+..+++.|+++.++....--          .|       +...|+..+..
T Consensus       407 Rvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~Dl  486 (835)
T KOG2047|consen  407 RVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADL  486 (835)
T ss_pred             HHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHH
Confidence            99999876532       23566666777788889999998887753211          11       11223333444


Q ss_pred             HhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcC----CCCh-hhHHHHHHHHHH---cCC
Q 006388          285 CANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMN----VRDE-VSWTALVSGYAK---FGK  356 (647)
Q Consensus       285 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~----~~d~-~~~~~li~~~~~---~g~  356 (647)
                      --..|-++..+.+++.+++..+.....+.| ..-.+-...-++++.+++++-.    -|++ ..|+.-+.-+.+   ...
T Consensus       487 eEs~gtfestk~vYdriidLriaTPqii~N-yAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~k  565 (835)
T KOG2047|consen  487 EESLGTFESTKAVYDRIIDLRIATPQIIIN-YAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTK  565 (835)
T ss_pred             HHHhccHHHHHHHHHHHHHHhcCCHHHHHH-HHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCC
Confidence            445678888888999988877544333333 3334556667889999998755    3343 368877776654   246


Q ss_pred             hHHHHHHHHHHHHCCCCCCHHHHHHHHHH--HhcCCcHHHHHHHHHHHHHhcCCCcC--hHHHHHHHHHHHHcCCHHHHH
Q 006388          357 ANETIDLFEKMLSHGLKPDEVTLIGVLSA--CSRAGLVEKGRHYFEIMVKEYGIRPI--HDHYTCMIDILSRAGRLEEAK  432 (647)
Q Consensus       357 ~~~A~~~~~~m~~~g~~p~~~t~~~ll~a--~~~~g~~~~a~~~~~~~~~~~~~~p~--~~~~~~li~~~~~~g~~~~A~  432 (647)
                      .+.|..+|++.++ |.+|...-+.-|+-|  =..-|....|..++++...  ++++.  ...|+..|.--+..=-+..-.
T Consensus       566 lEraRdLFEqaL~-~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat~--~v~~a~~l~myni~I~kaae~yGv~~TR  642 (835)
T KOG2047|consen  566 LERARDLFEQALD-GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERATS--AVKEAQRLDMYNIYIKKAAEIYGVPRTR  642 (835)
T ss_pred             HHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh--cCCHHHHHHHHHHHHHHHHHHhCCcccH
Confidence            7899999999998 677776644333332  2345888888888887754  44443  245665554322211111122


Q ss_pred             HHHHhC-CCCCChh---hHHHHHHHHHhcCChhHHHHHHHHHhccC-CC-CchhHHHHHHhhhhCCC
Q 006388          433 SFINKM-PFPPDAI---GWATLLSSCRIHGNVEIGKWAAESLLELD-PY-NPASYVLLSSIYASKGK  493 (647)
Q Consensus       433 ~~~~~~-~~~p~~~---~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-p~-~~~~~~~l~~~~~~~g~  493 (647)
                      ++++++ ..-|+..   ..--+...-.+.|..+.|..++....++- |. +...+...-..=.+.|+
T Consensus       643 ~iYekaIe~Lp~~~~r~mclrFAdlEtklGEidRARaIya~~sq~~dPr~~~~fW~twk~FEvrHGn  709 (835)
T KOG2047|consen  643 EIYEKAIESLPDSKAREMCLRFADLETKLGEIDRARAIYAHGSQICDPRVTTEFWDTWKEFEVRHGN  709 (835)
T ss_pred             HHHHHHHHhCChHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhhhcCCCcCChHHHHHHHHHHHhcCC
Confidence            222222 1112211   11122222345566666666666555543 32 33444444444455555

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=99.31  E-value=2.1e-07  Score=93.79  Aligned_cols=490  Identities=13%  Similarity=0.109  Sum_probs=279.9

Q ss_pred             ccHHHHHHHHHcCCChhHHHHHHHHHHHCC-CCCCCcchHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCchhhHHHHHH
Q 006388            7 VSWNLLISGHASHGSVNDAVKVYNLMLKDG-LGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGSPLVD   85 (647)
Q Consensus         7 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~   85 (647)
                      ..|-..+....++|+...-...|++.++.= + .--...|...++.....+-.+.+..++++-++..    +..-+-.|.
T Consensus       103 RIwl~Ylq~l~~Q~~iT~tR~tfdrALraLpv-tqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~~----P~~~eeyie  177 (835)
T KOG2047|consen  103 RIWLDYLQFLIKQGLITRTRRTFDRALRALPV-TQHDRIWDLYLKFVESHGLPETSIRVYRRYLKVA----PEAREEYIE  177 (835)
T ss_pred             HHHHHHHHHHHhcchHHHHHHHHHHHHHhCch-HhhccchHHHHHHHHhCCChHHHHHHHHHHHhcC----HHHHHHHHH
Confidence            457777777788888888888888777642 2 2234467778887778888888888888877653    233566677


Q ss_pred             HHHhcCChHHHHHHhccCCCC----------CchHHHHHHHHHHhcCCh---HHHHHHhhcCCCC--C--eehHHHHHHH
Q 006388           86 MYAKLGLIYDAKRGFDELPEK----------NIVMYNTMITGLLRRGLV---EESRRLFRGMKDK--D--SISWTTMITG  148 (647)
Q Consensus        86 ~~~~~g~~~~A~~~~~~~~~~----------~~~~~~~li~~~~~~g~~---~~A~~~~~~~~~~--~--~~~~~~li~~  148 (647)
                      .+++.+++++|.+.+..+...          +--.|..+-...++.-+.   -....+++.+..+  |  ...|++|.+-
T Consensus       178 ~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~rftDq~g~Lw~SLAdY  257 (835)
T KOG2047|consen  178 YLAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRRFTDQLGFLWCSLADY  257 (835)
T ss_pred             HHHhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhcccCcHHHHHHHHHHHHH
Confidence            788888888888888777642          223455544444433222   2334445555443  2  3468999999


Q ss_pred             HHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHhcCCC----------------------hHHHHHHHHHHHHcCC-
Q 006388          149 LMQNGLEREAIDLFREMRLEGLAMDQFTFGSVLTACGGLLA----------------------LEEGKQIHAFIIRNDH-  205 (647)
Q Consensus       149 ~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~----------------------~~~a~~~~~~~~~~g~-  205 (647)
                      |.+.|.+++|.++|++..+.-  .....|..+.++|+.-..                      ++....-++.+..... 
T Consensus       258 YIr~g~~ekarDvyeeai~~v--~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~~  335 (835)
T KOG2047|consen  258 YIRSGLFEKARDVYEEAIQTV--MTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRRPL  335 (835)
T ss_pred             HHHhhhhHHHHHHHHHHHHhh--eehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhccch
Confidence            999999999999998877642  244456667777653211                      1111122222222110 


Q ss_pred             ----------CCchhHHHHHHHHHHhcCCHHHHHHHHhcCC-------CC--ChhHHHHHHHHHHhcCChhHHHHHHHHH
Q 006388          206 ----------KDNVFVGSALVDMYCKCKSIKYAESVFRTMA-------WK--NVVSWTAMLVGYGQNGCSEEAVKIFCNM  266 (647)
Q Consensus       206 ----------~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~-------~~--~~~~~~~li~~~~~~g~~~~A~~~~~~m  266 (647)
                                +.++..|..-+..|  .|+..+-...|.+..       .+  -...|..+...|-.+|+.+.|..+|++.
T Consensus       336 ~lNsVlLRQn~~nV~eW~kRV~l~--e~~~~~~i~tyteAv~~vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka  413 (835)
T KOG2047|consen  336 LLNSVLLRQNPHNVEEWHKRVKLY--EGNAAEQINTYTEAVKTVDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKA  413 (835)
T ss_pred             HHHHHHHhcCCccHHHHHhhhhhh--cCChHHHHHHHHHHHHccCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHh
Confidence                      01111111111111  122222233332221       11  1134666777777777777777777766


Q ss_pred             HHCCCCCC---HHHHHHHHHHHhccCChHHHHHHHHHHHHhC-----------CCc------chhHHHHHHHHHHhcCCH
Q 006388          267 QRNGIEPD---DFTLGSVISSCANLASLEEGTQFHGRSLVTG-----------LIS------FITVSNALVTFYGKCGNI  326 (647)
Q Consensus       267 ~~~g~~p~---~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~-----------~~~------~~~~~~~li~~~~~~g~~  326 (647)
                      .+-..+--   ..+|..-...=.+..+++.|..+.+......           .++      +..+|..+++.--..|-+
T Consensus       414 ~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtf  493 (835)
T KOG2047|consen  414 TKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGTF  493 (835)
T ss_pred             hcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccH
Confidence            65432111   1122222222223445556666555543211           111      123444455555566667


Q ss_pred             HHHHHHHhhcCCCChhhHHHHH---HHHHHcCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHh---cCCcHHHHHHHH
Q 006388          327 EDSHRLFNEMNVRDEVSWTALV---SGYAKFGKANETIDLFEKMLSHGLKPDEV-TLIGVLSACS---RAGLVEKGRHYF  399 (647)
Q Consensus       327 ~~A~~~~~~~~~~d~~~~~~li---~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~---~~g~~~~a~~~~  399 (647)
                      +....+++++..--+.|=..++   .-+-.+.-++++.++|++-+..=-.|+.. .|+..|.-+.   ....++.|+.+|
T Consensus       494 estk~vYdriidLriaTPqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEraRdLF  573 (835)
T KOG2047|consen  494 ESTKAVYDRIIDLRIATPQIIINYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERARDLF  573 (835)
T ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHHHHHH
Confidence            7777777666532221111111   11234555777777777765543345554 5555554433   244789999999


Q ss_pred             HHHHHhcCCCcChH--HHHHHHHHHHHcCCHHHHHHHHHhC--CCCCC--hhhHHHHHHHHHhcCChhHHHHHHHHHhcc
Q 006388          400 EIMVKEYGIRPIHD--HYTCMIDILSRAGRLEEAKSFINKM--PFPPD--AIGWATLLSSCRIHGNVEIGKWAAESLLEL  473 (647)
Q Consensus       400 ~~~~~~~~~~p~~~--~~~~li~~~~~~g~~~~A~~~~~~~--~~~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  473 (647)
                      +...+  +.+|...  .|-.....=.+-|....|.++++++  .+++.  ...|+..|.--...=-+.....+++++++.
T Consensus       574 EqaL~--~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat~~v~~a~~l~myni~I~kaae~yGv~~TR~iYekaIe~  651 (835)
T KOG2047|consen  574 EQALD--GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERATSAVKEAQRLDMYNIYIKKAAEIYGVPRTREIYEKAIES  651 (835)
T ss_pred             HHHHh--cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhCCcccHHHHHHHHHh
Confidence            99987  7776532  2333333334668899999999998  34443  456777776544433355677889999998


Q ss_pred             CCCCch--hHHHHHHhhhhCCChhHHHHHHHHHHhC
Q 006388          474 DPYNPA--SYVLLSSIYASKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       474 ~p~~~~--~~~~l~~~~~~~g~~~~a~~~~~~m~~~  507 (647)
                      -|++..  ...-.+..=.+.|..+.|+.++..-.+-
T Consensus       652 Lp~~~~r~mclrFAdlEtklGEidRARaIya~~sq~  687 (835)
T KOG2047|consen  652 LPDSKAREMCLRFADLETKLGEIDRARAIYAHGSQI  687 (835)
T ss_pred             CChHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhhhc
Confidence            886432  3345567778999999999999876543

>PF13041 PPR_2: PPR repeat family

Probab=99.29  E-value=5e-12  Score=86.81  Aligned_cols=50  Identities=28%  Similarity=0.446  Sum_probs=48.1

Q ss_pred             CCcccHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCCcchHHHHHHHHhC
Q 006388            4 HDGVSWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSS   54 (647)
Q Consensus         4 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~~ll~~~~~   54 (647)
                      ||+++||++|++|++.|++++|+++|++|.+.|+ +||..||+.++++|++
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~-~P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGI-KPDSYTYNILINGLCK   50 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHHcC
Confidence            8999999999999999999999999999999999 9999999999999864

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.28  E-value=1.4e-08  Score=94.84  Aligned_cols=469  Identities=11%  Similarity=0.094  Sum_probs=259.5

Q ss_pred             HHHHHcCCChhHHHHHHHHHHHCCCCCCCcchHHHH-HHHHhCCCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHHhcC
Q 006388           13 ISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTM-LIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGSPLVDMYAKLG   91 (647)
Q Consensus        13 i~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~~l-l~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g   91 (647)
                      +.-+..+.++..|+.+++--...+-  -.......- ..++...|++++|...+..+.... .++...+..|.-.+.-.|
T Consensus        29 Ledfls~rDytGAislLefk~~~~~--EEE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~~-~~~~el~vnLAcc~FyLg  105 (557)
T KOG3785|consen   29 LEDFLSNRDYTGAISLLEFKLNLDR--EEEDSLQLWIAHCYFHLGDYEEALNVYTFLMNKD-DAPAELGVNLACCKFYLG  105 (557)
T ss_pred             HHHHHhcccchhHHHHHHHhhccch--hhhHHHHHHHHHHHHhhccHHHHHHHHHHHhccC-CCCcccchhHHHHHHHHH
Confidence            4556678899999999987775542  222233333 344568899999999998887754 566666777777777788


Q ss_pred             ChHHHHHHhccCCCCCchHHHHHHHHHHhcCChHHHHHHhhcCCCCCeehHHHHHHHHHhCCChhHHHHHHHHHHHCCCC
Q 006388           92 LIYDAKRGFDELPEKNIVMYNTMITGLLRRGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLEREAIDLFREMRLEGLA  171 (647)
Q Consensus        92 ~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  171 (647)
                      .+.+|..+-...++. .-.-..|....-+.++-++-..+-+.+.. ...---+|.+.....-.+.+|+++|.+....+  
T Consensus       106 ~Y~eA~~~~~ka~k~-pL~~RLlfhlahklndEk~~~~fh~~LqD-~~EdqLSLAsvhYmR~HYQeAIdvYkrvL~dn--  181 (557)
T KOG3785|consen  106 QYIEAKSIAEKAPKT-PLCIRLLFHLAHKLNDEKRILTFHSSLQD-TLEDQLSLASVHYMRMHYQEAIDVYKRVLQDN--  181 (557)
T ss_pred             HHHHHHHHHhhCCCC-hHHHHHHHHHHHHhCcHHHHHHHHHHHhh-hHHHHHhHHHHHHHHHHHHHHHHHHHHHHhcC--
Confidence            999999887776532 22222333444455555544444433332 22222334444444456788888888877643  


Q ss_pred             CChhhHHHHHH-HHhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhc--CCHHHH--HHHHhcCCCCChhHHHHH
Q 006388          172 MDQFTFGSVLT-ACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKC--KSIKYA--ESVFRTMAWKNVVSWTAM  246 (647)
Q Consensus       172 pd~~t~~~ll~-~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~--g~~~~A--~~~~~~~~~~~~~~~~~l  246 (647)
                      |+-...+.-+. .|.+..-++-+.+++..-++. ++.+...-|.......+.  |+..++  .++-+...+.    |. .
T Consensus       182 ~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q-~pdStiA~NLkacn~fRl~ngr~ae~E~k~ladN~~~~----~~-f  255 (557)
T KOG3785|consen  182 PEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQ-FPDSTIAKNLKACNLFRLINGRTAEDEKKELADNIDQE----YP-F  255 (557)
T ss_pred             hhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHh-CCCcHHHHHHHHHHHhhhhccchhHHHHHHHHhccccc----ch-h
Confidence            44444444333 445677777777777766654 233344444433333322  322221  2222222111    10 1


Q ss_pred             HHHHHhc-----CChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhH-----HHHH
Q 006388          247 LVGYGQN-----GCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITV-----SNAL  316 (647)
Q Consensus       247 i~~~~~~-----g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~-----~~~l  316 (647)
                      +.-.++.     .+-+.|++++-.+.+.  -|..  -..++--+.+.+++.+|..+...+.-  ..|...+     +.++
T Consensus       256 ~~~l~rHNLVvFrngEgALqVLP~L~~~--IPEA--RlNL~iYyL~q~dVqeA~~L~Kdl~P--ttP~EyilKgvv~aal  329 (557)
T KOG3785|consen  256 IEYLCRHNLVVFRNGEGALQVLPSLMKH--IPEA--RLNLIIYYLNQNDVQEAISLCKDLDP--TTPYEYILKGVVFAAL  329 (557)
T ss_pred             HHHHHHcCeEEEeCCccHHHhchHHHhh--ChHh--hhhheeeecccccHHHHHHHHhhcCC--CChHHHHHHHHHHHHh
Confidence            1111111     2234455554443321  1211  11222234445555554444322210  0111111     1122


Q ss_pred             HHHHHhcCCHHHHHHHHhhcCCC----C-hhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCc
Q 006388          317 VTFYGKCGNIEDSHRLFNEMNVR----D-EVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGL  391 (647)
Q Consensus       317 i~~~~~~g~~~~A~~~~~~~~~~----d-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~  391 (647)
                      .+-......+.-|.+.|+-....    | +.--.+|.+.+.-..++++++-.+.....- +.-|...--.+..|.+..|+
T Consensus       330 GQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sY-F~NdD~Fn~N~AQAk~atgn  408 (557)
T KOG3785|consen  330 GQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESY-FTNDDDFNLNLAQAKLATGN  408 (557)
T ss_pred             hhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHH-hcCcchhhhHHHHHHHHhcC
Confidence            22222223345566666554322    2 233455666666677788888777777664 33344444456778888899


Q ss_pred             HHHHHHHHHHHHHhcCCCcChHHH-HHHHHHHHHcCCHHHHHHHHHhCCCCCChhhHHH-HHHHHHhcCChhHHHHHHHH
Q 006388          392 VEKGRHYFEIMVKEYGIRPIHDHY-TCMIDILSRAGRLEEAKSFINKMPFPPDAIGWAT-LLSSCRIHGNVEIGKWAAES  469 (647)
Q Consensus       392 ~~~a~~~~~~~~~~~~~~p~~~~~-~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~-ll~~~~~~~~~~~a~~~~~~  469 (647)
                      +.+|.++|-.+... .+ .+..+| ..|...|.+++..+-|++++-++..+.+..+... +.+-|.+.+++--|-++|+.
T Consensus       409 y~eaEelf~~is~~-~i-kn~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~  486 (557)
T KOG3785|consen  409 YVEAEELFIRISGP-EI-KNKILYKSMLARCYIRNKKPQLAWDMMLKTNTPSERFSLLQLIANDCYKANEFYYAAKAFDE  486 (557)
T ss_pred             hHHHHHHHhhhcCh-hh-hhhHHHHHHHHHHHHhcCCchHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHHHHHHhhhH
Confidence            99999988766421 22 234444 4566788899999999999988864444444444 44568888999889999998


Q ss_pred             HhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHhCCCccCC
Q 006388          470 LLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREKGVRKDP  513 (647)
Q Consensus       470 ~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~~~~  513 (647)
                      +..++| +|..|         .|+--....+|..+....-+|.|
T Consensus       487 lE~lDP-~pEnW---------eGKRGACaG~f~~l~~~~~~~~p  520 (557)
T KOG3785|consen  487 LEILDP-TPENW---------EGKRGACAGLFRQLANHKTDPIP  520 (557)
T ss_pred             HHccCC-Ccccc---------CCccchHHHHHHHHHcCCCCCCc
Confidence            888888 34443         35555556677766655444444

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

Probab=99.27  E-value=1e-08  Score=97.70  Aligned_cols=282  Identities=11%  Similarity=0.027  Sum_probs=179.9

Q ss_pred             CCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHHhcCChHHHHHHhccCCCC----CchHHHHHHHHHHhcCChHHHHHH
Q 006388           55 RRCVDLGRQIHGHILKFGFGSYVFVGSPLVDMYAKLGLIYDAKRGFDELPEK----NIVMYNTMITGLLRRGLVEESRRL  130 (647)
Q Consensus        55 ~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~----~~~~~~~li~~~~~~g~~~~A~~~  130 (647)
                      .|++.+|.+....-.+.+-.| ...|..-+.+--..|+.+.|-+++.+..++    +...+-+........|+.+.|..-
T Consensus        97 eG~~~qAEkl~~rnae~~e~p-~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~  175 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQP-VLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAAREN  175 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcch-HHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHH
Confidence            477777777777766665332 233334445555667777777777776643    233444555556666666666655


Q ss_pred             hhcCC---CCCeehHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCC
Q 006388          131 FRGMK---DKDSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKD  207 (647)
Q Consensus       131 ~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~  207 (647)
                      .++..   .+++.......+.|.+.|++.+...++..|.+.|+--|+..                 .++           
T Consensus       176 v~~ll~~~pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~-----------------~~l-----------  227 (400)
T COG3071         176 VDQLLEMTPRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEA-----------------ARL-----------  227 (400)
T ss_pred             HHHHHHhCcCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHH-----------------HHH-----------
Confidence            54433   34666777777888888888888888888887775433211                 111           


Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 006388          208 NVFVGSALVDMYCKCKSIKYAESVFRTMAW---KNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISS  284 (647)
Q Consensus       208 ~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a  284 (647)
                      ...+++.+++-....+..+.-...++..+.   .++..-.+++.-+.+.|+.++|.++..+..+.+..|+..    .+-.
T Consensus       228 e~~a~~glL~q~~~~~~~~gL~~~W~~~pr~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L~----~~~~  303 (400)
T COG3071         228 EQQAWEGLLQQARDDNGSEGLKTWWKNQPRKLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRLC----RLIP  303 (400)
T ss_pred             HHHHHHHHHHHHhccccchHHHHHHHhccHHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhHH----HHHh
Confidence            112344444444444444444555666553   256666677788888889999998888888887766622    2234


Q ss_pred             HhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcC--CCChhhHHHHHHHHHHcCChHHHHH
Q 006388          285 CANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMN--VRDEVSWTALVSGYAKFGKANETID  362 (647)
Q Consensus       285 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~--~~d~~~~~~li~~~~~~g~~~~A~~  362 (647)
                      +.+.++.+.-.+..+.-.+.. +.++..+.+|...|.+.+.+.+|...|+...  .++..+|+.+..+|.+.|+..+|.+
T Consensus       304 ~l~~~d~~~l~k~~e~~l~~h-~~~p~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s~~~~~~la~~~~~~g~~~~A~~  382 (400)
T COG3071         304 RLRPGDPEPLIKAAEKWLKQH-PEDPLLLSTLGRLALKNKLWGKASEALEAALKLRPSASDYAELADALDQLGEPEEAEQ  382 (400)
T ss_pred             hcCCCCchHHHHHHHHHHHhC-CCChhHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCChhhHHHHHHHHHHcCChHHHHH
Confidence            456666666655555554432 3344677788888888888888888887655  5677778888888888888888888


Q ss_pred             HHHHHHHC
Q 006388          363 LFEKMLSH  370 (647)
Q Consensus       363 ~~~~m~~~  370 (647)
                      .+++....
T Consensus       383 ~r~e~L~~  390 (400)
T COG3071         383 VRREALLL  390 (400)
T ss_pred             HHHHHHHH
Confidence            77776543

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.25  E-value=2.3e-09  Score=109.53  Aligned_cols=230  Identities=17%  Similarity=0.218  Sum_probs=165.6

Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHHHHh-----C-CCcch-hHHHHHHHHHHhcCCHHHHHHHHhhcC-------CC-C
Q 006388          276 FTLGSVISSCANLASLEEGTQFHGRSLVT-----G-LISFI-TVSNALVTFYGKCGNIEDSHRLFNEMN-------VR-D  340 (647)
Q Consensus       276 ~t~~~ll~a~~~~~~~~~a~~~~~~~~~~-----~-~~~~~-~~~~~li~~~~~~g~~~~A~~~~~~~~-------~~-d  340 (647)
                      .|...+...|...|+++.|..++...++.     | ..+.+ ...+.+..+|...+++++|..+|+++.       .+ +
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            45555667777777777777777766554     1 12222 223446777888888888887777664       11 1


Q ss_pred             ---hhhHHHHHHHHHHcCChHHHHHHHHHHHH-----CCCCC-CHH-HHHHHHHHHhcCCcHHHHHHHHHHHHHhcC--C
Q 006388          341 ---EVSWTALVSGYAKFGKANETIDLFEKMLS-----HGLKP-DEV-TLIGVLSACSRAGLVEKGRHYFEIMVKEYG--I  408 (647)
Q Consensus       341 ---~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~g~~p-~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~--~  408 (647)
                         ..+++.|..+|.+.|++++|..++++..+     .|..+ ... -++.+...|...+.+++|..+++...+.+.  +
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               34567777778888888887777766543     22222 222 566677788999999999999987766543  2


Q ss_pred             CcC----hHHHHHHHHHHHHcCCHHHHHHHHHhC-------C--CCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHhc--
Q 006388          409 RPI----HDHYTCMIDILSRAGRLEEAKSFINKM-------P--FPPD-AIGWATLLSSCRIHGNVEIGKWAAESLLE--  472 (647)
Q Consensus       409 ~p~----~~~~~~li~~~~~~g~~~~A~~~~~~~-------~--~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~--  472 (647)
                      .++    ..+++.|..+|...|++++|.++++++       .  ..+. ...++.|...|.+.+++++|.++|.+...  
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    367999999999999999999999877       1  2232 55678899999999999999999887654  


Q ss_pred             --cCCCC---chhHHHHHHhhhhCCChhHHHHHHHHHH
Q 006388          473 --LDPYN---PASYVLLSSIYASKGKWDHVSQLRRTMR  505 (647)
Q Consensus       473 --~~p~~---~~~~~~l~~~~~~~g~~~~a~~~~~~m~  505 (647)
                        .+|+.   ..+|..|+.+|...|++++|.++.+...
T Consensus       440 ~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  440 KLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             HHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence              34543   4678899999999999999999998875

>PF13041 PPR_2: PPR repeat family

Probab=99.25  E-value=2.1e-11  Score=83.64  Aligned_cols=50  Identities=36%  Similarity=0.639  Sum_probs=47.0

Q ss_pred             CChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc
Q 006388          339 RDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSR  388 (647)
Q Consensus       339 ~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~  388 (647)
                      ||+.+||++|.+|++.|++++|.++|++|.+.|+.||..||+.++++|++
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

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

Probab=99.24  E-value=1e-07  Score=91.09  Aligned_cols=305  Identities=13%  Similarity=0.023  Sum_probs=214.6

Q ss_pred             CCCChhhHHHHHHHHh--cCCChHHHHHHHHHHHH-cCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHH
Q 006388          170 LAMDQFTFGSVLTACG--GLLALEEGKQIHAFIIR-NDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWKNVVSWTAM  246 (647)
Q Consensus       170 ~~pd~~t~~~ll~~~~--~~~~~~~a~~~~~~~~~-~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~l  246 (647)
                      +.|...+...-+.+++  ..++-..+.+.+..+.+ .-++.|+.....+.+.|...|+.++|...|++...-|+.+...|
T Consensus       190 ~~~~~dwls~wika~Aq~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dpy~i~~M  269 (564)
T KOG1174|consen  190 VPDHFDWLSKWIKALAQMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCANPDNVEAM  269 (564)
T ss_pred             cCCCccHHHHHHHHHHHHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCChhhhhhH
Confidence            3344444444455443  33444444444444433 34678889999999999999999999999998776555443332


Q ss_pred             ---HHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhc
Q 006388          247 ---LVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKC  323 (647)
Q Consensus       247 ---i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  323 (647)
                         .-.+.+.|+.++...+...+.... +-+...|..-+...-..++++.|..+-+..++.+ +.+...+-.-...+...
T Consensus       270 D~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~-~r~~~alilKG~lL~~~  347 (564)
T KOG1174|consen  270 DLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVEKCIDSE-PRNHEALILKGRLLIAL  347 (564)
T ss_pred             HHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccC-cccchHHHhccHHHHhc
Confidence               334567888888888877776532 1122222222233345567777777777776654 23344444445667778


Q ss_pred             CCHHHHHHHHhhcC--C-CChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHH-HHHh-cCCcHHHHHHH
Q 006388          324 GNIEDSHRLFNEMN--V-RDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVL-SACS-RAGLVEKGRHY  398 (647)
Q Consensus       324 g~~~~A~~~~~~~~--~-~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll-~a~~-~~g~~~~a~~~  398 (647)
                      |+.++|.-.|+...  . -+..+|.-|+.+|...|++.+|..+-+..... +..+..+++.+. ..|. ....-++|..+
T Consensus       348 ~R~~~A~IaFR~Aq~Lap~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf  426 (564)
T KOG1174|consen  348 ERHTQAVIAFRTAQMLAPYRLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKF  426 (564)
T ss_pred             cchHHHHHHHHHHHhcchhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHH
Confidence            99999999998765  3 48889999999999999999999887776553 344555655552 3333 34456788888


Q ss_pred             HHHHHHhcCCCcC-hHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCC
Q 006388          399 FEIMVKEYGIRPI-HDHYTCMIDILSRAGRLEEAKSFINKM-PFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPY  476 (647)
Q Consensus       399 ~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~  476 (647)
                      ++...   .+.|+ ....+.+..++.+.|..+++..++++. ...||....+.|...++..+.+.+|...|..++.++|+
T Consensus       427 ~ek~L---~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~dP~  503 (564)
T KOG1174|consen  427 AEKSL---KINPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLIIFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQDPK  503 (564)
T ss_pred             HHhhh---ccCCccHHHHHHHHHHHHhhCccchHHHHHHHHHhhccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCcc
Confidence            88765   45665 456677888999999999999999887 66789999999999999999999999999999999998


Q ss_pred             Cchh
Q 006388          477 NPAS  480 (647)
Q Consensus       477 ~~~~  480 (647)
                      +..+
T Consensus       504 ~~~s  507 (564)
T KOG1174|consen  504 SKRT  507 (564)
T ss_pred             chHH
Confidence            7533

>PRK12370 invasion protein regulator; Provisional

Probab=99.22  E-value=3.4e-09  Score=113.72  Aligned_cols=260  Identities=11%  Similarity=0.024  Sum_probs=187.9

Q ss_pred             ChhHHHHHHHHHHh-----cCChhHHHHHHHHHHHCCCCCCHH-HHHHHHHHHh---------ccCChHHHHHHHHHHHH
Q 006388          239 NVVSWTAMLVGYGQ-----NGCSEEAVKIFCNMQRNGIEPDDF-TLGSVISSCA---------NLASLEEGTQFHGRSLV  303 (647)
Q Consensus       239 ~~~~~~~li~~~~~-----~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~---------~~~~~~~a~~~~~~~~~  303 (647)
                      +..+|...+.+-..     .+..++|+.+|++..+.  .|+.. .+..+..++.         ..++.++|...++++++
T Consensus       255 ~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~l--dP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~  332 (553)
T PRK12370        255 SIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNM--SPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATE  332 (553)
T ss_pred             ChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHh
Confidence            45566666665322     23467899999998875  56543 3433333322         23457899999999888


Q ss_pred             hCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcC--CC-ChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHH-HH
Q 006388          304 TGLISFITVSNALVTFYGKCGNIEDSHRLFNEMN--VR-DEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEV-TL  379 (647)
Q Consensus       304 ~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~--~~-d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~  379 (647)
                      .+ +.+...+..+...+...|++++|...|++..  .| +...|..+...+...|++++|+..+++..+.  .|+.. .+
T Consensus       333 ld-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l--~P~~~~~~  409 (553)
T PRK12370        333 LD-HNNPQALGLLGLINTIHSEYIVGSLLFKQANLLSPISADIKYYYGWNLFMAGQLEEALQTINECLKL--DPTRAAAG  409 (553)
T ss_pred             cC-CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCChhhH
Confidence            76 5567788888999999999999999999876  33 5668888999999999999999999999985  45533 33


Q ss_pred             HHHHHHHhcCCcHHHHHHHHHHHHHhcCCCc-ChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-hhhHHHHHHHHHh
Q 006388          380 IGVLSACSRAGLVEKGRHYFEIMVKEYGIRP-IHDHYTCMIDILSRAGRLEEAKSFINKM-PFPPD-AIGWATLLSSCRI  456 (647)
Q Consensus       380 ~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~  456 (647)
                      ..++..+...|++++|...+++..+.  ..| +...+..+...|...|++++|.+.+.++ +..|+ ...++.+...+..
T Consensus       410 ~~~~~~~~~~g~~eeA~~~~~~~l~~--~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~~~~~l~~~~~~  487 (553)
T PRK12370        410 ITKLWITYYHTGIDDAIRLGDELRSQ--HLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLIAVNLLYAEYCQ  487 (553)
T ss_pred             HHHHHHHHhccCHHHHHHHHHHHHHh--ccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHHHHHHHHHHHhc
Confidence            33444566689999999999988753  234 4556778888999999999999999987 44555 4455566666677


Q ss_pred             cCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHhCC
Q 006388          457 HGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREKG  508 (647)
Q Consensus       457 ~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g  508 (647)
                      .|  +.|...++++.+..-..+..+..+..+|+-.|+-+.+..+ +++.+.|
T Consensus       488 ~g--~~a~~~l~~ll~~~~~~~~~~~~~~~~~~~~g~~~~~~~~-~~~~~~~  536 (553)
T PRK12370        488 NS--ERALPTIREFLESEQRIDNNPGLLPLVLVAHGEAIAEKMW-NKFKNED  536 (553)
T ss_pred             cH--HHHHHHHHHHHHHhhHhhcCchHHHHHHHHHhhhHHHHHH-HHhhccc
Confidence            77  4788878877764433333334477888888998888777 7777654

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

Probab=99.20  E-value=2.5e-07  Score=92.09  Aligned_cols=276  Identities=13%  Similarity=0.069  Sum_probs=211.1

Q ss_pred             CCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCCh---hHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHH
Q 006388          206 KDNVFVGSALVDMYCKCKSIKYAESVFRTMAWKNV---VSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVI  282 (647)
Q Consensus       206 ~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll  282 (647)
                      ..+..+.....+-+...+++.+..++++.+.+.|+   ..+..-|..+...|+..+-..+=.+|.+. .+-...+|-++.
T Consensus       241 ~~~~dll~~~ad~~y~~c~f~~c~kit~~lle~dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~-yP~~a~sW~aVg  319 (611)
T KOG1173|consen  241 AENLDLLAEKADRLYYGCRFKECLKITEELLEKDPFHLPCLPLHIACLYELGKSNKLFLLSHKLVDL-YPSKALSWFAVG  319 (611)
T ss_pred             hhcHHHHHHHHHHHHHcChHHHHHHHhHHHHhhCCCCcchHHHHHHHHHHhcccchHHHHHHHHHHh-CCCCCcchhhHH
Confidence            44556666777778888999999999998876554   45566677889999999888888888876 344568898988


Q ss_pred             HHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHHHHHcCChHH
Q 006388          283 SSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMN---VRDEVSWTALVSGYAKFGKANE  359 (647)
Q Consensus       283 ~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~d~~~~~~li~~~~~~g~~~~  359 (647)
                      --|...|+.++|++.+......+ +.-...|-.+...|+-.|.-++|...+....   ......+--+.--|.+.++.+-
T Consensus       320 ~YYl~i~k~seARry~SKat~lD-~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~hlP~LYlgmey~~t~n~kL  398 (611)
T KOG1173|consen  320 CYYLMIGKYSEARRYFSKATTLD-PTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCHLPSLYLGMEYMRTNNLKL  398 (611)
T ss_pred             HHHHHhcCcHHHHHHHHHHhhcC-ccccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCcchHHHHHHHHHHhccHHH
Confidence            88888899999999999877654 3345678888999999999999888776543   1122223334556788899999


Q ss_pred             HHHHHHHHHHCCCCCCHH-HHHHHHHHHhcCCcHHHHHHHHHHHHHhc-CCC----cChHHHHHHHHHHHHcCCHHHHHH
Q 006388          360 TIDLFEKMLSHGLKPDEV-TLIGVLSACSRAGLVEKGRHYFEIMVKEY-GIR----PIHDHYTCMIDILSRAGRLEEAKS  433 (647)
Q Consensus       360 A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~-~~~----p~~~~~~~li~~~~~~g~~~~A~~  433 (647)
                      |.+.|.+...  +.|+.. ..+-+.-..-+.+.+.+|..+|+...... .+.    .-..+++.|..+|.+.+.+++|+.
T Consensus       399 Ae~Ff~~A~a--i~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~  476 (611)
T KOG1173|consen  399 AEKFFKQALA--IAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAID  476 (611)
T ss_pred             HHHHHHHHHh--cCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHH
Confidence            9999998876  566554 55555545556789999999998876211 111    134568889999999999999999


Q ss_pred             HHHhC-C-CCCChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHH
Q 006388          434 FINKM-P-FPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLS  485 (647)
Q Consensus       434 ~~~~~-~-~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~  485 (647)
                      .+++. . .+.+..++.++.-.+...|+++.|...|.+++.+.|+|..+-..|.
T Consensus       477 ~~q~aL~l~~k~~~~~asig~iy~llgnld~Aid~fhKaL~l~p~n~~~~~lL~  530 (611)
T KOG1173|consen  477 YYQKALLLSPKDASTHASIGYIYHLLGNLDKAIDHFHKALALKPDNIFISELLK  530 (611)
T ss_pred             HHHHHHHcCCCchhHHHHHHHHHHHhcChHHHHHHHHHHHhcCCccHHHHHHHH
Confidence            99987 3 3447889999999999999999999999999999998865544443

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.20  E-value=9.1e-07  Score=93.43  Aligned_cols=465  Identities=13%  Similarity=0.124  Sum_probs=268.1

Q ss_pred             HHHHHHHHHcCCChhHHHHHHHHHHHCC--CCCCCcchHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCchhhHHHHHHH
Q 006388            9 WNLLISGHASHGSVNDAVKVYNLMLKDG--LGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGSPLVDM   86 (647)
Q Consensus         9 ~~~li~~~~~~g~~~~A~~~~~~m~~~g--~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~   86 (647)
                      |-.+.+.|.++|-+..|++.|.+.....  +...+... .--+-.+...-.++.+.+.+..|+..++..+..+...+..-
T Consensus       609 ra~IAqLCEKAGL~qraLehytDl~DIKR~vVhth~L~-pEwLv~yFg~lsve~s~eclkaml~~NirqNlQi~VQvatk  687 (1666)
T KOG0985|consen  609 RAEIAQLCEKAGLLQRALEHYTDLYDIKRVVVHTHLLN-PEWLVNYFGSLSVEDSLECLKAMLSANIRQNLQIVVQVATK  687 (1666)
T ss_pred             HHHHHHHHHhcchHHHHHHhcccHHHHHHHHHHhccCC-HHHHHHHHHhcCHHHHHHHHHHHHHHHHHhhhHHHHHHHHH
Confidence            7788899999999999998887765321  00000000 11122344445678888888889888888888888777777


Q ss_pred             HHhcCChHHHHHHhccCCC---------------CCchHHHHHHHHHHhcCChHHHHHHhhcCCC---------------
Q 006388           87 YAKLGLIYDAKRGFDELPE---------------KNIVMYNTMITGLLRRGLVEESRRLFRGMKD---------------  136 (647)
Q Consensus        87 ~~~~g~~~~A~~~~~~~~~---------------~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---------------  136 (647)
                      |...=-.+.-.++|+....               .|....-..|.+.++.|++.+.+++.++-.-               
T Consensus       688 y~eqlg~~~li~lFE~fks~eGL~yfLgSivn~seDpevh~KYIqAA~kt~QikEvERicresn~YdpErvKNfLkeAkL  767 (1666)
T KOG0985|consen  688 YHEQLGAQALIELFESFKSYEGLYYFLGSIVNFSEDPEVHFKYIQAACKTGQIKEVERICRESNCYDPERVKNFLKEAKL  767 (1666)
T ss_pred             HHHHhCHHHHHHHHHhhccchhHHHHHHHHhccccCchHHHHHHHHHHhhccHHHHHHHHhccccCCHHHHHHHHHhccc
Confidence            8777677777788877652               4555666788899999999988888765321               


Q ss_pred             ----C-----C-------eehH------HHHHHHHHhCCChhHHHHHHHHHHHCCCCC-----------ChhhHHHHHHH
Q 006388          137 ----K-----D-------SISW------TTMITGLMQNGLEREAIDLFREMRLEGLAM-----------DQFTFGSVLTA  183 (647)
Q Consensus       137 ----~-----~-------~~~~------~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-----------d~~t~~~ll~~  183 (647)
                          |     |       .+.|      --.|..|.+.=++...-.+...+......-           ..+....+..-
T Consensus       768 ~DqlPLiiVCDRf~fVhdlvlYLyrnn~~kyIE~yVQkvNps~~p~VvG~LLD~dC~E~~ik~Li~~v~gq~~~deLv~E  847 (1666)
T KOG0985|consen  768 TDQLPLIIVCDRFDFVHDLVLYLYRNNLQKYIEIYVQKVNPSRTPQVVGALLDVDCSEDFIKNLILSVRGQFPVDELVEE  847 (1666)
T ss_pred             cccCceEEEecccccHHHHHHHHHHhhHHHHHHHHHhhcCCcccchhhhhhhcCCCcHHHHHHHHHHHhccCChHHHHHH
Confidence                1     1       1111      012233333322222222222111111000           00111122223


Q ss_pred             HhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHH-------------------------------------
Q 006388          184 CGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIK-------------------------------------  226 (647)
Q Consensus       184 ~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~-------------------------------------  226 (647)
                      +-+.+++..-...++..+..| ..|..++|+|...|...++-.                                     
T Consensus       848 vEkRNRLklLlp~LE~~i~eG-~~d~a~hnAlaKIyIDSNNnPE~fLkeN~yYDs~vVGkYCEKRDP~lA~vaYerGqcD  926 (1666)
T KOG0985|consen  848 VEKRNRLKLLLPWLESLIQEG-SQDPATHNALAKIYIDSNNNPERFLKENPYYDSKVVGKYCEKRDPHLACVAYERGQCD  926 (1666)
T ss_pred             HHhhhhHHHHHHHHHHHHhcc-CcchHHHhhhhheeecCCCChHHhcccCCcchhhHHhhhhcccCCceEEEeecccCCc
Confidence            334444555555555556666 346667777777666544211                                     


Q ss_pred             ---------------------------HHHHHHhc-----------CC------CCChhHHHHHHHHHHhcCChhHHHHH
Q 006388          227 ---------------------------YAESVFRT-----------MA------WKNVVSWTAMLVGYGQNGCSEEAVKI  262 (647)
Q Consensus       227 ---------------------------~A~~~~~~-----------~~------~~~~~~~~~li~~~~~~g~~~~A~~~  262 (647)
                                                 --.+++.+           +.      ..|+..-+.-+.++...+-+.+-+++
T Consensus       927 ~elI~vcNeNSlfK~~aRYlv~R~D~~LW~~VL~e~n~~rRqLiDqVv~tal~E~~dPe~vS~tVkAfMtadLp~eLIEL 1006 (1666)
T KOG0985|consen  927 LELINVCNENSLFKSQARYLVERSDPDLWAKVLNEENPYRRQLIDQVVQTALPETQDPEEVSVTVKAFMTADLPNELIEL 1006 (1666)
T ss_pred             HHHHHhcCchhHHHHHHHHHHhccChHHHHHHHhccChHHHHHHHHHHHhcCCccCChHHHHHHHHHHHhcCCcHHHHHH
Confidence                                       11111100           00      01233333444555555555566666


Q ss_pred             HHHHHHCCCCC--CHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcC---
Q 006388          263 FCNMQRNGIEP--DDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMN---  337 (647)
Q Consensus       263 ~~~m~~~g~~p--~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---  337 (647)
                      ++++.-..-..  +...-+.++-. +-..+.....++..++-..+ .|+      +.......+-+++|..+|+...   
T Consensus      1007 LEKIvL~~S~Fse~~nLQnLLiLt-Aikad~trVm~YI~rLdnyD-a~~------ia~iai~~~LyEEAF~ifkkf~~n~ 1078 (1666)
T KOG0985|consen 1007 LEKIVLDNSVFSENRNLQNLLILT-AIKADRTRVMEYINRLDNYD-APD------IAEIAIENQLYEEAFAIFKKFDMNV 1078 (1666)
T ss_pred             HHHHhcCCcccccchhhhhhHHHH-HhhcChHHHHHHHHHhccCC-chh------HHHHHhhhhHHHHHHHHHHHhcccH
Confidence            65554321000  00111111111 11111111111111111111 000      1111122233344444443321   


Q ss_pred             ----------------------CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHH
Q 006388          338 ----------------------VRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKG  395 (647)
Q Consensus       338 ----------------------~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a  395 (647)
                                            -..+..|..+..+-.+.|...+|++-|-+.      -|...|..++..+++.|.+++-
T Consensus      1079 ~A~~VLie~i~~ldRA~efAe~~n~p~vWsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edL 1152 (1666)
T KOG0985|consen 1079 SAIQVLIENIGSLDRAYEFAERCNEPAVWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDL 1152 (1666)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHhhCChHHHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHH
Confidence                                  113567999999999999999999887542      3667899999999999999999


Q ss_pred             HHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhccCC
Q 006388          396 RHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKMPFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDP  475 (647)
Q Consensus       396 ~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p  475 (647)
                      .+++....++ .-+|..+  +.|+-+|++.+++.|-.+++..    |+..-......-|...|.++.|.-++.       
T Consensus      1153 v~yL~MaRkk-~~E~~id--~eLi~AyAkt~rl~elE~fi~g----pN~A~i~~vGdrcf~~~~y~aAkl~y~------- 1218 (1666)
T KOG0985|consen 1153 VKYLLMARKK-VREPYID--SELIFAYAKTNRLTELEEFIAG----PNVANIQQVGDRCFEEKMYEAAKLLYS------- 1218 (1666)
T ss_pred             HHHHHHHHHh-hcCccch--HHHHHHHHHhchHHHHHHHhcC----CCchhHHHHhHHHhhhhhhHHHHHHHH-------
Confidence            9999877665 5666655  5789999999999998887753    787788889999999999999988886       


Q ss_pred             CCchhHHHHHHhhhhCCChhHHHHHHHHH
Q 006388          476 YNPASYVLLSSIYASKGKWDHVSQLRRTM  504 (647)
Q Consensus       476 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  504 (647)
                       +.+.|..|+..+...|.+..|...-++.
T Consensus      1219 -~vSN~a~La~TLV~LgeyQ~AVD~aRKA 1246 (1666)
T KOG0985|consen 1219 -NVSNFAKLASTLVYLGEYQGAVDAARKA 1246 (1666)
T ss_pred             -HhhhHHHHHHHHHHHHHHHHHHHHhhhc
Confidence             4467888888888889888887665543

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.13  E-value=2e-08  Score=95.37  Aligned_cols=199  Identities=15%  Similarity=0.159  Sum_probs=107.3

Q ss_pred             hhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHH
Q 006388          240 VVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTF  319 (647)
Q Consensus       240 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  319 (647)
                      ...+..+...+...|++++|.+.|++..+.. +.+...+..+...+...|+++.|...+....+.. +.           
T Consensus        31 ~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~-----------   97 (234)
T TIGR02521        31 AKIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PN-----------   97 (234)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CC-----------
Confidence            4456677777777777888777777776542 1223444444455555555555555555554432 12           


Q ss_pred             HHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhcCCcHHHHHHH
Q 006388          320 YGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKP-DEVTLIGVLSACSRAGLVEKGRHY  398 (647)
Q Consensus       320 ~~~~g~~~~A~~~~~~~~~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~~~  398 (647)
                                          +...+..+...+...|++++|...|++.......| ....+..+..++...|++++|...
T Consensus        98 --------------------~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  157 (234)
T TIGR02521        98 --------------------NGDVLNNYGTFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKY  157 (234)
T ss_pred             --------------------CHHHHHHHHHHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHH
Confidence                                23344444445555555555555555555432112 122344445555566666666666


Q ss_pred             HHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhcc
Q 006388          399 FEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLEL  473 (647)
Q Consensus       399 ~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  473 (647)
                      ++...+.  .+.+...+..+...+...|++++|.+.+++. ...| +...+..+...+...|+.+.|....+.+.+.
T Consensus       158 ~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  232 (234)
T TIGR02521       158 LTRALQI--DPQRPESLLELAELYYLRGQYKDARAYLERYQQTYNQTAESLWLGIRIARALGDVAAAQRYGAQLQKL  232 (234)
T ss_pred             HHHHHHh--CcCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence            6655542  1223445556666666666666666666654 1122 3444555555566666666666666555443

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.

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

Probab=99.12  E-value=1.3e-06  Score=83.64  Aligned_cols=261  Identities=11%  Similarity=0.018  Sum_probs=186.0

Q ss_pred             CChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHH-HHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHH
Q 006388          238 KNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFT-LGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNAL  316 (647)
Q Consensus       238 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t-~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  316 (647)
                      .|+.....+...+...|+.++|+..|++.+..  .|+..+ .-...-.+.+.|+.+....+...+....- .+...|-.-
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--NPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKVK-YTASHWFVH  306 (564)
T ss_pred             ccHHHHHHHhhhhhhhcCchHHHHHHHHHhhC--ChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhhh-cchhhhhhh
Confidence            47778889999999999999999999988764  454432 11112233567777777777666654431 111112222


Q ss_pred             HHHHHhcCCHHHHHHHHhhcCCC---ChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhcCCcH
Q 006388          317 VTFYGKCGNIEDSHRLFNEMNVR---DEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKP-DEVTLIGVLSACSRAGLV  392 (647)
Q Consensus       317 i~~~~~~g~~~~A~~~~~~~~~~---d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~  392 (647)
                      ........+++.|+.+-++....   ++..|-.-...+.+.|++++|.-.|+..+.  +.| +...|..|+.+|...|.+
T Consensus       307 ~~~l~~~K~~~rAL~~~eK~I~~~~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~--Lap~rL~~Y~GL~hsYLA~~~~  384 (564)
T KOG1174|consen  307 AQLLYDEKKFERALNFVEKCIDSEPRNHEALILKGRLLIALERHTQAVIAFRTAQM--LAPYRLEIYRGLFHSYLAQKRF  384 (564)
T ss_pred             hhhhhhhhhHHHHHHHHHHHhccCcccchHHHhccHHHHhccchHHHHHHHHHHHh--cchhhHHHHHHHHHHHHhhchH
Confidence            23334456788888887776644   444454445678889999999999999887  455 455999999999999999


Q ss_pred             HHHHHHHHHHHHhcCCCcChHHHHHHH-HHHH-HcCCHHHHHHHHHhC-CCCCC-hhhHHHHHHHHHhcCChhHHHHHHH
Q 006388          393 EKGRHYFEIMVKEYGIRPIHDHYTCMI-DILS-RAGRLEEAKSFINKM-PFPPD-AIGWATLLSSCRIHGNVEIGKWAAE  468 (647)
Q Consensus       393 ~~a~~~~~~~~~~~~~~p~~~~~~~li-~~~~-~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~  468 (647)
                      .+|.-.-+...+.  +.-+..+.+.+. ..+. ...--++|.+++++. ..+|+ ....+.+...|...|..+.++.+++
T Consensus       385 kEA~~~An~~~~~--~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe  462 (564)
T KOG1174|consen  385 KEANALANWTIRL--FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKINPIYTPAVNLIAELCQVEGPTKDIIKLLE  462 (564)
T ss_pred             HHHHHHHHHHHHH--hhcchhhhhhhcceeeccCchhHHHHHHHHHhhhccCCccHHHHHHHHHHHHhhCccchHHHHHH
Confidence            9998877766653  334455555442 2222 223357899999887 67787 5566777888899999999999999


Q ss_pred             HHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHh
Q 006388          469 SLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       469 ~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      +.+...| |...++.|++++...+.+++|...|.....
T Consensus       463 ~~L~~~~-D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr  499 (564)
T KOG1174|consen  463 KHLIIFP-DVNLHNHLGDIMRAQNEPQKAMEYYYKALR  499 (564)
T ss_pred             HHHhhcc-ccHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            9999888 558899999999999999999999987655

>PRK12370 invasion protein regulator; Provisional

Probab=99.11  E-value=8e-09  Score=110.85  Aligned_cols=242  Identities=11%  Similarity=-0.005  Sum_probs=158.9

Q ss_pred             CChHHHHHHHHHHHHhCCCCchhhHHHHHHHHH---------hcCChHHHHHHhccCCC---CCchHHHHHHHHHHhcCC
Q 006388           56 RCVDLGRQIHGHILKFGFGSYVFVGSPLVDMYA---------KLGLIYDAKRGFDELPE---KNIVMYNTMITGLLRRGL  123 (647)
Q Consensus        56 ~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~---------~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~  123 (647)
                      +++++|.+.+++.++.. +.+...+..+..+|.         ..+++++|...+++..+   .+...|..+...+...|+
T Consensus       275 ~~~~~A~~~~~~Al~ld-P~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ldP~~~~a~~~lg~~~~~~g~  353 (553)
T PRK12370        275 YSLQQALKLLTQCVNMS-PNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELDHNNPQALGLLGLINTIHSE  353 (553)
T ss_pred             HHHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHccC
Confidence            34567777777777664 233444555544433         22346777777776654   245567777777777888


Q ss_pred             hHHHHHHhhcCCC--C-CeehHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChh-hHHHHHHHHhcCCChHHHHHHHHH
Q 006388          124 VEESRRLFRGMKD--K-DSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQF-TFGSVLTACGGLLALEEGKQIHAF  199 (647)
Q Consensus       124 ~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~-t~~~ll~~~~~~~~~~~a~~~~~~  199 (647)
                      +++|...|++..+  | +...|..+...+...|++++|+..+++..+..  |+.. .+..++..+...|++++|...+..
T Consensus       354 ~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~--P~~~~~~~~~~~~~~~~g~~eeA~~~~~~  431 (553)
T PRK12370        354 YIVGSLLFKQANLLSPISADIKYYYGWNLFMAGQLEEALQTINECLKLD--PTRAAAGITKLWITYYHTGIDDAIRLGDE  431 (553)
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCChhhHHHHHHHHHhccCHHHHHHHHHH
Confidence            8888888877654  3 34577888888999999999999999988754  4432 233344445667889999999888


Q ss_pred             HHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCC---ChhHHHHHHHHHHhcCChhHHHHHHHHHHHCC-CCCCH
Q 006388          200 IIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWK---NVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNG-IEPDD  275 (647)
Q Consensus       200 ~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~  275 (647)
                      +++...+.+...+..+..+|...|+.++|...++++...   +...++.+...|...|  ++|...++.+.+.. ..|..
T Consensus       432 ~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~~~~~~~~  509 (553)
T PRK12370        432 LRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLIAVNLLYAEYCQNS--ERALPTIREFLESEQRIDNN  509 (553)
T ss_pred             HHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHHHHHHHHHHHhccH--HHHHHHHHHHHHHhhHhhcC
Confidence            877653445556777888899999999999999887643   3445666777777777  47777777765431 23333


Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHHHHhC
Q 006388          276 FTLGSVISSCANLASLEEGTQFHGRSLVTG  305 (647)
Q Consensus       276 ~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~  305 (647)
                      ..+..++  ++-.|+.+.+..+ +.+.+.+
T Consensus       510 ~~~~~~~--~~~~g~~~~~~~~-~~~~~~~  536 (553)
T PRK12370        510 PGLLPLV--LVAHGEAIAEKMW-NKFKNED  536 (553)
T ss_pred             chHHHHH--HHHHhhhHHHHHH-HHhhccc
Confidence            3333333  3345565655555 6666554

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.11  E-value=1.5e-08  Score=99.39  Aligned_cols=212  Identities=15%  Similarity=0.112  Sum_probs=152.1

Q ss_pred             CChHHHHHHHHHHHHhC-CCc--chhHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHHHHHcCChHHHHH
Q 006388          289 ASLEEGTQFHGRSLVTG-LIS--FITVSNALVTFYGKCGNIEDSHRLFNEMN---VRDEVSWTALVSGYAKFGKANETID  362 (647)
Q Consensus       289 ~~~~~a~~~~~~~~~~~-~~~--~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~d~~~~~~li~~~~~~g~~~~A~~  362 (647)
                      +..+.+..-+.+++... ..|  ....+..+...|.+.|+.++|...|++..   ..+...|+.+...+...|++++|+.
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            34556666666666432 222  24567778888999999999999998876   3367899999999999999999999


Q ss_pred             HHHHHHHCCCCCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC--C
Q 006388          363 LFEKMLSHGLKPD-EVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM--P  439 (647)
Q Consensus       363 ~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~--~  439 (647)
                      .|++..+.  .|+ ..++..+..++...|++++|.+.|+...+.   .|+..........+...++.++|.+.+.+.  .
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            99999974  565 447788888889999999999999998754   454332222233445678899999999665  2


Q ss_pred             CCCChhhHHHHHHHHHhcCChhHHHHHHHHHh-------ccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHhCCC
Q 006388          440 FPPDAIGWATLLSSCRIHGNVEIGKWAAESLL-------ELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREKGV  509 (647)
Q Consensus       440 ~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~-------~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~  509 (647)
                      ..|+...|   .......|+...+ ..++.+.       ++.|..+.+|..++.+|...|++++|...|++..+.+.
T Consensus       195 ~~~~~~~~---~~~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~  267 (296)
T PRK11189        195 LDKEQWGW---NIVEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNV  267 (296)
T ss_pred             CCccccHH---HHHHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC
Confidence            33333222   2233345555444 2444443       34556678999999999999999999999999887543

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.10  E-value=1.2e-06  Score=82.10  Aligned_cols=442  Identities=10%  Similarity=0.028  Sum_probs=240.1

Q ss_pred             HHhCCCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHHhcCChHHHHHHhccCCC---CCchHHHHHHHHHHhcCChHHH
Q 006388           51 MSSSRRCVDLGRQIHGHILKFGFGSYVFVGSPLVDMYAKLGLIYDAKRGFDELPE---KNIVMYNTMITGLLRRGLVEES  127 (647)
Q Consensus        51 ~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A  127 (647)
                      -+....|+..|..+++.-...+-.....+-.=+..+|.+.|++++|..++..+.+   ++...|-.|.-.+.-.|.+.+|
T Consensus        31 dfls~rDytGAislLefk~~~~~EEE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~~~~~~el~vnLAcc~FyLg~Y~eA  110 (557)
T KOG3785|consen   31 DFLSNRDYTGAISLLEFKLNLDREEEDSLQLWIAHCYFHLGDYEEALNVYTFLMNKDDAPAELGVNLACCKFYLGQYIEA  110 (557)
T ss_pred             HHHhcccchhHHHHHHHhhccchhhhHHHHHHHHHHHHhhccHHHHHHHHHHHhccCCCCcccchhHHHHHHHHHHHHHH
Confidence            3445567777777777665444222222222344556677888888888776653   4555666666666677777777


Q ss_pred             HHHhhcCCCCCeehHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCC
Q 006388          128 RRLFRGMKDKDSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKD  207 (647)
Q Consensus       128 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~  207 (647)
                      ..+-.+.++ ++..-..|...-.+.++-++-..+-+.+...  .-|.   .++.+.....-.+++|.+++..++..+  |
T Consensus       111 ~~~~~ka~k-~pL~~RLlfhlahklndEk~~~~fh~~LqD~--~Edq---LSLAsvhYmR~HYQeAIdvYkrvL~dn--~  182 (557)
T KOG3785|consen  111 KSIAEKAPK-TPLCIRLLFHLAHKLNDEKRILTFHSSLQDT--LEDQ---LSLASVHYMRMHYQEAIDVYKRVLQDN--P  182 (557)
T ss_pred             HHHHhhCCC-ChHHHHHHHHHHHHhCcHHHHHHHHHHHhhh--HHHH---HhHHHHHHHHHHHHHHHHHHHHHHhcC--h
Confidence            777666543 2222223334444455555555444444321  0111   122222222335666777776666542  2


Q ss_pred             chhHHH-HHHHHHHhcCCHHHHHHHHhcCC---CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 006388          208 NVFVGS-ALVDMYCKCKSIKYAESVFRTMA---WKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVIS  283 (647)
Q Consensus       208 ~~~~~~-~li~~y~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~  283 (647)
                      +-...| .+.-+|.|..-++-+.++++--.   ..++++-|.......+.=....|.+-..++...+-..-++.--.+-.
T Consensus       183 ey~alNVy~ALCyyKlDYydvsqevl~vYL~q~pdStiA~NLkacn~fRl~ngr~ae~E~k~ladN~~~~~~f~~~l~rH  262 (557)
T KOG3785|consen  183 EYIALNVYMALCYYKLDYYDVSQEVLKVYLRQFPDSTIAKNLKACNLFRLINGRTAEDEKKELADNIDQEYPFIEYLCRH  262 (557)
T ss_pred             hhhhhHHHHHHHHHhcchhhhHHHHHHHHHHhCCCcHHHHHHHHHHHhhhhccchhHHHHHHHHhcccccchhHHHHHHc
Confidence            222222 23335666665655555544332   12344455444444443333333333444443321110000000000


Q ss_pred             HHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCC-------
Q 006388          284 SCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGK-------  356 (647)
Q Consensus       284 a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~d~~~~~~li~~~~~~g~-------  356 (647)
                      -+.--.+-+.|.+++--+.+.  .|.  .--.|+-.|.+.+++.+|..+.+++....+.-|-.-.-.++..|+       
T Consensus       263 NLVvFrngEgALqVLP~L~~~--IPE--ARlNL~iYyL~q~dVqeA~~L~Kdl~PttP~EyilKgvv~aalGQe~gSreH  338 (557)
T KOG3785|consen  263 NLVVFRNGEGALQVLPSLMKH--IPE--ARLNLIIYYLNQNDVQEAISLCKDLDPTTPYEYILKGVVFAALGQETGSREH  338 (557)
T ss_pred             CeEEEeCCccHHHhchHHHhh--ChH--hhhhheeeecccccHHHHHHHHhhcCCCChHHHHHHHHHHHHhhhhcCcHHH
Confidence            011123345555555444332  222  223466678999999999999998876555544433334455554       


Q ss_pred             hHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHH
Q 006388          357 ANETIDLFEKMLSHGLKPDEV-TLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFI  435 (647)
Q Consensus       357 ~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~  435 (647)
                      ..-|.+.|+-.-+++..-|.+ --.++.+++.-..++++.+-+++++.. |-...|...+ .+..+++..|.+.+|.++|
T Consensus       339 lKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~s-YF~NdD~Fn~-N~AQAk~atgny~eaEelf  416 (557)
T KOG3785|consen  339 LKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIES-YFTNDDDFNL-NLAQAKLATGNYVEAEELF  416 (557)
T ss_pred             HHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHH-HhcCcchhhh-HHHHHHHHhcChHHHHHHH
Confidence            334445554443444333322 223344455555678899988888854 3444444444 4788999999999999999


Q ss_pred             HhCC--CCCChhhHHHHHHHH-HhcCChhHHHHHHHHHhccC-CCCc-hhHHHHHHhhhhCCChhHHHHHHHHHHhCCC
Q 006388          436 NKMP--FPPDAIGWATLLSSC-RIHGNVEIGKWAAESLLELD-PYNP-ASYVLLSSIYASKGKWDHVSQLRRTMREKGV  509 (647)
Q Consensus       436 ~~~~--~~p~~~~~~~ll~~~-~~~~~~~~a~~~~~~~~~~~-p~~~-~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~  509 (647)
                      -+..  .-.|..+|.+++.-| .+++..+.|-.+   +++.+ |.+. .....+++-|.++|.+=-|.+.|+.+.....
T Consensus       417 ~~is~~~ikn~~~Y~s~LArCyi~nkkP~lAW~~---~lk~~t~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lDP  492 (557)
T KOG3785|consen  417 IRISGPEIKNKILYKSMLARCYIRNKKPQLAWDM---MLKTNTPSERFSLLQLIANDCYKANEFYYAAKAFDELEILDP  492 (557)
T ss_pred             hhhcChhhhhhHHHHHHHHHHHHhcCCchHHHHH---HHhcCCchhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccCC
Confidence            8873  113566777666655 567787766544   44444 4333 3345677899999999999999998877443

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

Probab=99.09  E-value=1.2e-07  Score=92.47  Aligned_cols=340  Identities=14%  Similarity=0.040  Sum_probs=207.4

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHCCCCCC-hhhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCc-hhHHHHHHHHH
Q 006388          142 WTTMITGLMQNGLEREAIDLFREMRLEGLAMD-QFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDN-VFVGSALVDMY  219 (647)
Q Consensus       142 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd-~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~-~~~~~~li~~y  219 (647)
                      +-..-.-|.++|.+++|++.|.+..+  ..|| ...|.....+|...|+++++.+--...++..  |+ +-.+..-..++
T Consensus       118 lK~~GN~~f~~kkY~eAIkyY~~AI~--l~p~epiFYsNraAcY~~lgd~~~Vied~TkALEl~--P~Y~KAl~RRA~A~  193 (606)
T KOG0547|consen  118 LKTKGNKFFRNKKYDEAIKYYTQAIE--LCPDEPIFYSNRAACYESLGDWEKVIEDCTKALELN--PDYVKALLRRASAH  193 (606)
T ss_pred             HHhhhhhhhhcccHHHHHHHHHHHHh--cCCCCchhhhhHHHHHHHHhhHHHHHHHHHHHhhcC--cHHHHHHHHHHHHH
Confidence            34455567888999999999999887  5677 5667777777788899988887777766653  33 33444455667


Q ss_pred             HhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChhHHHHHH--------HHHHH-CC--CCCCHHHHHHHHHHHhcc
Q 006388          220 CKCKSIKYAESVFRTMAWKNVVSWTAMLVGYGQNGCSEEAVKIF--------CNMQR-NG--IEPDDFTLGSVISSCANL  288 (647)
Q Consensus       220 ~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~--------~~m~~-~g--~~p~~~t~~~ll~a~~~~  288 (647)
                      -..|++++|+.=         +|-.++..+|....-.--+.+++        .+-.+ .+  +-|......+....+-..
T Consensus       194 E~lg~~~eal~D---------~tv~ci~~~F~n~s~~~~~eR~Lkk~a~~ka~e~~k~nr~p~lPS~~fi~syf~sF~~~  264 (606)
T KOG0547|consen  194 EQLGKFDEALFD---------VTVLCILEGFQNASIEPMAERVLKKQAMKKAKEKLKENRPPVLPSATFIASYFGSFHAD  264 (606)
T ss_pred             HhhccHHHHHHh---------hhHHHHhhhcccchhHHHHHHHHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHhhcccc
Confidence            777777777531         12222333332222222222222        22222 11  334444444444333210


Q ss_pred             CChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhc-CCHHHHHHHHhhc-------CCC---Ch------hhHHHHHHHH
Q 006388          289 ASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKC-GNIEDSHRLFNEM-------NVR---DE------VSWTALVSGY  351 (647)
Q Consensus       289 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~-g~~~~A~~~~~~~-------~~~---d~------~~~~~li~~~  351 (647)
                      -..        .+...+-..|...-..+-..+... ..+..|...+.+-       ...   |.      .+.+.-..-+
T Consensus       265 ~~~--------~~~~~~~ksDa~l~~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~al~~~gtF~  336 (606)
T KOG0547|consen  265 PKP--------LFDNKSDKSDAALAEALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAELEYMAEALLLRGTFH  336 (606)
T ss_pred             ccc--------cccCCCccchhhHHHHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhHHHHHHHHHHhhhhh
Confidence            000        000000001111111111111111 1122222222211       111   11      1111112223


Q ss_pred             HHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCc-ChHHHHHHHHHHHHcCCHHH
Q 006388          352 AKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRP-IHDHYTCMIDILSRAGRLEE  430 (647)
Q Consensus       352 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~  430 (647)
                      .-.|+.-.|..-|+..+.....++.. |.-+..+|....+.++.+..|+...+   +.| ++.+|-.-..++.-.+++++
T Consensus       337 fL~g~~~~a~~d~~~~I~l~~~~~~l-yI~~a~~y~d~~~~~~~~~~F~~A~~---ldp~n~dvYyHRgQm~flL~q~e~  412 (606)
T KOG0547|consen  337 FLKGDSLGAQEDFDAAIKLDPAFNSL-YIKRAAAYADENQSEKMWKDFNKAED---LDPENPDVYYHRGQMRFLLQQYEE  412 (606)
T ss_pred             hhcCCchhhhhhHHHHHhcCcccchH-HHHHHHHHhhhhccHHHHHHHHHHHh---cCCCCCchhHhHHHHHHHHHHHHH
Confidence            45688889999999998865444443 77777789999999999999998874   333 45677777777888889999


Q ss_pred             HHHHHHhC-CCCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHh
Q 006388          431 AKSFINKM-PFPPD-AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       431 A~~~~~~~-~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      |..=|++. .+.|+ +..+-.+.-+..+.+.+++++..|+...+.-|..+..|...+.++...++++.|.+.++...+
T Consensus       413 A~aDF~Kai~L~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkkFP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~  490 (606)
T KOG0547|consen  413 AIADFQKAISLDPENAYAYIQLCCALYRQHKIAESMKTFEEAKKKFPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIE  490 (606)
T ss_pred             HHHHHHHHhhcChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHh
Confidence            99999988 56665 666777777777788999999999999999999999999999999999999999999998876

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

Probab=99.09  E-value=6.4e-09  Score=96.03  Aligned_cols=229  Identities=14%  Similarity=0.093  Sum_probs=153.4

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhc
Q 006388          244 TAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKC  323 (647)
Q Consensus       244 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  323 (647)
                      +.|..+|.+.|.+.+|.+-|+.-.+.  .|-..||..+-.+|.+..+++.|..++.+-++. ++.++....-..+.+-..
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            45667777777777777777766654  455556666666666666666666666655543 233444444455555556


Q ss_pred             CCHHHHHHHHhhcCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHH
Q 006388          324 GNIEDSHRLFNEMNV---RDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFE  400 (647)
Q Consensus       324 g~~~~A~~~~~~~~~---~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~  400 (647)
                      ++.++|.++++...+   .++.+..++..+|.-.++++-|+..|+++++.|+. +...|..+.-+|.-.+++|-++.-|+
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            666666666665542   24445555556666677777777777777776643 44556666666666666666655555


Q ss_pred             HHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchh
Q 006388          401 IMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKMPFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPAS  480 (647)
Q Consensus       401 ~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~  480 (647)
                      +....                   .-+.++            -..+|-.|.......||+..|.+.|+-++..+|++..+
T Consensus       383 RAlst-------------------at~~~~------------aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~h~ea  431 (478)
T KOG1129|consen  383 RALST-------------------ATQPGQ------------AADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQHGEA  431 (478)
T ss_pred             HHHhh-------------------ccCcch------------hhhhhhccceeEEeccchHHHHHHHHHHhccCcchHHH
Confidence            44321                   111111            24567777777778899999999999999999999999


Q ss_pred             HHHHHHhhhhCCChhHHHHHHHHHHhC
Q 006388          481 YVLLSSIYASKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       481 ~~~l~~~~~~~g~~~~a~~~~~~m~~~  507 (647)
                      ++.|+-.-.+.|++++|+.+++..++.
T Consensus       432 lnNLavL~~r~G~i~~Arsll~~A~s~  458 (478)
T KOG1129|consen  432 LNNLAVLAARSGDILGARSLLNAAKSV  458 (478)
T ss_pred             HHhHHHHHhhcCchHHHHHHHHHhhhh
Confidence            999999999999999999999987764

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.07  E-value=2.7e-06  Score=88.01  Aligned_cols=456  Identities=14%  Similarity=0.079  Sum_probs=281.0

Q ss_pred             HHcCCChhHHHHHHHHHHHCCCCCCCcchHHHHHHHHh---CCCChHHH-------------------HHHH----HHHH
Q 006388           16 HASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSS---SRRCVDLG-------------------RQIH----GHIL   69 (647)
Q Consensus        16 ~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~~ll~~~~---~~~~~~~a-------------------~~~~----~~~~   69 (647)
                      +.+.+.+.+++.-+......+. +-+..++..+...+.   ..++.++.                   ....    .++.
T Consensus       237 w~~~~~~~~~i~s~~~~l~~~w-~~~~l~ka~l~~~~~~f~~~~~~Ee~~Lllli~es~i~Re~~~d~ilslm~~~~k~r  315 (799)
T KOG4162|consen  237 WKKLSGPKEAIKSYRRALLRSW-SLDPLTKARLYKGFALFLPKSGQEEVILLLLIEESLIPRENIEDAILSLMLLLRKLR  315 (799)
T ss_pred             hcCCCCchHHHHhhhHHhhccc-ccchhHHHHHhhcccccCCCCcHHHHHHHHHHHhhccccccHHHHHHHHHHHHHHHH
Confidence            4456777778887777777766 666666665544332   23333333                   2211    2222


Q ss_pred             HhCCCCchhhHHHHHHHHHhcCChHHHHHHhccCCC---CCchHHHHHHHHHHhcCChHHHHHHhhcCCCCC--e--eh-
Q 006388           70 KFGFGSYVFVGSPLVDMYAKLGLIYDAKRGFDELPE---KNIVMYNTMITGLLRRGLVEESRRLFRGMKDKD--S--IS-  141 (647)
Q Consensus        70 ~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~--~--~~-  141 (647)
                      ...+.-|+.+|..|.-+..++|+++.+.+.|++...   .....|+.+-..|.-.|.-..|..+++....+.  +  .+ 
T Consensus       316 ~~~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~  395 (799)
T KOG4162|consen  316 LKKFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSFGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISV  395 (799)
T ss_pred             HhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchH
Confidence            234556888899999999999999999999998764   345679999999999999999999988765432  2  22 


Q ss_pred             HHHHHHHHHh-CCChhHHHHHHHHHHHC--CCC--CChhhHHHHHHHHhcC----C-------ChHHHHHHHHHHHHcCC
Q 006388          142 WTTMITGLMQ-NGLEREAIDLFREMRLE--GLA--MDQFTFGSVLTACGGL----L-------ALEEGKQIHAFIIRNDH  205 (647)
Q Consensus       142 ~~~li~~~~~-~g~~~~A~~~~~~m~~~--g~~--pd~~t~~~ll~~~~~~----~-------~~~~a~~~~~~~~~~g~  205 (647)
                      +-..-..|.+ .+..+++++.-.+....  +..  .....|..+.-+|...    .       ...++.+.++..++.+.
T Consensus       396 ~Lmasklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d~  475 (799)
T KOG4162|consen  396 LLMASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFDP  475 (799)
T ss_pred             HHHHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcCC
Confidence            2222233333 46777777777776652  111  1222333333333211    1       13456677777777663


Q ss_pred             CCchhHHHHHHHHHHhcCCHHHHHHHHhcCC----CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC-HHHHHH
Q 006388          206 KDNVFVGSALVDMYCKCKSIKYAESVFRTMA----WKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPD-DFTLGS  280 (647)
Q Consensus       206 ~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~  280 (647)
                      . |..+.-.|.--|+..++++.|.+..++..    ..+...|..+.-.+...+++.+|+.+.+.....  -|+ ......
T Consensus       476 ~-dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E--~~~N~~l~~~  552 (799)
T KOG4162|consen  476 T-DPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEE--FGDNHVLMDG  552 (799)
T ss_pred             C-CchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHH--hhhhhhhchh
Confidence            2 22232334456777888998888777654    347889999999999999999999998876553  111 110000


Q ss_pred             HHHHHhccCChHHHHHHHH-----------------HHHH----hCC-------CcchhHHHHHHHHHH---hcCCHHHH
Q 006388          281 VISSCANLASLEEGTQFHG-----------------RSLV----TGL-------ISFITVSNALVTFYG---KCGNIEDS  329 (647)
Q Consensus       281 ll~a~~~~~~~~~a~~~~~-----------------~~~~----~~~-------~~~~~~~~~li~~~~---~~g~~~~A  329 (647)
                      -+..-...++.+++.....                 +...    .|+       .....++..+.....   +.-..+..
T Consensus       553 ~~~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~~~~~se~~  632 (799)
T KOG4162|consen  553 KIHIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQLKSAGSELK  632 (799)
T ss_pred             hhhhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhhhhcccccc
Confidence            1111111223332222111                 1111    111       111222222222221   11111111


Q ss_pred             HHHHhhcCCCC------hhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHH
Q 006388          330 HRLFNEMNVRD------EVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMV  403 (647)
Q Consensus       330 ~~~~~~~~~~d------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~  403 (647)
                      +..+...+.++      ...|......+.+.++.++|...+.+.... ..-....|......+...|...+|.+.|....
T Consensus       633 Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~-~~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al  711 (799)
T KOG4162|consen  633 LPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKI-DPLSASVYYLRGLLLEVKGQLEEAKEAFLVAL  711 (799)
T ss_pred             cCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhc-chhhHHHHHHhhHHHHHHHhhHHHHHHHHHHH
Confidence            22222222333      234666777888899999999888887663 22233355555566777899999999998775


Q ss_pred             HhcCCCcC-hHHHHHHHHHHHHcCCHHHHHH--HHHhC-CCCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCc
Q 006388          404 KEYGIRPI-HDHYTCMIDILSRAGRLEEAKS--FINKM-PFPPD-AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNP  478 (647)
Q Consensus       404 ~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~--~~~~~-~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~  478 (647)
                         .+.|+ +....++..++.+.|+..-|..  ++..+ .+.|+ ...|-.|...+.+.|+.++|...|+.+.++++.+|
T Consensus       712 ---~ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qLe~S~P  788 (799)
T KOG4162|consen  712 ---ALDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLGDSKQAAECFQAALQLEESNP  788 (799)
T ss_pred             ---hcCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccchHHHHHHHHHHHhhccCCC
Confidence               55665 5788999999999998777766  77777 66674 88999999999999999999999999999988766


Q ss_pred             h
Q 006388          479 A  479 (647)
Q Consensus       479 ~  479 (647)
                      .
T Consensus       789 V  789 (799)
T KOG4162|consen  789 V  789 (799)
T ss_pred             c
Confidence            4

>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala

Probab=99.04  E-value=3e-06  Score=88.10  Aligned_cols=406  Identities=15%  Similarity=0.114  Sum_probs=224.1

Q ss_pred             HHhcCChHHHHHHhccCCC--CCch-HHHHHHHHHHhcCChHHHHHHhhcCCCC--Ceeh-HHHHHHHHHh-----CCCh
Q 006388           87 YAKLGLIYDAKRGFDELPE--KNIV-MYNTMITGLLRRGLVEESRRLFRGMKDK--DSIS-WTTMITGLMQ-----NGLE  155 (647)
Q Consensus        87 ~~~~g~~~~A~~~~~~~~~--~~~~-~~~~li~~~~~~g~~~~A~~~~~~~~~~--~~~~-~~~li~~~~~-----~g~~  155 (647)
                      +...|++++|.+.++.-..  .|.. ........+.+.|+.++|..++..+.++  +... |..+..+...     ....
T Consensus        14 l~e~g~~~~AL~~L~~~~~~I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rNPdn~~Yy~~L~~~~g~~~~~~~~~~   93 (517)
T PF12569_consen   14 LEEAGDYEEALEHLEKNEKQILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRNPDNYDYYRGLEEALGLQLQLSDEDV   93 (517)
T ss_pred             HHHCCCHHHHHHHHHhhhhhCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHhhhcccccccH
Confidence            3455555555555554332  2322 2334445555566666666666555543  2223 3333333311     1245


Q ss_pred             hHHHHHHHHHHHCCCCCChhhHHHHHHHHhcCCCh-HHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhc
Q 006388          156 REAIDLFREMRLEGLAMDQFTFGSVLTACGGLLAL-EEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRT  234 (647)
Q Consensus       156 ~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~-~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~  234 (647)
                      +...++|+++...-  |.......+.-.+.....+ ..+...+...++.|++   .+++.|-..|....+.+-...++..
T Consensus        94 ~~~~~~y~~l~~~y--p~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvP---slF~~lk~Ly~d~~K~~~i~~l~~~  168 (517)
T PF12569_consen   94 EKLLELYDELAEKY--PRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVP---SLFSNLKPLYKDPEKAAIIESLVEE  168 (517)
T ss_pred             HHHHHHHHHHHHhC--ccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCc---hHHHHHHHHHcChhHHHHHHHHHHH
Confidence            66677777765542  3333322222222221122 2344555556666644   3455566666655554444444443


Q ss_pred             CC------------------CCCh--hHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCH-HHHHHHHHHHhccCChHH
Q 006388          235 MA------------------WKNV--VSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDD-FTLGSVISSCANLASLEE  293 (647)
Q Consensus       235 ~~------------------~~~~--~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~a~~~~~~~~~  293 (647)
                      ..                  .|..  .++..+...|-..|++++|++++++....  .|+. ..|..-...+-+.|++.+
T Consensus       169 ~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~h--tPt~~ely~~KarilKh~G~~~~  246 (517)
T PF12569_consen  169 YVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEH--TPTLVELYMTKARILKHAGDLKE  246 (517)
T ss_pred             HHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHCCCHHH
Confidence            21                  1122  23466677888999999999999988886  5764 566677788889999999


Q ss_pred             HHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChh----------hH--HHHHHHHHHcCChHHHH
Q 006388          294 GTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEV----------SW--TALVSGYAKFGKANETI  361 (647)
Q Consensus       294 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~d~~----------~~--~~li~~~~~~g~~~~A~  361 (647)
                      |....+.....+ ..|..+-+-.+..+.++|++++|.+++.....++..          .|  .....+|.+.|++..|+
T Consensus       247 Aa~~~~~Ar~LD-~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~AL  325 (517)
T PF12569_consen  247 AAEAMDEARELD-LADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLAL  325 (517)
T ss_pred             HHHHHHHHHhCC-hhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHH
Confidence            999999998876 557788888888999999999999998887755411          23  33467889999999988


Q ss_pred             HHHHHHHHC--CCC---CCH----------HHHHHHHHHHhcCCc-------HHHHHHHHHHHHHhcCCCc---------
Q 006388          362 DLFEKMLSH--GLK---PDE----------VTLIGVLSACSRAGL-------VEKGRHYFEIMVKEYGIRP---------  410 (647)
Q Consensus       362 ~~~~~m~~~--g~~---p~~----------~t~~~ll~a~~~~g~-------~~~a~~~~~~~~~~~~~~p---------  410 (647)
                      .-|....+.  .+.   -|-          .+|..++...-+...       ...|.+++-.+-..-....         
T Consensus       326 k~~~~v~k~f~~~~~DQfDFH~Yc~RK~t~r~Y~~~L~~ed~l~~~~~y~raa~~ai~iYl~l~d~~~~~~~~~~~~~~~  405 (517)
T PF12569_consen  326 KRFHAVLKHFDDFEEDQFDFHSYCLRKMTLRAYVDMLRWEDKLRSHPFYRRAAKGAIRIYLELHDKPEAKQGEEQEADNE  405 (517)
T ss_pred             HHHHHHHHHHHHHhcccccHHHHHHhhccHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHhcCcccccccccccccc
Confidence            877665442  112   222          233333332211111       1223333333321100000         


Q ss_pred             --ChHHHHHHHHHH---HHcCCHHHHHHHHH-----------hC----CCCCChhhHHHHHHHHHh-cCChhHHHHHHHH
Q 006388          411 --IHDHYTCMIDIL---SRAGRLEEAKSFIN-----------KM----PFPPDAIGWATLLSSCRI-HGNVEIGKWAAES  469 (647)
Q Consensus       411 --~~~~~~~li~~~---~~~g~~~~A~~~~~-----------~~----~~~p~~~~~~~ll~~~~~-~~~~~~a~~~~~~  469 (647)
                        +..--..+..-.   .+...-+++...-.           +.    +.++|.....   .-+.. ..-+++|.++++-
T Consensus       406 ~~~~~e~Kk~~kK~kK~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~Dp~G---ekL~~t~dPLe~A~kfl~p  482 (517)
T PF12569_consen  406 NMSAAERKKAKKKAKKAAKKAKKEEAEKAAKKEPKKQQNKSKKKEKVEPKKKDDDPLG---EKLLKTEDPLEEAMKFLKP  482 (517)
T ss_pred             cCChHHHHHHHHHHHHHHHHHhHHHHHHHHhhhhhhhhccccccccccCCcCCCCccH---HHHhcCCcHHHHHHHHHHH
Confidence              000000111000   11111122221110           00    1122221111   12222 3456889999999


Q ss_pred             HhccCCCCchhHHHHHHhhhhCCChhHHHHHHHH
Q 006388          470 LLELDPYNPASYVLLSSIYASKGKWDHVSQLRRT  503 (647)
Q Consensus       470 ~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  503 (647)
                      +.+..|++..+|..-..+|.+.|++--|.+.+.+
T Consensus       483 L~~~a~~~~et~~laFeVy~Rk~K~LLaLqaL~k  516 (517)
T PF12569_consen  483 LLELAPDNIETHLLAFEVYLRKGKYLLALQALKK  516 (517)
T ss_pred             HHHhCccchhhHHHHhHHHHhcCcHHHHHHHHHh
Confidence            9999999999999999999999999988887654

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 [], [].

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.02  E-value=6.5e-08  Score=99.08  Aligned_cols=233  Identities=16%  Similarity=0.195  Sum_probs=149.0

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhcCCCC----------Chh-HHHHHHHHHHhcCChhHHHHHHHHHHHC---CCCC
Q 006388          208 NVFVGSALVDMYCKCKSIKYAESVFRTMAWK----------NVV-SWTAMLVGYGQNGCSEEAVKIFCNMQRN---GIEP  273 (647)
Q Consensus       208 ~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~----------~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~---g~~p  273 (647)
                      -..+...|..+|...|+++.|..+|....+.          .+. ..+.+...|...+++++|..+|+++..-   ..-+
T Consensus       198 ~~~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~  277 (508)
T KOG1840|consen  198 RLRTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGE  277 (508)
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCC
Confidence            3445556777888888888887777664321          111 2334555666677777777777666431   0001


Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcC----------CCCh-h
Q 006388          274 DDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMN----------VRDE-V  342 (647)
Q Consensus       274 ~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~----------~~d~-~  342 (647)
                      +.                               +.-..+++.|...|.+.|++++|...+++..          .+++ .
T Consensus       278 ~h-------------------------------~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~  326 (508)
T KOG1840|consen  278 DH-------------------------------PAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAA  326 (508)
T ss_pred             CC-------------------------------HHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHH
Confidence            11                               1112333444445555555555544444322          1122 2


Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHHC---CCCCCH----HHHHHHHHHHhcCCcHHHHHHHHHHHHHhc-----CCCc
Q 006388          343 SWTALVSGYAKFGKANETIDLFEKMLSH---GLKPDE----VTLIGVLSACSRAGLVEKGRHYFEIMVKEY-----GIRP  410 (647)
Q Consensus       343 ~~~~li~~~~~~g~~~~A~~~~~~m~~~---g~~p~~----~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~-----~~~p  410 (647)
                      .++.++..+...+++++|..++++..+.   -+.++.    .+++.+...|.+.|++++|.++|++++...     +..+
T Consensus       327 ~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~  406 (508)
T KOG1840|consen  327 QLSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDY  406 (508)
T ss_pred             HHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcCh
Confidence            3455666677778888888877765431   123333    378888899999999999999998886542     1122


Q ss_pred             -ChHHHHHHHHHHHHcCCHHHHHHHHHhC--------CCCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHh
Q 006388          411 -IHDHYTCMIDILSRAGRLEEAKSFINKM--------PFPPD-AIGWATLLSSCRIHGNVEIGKWAAESLL  471 (647)
Q Consensus       411 -~~~~~~~li~~~~~~g~~~~A~~~~~~~--------~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~  471 (647)
                       ....++.|...|.+.+.+++|.++|.+.        +..|+ ..+|..|...|...|+++.|+++.+.+.
T Consensus       407 ~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  407 GVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             hhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence             2467788889999999998888888765        34455 5689999999999999999999988776

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=99.02  E-value=8.7e-06  Score=82.75  Aligned_cols=454  Identities=11%  Similarity=0.066  Sum_probs=278.2

Q ss_pred             CCCCcccHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCCcchHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCchhhHH
Q 006388            2 PFHDGVSWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGS   81 (647)
Q Consensus         2 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~   81 (647)
                      |.....-|-.++..| ..++|...+++.+..++..  +.-..|.....-.+...|+.++|...-+..++.. ..+.+.|.
T Consensus         4 ~~KE~~lF~~~lk~y-E~kQYkkgLK~~~~iL~k~--~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d-~~S~vCwH   79 (700)
T KOG1156|consen    4 SPKENALFRRALKCY-ETKQYKKGLKLIKQILKKF--PEHGESLAMKGLTLNCLGKKEEAYELVRLGLRND-LKSHVCWH   79 (700)
T ss_pred             ChHHHHHHHHHHHHH-HHHHHHhHHHHHHHHHHhC--CccchhHHhccchhhcccchHHHHHHHHHHhccC-cccchhHH
Confidence            344445577777777 4678999999999988843  4555666666666677889999988877777654 34556677


Q ss_pred             HHHHHHHhcCChHHHHHHhccCCC---CCchHHHHHHHHHHhcCChHHHHHHhhcCCC---CCeehHHHHHHHHHhCCCh
Q 006388           82 PLVDMYAKLGLIYDAKRGFDELPE---KNIVMYNTMITGLLRRGLVEESRRLFRGMKD---KDSISWTTMITGLMQNGLE  155 (647)
Q Consensus        82 ~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~  155 (647)
                      .+.-.+-...++++|.+.|.....   .|...|--+--.-++.|+++.....-....+   .....|..+..++.-.|++
T Consensus        80 v~gl~~R~dK~Y~eaiKcy~nAl~~~~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~~~~ra~w~~~Avs~~L~g~y  159 (700)
T KOG1156|consen   80 VLGLLQRSDKKYDEAIKCYRNALKIEKDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLRPSQRASWIGFAVAQHLLGEY  159 (700)
T ss_pred             HHHHHHhhhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHH
Confidence            777777777899999999987653   3455666555555566666666555444433   3567899999999999999


Q ss_pred             hHHHHHHHHHHHCC-CCCChhhHHHHHH------HHhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHH
Q 006388          156 REAIDLFREMRLEG-LAMDQFTFGSVLT------ACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYA  228 (647)
Q Consensus       156 ~~A~~~~~~m~~~g-~~pd~~t~~~ll~------~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A  228 (647)
                      ..|..++++..+.. -.|+...|.-...      .....|.++.|.+.+..-... +......--.-.+.+.+.+++++|
T Consensus       160 ~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~-i~Dkla~~e~ka~l~~kl~~lEeA  238 (700)
T KOG1156|consen  160 KMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQ-IVDKLAFEETKADLLMKLGQLEEA  238 (700)
T ss_pred             HHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH-HHHHHHHhhhHHHHHHHHhhHHhH
Confidence            99999999987754 3466655543322      234667777776665543322 222333344556788899999999


Q ss_pred             HHHHhcCCCC--ChhHHHHH-HHHHHhcCChhHHH-HHHHHHHHCCCCCCHH-HHHHHHHHHhccCChHHHHHHHHHHHH
Q 006388          229 ESVFRTMAWK--NVVSWTAM-LVGYGQNGCSEEAV-KIFCNMQRNGIEPDDF-TLGSVISSCANLASLEEGTQFHGRSLV  303 (647)
Q Consensus       229 ~~~~~~~~~~--~~~~~~~l-i~~~~~~g~~~~A~-~~~~~m~~~g~~p~~~-t~~~ll~a~~~~~~~~~a~~~~~~~~~  303 (647)
                      ..++..+..+  |...|+-. ..++.+-.+.-+++ .+|....+.  .|... ....=++......-.+....++....+
T Consensus       239 ~~~y~~Ll~rnPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~--y~r~e~p~Rlplsvl~~eel~~~vdkyL~~~l~  316 (700)
T KOG1156|consen  239 VKVYRRLLERNPDNLDYYEGLEKALGKIKDMLEALKALYAILSEK--YPRHECPRRLPLSVLNGEELKEIVDKYLRPLLS  316 (700)
T ss_pred             HHHHHHHHhhCchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhc--CcccccchhccHHHhCcchhHHHHHHHHHHHhh
Confidence            9999998765  44444443 33443343444444 555555432  11111 111111111122223444555666666


Q ss_pred             hCCCcchhHHHHHHHHHHhcCCHHH----HHHHHhhcC--------------CCChhhHHH--HHHHHHHcCChHHHHHH
Q 006388          304 TGLISFITVSNALVTFYGKCGNIED----SHRLFNEMN--------------VRDEVSWTA--LVSGYAKFGKANETIDL  363 (647)
Q Consensus       304 ~~~~~~~~~~~~li~~~~~~g~~~~----A~~~~~~~~--------------~~d~~~~~~--li~~~~~~g~~~~A~~~  363 (647)
                      .|+++-   +..+...|-.-...+-    +..+...+.              .|....|+.  ++..|-..|+++.|..+
T Consensus       317 Kg~p~v---f~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~laqh~D~~g~~~~A~~y  393 (700)
T KOG1156|consen  317 KGVPSV---FKDLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQHYDKLGDYEVALEY  393 (700)
T ss_pred             cCCCch---hhhhHHHHhchhHhHHHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHHHHHHHHHcccHHHHHHH
Confidence            676542   3333333322211111    111111111              234444554  56778889999999999


Q ss_pred             HHHHHHCCCCCCHH-HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhCCCC-
Q 006388          364 FEKMLSHGLKPDEV-TLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKMPFP-  441 (647)
Q Consensus       364 ~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-  441 (647)
                      ++.....  .|+.+ -|..=.+.+.+.|++++|..++++..+  --.||...-.--+.-..++.+.++|.++.....-. 
T Consensus       394 Id~AIdH--TPTliEly~~KaRI~kH~G~l~eAa~~l~ea~e--lD~aDR~INsKcAKYmLrAn~i~eA~~~~skFTr~~  469 (700)
T KOG1156|consen  394 IDLAIDH--TPTLIELYLVKARIFKHAGLLDEAAAWLDEAQE--LDTADRAINSKCAKYMLRANEIEEAEEVLSKFTREG  469 (700)
T ss_pred             HHHHhcc--CchHHHHHHHHHHHHHhcCChHHHHHHHHHHHh--ccchhHHHHHHHHHHHHHccccHHHHHHHHHhhhcc
Confidence            9998874  77766 566666788999999999999998864  22344433334455667889999999887665210 


Q ss_pred             CC--------hhhHHHHH--HHHHhcCChhHHHHHHHH
Q 006388          442 PD--------AIGWATLL--SSCRIHGNVEIGKWAAES  469 (647)
Q Consensus       442 p~--------~~~~~~ll--~~~~~~~~~~~a~~~~~~  469 (647)
                      -+        .-.|-.+-  .+|.+.|++.+|.+-+..
T Consensus       470 ~~~~~~L~~mqcmWf~~E~g~ay~r~~k~g~ALKkfh~  507 (700)
T KOG1156|consen  470 FGAVNNLAEMQCMWFQLEDGEAYLRQNKLGLALKKFHE  507 (700)
T ss_pred             cchhhhHHHhhhHHHhHhhhHHHHHHHHHHHHHHHHhh
Confidence            01        22444333  346677777666665443

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

Probab=99.01  E-value=3.2e-08  Score=87.53  Aligned_cols=161  Identities=19%  Similarity=0.207  Sum_probs=138.3

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCc-ChHHHHHHHHH
Q 006388          344 WTALVSGYAKFGKANETIDLFEKMLSHGLKPDEV-TLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRP-IHDHYTCMIDI  421 (647)
Q Consensus       344 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~  421 (647)
                      ...+.-+|.+.|+...|..-+++.++.  .|+.. ++..+...|.+.|..+.|.+.|+...+   +.| +..+.|....-
T Consensus        38 rlqLal~YL~~gd~~~A~~nlekAL~~--DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAls---l~p~~GdVLNNYG~F  112 (250)
T COG3063          38 RLQLALGYLQQGDYAQAKKNLEKALEH--DPSYYLAHLVRAHYYQKLGENDLADESYRKALS---LAPNNGDVLNNYGAF  112 (250)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCChhhHHHHHHHHHh---cCCCccchhhhhhHH
Confidence            445667888999999999999999885  56655 888888899999999999999998874   344 45788888999


Q ss_pred             HHHcCCHHHHHHHHHhCCCCCC----hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHH
Q 006388          422 LSRAGRLEEAKSFINKMPFPPD----AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHV  497 (647)
Q Consensus       422 ~~~~g~~~~A~~~~~~~~~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a  497 (647)
                      ++..|++++|...|++.-..|.    ..+|..++....+.|+.+.|+..+++.++.+|+.+.+...++....+.|++-.|
T Consensus       113 LC~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         113 LCAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQFPPALLELARLHYKAGDYAPA  192 (250)
T ss_pred             HHhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcCCChHHHHHHHHHHhcccchHH
Confidence            9999999999999998832332    568888888888999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhCCC
Q 006388          498 SQLRRTMREKGV  509 (647)
Q Consensus       498 ~~~~~~m~~~g~  509 (647)
                      ..++++...++.
T Consensus       193 r~~~~~~~~~~~  204 (250)
T COG3063         193 RLYLERYQQRGG  204 (250)
T ss_pred             HHHHHHHHhccc
Confidence            999999887665

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=98.99  E-value=6.2e-06  Score=83.78  Aligned_cols=424  Identities=12%  Similarity=-0.007  Sum_probs=237.0

Q ss_pred             HHHHHHHHhCCCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHHhcCChHHHHHHhccCCC---CCchHHHHHHHHHHhc
Q 006388           45 FSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGSPLVDMYAKLGLIYDAKRGFDELPE---KNIVMYNTMITGLLRR  121 (647)
Q Consensus        45 ~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~  121 (647)
                      |..+++ |-..+++..+....+.+++ +.+....+....--.+...|+-++|......-..   +..+.|..+.-.+-..
T Consensus        11 F~~~lk-~yE~kQYkkgLK~~~~iL~-k~~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d~~S~vCwHv~gl~~R~d   88 (700)
T KOG1156|consen   11 FRRALK-CYETKQYKKGLKLIKQILK-KFPEHGESLAMKGLTLNCLGKKEEAYELVRLGLRNDLKSHVCWHVLGLLQRSD   88 (700)
T ss_pred             HHHHHH-HHHHHHHHhHHHHHHHHHH-hCCccchhHHhccchhhcccchHHHHHHHHHHhccCcccchhHHHHHHHHhhh
Confidence            344444 3345677777777777776 4444444444444445567899999888877665   3456788888888888


Q ss_pred             CChHHHHHHhhcCCC--C-CeehHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCC-hhhHHHHHHHHhcCCChHHHHHHH
Q 006388          122 GLVEESRRLFRGMKD--K-DSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMD-QFTFGSVLTACGGLLALEEGKQIH  197 (647)
Q Consensus       122 g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd-~~t~~~ll~~~~~~~~~~~a~~~~  197 (647)
                      .++++|++.|.....  + |...|.-+.-.-++.|+++.....-..+.+.  .|+ ...|..+..+.--.|+...|..+.
T Consensus        89 K~Y~eaiKcy~nAl~~~~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql--~~~~ra~w~~~Avs~~L~g~y~~A~~il  166 (700)
T KOG1156|consen   89 KKYDEAIKCYRNALKIEKDNLQILRDLSLLQIQMRDYEGYLETRNQLLQL--RPSQRASWIGFAVAQHLLGEYKMALEIL  166 (700)
T ss_pred             hhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHh--hhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999987653  3 5566777766777788888888887777764  333 345667777777788899999888


Q ss_pred             HHHHHcC-CCCchhHHHHHH------HHHHhcCCHHHHHHHHhcCCCC--Ch-hHHHHHHHHHHhcCChhHHHHHHHHHH
Q 006388          198 AFIIRND-HKDNVFVGSALV------DMYCKCKSIKYAESVFRTMAWK--NV-VSWTAMLVGYGQNGCSEEAVKIFCNMQ  267 (647)
Q Consensus       198 ~~~~~~g-~~~~~~~~~~li------~~y~~~g~~~~A~~~~~~~~~~--~~-~~~~~li~~~~~~g~~~~A~~~~~~m~  267 (647)
                      ++..+.. -.|+...+....      ....+.|..++|.+.+......  |- ..-.+....+.+.++.++|..++..+.
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~~Ll  246 (700)
T KOG1156|consen  167 EEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQIVDKLAFEETKADLLMKLGQLEEAVKVYRRLL  246 (700)
T ss_pred             HHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhHHHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHH
Confidence            8887765 245544443222      2345667778887777665543  22 223445567778888888888888888


Q ss_pred             HCCCCCCHHHHHHHHHHHh-cc-CChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHH
Q 006388          268 RNGIEPDDFTLGSVISSCA-NL-ASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWT  345 (647)
Q Consensus       268 ~~g~~p~~~t~~~ll~a~~-~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~d~~~~~  345 (647)
                      ..  .||..-|...+..+. .. +..+....++....+.-....                            .|--...+
T Consensus       247 ~r--nPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~r~e----------------------------~p~Rlpls  296 (700)
T KOG1156|consen  247 ER--NPDNLDYYEGLEKALGKIKDMLEALKALYAILSEKYPRHE----------------------------CPRRLPLS  296 (700)
T ss_pred             hh--CchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcCcccc----------------------------cchhccHH
Confidence            76  577777766555443 12 222222233333222100000                            00000000


Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHH----HHHHHHHHHHh---------cCCCcCh
Q 006388          346 ALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEK----GRHYFEIMVKE---------YGIRPIH  412 (647)
Q Consensus       346 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~----a~~~~~~~~~~---------~~~~p~~  412 (647)
                      .+    .-..-.+..-.++..+.+.|++|-...+.++.   -.....+-    +..+...+...         ..-+|+.
T Consensus       297 vl----~~eel~~~vdkyL~~~l~Kg~p~vf~dl~SLy---k~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~Ptt  369 (700)
T KOG1156|consen  297 VL----NGEELKEIVDKYLRPLLSKGVPSVFKDLRSLY---KDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTT  369 (700)
T ss_pred             Hh----CcchhHHHHHHHHHHHhhcCCCchhhhhHHHH---hchhHhHHHHHHHHHHHhhcccccCCCcccccccCCchH
Confidence            00    00111122233444444455443322222221   11111110    01111111000         0013333


Q ss_pred             H--HHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhh
Q 006388          413 D--HYTCMIDILSRAGRLEEAKSFINKM-PFPPD-AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIY  488 (647)
Q Consensus       413 ~--~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  488 (647)
                      .  ++-.++..+-+.|+++.|..+++.+ ...|+ +..|.+-...+...|+++.|...++++.+++-.|...-.--+.-.
T Consensus       370 llWt~y~laqh~D~~g~~~~A~~yId~AIdHTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD~aDR~INsKcAKYm  449 (700)
T KOG1156|consen  370 LLWTLYFLAQHYDKLGDYEVALEYIDLAIDHTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELDTADRAINSKCAKYM  449 (700)
T ss_pred             HHHHHHHHHHHHHHcccHHHHHHHHHHHhccCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhccchhHHHHHHHHHHH
Confidence            2  3334556666677777777777665 44454 334444445566666777777777777776655544444455555


Q ss_pred             hhCCChhHHHHHHHHHHhCCC
Q 006388          489 ASKGKWDHVSQLRRTMREKGV  509 (647)
Q Consensus       489 ~~~g~~~~a~~~~~~m~~~g~  509 (647)
                      .++.+.++|.++.......|.
T Consensus       450 LrAn~i~eA~~~~skFTr~~~  470 (700)
T KOG1156|consen  450 LRANEIEEAEEVLSKFTREGF  470 (700)
T ss_pred             HHccccHHHHHHHHHhhhccc
Confidence            666777777777666665553

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.98  E-value=1.2e-05  Score=80.88  Aligned_cols=439  Identities=10%  Similarity=0.045  Sum_probs=253.9

Q ss_pred             HHHHHcCCChhHHHHHHHHHHHCCCCCCCcchHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCchhhHHH--HHHHH--H
Q 006388           13 ISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGSP--LVDMY--A   88 (647)
Q Consensus        13 i~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~--li~~~--~   88 (647)
                      ++-+.++|++++|+....++...+  |.|...+..=+-+..+.+.++.|..+.+.   .+.   ..+++.  +=.+|  .
T Consensus        19 ln~~~~~~e~e~a~k~~~Kil~~~--pdd~~a~~cKvValIq~~ky~~ALk~ikk---~~~---~~~~~~~~fEKAYc~Y   90 (652)
T KOG2376|consen   19 LNRHGKNGEYEEAVKTANKILSIV--PDDEDAIRCKVVALIQLDKYEDALKLIKK---NGA---LLVINSFFFEKAYCEY   90 (652)
T ss_pred             HHHhccchHHHHHHHHHHHHHhcC--CCcHhhHhhhHhhhhhhhHHHHHHHHHHh---cch---hhhcchhhHHHHHHHH
Confidence            556778999999999999999876  77888888888888999999998854332   221   111222  23344  4


Q ss_pred             hcCChHHHHHHhccCCCCCchHHHHHHHHHHhcCChHHHHHHhhcCCCCCeehHHHHHHHHHhCCChhHHHHHHHHHHHC
Q 006388           89 KLGLIYDAKRGFDELPEKNIVMYNTMITGLLRRGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLEREAIDLFREMRLE  168 (647)
Q Consensus        89 ~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  168 (647)
                      +.+..|+|...++...+-|..+...-...+-+.|++++|.++|+.+.+.+...+...+++-+..--  .+... +.|...
T Consensus        91 rlnk~Dealk~~~~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~--a~l~~-~~~q~v  167 (652)
T KOG2376|consen   91 RLNKLDEALKTLKGLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVA--AALQV-QLLQSV  167 (652)
T ss_pred             HcccHHHHHHHHhcccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHH--HhhhH-HHHHhc
Confidence            789999999999966666666777778888999999999999999987766666555543221100  11111 123333


Q ss_pred             CCCCChhhHHHHHH---HHhcCCChHHHHHHHHHHHHcCC-------CCch-------hHHHHHHHHHHhcCCHHHHHHH
Q 006388          169 GLAMDQFTFGSVLT---ACGGLLALEEGKQIHAFIIRNDH-------KDNV-------FVGSALVDMYCKCKSIKYAESV  231 (647)
Q Consensus       169 g~~pd~~t~~~ll~---~~~~~~~~~~a~~~~~~~~~~g~-------~~~~-------~~~~~li~~y~~~g~~~~A~~~  231 (647)
                      ...| ..||..+.+   .+...|++..|+++++...+.+.       ..+.       .+-.-|.-.+-..|+.++|..+
T Consensus       168 ~~v~-e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~i  246 (652)
T KOG2376|consen  168 PEVP-EDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSI  246 (652)
T ss_pred             cCCC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHH
Confidence            3444 445555554   34577899999999988843321       1101       1223355567788999999998


Q ss_pred             HhcCCCC---Ch----hHHHHHHHHHHhcCChh-HHHHHHHHHHHCCC----------CCCHHHHHHHHHHHhccCChHH
Q 006388          232 FRTMAWK---NV----VSWTAMLVGYGQNGCSE-EAVKIFCNMQRNGI----------EPDDFTLGSVISSCANLASLEE  293 (647)
Q Consensus       232 ~~~~~~~---~~----~~~~~li~~~~~~g~~~-~A~~~~~~m~~~g~----------~p~~~t~~~ll~a~~~~~~~~~  293 (647)
                      +..+...   |.    +.-|.|+..-....-++ .++..++.....-.          +-..+..+..+-++ ..+..+.
T Consensus       247 y~~~i~~~~~D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l-~tnk~~q  325 (652)
T KOG2376|consen  247 YVDIIKRNPADEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLAL-FTNKMDQ  325 (652)
T ss_pred             HHHHHHhcCCCchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH-HhhhHHH
Confidence            8887643   22    23344443322222222 22222222211100          00111111111111 1122222


Q ss_pred             HHHHHHHHHHhCCCcchhHHHHHHHHHHhc--CCHHHHHHHHhhcCCC----ChhhHHHHHHHHHHcCChHHHHHHHH--
Q 006388          294 GTQFHGRSLVTGLISFITVSNALVTFYGKC--GNIEDSHRLFNEMNVR----DEVSWTALVSGYAKFGKANETIDLFE--  365 (647)
Q Consensus       294 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~--g~~~~A~~~~~~~~~~----d~~~~~~li~~~~~~g~~~~A~~~~~--  365 (647)
                      +.++-   ...........+..++....++  .....|.+++......    ..+.--+++......|+++.|++++.  
T Consensus       326 ~r~~~---a~lp~~~p~~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~  402 (652)
T KOG2376|consen  326 VRELS---ASLPGMSPESLFPILLQEATKVREKKHKKAIELLLQFADGHPEKSKVVLLLRAQLKISQGNPEVALEILSLF  402 (652)
T ss_pred             HHHHH---HhCCccCchHHHHHHHHHHHHHHHHHHhhhHHHHHHHhccCCchhHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            22222   2221111123333344333322  2356666666665532    24455566777788999999999998  


Q ss_pred             ------HHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCC-CcChHHHH----HHHHHHHHcCCHHHHHHH
Q 006388          366 ------KMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGI-RPIHDHYT----CMIDILSRAGRLEEAKSF  434 (647)
Q Consensus       366 ------~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~-~p~~~~~~----~li~~~~~~g~~~~A~~~  434 (647)
                            ...+.+..|-.+.  .+..-+.+.++-+.|..++.+.++.+.. .+......    -++..=.+.|+-++|..+
T Consensus       403 ~~~~~ss~~~~~~~P~~V~--aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~  480 (652)
T KOG2376|consen  403 LESWKSSILEAKHLPGTVG--AIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSL  480 (652)
T ss_pred             hhhhhhhhhhhccChhHHH--HHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHH
Confidence                  5555555565543  4455566666666666666655543211 12222333    333444577999999999


Q ss_pred             HHhC-C-CCCChhhHHHHHHHHHhcCChhHHHHHHHHH
Q 006388          435 INKM-P-FPPDAIGWATLLSSCRIHGNVEIGKWAAESL  470 (647)
Q Consensus       435 ~~~~-~-~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~  470 (647)
                      ++++ . .++|..+...++.+|... |.+.|+.+-.++
T Consensus       481 leel~k~n~~d~~~l~~lV~a~~~~-d~eka~~l~k~L  517 (652)
T KOG2376|consen  481 LEELVKFNPNDTDLLVQLVTAYARL-DPEKAESLSKKL  517 (652)
T ss_pred             HHHHHHhCCchHHHHHHHHHHHHhc-CHHHHHHHhhcC
Confidence            9998 3 456788888899888775 466676665443

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.96  E-value=5.1e-07  Score=82.64  Aligned_cols=314  Identities=14%  Similarity=0.018  Sum_probs=190.7

Q ss_pred             HHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCCcchHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCchhhHH-HHHHHH
Q 006388            9 WNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGS-PLVDMY   87 (647)
Q Consensus         9 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~-~li~~~   87 (647)
                      +++.+..+.+..++++|++++..-.++.  +.+....+.|..+|-...++..|...++++-..-  |...-|. --...+
T Consensus        13 ftaviy~lI~d~ry~DaI~~l~s~~Er~--p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~--P~~~qYrlY~AQSL   88 (459)
T KOG4340|consen   13 FTAVVYRLIRDARYADAIQLLGSELERS--PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQLH--PELEQYRLYQAQSL   88 (459)
T ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHhcC--ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC--hHHHHHHHHHHHHH
Confidence            6777888889999999999999988876  5688888889888999999999999999987654  3222221 122344


Q ss_pred             HhcCChHHHHHHhccCCCC-CchHHHHHHHHH--HhcCChHHHHHHhhcCCC-CCeehHHHHHHHHHhCCChhHHHHHHH
Q 006388           88 AKLGLIYDAKRGFDELPEK-NIVMYNTMITGL--LRRGLVEESRRLFRGMKD-KDSISWTTMITGLMQNGLEREAIDLFR  163 (647)
Q Consensus        88 ~~~g~~~~A~~~~~~~~~~-~~~~~~~li~~~--~~~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~A~~~~~  163 (647)
                      -+.+.+.+|.++...|.+. +...-..-+.+.  -..+++..+..+.++.+. .+..+.+...-...+.|+++.|++-|+
T Consensus        89 Y~A~i~ADALrV~~~~~D~~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en~Ad~~in~gCllykegqyEaAvqkFq  168 (459)
T KOG4340|consen   89 YKACIYADALRVAFLLLDNPALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSENEADGQINLGCLLYKEGQYEAAVQKFQ  168 (459)
T ss_pred             HHhcccHHHHHHHHHhcCCHHHHHHHHHHHHHHhcccccCcchHHHHHhccCCCccchhccchheeeccccHHHHHHHHH
Confidence            5778999999999988863 333222223332  367899999999999984 566666666667788999999999999


Q ss_pred             HHHHCCCCCChhhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHH----HHHHHHHhcCCHHHHHHHHhcCCCCC
Q 006388          164 EMRLEGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGS----ALVDMYCKCKSIKYAESVFRTMAWKN  239 (647)
Q Consensus       164 ~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~----~li~~y~~~g~~~~A~~~~~~~~~~~  239 (647)
                      ...+-+--.....|+..+..+ +.++.+.|.+...+++++|+...+...-    -.++.-+-.+-..-+..       .=
T Consensus       169 aAlqvsGyqpllAYniALaHy-~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~S-------al  240 (459)
T KOG4340|consen  169 AALQVSGYQPLLAYNLALAHY-SSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQS-------AL  240 (459)
T ss_pred             HHHhhcCCCchhHHHHHHHHH-hhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHH-------HH
Confidence            998754333456777766554 5688999999999999888643222110    00000000000000000       00


Q ss_pred             hhHHHHHHHHHHhcCChhHHHHHHHHHHHC-CCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHH
Q 006388          240 VVSWTAMLVGYGQNGCSEEAVKIFCNMQRN-GIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVT  318 (647)
Q Consensus       240 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  318 (647)
                      +.++|.-...+.+.|+++.|.+.+..|.-. .-..|++|...+.-.- ..+++..+..-++.+...+ +-...++..++-
T Consensus       241 ~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n-~~~~p~~g~~KLqFLL~~n-PfP~ETFANlLl  318 (459)
T KOG4340|consen  241 VEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMN-MDARPTEGFEKLQFLLQQN-PFPPETFANLLL  318 (459)
T ss_pred             HHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhc-ccCCccccHHHHHHHHhcC-CCChHHHHHHHH
Confidence            123344444455555565555555555322 1233445544332111 1223333444444444432 223345555555


Q ss_pred             HHHhcCCHHHHHHHHhhc
Q 006388          319 FYGKCGNIEDSHRLFNEM  336 (647)
Q Consensus       319 ~~~~~g~~~~A~~~~~~~  336 (647)
                      .|||..-++-|..++.+-
T Consensus       319 lyCKNeyf~lAADvLAEn  336 (459)
T KOG4340|consen  319 LYCKNEYFDLAADVLAEN  336 (459)
T ss_pred             HHhhhHHHhHHHHHHhhC
Confidence            666666666666665543

>PRK11189 lipoprotein NlpI; Provisional

Probab=98.95  E-value=2.8e-07  Score=90.46  Aligned_cols=218  Identities=9%  Similarity=0.003  Sum_probs=136.4

Q ss_pred             ChhHHHHHHHHHHHCC-CCCC--HHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHH
Q 006388          255 CSEEAVKIFCNMQRNG-IEPD--DFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHR  331 (647)
Q Consensus       255 ~~~~A~~~~~~m~~~g-~~p~--~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  331 (647)
                      ..+.++.-+.++.... ..|+  ...|......+...|+.++|...+...++.. +.+...++.+...|...|++++|..
T Consensus        41 ~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~~A~~  119 (296)
T PRK11189         41 QQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFDAAYE  119 (296)
T ss_pred             HHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            4445555555555321 1222  1234444455566666666666666666654 3456677778888888888888888


Q ss_pred             HHhhcCC--C-ChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCC
Q 006388          332 LFNEMNV--R-DEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGI  408 (647)
Q Consensus       332 ~~~~~~~--~-d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~  408 (647)
                      .|++..+  | +..+|..+...+...|++++|++.|++..+.  .|+..........+...++.++|...|+....  ..
T Consensus       120 ~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~--~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~--~~  195 (296)
T PRK11189        120 AFDSVLELDPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQD--DPNDPYRALWLYLAESKLDPKQAKENLKQRYE--KL  195 (296)
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHccCCHHHHHHHHHHHHh--hC
Confidence            8887752  2 4567788888888889999999999988874  55544222222234456788999998876553  22


Q ss_pred             CcChHHHHHHHHHHHHcCCHHH--HHHHHHhC-C----CCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchh
Q 006388          409 RPIHDHYTCMIDILSRAGRLEE--AKSFINKM-P----FPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPAS  480 (647)
Q Consensus       409 ~p~~~~~~~li~~~~~~g~~~~--A~~~~~~~-~----~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~  480 (647)
                      .|+...+ .++..  ..|++.+  +.+.+.+. .    ..| ....|..+...+...|++++|+..|+++++.+|.+..-
T Consensus       196 ~~~~~~~-~~~~~--~lg~~~~~~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~~~~~e  272 (296)
T PRK11189        196 DKEQWGW-NIVEF--YLGKISEETLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNVYNFVE  272 (296)
T ss_pred             CccccHH-HHHHH--HccCCCHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCchHHH
Confidence            3332222 23333  3454433  33333221 1    112 24678999999999999999999999999999865433

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

Probab=98.90  E-value=9.7e-08  Score=88.41  Aligned_cols=227  Identities=13%  Similarity=0.096  Sum_probs=183.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhcCCC--CChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHH-HHHHHHhcc
Q 006388          212 GSALVDMYCKCKSIKYAESVFRTMAW--KNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLG-SVISSCANL  288 (647)
Q Consensus       212 ~~~li~~y~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~-~ll~a~~~~  288 (647)
                      -+-+..+|.+.|.+.+|.+.|+.-..  +-+.||-.|-..|.+..+++.|+.+|.+-.+.  .|-.+||. .+...+...
T Consensus       226 k~Q~gkCylrLgm~r~AekqlqssL~q~~~~dTfllLskvY~ridQP~~AL~~~~~gld~--fP~~VT~l~g~ARi~eam  303 (478)
T KOG1129|consen  226 KQQMGKCYLRLGMPRRAEKQLQSSLTQFPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS--FPFDVTYLLGQARIHEAM  303 (478)
T ss_pred             HHHHHHHHHHhcChhhhHHHHHHHhhcCCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc--CCchhhhhhhhHHHHHHH
Confidence            35788999999999999999987653  57789999999999999999999999988775  67777765 455667778


Q ss_pred             CChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHHHHHcCChHHHHHHHH
Q 006388          289 ASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMN---VRDEVSWTALVSGYAKFGKANETIDLFE  365 (647)
Q Consensus       289 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~d~~~~~~li~~~~~~g~~~~A~~~~~  365 (647)
                      ++.+.+.+++....+.. +.++....++...|.-.++.+-|+..++++.   ..++..|+.+.-+|...++++-++..|+
T Consensus       304 ~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~speLf~NigLCC~yaqQ~D~~L~sf~  382 (478)
T KOG1129|consen  304 EQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQSPELFCNIGLCCLYAQQIDLVLPSFQ  382 (478)
T ss_pred             HhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHHhcCCChHHHhhHHHHHHhhcchhhhHHHHH
Confidence            99999999999998875 4455566667777888899999999999876   4578889999999999999999999999


Q ss_pred             HHHHCCCCCCHH--HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC
Q 006388          366 KMLSHGLKPDEV--TLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP  442 (647)
Q Consensus       366 ~m~~~g~~p~~~--t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p  442 (647)
                      +.+..--.|+..  .|-.+-......|++..|.+.|+-...  .-....+.++.|.-+-.+.|++++|..++... .+.|
T Consensus       383 RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~--~d~~h~ealnNLavL~~r~G~i~~Arsll~~A~s~~P  460 (478)
T KOG1129|consen  383 RALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALT--SDAQHGEALNNLAVLAARSGDILGARSLLNAAKSVMP  460 (478)
T ss_pred             HHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhc--cCcchHHHHHhHHHHHhhcCchHHHHHHHHHhhhhCc
Confidence            988765556654  666676677788999999999987764  33345678888888888999999999999877 3445


Q ss_pred             C
Q 006388          443 D  443 (647)
Q Consensus       443 ~  443 (647)
                      +
T Consensus       461 ~  461 (478)
T KOG1129|consen  461 D  461 (478)
T ss_pred             c
Confidence            4

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.88  E-value=1.4e-05  Score=81.90  Aligned_cols=220  Identities=17%  Similarity=0.171  Sum_probs=142.1

Q ss_pred             HHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHH
Q 006388          249 GYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIED  328 (647)
Q Consensus       249 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  328 (647)
                      +-....+|.+|+.+++.++...  .-.--|..+..-|+..|+++.|+++|.+.         ..++-.|+||.+.|++++
T Consensus       741 aai~akew~kai~ildniqdqk--~~s~yy~~iadhyan~~dfe~ae~lf~e~---------~~~~dai~my~k~~kw~d  809 (1636)
T KOG3616|consen  741 AAIGAKEWKKAISILDNIQDQK--TASGYYGEIADHYANKGDFEIAEELFTEA---------DLFKDAIDMYGKAGKWED  809 (1636)
T ss_pred             HHhhhhhhhhhHhHHHHhhhhc--cccccchHHHHHhccchhHHHHHHHHHhc---------chhHHHHHHHhccccHHH
Confidence            3445566777777777766543  22334566777788888888888887543         234557788888888888


Q ss_pred             HHHHHhhcCCC--ChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhc
Q 006388          329 SHRLFNEMNVR--DEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEY  406 (647)
Q Consensus       329 A~~~~~~~~~~--d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~  406 (647)
                      |.++-.+...|  ...+|-+-..-+-.+|++.+|.++|-...    .|+.     .|..|-+.|..+..+++.+.-    
T Consensus       810 a~kla~e~~~~e~t~~~yiakaedldehgkf~eaeqlyiti~----~p~~-----aiqmydk~~~~ddmirlv~k~----  876 (1636)
T KOG3616|consen  810 AFKLAEECHGPEATISLYIAKAEDLDEHGKFAEAEQLYITIG----EPDK-----AIQMYDKHGLDDDMIRLVEKH----  876 (1636)
T ss_pred             HHHHHHHhcCchhHHHHHHHhHHhHHhhcchhhhhheeEEcc----CchH-----HHHHHHhhCcchHHHHHHHHh----
Confidence            88887777655  34456555666777888888887775432    3442     355677777777777665532    


Q ss_pred             CCCcChHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHH
Q 006388          407 GIRPIHDHYTCMIDILSRAGRLEEAKSFINKMPFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSS  486 (647)
Q Consensus       407 ~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~  486 (647)
                      .-..-..+...+..-|...|++.+|.+-|-+.+      -|.+-++.|...+-+++|-++.+   ..+..|..-.+...+
T Consensus       877 h~d~l~dt~~~f~~e~e~~g~lkaae~~flea~------d~kaavnmyk~s~lw~dayriak---tegg~n~~k~v~flw  947 (1636)
T KOG3616|consen  877 HGDHLHDTHKHFAKELEAEGDLKAAEEHFLEAG------DFKAAVNMYKASELWEDAYRIAK---TEGGANAEKHVAFLW  947 (1636)
T ss_pred             ChhhhhHHHHHHHHHHHhccChhHHHHHHHhhh------hHHHHHHHhhhhhhHHHHHHHHh---ccccccHHHHHHHHH
Confidence            112223455566777888888888888887765      36666677777777766655543   333445556666666


Q ss_pred             hhhhCCChhHHHHHHHH
Q 006388          487 IYASKGKWDHVSQLRRT  503 (647)
Q Consensus       487 ~~~~~g~~~~a~~~~~~  503 (647)
                      +-+-.|+  .|.+++.+
T Consensus       948 aksiggd--aavkllnk  962 (1636)
T KOG3616|consen  948 AKSIGGD--AAVKLLNK  962 (1636)
T ss_pred             HHhhCcH--HHHHHHHh
Confidence            6655564  56666654

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.86  E-value=5.2e-06  Score=88.11  Aligned_cols=465  Identities=13%  Similarity=0.045  Sum_probs=284.8

Q ss_pred             ChhHHHHHHHHHHHCCCCCCCcchHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHHhcCChHHHHHHh
Q 006388           21 SVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGSPLVDMYAKLGLIYDAKRGF  100 (647)
Q Consensus        21 ~~~~A~~~~~~m~~~g~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~  100 (647)
                      +...|+..|-+..+..  +.=...|..|...|....+...|++.|+...+.. ..+......+.+.|++...++.|..+.
T Consensus       473 ~~~~al~ali~alrld--~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLD-atdaeaaaa~adtyae~~~we~a~~I~  549 (1238)
T KOG1127|consen  473 NSALALHALIRALRLD--VSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELD-ATDAEAAAASADTYAEESTWEEAFEIC  549 (1238)
T ss_pred             hHHHHHHHHHHHHhcc--cchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-chhhhhHHHHHHHhhccccHHHHHHHH
Confidence            4677888887777665  3345678889988888888889999999988776 567778888999999999999998885


Q ss_pred             ccCCCCCc-----hHHHHHHHHHHhcCChHHHHHHhhcCCC---CCeehHHHHHHHHHhCCChhHHHHHHHHHHHCCCCC
Q 006388          101 DELPEKNI-----VMYNTMITGLLRRGLVEESRRLFRGMKD---KDSISWTTMITGLMQNGLEREAIDLFREMRLEGLAM  172 (647)
Q Consensus       101 ~~~~~~~~-----~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  172 (647)
                      -...+.+.     ..|....-.|.+.++...|..-|+...+   +|...|..+..+|...|++..|+++|.+...  +.|
T Consensus       550 l~~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~dPkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~--LrP  627 (1238)
T KOG1127|consen  550 LRAAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTDPKDYNLWLGLGEAYPESGRYSHALKVFTKASL--LRP  627 (1238)
T ss_pred             HHHhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCCchhHHHHHHHHHHHHhcCceehHHHhhhhhHh--cCc
Confidence            54444322     2344455567788899999999987765   3677899999999999999999999988866  445


Q ss_pred             ChhhHHHHHHH--HhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHh-------cCCHHHHHHHHhcCCCCChhHH
Q 006388          173 DQFTFGSVLTA--CGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCK-------CKSIKYAESVFRTMAWKNVVSW  243 (647)
Q Consensus       173 d~~t~~~ll~~--~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~-------~g~~~~A~~~~~~~~~~~~~~~  243 (647)
                      +. +|.....+  -+..|.+.++...++.++..- .......+.|...+.+       .|-...|...|+.-.    ..+
T Consensus       628 ~s-~y~~fk~A~~ecd~GkYkeald~l~~ii~~~-s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksi----e~f  701 (1238)
T KOG1127|consen  628 LS-KYGRFKEAVMECDNGKYKEALDALGLIIYAF-SLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSI----ESF  701 (1238)
T ss_pred             Hh-HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHH-HHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHH----HHH
Confidence            43 33333322  346788889988888776531 1111222333333333       233333333333221    111


Q ss_pred             HH-HHHHHHhcC----ChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCh---H---HHHHHHHHHHHhCCCcchhH
Q 006388          244 TA-MLVGYGQNG----CSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASL---E---EGTQFHGRSLVTGLISFITV  312 (647)
Q Consensus       244 ~~-li~~~~~~g----~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~---~---~a~~~~~~~~~~~~~~~~~~  312 (647)
                      .. ++...+...    -..+|..+|-+.. .. .|+......+..-.-..+..   +   .|-+.+..  ...+..+...
T Consensus       702 ~~~l~h~~~~~~~~Wi~asdac~~f~q~e-~~-~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~--hlsl~~~~~~  777 (1238)
T KOG1127|consen  702 IVSLIHSLQSDRLQWIVASDACYIFSQEE-PS-IVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIA--HLSLAIHMYP  777 (1238)
T ss_pred             HHHHHHhhhhhHHHHHHHhHHHHHHHHhc-cc-chHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhH--HHHHhhccch
Confidence            11 111101000    0123334444433 11 23333322222212223322   1   11111111  1112223344


Q ss_pred             HHHHHHHHHh----cC----CHHHHHHHHhhcC---CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHH
Q 006388          313 SNALVTFYGK----CG----NIEDSHRLFNEMN---VRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIG  381 (647)
Q Consensus       313 ~~~li~~~~~----~g----~~~~A~~~~~~~~---~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~  381 (647)
                      |..|+.-|.+    +|    +...|...+....   ..+...||+|.-. ...|.+.-|.-.|-+-... .+-+..+|..
T Consensus       778 WyNLGinylr~f~~l~et~~~~~~Ai~c~KkaV~L~ann~~~WnaLGVl-sg~gnva~aQHCfIks~~s-ep~~~~~W~N  855 (1238)
T KOG1127|consen  778 WYNLGINYLRYFLLLGETMKDACTAIRCCKKAVSLCANNEGLWNALGVL-SGIGNVACAQHCFIKSRFS-EPTCHCQWLN  855 (1238)
T ss_pred             HHHHhHHHHHHHHHcCCcchhHHHHHHHHHHHHHHhhccHHHHHHHHHh-hccchhhhhhhhhhhhhhc-cccchhheec
Confidence            4444444333    22    2235666666544   4577888887665 5567777777777665554 2345568888


Q ss_pred             HHHHHhcCCcHHHHHHHHHHHHHhcCCCcC-hHHHHHHHHHHHHcCCHHHHHHHHHhC-------CCCCChhhHHHHHHH
Q 006388          382 VLSACSRAGLVEKGRHYFEIMVKEYGIRPI-HDHYTCMIDILSRAGRLEEAKSFINKM-------PFPPDAIGWATLLSS  453 (647)
Q Consensus       382 ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~-------~~~p~~~~~~~ll~~  453 (647)
                      +.-.|....+++.|...|....   .+.|+ ...|--........|+.-++..+|..-       +.-|+...|-.-..-
T Consensus       856 lgvL~l~n~d~E~A~~af~~~q---SLdP~nl~~WlG~Ali~eavG~ii~~~~lfaHs~el~~~~gka~~f~Yw~c~te~  932 (1238)
T KOG1127|consen  856 LGVLVLENQDFEHAEPAFSSVQ---SLDPLNLVQWLGEALIPEAVGRIIERLILFAHSDELCSKEGKAKKFQYWLCATEI  932 (1238)
T ss_pred             cceeEEecccHHHhhHHHHhhh---hcCchhhHHHHHHHHhHHHHHHHHHHHHHHHhhHHhhccccccchhhHHHHHHHH
Confidence            8888889999999999998775   44553 455544444455678888888888652       334666667666555


Q ss_pred             HHhcCChhHHHH----------HHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHH
Q 006388          454 CRIHGNVEIGKW----------AAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMR  505 (647)
Q Consensus       454 ~~~~~~~~~a~~----------~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  505 (647)
                      ...+|+.++-+.          .+++.+...|+...+|...+...-+.+.+++|.+...+..
T Consensus       933 h~~Ng~~e~~I~t~~ki~sAs~al~~yf~~~p~~~fAy~~~gstlEhL~ey~~a~ela~Rli  994 (1238)
T KOG1127|consen  933 HLQNGNIEESINTARKISSASLALSYYFLGHPQLCFAYAANGSTLEHLEEYRAALELATRLI  994 (1238)
T ss_pred             HHhccchHHHHHHhhhhhhhHHHHHHHHhcCcchhHHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence            666666554433          4555666789888999999999999999988888776653

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.84  E-value=2.9e-05  Score=79.77  Aligned_cols=378  Identities=16%  Similarity=0.151  Sum_probs=191.9

Q ss_pred             HHHHHHHHhcCChHHHHHHhccCC--CCCchHHHHHHHHHHhcCChHHHHHHhhcCCCCCeehHHHHHHHHHhCCChhHH
Q 006388           81 SPLVDMYAKLGLIYDAKRGFDELP--EKNIVMYNTMITGLLRRGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLEREA  158 (647)
Q Consensus        81 ~~li~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  158 (647)
                      -+-|..|.+.|.+..|.+....-.  ..|......+..++.+..-+++|-.+|+++..++-     -+..|-+-.-+.+|
T Consensus       619 laaiqlyika~~p~~a~~~a~n~~~l~~de~il~~ia~alik~elydkagdlfeki~d~dk-----ale~fkkgdaf~ka  693 (1636)
T KOG3616|consen  619 LAAIQLYIKAGKPAKAARAALNDEELLADEEILEHIAAALIKGELYDKAGDLFEKIHDFDK-----ALECFKKGDAFGKA  693 (1636)
T ss_pred             HHHHHHHHHcCCchHHHHhhcCHHHhhccHHHHHHHHHHHHhhHHHHhhhhHHHHhhCHHH-----HHHHHHcccHHHHH
Confidence            345777888888777766543222  24555555566666666667777777776654431     11222222223333


Q ss_pred             HHHHHHHHHCCCCCChhhHH-HHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC
Q 006388          159 IDLFREMRLEGLAMDQFTFG-SVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAW  237 (647)
Q Consensus       159 ~~~~~~m~~~g~~pd~~t~~-~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~  237 (647)
                      +++-+-.    ++...+++. .--..+...|+++.|..-|-+..         ....-+.+-.....+.+|..+++.+..
T Consensus       694 ielarfa----fp~evv~lee~wg~hl~~~~q~daainhfiea~---------~~~kaieaai~akew~kai~ildniqd  760 (1636)
T KOG3616|consen  694 IELARFA----FPEEVVKLEEAWGDHLEQIGQLDAAINHFIEAN---------CLIKAIEAAIGAKEWKKAISILDNIQD  760 (1636)
T ss_pred             HHHHHhh----CcHHHhhHHHHHhHHHHHHHhHHHHHHHHHHhh---------hHHHHHHHHhhhhhhhhhHhHHHHhhh
Confidence            3332221    100111110 00011122233333332221110         011123344445556666666666555


Q ss_pred             CChhH--HHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHH
Q 006388          238 KNVVS--WTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNA  315 (647)
Q Consensus       238 ~~~~~--~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  315 (647)
                      +++.+  |..+...|...|+++.|.++|.+.-         .++-.|..|.+.|.++.|.++-.+.  .|.......|-+
T Consensus       761 qk~~s~yy~~iadhyan~~dfe~ae~lf~e~~---------~~~dai~my~k~~kw~da~kla~e~--~~~e~t~~~yia  829 (1636)
T KOG3616|consen  761 QKTASGYYGEIADHYANKGDFEIAEELFTEAD---------LFKDAIDMYGKAGKWEDAFKLAEEC--HGPEATISLYIA  829 (1636)
T ss_pred             hccccccchHHHHHhccchhHHHHHHHHHhcc---------hhHHHHHHHhccccHHHHHHHHHHh--cCchhHHHHHHH
Confidence            54432  4455556666666666666654321         1334445556666666555544332  222334444555


Q ss_pred             HHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCH--HHHHHHHHHHhcCCcHH
Q 006388          316 LVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDE--VTLIGVLSACSRAGLVE  393 (647)
Q Consensus       316 li~~~~~~g~~~~A~~~~~~~~~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~t~~~ll~a~~~~g~~~  393 (647)
                      -..-+-+.|++.+|++++-.+..||.     .|..|-++|..+..+++.++-     .|+.  .|-..+..-+...|++.
T Consensus       830 kaedldehgkf~eaeqlyiti~~p~~-----aiqmydk~~~~ddmirlv~k~-----h~d~l~dt~~~f~~e~e~~g~lk  899 (1636)
T KOG3616|consen  830 KAEDLDEHGKFAEAEQLYITIGEPDK-----AIQMYDKHGLDDDMIRLVEKH-----HGDHLHDTHKHFAKELEAEGDLK  899 (1636)
T ss_pred             hHHhHHhhcchhhhhheeEEccCchH-----HHHHHHhhCcchHHHHHHHHh-----ChhhhhHHHHHHHHHHHhccChh
Confidence            55555667777777777777766653     356677777777777776653     2332  25555566666677777


Q ss_pred             HHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhCCCC----CChhhHHHHH------HHHHhcCChhHH
Q 006388          394 KGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKMPFP----PDAIGWATLL------SSCRIHGNVEIG  463 (647)
Q Consensus       394 ~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~----p~~~~~~~ll------~~~~~~~~~~~a  463 (647)
                      .|...|-+.-          -|.+-+++|-.++.+++|.++-+.-+-.    .-...|..-+      ..+-++|-++.|
T Consensus       900 aae~~flea~----------d~kaavnmyk~s~lw~dayriaktegg~n~~k~v~flwaksiggdaavkllnk~gll~~~  969 (1636)
T KOG3616|consen  900 AAEEHFLEAG----------DFKAAVNMYKASELWEDAYRIAKTEGGANAEKHVAFLWAKSIGGDAAVKLLNKHGLLEAA  969 (1636)
T ss_pred             HHHHHHHhhh----------hHHHHHHHhhhhhhHHHHHHHHhccccccHHHHHHHHHHHhhCcHHHHHHHHhhhhHHHH
Confidence            7776654432          2455666777777777777776554211    0122332211      223345555444


Q ss_pred             HHHH------HHHhcc-----CCCCchhHHHHHHhhhhCCChhHHHHHHHHHHhC
Q 006388          464 KWAA------ESLLEL-----DPYNPASYVLLSSIYASKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       464 ~~~~------~~~~~~-----~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  507 (647)
                      +...      +.++++     ...-+..+..++.-+...|++++|.+-+-+..+.
T Consensus       970 id~a~d~~afd~afdlari~~k~k~~~vhlk~a~~ledegk~edaskhyveaikl 1024 (1636)
T KOG3616|consen  970 IDFAADNCAFDFAFDLARIAAKDKMGEVHLKLAMFLEDEGKFEDASKHYVEAIKL 1024 (1636)
T ss_pred             hhhhhcccchhhHHHHHHHhhhccCccchhHHhhhhhhccchhhhhHhhHHHhhc
Confidence            4421      111111     1123456667777777888888887766555443

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.79  E-value=1e-05  Score=86.02  Aligned_cols=493  Identities=10%  Similarity=-0.026  Sum_probs=255.8

Q ss_pred             ccHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCCcchHHHHHHHHhCCCChHHHHHHHHHHHHhC-CCCchhhHHHHHH
Q 006388            7 VSWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFG-FGSYVFVGSPLVD   85 (647)
Q Consensus         7 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g-~~~~~~~~~~li~   85 (647)
                      ..|..|...|...-+...|.+.|++..+.+  +.|......+...++...+++.|..+.-..-+.. ...-..-+..+--
T Consensus       493 paf~~LG~iYrd~~Dm~RA~kCf~KAFeLD--atdaeaaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~nW~~rG~  570 (1238)
T KOG1127|consen  493 PAFAFLGQIYRDSDDMKRAKKCFDKAFELD--ATDAEAAAASADTYAEESTWEEAFEICLRAAQKAPAFACKENWVQRGP  570 (1238)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhcCC--chhhhhHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhhhhhccc
Confidence            358888888888778889999999999887  6788899999999999999999998832221111 0111122222334


Q ss_pred             HHHhcCChHHHHHHhccCCC---CCchHHHHHHHHHHhcCChHHHHHHhhcCCCCCeehHHHH---HHHHHhCCChhHHH
Q 006388           86 MYAKLGLIYDAKRGFDELPE---KNIVMYNTMITGLLRRGLVEESRRLFRGMKDKDSISWTTM---ITGLMQNGLEREAI  159 (647)
Q Consensus        86 ~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l---i~~~~~~g~~~~A~  159 (647)
                      .|.+.++..+|..-|+...+   .|...|..+..+|.++|++..|.++|.+...-++.++-.-   ...-+..|.+++|+
T Consensus       571 yyLea~n~h~aV~~fQsALR~dPkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~LrP~s~y~~fk~A~~ecd~GkYkeal  650 (1238)
T KOG1127|consen  571 YYLEAHNLHGAVCEFQSALRTDPKDYNLWLGLGEAYPESGRYSHALKVFTKASLLRPLSKYGRFKEAVMECDNGKYKEAL  650 (1238)
T ss_pred             cccCccchhhHHHHHHHHhcCCchhHHHHHHHHHHHHhcCceehHHHhhhhhHhcCcHhHHHHHHHHHHHHHhhhHHHHH
Confidence            56777888888888887765   4667899999999999999999999988776555443322   22345678899988


Q ss_pred             HHHHHHHHC------CCCCChhhHHHHHHHHhcCCC-------hHHHHHHHHHHHHcCCCCchhHHHH------------
Q 006388          160 DLFREMRLE------GLAMDQFTFGSVLTACGGLLA-------LEEGKQIHAFIIRNDHKDNVFVGSA------------  214 (647)
Q Consensus       160 ~~~~~m~~~------g~~pd~~t~~~ll~~~~~~~~-------~~~a~~~~~~~~~~g~~~~~~~~~~------------  214 (647)
                      ..+......      +..--..++..+...+...|-       ++.+.+.+.-.+......+...|-.            
T Consensus       651 d~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~l~h~~~~~~~~Wi~asdac~~f~q~e  730 (1238)
T KOG1127|consen  651 DALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSLIHSLQSDRLQWIVASDACYIFSQEE  730 (1238)
T ss_pred             HHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHhhhhhHHHHHHHhHHHHHHHHhc
Confidence            888776532      111112233333333332332       2233333333322221222222221            


Q ss_pred             -------HHHHHHh----cCCH---H---HHHHHHhcCC--CCChhHHHHHHHHHHh----cC----ChhHHHHHHHHHH
Q 006388          215 -------LVDMYCK----CKSI---K---YAESVFRTMA--WKNVVSWTAMLVGYGQ----NG----CSEEAVKIFCNMQ  267 (647)
Q Consensus       215 -------li~~y~~----~g~~---~---~A~~~~~~~~--~~~~~~~~~li~~~~~----~g----~~~~A~~~~~~m~  267 (647)
                             ++..+.+    .+..   |   -+.+.+-.-.  ..+..+|..++..|.+    .|    +...|+..+.+..
T Consensus       731 ~~~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~hlsl~~~~~~WyNLGinylr~f~~l~et~~~~~~Ai~c~KkaV  810 (1238)
T KOG1127|consen  731 PSIVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIAHLSLAIHMYPWYNLGINYLRYFLLLGETMKDACTAIRCCKKAV  810 (1238)
T ss_pred             ccchHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhHHHHHhhccchHHHHhHHHHHHHHHcCCcchhHHHHHHHHHHHH
Confidence                   1222211    1111   0   0000000000  0134566666655544    12    2235666666665


Q ss_pred             HCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCC---ChhhH
Q 006388          268 RNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVR---DEVSW  344 (647)
Q Consensus       268 ~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---d~~~~  344 (647)
                      +.. .-+..+|+.+- .....|++..+...|-...... +....+|..+.-.+.+..+++-|...|.....-   |...|
T Consensus       811 ~L~-ann~~~WnaLG-Vlsg~gnva~aQHCfIks~~se-p~~~~~W~NlgvL~l~n~d~E~A~~af~~~qSLdP~nl~~W  887 (1238)
T KOG1127|consen  811 SLC-ANNEGLWNALG-VLSGIGNVACAQHCFIKSRFSE-PTCHCQWLNLGVLVLENQDFEHAEPAFSSVQSLDPLNLVQW  887 (1238)
T ss_pred             HHh-hccHHHHHHHH-Hhhccchhhhhhhhhhhhhhcc-ccchhheeccceeEEecccHHHhhHHHHhhhhcCchhhHHH
Confidence            531 22344444433 3344444444433332222221 334455555666666666676666666665422   33444


Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHH--H--CCC-------------------------------------------CC-CH
Q 006388          345 TALVSGYAKFGKANETIDLFEKML--S--HGL-------------------------------------------KP-DE  376 (647)
Q Consensus       345 ~~li~~~~~~g~~~~A~~~~~~m~--~--~g~-------------------------------------------~p-~~  376 (647)
                      --........|+.-+++.+|..--  .  .|-                                           .| +.
T Consensus       888 lG~Ali~eavG~ii~~~~lfaHs~el~~~~gka~~f~Yw~c~te~h~~Ng~~e~~I~t~~ki~sAs~al~~yf~~~p~~~  967 (1238)
T KOG1127|consen  888 LGEALIPEAVGRIIERLILFAHSDELCSKEGKAKKFQYWLCATEIHLQNGNIEESINTARKISSASLALSYYFLGHPQLC  967 (1238)
T ss_pred             HHHHHhHHHHHHHHHHHHHHHhhHHhhccccccchhhHHHHHHHHHHhccchHHHHHHhhhhhhhHHHHHHHHhcCcchh
Confidence            433333333444444444443310  0  111                                           12 22


Q ss_pred             HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHH----HHHHHHHcCCHHHHHHHHHhCCCCCChhhHHHHHH
Q 006388          377 VTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTC----MIDILSRAGRLEEAKSFINKMPFPPDAIGWATLLS  452 (647)
Q Consensus       377 ~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~----li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~  452 (647)
                      ..|........+.+.+..|.+...+.+.-...+-+...|+.    +...+...|.++.|..-+...+...+..+-.+-+.
T Consensus       968 fAy~~~gstlEhL~ey~~a~ela~RliglLe~k~d~sqynvak~~~gRL~lslgefe~A~~a~~~~~~evdEdi~gt~l~ 1047 (1238)
T KOG1127|consen  968 FAYAANGSTLEHLEEYRAALELATRLIGLLELKLDESQYNVAKPDAGRLELSLGEFESAKKASWKEWMEVDEDIRGTDLT 1047 (1238)
T ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhcchhhHhhhhcccchhHHHHHhhhhHH
Confidence            24444444444444454444444433221111223333332    22334445666655555554433333333333232


Q ss_pred             HHHhcCChhHHHHHHHHHhccCCCCch---hHHHHHHhhhhCCChhHHHHHHHHHH
Q 006388          453 SCRIHGNVEIGKWAAESLLELDPYNPA---SYVLLSSIYASKGKWDHVSQLRRTMR  505 (647)
Q Consensus       453 ~~~~~~~~~~a~~~~~~~~~~~p~~~~---~~~~l~~~~~~~g~~~~a~~~~~~m~  505 (647)
                      . .-.++++++...|++++.+..++..   ....++......+.-+.|...+-+..
T Consensus      1048 l-Ffkndf~~sl~~fe~aLsis~se~d~vvLl~kva~~~g~~~~k~~A~~lLfe~~ 1102 (1238)
T KOG1127|consen 1048 L-FFKNDFFSSLEFFEQALSISNSESDKVVLLCKVAVCMGLARQKNDAQFLLFEVK 1102 (1238)
T ss_pred             H-HHHhHHHHHHHHHHHHhhhcccccchhhhhHHHHHHHhhcccchHHHHHHHHHH
Confidence            2 3457788899999998876544332   33344445556666777776655544

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

Probab=98.78  E-value=2.7e-06  Score=75.59  Aligned_cols=125  Identities=15%  Similarity=0.102  Sum_probs=63.7

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCH-HHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHH
Q 006388          242 SWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDD-FTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFY  320 (647)
Q Consensus       242 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  320 (647)
                      +...|.-+|.+.|+...|..-+++..+.  .|+. .++..+...|.+.|..+.|.+.|+..++.. +.+..+.|.....+
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~--DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FL  113 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEH--DPSYYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFL  113 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHH
Confidence            3444555666666666666666666654  3332 345555555555566666666555555543 23344445555555


Q ss_pred             HhcCCHHHHHHHHhhcC-CC----ChhhHHHHHHHHHHcCChHHHHHHHHHHHH
Q 006388          321 GKCGNIEDSHRLFNEMN-VR----DEVSWTALVSGYAKFGKANETIDLFEKMLS  369 (647)
Q Consensus       321 ~~~g~~~~A~~~~~~~~-~~----d~~~~~~li~~~~~~g~~~~A~~~~~~m~~  369 (647)
                      |..|++++|...|++.. .|    -..+|..+.-+..+.|+.+.|...|++.++
T Consensus       114 C~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~  167 (250)
T COG3063         114 CAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALE  167 (250)
T ss_pred             HhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHH
Confidence            55555555555554433 22    123444444444444444444444444444

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

Probab=98.77  E-value=2.6e-07  Score=92.38  Aligned_cols=218  Identities=12%  Similarity=0.068  Sum_probs=165.6

Q ss_pred             hccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCC---ChhhHHHHHHHHHHcCChHHHHH
Q 006388          286 ANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVR---DEVSWTALVSGYAKFGKANETID  362 (647)
Q Consensus       286 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---d~~~~~~li~~~~~~g~~~~A~~  362 (647)
                      .+.|++.+|.-.|+..++.+ +.+...|.-|...-...++-..|+..+++..+-   |....-+|.-.|...|.-.+|+.
T Consensus       296 m~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~NleaLmaLAVSytNeg~q~~Al~  374 (579)
T KOG1125|consen  296 MKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELDPTNLEALMALAVSYTNEGLQNQALK  374 (579)
T ss_pred             HhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhHHHHHH
Confidence            45666777777777777665 556677777777777777777777777766533   55566666677888888888888


Q ss_pred             HHHHHHHCCCC--------CCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHH
Q 006388          363 LFEKMLSHGLK--------PDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSF  434 (647)
Q Consensus       363 ~~~~m~~~g~~--------p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~  434 (647)
                      .++.-+....+        ++..+-..  ..+.....+....++|-.+....+..+|++++.+|.-+|--.|.+++|.+.
T Consensus       375 ~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiDc  452 (579)
T KOG1125|consen  375 MLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVDC  452 (579)
T ss_pred             HHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHHH
Confidence            88876553210        01000000  122333345566677777777667678889999999999999999999999


Q ss_pred             HHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHh
Q 006388          435 INKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       435 ~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      |+.+ .++| |...||-|+..+....+.++|+.+|.+++++.|.-..+.+.|+-.|...|.+++|.+.|-....
T Consensus       453 f~~AL~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~  526 (579)
T KOG1125|consen  453 FEAALQVKPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALS  526 (579)
T ss_pred             HHHHHhcCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHH
Confidence            9988 6677 5889999999999999999999999999999999999999999999999999999999877764

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.77  E-value=7.5e-05  Score=79.55  Aligned_cols=332  Identities=15%  Similarity=0.126  Sum_probs=191.7

Q ss_pred             CeehHHHHHHHHHhCCChhHHHHHHHHHHHCC--CCCChhhHHHHHHHHhc---------------------------CC
Q 006388          138 DSISWTTMITGLMQNGLEREAIDLFREMRLEG--LAMDQFTFGSVLTACGG---------------------------LL  188 (647)
Q Consensus       138 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g--~~pd~~t~~~ll~~~~~---------------------------~~  188 (647)
                      |+..-+.-+.++...+-+.+-++++++..-..  +.-+...-+.++-...+                           .+
T Consensus       983 dPe~vS~tVkAfMtadLp~eLIELLEKIvL~~S~Fse~~nLQnLLiLtAikad~trVm~YI~rLdnyDa~~ia~iai~~~ 1062 (1666)
T KOG0985|consen  983 DPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSENRNLQNLLILTAIKADRTRVMEYINRLDNYDAPDIAEIAIENQ 1062 (1666)
T ss_pred             ChHHHHHHHHHHHhcCCcHHHHHHHHHHhcCCcccccchhhhhhHHHHHhhcChHHHHHHHHHhccCCchhHHHHHhhhh
Confidence            66667777888888888889999988876432  11111112222222111                           11


Q ss_pred             ChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHH
Q 006388          189 ALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQR  268 (647)
Q Consensus       189 ~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  268 (647)
                      -+++|..+|...     ..+....+.|+.   .-+.++.|.+.-++..+  +..|..+..+-.+.|...+|++-|-+.  
T Consensus      1063 LyEEAF~ifkkf-----~~n~~A~~VLie---~i~~ldRA~efAe~~n~--p~vWsqlakAQL~~~~v~dAieSyika-- 1130 (1666)
T KOG0985|consen 1063 LYEEAFAIFKKF-----DMNVSAIQVLIE---NIGSLDRAYEFAERCNE--PAVWSQLAKAQLQGGLVKDAIESYIKA-- 1130 (1666)
T ss_pred             HHHHHHHHHHHh-----cccHHHHHHHHH---HhhhHHHHHHHHHhhCC--hHHHHHHHHHHHhcCchHHHHHHHHhc--
Confidence            122222222211     222222222222   12344444444444433  457899999999999999998877432  


Q ss_pred             CCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCC----------
Q 006388          269 NGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNV----------  338 (647)
Q Consensus       269 ~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~----------  338 (647)
                          -|...|..++.++.+.|.+++-..++....+..-.|.+  -+.|+-+|++.+++.+-++++..-..          
T Consensus      1131 ----dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~i--d~eLi~AyAkt~rl~elE~fi~gpN~A~i~~vGdrc 1204 (1666)
T KOG0985|consen 1131 ----DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYI--DSELIFAYAKTNRLTELEEFIAGPNVANIQQVGDRC 1204 (1666)
T ss_pred             ----CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccc--hHHHHHHHHHhchHHHHHHHhcCCCchhHHHHhHHH
Confidence                36678999999999999999999998888877655544  45788899999998887766542110          


Q ss_pred             -------------CChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHh
Q 006388          339 -------------RDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKE  405 (647)
Q Consensus       339 -------------~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~  405 (647)
                                   .++..|..|...+...|+++.|.+.-++.      .+..||..+-.+|...+.+.-|.     |.. 
T Consensus      1205 f~~~~y~aAkl~y~~vSN~a~La~TLV~LgeyQ~AVD~aRKA------ns~ktWK~VcfaCvd~~EFrlAQ-----iCG- 1272 (1666)
T KOG0985|consen 1205 FEEKMYEAAKLLYSNVSNFAKLASTLVYLGEYQGAVDAARKA------NSTKTWKEVCFACVDKEEFRLAQ-----ICG- 1272 (1666)
T ss_pred             hhhhhhHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhc------cchhHHHHHHHHHhchhhhhHHH-----hcC-
Confidence                         03444555566666666666665554432      23456777777776665554442     211 


Q ss_pred             cCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHH
Q 006388          406 YGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVL  483 (647)
Q Consensus       406 ~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~  483 (647)
                      ..+....+-..-|+.-|-..|.++|-..+++.. +.+. .-..+.-|.-.|.+.+ .++-.+.++-....     ...--
T Consensus      1273 L~iivhadeLeeli~~Yq~rGyFeElIsl~Ea~LGLERAHMgmfTELaiLYskyk-p~km~EHl~LFwsR-----vNipK 1346 (1666)
T KOG0985|consen 1273 LNIIVHADELEELIEYYQDRGYFEELISLLEAGLGLERAHMGMFTELAILYSKYK-PEKMMEHLKLFWSR-----VNIPK 1346 (1666)
T ss_pred             ceEEEehHhHHHHHHHHHhcCcHHHHHHHHHhhhchhHHHHHHHHHHHHHHHhcC-HHHHHHHHHHHHHh-----cchHH
Confidence            123334455667777788888888888777765 4332 2334444444444433 33333333332211     11123


Q ss_pred             HHHhhhhCCChhHHHHHHHHHH
Q 006388          484 LSSIYASKGKWDHVSQLRRTMR  505 (647)
Q Consensus       484 l~~~~~~~g~~~~a~~~~~~m~  505 (647)
                      ++.++..+..|.+..-++.+-.
T Consensus      1347 viRA~eqahlW~ElvfLY~~y~ 1368 (1666)
T KOG0985|consen 1347 VIRAAEQAHLWSELVFLYDKYE 1368 (1666)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhh
Confidence            5666777777777766665443

>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=98.77  E-value=1e-05  Score=84.19  Aligned_cols=126  Identities=18%  Similarity=0.160  Sum_probs=89.3

Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcC-hHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHH
Q 006388          378 TLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPI-HDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSC  454 (647)
Q Consensus       378 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~  454 (647)
                      ++..+...|.+.|++++|+++.+..+.   ..|+ ++.|..-...|-+.|++++|.+.++.. ...+ |..+-+-....+
T Consensus       196 ~~~~lAqhyd~~g~~~~Al~~Id~aI~---htPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~~DRyiNsK~aKy~  272 (517)
T PF12569_consen  196 TLYFLAQHYDYLGDYEKALEYIDKAIE---HTPTLVELYMTKARILKHAGDLKEAAEAMDEARELDLADRYINSKCAKYL  272 (517)
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHh---cCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCChhhHHHHHHHHHHH
Confidence            444455667788888888888888774   3565 577888888888888888888888877 3333 444444555566


Q ss_pred             HhcCChhHHHHHHHHHhccC--CCC-------chhHHHHHHhhhhCCChhHHHHHHHHHHh
Q 006388          455 RIHGNVEIGKWAAESLLELD--PYN-------PASYVLLSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       455 ~~~~~~~~a~~~~~~~~~~~--p~~-------~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      .+.|++++|+..+......+  |..       .....-.+.+|.+.|++..|.+.+..+.+
T Consensus       273 LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v~k  333 (517)
T PF12569_consen  273 LRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAVLK  333 (517)
T ss_pred             HHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            78888888888888776554  211       12234667889999999998888776654

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 [], [].

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.76  E-value=0.00012  Score=76.38  Aligned_cols=119  Identities=10%  Similarity=0.063  Sum_probs=64.4

Q ss_pred             ccHHHHHHHHHcCCChhHHHHHHHHHHHC--------CCCCCCcchHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCchh
Q 006388            7 VSWNLLISGHASHGSVNDAVKVYNLMLKD--------GLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVF   78 (647)
Q Consensus         7 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~--------g~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~   78 (647)
                      +.|..|.+.+.+..+++-|.-.+-.|...        .. +.+..+=..+.-.....|.+++|+.++++-.+..      
T Consensus       758 ~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~-q~~~e~eakvAvLAieLgMlEeA~~lYr~ckR~D------  830 (1416)
T KOG3617|consen  758 SVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQ-QNGEEDEAKVAVLAIELGMLEEALILYRQCKRYD------  830 (1416)
T ss_pred             HHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHH-hCCcchhhHHHHHHHHHhhHHHHHHHHHHHHHHH------
Confidence            45777777777776666665555444321        01 1111222222222345667777777777665543      


Q ss_pred             hHHHHHHHHHhcCChHHHHHHhccCCC-CCchHHHHHHHHHHhcCChHHHHHHhhcCC
Q 006388           79 VGSPLVDMYAKLGLIYDAKRGFDELPE-KNIVMYNTMITGLLRRGLVEESRRLFRGMK  135 (647)
Q Consensus        79 ~~~~li~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~~~  135 (647)
                         .|-..|-..|.+++|.++-+.-.. .=..||.....-+-..++.+.|++.|++..
T Consensus       831 ---LlNKlyQs~g~w~eA~eiAE~~DRiHLr~Tyy~yA~~Lear~Di~~AleyyEK~~  885 (1416)
T KOG3617|consen  831 ---LLNKLYQSQGMWSEAFEIAETKDRIHLRNTYYNYAKYLEARRDIEAALEYYEKAG  885 (1416)
T ss_pred             ---HHHHHHHhcccHHHHHHHHhhccceehhhhHHHHHHHHHhhccHHHHHHHHHhcC
Confidence               233456666777777766544322 112355555555556677777777776654

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.76  E-value=6.9e-06  Score=81.77  Aligned_cols=214  Identities=17%  Similarity=0.149  Sum_probs=135.4

Q ss_pred             HHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCC---hh-------hHHHHHH
Q 006388          280 SVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRD---EV-------SWTALVS  349 (647)
Q Consensus       280 ~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~d---~~-------~~~~li~  349 (647)
                      .+.++..+..+++.+.+-+.......  .+..-++.....|...|.+..+...-+...+..   ..       +...+..
T Consensus       229 ~lgnaaykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre~rad~klIak~~~r~g~  306 (539)
T KOG0548|consen  229 ELGNAAYKKKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRELRADYKLIAKALARLGN  306 (539)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHHHHHHHHHHHHHHHHhhh
Confidence            34555556666777777777666665  555556667777777777766665554433221   11       1222334


Q ss_pred             HHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcCh-HHHHHHHHHHHHcCCH
Q 006388          350 GYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIH-DHYTCMIDILSRAGRL  428 (647)
Q Consensus       350 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~-~~~~~li~~~~~~g~~  428 (647)
                      +|.+.++++.++..|.+.+.....|+..+         +....+++....+...   -+.|.. .-...=...+.+.|++
T Consensus       307 a~~k~~~~~~ai~~~~kaLte~Rt~~~ls---------~lk~~Ek~~k~~e~~a---~~~pe~A~e~r~kGne~Fk~gdy  374 (539)
T KOG0548|consen  307 AYTKREDYEGAIKYYQKALTEHRTPDLLS---------KLKEAEKALKEAERKA---YINPEKAEEEREKGNEAFKKGDY  374 (539)
T ss_pred             hhhhHHhHHHHHHHHHHHhhhhcCHHHHH---------HHHHHHHHHHHHHHHH---hhChhHHHHHHHHHHHHHhccCH
Confidence            56666777888888877666544544221         1222333333322221   223332 1111124556778888


Q ss_pred             HHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHh
Q 006388          429 EEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       429 ~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      .+|...+.++ ...| |...|.....+|.+.|++..|..-.+..++++|+....|.-=+.++....+|++|.+.|++-.+
T Consensus       375 ~~Av~~YteAIkr~P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~~~kgy~RKg~al~~mk~ydkAleay~eale  454 (539)
T KOG0548|consen  375 PEAVKHYTEAIKRDPEDARLYSNRAACYLKLGEYPEALKDAKKCIELDPNFIKAYLRKGAALRAMKEYDKALEAYQEALE  454 (539)
T ss_pred             HHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            8888888887 3345 5778888888888888888888888888888888888888888888888888888888887655


Q ss_pred             C
Q 006388          507 K  507 (647)
Q Consensus       507 ~  507 (647)
                      .
T Consensus       455 ~  455 (539)
T KOG0548|consen  455 L  455 (539)
T ss_pred             c
Confidence            3

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

Probab=98.76  E-value=1.7e-05  Score=80.89  Aligned_cols=257  Identities=10%  Similarity=-0.020  Sum_probs=142.6

Q ss_pred             HHHHhcCChhHHHHHHHHHHHCCCCCCHH-HHHHHHHHHh----ccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHh
Q 006388          248 VGYGQNGCSEEAVKIFCNMQRNGIEPDDF-TLGSVISSCA----NLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGK  322 (647)
Q Consensus       248 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  322 (647)
                      ..+...|++++|.+.+++..+.  .|+.. .+.. ...+.    ..+....+.+.+.. .....+........+...+..
T Consensus        51 ~~~~~~g~~~~A~~~~~~~l~~--~P~~~~a~~~-~~~~~~~~~~~~~~~~~~~~l~~-~~~~~~~~~~~~~~~a~~~~~  126 (355)
T cd05804          51 LSAWIAGDLPKALALLEQLLDD--YPRDLLALKL-HLGAFGLGDFSGMRDHVARVLPL-WAPENPDYWYLLGMLAFGLEE  126 (355)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHH--CCCcHHHHHH-hHHHHHhcccccCchhHHHHHhc-cCcCCCCcHHHHHHHHHHHHH
Confidence            3455667777777777776654  34332 2221 11111    22333344433333 111112223344455567777


Q ss_pred             cCCHHHHHHHHhhcC---CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCC-CCCH--HHHHHHHHHHhcCCcHHHHH
Q 006388          323 CGNIEDSHRLFNEMN---VRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGL-KPDE--VTLIGVLSACSRAGLVEKGR  396 (647)
Q Consensus       323 ~g~~~~A~~~~~~~~---~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~--~t~~~ll~a~~~~g~~~~a~  396 (647)
                      .|++++|.+.+++..   ..+...+..+...|...|++++|...+++...... .|+.  ..+..+...+...|++++|.
T Consensus       127 ~G~~~~A~~~~~~al~~~p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~  206 (355)
T cd05804         127 AGQYDRAEEAARRALELNPDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAAL  206 (355)
T ss_pred             cCCHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHH
Confidence            888888888877765   23456677777778888888888888887766421 1222  23445666777788888888


Q ss_pred             HHHHHHHHhcCCCcChHHH-H--HHHHHHHHcCCHHHHHHH---HHhC-CCCC---ChhhHHHHHHHHHhcCChhHHHHH
Q 006388          397 HYFEIMVKEYGIRPIHDHY-T--CMIDILSRAGRLEEAKSF---INKM-PFPP---DAIGWATLLSSCRIHGNVEIGKWA  466 (647)
Q Consensus       397 ~~~~~~~~~~~~~p~~~~~-~--~li~~~~~~g~~~~A~~~---~~~~-~~~p---~~~~~~~ll~~~~~~~~~~~a~~~  466 (647)
                      .+++.........+..... +  .++.-+...|..+.+.++   .... +..|   ..........++...|+.+.|...
T Consensus       207 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~  286 (355)
T cd05804         207 AIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKL  286 (355)
T ss_pred             HHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHH
Confidence            8887764321111111111 1  223333344433322222   1111 1101   112223455666778888888888


Q ss_pred             HHHHhccCC---------CCchhHHHHHHhhhhCCChhHHHHHHHHHHhCC
Q 006388          467 AESLLELDP---------YNPASYVLLSSIYASKGKWDHVSQLRRTMREKG  508 (647)
Q Consensus       467 ~~~~~~~~p---------~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g  508 (647)
                      ++.+....-         .........+.++...|++++|.+.+......+
T Consensus       287 L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~~a  337 (355)
T cd05804         287 LAALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYATALELLGPVRDDL  337 (355)
T ss_pred             HHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence            887654221         134555677788899999999999999887654

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.

>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=98.75  E-value=1.3e-07  Score=91.34  Aligned_cols=247  Identities=13%  Similarity=0.058  Sum_probs=118.6

Q ss_pred             HHHhcCCHHHHHHHHhcCCCC----ChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHH
Q 006388          218 MYCKCKSIKYAESVFRTMAWK----NVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEE  293 (647)
Q Consensus       218 ~y~~~g~~~~A~~~~~~~~~~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~  293 (647)
                      -+.-.|.+..+..-.+ ....    +......+.+++...|+++.++.   ++.... .|.......+...+....+-+.
T Consensus        10 n~fy~G~Y~~~i~e~~-~~~~~~~~~~e~~~~~~Rs~iAlg~~~~vl~---ei~~~~-~~~l~av~~la~y~~~~~~~e~   84 (290)
T PF04733_consen   10 NQFYLGNYQQCINEAS-LKSFSPENKLERDFYQYRSYIALGQYDSVLS---EIKKSS-SPELQAVRLLAEYLSSPSDKES   84 (290)
T ss_dssp             HHHCTT-HHHHCHHHH-CHTSTCHHHHHHHHHHHHHHHHTT-HHHHHH---HS-TTS-SCCCHHHHHHHHHHCTSTTHHC
T ss_pred             HHHHhhhHHHHHHHhh-ccCCCchhHHHHHHHHHHHHHHcCChhHHHH---HhccCC-ChhHHHHHHHHHHHhCccchHH
Confidence            3444577777765444 2111    22344455667777776665442   222222 4544444444333333223233


Q ss_pred             HHHHHHHHHHhCCC-cchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCC
Q 006388          294 GTQFHGRSLVTGLI-SFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGL  372 (647)
Q Consensus       294 a~~~~~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  372 (647)
                      +..-+......... .+..+......+|...|++++|++++...  .+.......+..|.+.++++.|.+.++.|.+.  
T Consensus        85 ~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~--~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~--  160 (290)
T PF04733_consen   85 ALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG--GSLELLALAVQILLKMNRPDLAEKELKNMQQI--  160 (290)
T ss_dssp             HHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT--TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCC--
T ss_pred             HHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc--CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhc--
Confidence            32222222212211 22222233334444555555555555443  23333334444455555555555555555432  


Q ss_pred             CCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC--CCCCChhhHHHH
Q 006388          373 KPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM--PFPPDAIGWATL  450 (647)
Q Consensus       373 ~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l  450 (647)
                      ..| .+...+..+                                .+..+.-.+.+.+|..+|+++  ...+++.+.+.+
T Consensus       161 ~eD-~~l~qLa~a--------------------------------wv~l~~g~e~~~~A~y~f~El~~~~~~t~~~lng~  207 (290)
T PF04733_consen  161 DED-SILTQLAEA--------------------------------WVNLATGGEKYQDAFYIFEELSDKFGSTPKLLNGL  207 (290)
T ss_dssp             SCC-HHHHHHHHH--------------------------------HHHHHHTTTCCCHHHHHHHHHHCCS--SHHHHHHH
T ss_pred             CCc-HHHHHHHHH--------------------------------HHHHHhCchhHHHHHHHHHHHHhccCCCHHHHHHH
Confidence            112 222222222                                222222223466666666666  234556666777


Q ss_pred             HHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCCh-hHHHHHHHHHHh
Q 006388          451 LSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKW-DHVSQLRRTMRE  506 (647)
Q Consensus       451 l~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~-~~a~~~~~~m~~  506 (647)
                      ..+....|++++|+.+++++++.+|.++.+...++-+....|+. +.+.+++.++++
T Consensus       208 A~~~l~~~~~~eAe~~L~~al~~~~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~  264 (290)
T PF04733_consen  208 AVCHLQLGHYEEAEELLEEALEKDPNDPDTLANLIVCSLHLGKPTEAAERYLSQLKQ  264 (290)
T ss_dssp             HHHHHHCT-HHHHHHHHHHHCCC-CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHhCCChhHHHHHHHHHHH
Confidence            77777777777777777777777777777777777777777777 556667776655

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.

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.74  E-value=4e-05  Score=79.83  Aligned_cols=227  Identities=11%  Similarity=0.131  Sum_probs=122.8

Q ss_pred             hHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHH
Q 006388          241 VSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFY  320 (647)
Q Consensus       241 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  320 (647)
                      ..|.-...-.-..|+.+.|+.+|...+.         |-++....|-.|+.++|-++-++-      .|....-.|.++|
T Consensus       913 ~L~~WWgqYlES~GemdaAl~~Y~~A~D---------~fs~VrI~C~qGk~~kAa~iA~es------gd~AAcYhlaR~Y  977 (1416)
T KOG3617|consen  913 SLYSWWGQYLESVGEMDAALSFYSSAKD---------YFSMVRIKCIQGKTDKAARIAEES------GDKAACYHLARMY  977 (1416)
T ss_pred             HHHHHHHHHHhcccchHHHHHHHHHhhh---------hhhheeeEeeccCchHHHHHHHhc------ccHHHHHHHHHHh
Confidence            3344444555567888888888876654         456666677788888887776542      3455556688888


Q ss_pred             HhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcC---------------ChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 006388          321 GKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFG---------------KANETIDLFEKMLSHGLKPDEVTLIGVLSA  385 (647)
Q Consensus       321 ~~~g~~~~A~~~~~~~~~~d~~~~~~li~~~~~~g---------------~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a  385 (647)
                      -..|++.+|..+|.+..     ++...|..+-.++               +.-.|-++|++.   |..     +...+..
T Consensus       978 En~g~v~~Av~FfTrAq-----afsnAIRlcKEnd~~d~L~nlal~s~~~d~v~aArYyEe~---g~~-----~~~AVmL 1044 (1416)
T KOG3617|consen  978 ENDGDVVKAVKFFTRAQ-----AFSNAIRLCKENDMKDRLANLALMSGGSDLVSAARYYEEL---GGY-----AHKAVML 1044 (1416)
T ss_pred             hhhHHHHHHHHHHHHHH-----HHHHHHHHHHhcCHHHHHHHHHhhcCchhHHHHHHHHHHc---chh-----hhHHHHH
Confidence            88888888888887653     2222222222111               122233333321   111     1122234


Q ss_pred             HhcCCcHHHHHHH---------HHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCChhhHHHHHHHHHh
Q 006388          386 CSRAGLVEKGRHY---------FEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKMPFPPDAIGWATLLSSCRI  456 (647)
Q Consensus       386 ~~~~g~~~~a~~~---------~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~  456 (647)
                      |-+.|.+.+|+++         ++-+.++..-..|+...+--.+.+....++++|..++-...      -+..-+.. +.
T Consensus      1045 YHkAGm~~kALelAF~tqQf~aL~lIa~DLd~~sDp~ll~RcadFF~~~~qyekAV~lL~~ar------~~~~Alql-C~ 1117 (1416)
T KOG3617|consen 1045 YHKAGMIGKALELAFRTQQFSALDLIAKDLDAGSDPKLLRRCADFFENNQQYEKAVNLLCLAR------EFSGALQL-CK 1117 (1416)
T ss_pred             HHhhcchHHHHHHHHhhcccHHHHHHHHhcCCCCCHHHHHHHHHHHHhHHHHHHHHHHHHHHH------HHHHHHHH-Hh
Confidence            5556666655543         22333332333345555555666666666666666655432      11222222 23


Q ss_pred             cCChhHHHHHHHHHhcc---CCC---CchhHHHHHHhhhhCCChhHHHHHHH
Q 006388          457 HGNVEIGKWAAESLLEL---DPY---NPASYVLLSSIYASKGKWDHVSQLRR  502 (647)
Q Consensus       457 ~~~~~~a~~~~~~~~~~---~p~---~~~~~~~l~~~~~~~g~~~~a~~~~~  502 (647)
                      ..++...+++.+.+.-.   .|+   ....+..++..|.++|.|..|.+=|.
T Consensus      1118 ~~nv~vtee~aE~mTp~Kd~~~~e~~R~~vLeqvae~c~qQG~Yh~AtKKfT 1169 (1416)
T KOG3617|consen 1118 NRNVRVTEEFAELMTPTKDDMPNEQERKQVLEQVAELCLQQGAYHAATKKFT 1169 (1416)
T ss_pred             cCCCchhHHHHHhcCcCcCCCccHHHHHHHHHHHHHHHHhccchHHHHHHHh
Confidence            34445555555544321   122   12456778888888888877766553

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.73  E-value=1.6e-05  Score=73.10  Aligned_cols=406  Identities=12%  Similarity=0.024  Sum_probs=220.9

Q ss_pred             HHHHHHHHHhcCChHHHHHHhccCCCC---CchHHHHHHHHHHhcCChHHHHHHhhcCCC--CCeehHHH-HHHHHHhCC
Q 006388           80 GSPLVDMYAKLGLIYDAKRGFDELPEK---NIVMYNTMITGLLRRGLVEESRRLFRGMKD--KDSISWTT-MITGLMQNG  153 (647)
Q Consensus        80 ~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~-li~~~~~~g  153 (647)
                      +++.+.-+.+..++.+|.+++..-.++   +....+.|...|-+..++..|...++++..  |...-|.. -...+.+.+
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            455666667888888888888766653   445667777788888888888888887764  22222221 234566778


Q ss_pred             ChhHHHHHHHHHHHCCCCCChhhHHHHHHHH--hcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHH
Q 006388          154 LEREAIDLFREMRLEGLAMDQFTFGSVLTAC--GGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESV  231 (647)
Q Consensus       154 ~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~--~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~  231 (647)
                      .+.+|+.+...|...   |+...-..-+.+.  ...+++..++.+.++....   .+..+.+...-...+.|+.+.|.+-
T Consensus        93 i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~e---n~Ad~~in~gCllykegqyEaAvqk  166 (459)
T KOG4340|consen   93 IYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSE---NEADGQINLGCLLYKEGQYEAAVQK  166 (459)
T ss_pred             ccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCC---CccchhccchheeeccccHHHHHHH
Confidence            888888888777542   2222222222222  2456666666666654321   2333444455556677777777777


Q ss_pred             HhcCCCC----ChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHH-HHHHHHHHhccCChHHHHHHHHHHHHhCC
Q 006388          232 FRTMAWK----NVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFT-LGSVISSCANLASLEEGTQFHGRSLVTGL  306 (647)
Q Consensus       232 ~~~~~~~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t-~~~ll~a~~~~~~~~~a~~~~~~~~~~~~  306 (647)
                      |+...+-    ...+||.-+.. .+.|+++.|+++..++.+.|++-.+.. ......+- ....+..-..++...     
T Consensus       167 FqaAlqvsGyqpllAYniALaH-y~~~qyasALk~iSEIieRG~r~HPElgIGm~tegi-DvrsvgNt~~lh~Sa-----  239 (459)
T KOG4340|consen  167 FQAALQVSGYQPLLAYNLALAH-YSSRQYASALKHISEIIERGIRQHPELGIGMTTEGI-DVRSVGNTLVLHQSA-----  239 (459)
T ss_pred             HHHHHhhcCCCchhHHHHHHHH-HhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccC-chhcccchHHHHHHH-----
Confidence            7766542    34566655443 355677777777777777765422110 00000000 000000000011000     


Q ss_pred             CcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCC-----ChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHH
Q 006388          307 ISFITVSNALVTFYGKCGNIEDSHRLFNEMNVR-----DEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIG  381 (647)
Q Consensus       307 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-----d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~  381 (647)
                        -+..+|.-.-.+.+.|+.+.|.+.+-.|+.+     |++|...+.-. -..+++.+..+-+.-+.+... -...||..
T Consensus       240 --l~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~-n~~~~p~~g~~KLqFLL~~nP-fP~ETFAN  315 (459)
T KOG4340|consen  240 --LVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALM-NMDARPTEGFEKLQFLLQQNP-FPPETFAN  315 (459)
T ss_pred             --HHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHh-cccCCccccHHHHHHHHhcCC-CChHHHHH
Confidence              1223344445567889999999999999855     77776655332 224556666666666665432 33469999


Q ss_pred             HHHHHhcCCcHHHHHHHHHHHHHhcCC-CcChHHHHHHHHHHHH-cCCHHHHHHHHHhCCCCCChhhHHHHHHHH-HhcC
Q 006388          382 VLSACSRAGLVEKGRHYFEIMVKEYGI-RPIHDHYTCMIDILSR-AGRLEEAKSFINKMPFPPDAIGWATLLSSC-RIHG  458 (647)
Q Consensus       382 ll~a~~~~g~~~~a~~~~~~~~~~~~~-~p~~~~~~~li~~~~~-~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~-~~~~  458 (647)
                      ++-.|++..-++.|-.++.+-... -. -.+...|+ |++++.. .-..++|.+-++.....-....-..-+..- .++.
T Consensus       316 lLllyCKNeyf~lAADvLAEn~~l-Tyk~L~~Yly~-LLdaLIt~qT~pEea~KKL~~La~~l~~kLRklAi~vQe~r~~  393 (459)
T KOG4340|consen  316 LLLLYCKNEYFDLAADVLAENAHL-TYKFLTPYLYD-LLDALITCQTAPEEAFKKLDGLAGMLTEKLRKLAIQVQEARHN  393 (459)
T ss_pred             HHHHHhhhHHHhHHHHHHhhCcch-hHHHhhHHHHH-HHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            999999999888888776432110 00 01222333 3344433 335566665554431000000000001110 1111


Q ss_pred             C----hhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHhC
Q 006388          459 N----VEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       459 ~----~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  507 (647)
                      +    ...+.+-++..+++.-   .....-++.|.+..++..+.++|..-.+-
T Consensus       394 ~dd~a~R~ai~~Yd~~LE~YL---PVlMa~AkiyW~~~Dy~~vEk~Fr~Svef  443 (459)
T KOG4340|consen  394 RDDEAIRKAVNEYDETLEKYL---PVLMAQAKIYWNLEDYPMVEKIFRKSVEF  443 (459)
T ss_pred             ccHHHHHHHHHHHHHHHHHHH---HHHHHHHHhhccccccHHHHHHHHHHHhh
Confidence            1    1223333444444431   34566778899999999999999876653

>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=98.73  E-value=7.9e-07  Score=86.04  Aligned_cols=217  Identities=12%  Similarity=0.084  Sum_probs=115.3

Q ss_pred             HHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHH-HHHHHHHhccCCh
Q 006388          213 SALVDMYCKCKSIKYAESVFRTMAWKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTL-GSVISSCANLASL  291 (647)
Q Consensus       213 ~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~-~~ll~a~~~~~~~  291 (647)
                      ..+.++|...|+.+.+..-...-..+...+...+...+...++-+.++.-+++....+..++..++ ......+...|++
T Consensus        39 ~~~~Rs~iAlg~~~~vl~ei~~~~~~~l~av~~la~y~~~~~~~e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~  118 (290)
T PF04733_consen   39 FYQYRSYIALGQYDSVLSEIKKSSSPELQAVRLLAEYLSSPSDKESALEELKELLADQAGESNEIVQLLAATILFHEGDY  118 (290)
T ss_dssp             HHHHHHHHHTT-HHHHHHHS-TTSSCCCHHHHHHHHHHCTSTTHHCHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHH
T ss_pred             HHHHHHHHHcCChhHHHHHhccCCChhHHHHHHHHHHHhCccchHHHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCH
Confidence            334556666666655444333333344444433333332223344444444433333322222222 2223445567777


Q ss_pred             HHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCC-hhhHHHHHHHHHH----cCChHHHHHHHHH
Q 006388          292 EEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRD-EVSWTALVSGYAK----FGKANETIDLFEK  366 (647)
Q Consensus       292 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~d-~~~~~~li~~~~~----~g~~~~A~~~~~~  366 (647)
                      +.|.+++...      .+.......+..|.+.++++.|.+.++.|.+-| -.+...+..++..    .+.+.+|..+|++
T Consensus       119 ~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~~eD~~l~qLa~awv~l~~g~e~~~~A~y~f~E  192 (290)
T PF04733_consen  119 EEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQQIDEDSILTQLAEAWVNLATGGEKYQDAFYIFEE  192 (290)
T ss_dssp             HHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHTTTCCCHHHHHHHH
T ss_pred             HHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHhCchhHHHHHHHHHH
Confidence            7777766432      344555678899999999999999999998442 2233334443322    2358888888888


Q ss_pred             HHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCH-HHHHHHHHhC
Q 006388          367 MLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRL-EEAKSFINKM  438 (647)
Q Consensus       367 m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~-~~A~~~~~~~  438 (647)
                      +.+. ..++..+.+.+..+....|++++|.++++.....  -+-+..+...++-+..-.|+. +.+.+++.++
T Consensus       193 l~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~--~~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL  262 (290)
T PF04733_consen  193 LSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEK--DPNDPDTLANLIVCSLHLGKPTEAAERYLSQL  262 (290)
T ss_dssp             HHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC---CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHC
T ss_pred             HHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHh--ccCCHHHHHHHHHHHHHhCCChhHHHHHHHHH
Confidence            7654 4566677777777777777888777777665432  122334444444444445544 4444555554

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.65  E-value=3.9e-05  Score=76.57  Aligned_cols=430  Identities=11%  Similarity=0.015  Sum_probs=220.2

Q ss_pred             HHHHcCCChhHHHHHHHHHHHCCCCCCCcchHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCc-hhhHHHHHHHHHhcCC
Q 006388           14 SGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSY-VFVGSPLVDMYAKLGL   92 (647)
Q Consensus        14 ~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~-~~~~~~li~~~~~~g~   92 (647)
                      .+....|+++.|+.+|.+.....  |+|...|+.=..+++..|++++|.+=-.+-++..  |+ .--|+-+-.++.-.|+
T Consensus        10 naa~s~~d~~~ai~~~t~ai~l~--p~nhvlySnrsaa~a~~~~~~~al~da~k~~~l~--p~w~kgy~r~Gaa~~~lg~   85 (539)
T KOG0548|consen   10 NAAFSSGDFETAIRLFTEAIMLS--PTNHVLYSNRSAAYASLGSYEKALKDATKTRRLN--PDWAKGYSRKGAALFGLGD   85 (539)
T ss_pred             HhhcccccHHHHHHHHHHHHccC--CCccchhcchHHHHHHHhhHHHHHHHHHHHHhcC--CchhhHHHHhHHHHHhccc
Confidence            44567889999999999888877  7788888888888999998888876555554443  33 3445666666667788


Q ss_pred             hHHHHHHhccCCCC---CchHHHHHHHHHHhcCChHHHHHHhhcCCCCCeehHHHHH-----HHHHhCCChhHHHHHHHH
Q 006388           93 IYDAKRGFDELPEK---NIVMYNTMITGLLRRGLVEESRRLFRGMKDKDSISWTTMI-----TGLMQNGLEREAIDLFRE  164 (647)
Q Consensus        93 ~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li-----~~~~~~g~~~~A~~~~~~  164 (647)
                      +++|...|.+-.+.   |...++-+..++    ..+.+.  -+...  ++..|..+.     +.+...-.+..-++.++.
T Consensus        86 ~~eA~~ay~~GL~~d~~n~~L~~gl~~a~----~~~~~~--~~~~~--~p~~~~~l~~~p~t~~~~~~~~~~~~l~~~~~  157 (539)
T KOG0548|consen   86 YEEAILAYSEGLEKDPSNKQLKTGLAQAY----LEDYAA--DQLFT--KPYFHEKLANLPLTNYSLSDPAYVKILEIIQK  157 (539)
T ss_pred             HHHHHHHHHHHhhcCCchHHHHHhHHHhh----hHHHHh--hhhcc--CcHHHHHhhcChhhhhhhccHHHHHHHHHhhc
Confidence            88888888877653   334455555554    111111  00000  111121111     111111111111111111


Q ss_pred             HHHCCCCCChhhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC-C-----
Q 006388          165 MRLEGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAW-K-----  238 (647)
Q Consensus       165 m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~-~-----  238 (647)
                      -      |+..      ..+.   +.....+.+..+...+..    .....-..+...+....    +..... +     
T Consensus       158 ~------p~~l------~~~l---~d~r~m~a~~~l~~~~~~----~~~~~~~~~~~~~~~p~----~~~~~~~~~~~d~  214 (539)
T KOG0548|consen  158 N------PTSL------KLYL---NDPRLMKADGQLKGVDEL----LFYASGIEILASMAEPC----KQEHNGFPIIEDN  214 (539)
T ss_pred             C------cHhh------hccc---ccHHHHHHHHHHhcCccc----cccccccccCCCCCCcc----cccCCCCCccchh
Confidence            0      0000      0000   011111111111100000    00000000000000000    000000 0     


Q ss_pred             --------ChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHH-HHHHHHhccCChHHHHHHHHHHHHhCCCc-
Q 006388          239 --------NVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLG-SVISSCANLASLEEGTQFHGRSLVTGLIS-  308 (647)
Q Consensus       239 --------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~-~ll~a~~~~~~~~~a~~~~~~~~~~~~~~-  308 (647)
                              -..-.-.+.++.-+..+++.|++-+.......   ...||. ..-.++...|........-...++.|... 
T Consensus       215 ~ee~~~k~~a~~ek~lgnaaykkk~f~~a~q~y~~a~el~---~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre~r  291 (539)
T KOG0548|consen  215 TEERRVKEKAHKEKELGNAAYKKKDFETAIQHYAKALELA---TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRELR  291 (539)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHhhhHHHHHHHHHHHHhHh---hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHHHH
Confidence                    00112334444444555555555555544432   222222 22233344444333333322222222110 


Q ss_pred             -----chhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHH-HHHHH
Q 006388          309 -----FITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEV-TLIGV  382 (647)
Q Consensus       309 -----~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~l  382 (647)
                           -......+...|.+.++++.|...|++...+...     -....+....++++...+...-  +.|... -...-
T Consensus       292 ad~klIak~~~r~g~a~~k~~~~~~ai~~~~kaLte~Rt-----~~~ls~lk~~Ek~~k~~e~~a~--~~pe~A~e~r~k  364 (539)
T KOG0548|consen  292 ADYKLIAKALARLGNAYTKREDYEGAIKYYQKALTEHRT-----PDLLSKLKEAEKALKEAERKAY--INPEKAEEEREK  364 (539)
T ss_pred             HHHHHHHHHHHHhhhhhhhHHhHHHHHHHHHHHhhhhcC-----HHHHHHHHHHHHHHHHHHHHHh--hChhHHHHHHHH
Confidence                 0111122445777788888888888875422111     1112233345555555554443  334432 22222


Q ss_pred             HHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-hhhHHHHHHHHHhcCCh
Q 006388          383 LSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPPD-AIGWATLLSSCRIHGNV  460 (647)
Q Consensus       383 l~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~~~~  460 (647)
                      ...+.+.|++..|...|.++++.  -+-|...|....-+|.+.|.+.+|++-.+.. ...|+ ...|.--..++....++
T Consensus       365 Gne~Fk~gdy~~Av~~YteAIkr--~P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~~~kgy~RKg~al~~mk~y  442 (539)
T KOG0548|consen  365 GNEAFKKGDYPEAVKHYTEAIKR--DPEDARLYSNRAACYLKLGEYPEALKDAKKCIELDPNFIKAYLRKGAALRAMKEY  442 (539)
T ss_pred             HHHHHhccCHHHHHHHHHHHHhc--CCchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHH
Confidence            55677889999999999999874  3556788999999999999999998877665 45555 45566666667777899


Q ss_pred             hHHHHHHHHHhccCCCCchhHHHHHHhhhh
Q 006388          461 EIGKWAAESLLELDPYNPASYVLLSSIYAS  490 (647)
Q Consensus       461 ~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  490 (647)
                      +.|.+.|++.++.+|.+......+...+..
T Consensus       443 dkAleay~eale~dp~~~e~~~~~~rc~~a  472 (539)
T KOG0548|consen  443 DKALEAYQEALELDPSNAEAIDGYRRCVEA  472 (539)
T ss_pred             HHHHHHHHHHHhcCchhHHHHHHHHHHHHH
Confidence            999999999999999887666666555544

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

Probab=98.64  E-value=5.1e-05  Score=71.30  Aligned_cols=308  Identities=12%  Similarity=0.073  Sum_probs=165.4

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHH---HHHhcCCChHHHHHHHHHHHHcCCCCchhHH-HHHHH
Q 006388          142 WTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSVL---TACGGLLALEEGKQIHAFIIRNDHKDNVFVG-SALVD  217 (647)
Q Consensus       142 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll---~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~-~~li~  217 (647)
                      ---+-..+...|++..|+..|...++-    |...|.++.   ..|...|....|..-+..+++.  .||-... .--..
T Consensus        41 hlElGk~lla~~Q~sDALt~yHaAve~----dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlel--KpDF~~ARiQRg~  114 (504)
T KOG0624|consen   41 HLELGKELLARGQLSDALTHYHAAVEG----DPNNYQAIFRRATVYLAMGKSKAALQDLSRVLEL--KPDFMAARIQRGV  114 (504)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHcC----CchhHHHHHHHHHHHhhhcCCccchhhHHHHHhc--CccHHHHHHHhch
Confidence            335677778888888998888887663    334444444   3466677777777777777664  4543221 12234


Q ss_pred             HHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHH
Q 006388          218 MYCKCKSIKYAESVFRTMAWKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQF  297 (647)
Q Consensus       218 ~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~  297 (647)
                      .+.+.|.++.|..-|+.+.+.++.- +....++.+       +.+.+++         ......+..+...|+...+..+
T Consensus       115 vllK~Gele~A~~DF~~vl~~~~s~-~~~~eaqsk-------l~~~~e~---------~~l~~ql~s~~~~GD~~~ai~~  177 (504)
T KOG0624|consen  115 VLLKQGELEQAEADFDQVLQHEPSN-GLVLEAQSK-------LALIQEH---------WVLVQQLKSASGSGDCQNAIEM  177 (504)
T ss_pred             hhhhcccHHHHHHHHHHHHhcCCCc-chhHHHHHH-------HHhHHHH---------HHHHHHHHHHhcCCchhhHHHH
Confidence            5667778888877777766443210 000011111       0011111         1122233334455666666666


Q ss_pred             HHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCC
Q 006388          298 HGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMN---VRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKP  374 (647)
Q Consensus       298 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  374 (647)
                      ...+++.. +.|...+..-..+|...|++..|..-++...   ..+....--+-..+...|+.+.++...++-++  +.|
T Consensus       178 i~~llEi~-~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLK--ldp  254 (504)
T KOG0624|consen  178 ITHLLEIQ-PWDASLRQARAKCYIAEGEPKKAIHDLKQASKLSQDNTEGHYKISQLLYTVGDAENSLKEIRECLK--LDP  254 (504)
T ss_pred             HHHHHhcC-cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhccccchHHHHHHHHHHHhhhhHHHHHHHHHHHHc--cCc
Confidence            66666653 4466666666777777777777765555443   34555555556666677777777777777665  456


Q ss_pred             CHHH-HHH---H---------HHHHhcCCcHHHHHHHHHHHHHhcCCCcC-----hHHHHHHHHHHHHcCCHHHHHHHHH
Q 006388          375 DEVT-LIG---V---------LSACSRAGLVEKGRHYFEIMVKEYGIRPI-----HDHYTCMIDILSRAGRLEEAKSFIN  436 (647)
Q Consensus       375 ~~~t-~~~---l---------l~a~~~~g~~~~a~~~~~~~~~~~~~~p~-----~~~~~~li~~~~~~g~~~~A~~~~~  436 (647)
                      |... |..   +         +......+.+.++.+..+...+.   .|.     ...+..+-..+...|++.+|++...
T Consensus       255 dHK~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~---ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~  331 (504)
T KOG0624|consen  255 DHKLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKN---EPEETMIRYNGFRVLCTCYREDEQFGEAIQQCK  331 (504)
T ss_pred             chhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhc---CCcccceeeeeeheeeecccccCCHHHHHHHHH
Confidence            6541 111   0         01122334444444444444332   222     1223334444555566666665555


Q ss_pred             hC-CCCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCc
Q 006388          437 KM-PFPPD-AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNP  478 (647)
Q Consensus       437 ~~-~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~  478 (647)
                      +. .+.|| +.++---..+|.....++.|+.-|+++.+.+|+|.
T Consensus       332 evL~~d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~n~sn~  375 (504)
T KOG0624|consen  332 EVLDIDPDDVQVLCDRAEAYLGDEMYDDAIHDYEKALELNESNT  375 (504)
T ss_pred             HHHhcCchHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCcccH
Confidence            44 34444 55555555556555666666666666666666543

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

Probab=98.63  E-value=0.00013  Score=74.37  Aligned_cols=196  Identities=11%  Similarity=-0.005  Sum_probs=96.7

Q ss_pred             ehHHHHHHHHHhCCChhHHHHHHHHHHHCCC-CCChhhHH-HHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHH---H
Q 006388          140 ISWTTMITGLMQNGLEREAIDLFREMRLEGL-AMDQFTFG-SVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGS---A  214 (647)
Q Consensus       140 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~pd~~t~~-~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~---~  214 (647)
                      ..|..+...+...|+.+.+...+....+... .++..... .....+...|+++++.++++..++.. +.+...+.   .
T Consensus         7 ~a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~~~~   85 (355)
T cd05804           7 LGHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDY-PRDLLALKLHLG   85 (355)
T ss_pred             HHHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHhHH
Confidence            3455555566666666666555555443211 12211111 11223345667777777777766653 22333332   1


Q ss_pred             HHHHHHhcCCHHHHHHHHhcCCCCC---hhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCh
Q 006388          215 LVDMYCKCKSIKYAESVFRTMAWKN---VVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASL  291 (647)
Q Consensus       215 li~~y~~~g~~~~A~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~  291 (647)
                      +.......+..+.+.+.++.....+   ......+...+...|++++|...+++..+.. +.+...+..+..++...|++
T Consensus        86 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g~~  164 (355)
T cd05804          86 AFGLGDFSGMRDHVARVLPLWAPENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQGRF  164 (355)
T ss_pred             HHHhcccccCchhHHHHHhccCcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCH
Confidence            1222222344555555554422222   2233344456667777777777777776642 22234445555555666666


Q ss_pred             HHHHHHHHHHHHhCC-Ccch--hHHHHHHHHHHhcCCHHHHHHHHhhcC
Q 006388          292 EEGTQFHGRSLVTGL-ISFI--TVSNALVTFYGKCGNIEDSHRLFNEMN  337 (647)
Q Consensus       292 ~~a~~~~~~~~~~~~-~~~~--~~~~~li~~~~~~g~~~~A~~~~~~~~  337 (647)
                      ++|...+....+... .++.  ..+..+...+...|++++|..++++..
T Consensus       165 ~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~  213 (355)
T cd05804         165 KEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHI  213 (355)
T ss_pred             HHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHh
Confidence            666666665554321 1111  223345555566666666666665543

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.

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.63  E-value=4.1e-05  Score=88.56  Aligned_cols=323  Identities=10%  Similarity=0.008  Sum_probs=202.3

Q ss_pred             cCCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCC----CC----C--h--hHHHHHHHHHHhc
Q 006388          186 GLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMA----WK----N--V--VSWTAMLVGYGQN  253 (647)
Q Consensus       186 ~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~----~~----~--~--~~~~~li~~~~~~  253 (647)
                      ..|+++.....+..+.......+..........+...|++++|...++...    ..    +  .  .....+...+...
T Consensus       386 ~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  465 (903)
T PRK04841        386 NQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAIND  465 (903)
T ss_pred             hcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhC
Confidence            445555555555443111111223333444556667889999888876542    11    1  1  1122233456678


Q ss_pred             CChhHHHHHHHHHHHCCCCCCH----HHHHHHHHHHhccCChHHHHHHHHHHHHh----CC-CcchhHHHHHHHHHHhcC
Q 006388          254 GCSEEAVKIFCNMQRNGIEPDD----FTLGSVISSCANLASLEEGTQFHGRSLVT----GL-ISFITVSNALVTFYGKCG  324 (647)
Q Consensus       254 g~~~~A~~~~~~m~~~g~~p~~----~t~~~ll~a~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~li~~~~~~g  324 (647)
                      |++++|...+++....--..+.    ...+.+...+...|+++.|...+......    +- .........+...+...|
T Consensus       466 g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G  545 (903)
T PRK04841        466 GDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQG  545 (903)
T ss_pred             CCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCC
Confidence            9999999999988763111121    23344455567789999999988887653    21 112334556677888899


Q ss_pred             CHHHHHHHHhhcCC-------C----ChhhHHHHHHHHHHcCChHHHHHHHHHHHHC--CCCCC--HHHHHHHHHHHhcC
Q 006388          325 NIEDSHRLFNEMNV-------R----DEVSWTALVSGYAKFGKANETIDLFEKMLSH--GLKPD--EVTLIGVLSACSRA  389 (647)
Q Consensus       325 ~~~~A~~~~~~~~~-------~----d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--g~~p~--~~t~~~ll~a~~~~  389 (647)
                      ++++|...+++...       +    ....+..+...+...|++++|...+.+....  ...+.  ...+..+.......
T Consensus       546 ~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~  625 (903)
T PRK04841        546 FLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLAR  625 (903)
T ss_pred             CHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHc
Confidence            99999988876531       1    1223445556677789999999999887653  11222  22444455667789


Q ss_pred             CcHHHHHHHHHHHHHhcCCCcChHHH-----HHHHHHHHHcCCHHHHHHHHHhCCCC--CCh----hhHHHHHHHHHhcC
Q 006388          390 GLVEKGRHYFEIMVKEYGIRPIHDHY-----TCMIDILSRAGRLEEAKSFINKMPFP--PDA----IGWATLLSSCRIHG  458 (647)
Q Consensus       390 g~~~~a~~~~~~~~~~~~~~p~~~~~-----~~li~~~~~~g~~~~A~~~~~~~~~~--p~~----~~~~~ll~~~~~~~  458 (647)
                      |+.++|.+.++..............+     ...+..+...|+.+.|.+++......  ...    ..+..+..++...|
T Consensus       626 G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g  705 (903)
T PRK04841        626 GDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLG  705 (903)
T ss_pred             CCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcC
Confidence            99999999988875421111111111     11224456689999999998776211  111    12445666788899


Q ss_pred             ChhHHHHHHHHHhccCC------CCchhHHHHHHhhhhCCChhHHHHHHHHHHhCC
Q 006388          459 NVEIGKWAAESLLELDP------YNPASYVLLSSIYASKGKWDHVSQLRRTMREKG  508 (647)
Q Consensus       459 ~~~~a~~~~~~~~~~~p------~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g  508 (647)
                      +.++|...++++.+...      ....++..++.+|...|+.++|...+.+..+..
T Consensus       706 ~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~la  761 (903)
T PRK04841        706 QFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALKLA  761 (903)
T ss_pred             CHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh
Confidence            99999999998876421      123467788899999999999999999987654

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.61  E-value=0.00013  Score=84.40  Aligned_cols=359  Identities=9%  Similarity=-0.044  Sum_probs=220.9

Q ss_pred             HHHHhcCChHHHHHHhhcCCCCCeeh--HHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHhcCCChHHH
Q 006388          116 TGLLRRGLVEESRRLFRGMKDKDSIS--WTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSVLTACGGLLALEEG  193 (647)
Q Consensus       116 ~~~~~~g~~~~A~~~~~~~~~~~~~~--~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a  193 (647)
                      ..+...|++.+|..........+...  ...........|+++.+...+..+.......+..........+...|+++++
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            34455666666666655554332111  1111223455677777777776653221111222223334445577899999


Q ss_pred             HHHHHHHHHcCCC------Cc--hhHHHHHHHHHHhcCCHHHHHHHHhcCCC----CCh----hHHHHHHHHHHhcCChh
Q 006388          194 KQIHAFIIRNDHK------DN--VFVGSALVDMYCKCKSIKYAESVFRTMAW----KNV----VSWTAMLVGYGQNGCSE  257 (647)
Q Consensus       194 ~~~~~~~~~~g~~------~~--~~~~~~li~~y~~~g~~~~A~~~~~~~~~----~~~----~~~~~li~~~~~~g~~~  257 (647)
                      ...+....+.--.      +.  ......+...+...|++++|...+++...    .+.    .+++.+...+...|+++
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            8888877543111      11  12223344566788999999988877532    222    34566677788899999


Q ss_pred             HHHHHHHHHHHCCC---CCC--HHHHHHHHHHHhccCChHHHHHHHHHHHHh----CCC---cchhHHHHHHHHHHhcCC
Q 006388          258 EAVKIFCNMQRNGI---EPD--DFTLGSVISSCANLASLEEGTQFHGRSLVT----GLI---SFITVSNALVTFYGKCGN  325 (647)
Q Consensus       258 ~A~~~~~~m~~~g~---~p~--~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~----~~~---~~~~~~~~li~~~~~~g~  325 (647)
                      +|...+.+.....-   .+.  ..++..+...+...|+++.|...+.+....    +..   .....+..+...+...|+
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            99999988764311   111  234445556677899999999988876553    211   123345556677788899


Q ss_pred             HHHHHHHHhhcCC------C--ChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCC-CCHHHH-----HHHHHHHhcCCc
Q 006388          326 IEDSHRLFNEMNV------R--DEVSWTALVSGYAKFGKANETIDLFEKMLSHGLK-PDEVTL-----IGVLSACSRAGL  391 (647)
Q Consensus       326 ~~~A~~~~~~~~~------~--d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~~~t~-----~~ll~a~~~~g~  391 (647)
                      +++|...+++...      +  ....+..+...+...|++++|.+.+.+....... .....+     ...+..+...|+
T Consensus       589 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~  668 (903)
T PRK04841        589 LDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGD  668 (903)
T ss_pred             HHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCC
Confidence            9999988887631      1  1334455666788899999999999887542111 111111     111234455789


Q ss_pred             HHHHHHHHHHHHHhcCCCcCh----HHHHHHHHHHHHcCCHHHHHHHHHhC-------CCCCC-hhhHHHHHHHHHhcCC
Q 006388          392 VEKGRHYFEIMVKEYGIRPIH----DHYTCMIDILSRAGRLEEAKSFINKM-------PFPPD-AIGWATLLSSCRIHGN  459 (647)
Q Consensus       392 ~~~a~~~~~~~~~~~~~~p~~----~~~~~li~~~~~~g~~~~A~~~~~~~-------~~~p~-~~~~~~ll~~~~~~~~  459 (647)
                      .+.|.+++...... . ....    ..+..+..++...|+.++|...+++.       +..++ ..+...+..++...|+
T Consensus       669 ~~~A~~~l~~~~~~-~-~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~  746 (903)
T PRK04841        669 KEAAANWLRQAPKP-E-FANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGR  746 (903)
T ss_pred             HHHHHHHHHhcCCC-C-CccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCC
Confidence            99999887665421 1 1111    11345677888999999999988876       22222 3456677778899999


Q ss_pred             hhHHHHHHHHHhccCCC
Q 006388          460 VEIGKWAAESLLELDPY  476 (647)
Q Consensus       460 ~~~a~~~~~~~~~~~p~  476 (647)
                      .++|...+.+++++...
T Consensus       747 ~~~A~~~L~~Al~la~~  763 (903)
T PRK04841        747 KSEAQRVLLEALKLANR  763 (903)
T ss_pred             HHHHHHHHHHHHHHhCc
Confidence            99999999999987654

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

Probab=98.60  E-value=4.5e-06  Score=91.52  Aligned_cols=201  Identities=14%  Similarity=0.169  Sum_probs=166.1

Q ss_pred             CcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCC--------ChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHH
Q 006388          307 ISFITVSNALVTFYGKCGNIEDSHRLFNEMNVR--------DEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVT  378 (647)
Q Consensus       307 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~--------d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t  378 (647)
                      +.....|-..+......+++++|++++++....        -...|.+++..-...|.-+...++|++..+.  .-....
T Consensus      1455 PNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqy--cd~~~V 1532 (1710)
T KOG1070|consen 1455 PNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQY--CDAYTV 1532 (1710)
T ss_pred             CCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHh--cchHHH
Confidence            445667777788888888999999888887522        2457888888888888888899999999874  222447


Q ss_pred             HHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC---ChhhHHHHHHHH
Q 006388          379 LIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP---DAIGWATLLSSC  454 (647)
Q Consensus       379 ~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p---~~~~~~~ll~~~  454 (647)
                      |..|+.-|.+.+.+++|.++++.|.++++  -....|..+++.+.+..+-++|.+++.++ ..-|   ......-.+..-
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            88889999999999999999999999776  56678999999999999999999999877 2223   355566666667


Q ss_pred             HhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHhCCCcc
Q 006388          455 RIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREKGVRK  511 (647)
Q Consensus       455 ~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~~  511 (647)
                      .++|+.+++..+|+..+...|.....|..+++.=.+.|..+.++.+|++....++.+
T Consensus      1611 Fk~GDaeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~ 1667 (1710)
T KOG1070|consen 1611 FKYGDAERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSI 1667 (1710)
T ss_pred             hhcCCchhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCCh
Confidence            889999999999999999999999999999999999999999999999999888754

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.58  E-value=5.8e-06  Score=78.67  Aligned_cols=179  Identities=12%  Similarity=0.039  Sum_probs=114.5

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhhcCC--C-Ch---hhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHH----H
Q 006388          309 FITVSNALVTFYGKCGNIEDSHRLFNEMNV--R-DE---VSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEV----T  378 (647)
Q Consensus       309 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-d~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~----t  378 (647)
                      ....+..+...+.+.|++++|...|+++..  | +.   .+|..+..+|.+.|++++|+..++++.+.  .|+..    +
T Consensus        32 ~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a  109 (235)
T TIGR03302        32 PAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRL--HPNHPDADYA  109 (235)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--CcCCCchHHH
Confidence            344556667777777888888877776652  2 21   35566677777778888888888877764  23221    3


Q ss_pred             HHHHHHHHhcC--------CcHHHHHHHHHHHHHhcCCCcCh-HHHHHHHHHHHHcCCHHHHHHHHHhCCCCCChhhHHH
Q 006388          379 LIGVLSACSRA--------GLVEKGRHYFEIMVKEYGIRPIH-DHYTCMIDILSRAGRLEEAKSFINKMPFPPDAIGWAT  449 (647)
Q Consensus       379 ~~~ll~a~~~~--------g~~~~a~~~~~~~~~~~~~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~  449 (647)
                      +..+..++...        |+.++|.+.|+.+.+.   .|+. ..+..+...    +......           ......
T Consensus       110 ~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~---~p~~~~~~~a~~~~----~~~~~~~-----------~~~~~~  171 (235)
T TIGR03302       110 YYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR---YPNSEYAPDAKKRM----DYLRNRL-----------AGKELY  171 (235)
T ss_pred             HHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH---CCCChhHHHHHHHH----HHHHHHH-----------HHHHHH
Confidence            33344444433        5677777777777654   2332 122211111    0000000           001124


Q ss_pred             HHHHHHhcCChhHHHHHHHHHhccCCCC---chhHHHHHHhhhhCCChhHHHHHHHHHHhC
Q 006388          450 LLSSCRIHGNVEIGKWAAESLLELDPYN---PASYVLLSSIYASKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       450 ll~~~~~~~~~~~a~~~~~~~~~~~p~~---~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  507 (647)
                      +...+...|++++|...++++++..|++   +..+..++.+|.+.|++++|..+++.+..+
T Consensus       172 ~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       172 VARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            5566888999999999999999987754   478899999999999999999999988764

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).

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.57  E-value=0.0012  Score=66.13  Aligned_cols=128  Identities=11%  Similarity=0.128  Sum_probs=85.3

Q ss_pred             CCcccHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCCcchHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCchhhHHHH
Q 006388            4 HDGVSWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGSPL   83 (647)
Q Consensus         4 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l   83 (647)
                      -|+.+|+.||.-+... .++++.+.++++...-  |-....|..-+..-....+++....+|.+.+..-+  +...|...
T Consensus        18 ~di~sw~~lire~qt~-~~~~~R~~YEq~~~~F--P~s~r~W~~yi~~El~skdfe~VEkLF~RCLvkvL--nlDLW~lY   92 (656)
T KOG1914|consen   18 YDIDSWSQLIREAQTQ-PIDKVRETYEQLVNVF--PSSPRAWKLYIERELASKDFESVEKLFSRCLVKVL--NLDLWKLY   92 (656)
T ss_pred             ccHHHHHHHHHHHccC-CHHHHHHHHHHHhccC--CCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHh--hHhHHHHH
Confidence            3688999999987666 9999999999998653  66777888889999999999999999999887654  34455554


Q ss_pred             HHHHHh-cCChHHHHH----HhccCC------CCCchHHHHHHHH---------HHhcCChHHHHHHhhcCCC
Q 006388           84 VDMYAK-LGLIYDAKR----GFDELP------EKNIVMYNTMITG---------LLRRGLVEESRRLFRGMKD  136 (647)
Q Consensus        84 i~~~~~-~g~~~~A~~----~~~~~~------~~~~~~~~~li~~---------~~~~g~~~~A~~~~~~~~~  136 (647)
                      ++---+ .|+...++.    .|+-..      -..-..|+..+.-         +....+++..+++++++..
T Consensus        93 l~YVR~~~~~~~~~r~~m~qAy~f~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqral~  165 (656)
T KOG1914|consen   93 LSYVRETKGKLFGYREKMVQAYDFALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRALV  165 (656)
T ss_pred             HHHHHHHccCcchHHHHHHHHHHHHHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHhc
Confidence            442211 233333221    222111      1223345555432         3355677888888888765

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.56  E-value=4.2e-06  Score=76.41  Aligned_cols=119  Identities=11%  Similarity=0.074  Sum_probs=99.8

Q ss_pred             CCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHH-HhcCC--hhHH
Q 006388          389 AGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSC-RIHGN--VEIG  463 (647)
Q Consensus       389 ~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~-~~~~~--~~~a  463 (647)
                      .++.+++...++...+  .-+.+...|..+...|...|++++|...+++. ...| +...+..+..++ ...|+  .++|
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            5667777777777765  33567788999999999999999999999988 4556 477788887764 67676  5999


Q ss_pred             HHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHhCCC
Q 006388          464 KWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREKGV  509 (647)
Q Consensus       464 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~  509 (647)
                      ..+++++++.+|+++.++..++..+...|++++|...++++.+..-
T Consensus       130 ~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~~  175 (198)
T PRK10370        130 REMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQKVLDLNS  175 (198)
T ss_pred             HHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            9999999999999999999999999999999999999999987543

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

Probab=98.54  E-value=0.00047  Score=65.01  Aligned_cols=305  Identities=10%  Similarity=0.037  Sum_probs=171.1

Q ss_pred             HHHHHhcCChHHHHHHhhcCCCCCeehHHHHHH---HHHhCCChhHHHHHHHHHHHCCCCCChhhHH-HHHHHHhcCCCh
Q 006388          115 ITGLLRRGLVEESRRLFRGMKDKDSISWTTMIT---GLMQNGLEREAIDLFREMRLEGLAMDQFTFG-SVLTACGGLLAL  190 (647)
Q Consensus       115 i~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~---~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~-~ll~~~~~~~~~  190 (647)
                      .+.+.-.|++..|+.-|....+-|+..|.++.+   .|...|+...|+.=|.+..+  ++||-..-. --...+.+.|.+
T Consensus        45 Gk~lla~~Q~sDALt~yHaAve~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVle--lKpDF~~ARiQRg~vllK~Gel  122 (504)
T KOG0624|consen   45 GKELLARGQLSDALTHYHAAVEGDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLE--LKPDFMAARIQRGVVLLKQGEL  122 (504)
T ss_pred             HHHHHHhhhHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhcCCccchhhHHHHHh--cCccHHHHHHHhchhhhhcccH
Confidence            334444555555555555555656666655543   56667777777777777666  456643211 112234567788


Q ss_pred             HHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCC
Q 006388          191 EEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNG  270 (647)
Q Consensus       191 ~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  270 (647)
                      +.|..-|+.+++.....+.     ...++.+.-..++-+.+            ...+..+..+|+...|+.....+.+-.
T Consensus       123 e~A~~DF~~vl~~~~s~~~-----~~eaqskl~~~~e~~~l------------~~ql~s~~~~GD~~~ai~~i~~llEi~  185 (504)
T KOG0624|consen  123 EQAEADFDQVLQHEPSNGL-----VLEAQSKLALIQEHWVL------------VQQLKSASGSGDCQNAIEMITHLLEIQ  185 (504)
T ss_pred             HHHHHHHHHHHhcCCCcch-----hHHHHHHHHhHHHHHHH------------HHHHHHHhcCCchhhHHHHHHHHHhcC
Confidence            8888888877776421111     11222222111111111            122333444556666666655555531


Q ss_pred             CCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChh------hH
Q 006388          271 IEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEV------SW  344 (647)
Q Consensus       271 ~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~d~~------~~  344 (647)
                       +.|...+..-..+|...|.+..|..=+....+..-. ++...--+...+.+.|+.+.++...++..+-|+.      .|
T Consensus       186 -~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs~D-nTe~~ykis~L~Y~vgd~~~sL~~iRECLKldpdHK~Cf~~Y  263 (504)
T KOG0624|consen  186 -PWDASLRQARAKCYIAEGEPKKAIHDLKQASKLSQD-NTEGHYKISQLLYTVGDAENSLKEIRECLKLDPDHKLCFPFY  263 (504)
T ss_pred             -cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhcccc-chHHHHHHHHHHHhhhhHHHHHHHHHHHHccCcchhhHHHHH
Confidence             334444445555555556655555544444444322 2223333455555666666666665555422211      11


Q ss_pred             HHH---------HHHHHHcCChHHHHHHHHHHHHCCCCCCHHH---HHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcC-
Q 006388          345 TAL---------VSGYAKFGKANETIDLFEKMLSHGLKPDEVT---LIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPI-  411 (647)
Q Consensus       345 ~~l---------i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t---~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-  411 (647)
                      -.+         +......+++.++++..+...+.......++   +..+-.++...|.+.+|++...+..   .+.|+ 
T Consensus       264 KklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL---~~d~~d  340 (504)
T KOG0624|consen  264 KKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVL---DIDPDD  340 (504)
T ss_pred             HHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHHHHH---hcCchH
Confidence            111         1233556788888888888777533322333   3445556777899999999988886   55666 


Q ss_pred             hHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC
Q 006388          412 HDHYTCMIDILSRAGRLEEAKSFINKM-PFPPD  443 (647)
Q Consensus       412 ~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~  443 (647)
                      +.++.--.++|.-...+++|+.-|+.+ ...++
T Consensus       341 v~~l~dRAeA~l~dE~YD~AI~dye~A~e~n~s  373 (504)
T KOG0624|consen  341 VQVLCDRAEAYLGDEMYDDAIHDYEKALELNES  373 (504)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCcc
Confidence            788888889999999999999999888 34443

>PF12854 PPR_1: PPR repeat

Probab=98.52  E-value=1.5e-07  Score=57.82  Aligned_cols=33  Identities=27%  Similarity=0.449  Sum_probs=26.3

Q ss_pred             CCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCC
Q 006388          204 DHKDNVFVGSALVDMYCKCKSIKYAESVFRTMA  236 (647)
Q Consensus       204 g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~  236 (647)
                      |+.||..+||+||++|++.|++++|.++|++|+
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            677888888888888888888888888888774

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.50  E-value=3.4e-06  Score=72.82  Aligned_cols=120  Identities=9%  Similarity=0.045  Sum_probs=75.8

Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCC
Q 006388          363 LFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFP  441 (647)
Q Consensus       363 ~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~  441 (647)
                      +|++..+  +.|+.  +.....++...|++++|...|+....  --+.+...|..+..++.+.|++++|...|++. ...
T Consensus        15 ~~~~al~--~~p~~--~~~~g~~~~~~g~~~~A~~~~~~al~--~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~   88 (144)
T PRK15359         15 ILKQLLS--VDPET--VYASGYASWQEGDYSRAVIDFSWLVM--AQPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD   88 (144)
T ss_pred             HHHHHHH--cCHHH--HHHHHHHHHHcCCHHHHHHHHHHHHH--cCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            4444444  23443  33445566667777777777776653  22335566667777777777777777777766 333


Q ss_pred             C-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhh
Q 006388          442 P-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIY  488 (647)
Q Consensus       442 p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  488 (647)
                      | +...|..+..++...|+.++|+..++++++..|+++..+...+.+.
T Consensus        89 p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~~p~~~~~~~~~~~~~  136 (144)
T PRK15359         89 ASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKMSYADASWSEIRQNAQ  136 (144)
T ss_pred             CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHH
Confidence            4 4666777777777777777777777777777777776666655544

>PLN02789 farnesyltranstransferase

Probab=98.47  E-value=7.2e-05  Score=73.51  Aligned_cols=224  Identities=12%  Similarity=0.093  Sum_probs=133.5

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHH
Q 006388          242 SWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYG  321 (647)
Q Consensus       242 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  321 (647)
                      ++..+-..+...++.++|+.++.++.+.  .|+..|                                  +|+.-..++.
T Consensus        39 a~~~~ra~l~~~e~serAL~lt~~aI~l--nP~~yt----------------------------------aW~~R~~iL~   82 (320)
T PLN02789         39 AMDYFRAVYASDERSPRALDLTADVIRL--NPGNYT----------------------------------VWHFRRLCLE   82 (320)
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHHHH--CchhHH----------------------------------HHHHHHHHHH
Confidence            4555555566666777777777766653  444432                                  2222222222


Q ss_pred             hcC-CHHHHHHHHhhcC---CCChhhHHHHHHHHHHcCCh--HHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHH
Q 006388          322 KCG-NIEDSHRLFNEMN---VRDEVSWTALVSGYAKFGKA--NETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKG  395 (647)
Q Consensus       322 ~~g-~~~~A~~~~~~~~---~~d~~~~~~li~~~~~~g~~--~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a  395 (647)
                      +.| ++++++..++++.   .++..+|+.....+.+.|+.  ++++.+++++.+.. +-|...|.....++.+.|+++++
T Consensus        83 ~L~~~l~eeL~~~~~~i~~npknyqaW~~R~~~l~~l~~~~~~~el~~~~kal~~d-pkNy~AW~~R~w~l~~l~~~~ee  161 (320)
T PLN02789         83 ALDADLEEELDFAEDVAEDNPKNYQIWHHRRWLAEKLGPDAANKELEFTRKILSLD-AKNYHAWSHRQWVLRTLGGWEDE  161 (320)
T ss_pred             HcchhHHHHHHHHHHHHHHCCcchHHhHHHHHHHHHcCchhhHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhhhHHHH
Confidence            233 3455555555443   22344555444444444442  55667776776642 22344666666666677777777


Q ss_pred             HHHHHHHHHhcCCCcChHHHHHHHHHHHHc---CC----HHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhc----CChhH
Q 006388          396 RHYFEIMVKEYGIRPIHDHYTCMIDILSRA---GR----LEEAKSFINKM-PFPP-DAIGWATLLSSCRIH----GNVEI  462 (647)
Q Consensus       396 ~~~~~~~~~~~~~~p~~~~~~~li~~~~~~---g~----~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~----~~~~~  462 (647)
                      ++.++.+++.  -.-+...|+....++.+.   |.    .+++.++..++ ...| |...|+-+...+...    ++..+
T Consensus       162 L~~~~~~I~~--d~~N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y~~~aI~~~P~N~SaW~Yl~~ll~~~~~~l~~~~~  239 (320)
T PLN02789        162 LEYCHQLLEE--DVRNNSAWNQRYFVITRSPLLGGLEAMRDSELKYTIDAILANPRNESPWRYLRGLFKDDKEALVSDPE  239 (320)
T ss_pred             HHHHHHHHHH--CCCchhHHHHHHHHHHhccccccccccHHHHHHHHHHHHHhCCCCcCHHHHHHHHHhcCCcccccchh
Confidence            7777777653  123344555554444443   22    24566666444 4455 478899888888773    34567


Q ss_pred             HHHHHHHHhccCCCCchhHHHHHHhhhhCC------------------ChhHHHHHHHHH
Q 006388          463 GKWAAESLLELDPYNPASYVLLSSIYASKG------------------KWDHVSQLRRTM  504 (647)
Q Consensus       463 a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g------------------~~~~a~~~~~~m  504 (647)
                      |...+.++...+|.++.++..|+++|+...                  ..++|.++++.+
T Consensus       240 ~~~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~l  299 (320)
T PLN02789        240 VSSVCLEVLSKDSNHVFALSDLLDLLCEGLQPTAEFRDTVDTLAEELSDSTLAQAVCSEL  299 (320)
T ss_pred             HHHHHHHhhcccCCcHHHHHHHHHHHHhhhccchhhhhhhhccccccccHHHHHHHHHHH
Confidence            888889988889999999999999998643                  236677777777

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.47  E-value=7.6e-06  Score=70.64  Aligned_cols=99  Identities=11%  Similarity=-0.041  Sum_probs=88.4

Q ss_pred             CCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHH
Q 006388          408 IRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLS  485 (647)
Q Consensus       408 ~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~  485 (647)
                      +.|+  .+..+...+...|++++|.+.|+.. ...| +...|..+..++...|++++|...++++++++|+++..+..++
T Consensus        22 ~~p~--~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~~~~a~~~lg   99 (144)
T PRK15359         22 VDPE--TVYASGYASWQEGDYSRAVIDFSWLVMAQPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDASHPEPVYQTG   99 (144)
T ss_pred             cCHH--HHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHH
Confidence            3454  3556788899999999999999987 4555 5889999999999999999999999999999999999999999


Q ss_pred             HhhhhCCChhHHHHHHHHHHhCC
Q 006388          486 SIYASKGKWDHVSQLRRTMREKG  508 (647)
Q Consensus       486 ~~~~~~g~~~~a~~~~~~m~~~g  508 (647)
                      .++...|++++|...+++..+..
T Consensus       100 ~~l~~~g~~~eAi~~~~~Al~~~  122 (144)
T PRK15359        100 VCLKMMGEPGLAREAFQTAIKMS  122 (144)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC
Confidence            99999999999999999987743

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.44  E-value=5.6e-06  Score=70.17  Aligned_cols=118  Identities=8%  Similarity=0.022  Sum_probs=98.3

Q ss_pred             hHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhh
Q 006388          412 HDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYA  489 (647)
Q Consensus       412 ~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  489 (647)
                      .+..-.+...+...|++++|..+|+-. ...| +...|-.|...|...|++++|+..|.++..++|++|.++..++.+|.
T Consensus        35 l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~ddp~~~~~ag~c~L  114 (157)
T PRK15363         35 LNTLYRYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKIDAPQAPWAAAECYL  114 (157)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHHH
Confidence            344556667778999999999999987 4555 47889999999999999999999999999999999999999999999


Q ss_pred             hCCChhHHHHHHHHHHhCCCccCCCcceEeEcCeEEEEEecCCCCcchHHHHHHHHHHHHhhH
Q 006388          490 SKGKWDHVSQLRRTMREKGVRKDPGCSWIKYKSRVHIFSADDWSSPYSDQIYAELEKLNRKMI  552 (647)
Q Consensus       490 ~~g~~~~a~~~~~~m~~~g~~~~~~~s~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~l~~~m~  552 (647)
                      ..|+.+.|.+.|+......-                       .+|+..++..+++..+..+.
T Consensus       115 ~lG~~~~A~~aF~~Ai~~~~-----------------------~~~~~~~l~~~A~~~L~~l~  154 (157)
T PRK15363        115 ACDNVCYAIKALKAVVRICG-----------------------EVSEHQILRQRAEKMLQQLS  154 (157)
T ss_pred             HcCCHHHHHHHHHHHHHHhc-----------------------cChhHHHHHHHHHHHHHHhh
Confidence            99999999999998766321                       35666667667776666654

>PF12854 PPR_1: PPR repeat

Probab=98.43  E-value=4.3e-07  Score=55.77  Aligned_cols=32  Identities=34%  Similarity=0.562  Sum_probs=22.2

Q ss_pred             CCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC
Q 006388          407 GIRPIHDHYTCMIDILSRAGRLEEAKSFINKM  438 (647)
Q Consensus       407 ~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~  438 (647)
                      |+.||..+|++||++|++.|++++|.++|++|
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            56677777777777777777777777777666

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

Probab=98.41  E-value=6.1e-05  Score=75.94  Aligned_cols=214  Identities=16%  Similarity=0.147  Sum_probs=151.9

Q ss_pred             hcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChhHHHH
Q 006388          185 GGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAW---KNVVSWTAMLVGYGQNGCSEEAVK  261 (647)
Q Consensus       185 ~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~  261 (647)
                      .+.|++.+|.-.|+..++.. +.+...|..|...-...++-..|+..+++..+   .|..+.-+|...|...|.-.+|++
T Consensus       296 m~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~NleaLmaLAVSytNeg~q~~Al~  374 (579)
T KOG1125|consen  296 MKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELDPTNLEALMALAVSYTNEGLQNQALK  374 (579)
T ss_pred             HhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhHHHHHH
Confidence            46677888888888887765 55677888888888888888888888887654   356677777888888888888998


Q ss_pred             HHHHHHHCCCC-----C---CHHHHHHHHHHHhccCChHHHHHHHHHH-HHhCCCcchhHHHHHHHHHHhcCCHHHHHHH
Q 006388          262 IFCNMQRNGIE-----P---DDFTLGSVISSCANLASLEEGTQFHGRS-LVTGLISFITVSNALVTFYGKCGNIEDSHRL  332 (647)
Q Consensus       262 ~~~~m~~~g~~-----p---~~~t~~~ll~a~~~~~~~~~a~~~~~~~-~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  332 (647)
                      .++.-.....+     +   +..+-..  ..+.....+....++|-.+ ...+..+|+.+...|.-.|--.|++++|...
T Consensus       375 ~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiDc  452 (579)
T KOG1125|consen  375 MLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVDC  452 (579)
T ss_pred             HHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHHH
Confidence            88887654210     0   0000000  1111222233334444443 4445557888888888889999999999999


Q ss_pred             HhhcC--CC-ChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhcCCcHHHHHHHHHHHH
Q 006388          333 FNEMN--VR-DEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEV-TLIGVLSACSRAGLVEKGRHYFEIMV  403 (647)
Q Consensus       333 ~~~~~--~~-d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~  403 (647)
                      |+...  +| |...||.|...++...+.++|+..|++.++  ++|+-+ ....|.-+|...|.+++|...|-..+
T Consensus       453 f~~AL~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALq--LqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL  525 (579)
T KOG1125|consen  453 FEAALQVKPNDYLLWNRLGATLANGNRSEEAISAYNRALQ--LQPGYVRVRYNLGISCMNLGAYKEAVKHLLEAL  525 (579)
T ss_pred             HHHHHhcCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHh--cCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHH
Confidence            98876  33 778899999999999999999999999888  578866 45556667888888888887776554

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.40  E-value=1.8e-05  Score=72.02  Aligned_cols=136  Identities=17%  Similarity=0.161  Sum_probs=108.6

Q ss_pred             CCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC--CCCCChhhHHH
Q 006388          372 LKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM--PFPPDAIGWAT  449 (647)
Q Consensus       372 ~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~  449 (647)
                      ..|+......+-.++...|+-+....+......  ....+......++....+.|++.+|...+.+.  +-+||...|+.
T Consensus        62 ~~p~d~~i~~~a~a~~~~G~a~~~l~~~~~~~~--~~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~p~d~~~~~~  139 (257)
T COG5010          62 RNPEDLSIAKLATALYLRGDADSSLAVLQKSAI--AYPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLAPTDWEAWNL  139 (257)
T ss_pred             cCcchHHHHHHHHHHHhcccccchHHHHhhhhc--cCcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccCCCChhhhhH
Confidence            355544335555677777887777777766543  33445566677888999999999999999888  45567889999


Q ss_pred             HHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHhCCC
Q 006388          450 LLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREKGV  509 (647)
Q Consensus       450 ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~  509 (647)
                      +.-+|-+.|+++.|...+.+++++.|.++.++.+|+..|.-.|+++.|..++......+-
T Consensus       140 lgaaldq~Gr~~~Ar~ay~qAl~L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~  199 (257)
T COG5010         140 LGAALDQLGRFDEARRAYRQALELAPNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPA  199 (257)
T ss_pred             HHHHHHHccChhHHHHHHHHHHHhccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCC
Confidence            999999999999999999999999999999999999999999999999999988766443

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.36  E-value=4e-05  Score=72.87  Aligned_cols=182  Identities=12%  Similarity=0.043  Sum_probs=126.6

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCC-c-chhHHHHHHHHHHhcCCHHHHHHHHhhcCC--C-Chh---hHH
Q 006388          274 DDFTLGSVISSCANLASLEEGTQFHGRSLVTGLI-S-FITVSNALVTFYGKCGNIEDSHRLFNEMNV--R-DEV---SWT  345 (647)
Q Consensus       274 ~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~-~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-d~~---~~~  345 (647)
                      ....+......+...|+++.|...++.+.+.... + ....+..+...|.+.|++++|...++++..  | +..   ++.
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            4566777778888999999999999998876421 1 124667788999999999999999999862  2 222   455


Q ss_pred             HHHHHHHHc--------CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHH
Q 006388          346 ALVSGYAKF--------GKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTC  417 (647)
Q Consensus       346 ~li~~~~~~--------g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~  417 (647)
                      .+..++.+.        |+.++|.+.|+++...  .|+.......+.....   .      ....         ......
T Consensus       112 ~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~~~~---~------~~~~---------~~~~~~  171 (235)
T TIGR03302       112 LRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR--YPNSEYAPDAKKRMDY---L------RNRL---------AGKELY  171 (235)
T ss_pred             HHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH--CCCChhHHHHHHHHHH---H------HHHH---------HHHHHH
Confidence            566666654        7889999999999875  4554321111110000   0      0000         011235


Q ss_pred             HHHHHHHcCCHHHHHHHHHhC----CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCC
Q 006388          418 MIDILSRAGRLEEAKSFINKM----PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDP  475 (647)
Q Consensus       418 li~~~~~~g~~~~A~~~~~~~----~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p  475 (647)
                      +.+.|.+.|++++|...+++.    |..| ....|..+..++...|++++|...++.+....|
T Consensus       172 ~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~~  234 (235)
T TIGR03302       172 VARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANYP  234 (235)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            667788999999999988876    3233 356888999999999999999998888776655

Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.35  E-value=5.1e-05  Score=78.43  Aligned_cols=192  Identities=9%  Similarity=0.085  Sum_probs=113.9

Q ss_pred             CcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 006388          307 ISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSAC  386 (647)
Q Consensus       307 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~  386 (647)
                      +|-...-..+.+.+.+.|-...|..+|+++     ..|.-.|-+|...|+..+|..+..+-.+  -+||..-|..+.+..
T Consensus       395 pp~Wq~q~~laell~slGitksAl~I~Erl-----emw~~vi~CY~~lg~~~kaeei~~q~le--k~~d~~lyc~LGDv~  467 (777)
T KOG1128|consen  395 PPIWQLQRLLAELLLSLGITKSALVIFERL-----EMWDPVILCYLLLGQHGKAEEINRQELE--KDPDPRLYCLLGDVL  467 (777)
T ss_pred             CCcchHHHHHHHHHHHcchHHHHHHHHHhH-----HHHHHHHHHHHHhcccchHHHHHHHHhc--CCCcchhHHHhhhhc
Confidence            343444444555555555555555555543     3444455555555555555555555444  244555555554444


Q ss_pred             hcC----------------------------CcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC
Q 006388          387 SRA----------------------------GLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM  438 (647)
Q Consensus       387 ~~~----------------------------g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~  438 (647)
                      ...                            ++++++.+.|+.-.+-+  +....+|-.+..+..+.++++.|.+.|...
T Consensus       468 ~d~s~yEkawElsn~~sarA~r~~~~~~~~~~~fs~~~~hle~sl~~n--plq~~~wf~~G~~ALqlek~q~av~aF~rc  545 (777)
T KOG1128|consen  468 HDPSLYEKAWELSNYISARAQRSLALLILSNKDFSEADKHLERSLEIN--PLQLGTWFGLGCAALQLEKEQAAVKAFHRC  545 (777)
T ss_pred             cChHHHHHHHHHhhhhhHHHHHhhccccccchhHHHHHHHHHHHhhcC--ccchhHHHhccHHHHHHhhhHHHHHHHHHH
Confidence            444                            44445544444433221  112345555555666777777777777665


Q ss_pred             -CCCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHhC
Q 006388          439 -PFPPD-AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       439 -~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  507 (647)
                       ...|| ...||.+-.+|.+.++-.+|...++++++.+-++...+.+..-...+.|.|++|.+.+.++.+.
T Consensus       546 vtL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~~~w~iWENymlvsvdvge~eda~~A~~rll~~  616 (777)
T KOG1128|consen  546 VTLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNYQHWQIWENYMLVSVDVGEFEDAIKAYHRLLDL  616 (777)
T ss_pred             hhcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCCCCCeeeechhhhhhhcccHHHHHHHHHHHHHh
Confidence             45665 6677777777777777777777777777777666666666666777777777777777777653

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.34  E-value=1.7e-05  Score=81.81  Aligned_cols=155  Identities=15%  Similarity=0.127  Sum_probs=124.2

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHH
Q 006388          343 SWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDIL  422 (647)
Q Consensus       343 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~  422 (647)
                      .-..+...+...|-...|+.+|++...         +..++.+|...|+..+|..+...-.+   -+|++..|..+.|..
T Consensus       400 ~q~~laell~slGitksAl~I~Erlem---------w~~vi~CY~~lg~~~kaeei~~q~le---k~~d~~lyc~LGDv~  467 (777)
T KOG1128|consen  400 LQRLLAELLLSLGITKSALVIFERLEM---------WDPVILCYLLLGQHGKAEEINRQELE---KDPDPRLYCLLGDVL  467 (777)
T ss_pred             HHHHHHHHHHHcchHHHHHHHHHhHHH---------HHHHHHHHHHhcccchHHHHHHHHhc---CCCcchhHHHhhhhc
Confidence            344567788899999999999998754         45678889999999999988876654   378888888887754


Q ss_pred             HHc----------------------------CCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhc
Q 006388          423 SRA----------------------------GRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLE  472 (647)
Q Consensus       423 ~~~----------------------------g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  472 (647)
                      ...                            ++++++.+.|+.- .+.| ...+|-.+..+..+.++++.|.+.|.+...
T Consensus       468 ~d~s~yEkawElsn~~sarA~r~~~~~~~~~~~fs~~~~hle~sl~~nplq~~~wf~~G~~ALqlek~q~av~aF~rcvt  547 (777)
T KOG1128|consen  468 HDPSLYEKAWELSNYISARAQRSLALLILSNKDFSEADKHLERSLEINPLQLGTWFGLGCAALQLEKEQAAVKAFHRCVT  547 (777)
T ss_pred             cChHHHHHHHHHhhhhhHHHHHhhccccccchhHHHHHHHHHHHhhcCccchhHHHhccHHHHHHhhhHHHHHHHHHHhh
Confidence            443                            4445555555432 3344 366888888888899999999999999999


Q ss_pred             cCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHhCCC
Q 006388          473 LDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREKGV  509 (647)
Q Consensus       473 ~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~  509 (647)
                      ++|++...|++++.+|.+.|+-.+|...+++..+-+.
T Consensus       548 L~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~  584 (777)
T KOG1128|consen  548 LEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNY  584 (777)
T ss_pred             cCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCC
Confidence            9999999999999999999999999999999887663

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.32  E-value=6.1e-05  Score=68.80  Aligned_cols=156  Identities=8%  Similarity=0.063  Sum_probs=112.9

Q ss_pred             HHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHH
Q 006388          316 LVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKG  395 (647)
Q Consensus       316 li~~~~~~g~~~~A~~~~~~~~~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a  395 (647)
                      -+-.|.+.|+++.+....+.+..+.        ..|...++.++++..+++..+.. +.|...|..+...|...|++++|
T Consensus        22 ~~~~Y~~~g~~~~v~~~~~~~~~~~--------~~~~~~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A   92 (198)
T PRK10370         22 CVGSYLLSPKWQAVRAEYQRLADPL--------HQFASQQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNA   92 (198)
T ss_pred             HHHHHHHcchHHHHHHHHHHHhCcc--------ccccCchhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHH
Confidence            3456777888777655544332221        01122566678888888777642 44555788888889999999999


Q ss_pred             HHHHHHHHHhcCCCcChHHHHHHHHHH-HHcCC--HHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHH
Q 006388          396 RHYFEIMVKEYGIRPIHDHYTCMIDIL-SRAGR--LEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESL  470 (647)
Q Consensus       396 ~~~~~~~~~~~~~~p~~~~~~~li~~~-~~~g~--~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~  470 (647)
                      ...|+...+-  .+.+...+..+..++ .+.|+  .++|.+++++. ...| +...+..+...+...|++++|+..++++
T Consensus        93 ~~a~~~Al~l--~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~a  170 (198)
T PRK10370         93 LLAYRQALQL--RGENAELYAALATVLYYQAGQHMTPQTREMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQKV  170 (198)
T ss_pred             HHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            9999988753  233667788888864 67777  58999999988 4555 4778888888999999999999999999


Q ss_pred             hccCCCCchhHH
Q 006388          471 LELDPYNPASYV  482 (647)
Q Consensus       471 ~~~~p~~~~~~~  482 (647)
                      +++.|++..-+.
T Consensus       171 L~l~~~~~~r~~  182 (198)
T PRK10370        171 LDLNSPRVNRTQ  182 (198)
T ss_pred             HhhCCCCccHHH
Confidence            999987654443

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

Probab=98.30  E-value=0.00018  Score=79.54  Aligned_cols=217  Identities=13%  Similarity=0.121  Sum_probs=164.0

Q ss_pred             hhhHHHHHHHHhcCCChHHHHHHHHHHHHcC-C---CCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCC-C-hhHHHHHH
Q 006388          174 QFTFGSVLTACGGLLALEEGKQIHAFIIRND-H---KDNVFVGSALVDMYCKCKSIKYAESVFRTMAWK-N-VVSWTAML  247 (647)
Q Consensus       174 ~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g-~---~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~-~-~~~~~~li  247 (647)
                      ...|..-+......++++.|+++.+++++.= +   .--..+|.+++++-..-|.-+...++|++..+- | ...|..|.
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            3456666777778888888888888877631 1   112357788888888888888888999887753 3 35688899


Q ss_pred             HHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHhcCCH
Q 006388          248 VGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGL-ISFITVSNALVTFYGKCGNI  326 (647)
Q Consensus       248 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~li~~~~~~g~~  326 (647)
                      ..|.+.+.+++|-++|+.|.+. +.-....|...+..+.+.++-+.|..++.++.+.-. ........-.+++-.++|+.
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            9999999999999999999875 344566788888888888888888888888877521 12455666777888899999


Q ss_pred             HHHHHHHhhcCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHH--HHHHHHHHHhcCCc
Q 006388          327 EDSHRLFNEMNV---RDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEV--TLIGVLSACSRAGL  391 (647)
Q Consensus       327 ~~A~~~~~~~~~---~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~--t~~~ll~a~~~~g~  391 (647)
                      +.++.+|+....   +-...|+..|..-.++|+.+.+..+|++....++.|-..  .|.-.|..=...|+
T Consensus      1617 eRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gd 1686 (1710)
T KOG1070|consen 1617 ERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGD 1686 (1710)
T ss_pred             hhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCc
Confidence            999999998772   356789999999999999999999999999988877643  44444443333343

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.28  E-value=9.3e-05  Score=67.50  Aligned_cols=153  Identities=13%  Similarity=0.109  Sum_probs=84.8

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcC
Q 006388          347 LVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAG  426 (647)
Q Consensus       347 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g  426 (647)
                      +-..+...|+-+....+..+.... ..-|............+.|++.+|...|++...  .-++|...|+.+.-.|.+.|
T Consensus        72 ~a~a~~~~G~a~~~l~~~~~~~~~-~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~--l~p~d~~~~~~lgaaldq~G  148 (257)
T COG5010          72 LATALYLRGDADSSLAVLQKSAIA-YPKDRELLAAQGKNQIRNGNFGEAVSVLRKAAR--LAPTDWEAWNLLGAALDQLG  148 (257)
T ss_pred             HHHHHHhcccccchHHHHhhhhcc-CcccHHHHHHHHHHHHHhcchHHHHHHHHHHhc--cCCCChhhhhHHHHHHHHcc
Confidence            334444555555555554443321 111222333355555566666666666665543  44555566666666666666


Q ss_pred             CHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHH
Q 006388          427 RLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRR  502 (647)
Q Consensus       427 ~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~  502 (647)
                      ++++|..-|.+. .+.| ++...+.|...+.-.|+.+.|+.++.......+.++.+-..|+.+....|++++|..+-.
T Consensus       149 r~~~Ar~ay~qAl~L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~ad~~v~~NLAl~~~~~g~~~~A~~i~~  226 (257)
T COG5010         149 RFDEARRAYRQALELAPNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAADSRVRQNLALVVGLQGDFREAEDIAV  226 (257)
T ss_pred             ChhHHHHHHHHHHHhccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCCchHHHHHHHHHHhhcCChHHHHhhcc
Confidence            666666655554 3333 355556666666666666666666666665555566666666666666666666655543

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.28  E-value=0.0001  Score=79.98  Aligned_cols=161  Identities=14%  Similarity=0.122  Sum_probs=125.1

Q ss_pred             ChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHH
Q 006388          340 DEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEV-TLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCM  418 (647)
Q Consensus       340 d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l  418 (647)
                      ++..+-.|.....+.|.+++|..+++...+  +.|+.. ....+...+.+.+.+++|....+....  .-+-+......+
T Consensus        85 ~~~~~~~La~i~~~~g~~~ea~~~l~~~~~--~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~--~~p~~~~~~~~~  160 (694)
T PRK15179         85 TELFQVLVARALEAAHRSDEGLAVWRGIHQ--RFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFS--GGSSSAREILLE  160 (694)
T ss_pred             cHHHHHHHHHHHHHcCCcHHHHHHHHHHHh--hCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhh--cCCCCHHHHHHH
Confidence            577888888999999999999999999988  578766 777788899999999999999998875  233356778888


Q ss_pred             HHHHHHcCCHHHHHHHHHhCC-CCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhH
Q 006388          419 IDILSRAGRLEEAKSFINKMP-FPPD-AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDH  496 (647)
Q Consensus       419 i~~~~~~g~~~~A~~~~~~~~-~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  496 (647)
                      ..++...|++++|.++|++.- -.|+ ..+|.++..++...|+.++|...|+++++...+-...|..++      +++..
T Consensus       161 a~~l~~~g~~~~A~~~y~~~~~~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~~~~~~~~~~~------~~~~~  234 (694)
T PRK15179        161 AKSWDEIGQSEQADACFERLSRQHPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAIGDGARKLTRRL------VDLNA  234 (694)
T ss_pred             HHHHHHhcchHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhCcchHHHHHHH------HHHHH
Confidence            899999999999999999882 3444 788999999999999999999999999887655445544332      33344


Q ss_pred             HHHHHHHHHhCCCc
Q 006388          497 VSQLRRTMREKGVR  510 (647)
Q Consensus       497 a~~~~~~m~~~g~~  510 (647)
                      -...++++.-.+..
T Consensus       235 ~~~~~~~~~~~~~~  248 (694)
T PRK15179        235 DLAALRRLGVEGDG  248 (694)
T ss_pred             HHHHHHHcCccccc
Confidence            44555555444433

>PLN02789 farnesyltranstransferase

Probab=98.26  E-value=0.00014  Score=71.40  Aligned_cols=139  Identities=9%  Similarity=-0.027  Sum_probs=86.0

Q ss_pred             cHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCCcchHHHHHHHHhCCC-ChHHHHHHHHHHHHhCCCCchhhHHHHHHH
Q 006388            8 SWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRR-CVDLGRQIHGHILKFGFGSYVFVGSPLVDM   86 (647)
Q Consensus         8 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~g~~~~~~~~~~li~~   86 (647)
                      +++.+-..+...+..++|+.++.++++..  |.+..+|+.--..+...| +++++...++.+++.. +.+..+++..-.+
T Consensus        39 a~~~~ra~l~~~e~serAL~lt~~aI~ln--P~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~n-pknyqaW~~R~~~  115 (320)
T PLN02789         39 AMDYFRAVYASDERSPRALDLTADVIRLN--PGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDN-PKNYQIWHHRRWL  115 (320)
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHHHHC--chhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHC-CcchHHhHHHHHH
Confidence            35566666777888888999988888775  556666766666666666 5788888888888765 4555566655555


Q ss_pred             HHhcCCh--HHHHHHhccCCC---CCchHHHHHHHHHHhcCChHHHHHHhhcCCC---CCeehHHHHHHHH
Q 006388           87 YAKLGLI--YDAKRGFDELPE---KNIVMYNTMITGLLRRGLVEESRRLFRGMKD---KDSISWTTMITGL  149 (647)
Q Consensus        87 ~~~~g~~--~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~  149 (647)
                      +.+.|..  +++...++.+.+   +|..+|+.....+.+.|+++++++.++++.+   .|..+|+.....+
T Consensus       116 l~~l~~~~~~~el~~~~kal~~dpkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~N~sAW~~R~~vl  186 (320)
T PLN02789        116 AEKLGPDAANKELEFTRKILSLDAKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVRNNSAWNQRYFVI  186 (320)
T ss_pred             HHHcCchhhHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCchhHHHHHHHHH
Confidence            5555542  455666655543   3444555555555555556666655555543   2334454444333

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.23  E-value=0.00019  Score=77.81  Aligned_cols=143  Identities=10%  Similarity=0.100  Sum_probs=117.3

Q ss_pred             CCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcC--CC-ChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHH-HHH
Q 006388          305 GLISFITVSNALVTFYGKCGNIEDSHRLFNEMN--VR-DEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEV-TLI  380 (647)
Q Consensus       305 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~--~~-d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~  380 (647)
                      ....+...+..|.......|.+++|+.+++...  .| +...+..+..++.+.+++++|+..+++....  .|+.. ...
T Consensus        81 ~~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~--~p~~~~~~~  158 (694)
T PRK15179         81 RYPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSG--GSSSAREIL  158 (694)
T ss_pred             hccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhc--CCCCHHHHH
Confidence            345668888889999999999999999999987  34 5677888899999999999999999999985  67766 455


Q ss_pred             HHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC--CCCCChhhHHHHH
Q 006388          381 GVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM--PFPPDAIGWATLL  451 (647)
Q Consensus       381 ~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~ll  451 (647)
                      .+..++.+.|.+++|..+|+++..  ..+-+...+..+..++-+.|+.++|...|++.  ...|....|+.++
T Consensus       159 ~~a~~l~~~g~~~~A~~~y~~~~~--~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~~~~~~~~~~~  229 (694)
T PRK15179        159 LEAKSWDEIGQSEQADACFERLSR--QHPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAIGDGARKLTRRL  229 (694)
T ss_pred             HHHHHHHHhcchHHHHHHHHHHHh--cCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhCcchHHHHHHH
Confidence            566788899999999999999986  33345788999999999999999999999988  2334455554444

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.19  E-value=2.7e-06  Score=53.11  Aligned_cols=35  Identities=31%  Similarity=0.609  Sum_probs=32.4

Q ss_pred             ccHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCCc
Q 006388            7 VSWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSR   42 (647)
Q Consensus         7 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~   42 (647)
                      ++||+||.+|++.|++++|.++|++|.+.|+ +||.
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~-~p~~   35 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGI-EPDV   35 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCC-CCCC
Confidence            4899999999999999999999999999999 8873

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.

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.19  E-value=0.00017  Score=71.47  Aligned_cols=115  Identities=19%  Similarity=0.171  Sum_probs=68.0

Q ss_pred             cCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-hhhHHHHHHHHHhcCChhHHHH
Q 006388          388 RAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPPD-AIGWATLLSSCRIHGNVEIGKW  465 (647)
Q Consensus       388 ~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~~~~~~a~~  465 (647)
                      ..|.+++|+..++.+++  ..+.|+.......+.+.+.|+.++|.+.++++ ...|+ ...+-.+..++.+.|+..+|+.
T Consensus       318 ~~~~~d~A~~~l~~L~~--~~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~P~~~~l~~~~a~all~~g~~~eai~  395 (484)
T COG4783         318 LAGQYDEALKLLQPLIA--AQPDNPYYLELAGDILLEANKAKEAIERLKKALALDPNSPLLQLNLAQALLKGGKPQEAIR  395 (484)
T ss_pred             HhcccchHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHhcCChHHHHH
Confidence            34566666666666554  23334444555556666666666666666665 34444 5555566666666666666666


Q ss_pred             HHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHH
Q 006388          466 AAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTM  504 (647)
Q Consensus       466 ~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  504 (647)
                      .++.....+|+|+..|..|+.+|...|+..++...+.++
T Consensus       396 ~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~A~AE~  434 (484)
T COG4783         396 ILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLARAEG  434 (484)
T ss_pred             HHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHHHHHHH
Confidence            666666666666666666666666666665555555444

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.18  E-value=2.4e-05  Score=67.11  Aligned_cols=96  Identities=19%  Similarity=0.257  Sum_probs=81.4

Q ss_pred             hHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhh
Q 006388          412 HDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYA  489 (647)
Q Consensus       412 ~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  489 (647)
                      ......+...+...|++++|.+.+++. ...| +...|..+...+...|++++|...++++++.+|+++..+..++.+|.
T Consensus        17 ~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~   96 (135)
T TIGR02552        17 LEQIYALAYNLYQQGRYDEALKLFQLLAAYDPYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDPDDPRPYFHAAECLL   96 (135)
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHH
Confidence            455667777888889999999888887 3344 57788888888889999999999999999999999999999999999


Q ss_pred             hCCChhHHHHHHHHHHhC
Q 006388          490 SKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       490 ~~g~~~~a~~~~~~m~~~  507 (647)
                      ..|++++|.+.+++..+.
T Consensus        97 ~~g~~~~A~~~~~~al~~  114 (135)
T TIGR02552        97 ALGEPESALKALDLAIEI  114 (135)
T ss_pred             HcCCHHHHHHHHHHHHHh
Confidence            999999999999887764

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.18  E-value=0.017  Score=61.95  Aligned_cols=68  Identities=22%  Similarity=0.235  Sum_probs=54.5

Q ss_pred             hHHHHHHHHHhcCCh---hHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHhCCCccCC
Q 006388          446 GWATLLSSCRIHGNV---EIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREKGVRKDP  513 (647)
Q Consensus       446 ~~~~ll~~~~~~~~~---~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~~~~  513 (647)
                      +.+.|+..|++.++.   -+|+-+++..+...|.|...-..|+.+|+-.|-...|.++++.+--+.|..|.
T Consensus       438 av~~Lid~~rktnd~~~l~eaI~LLE~glt~s~hnf~~KLlLiriY~~lGa~p~a~~~y~tLdIK~IQ~DT  508 (932)
T KOG2053|consen  438 AVNHLIDLWRKTNDLTDLFEAITLLENGLTKSPHNFQTKLLLIRIYSYLGAFPDAYELYKTLDIKNIQTDT  508 (932)
T ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHHHhhcCCccHHHHHHHHHHHHHhcCChhHHHHHHhcchHHhhhcc
Confidence            346777788887764   46777788888888999888899999999999999999999988766666553

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.17  E-value=0.0015  Score=59.69  Aligned_cols=175  Identities=15%  Similarity=0.102  Sum_probs=101.9

Q ss_pred             HHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCH
Q 006388          297 FHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDE  376 (647)
Q Consensus       297 ~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  376 (647)
                      +.+.+.......+......-...|.+.|++++|++.......-+....+  +..+.+..+.+-|.+.+++|.+-   -+.
T Consensus        95 l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~~lE~~Al~--VqI~lk~~r~d~A~~~lk~mq~i---ded  169 (299)
T KOG3081|consen   95 LYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGENLEAAALN--VQILLKMHRFDLAEKELKKMQQI---DED  169 (299)
T ss_pred             HHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccchHHHHHHH--HHHHHHHHHHHHHHHHHHHHHcc---chH
Confidence            3344444433444344444456677888888888887773333333333  34455667778888888888763   355


Q ss_pred             HHHHHHHHHHhc----CCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC--CCCCChhhHHHH
Q 006388          377 VTLIGVLSACSR----AGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM--PFPPDAIGWATL  450 (647)
Q Consensus       377 ~t~~~ll~a~~~----~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l  450 (647)
                      .|.+.|..++.+    .+.+.+|.-+|++|..  ..+|+..+.+-+..+....|++++|..+++..  ....++.+...+
T Consensus       170 ~tLtQLA~awv~la~ggek~qdAfyifeE~s~--k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~dpetL~Nl  247 (299)
T KOG3081|consen  170 ATLTQLAQAWVKLATGGEKIQDAFYIFEELSE--KTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAKDPETLANL  247 (299)
T ss_pred             HHHHHHHHHHHHHhccchhhhhHHHHHHHHhc--ccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCCCHHHHHHH
Confidence            577666666543    3456777777777754  35666666666666666677777777776665  222234444444


Q ss_pred             HHHHHhcC-ChhHHHHHHHHHhccCCCCc
Q 006388          451 LSSCRIHG-NVEIGKWAAESLLELDPYNP  478 (647)
Q Consensus       451 l~~~~~~~-~~~~a~~~~~~~~~~~p~~~  478 (647)
                      +-.-...| +.+...+...++....|..+
T Consensus       248 iv~a~~~Gkd~~~~~r~l~QLk~~~p~h~  276 (299)
T KOG3081|consen  248 IVLALHLGKDAEVTERNLSQLKLSHPEHP  276 (299)
T ss_pred             HHHHHHhCCChHHHHHHHHHHHhcCCcch
Confidence            44443444 33444555566666666543

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.16  E-value=3.6e-06  Score=52.52  Aligned_cols=35  Identities=37%  Similarity=0.676  Sum_probs=32.4

Q ss_pred             ehHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCh
Q 006388          140 ISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQ  174 (647)
Q Consensus       140 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~  174 (647)
                      ++||++|.+|++.|++++|.++|++|.+.|+.||.
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            47999999999999999999999999999999984

This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.14  E-value=0.00026  Score=77.62  Aligned_cols=148  Identities=11%  Similarity=0.075  Sum_probs=85.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc
Q 006388          312 VSNALVTFYGKCGNIEDSHRLFNEMN---VRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSR  388 (647)
Q Consensus       312 ~~~~li~~~~~~g~~~~A~~~~~~~~---~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~  388 (647)
                      .+..|..+|-+.|+.++|..+++++.   ..|+...|.+.-.|+.. +.++|++++.+....               +..
T Consensus       118 Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~---------------~i~  181 (906)
T PRK14720        118 ALRTLAEAYAKLNENKKLKGVWERLVKADRDNPEIVKKLATSYEEE-DKEKAITYLKKAIYR---------------FIK  181 (906)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHh-hHHHHHHHHHHHHHH---------------HHh
Confidence            44455555666666666666665554   22455555555555555 555665555554432               333


Q ss_pred             CCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHH
Q 006388          389 AGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKMPFPPDAIGWATLLSSCRIHGNVEIGKWAAE  468 (647)
Q Consensus       389 ~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~  468 (647)
                      ..++..+.++|..+..  ..+.+...+-.+.....            ...+...-+.++--+-.-|...++++++..+++
T Consensus       182 ~kq~~~~~e~W~k~~~--~~~~d~d~f~~i~~ki~------------~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK  247 (906)
T PRK14720        182 KKQYVGIEEIWSKLVH--YNSDDFDFFLRIERKVL------------GHREFTRLVGLLEDLYEPYKALEDWDEVIYILK  247 (906)
T ss_pred             hhcchHHHHHHHHHHh--cCcccchHHHHHHHHHH------------hhhccchhHHHHHHHHHHHhhhhhhhHHHHHHH
Confidence            4455555555555543  11122222221111111            111122234455566677888899999999999


Q ss_pred             HHhccCCCCchhHHHHHHhhh
Q 006388          469 SLLELDPYNPASYVLLSSIYA  489 (647)
Q Consensus       469 ~~~~~~p~~~~~~~~l~~~~~  489 (647)
                      .+++.+|.|..+...++..|.
T Consensus       248 ~iL~~~~~n~~a~~~l~~~y~  268 (906)
T PRK14720        248 KILEHDNKNNKAREELIRFYK  268 (906)
T ss_pred             HHHhcCCcchhhHHHHHHHHH
Confidence            999999999888888888876

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.08  E-value=5.4e-06  Score=51.33  Aligned_cols=34  Identities=21%  Similarity=0.401  Sum_probs=30.7

Q ss_pred             cccHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCC
Q 006388            6 GVSWNLLISGHASHGSVNDAVKVYNLMLKDGLGNL   40 (647)
Q Consensus         6 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~   40 (647)
                      +++||++|.+|++.|+++.|+++|+.|.+.|+ +|
T Consensus         1 v~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv-~P   34 (34)
T PF13812_consen    1 VHTYNALLRACAKAGDPDAALQLFDEMKEQGV-KP   34 (34)
T ss_pred             CcHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CC
Confidence            46899999999999999999999999999998 66

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.04  E-value=0.02  Score=57.82  Aligned_cols=427  Identities=11%  Similarity=0.106  Sum_probs=240.2

Q ss_pred             CCchhhHHHHHHHHHhcCChHHHHHHhccCCC--C-CchHHHHHHHHHHhcCChHHHHHHhhcCCCC--CeehHHHHHHH
Q 006388           74 GSYVFVGSPLVDMYAKLGLIYDAKRGFDELPE--K-NIVMYNTMITGLLRRGLVEESRRLFRGMKDK--DSISWTTMITG  148 (647)
Q Consensus        74 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~li~~  148 (647)
                      +.|+..|+.||.-+... .++++++.++++..  | ....|..-|....+..+++..+++|.+...+  ++..|..-|.-
T Consensus        17 P~di~sw~~lire~qt~-~~~~~R~~YEq~~~~FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvkvLnlDLW~lYl~Y   95 (656)
T KOG1914|consen   17 PYDIDSWSQLIREAQTQ-PIDKVRETYEQLVNVFPSSPRAWKLYIERELASKDFESVEKLFSRCLVKVLNLDLWKLYLSY   95 (656)
T ss_pred             CccHHHHHHHHHHHccC-CHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhhHhHHHHHHHH
Confidence            67889999999877555 89999999999875  3 4467999999999999999999999887764  77778777764


Q ss_pred             HHh-CCChhH----HHHHHHH-HHHCCCCCChh-hHHH---HHHHHhcCC------ChHHHHHHHHHHHHcCCCCchhHH
Q 006388          149 LMQ-NGLERE----AIDLFRE-MRLEGLAMDQF-TFGS---VLTACGGLL------ALEEGKQIHAFIIRNDHKDNVFVG  212 (647)
Q Consensus       149 ~~~-~g~~~~----A~~~~~~-m~~~g~~pd~~-t~~~---ll~~~~~~~------~~~~a~~~~~~~~~~g~~~~~~~~  212 (647)
                      -.+ +|+...    ..+.|+- |.+.|+.+-+. .|+.   .+..--..|      +++..++++..++..-+..=...|
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            433 233322    2223332 23445444332 2333   333322333      344455555555543322222333


Q ss_pred             HHHHHHHH-------------hcCCHHHHHHHHhcCCC------CCh---------------hHHHHHHHHHHhcCCh--
Q 006388          213 SALVDMYC-------------KCKSIKYAESVFRTMAW------KNV---------------VSWTAMLVGYGQNGCS--  256 (647)
Q Consensus       213 ~~li~~y~-------------~~g~~~~A~~~~~~~~~------~~~---------------~~~~~li~~~~~~g~~--  256 (647)
                      +-....=-             +...+..|++++++...      ++.               ..|-.+|.-=..++--  
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            32211100             01123334444443321      111               1133333322111110  


Q ss_pred             ------hHHHHHHHH-HHHCCCCCCHHH-HHHHHH----HHhccCCh-------HHHHHHHHHHHHhCCCcchhHHHHHH
Q 006388          257 ------EEAVKIFCN-MQRNGIEPDDFT-LGSVIS----SCANLASL-------EEGTQFHGRSLVTGLISFITVSNALV  317 (647)
Q Consensus       257 ------~~A~~~~~~-m~~~g~~p~~~t-~~~ll~----a~~~~~~~-------~~a~~~~~~~~~~~~~~~~~~~~~li  317 (647)
                            ....-.+++ |.-.+..|+..- +...+.    .+...|+.       +++..+++..+..-...+..+|.++.
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                  001111111 111223333211 111111    12222332       34444555444433333444444443


Q ss_pred             HHHHhcCC---HHHHHHHHhhcC----CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhcC
Q 006388          318 TFYGKCGN---IEDSHRLFNEMN----VRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKP-DEVTLIGVLSACSRA  389 (647)
Q Consensus       318 ~~~~~~g~---~~~A~~~~~~~~----~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~  389 (647)
                      +.--..-+   .+.....+++..    ..-..+|-..+..-.+..-.+.|..+|.+..+.+..+ +....++++..++ +
T Consensus       336 ~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~c-s  414 (656)
T KOG1914|consen  336 DYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYC-S  414 (656)
T ss_pred             hhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHh-c
Confidence            32211111   333444444443    2234467777777777777899999999999998888 4446666666554 5


Q ss_pred             CcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC---CCCCC--hhhHHHHHHHHHhcCChhHHH
Q 006388          390 GLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM---PFPPD--AIGWATLLSSCRIHGNVEIGK  464 (647)
Q Consensus       390 g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~---~~~p~--~~~~~~ll~~~~~~~~~~~a~  464 (647)
                      ++.+-|.++|+.=.+.+|-  ++.--...++-+...|+-..|..+|++.   ...|+  ...|..++.--..-|++..+.
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 KDKETAFRIFELGLKKFGD--SPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSIL  492 (656)
T ss_pred             CChhHHHHHHHHHHHhcCC--ChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHH
Confidence            7889999999988876554  3445567888899999999999999988   23444  679999999999999999999


Q ss_pred             HHHHHHhccCCCC----chhHHHHHHhhhhCCChhHHHHHHHHH
Q 006388          465 WAAESLLELDPYN----PASYVLLSSIYASKGKWDHVSQLRRTM  504 (647)
Q Consensus       465 ~~~~~~~~~~p~~----~~~~~~l~~~~~~~g~~~~a~~~~~~m  504 (647)
                      ++-++....-|.+    ...-..+.+-|.-.+.+..-..-++.|
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            9988877655521    123344556666666655444444444

>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=98.04  E-value=8.4e-05  Score=74.46  Aligned_cols=122  Identities=14%  Similarity=0.092  Sum_probs=92.7

Q ss_pred             HHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHh
Q 006388          379 LIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRI  456 (647)
Q Consensus       379 ~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~  456 (647)
                      ..+++..+...++++.|..+|+++.+.   .|+  ....++..+...++-.+|.+++.+. ...| +...+..-...|..
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            344556666677788888888877654   244  3445677777777777888877776 2233 56666666667888


Q ss_pred             cCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHH
Q 006388          457 HGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMR  505 (647)
Q Consensus       457 ~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  505 (647)
                      .++++.|..+++++.+..|.+..+|..|+.+|...|++++|...++.+-
T Consensus       247 k~~~~lAL~iAk~av~lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  247 KKKYELALEIAKKAVELSPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             cCCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            8999999999999999999999999999999999999999998888764

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>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=98.03  E-value=0.00022  Score=71.47  Aligned_cols=127  Identities=17%  Similarity=0.207  Sum_probs=102.8

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhcC
Q 006388          311 TVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKP-DEVTLIGVLSACSRA  389 (647)
Q Consensus       311 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~  389 (647)
                      ....+|+..+...++++.|..+|+++...++..+-.++..+...++-.+|++++++....  .| +...+..-...|...
T Consensus       170 yLv~~Ll~~l~~t~~~~~ai~lle~L~~~~pev~~~LA~v~l~~~~E~~AI~ll~~aL~~--~p~d~~LL~~Qa~fLl~k  247 (395)
T PF09295_consen  170 YLVDTLLKYLSLTQRYDEAIELLEKLRERDPEVAVLLARVYLLMNEEVEAIRLLNEALKE--NPQDSELLNLQAEFLLSK  247 (395)
T ss_pred             HHHHHHHHHHhhcccHHHHHHHHHHHHhcCCcHHHHHHHHHHhcCcHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhc
Confidence            344566777778889999999999999888777778888888888999999999998865  34 444555556678889


Q ss_pred             CcHHHHHHHHHHHHHhcCCCcC-hHHHHHHHHHHHHcCCHHHHHHHHHhCCCCC
Q 006388          390 GLVEKGRHYFEIMVKEYGIRPI-HDHYTCMIDILSRAGRLEEAKSFINKMPFPP  442 (647)
Q Consensus       390 g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p  442 (647)
                      ++++.|+.+.+.+.+   ..|+ ..+|..|+..|...|++++|+..++.+|..|
T Consensus       248 ~~~~lAL~iAk~av~---lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~Pm~~  298 (395)
T PF09295_consen  248 KKYELALEIAKKAVE---LSPSEFETWYQLAECYIQLGDFENALLALNSCPMLT  298 (395)
T ss_pred             CCHHHHHHHHHHHHH---hCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCcCCC
Confidence            999999999998874   3554 5799999999999999999999999997544

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.02  E-value=0.001  Score=66.24  Aligned_cols=140  Identities=16%  Similarity=0.202  Sum_probs=113.0

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHH-HHHHhcCCcHHHHHHHHHHHHHhcCCCcC-hHHHHHHHHHHHH
Q 006388          347 LVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGV-LSACSRAGLVEKGRHYFEIMVKEYGIRPI-HDHYTCMIDILSR  424 (647)
Q Consensus       347 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~l-l~a~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~  424 (647)
                      ..-.+...|++++|+..++.+...  .||...|..+ ...+...++.++|.+.++.+..   ..|+ ....-.+.++|.+
T Consensus       312 ~A~~~~~~~~~d~A~~~l~~L~~~--~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~---l~P~~~~l~~~~a~all~  386 (484)
T COG4783         312 RALQTYLAGQYDEALKLLQPLIAA--QPDNPYYLELAGDILLEANKAKEAIERLKKALA---LDPNSPLLQLNLAQALLK  386 (484)
T ss_pred             HHHHHHHhcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHh---cCCCccHHHHHHHHHHHh
Confidence            334456689999999999998875  6776655554 4678899999999999999985   3565 4566678899999


Q ss_pred             cCCHHHHHHHHHhC--CCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHH
Q 006388          425 AGRLEEAKSFINKM--PFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRR  502 (647)
Q Consensus       425 ~g~~~~A~~~~~~~--~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~  502 (647)
                      .|++.+|..+++..  ..+.|+..|..|..+|...|+..++...                 .+..|...|+|++|.....
T Consensus       387 ~g~~~eai~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~A-----------------~AE~~~~~G~~~~A~~~l~  449 (484)
T COG4783         387 GGKPQEAIRILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLA-----------------RAEGYALAGRLEQAIIFLM  449 (484)
T ss_pred             cCChHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHHH-----------------HHHHHHhCCCHHHHHHHHH
Confidence            99999999999887  3344689999999999999998777655                 4566888999999999999


Q ss_pred             HHHhCC
Q 006388          503 TMREKG  508 (647)
Q Consensus       503 ~m~~~g  508 (647)
                      ...++.
T Consensus       450 ~A~~~~  455 (484)
T COG4783         450 RASQQV  455 (484)
T ss_pred             HHHHhc
Confidence            888654

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.01  E-value=1e-05  Score=50.08  Aligned_cols=34  Identities=21%  Similarity=0.414  Sum_probs=30.4

Q ss_pred             eehHHHHHHHHHhCCChhHHHHHHHHHHHCCCCC
Q 006388          139 SISWTTMITGLMQNGLEREAIDLFREMRLEGLAM  172 (647)
Q Consensus       139 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  172 (647)
                      +.+||.+|.+|++.|+++.|.++|++|.+.|++|
T Consensus         1 v~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    1 VHTYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             CcHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            3589999999999999999999999999999887

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.95  E-value=1.1e-05  Score=48.60  Aligned_cols=31  Identities=35%  Similarity=0.654  Sum_probs=28.6

Q ss_pred             ccHHHHHHHHHcCCChhHHHHHHHHHHHCCC
Q 006388            7 VSWNLLISGHASHGSVNDAVKVYNLMLKDGL   37 (647)
Q Consensus         7 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~   37 (647)
                      ++||+||++|++.|++++|.++|++|++.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            5899999999999999999999999998874

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.

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=97.94  E-value=0.0087  Score=66.05  Aligned_cols=82  Identities=12%  Similarity=0.136  Sum_probs=51.1

Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcC
Q 006388          276 FTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFG  355 (647)
Q Consensus       276 ~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~d~~~~~~li~~~~~~g  355 (647)
                      ..+..+..+|.+.|+.+++..+++++++.. +.++.+.|.+...|+.. ++++|.+++.+.           +..|...+
T Consensus       117 ~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~KA-----------V~~~i~~k  183 (906)
T PRK14720        117 LALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKKA-----------IYRFIKKK  183 (906)
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHHH-----------HHHHHhhh
Confidence            345555566666666666666666666665 55666666666666666 777776665543           23355566


Q ss_pred             ChHHHHHHHHHHHHC
Q 006388          356 KANETIDLFEKMLSH  370 (647)
Q Consensus       356 ~~~~A~~~~~~m~~~  370 (647)
                      ++.++.++|.++...
T Consensus       184 q~~~~~e~W~k~~~~  198 (906)
T PRK14720        184 QYVGIEEIWSKLVHY  198 (906)
T ss_pred             cchHHHHHHHHHHhc
Confidence            666777777766663

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=97.94  E-value=0.00026  Score=60.54  Aligned_cols=113  Identities=13%  Similarity=0.113  Sum_probs=85.6

Q ss_pred             HHHHHHHCCCCCCH-HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CC
Q 006388          363 LFEKMLSHGLKPDE-VTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PF  440 (647)
Q Consensus       363 ~~~~m~~~g~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~  440 (647)
                      +|++...  ..|+. .....+...+...|++++|.+.|+.+...  .+.+...+..+...|.+.|++++|..++++. ..
T Consensus         5 ~~~~~l~--~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~   80 (135)
T TIGR02552         5 TLKDLLG--LDSEQLEQIYALAYNLYQQGRYDEALKLFQLLAAY--DPYNSRYWLGLAACCQMLKEYEEAIDAYALAAAL   80 (135)
T ss_pred             hHHHHHc--CChhhHHHHHHHHHHHHHcccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            4455554  34544 34555666777888999999998888653  2446678888888898999999999988877 34


Q ss_pred             CC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCch
Q 006388          441 PP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPA  479 (647)
Q Consensus       441 ~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~  479 (647)
                      .| +...+..+...+...|+.+.|...++++++.+|++..
T Consensus        81 ~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~  120 (135)
T TIGR02552        81 DPDDPRPYFHAAECLLALGEPESALKALDLAIEICGENPE  120 (135)
T ss_pred             CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccch
Confidence            44 4677888888889999999999999999999997654

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=97.92  E-value=0.00039  Score=60.25  Aligned_cols=114  Identities=19%  Similarity=0.237  Sum_probs=59.8

Q ss_pred             CCcHHHHHHHHHHHHHhcCCCc-ChHHHHHHHHHHHHcCCHHHHHHHHHhCC-CCCC----hhhHHHHHHHHHhcCChhH
Q 006388          389 AGLVEKGRHYFEIMVKEYGIRP-IHDHYTCMIDILSRAGRLEEAKSFINKMP-FPPD----AIGWATLLSSCRIHGNVEI  462 (647)
Q Consensus       389 ~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~-~~p~----~~~~~~ll~~~~~~~~~~~  462 (647)
                      .++...+...++.+.+.++-.| .....-.+...+...|++++|...|+... ..||    ......|...+...|++++
T Consensus        24 ~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d~  103 (145)
T PF09976_consen   24 AGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYDE  103 (145)
T ss_pred             CCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHH
Confidence            4555555555555555432221 11222334455556666666666665551 1122    2233445555566666666


Q ss_pred             HHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHH
Q 006388          463 GKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRT  503 (647)
Q Consensus       463 a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  503 (647)
                      |...++.. ...+..+..+..++++|.+.|++++|...|++
T Consensus       104 Al~~L~~~-~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen  104 ALATLQQI-PDEAFKALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHHhc-cCcchHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            66666442 22223445566677777777777777776654

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.86  E-value=0.034  Score=54.65  Aligned_cols=121  Identities=17%  Similarity=0.218  Sum_probs=84.6

Q ss_pred             HHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHH
Q 006388          314 NALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVE  393 (647)
Q Consensus       314 ~~li~~~~~~g~~~~A~~~~~~~~~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~  393 (647)
                      +.-+.-+...|+...|.++-.+..-||..-|...+.+|+..+++++-..+...      +-.++-|..++.+|...|...
T Consensus       181 ~~Ti~~li~~~~~k~A~kl~k~Fkv~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~~~~~~~  254 (319)
T PF04840_consen  181 NDTIRKLIEMGQEKQAEKLKKEFKVPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACLKYGNKK  254 (319)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHHHCCCHH
Confidence            33455556678888888888888888888888888888888888876665432      223467778888888888888


Q ss_pred             HHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCChhhHHHHHHHH
Q 006388          394 KGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKMPFPPDAIGWATLLSSC  454 (647)
Q Consensus       394 ~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~  454 (647)
                      +|..+...+           .+..-+.+|.++|++.+|.+.--+.+   |...+..+...|
T Consensus       255 eA~~yI~k~-----------~~~~rv~~y~~~~~~~~A~~~A~~~k---d~~~L~~i~~~~  301 (319)
T PF04840_consen  255 EASKYIPKI-----------PDEERVEMYLKCGDYKEAAQEAFKEK---DIDLLKQILKRC  301 (319)
T ss_pred             HHHHHHHhC-----------ChHHHHHHHHHCCCHHHHHHHHHHcC---CHHHHHHHHHHC
Confidence            888776642           12456778888888888877765543   444444444333

Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=97.80  E-value=0.0002  Score=56.40  Aligned_cols=92  Identities=25%  Similarity=0.309  Sum_probs=73.3

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCC
Q 006388          415 YTCMIDILSRAGRLEEAKSFINKM-PFPPD-AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKG  492 (647)
Q Consensus       415 ~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  492 (647)
                      +..+...+...|++++|..++++. ...|+ ...|..+...+...++++.|...+++..+..|.++..+..++.++...|
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKLG   82 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHH
Confidence            445666777788888888888776 33343 4667777888888888999999999988888888888888889999999


Q ss_pred             ChhHHHHHHHHHHh
Q 006388          493 KWDHVSQLRRTMRE  506 (647)
Q Consensus       493 ~~~~a~~~~~~m~~  506 (647)
                      ++++|...+++..+
T Consensus        83 ~~~~a~~~~~~~~~   96 (100)
T cd00189          83 KYEEALEAYEKALE   96 (100)
T ss_pred             hHHHHHHHHHHHHc
Confidence            99999888887654

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.78  E-value=0.0018  Score=58.87  Aligned_cols=182  Identities=16%  Similarity=0.222  Sum_probs=137.5

Q ss_pred             cCCHHHHHHHHhhcCC--------CCh-hhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHH-HHHHhcCCcH
Q 006388          323 CGNIEDSHRLFNEMNV--------RDE-VSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGV-LSACSRAGLV  392 (647)
Q Consensus       323 ~g~~~~A~~~~~~~~~--------~d~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~l-l~a~~~~g~~  392 (647)
                      ..+.++..+++.++..        ++. ..|..++-+....|+.+.|...++++... + |.+.-...+ ..-+-..|++
T Consensus        25 ~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~-f-p~S~RV~~lkam~lEa~~~~  102 (289)
T KOG3060|consen   25 VRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDR-F-PGSKRVGKLKAMLLEATGNY  102 (289)
T ss_pred             ccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHh-C-CCChhHHHHHHHHHHHhhch
Confidence            4678888888887751        122 24555566667789999999999999876 3 554422222 1224456899


Q ss_pred             HHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC--CCCCChhhHHHHHHHHHhcCChhHHHHHHHHH
Q 006388          393 EKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM--PFPPDAIGWATLLSSCRIHGNVEIGKWAAESL  470 (647)
Q Consensus       393 ~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~  470 (647)
                      ++|.++++.+..+  -+-|..+|.--+-+.-..|+--+|++-+...  .+..|...|.-|...|...|+++.|.-.++++
T Consensus       103 ~~A~e~y~~lL~d--dpt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~  180 (289)
T KOG3060|consen  103 KEAIEYYESLLED--DPTDTVIRKRKLAILKAQGKNLEAIKELNEYLDKFMNDQEAWHELAEIYLSEGDFEKAAFCLEEL  180 (289)
T ss_pred             hhHHHHHHHHhcc--CcchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhHhHHHHHHHHHHHH
Confidence            9999999999875  2445677776677777788877888776665  45678999999999999999999999999999


Q ss_pred             hccCCCCchhHHHHHHhhhhCC---ChhHHHHHHHHHHhCC
Q 006388          471 LELDPYNPASYVLLSSIYASKG---KWDHVSQLRRTMREKG  508 (647)
Q Consensus       471 ~~~~p~~~~~~~~l~~~~~~~g---~~~~a~~~~~~m~~~g  508 (647)
                      +=..|-++..+..++..+...|   +++-+.+++.+..+..
T Consensus       181 ll~~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~  221 (289)
T KOG3060|consen  181 LLIQPFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLN  221 (289)
T ss_pred             HHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhC
Confidence            9999999999999999987766   4666777777776643

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.77  E-value=2.5e-05  Score=60.37  Aligned_cols=77  Identities=23%  Similarity=0.309  Sum_probs=42.8

Q ss_pred             CCHHHHHHHHHhC-CCCC---ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHH
Q 006388          426 GRLEEAKSFINKM-PFPP---DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLR  501 (647)
Q Consensus       426 g~~~~A~~~~~~~-~~~p---~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~  501 (647)
                      |++++|+.+++++ ...|   +...|..+..++.+.|++++|..++++ .+.+|.++.....++.+|.+.|++++|.+++
T Consensus         3 ~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~~~~~~~~l~a~~~~~l~~y~eAi~~l   81 (84)
T PF12895_consen    3 GNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDPSNPDIHYLLARCLLKLGKYEEAIKAL   81 (84)
T ss_dssp             T-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHHCHHHHHHHHHHHHHHTT-HHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCCCCHHHHHHHHHHHHHhCCHHHHHHHH
Confidence            4555555555554 1112   334444455666666666666666666 5555555555556677777777777777766


Q ss_pred             HH
Q 006388          502 RT  503 (647)
Q Consensus       502 ~~  503 (647)
                      ++
T Consensus        82 ~~   83 (84)
T PF12895_consen   82 EK   83 (84)
T ss_dssp             HH
T ss_pred             hc
Confidence            54

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.76  E-value=0.014  Score=53.71  Aligned_cols=141  Identities=13%  Similarity=0.135  Sum_probs=88.2

Q ss_pred             HHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCC-ChhhHHHHHHHHHH----cCC
Q 006388          282 ISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVR-DEVSWTALVSGYAK----FGK  356 (647)
Q Consensus       282 l~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-d~~~~~~li~~~~~----~g~  356 (647)
                      ...|.+.++++.|........      +....-.=+..+.+..+++-|.+.++.|.+- +-.+.+.|..++.+    .+.
T Consensus       115 a~i~~~~~~~deAl~~~~~~~------~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~ided~tLtQLA~awv~la~ggek  188 (299)
T KOG3081|consen  115 AIIYMHDGDFDEALKALHLGE------NLEAAALNVQILLKMHRFDLAEKELKKMQQIDEDATLTQLAQAWVKLATGGEK  188 (299)
T ss_pred             hHHhhcCCChHHHHHHHhccc------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhccchh
Confidence            344555566666655544311      1111112234455666777777777777754 33455555555543    345


Q ss_pred             hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHH
Q 006388          357 ANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEA  431 (647)
Q Consensus       357 ~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A  431 (647)
                      ..+|.-+|++|-+. ..|+..+.+....++...|++++|..+++....+.  ..++++...++-.-...|...++
T Consensus       189 ~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd--~~dpetL~Nliv~a~~~Gkd~~~  260 (299)
T KOG3081|consen  189 IQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKD--AKDPETLANLIVLALHLGKDAEV  260 (299)
T ss_pred             hhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhcc--CCCHHHHHHHHHHHHHhCCChHH
Confidence            78888888888764 67888888888888888899999998888887642  33455665555555556654443

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.75  E-value=0.0038  Score=56.81  Aligned_cols=194  Identities=17%  Similarity=0.156  Sum_probs=142.5

Q ss_pred             ccCChHHHHHHHHHHHH---hC-CCcchh-HHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHH---HHHHHcCChH
Q 006388          287 NLASLEEGTQFHGRSLV---TG-LISFIT-VSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALV---SGYAKFGKAN  358 (647)
Q Consensus       287 ~~~~~~~a~~~~~~~~~---~~-~~~~~~-~~~~li~~~~~~g~~~~A~~~~~~~~~~d~~~~~~li---~~~~~~g~~~  358 (647)
                      ...+.++..+++..++.   .| ..++.. ++.-+.-+...+|+.+.|...++.+..+=+.++....   .-+-..|+++
T Consensus        24 ~~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~fp~S~RV~~lkam~lEa~~~~~  103 (289)
T KOG3060|consen   24 TVRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRFPGSKRVGKLKAMLLEATGNYK  103 (289)
T ss_pred             cccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhCCCChhHHHHHHHHHHHhhchh
Confidence            34567888888877754   34 455543 4556666777889999999999987643233332221   2245579999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC
Q 006388          359 ETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM  438 (647)
Q Consensus       359 ~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~  438 (647)
                      +|+++++..++.. +.|.+++..=+...-..|..-+|++-+....+  .+..|.+.|.-+.+.|...|++++|.-.++++
T Consensus       104 ~A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~--~F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~  180 (289)
T KOG3060|consen  104 EAIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLD--KFMNDQEAWHELAEIYLSEGDFEKAAFCLEEL  180 (289)
T ss_pred             hHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHH--HhcCcHHHHHHHHHHHHhHhHHHHHHHHHHHH
Confidence            9999999999875 44566777666666677877899988888877  56779999999999999999999999999998


Q ss_pred             -CCCC-ChhhHHHHHHHHHhc---CChhHHHHHHHHHhccCCCCchhHHH
Q 006388          439 -PFPP-DAIGWATLLSSCRIH---GNVEIGKWAAESLLELDPYNPASYVL  483 (647)
Q Consensus       439 -~~~p-~~~~~~~ll~~~~~~---~~~~~a~~~~~~~~~~~p~~~~~~~~  483 (647)
                       -..| ++..+..+...+...   .+.+.+.+.+++++++.|.+...+..
T Consensus       181 ll~~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~~~~~ral~G  230 (289)
T KOG3060|consen  181 LLIQPFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLNPKNLRALFG  230 (289)
T ss_pred             HHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhChHhHHHHHH
Confidence             3455 455666666665443   37888999999999999965444433

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.75  E-value=3.8e-05  Score=46.22  Aligned_cols=31  Identities=32%  Similarity=0.700  Sum_probs=25.5

Q ss_pred             ehHHHHHHHHHhCCChhHHHHHHHHHHHCCC
Q 006388          140 ISWTTMITGLMQNGLEREAIDLFREMRLEGL  170 (647)
Q Consensus       140 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  170 (647)
                      ++||+||++|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            4788888888888888888888888887764

Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=97.74  E-value=6.9e-05  Score=55.38  Aligned_cols=64  Identities=23%  Similarity=0.272  Sum_probs=59.0

Q ss_pred             ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCC-ChhHHHHHHHHHHh
Q 006388          443 DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKG-KWDHVSQLRRTMRE  506 (647)
Q Consensus       443 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g-~~~~a~~~~~~m~~  506 (647)
                      ++.+|..+...+...|++++|+..++++++.+|+++..+..++.+|...| ++++|.+.+++..+
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            46789999999999999999999999999999999999999999999999 79999999988765

...

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.74  E-value=0.00061  Score=56.65  Aligned_cols=98  Identities=15%  Similarity=0.106  Sum_probs=47.6

Q ss_pred             HHHHHhcCCcHHHHHHHHHHHHHhcCCCc-ChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC----hhhHHHHHHHHH
Q 006388          382 VLSACSRAGLVEKGRHYFEIMVKEYGIRP-IHDHYTCMIDILSRAGRLEEAKSFINKM-PFPPD----AIGWATLLSSCR  455 (647)
Q Consensus       382 ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~ll~~~~  455 (647)
                      +...+...|++++|...|+.+.+.+.-.| ....+..+...+.+.|++++|.+.++.+ ...|+    ..++..+...+.
T Consensus         8 ~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~~   87 (119)
T TIGR02795         8 AALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGMSLQ   87 (119)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHHHHH
Confidence            33344445555555555555543321111 1233444555555555555555555544 11122    334555555555


Q ss_pred             hcCChhHHHHHHHHHhccCCCCch
Q 006388          456 IHGNVEIGKWAAESLLELDPYNPA  479 (647)
Q Consensus       456 ~~~~~~~a~~~~~~~~~~~p~~~~  479 (647)
                      ..|+.++|...++++++..|+++.
T Consensus        88 ~~~~~~~A~~~~~~~~~~~p~~~~  111 (119)
T TIGR02795        88 ELGDKEKAKATLQQVIKRYPGSSA  111 (119)
T ss_pred             HhCChHHHHHHHHHHHHHCcCChh
Confidence            566666666666666666665443

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=97.70  E-value=0.00042  Score=57.61  Aligned_cols=96  Identities=13%  Similarity=0.084  Sum_probs=81.4

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC----hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCC---chhHHHH
Q 006388          413 DHYTCMIDILSRAGRLEEAKSFINKM-PFPPD----AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYN---PASYVLL  484 (647)
Q Consensus       413 ~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~---~~~~~~l  484 (647)
                      ..+-.++..+.+.|++++|.+.++++ ...|+    ...+..+...+...|+++.|...++.+....|++   +.++..+
T Consensus         3 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~   82 (119)
T TIGR02795         3 EAYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKL   82 (119)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHH
Confidence            35667788889999999999999888 22333    3466778889999999999999999999988875   5678899


Q ss_pred             HHhhhhCCChhHHHHHHHHHHhCC
Q 006388          485 SSIYASKGKWDHVSQLRRTMREKG  508 (647)
Q Consensus       485 ~~~~~~~g~~~~a~~~~~~m~~~g  508 (647)
                      +.+|.+.|++++|.+.++++.+..
T Consensus        83 ~~~~~~~~~~~~A~~~~~~~~~~~  106 (119)
T TIGR02795        83 GMSLQELGDKEKAKATLQQVIKRY  106 (119)
T ss_pred             HHHHHHhCChHHHHHHHHHHHHHC
Confidence            999999999999999999998764

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=97.70  E-value=0.0023  Score=55.34  Aligned_cols=123  Identities=14%  Similarity=0.161  Sum_probs=78.5

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcCh--HHHHH
Q 006388          344 WTALVSGYAKFGKANETIDLFEKMLSHGLKPDE----VTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIH--DHYTC  417 (647)
Q Consensus       344 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~----~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~--~~~~~  417 (647)
                      |..++..+ ..++...+...++.+....  |+.    .....+...+...|++++|...|+..... ...|..  ...-.
T Consensus        15 y~~~~~~~-~~~~~~~~~~~~~~l~~~~--~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~-~~d~~l~~~a~l~   90 (145)
T PF09976_consen   15 YEQALQAL-QAGDPAKAEAAAEQLAKDY--PSSPYAALAALQLAKAAYEQGDYDEAKAALEKALAN-APDPELKPLARLR   90 (145)
T ss_pred             HHHHHHHH-HCCCHHHHHHHHHHHHHHC--CCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh-CCCHHHHHHHHHH
Confidence            33444444 3677777777777777652  332    12333445667778888888888887764 222221  23344


Q ss_pred             HHHHHHHcCCHHHHHHHHHhCCCC-CChhhHHHHHHHHHhcCChhHHHHHHHHH
Q 006388          418 MIDILSRAGRLEEAKSFINKMPFP-PDAIGWATLLSSCRIHGNVEIGKWAAESL  470 (647)
Q Consensus       418 li~~~~~~g~~~~A~~~~~~~~~~-p~~~~~~~ll~~~~~~~~~~~a~~~~~~~  470 (647)
                      |...+...|++++|+..++..+.. .....+..+...+...|+.++|+..|+++
T Consensus        91 LA~~~~~~~~~d~Al~~L~~~~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen   91 LARILLQQGQYDEALATLQQIPDEAFKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHHHcCCHHHHHHHHHhccCcchHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            667777888888888888776322 23556667777788888888888888765

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.66  E-value=0.00053  Score=69.10  Aligned_cols=97  Identities=15%  Similarity=0.052  Sum_probs=52.0

Q ss_pred             HHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhH
Q 006388          385 ACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEI  462 (647)
Q Consensus       385 a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~  462 (647)
                      .+...|++++|+..|+.+++.  -+.+...|..+..+|.+.|++++|+..++++ .+.| +...|..+..+|...|++++
T Consensus        11 ~a~~~~~~~~Ai~~~~~Al~~--~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~~~a~~~lg~~~~~lg~~~e   88 (356)
T PLN03088         11 EAFVDDDFALAVDLYTQAIDL--DPNNAELYADRAQANIKLGNFTEAVADANKAIELDPSLAKAYLRKGTACMKLEEYQT   88 (356)
T ss_pred             HHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCHHH
Confidence            344455666666666655542  1223445555555555666666666555555 3333 24455555555555666666


Q ss_pred             HHHHHHHHhccCCCCchhHHH
Q 006388          463 GKWAAESLLELDPYNPASYVL  483 (647)
Q Consensus       463 a~~~~~~~~~~~p~~~~~~~~  483 (647)
                      |+..++++++++|+++.....
T Consensus        89 A~~~~~~al~l~P~~~~~~~~  109 (356)
T PLN03088         89 AKAALEKGASLAPGDSRFTKL  109 (356)
T ss_pred             HHHHHHHHHHhCCCCHHHHHH
Confidence            666666666666655544433

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.62  E-value=0.0015  Score=58.49  Aligned_cols=131  Identities=13%  Similarity=0.142  Sum_probs=81.4

Q ss_pred             ChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHH
Q 006388          340 DEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPD--EVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTC  417 (647)
Q Consensus       340 d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~--~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~  417 (647)
                      ....+..+...+...|++++|+..|++.......|+  ...+..+...+.+.|++++|...++...+.  .+.+...+..
T Consensus        34 ~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~  111 (172)
T PRK02603         34 EAFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALEL--NPKQPSALNN  111 (172)
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHH
Confidence            344566667777778888888888887776433332  245666667777778888888877777643  1223455566


Q ss_pred             HHHHHHHcCCHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCC
Q 006388          418 MIDILSRAGRLEEAKSFINKMPFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGK  493 (647)
Q Consensus       418 li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  493 (647)
                      +..+|...|+...+..-++..                  ...+++|...++++.+.+|++   |..+...+...|+
T Consensus       112 lg~~~~~~g~~~~a~~~~~~A------------------~~~~~~A~~~~~~a~~~~p~~---~~~~~~~~~~~~~  166 (172)
T PRK02603        112 IAVIYHKRGEKAEEAGDQDEA------------------EALFDKAAEYWKQAIRLAPNN---YIEAQNWLKTTGR  166 (172)
T ss_pred             HHHHHHHcCChHhHhhCHHHH------------------HHHHHHHHHHHHHHHhhCchh---HHHHHHHHHhcCc
Confidence            666666666655544332221                  112577888888888888865   5455555554443

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.62  E-value=0.00046  Score=64.35  Aligned_cols=99  Identities=18%  Similarity=0.140  Sum_probs=69.5

Q ss_pred             HhcCCcHHHHHHHHHHHHHhcCCCc-ChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-hhhHHHHHHHHHhcCChhH
Q 006388          386 CSRAGLVEKGRHYFEIMVKEYGIRP-IHDHYTCMIDILSRAGRLEEAKSFINKM-PFPPD-AIGWATLLSSCRIHGNVEI  462 (647)
Q Consensus       386 ~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~~~~~~  462 (647)
                      ..+.+++.+|+..|...++   +.| |...|..-..+|.+.|.++.|.+-.+.. .+.|. ..+|..|..+|...|++++
T Consensus        91 ~m~~~~Y~eAv~kY~~AI~---l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk~~~  167 (304)
T KOG0553|consen   91 LMKNKDYQEAVDKYTEAIE---LDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGKYEE  167 (304)
T ss_pred             HHHhhhHHHHHHHHHHHHh---cCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCcHHH
Confidence            4455677777777776663   344 4455566667777777777777776665 55665 6678888888888888888


Q ss_pred             HHHHHHHHhccCCCCchhHHHHHHh
Q 006388          463 GKWAAESLLELDPYNPASYVLLSSI  487 (647)
Q Consensus       463 a~~~~~~~~~~~p~~~~~~~~l~~~  487 (647)
                      |++.|+++++++|+|......|-.+
T Consensus       168 A~~aykKaLeldP~Ne~~K~nL~~A  192 (304)
T KOG0553|consen  168 AIEAYKKALELDPDNESYKSNLKIA  192 (304)
T ss_pred             HHHHHHhhhccCCCcHHHHHHHHHH
Confidence            8888888888888887555554433

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.61  E-value=0.00016  Score=52.62  Aligned_cols=57  Identities=26%  Similarity=0.356  Sum_probs=46.5

Q ss_pred             HHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHh
Q 006388          450 LLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       450 ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      +...+...|++++|+..++++++..|+++..+..++.++...|++++|..+++++.+
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~   59 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALE   59 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            455677888888888888888888888888888888888888888888888888765

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.60  E-value=0.0026  Score=67.08  Aligned_cols=38  Identities=24%  Similarity=0.352  Sum_probs=26.0

Q ss_pred             CCChhhHHHHHHHHHHc--C---ChHHHHHHHHHHHHCCCCCCHH
Q 006388          338 VRDEVSWTALVSGYAKF--G---KANETIDLFEKMLSHGLKPDEV  377 (647)
Q Consensus       338 ~~d~~~~~~li~~~~~~--g---~~~~A~~~~~~m~~~g~~p~~~  377 (647)
                      ..|...|...+.+....  +   +...|..+|++..+.  .|+..
T Consensus       334 ~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~l--dP~~a  376 (517)
T PRK10153        334 PHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKS--EPDFT  376 (517)
T ss_pred             CCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHh--CCCcH
Confidence            45777888888775432  2   266888888888874  67753

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=97.60  E-value=0.047  Score=52.99  Aligned_cols=242  Identities=20%  Similarity=0.214  Sum_probs=155.9

Q ss_pred             hcCChhHHHHHHHHHHHCCCCCCHH--HHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHH
Q 006388          252 QNGCSEEAVKIFCNMQRNGIEPDDF--TLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDS  329 (647)
Q Consensus       252 ~~g~~~~A~~~~~~m~~~g~~p~~~--t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  329 (647)
                      -.|+++.|.+-|+.|...   |...  .+..+.-...+.|+.+.|.++-+..-..- +.-.....+.+...+..|+++.|
T Consensus       132 ~eG~~~~Ar~kfeAMl~d---PEtRllGLRgLyleAqr~GareaAr~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd~A  207 (531)
T COG3898         132 LEGDYEDARKKFEAMLDD---PETRLLGLRGLYLEAQRLGAREAARHYAERAAEKA-PQLPWAARATLEARCAAGDWDGA  207 (531)
T ss_pred             hcCchHHHHHHHHHHhcC---hHHHHHhHHHHHHHHHhcccHHHHHHHHHHHHhhc-cCCchHHHHHHHHHHhcCChHHH
Confidence            356777777777776642   2221  22333333456677777777766655442 22345667788888888888888


Q ss_pred             HHHHhhcC-----CCChh--hHHHHHHHHH---HcCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhcCCcHHHHHHH
Q 006388          330 HRLFNEMN-----VRDEV--SWTALVSGYA---KFGKANETIDLFEKMLSHGLKPDEV-TLIGVLSACSRAGLVEKGRHY  398 (647)
Q Consensus       330 ~~~~~~~~-----~~d~~--~~~~li~~~~---~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~  398 (647)
                      +++.+.-.     ++|+.  .--.|+.+-+   -..+...|...-.+..+  +.||.+ .-.....++.+.|++.++-.+
T Consensus       208 lkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~~a~K--L~pdlvPaav~AAralf~d~~~rKg~~i  285 (531)
T COG3898         208 LKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDALEANK--LAPDLVPAAVVAARALFRDGNLRKGSKI  285 (531)
T ss_pred             HHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHhh--cCCccchHHHHHHHHHHhccchhhhhhH
Confidence            88887654     33332  1222332221   13345566665555544  577765 333445788999999999999


Q ss_pred             HHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC----CCCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHhcc
Q 006388          399 FEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM----PFPPD-AIGWATLLSSCRIHGNVEIGKWAAESLLEL  473 (647)
Q Consensus       399 ~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~----~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  473 (647)
                      ++.+-+.   .|.+..+...  .+.|.|+.  ++.-+++.    .++|+ ..+..++..+-...|++..|..-.+.+...
T Consensus       286 lE~aWK~---ePHP~ia~lY--~~ar~gdt--a~dRlkRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r~  358 (531)
T COG3898         286 LETAWKA---EPHPDIALLY--VRARSGDT--ALDRLKRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAARE  358 (531)
T ss_pred             HHHHHhc---CCChHHHHHH--HHhcCCCc--HHHHHHHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHhhh
Confidence            9988754   5666555433  34566653  22222222    24454 667777888888999999999999999999


Q ss_pred             CCCCchhHHHHHHhhhhC-CChhHHHHHHHHHHhC
Q 006388          474 DPYNPASYVLLSSIYASK-GKWDHVSQLRRTMREK  507 (647)
Q Consensus       474 ~p~~~~~~~~l~~~~~~~-g~~~~a~~~~~~m~~~  507 (647)
                      .| ....|..|+++-... |+-.++...+-+..+.
T Consensus       359 ~p-res~~lLlAdIeeAetGDqg~vR~wlAqav~A  392 (531)
T COG3898         359 AP-RESAYLLLADIEEAETGDQGKVRQWLAQAVKA  392 (531)
T ss_pred             Cc-hhhHHHHHHHHHhhccCchHHHHHHHHHHhcC
Confidence            99 457888899887655 9998888887776554

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.58  E-value=0.0016  Score=63.23  Aligned_cols=154  Identities=11%  Similarity=0.049  Sum_probs=112.1

Q ss_pred             HHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHH--HHhcCCcHHHHHHHHHHHHHhcCCCcChHH------------
Q 006388          349 SGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLS--ACSRAGLVEKGRHYFEIMVKEYGIRPIHDH------------  414 (647)
Q Consensus       349 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~--a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~------------  414 (647)
                      .++...|++++|...--..++.  .++. .+..+++  ++-..++.+.|...|++.+   .+.|+...            
T Consensus       177 ~cl~~~~~~~~a~~ea~~ilkl--d~~n-~~al~vrg~~~yy~~~~~ka~~hf~qal---~ldpdh~~sk~~~~~~k~le  250 (486)
T KOG0550|consen  177 ECLAFLGDYDEAQSEAIDILKL--DATN-AEALYVRGLCLYYNDNADKAINHFQQAL---RLDPDHQKSKSASMMPKKLE  250 (486)
T ss_pred             hhhhhcccchhHHHHHHHHHhc--ccch-hHHHHhcccccccccchHHHHHHHhhhh---ccChhhhhHHhHhhhHHHHH
Confidence            3566788888888877666553  2221 2222232  3445678888888888765   34554322            


Q ss_pred             -HHHHHHHHHHcCCHHHHHHHHHhC-CCCC-----ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHh
Q 006388          415 -YTCMIDILSRAGRLEEAKSFINKM-PFPP-----DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSI  487 (647)
Q Consensus       415 -~~~li~~~~~~g~~~~A~~~~~~~-~~~p-----~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  487 (647)
                       +..=.+-..+.|++.+|.+.+.+. .+.|     ++..|.....+..+.|+.++|+.-.+++++++|.-...|..-+++
T Consensus       251 ~~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD~syikall~ra~c  330 (486)
T KOG0550|consen  251 VKKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKIDSSYIKALLRRANC  330 (486)
T ss_pred             HHHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcCHHHHHHHHHHHHH
Confidence             122234456889999999999887 4444     455666666777889999999999999999999988999999999


Q ss_pred             hhhCCChhHHHHHHHHHHhCC
Q 006388          488 YASKGKWDHVSQLRRTMREKG  508 (647)
Q Consensus       488 ~~~~g~~~~a~~~~~~m~~~g  508 (647)
                      +...++|++|.+-+++..+.-
T Consensus       331 ~l~le~~e~AV~d~~~a~q~~  351 (486)
T KOG0550|consen  331 HLALEKWEEAVEDYEKAMQLE  351 (486)
T ss_pred             HHHHHHHHHHHHHHHHHHhhc
Confidence            999999999999999887643

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.57  E-value=0.00076  Score=60.39  Aligned_cols=81  Identities=17%  Similarity=0.116  Sum_probs=62.3

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC----hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHh
Q 006388          413 DHYTCMIDILSRAGRLEEAKSFINKM-PFPPD----AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSI  487 (647)
Q Consensus       413 ~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  487 (647)
                      ..+..+...+...|++++|...|++. ...|+    ...|..+...+...|++++|...++++++..|.++..+..++.+
T Consensus        36 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~  115 (172)
T PRK02603         36 FVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPKQPSALNNIAVI  115 (172)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHH
Confidence            45666677777778888888877766 22222    45777888888888999999999999998888888888888888


Q ss_pred             hhhCCC
Q 006388          488 YASKGK  493 (647)
Q Consensus       488 ~~~~g~  493 (647)
                      |...|+
T Consensus       116 ~~~~g~  121 (172)
T PRK02603        116 YHKRGE  121 (172)
T ss_pred             HHHcCC
Confidence            887776

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.56  E-value=0.00022  Score=66.42  Aligned_cols=87  Identities=21%  Similarity=0.264  Sum_probs=78.9

Q ss_pred             HHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHH
Q 006388          420 DILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHV  497 (647)
Q Consensus       420 ~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a  497 (647)
                      +-+.+.+++++|+..|.++ .+.| |++.|..-..+|.+.|.++.|++-.+.++.++|....+|..|+.+|...|++++|
T Consensus        89 N~~m~~~~Y~eAv~kY~~AI~l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk~~~A  168 (304)
T KOG0553|consen   89 NKLMKNKDYQEAVDKYTEAIELDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGKYEEA  168 (304)
T ss_pred             HHHHHhhhHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCcHHHH
Confidence            4466889999999999988 6666 5888888899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHh
Q 006388          498 SQLRRTMRE  506 (647)
Q Consensus       498 ~~~~~~m~~  506 (647)
                      .+.|++..+
T Consensus       169 ~~aykKaLe  177 (304)
T KOG0553|consen  169 IEAYKKALE  177 (304)
T ss_pred             HHHHHhhhc
Confidence            999987655

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.54  E-value=0.00074  Score=60.23  Aligned_cols=94  Identities=13%  Similarity=-0.024  Sum_probs=75.7

Q ss_pred             ChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC----hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHH
Q 006388          411 IHDHYTCMIDILSRAGRLEEAKSFINKM-PFPPD----AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLS  485 (647)
Q Consensus       411 ~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~  485 (647)
                      ....|..++..+...|++++|...|++. ...|+    ..+|..+...+...|++++|+..+++++++.|.....+..++
T Consensus        34 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~~~~~~~~la  113 (168)
T CHL00033         34 EAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPFLPQALNNMA  113 (168)
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHH
Confidence            3456677777788889999999988877 22232    357888999999999999999999999999999888888888


Q ss_pred             Hhhh-------hCCChhHHHHHHHHH
Q 006388          486 SIYA-------SKGKWDHVSQLRRTM  504 (647)
Q Consensus       486 ~~~~-------~~g~~~~a~~~~~~m  504 (647)
                      .+|.       ..|++++|...+++.
T Consensus       114 ~i~~~~~~~~~~~g~~~~A~~~~~~a  139 (168)
T CHL00033        114 VICHYRGEQAIEQGDSEIAEAWFDQA  139 (168)
T ss_pred             HHHHHhhHHHHHcccHHHHHHHHHHH
Confidence            8888       888888777666654

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.52  E-value=0.12  Score=51.35  Aligned_cols=418  Identities=13%  Similarity=0.075  Sum_probs=214.1

Q ss_pred             HHcCCChhHHHHHHHHHHHCCCCCCCcch------HHHHHHHHhCCCChHHHHHHHHHHHHhCCCCchhhHHHHHH--HH
Q 006388           16 HASHGSVNDAVKVYNLMLKDGLGNLSRIT------FSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGSPLVD--MY   87 (647)
Q Consensus        16 ~~~~g~~~~A~~~~~~m~~~g~~~~~~~~------~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~--~~   87 (647)
                      +.+.++..+|.++|.+.-+..  ..+.+.      -+.+++++.. .+++........+.+.- +...  |-.|..  ..
T Consensus        16 Lqkq~~~~esEkifskI~~e~--~~~~f~lkeEvl~grilnAffl-~nld~Me~~l~~l~~~~-~~s~--~l~LF~~L~~   89 (549)
T PF07079_consen   16 LQKQKKFQESEKIFSKIYDEK--ESSPFLLKEEVLGGRILNAFFL-NNLDLMEKQLMELRQQF-GKSA--YLPLFKALVA   89 (549)
T ss_pred             HHHHhhhhHHHHHHHHHHHHh--hcchHHHHHHHHhhHHHHHHHH-hhHHHHHHHHHHHHHhc-CCch--HHHHHHHHHH
Confidence            356789999999999987654  333232      3456666653 45666666666665542 2222  333333  23


Q ss_pred             HhcCChHHHHHHhccCCC------------------CCchHHHHHHHHHHhcCChHHHHHHhhcCCCC--------Ceeh
Q 006388           88 AKLGLIYDAKRGFDELPE------------------KNIVMYNTMITGLLRRGLVEESRRLFRGMKDK--------DSIS  141 (647)
Q Consensus        88 ~~~g~~~~A~~~~~~~~~------------------~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~--------~~~~  141 (647)
                      -+.++++.|.+.|..-.+                  +|.+.=+..+..+...|++.+++.++++|..+        |+.+
T Consensus        90 Y~~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~  169 (549)
T PF07079_consen   90 YKQKEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDM  169 (549)
T ss_pred             HHhhhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHH
Confidence            477889999887754432                  12233455677888999999999999887642        7778


Q ss_pred             HHHHHHHHHhC--------C-------ChhHHHHHHHHHHHC------CCCCChhhHHHHHHHHhcC--CChHHHHHHHH
Q 006388          142 WTTMITGLMQN--------G-------LEREAIDLFREMRLE------GLAMDQFTFGSVLTACGGL--LALEEGKQIHA  198 (647)
Q Consensus       142 ~~~li~~~~~~--------g-------~~~~A~~~~~~m~~~------g~~pd~~t~~~ll~~~~~~--~~~~~a~~~~~  198 (647)
                      ||.++-.+.++        .       .++-++-...+|...      .+.|...-+..++....-.  ..+.--.+++.
T Consensus       170 yd~~vlmlsrSYfLEl~e~~s~dl~pdyYemilfY~kki~~~d~~~Y~k~~peeeL~s~imqhlfi~p~e~l~~~mq~l~  249 (549)
T PF07079_consen  170 YDRAVLMLSRSYFLELKESMSSDLYPDYYEMILFYLKKIHAFDQRPYEKFIPEEELFSTIMQHLFIVPKERLPPLMQILE  249 (549)
T ss_pred             HHHHHHHHhHHHHHHHHHhcccccChHHHHHHHHHHHHHHHHhhchHHhhCcHHHHHHHHHHHHHhCCHhhccHHHHHHH
Confidence            88755544432        1       123333333333321      2334444444444333221  22333344454


Q ss_pred             HHHHcCCCCch-hHHHHHHHHHHhcCCHHHHHHHHhcCC--------CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 006388          199 FIIRNDHKDNV-FVGSALVDMYCKCKSIKYAESVFRTMA--------WKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRN  269 (647)
Q Consensus       199 ~~~~~g~~~~~-~~~~~li~~y~~~g~~~~A~~~~~~~~--------~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  269 (647)
                      .....-+.|+- .+...|+.-+.+  +.+++..+-+.+.        ++=+.++..++....+.++..+|-+.+.-+...
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            44444444543 233445555554  3444444333322        223457888888888899988888887766543


Q ss_pred             CCCCCHHHHHHH-------HHHHh-cc---CChHHHHHHHHHHHHhCCCcchhHHHHH---HHHHHhcCC-HHHHHHHHh
Q 006388          270 GIEPDDFTLGSV-------ISSCA-NL---ASLEEGTQFHGRSLVTGLISFITVSNAL---VTFYGKCGN-IEDSHRLFN  334 (647)
Q Consensus       270 g~~p~~~t~~~l-------l~a~~-~~---~~~~~a~~~~~~~~~~~~~~~~~~~~~l---i~~~~~~g~-~~~A~~~~~  334 (647)
                        .|+...-.-+       -+..+ .-   .++..-..++..+...++....-+ .-|   ..-+-+.|. -++|.++++
T Consensus       328 --dp~~svs~Kllls~~~lq~Iv~~DD~~~Tklr~yL~lwe~~qs~DiDrqQLv-h~L~~~Ak~lW~~g~~dekalnLLk  404 (549)
T PF07079_consen  328 --DPRISVSEKLLLSPKVLQDIVCEDDESYTKLRDYLNLWEEIQSYDIDRQQLV-HYLVFGAKHLWEIGQCDEKALNLLK  404 (549)
T ss_pred             --CCcchhhhhhhcCHHHHHHHHhcchHHHHHHHHHHHHHHHHHhhcccHHHHH-HHHHHHHHHHHhcCCccHHHHHHHH
Confidence              4443211111       11111 11   111122223333333332221111 111   112233343 566677666


Q ss_pred             hcC---CCChhhHHHHH----HHHHHc---CChHHHHHHHHHHHHCCCCCCHH----HHHHHHHH--HhcCCcHHHHHHH
Q 006388          335 EMN---VRDEVSWTALV----SGYAKF---GKANETIDLFEKMLSHGLKPDEV----TLIGVLSA--CSRAGLVEKGRHY  398 (647)
Q Consensus       335 ~~~---~~d~~~~~~li----~~~~~~---g~~~~A~~~~~~m~~~g~~p~~~----t~~~ll~a--~~~~g~~~~a~~~  398 (647)
                      .+.   ..|...-|.+.    ..|.+.   ....+-+.+-+-..+.|+.|-.+    .-+.+.+|  +...|++.++.-+
T Consensus       405 ~il~ft~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~~i~i~e~eian~LaDAEyLysqgey~kc~~y  484 (549)
T PF07079_consen  405 LILQFTNYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLTPITISEEEIANFLADAEYLYSQGEYHKCYLY  484 (549)
T ss_pred             HHHHhccccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCcccccHHHHHHHHHHHHHHHhcccHHHHHHH
Confidence            654   23444333322    122221   12233333333344556665433    22222222  3345677766554


Q ss_pred             HHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCChhhHHH
Q 006388          399 FEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKMPFPPDAIGWAT  449 (647)
Q Consensus       399 ~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~  449 (647)
                      -.-+.   .+.|++.+|..+.-.+....+++||.+++...|  |+..+|++
T Consensus       485 s~WL~---~iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~~LP--~n~~~~ds  530 (549)
T PF07079_consen  485 SSWLT---KIAPSPQAYRLLGLCLMENKRYQEAWEYLQKLP--PNERMRDS  530 (549)
T ss_pred             HHHHH---HhCCcHHHHHHHHHHHHHHhhHHHHHHHHHhCC--CchhhHHH
Confidence            33332   567777777777777777777777777777775  45555543

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.51  E-value=0.0014  Score=66.18  Aligned_cols=104  Identities=12%  Similarity=0.114  Sum_probs=81.8

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHc
Q 006388          347 LVSGYAKFGKANETIDLFEKMLSHGLKPD-EVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRA  425 (647)
Q Consensus       347 li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~  425 (647)
                      -...+...|++++|+++|++.++.  .|+ ...+..+..++...|++++|+..++.++..  -+.+...|..+..+|...
T Consensus         8 ~a~~a~~~~~~~~Ai~~~~~Al~~--~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l--~P~~~~a~~~lg~~~~~l   83 (356)
T PLN03088          8 KAKEAFVDDDFALAVDLYTQAIDL--DPNNAELYADRAQANIKLGNFTEAVADANKAIEL--DPSLAKAYLRKGTACMKL   83 (356)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHh
Confidence            345667889999999999999985  444 557778888999999999999999999853  233567888999999999


Q ss_pred             CCHHHHHHHHHhC-CCCCChhhHHHHHHHH
Q 006388          426 GRLEEAKSFINKM-PFPPDAIGWATLLSSC  454 (647)
Q Consensus       426 g~~~~A~~~~~~~-~~~p~~~~~~~ll~~~  454 (647)
                      |++++|...|++. ...|+......++..|
T Consensus        84 g~~~eA~~~~~~al~l~P~~~~~~~~l~~~  113 (356)
T PLN03088         84 EEYQTAKAALEKGASLAPGDSRFTKLIKEC  113 (356)
T ss_pred             CCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            9999999999987 5566644444444333

>PRK15331 chaperone protein SicA; Provisional

Probab=97.44  E-value=0.0035  Score=53.73  Aligned_cols=89  Identities=13%  Similarity=0.051  Sum_probs=77.2

Q ss_pred             HHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChh
Q 006388          418 MIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWD  495 (647)
Q Consensus       418 li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~  495 (647)
                      ...-+...|++++|..+|.-+ -..| +...|..|...|...++++.|...|..+..++++||.++...+..|...|+.+
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~~~~  122 (165)
T PRK15331         43 HAYEFYNQGRLDEAETFFRFLCIYDFYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKNDYRPVFFTGQCQLLMRKAA  122 (165)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCCccchHHHHHHHhCCHH
Confidence            344456899999999999876 2222 56678899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHh
Q 006388          496 HVSQLRRTMRE  506 (647)
Q Consensus       496 ~a~~~~~~m~~  506 (647)
                      .|...|+...+
T Consensus       123 ~A~~~f~~a~~  133 (165)
T PRK15331        123 KARQCFELVNE  133 (165)
T ss_pred             HHHHHHHHHHh
Confidence            99999998766

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.44  E-value=0.039  Score=56.87  Aligned_cols=235  Identities=14%  Similarity=0.168  Sum_probs=125.7

Q ss_pred             ehHHHHHHHHHhCCChhHHHHHHHHHHHCCCC-----------CChhhHHHHHHHHhcCCChHHHHH--HHHHHHHcCCC
Q 006388          140 ISWTTMITGLMQNGLEREAIDLFREMRLEGLA-----------MDQFTFGSVLTACGGLLALEEGKQ--IHAFIIRNDHK  206 (647)
Q Consensus       140 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-----------pd~~t~~~ll~~~~~~~~~~~a~~--~~~~~~~~g~~  206 (647)
                      +.+.+=+.-|...|.+++|.++-.    .|+.           .+...++..=++|.+..+..--+-  -++.+.++|-.
T Consensus       557 vp~~~~m~q~Ieag~f~ea~~iac----lgVv~~DW~~LA~~ALeAL~f~~ARkAY~rVRdl~~L~li~EL~~~k~rge~  632 (1081)
T KOG1538|consen  557 VPQSAPMYQYIERGLFKEAYQIAC----LGVTDTDWRELAMEALEALDFETARKAYIRVRDLRYLELISELEERKKRGET  632 (1081)
T ss_pred             ccccccchhhhhccchhhhhcccc----cceecchHHHHHHHHHhhhhhHHHHHHHHHHhccHHHHHHHHHHHHHhcCCC
Confidence            345555566777777777655421    1111           122233444445555544433222  23456667766


Q ss_pred             CchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHh
Q 006388          207 DNVFVGSALVDMYCKCKSIKYAESVFRTMAWKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCA  286 (647)
Q Consensus       207 ~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~  286 (647)
                      |+...   +...++-.|++.+|-++|.+                  +|....|+++|..|+--          -...-+.
T Consensus       633 P~~iL---lA~~~Ay~gKF~EAAklFk~------------------~G~enRAlEmyTDlRMF----------D~aQE~~  681 (1081)
T KOG1538|consen  633 PNDLL---LADVFAYQGKFHEAAKLFKR------------------SGHENRALEMYTDLRMF----------DYAQEFL  681 (1081)
T ss_pred             chHHH---HHHHHHhhhhHHHHHHHHHH------------------cCchhhHHHHHHHHHHH----------HHHHHHh
Confidence            76644   44556667888888887754                  56667777777766531          1122233


Q ss_pred             ccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChHHHHHHHHH
Q 006388          287 NLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEK  366 (647)
Q Consensus       287 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~d~~~~~~li~~~~~~g~~~~A~~~~~~  366 (647)
                      ..|..++-+.+.+.-.+.  ..+..--.+...++...|+.++|..+.                  ..+|-.+-+.++-++
T Consensus       682 ~~g~~~eKKmL~RKRA~W--Ar~~kePkaAAEmLiSaGe~~KAi~i~------------------~d~gW~d~lidI~rk  741 (1081)
T KOG1538|consen  682 GSGDPKEKKMLIRKRADW--ARNIKEPKAAAEMLISAGEHVKAIEIC------------------GDHGWVDMLIDIARK  741 (1081)
T ss_pred             hcCChHHHHHHHHHHHHH--hhhcCCcHHHHHHhhcccchhhhhhhh------------------hcccHHHHHHHHHhh
Confidence            344444443333222111  011111124455666677777775542                  334555555555444


Q ss_pred             HHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhCC-CCCC
Q 006388          367 MLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKMP-FPPD  443 (647)
Q Consensus       367 m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~-~~p~  443 (647)
                      +-.    .+..+...+...+.+...+.-|-++|..|-.          ...++++....|++.+|..+-++.| ..||
T Consensus       742 ld~----~ere~l~~~a~ylk~l~~~gLAaeIF~k~gD----------~ksiVqlHve~~~W~eAFalAe~hPe~~~d  805 (1081)
T KOG1538|consen  742 LDK----AEREPLLLCATYLKKLDSPGLAAEIFLKMGD----------LKSLVQLHVETQRWDEAFALAEKHPEFKDD  805 (1081)
T ss_pred             cch----hhhhHHHHHHHHHhhccccchHHHHHHHhcc----------HHHHhhheeecccchHhHhhhhhCcccccc
Confidence            432    2333455555555566667777777777632          2356777778888888888888875 4444

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.43  E-value=0.00047  Score=50.09  Aligned_cols=61  Identities=28%  Similarity=0.331  Sum_probs=49.3

Q ss_pred             HHHHHHHcCCHHHHHHHHHhC-CCCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCc
Q 006388          418 MIDILSRAGRLEEAKSFINKM-PFPPD-AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNP  478 (647)
Q Consensus       418 li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~  478 (647)
                      +...+.+.|++++|.+.|++. ...|+ ...|..+...+...|++++|...++++++..|++|
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            456678889999999998887 44564 77888888999999999999999999999999764

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.43  E-value=0.23  Score=52.51  Aligned_cols=335  Identities=13%  Similarity=0.079  Sum_probs=177.4

Q ss_pred             hCCCCchhhHH-----HHHHHHHhcCChHHHHHHhccCCCCC---chHHHHHHHHHHhcC---ChHHHHHHhhcCCC--C
Q 006388           71 FGFGSYVFVGS-----PLVDMYAKLGLIYDAKRGFDELPEKN---IVMYNTMITGLLRRG---LVEESRRLFRGMKD--K  137 (647)
Q Consensus        71 ~g~~~~~~~~~-----~li~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~li~~~~~~g---~~~~A~~~~~~~~~--~  137 (647)
                      .|++.+..-|.     .+++-+...+.+..|.++-..+..|-   ...|.....-+++..   +-+-+..+-+++..  .
T Consensus       426 ~gIplT~~qy~~l~~~~vi~Rl~~r~~Y~vaIQva~~l~~p~~~~~~Vl~~Wa~~kI~~~d~~d~~vld~I~~kls~~~~  505 (829)
T KOG2280|consen  426 IGIPLTHEQYRHLSEEVVIDRLVDRHLYSVAIQVAKLLNLPESQGDRVLLEWARRKIKQSDKMDEEVLDKIDEKLSAKLT  505 (829)
T ss_pred             cCccccHHHHhhhchhhhhHHHHhcchhHHHHHHHHHhCCccccccHHHHHHHHHHHhccCccchHHHHHHHHHhcccCC
Confidence            35555443333     45667777888999998888777654   456666666666553   33444555555555  4


Q ss_pred             CeehHHHHHHHHHhCCChhHHHHHHHHHHHCCCC----CChhhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHH
Q 006388          138 DSISWTTMITGLMQNGLEREAIDLFREMRLEGLA----MDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGS  213 (647)
Q Consensus       138 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~----pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~  213 (647)
                      ..++|..+.+-..+.|+++-|..+++.=...+..    .+...+...+.-+...|+.+...+++-++.+.-   +...  
T Consensus       506 ~~iSy~~iA~~Ay~~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllhlk~~~---~~s~--  580 (829)
T KOG2280|consen  506 PGISYAAIARRAYQEGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHLKNKL---NRSS--  580 (829)
T ss_pred             CceeHHHHHHHHHhcCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHHHHHH---HHHH--
Confidence            6678999998888999999998887643222211    122233444455555566555555554444321   0000  


Q ss_pred             HHHHHHHhcCCHHHHHHHHhcCCC-CChhHHHHHHHHHHhcCChhHHHHHHH--HH----HHCCCCCCHHHHHHHHHHHh
Q 006388          214 ALVDMYCKCKSIKYAESVFRTMAW-KNVVSWTAMLVGYGQNGCSEEAVKIFC--NM----QRNGIEPDDFTLGSVISSCA  286 (647)
Q Consensus       214 ~li~~y~~~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~A~~~~~--~m----~~~g~~p~~~t~~~ll~a~~  286 (647)
                          ......+...|..+|.+... .|..+   +-..| +.++..+++.-|.  ..    ...|..|+   ....-.+++
T Consensus       581 ----l~~~l~~~p~a~~lY~~~~r~~~~~~---l~d~y-~q~dn~~~~a~~~~q~~~~~~~~~~r~~~---lk~~a~~~a  649 (829)
T KOG2280|consen  581 ----LFMTLRNQPLALSLYRQFMRHQDRAT---LYDFY-NQDDNHQALASFHLQASYAAETIEGRIPA---LKTAANAFA  649 (829)
T ss_pred             ----HHHHHHhchhhhHHHHHHHHhhchhh---hhhhh-hcccchhhhhhhhhhhhhhhhhhcccchh---HHHHHHHHh
Confidence                01111223334444443322 11111   11111 1222222222211  10    01122333   233334444


Q ss_pred             ccCChHHHHHH----------HHHHHH-hCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcC
Q 006388          287 NLASLEEGTQF----------HGRSLV-TGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFG  355 (647)
Q Consensus       287 ~~~~~~~a~~~----------~~~~~~-~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~d~~~~~~li~~~~~~g  355 (647)
                      +........+.          .+.+.. .+.....-+.+--+.-+...|+..+|.++-.+..-||-..|-.-+.+++..+
T Consensus       650 ~sk~~s~e~ka~ed~~kLl~lQ~~Le~q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~FkipdKr~~wLk~~aLa~~~  729 (829)
T KOG2280|consen  650 KSKEKSFEAKALEDQMKLLKLQRTLEDQFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFKIPDKRLWWLKLTALADIK  729 (829)
T ss_pred             hhhhhhhHHHHHHHHHHHHHHHHHHHHHhccccccCcHHHHHHHHHHccchHHHHHHHHhcCCcchhhHHHHHHHHHhhh
Confidence            44332211111          111111 1211212222333444556788888888888888888888888888888888


Q ss_pred             ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHH
Q 006388          356 KANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFI  435 (647)
Q Consensus       356 ~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~  435 (647)
                      ++++-+++-+.+.      .+.-|.-...+|.+.|+.++|.+++-...   |.       .-.+.+|.+.|++.+|.++-
T Consensus       730 kweeLekfAkskk------sPIGy~PFVe~c~~~~n~~EA~KYiprv~---~l-------~ekv~ay~~~~~~~eAad~A  793 (829)
T KOG2280|consen  730 KWEELEKFAKSKK------SPIGYLPFVEACLKQGNKDEAKKYIPRVG---GL-------QEKVKAYLRVGDVKEAADLA  793 (829)
T ss_pred             hHHHHHHHHhccC------CCCCchhHHHHHHhcccHHHHhhhhhccC---Ch-------HHHHHHHHHhccHHHHHHHH
Confidence            8877666655443      14456667778888888888887765431   11       14677788888888877765


Q ss_pred             Hh
Q 006388          436 NK  437 (647)
Q Consensus       436 ~~  437 (647)
                      -+
T Consensus       794 ~~  795 (829)
T KOG2280|consen  794 AE  795 (829)
T ss_pred             HH
Confidence            44

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.42  E-value=0.0046  Score=60.04  Aligned_cols=143  Identities=15%  Similarity=0.199  Sum_probs=102.3

Q ss_pred             hhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH-HhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHH
Q 006388          342 VSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSA-CSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMID  420 (647)
Q Consensus       342 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a-~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~  420 (647)
                      .+|-.++...-+.+..+.|..+|.+..+.+ ..+...|...... +...++.+.|..+|+...+.+  ..+...|...++
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-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKKF--PSDPDFWLEYLD   78 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHHH--TT-HHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHC--CCCHHHHHHHHH
Confidence            367777888888888889999999988542 2233344443333 333577778999999998864  456678889999


Q ss_pred             HHHHcCCHHHHHHHHHhC-CCCCC----hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhh
Q 006388          421 ILSRAGRLEEAKSFINKM-PFPPD----AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIY  488 (647)
Q Consensus       421 ~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  488 (647)
                      .+.+.|+.+.|..+|++. ..-|.    ...|...+.--.+.|+.+....+.+++.+.-|++. .+..+.+-|
T Consensus        79 ~l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~~~~~~-~~~~f~~ry  150 (280)
T PF05843_consen   79 FLIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEELFPEDN-SLELFSDRY  150 (280)
T ss_dssp             HHHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHTTTS--HHHHHHCCT
T ss_pred             HHHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhhh-HHHHHHHHh
Confidence            999999999999999987 22233    35899999999999999999999999999888643 333344444

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.

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.41  E-value=0.0022  Score=60.29  Aligned_cols=106  Identities=13%  Similarity=0.066  Sum_probs=89.9

Q ss_pred             CCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhc---CChhHHHHHHHHHhccCCCCchhHH
Q 006388          408 IRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIH---GNVEIGKWAAESLLELDPYNPASYV  482 (647)
Q Consensus       408 ~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~---~~~~~a~~~~~~~~~~~p~~~~~~~  482 (647)
                      .+-|.+.|-.|...|.+.|+++.|..-|.+. .+.| ++..+..+..++...   ....++..+++++++.+|.|..+..
T Consensus       152 nP~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~iral~  231 (287)
T COG4235         152 NPGDAEGWDLLGRAYMALGRASDALLAYRNALRLAGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRALS  231 (287)
T ss_pred             CCCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHHHH
Confidence            3557899999999999999999999999888 4444 477777777776443   3568899999999999999999999


Q ss_pred             HHHHhhhhCCChhHHHHHHHHHHhCCCccCC
Q 006388          483 LLSSIYASKGKWDHVSQLRRTMREKGVRKDP  513 (647)
Q Consensus       483 ~l~~~~~~~g~~~~a~~~~~~m~~~g~~~~~  513 (647)
                      .|+..+...|++.+|...++.|.+..-.-+|
T Consensus       232 lLA~~afe~g~~~~A~~~Wq~lL~~lp~~~~  262 (287)
T COG4235         232 LLAFAAFEQGDYAEAAAAWQMLLDLLPADDP  262 (287)
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHhcCCCCCc
Confidence            9999999999999999999999987655444

>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=97.40  E-value=0.002  Score=50.41  Aligned_cols=62  Identities=29%  Similarity=0.287  Sum_probs=30.6

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCC
Q 006388          414 HYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDP  475 (647)
Q Consensus       414 ~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p  475 (647)
                      .+..+...+...|++++|.+.+++. ...| +..+|..+...+...|+.+.|...++++.+..|
T Consensus        36 ~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~   99 (100)
T cd00189          36 AYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKLGKYEEALEAYEKALELDP   99 (100)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHHhHHHHHHHHHHHHccCC
Confidence            3344444444445555555555443 1122 233455555555555666666666655555544

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.37  E-value=0.017  Score=56.36  Aligned_cols=111  Identities=17%  Similarity=0.281  Sum_probs=49.8

Q ss_pred             HHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHHc-CChHHHHHHHHHHHH----CCCCCC--HHHHHHHHHHHhc
Q 006388          316 LVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKF-GKANETIDLFEKMLS----HGLKPD--EVTLIGVLSACSR  388 (647)
Q Consensus       316 li~~~~~~g~~~~A~~~~~~~~~~d~~~~~~li~~~~~~-g~~~~A~~~~~~m~~----~g~~p~--~~t~~~ll~a~~~  388 (647)
                      .++.|.+.|++..|-+++..           +...|... |++++|++.|++..+    .| .+.  ..++..+...+.+
T Consensus       100 A~~~y~~~G~~~~aA~~~~~-----------lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~~~~a~~~~~~~A~l~~~  167 (282)
T PF14938_consen  100 AIEIYREAGRFSQAAKCLKE-----------LAEIYEEQLGDYEKAIEYYQKAAELYEQEG-SPHSAAECLLKAADLYAR  167 (282)
T ss_dssp             HHHHHHHCT-HHHHHHHHHH-----------HHHHHCCTT--HHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCcHHHHHHHHHH-----------HHHHHHHHcCCHHHHHHHHHHHHHHHHHCC-ChhhHHHHHHHHHHHHHH
Confidence            34455566666655544433           34445454 566666666665443    12 111  1134444555566


Q ss_pred             CCcHHHHHHHHHHHHHhcCC----CcCh-HHHHHHHHHHHHcCCHHHHHHHHHhC
Q 006388          389 AGLVEKGRHYFEIMVKEYGI----RPIH-DHYTCMIDILSRAGRLEEAKSFINKM  438 (647)
Q Consensus       389 ~g~~~~a~~~~~~~~~~~~~----~p~~-~~~~~li~~~~~~g~~~~A~~~~~~~  438 (647)
                      .|++++|.++|++.....--    ..+. ..+-..+-++...|+...|.+.+++.
T Consensus       168 l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~  222 (282)
T PF14938_consen  168 LGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERY  222 (282)
T ss_dssp             TT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             hCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            66666666666655443111    1111 12222233444456666666666554

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=97.33  E-value=0.35  Score=52.38  Aligned_cols=213  Identities=10%  Similarity=0.062  Sum_probs=129.1

Q ss_pred             HcCCChhHHHHHHHHHHHCCCCCCCcchHHHHHHHH--hCCCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHHhcCChH
Q 006388           17 ASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMS--SSRRCVDLGRQIHGHILKFGFGSYVFVGSPLVDMYAKLGLIY   94 (647)
Q Consensus        17 ~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~~ll~~~--~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~   94 (647)
                      ...+++..|+....+..+..   ||. .|..+++++  .+.|..++|..+++.....+. .|..+...+-.+|.+.|+.+
T Consensus        20 ld~~qfkkal~~~~kllkk~---Pn~-~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~-~D~~tLq~l~~~y~d~~~~d   94 (932)
T KOG2053|consen   20 LDSSQFKKALAKLGKLLKKH---PNA-LYAKVLKALSLFRLGKGDEALKLLEALYGLKG-TDDLTLQFLQNVYRDLGKLD   94 (932)
T ss_pred             hhhHHHHHHHHHHHHHHHHC---CCc-HHHHHHHHHHHHHhcCchhHHHHHhhhccCCC-CchHHHHHHHHHHHHHhhhh
Confidence            45678889999999888763   443 456666665  578889999988887776664 37888889999999999999


Q ss_pred             HHHHHhccCCC--CCchHHHHHHHHHHhcCChH----HHHHHhhcCCCCCeehHHHHHHHHHhCC-Ch---------hHH
Q 006388           95 DAKRGFDELPE--KNIVMYNTMITGLLRRGLVE----ESRRLFRGMKDKDSISWTTMITGLMQNG-LE---------REA  158 (647)
Q Consensus        95 ~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~----~A~~~~~~~~~~~~~~~~~li~~~~~~g-~~---------~~A  158 (647)
                      +|..++++..+  |+......+..+|+|.+.+.    .|.+++...++ +...+-++++.+.+.- .+         .-|
T Consensus        95 ~~~~~Ye~~~~~~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~~pk-~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA  173 (932)
T KOG2053|consen   95 EAVHLYERANQKYPSEELLYHLFMAYVREKSYKKQQKAALQLYKNFPK-RAYYFWSVISLILQSIFSENELLDPILLALA  173 (932)
T ss_pred             HHHHHHHHHHhhCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCc-ccchHHHHHHHHHHhccCCcccccchhHHHH
Confidence            99999999886  44445555667777777664    46666776554 3444445555554431 11         223


Q ss_pred             HHHHHHHHHCC-CCCChhhHHHHHHHHhcCCChHHHHHHHHH-HHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcC
Q 006388          159 IDLFREMRLEG-LAMDQFTFGSVLTACGGLLALEEGKQIHAF-IIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTM  235 (647)
Q Consensus       159 ~~~~~~m~~~g-~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~-~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~  235 (647)
                      .+.++.+.+.+ -.-+..-...-+..+...|..++|.+++.. ....-...+...-+.-++.+...+++.+-.++-.+.
T Consensus       174 ~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~L  252 (932)
T KOG2053|consen  174 EKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRL  252 (932)
T ss_pred             HHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHH
Confidence            34444444433 111111122222233455667777766632 222222333444445566666666666655444443

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.31  E-value=0.00086  Score=51.70  Aligned_cols=80  Identities=21%  Similarity=0.314  Sum_probs=39.3

Q ss_pred             cCChHHHHHHHHHHHHCCC-CCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcC-hHHHHHHHHHHHHcCCHHHH
Q 006388          354 FGKANETIDLFEKMLSHGL-KPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPI-HDHYTCMIDILSRAGRLEEA  431 (647)
Q Consensus       354 ~g~~~~A~~~~~~m~~~g~-~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A  431 (647)
                      .|+++.|+.+|+++.+... .|+...+..+..++.+.|++++|..+++. .   ...|. ....-.+..+|.+.|++++|
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            4566666666666665422 11233333455566666666666666655 1   11221 22333345555666666666


Q ss_pred             HHHHHh
Q 006388          432 KSFINK  437 (647)
Q Consensus       432 ~~~~~~  437 (647)
                      ++++++
T Consensus        78 i~~l~~   83 (84)
T PF12895_consen   78 IKALEK   83 (84)
T ss_dssp             HHHHHH
T ss_pred             HHHHhc
Confidence            665543

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.29  E-value=0.31  Score=51.04  Aligned_cols=41  Identities=20%  Similarity=0.199  Sum_probs=22.0

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHhC----CCCCChhhHHHHHHH
Q 006388          413 DHYTCMIDILSRAGRLEEAKSFINKM----PFPPDAIGWATLLSS  453 (647)
Q Consensus       413 ~~~~~li~~~~~~g~~~~A~~~~~~~----~~~p~~~~~~~ll~~  453 (647)
                      .++-.|..--...|..+.|+..--.+    .+-|-..+|..|.-+
T Consensus      1022 yHFmilAQrql~eg~v~~Al~Tal~L~DYEd~lpP~eiySllALa 1066 (1189)
T KOG2041|consen 1022 YHFMILAQRQLFEGRVKDALQTALILSDYEDFLPPAEIYSLLALA 1066 (1189)
T ss_pred             HHHHHHHHHHHHhchHHHHHHHHhhhccHhhcCCHHHHHHHHHHH
Confidence            44555555556678888877654333    233444455444433

>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=97.24  E-value=0.00035  Score=51.35  Aligned_cols=52  Identities=23%  Similarity=0.394  Sum_probs=41.1

Q ss_pred             HhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHh
Q 006388          455 RIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       455 ~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      ...|++++|+..++++++.+|+++.....++.+|.+.|++++|.++++++..
T Consensus         2 l~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~   53 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELLERLLK   53 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHG
T ss_pred             hhccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3567888888888888888888888888888888888888888888887654

...

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.23  E-value=0.0008  Score=50.25  Aligned_cols=58  Identities=17%  Similarity=0.146  Sum_probs=49.5

Q ss_pred             HHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHhCC
Q 006388          451 LSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREKG  508 (647)
Q Consensus       451 l~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g  508 (647)
                      ...+.+.++++.|..+++++++++|+++..+...+.+|...|++++|.+.+++..+.+
T Consensus         2 ~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~   59 (73)
T PF13371_consen    2 KQIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELS   59 (73)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHC
Confidence            3567788899999999999999999999999999999999999999999998887643

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.23  E-value=0.0081  Score=51.90  Aligned_cols=100  Identities=20%  Similarity=0.255  Sum_probs=52.9

Q ss_pred             CCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC---CCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCC--CchhH
Q 006388          407 GIRPIHDHYTCMIDILSRAGRLEEAKSFINKM---PFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPY--NPASY  481 (647)
Q Consensus       407 ~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~---~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~--~~~~~  481 (647)
                      .+.|+..+--.|...+.+.|+..||...|++.   .+.-|......+.++....+++..|...++.+.+-.|.  .|...
T Consensus        84 ~~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~  163 (251)
T COG4700          84 AIAPTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGH  163 (251)
T ss_pred             hhchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCch
Confidence            34455555555555555555555555555554   23334455555555555555555555555555555543  34445


Q ss_pred             HHHHHhhhhCCChhHHHHHHHHHHh
Q 006388          482 VLLSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       482 ~~l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      ..++..|...|++.+|+..|+...+
T Consensus       164 Ll~aR~laa~g~~a~Aesafe~a~~  188 (251)
T COG4700         164 LLFARTLAAQGKYADAESAFEVAIS  188 (251)
T ss_pred             HHHHHHHHhcCCchhHHHHHHHHHH
Confidence            5555555555555555555555444

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.18  E-value=0.02  Score=51.02  Aligned_cols=81  Identities=11%  Similarity=0.071  Sum_probs=49.0

Q ss_pred             hhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHH
Q 006388          341 EVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPD--EVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCM  418 (647)
Q Consensus       341 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~--~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l  418 (647)
                      ...|..+...+...|++++|+..|++.......|.  ..++..+...+...|++++|...++...+.  .+.....+..+
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            34556666667777888888888877765432221  235666667777777777777777766542  12223444555


Q ss_pred             HHHHH
Q 006388          419 IDILS  423 (647)
Q Consensus       419 i~~~~  423 (647)
                      ...+.
T Consensus       113 a~i~~  117 (168)
T CHL00033        113 AVICH  117 (168)
T ss_pred             HHHHH
Confidence            55554

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.17  E-value=0.036  Score=52.47  Aligned_cols=52  Identities=10%  Similarity=-0.143  Sum_probs=24.5

Q ss_pred             HhCCCChHHHHHHHHHHHHhCCCCchhhH---HHHHHHHHhcCChHHHHHHhccCC
Q 006388           52 SSSRRCVDLGRQIHGHILKFGFGSYVFVG---SPLVDMYAKLGLIYDAKRGFDELP  104 (647)
Q Consensus        52 ~~~~~~~~~a~~~~~~~~~~g~~~~~~~~---~~li~~~~~~g~~~~A~~~~~~~~  104 (647)
                      +...|++++|...|+.+...-..+ ....   -.+..+|.+.+++++|...|++..
T Consensus        42 ~~~~g~y~~Ai~~f~~l~~~yP~s-~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi   96 (243)
T PRK10866         42 KLQDGNWKQAITQLEALDNRYPFG-PYSQQVQLDLIYAYYKNADLPLAQAAIDRFI   96 (243)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCCCC-hHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            344555555555555555543211 2222   223344555555555555555443

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=97.17  E-value=0.00023  Score=43.62  Aligned_cols=33  Identities=24%  Similarity=0.553  Sum_probs=30.7

Q ss_pred             HHHHhccCCCCchhHHHHHHhhhhCCChhHHHH
Q 006388          467 AESLLELDPYNPASYVLLSSIYASKGKWDHVSQ  499 (647)
Q Consensus       467 ~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~  499 (647)
                      ++++++++|+|+.+|..|+.+|...|++++|++
T Consensus         2 y~kAie~~P~n~~a~~nla~~~~~~g~~~~A~~   34 (34)
T PF13431_consen    2 YKKAIELNPNNAEAYNNLANLYLNQGDYEEAIA   34 (34)
T ss_pred             hHHHHHHCCCCHHHHHHHHHHHHHCcCHHhhcC
Confidence            678999999999999999999999999999863

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.15  E-value=0.069  Score=46.39  Aligned_cols=133  Identities=10%  Similarity=0.128  Sum_probs=100.5

Q ss_pred             CCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC---ChhhH
Q 006388          372 LKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP---DAIGW  447 (647)
Q Consensus       372 ~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p---~~~~~  447 (647)
                      ..|....-..|..+....|+..+|...|++.... -+..|....-.+..+....+++.+|...+++. ...|   ++..-
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            4566666667788888889999999888887752 34556777777888888888999998888876 2222   23344


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHh
Q 006388          448 ATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       448 ~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      ..+...+...|..++|+..++.++.-.| ++..-......+.++|+.+++..-+..+.+
T Consensus       164 Ll~aR~laa~g~~a~Aesafe~a~~~yp-g~~ar~~Y~e~La~qgr~~ea~aq~~~v~d  221 (251)
T COG4700         164 LLFARTLAAQGKYADAESAFEVAISYYP-GPQARIYYAEMLAKQGRLREANAQYVAVVD  221 (251)
T ss_pred             HHHHHHHHhcCCchhHHHHHHHHHHhCC-CHHHHHHHHHHHHHhcchhHHHHHHHHHHH
Confidence            5677888899999999999999999888 455556667788899998888776666554

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.14  E-value=0.0035  Score=60.79  Aligned_cols=128  Identities=12%  Similarity=0.049  Sum_probs=91.9

Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHH---HHhcCCCc-ChHHHHHHHHHHHHcCCHHHHHHHHHhC-------CC-CCChh
Q 006388          378 TLIGVLSACSRAGLVEKGRHYFEIM---VKEYGIRP-IHDHYTCMIDILSRAGRLEEAKSFINKM-------PF-PPDAI  445 (647)
Q Consensus       378 t~~~ll~a~~~~g~~~~a~~~~~~~---~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-------~~-~p~~~  445 (647)
                      .|..|...|.-.|+++.|+...+.-   .+++|-.. ....+..+...+.-.|+++.|.+.++..       +. ...+.
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            4555555666678899988776532   23444332 2356788888899999999999988764       21 12355


Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHhc----cC--CCCchhHHHHHHhhhhCCChhHHHHHHHHHH
Q 006388          446 GWATLLSSCRIHGNVEIGKWAAESLLE----LD--PYNPASYVLLSSIYASKGKWDHVSQLRRTMR  505 (647)
Q Consensus       446 ~~~~ll~~~~~~~~~~~a~~~~~~~~~----~~--p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  505 (647)
                      +.-+|.+.|....+++.|+..+.+-+.    ++  .....++.+|+++|...|.-+.|..+.+.-.
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            667889999988999999988876443    22  2356788999999999999999988876554

>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=97.14  E-value=0.00099  Score=49.07  Aligned_cols=65  Identities=25%  Similarity=0.277  Sum_probs=52.2

Q ss_pred             ChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-hhhHHHHHHHHHhcC-ChhHHHHHHHHHhccCC
Q 006388          411 IHDHYTCMIDILSRAGRLEEAKSFINKM-PFPPD-AIGWATLLSSCRIHG-NVEIGKWAAESLLELDP  475 (647)
Q Consensus       411 ~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~~p  475 (647)
                      +...|..+...+...|++++|+..|++. ...|+ +..|..+..++...| ++++|+..++++++++|
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            3456777888888888888888888877 44454 778888888888888 78999999999988887

...

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.07  E-value=0.53  Score=49.45  Aligned_cols=372  Identities=15%  Similarity=0.133  Sum_probs=174.9

Q ss_pred             CCchhhHHHHHHHHHhcCChHHHHHHhccCCC-CCchHHHHH----------HHHHHhcCChHHHHHHhhcCCCCCeehH
Q 006388           74 GSYVFVGSPLVDMYAKLGLIYDAKRGFDELPE-KNIVMYNTM----------ITGLLRRGLVEESRRLFRGMKDKDSISW  142 (647)
Q Consensus        74 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~l----------i~~~~~~g~~~~A~~~~~~~~~~~~~~~  142 (647)
                      .|.+..|..|...-.+.-.++.|+..|-+... +.+..-..|          ...-+--|++++|++++-.+.++|.   
T Consensus       689 nPHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY~Gik~vkrl~~i~s~~~q~aei~~~~g~feeaek~yld~drrDL---  765 (1189)
T KOG2041|consen  689 NPHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRAEISAFYGEFEEAEKLYLDADRRDL---  765 (1189)
T ss_pred             CCchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhHhHhhhhcchhHhhhhhhccchhhh---
Confidence            46667777776666666666667666655543 111100000          1111235778888888877776664   


Q ss_pred             HHHHHHHHhCCChhHHHHHHHHHHHCCCCCC----hhhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHH
Q 006388          143 TTMITGLMQNGLEREAIDLFREMRLEGLAMD----QFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDM  218 (647)
Q Consensus       143 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd----~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~  218 (647)
                        -|..+.+.|++-...++++.   -|-..|    ...++.+...++....+++|.+.+..--.         ...++.+
T Consensus       766 --Aielr~klgDwfrV~qL~r~---g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~~---------~e~~~ec  831 (1189)
T KOG2041|consen  766 --AIELRKKLGDWFRVYQLIRN---GGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCGD---------TENQIEC  831 (1189)
T ss_pred             --hHHHHHhhhhHHHHHHHHHc---cCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc---------hHhHHHH
Confidence              34556666777665555432   111111    23455555555555666666665544211         1124555


Q ss_pred             HHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHH
Q 006388          219 YCKCKSIKYAESVFRTMAWKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFH  298 (647)
Q Consensus       219 y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~  298 (647)
                      |.+..++++-+.+-+.+++ |....-.|...+...|.-++|.+.|-+--    .|     ...+.+|...+++.+|.++-
T Consensus       832 ly~le~f~~LE~la~~Lpe-~s~llp~~a~mf~svGMC~qAV~a~Lr~s----~p-----kaAv~tCv~LnQW~~avela  901 (1189)
T KOG2041|consen  832 LYRLELFGELEVLARTLPE-DSELLPVMADMFTSVGMCDQAVEAYLRRS----LP-----KAAVHTCVELNQWGEAVELA  901 (1189)
T ss_pred             HHHHHhhhhHHHHHHhcCc-ccchHHHHHHHHHhhchHHHHHHHHHhcc----Cc-----HHHHHHHHHHHHHHHHHHHH
Confidence            6665666665555555554 33445556677777777777776654321    12     12345566666666665554


Q ss_pred             HHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHH----CCCCC
Q 006388          299 GRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEKMLS----HGLKP  374 (647)
Q Consensus       299 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~----~g~~p  374 (647)
                      +...-    |.+.   +|+.-+        |.+++.+...      ---|..+.+.|+.-+|.+++.+|-+    .+++|
T Consensus       902 q~~~l----~qv~---tliak~--------aaqll~~~~~------~eaIe~~Rka~~~~daarll~qmae~e~~K~~p~  960 (1189)
T KOG2041|consen  902 QRFQL----PQVQ---TLIAKQ--------AAQLLADANH------MEAIEKDRKAGRHLDAARLLSQMAEREQEKYVPY  960 (1189)
T ss_pred             Hhccc----hhHH---HHHHHH--------HHHHHhhcch------HHHHHHhhhcccchhHHHHHHHHhHHHhhccCCH
Confidence            33211    1111   111111        1111111110      0123445567777778888877754    34444


Q ss_pred             CHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCChhhHHHHHHHH
Q 006388          375 DEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKMPFPPDAIGWATLLSSC  454 (647)
Q Consensus       375 ~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~  454 (647)
                      -..--..++.|..-. +..++.+-.+...+ +|...+...       +...|-+.++-.+.+..-  .-+..|.-++-+-
T Consensus       961 lr~KklYVL~AlLvE-~h~~~ik~~~~~~~-~g~~~dat~-------lles~~l~~~~ri~~n~W--rgAEAyHFmilAQ 1029 (1189)
T KOG2041|consen  961 LRLKKLYVLGALLVE-NHRQTIKELRKIDK-HGFLEDATD-------LLESGLLAEQSRILENTW--RGAEAYHFMILAQ 1029 (1189)
T ss_pred             HHHHHHHHHHHHHHH-HHHHHHHHhhhhhh-cCcchhhhh-------hhhhhhhhhHHHHHHhhh--hhHHHHHHHHHHH
Confidence            443333344433211 11111111111111 122111110       222333334333333221  1244555566554


Q ss_pred             H--hcCChhHHHHHHHHHhcc---CCCCchhHHHHHHhhhhCCChhHHHHHHHHHH
Q 006388          455 R--IHGNVEIGKWAAESLLEL---DPYNPASYVLLSSIYASKGKWDHVSQLRRTMR  505 (647)
Q Consensus       455 ~--~~~~~~~a~~~~~~~~~~---~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  505 (647)
                      +  ..|.++.|.+..-.+..-   -| ...+|..|+-+-+....+--..+.|-++.
T Consensus      1030 rql~eg~v~~Al~Tal~L~DYEd~lp-P~eiySllALaaca~raFGtCSKAfmkLe 1084 (1189)
T KOG2041|consen 1030 RQLFEGRVKDALQTALILSDYEDFLP-PAEIYSLLALAACAVRAFGTCSKAFMKLE 1084 (1189)
T ss_pred             HHHHhchHHHHHHHHhhhccHhhcCC-HHHHHHHHHHHHhhhhhhhhhHHHHHHHH
Confidence            4  357777777655444332   23 34566666655554444444444444433

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.05  E-value=0.015  Score=46.10  Aligned_cols=79  Identities=11%  Similarity=0.198  Sum_probs=63.3

Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHCCC-CCCHHHHHHHHHHHhcCC--------cHHHHHHHHHHHHHhcCCCcChHHH
Q 006388          345 TALVSGYAKFGKANETIDLFEKMLSHGL-KPDEVTLIGVLSACSRAG--------LVEKGRHYFEIMVKEYGIRPIHDHY  415 (647)
Q Consensus       345 ~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~~t~~~ll~a~~~~g--------~~~~a~~~~~~~~~~~~~~p~~~~~  415 (647)
                      ...|..+...+++.....+|+.+++.|+ .|+..+|+.++.+..+..        .+-+.+.+++.|... +++|+.++|
T Consensus        29 i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~-~lKP~~etY  107 (120)
T PF08579_consen   29 IDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSN-KLKPNDETY  107 (120)
T ss_pred             HHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHh-ccCCcHHHH
Confidence            3455666667999999999999999999 899999999998876543        244567788888866 899999999


Q ss_pred             HHHHHHHHH
Q 006388          416 TCMIDILSR  424 (647)
Q Consensus       416 ~~li~~~~~  424 (647)
                      +.++..+.+
T Consensus       108 nivl~~Llk  116 (120)
T PF08579_consen  108 NIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHH
Confidence            988887754

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 [, , ].

>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=97.02  E-value=0.00096  Score=48.97  Aligned_cols=49  Identities=10%  Similarity=0.239  Sum_probs=26.0

Q ss_pred             cCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC
Q 006388          388 RAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM  438 (647)
Q Consensus       388 ~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~  438 (647)
                      ..|++++|.++|+.+....  +-+...+..++.+|.+.|++++|.++++++
T Consensus         3 ~~~~~~~A~~~~~~~l~~~--p~~~~~~~~la~~~~~~g~~~~A~~~l~~~   51 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRN--PDNPEARLLLAQCYLKQGQYDEAEELLERL   51 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHT--TTSHHHHHHHHHHHHHTT-HHHHHHHHHCC
T ss_pred             hccCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3455666666666655431  224444555555555556655555555555

...

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.02  E-value=0.0088  Score=47.31  Aligned_cols=81  Identities=17%  Similarity=0.053  Sum_probs=65.8

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHCCC-CCCHHHHHHHHHHHhccC--------ChHHHHHHHHHHHHhCCCcchhH
Q 006388          242 SWTAMLVGYGQNGCSEEAVKIFCNMQRNGI-EPDDFTLGSVISSCANLA--------SLEEGTQFHGRSLVTGLISFITV  312 (647)
Q Consensus       242 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~~t~~~ll~a~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~  312 (647)
                      +-...|..+...+++.....+|+.+++.|+ .|+..+|+.++.+.++..        .+-....+++.++..++.|+..+
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            344566777777999999999999999999 999999999999887643        34456678888888889999999


Q ss_pred             HHHHHHHHHh
Q 006388          313 SNALVTFYGK  322 (647)
Q Consensus       313 ~~~li~~~~~  322 (647)
                      |+.++..+.+
T Consensus       107 Ynivl~~Llk  116 (120)
T PF08579_consen  107 YNIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHHH
Confidence            9888877654

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 [, , ].

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=96.96  E-value=0.06  Score=52.51  Aligned_cols=116  Identities=17%  Similarity=0.218  Sum_probs=75.4

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcC-CcHHHHHHHHHHHHHhcCCCcC----hHHHHHHHH
Q 006388          346 ALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRA-GLVEKGRHYFEIMVKEYGIRPI----HDHYTCMID  420 (647)
Q Consensus       346 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~-g~~~~a~~~~~~~~~~~~~~p~----~~~~~~li~  420 (647)
                      ..+..|...|++..|-+++.++               ...|... |++++|.+.|+....-+.....    ...+..+..
T Consensus        99 ~A~~~y~~~G~~~~aA~~~~~l---------------A~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~  163 (282)
T PF14938_consen   99 KAIEIYREAGRFSQAAKCLKEL---------------AEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAAD  163 (282)
T ss_dssp             HHHHHHHHCT-HHHHHHHHHHH---------------HHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCcHHHHHHHHHHH---------------HHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHH
Confidence            3566777778777777666654               3457777 8999999999887654332222    356677888


Q ss_pred             HHHHcCCHHHHHHHHHhCC---CC-----CChh-hHHHHHHHHHhcCChhHHHHHHHHHhccCCC
Q 006388          421 ILSRAGRLEEAKSFINKMP---FP-----PDAI-GWATLLSSCRIHGNVEIGKWAAESLLELDPY  476 (647)
Q Consensus       421 ~~~~~g~~~~A~~~~~~~~---~~-----p~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~  476 (647)
                      .+.+.|++++|.++|++..   ..     .++. .+...+-.+...||...|...+++..+.+|.
T Consensus       164 l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~  228 (282)
T PF14938_consen  164 LYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPS  228 (282)
T ss_dssp             HHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTT
T ss_pred             HHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            9999999999999998762   11     1111 1222233455678999999999999888874

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=96.93  E-value=0.0089  Score=58.09  Aligned_cols=129  Identities=15%  Similarity=0.154  Sum_probs=100.6

Q ss_pred             HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHH-cCCHHHHHHHHHhC--CCCCChhhHHHHHHH
Q 006388          377 VTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSR-AGRLEEAKSFINKM--PFPPDAIGWATLLSS  453 (647)
Q Consensus       377 ~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~-~g~~~~A~~~~~~~--~~~p~~~~~~~ll~~  453 (647)
                      .+|..++...-+.+..+.|+.+|....+.  -..+...|.....+-.+ .++.+.|.++|+..  .+..+...|...+.-
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            46788888888888999999999999753  22345566666666455 46666699999988  345578899999999


Q ss_pred             HHhcCChhHHHHHHHHHhccCCCCc---hhHHHHHHhhhhCCChhHHHHHHHHHHhC
Q 006388          454 CRIHGNVEIGKWAAESLLELDPYNP---ASYVLLSSIYASKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       454 ~~~~~~~~~a~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  507 (647)
                      +...++.+.|..+|++++..-|.+.   ..|...+..=.+.|+++.+.++.+++.+.
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            9999999999999999998766543   57888888888999999999999998864

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.

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=96.91  E-value=0.032  Score=58.91  Aligned_cols=134  Identities=16%  Similarity=0.135  Sum_probs=97.6

Q ss_pred             CCCCCHHHHHHHHHHHhc--C---CcHHHHHHHHHHHHHhcCCCcCh-HHHHHHHHHHHHc--------CCHHHHHHHHH
Q 006388          371 GLKPDEVTLIGVLSACSR--A---GLVEKGRHYFEIMVKEYGIRPIH-DHYTCMIDILSRA--------GRLEEAKSFIN  436 (647)
Q Consensus       371 g~~p~~~t~~~ll~a~~~--~---g~~~~a~~~~~~~~~~~~~~p~~-~~~~~li~~~~~~--------g~~~~A~~~~~  436 (647)
                      +.+.|...|...+.+...  .   +....|..+|++.++   ..|+- ..|..+..++...        +++..+.+...
T Consensus       332 ~~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~---ldP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~  408 (517)
T PRK10153        332 GLPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILK---SEPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELD  408 (517)
T ss_pred             cCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH---hCCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHH
Confidence            356677788888887543  2   347789999999885   46663 4555544444322        12345555555


Q ss_pred             hC---C-CCCChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHhCC
Q 006388          437 KM---P-FPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREKG  508 (647)
Q Consensus       437 ~~---~-~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g  508 (647)
                      +.   + ...++..+.++.-.....|++++|...++++++++| +...|..++.+|...|+.++|.+.+++.....
T Consensus       409 ~a~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~p-s~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~  483 (517)
T PRK10153        409 NIVALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLEM-SWLNYVLLGKVYELKGDNRLAADAYSTAFNLR  483 (517)
T ss_pred             HhhhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            53   2 233467787777777788999999999999999999 57899999999999999999999999887643

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=96.89  E-value=0.015  Score=58.96  Aligned_cols=118  Identities=14%  Similarity=0.121  Sum_probs=62.7

Q ss_pred             CCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhC--CCcchhHHHHHHHHHHhcCCHHHHHHHHhhcC----CCChhh
Q 006388          270 GIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTG--LISFITVSNALVTFYGKCGNIEDSHRLFNEMN----VRDEVS  343 (647)
Q Consensus       270 g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~----~~d~~~  343 (647)
                      +.+.+...+..++..+....+++.+..++-......  ...-..+..++++.|.+.|..+++..+++.=.    =+|..+
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            345566666677777776666676666666555441  11122233455555555555555555554432    235555


Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHh
Q 006388          344 WTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACS  387 (647)
Q Consensus       344 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~  387 (647)
                      +|.|+..+.+.|++..|.++..+|...+...+..|+...+.+|.
T Consensus       141 ~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~  184 (429)
T PF10037_consen  141 FNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCY  184 (429)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHH
Confidence            55555555555555555555555555444444444444444443

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of small ribosomal proteins possessing one of three conserved sequence blocks found in proteins that stimulate the dissociation of guanine nucleotides from G-proteins. This leaves open the possibility that they may be functional partners of GTP-binding ribosomal proteins [].

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=96.88  E-value=0.019  Score=58.21  Aligned_cols=119  Identities=11%  Similarity=0.026  Sum_probs=69.7

Q ss_pred             CCCChhhHHHHHHHHhcCCChHHHHHHHHHHHHc--CCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC----CChhHH
Q 006388          170 LAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRN--DHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAW----KNVVSW  243 (647)
Q Consensus       170 ~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~--g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~----~~~~~~  243 (647)
                      .+.+...+..+++.+....+++.++.++-.....  ....-..+..++|+.|.+.|..+.+..+++.=..    +|..++
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            4445566666666666666666666665555443  1222233444666666666666666666654332    456666


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcc
Q 006388          244 TAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANL  288 (647)
Q Consensus       244 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~  288 (647)
                      |.|+..+.+.|++..|.++...|...+...+..|+...+.+|.+.
T Consensus       142 n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  142 NLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            666666666666666666666666665555556665555555443

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 [].

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=96.84  E-value=0.051  Score=46.48  Aligned_cols=93  Identities=11%  Similarity=0.007  Sum_probs=68.7

Q ss_pred             HHHHHHHHhcCCHHHHHHHHhhcC--C-CChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCC
Q 006388          314 NALVTFYGKCGNIEDSHRLFNEMN--V-RDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAG  390 (647)
Q Consensus       314 ~~li~~~~~~g~~~~A~~~~~~~~--~-~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g  390 (647)
                      -++...+...|++++|.++|+.+.  . .+..-|-.|..++...|++++|+..|....... +-|...+-.+..++...|
T Consensus        39 Y~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~-~ddp~~~~~ag~c~L~lG  117 (157)
T PRK15363         39 YRYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAAAECYLACD  117 (157)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHHHcC
Confidence            345555667888888888888765  2 256677778888888888888888888888754 234457777777888888


Q ss_pred             cHHHHHHHHHHHHHhcC
Q 006388          391 LVEKGRHYFEIMVKEYG  407 (647)
Q Consensus       391 ~~~~a~~~~~~~~~~~~  407 (647)
                      +.+.|++.|+..+..-+
T Consensus       118 ~~~~A~~aF~~Ai~~~~  134 (157)
T PRK15363        118 NVCYAIKALKAVVRICG  134 (157)
T ss_pred             CHHHHHHHHHHHHHHhc
Confidence            88888888887776433

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=96.82  E-value=0.34  Score=47.76  Aligned_cols=87  Identities=13%  Similarity=0.006  Sum_probs=57.1

Q ss_pred             HHHHHcCChHHHHHHHHHHHHC---CCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcC-hHHHHHHHHHHHH
Q 006388          349 SGYAKFGKANETIDLFEKMLSH---GLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPI-HDHYTCMIDILSR  424 (647)
Q Consensus       349 ~~~~~~g~~~~A~~~~~~m~~~---g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~  424 (647)
                      .-..+.|++..|.+.|.+.+..   .+.|+...|.....+..+.|+.++|+.--+...   .+.|. ...|-.-..++.-
T Consensus       257 N~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al---~iD~syikall~ra~c~l~  333 (486)
T KOG0550|consen  257 NDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEAL---KIDSSYIKALLRRANCHLA  333 (486)
T ss_pred             hhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhh---hcCHHHHHHHHHHHHHHHH
Confidence            3456788888888888888763   345566667777777888888888887776654   33332 1222222334445


Q ss_pred             cCCHHHHHHHHHhC
Q 006388          425 AGRLEEAKSFINKM  438 (647)
Q Consensus       425 ~g~~~~A~~~~~~~  438 (647)
                      .+++++|.+-+++.
T Consensus       334 le~~e~AV~d~~~a  347 (486)
T KOG0550|consen  334 LEKWEEAVEDYEKA  347 (486)
T ss_pred             HHHHHHHHHHHHHH
Confidence            67788888888766

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.81  E-value=0.0045  Score=62.00  Aligned_cols=62  Identities=10%  Similarity=0.042  Sum_probs=30.9

Q ss_pred             hHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCh----hhHHHHHHHHHhcCChhHHHHHHHHHhcc
Q 006388          412 HDHYTCMIDILSRAGRLEEAKSFINKM-PFPPDA----IGWATLLSSCRIHGNVEIGKWAAESLLEL  473 (647)
Q Consensus       412 ~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  473 (647)
                      ...++.+..+|.+.|++++|+..|++. .+.|+.    .+|..+..+|...|+.++|+..+++++++
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            344555555555555555555555443 334442    23555555555555555555555555554

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=96.79  E-value=0.63  Score=45.89  Aligned_cols=279  Identities=12%  Similarity=0.123  Sum_probs=147.2

Q ss_pred             ccHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCCcchHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCchhhHHHHHHH
Q 006388            7 VSWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGSPLVDM   86 (647)
Q Consensus         7 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~   86 (647)
                      ++|..+...-...|+..-|..+++.       .|+..--   +..+...|+.+.|   +.+.++.| .+| -+|..|+.+
T Consensus         1 IS~a~IA~~A~~~GR~~LA~~LL~~-------Ep~~~~q---VplLL~m~e~e~A---L~kAi~Sg-D~D-Li~~vLl~L   65 (319)
T PF04840_consen    1 ISYAEIARKAYEEGRPKLATKLLEL-------EPRASKQ---VPLLLKMGEDELA---LNKAIESG-DTD-LIYLVLLHL   65 (319)
T ss_pred             CCHHHHHHHHHHcChHHHHHHHHHc-------CCChHHH---HHHHhcCCchHHH---HHHHHHcC-Ccc-HHHHHHHHH
Confidence            4678888888889999999887763       3333221   2223345555544   45566666 333 234444443


Q ss_pred             HHhcCChHHHHHHhccCCCCCchHHHHHHHHHHhcCChHHHHHHhhcCCCCCeehHHHHHHHHHhCCChhHHHHHHHHHH
Q 006388           87 YAKLGLIYDAKRGFDELPEKNIVMYNTMITGLLRRGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLEREAIDLFREMR  166 (647)
Q Consensus        87 ~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  166 (647)
                      --+. ...+-.+++...+    .. ..+...|++..+.+.-..+|.+-.+........+-.++.. .+.++-...+....
T Consensus        66 ~~~l-~~s~f~~il~~~p----~a-~~l~~~~~r~~~~~~L~~~y~q~d~~~~~a~~~l~~~~~~-~~~~~~~~~L~~a~  138 (319)
T PF04840_consen   66 KRKL-SLSQFFKILNQNP----VA-SNLYKKYCREQDRELLKDFYYQEDRFQELANLHLQEALSQ-KDVEEKISFLKQAQ  138 (319)
T ss_pred             HHhC-CHHHHHHHHHhCc----ch-HHHHHHHHHhccHHHHHHHHHhcchHHHHHHHHHHHHHhC-CChHHHHHHHHHHH
Confidence            3222 2222222222221    11 3345556666666665555544322211122222222222 22222222222221


Q ss_pred             HC-CCCCChhhHHHHHHHHhcCCChHHHHHHHHHHHH----cCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChh
Q 006388          167 LE-GLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIR----NDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWKNVV  241 (647)
Q Consensus       167 ~~-g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~----~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~  241 (647)
                      +. +-..+......++         ++-.++++.-.+    .+......+.+..+.-+...|+...|.++-.+..-++-.
T Consensus       139 ~~y~~~k~~~f~~~~~---------e~q~~Ll~~Q~~Le~~~~~~f~~~Sl~~Ti~~li~~~~~k~A~kl~k~Fkv~dkr  209 (319)
T PF04840_consen  139 KLYSKSKNDAFEAKLI---------EEQIKLLEYQKELEEKYNTNFVGLSLNDTIRKLIEMGQEKQAEKLKKEFKVPDKR  209 (319)
T ss_pred             HHHHhcchhHHHHHHH---------HHHHHHHHHHHHHHHHhccchhcCCHHHHHHHHHHCCCHHHHHHHHHHcCCcHHH
Confidence            10 0000111111111         111222222111    111111223344466667788889999998888888888


Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHH
Q 006388          242 SWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYG  321 (647)
Q Consensus       242 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  321 (647)
                      -|-..|.+++..++|++-.++...      +-.+..|-.++.+|...|...+|..+...+          .+..-+.+|.
T Consensus       210 fw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~~~~~~~eA~~yI~k~----------~~~~rv~~y~  273 (319)
T PF04840_consen  210 FWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACLKYGNKKEASKYIPKI----------PDEERVEMYL  273 (319)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHHHCCCHHHHHHHHHhC----------ChHHHHHHHH
Confidence            999999999999999887765432      223477888888888888888888776552          1245678888


Q ss_pred             hcCCHHHHHHH
Q 006388          322 KCGNIEDSHRL  332 (647)
Q Consensus       322 ~~g~~~~A~~~  332 (647)
                      ++|++.+|.+.
T Consensus       274 ~~~~~~~A~~~  284 (319)
T PF04840_consen  274 KCGDYKEAAQE  284 (319)
T ss_pred             HCCCHHHHHHH
Confidence            88888888655

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

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.77  E-value=0.0098  Score=56.74  Aligned_cols=92  Identities=14%  Similarity=0.136  Sum_probs=50.6

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHhC-CCCCC----hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCC---chhHHHHHH
Q 006388          415 YTCMIDILSRAGRLEEAKSFINKM-PFPPD----AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYN---PASYVLLSS  486 (647)
Q Consensus       415 ~~~li~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~---~~~~~~l~~  486 (647)
                      |..-+..+.+.|++++|...|+.. ...|+    ...+--+...+...|+++.|...|+++++..|++   +.++..++.
T Consensus       146 Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~  225 (263)
T PRK10803        146 YNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGV  225 (263)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHH
Confidence            444444444455666666555554 12222    2344445556666666666666666666655543   344445566


Q ss_pred             hhhhCCChhHHHHHHHHHHh
Q 006388          487 IYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       487 ~~~~~g~~~~a~~~~~~m~~  506 (647)
                      +|...|++++|.++++++.+
T Consensus       226 ~~~~~g~~~~A~~~~~~vi~  245 (263)
T PRK10803        226 IMQDKGDTAKAKAVYQQVIK  245 (263)
T ss_pred             HHHHcCCHHHHHHHHHHHHH
Confidence            66666666666666666554

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=96.76  E-value=0.082  Score=50.04  Aligned_cols=173  Identities=10%  Similarity=0.047  Sum_probs=100.5

Q ss_pred             HHHHHHhcCCHHHHHHHHhhcCCCC---hhh---HHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc-
Q 006388          316 LVTFYGKCGNIEDSHRLFNEMNVRD---EVS---WTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSR-  388 (647)
Q Consensus       316 li~~~~~~g~~~~A~~~~~~~~~~d---~~~---~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~-  388 (647)
                      ....+.+.|++++|.+.|+.+....   ...   .-.++.+|.+.+++++|...|++..+.-..-...-+...+.+.+. 
T Consensus        38 ~A~~~~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~~g~~~~  117 (243)
T PRK10866         38 TAQQKLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYMRGLTNM  117 (243)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHHHHHhhh
Confidence            4444566788888888888776321   111   233456677788888888888888775322222233333333321 


Q ss_pred             -C---------------Cc---HHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCChhhHHH
Q 006388          389 -A---------------GL---VEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKMPFPPDAIGWAT  449 (647)
Q Consensus       389 -~---------------g~---~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~  449 (647)
                       .               .+   ..+|...|+.+++.+   |+             ..-..+|...+..+...--. ---.
T Consensus       118 ~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~y---P~-------------S~ya~~A~~rl~~l~~~la~-~e~~  180 (243)
T PRK10866        118 ALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRGY---PN-------------SQYTTDATKRLVFLKDRLAK-YELS  180 (243)
T ss_pred             hcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHHC---cC-------------ChhHHHHHHHHHHHHHHHHH-HHHH
Confidence             0               01   223444555554432   22             22233343333322100000 0013


Q ss_pred             HHHHHHhcCChhHHHHHHHHHhccCCCC---chhHHHHHHhhhhCCChhHHHHHHHHHH
Q 006388          450 LLSSCRIHGNVEIGKWAAESLLELDPYN---PASYVLLSSIYASKGKWDHVSQLRRTMR  505 (647)
Q Consensus       450 ll~~~~~~~~~~~a~~~~~~~~~~~p~~---~~~~~~l~~~~~~~g~~~~a~~~~~~m~  505 (647)
                      ...-|.+.|.+..|..-++.+++.-|+.   +.+...+..+|...|..++|.++...+.
T Consensus       181 ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        181 VAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             HHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence            3445778889999999999999888764   4667788899999999999999887654

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=96.75  E-value=0.64  Score=45.53  Aligned_cols=285  Identities=15%  Similarity=0.089  Sum_probs=167.7

Q ss_pred             hHHHHHHHHHh--CCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHh--cCCChHHHHHHHHHHHHcCCCCchhH--HHH
Q 006388          141 SWTTMITGLMQ--NGLEREAIDLFREMRLEGLAMDQFTFGSVLTACG--GLLALEEGKQIHAFIIRNDHKDNVFV--GSA  214 (647)
Q Consensus       141 ~~~~li~~~~~--~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~--~~~~~~~a~~~~~~~~~~g~~~~~~~--~~~  214 (647)
                      .|.+|-.++.-  .|+-..|.++-.+-.+. +.-|...+..++.+-.  -.|+.+.|++-|+.|...   |....  ...
T Consensus        84 gyqALStGliAagAGda~lARkmt~~~~~l-lssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~d---PEtRllGLRg  159 (531)
T COG3898          84 GYQALSTGLIAAGAGDASLARKMTARASKL-LSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDD---PETRLLGLRG  159 (531)
T ss_pred             HHHHHhhhhhhhccCchHHHHHHHHHHHhh-hhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcC---hHHHHHhHHH
Confidence            45555555544  34555555544443221 3445555666665543  347777777777777642   22221  122


Q ss_pred             HHHHHHhcCCHHHHHHHHhcCCCC---ChhHHHHHHHHHHhcCChhHHHHHHHHHHHCC-CCCCHH--HHHHHHHHHhc-
Q 006388          215 LVDMYCKCKSIKYAESVFRTMAWK---NVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNG-IEPDDF--TLGSVISSCAN-  287 (647)
Q Consensus       215 li~~y~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~--t~~~ll~a~~~-  287 (647)
                      |.-.--+.|..+.|+..-++.-..   -...|.+.+...+..|+|+.|+++.+.-+... +.++..  .-..++.+-+. 
T Consensus       160 LyleAqr~GareaAr~yAe~Aa~~Ap~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s  239 (531)
T COG3898         160 LYLEAQRLGAREAARHYAERAAEKAPQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMS  239 (531)
T ss_pred             HHHHHHhcccHHHHHHHHHHHHhhccCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHH
Confidence            222334567777777666654432   24578888899999999999999988766543 445543  22233333221 


Q ss_pred             --cCChHHHHHHHHHHHHhCCCcchh-HHHHHHHHHHhcCCHHHHHHHHhhcCC--CChhhHHHHHHHHHHcCChHHHHH
Q 006388          288 --LASLEEGTQFHGRSLVTGLISFIT-VSNALVTFYGKCGNIEDSHRLFNEMNV--RDEVSWTALVSGYAKFGKANETID  362 (647)
Q Consensus       288 --~~~~~~a~~~~~~~~~~~~~~~~~-~~~~li~~~~~~g~~~~A~~~~~~~~~--~d~~~~~~li~~~~~~g~~~~A~~  362 (647)
                        ..+...|+..-.+..+.  .||.. ....-...+.+.|++.++-.+++.+-+  |.+..|.    .|....-.+.++.
T Consensus       240 ~ldadp~~Ar~~A~~a~KL--~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~ePHP~ia~----lY~~ar~gdta~d  313 (531)
T COG3898         240 LLDADPASARDDALEANKL--APDLVPAAVVAARALFRDGNLRKGSKILETAWKAEPHPDIAL----LYVRARSGDTALD  313 (531)
T ss_pred             HhcCChHHHHHHHHHHhhc--CCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCCChHHHH----HHHHhcCCCcHHH
Confidence              13445555555554443  33322 122345678888999999888888763  3333332    3333333344555


Q ss_pred             HHHHHHH-CCCCCCHH-HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHH-cCCHHHHHHHHHhC
Q 006388          363 LFEKMLS-HGLKPDEV-TLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSR-AGRLEEAKSFINKM  438 (647)
Q Consensus       363 ~~~~m~~-~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~-~g~~~~A~~~~~~~  438 (647)
                      -+++... ..++||.. ....+..+-...|++..|..--+...   ...|....|..|.+.-.- .|+-.++...+.+.
T Consensus       314 RlkRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~---r~~pres~~lLlAdIeeAetGDqg~vR~wlAqa  389 (531)
T COG3898         314 RLKRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAA---REAPRESAYLLLADIEEAETGDQGKVRQWLAQA  389 (531)
T ss_pred             HHHHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHh---hhCchhhHHHHHHHHHhhccCchHHHHHHHHHH
Confidence            5555443 23566654 66667777778888888877666554   457888888888877654 48888888888776

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=96.74  E-value=0.018  Score=47.36  Aligned_cols=87  Identities=21%  Similarity=0.078  Sum_probs=57.7

Q ss_pred             HHHHHHcCCHHHHHHHHHhC---CCCCC--hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCC---CchhHHHHHHhhhh
Q 006388          419 IDILSRAGRLEEAKSFINKM---PFPPD--AIGWATLLSSCRIHGNVEIGKWAAESLLELDPY---NPASYVLLSSIYAS  490 (647)
Q Consensus       419 i~~~~~~g~~~~A~~~~~~~---~~~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~---~~~~~~~l~~~~~~  490 (647)
                      ..++-..|+.++|..++++.   +....  ...+-.+.++++..|++++|..++++..+..|+   +......++.++..
T Consensus         8 A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L~~   87 (120)
T PF12688_consen    8 AWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALALYN   87 (120)
T ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHH
Confidence            34455667777777777655   22211  345556777777788888888888877777676   55556666777778


Q ss_pred             CCChhHHHHHHHHHH
Q 006388          491 KGKWDHVSQLRRTMR  505 (647)
Q Consensus       491 ~g~~~~a~~~~~~m~  505 (647)
                      .|+.++|.+.+-...
T Consensus        88 ~gr~~eAl~~~l~~l  102 (120)
T PF12688_consen   88 LGRPKEALEWLLEAL  102 (120)
T ss_pred             CCCHHHHHHHHHHHH
Confidence            888888877765443

>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=96.73  E-value=0.018  Score=51.64  Aligned_cols=97  Identities=18%  Similarity=0.287  Sum_probs=73.5

Q ss_pred             HHHHhhc--CCCChhhHHHHHHHHHH-----cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcC-------------
Q 006388          330 HRLFNEM--NVRDEVSWTALVSGYAK-----FGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRA-------------  389 (647)
Q Consensus       330 ~~~~~~~--~~~d~~~~~~li~~~~~-----~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~-------------  389 (647)
                      ...|+..  ..+|..+|..++..|.+     .|..+=....++.|.+-|+.-|..+|+.||+.+=+.             
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            3445554  35677777777777765     467777788888999999999999999999887542             


Q ss_pred             ---CcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCC
Q 006388          390 ---GLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGR  427 (647)
Q Consensus       390 ---g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~  427 (647)
                         .+-+-|+++++.|.. +|+.||.+++..+++.+++.+.
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               124568888999965 5999999999999998877764

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=96.71  E-value=0.0033  Score=41.31  Aligned_cols=42  Identities=24%  Similarity=0.427  Sum_probs=37.3

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHH
Q 006388          445 IGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSS  486 (647)
Q Consensus       445 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~  486 (647)
                      .+|..+..++...|++++|++.++++++.+|+|+..+..|+.
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~~~~a~~~La~   43 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRALALDPDDPEAWRALAQ   43 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCHHHHHHhhh
Confidence            467888999999999999999999999999999988887764

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.68  E-value=0.094  Score=48.21  Aligned_cols=167  Identities=11%  Similarity=0.007  Sum_probs=112.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhcCCCC--C--------hhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHH
Q 006388          212 GSALVDMYCKCKSIKYAESVFRTMAWK--N--------VVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSV  281 (647)
Q Consensus       212 ~~~li~~y~~~g~~~~A~~~~~~~~~~--~--------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~l  281 (647)
                      ++.|.+.|.-..-+++-...|+.-..+  .        ....+.++..+.-.|.+.-.+.++.+..+...+.+....+.+
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            344555554444444444444433221  1        234466777777788888889999999887656677888888


Q ss_pred             HHHHhccCChHHHHHHHHHHHHhCCCcc-----hhHHHHHHHHHHhcCCHHHHHHHHhhcCCC---ChhhHHHHHHHHHH
Q 006388          282 ISSCANLASLEEGTQFHGRSLVTGLISF-----ITVSNALVTFYGKCGNIEDSHRLFNEMNVR---DEVSWTALVSGYAK  353 (647)
Q Consensus       282 l~a~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---d~~~~~~li~~~~~  353 (647)
                      .+...+.|+.+.|...++...+..-..+     ..+.......|.-..++.+|...|.+++..   |++.-|.-.-+..-
T Consensus       219 gr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllY  298 (366)
T KOG2796|consen  219 GRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSAFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLY  298 (366)
T ss_pred             HHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhhhheecccchHHHHHHHhhccccCCCchhhhchHHHHHHH
Confidence            8888999999999999998776533333     333334444566678888888888888744   55566665555666


Q ss_pred             cCChHHHHHHHHHHHHCCCCCCHHHHH
Q 006388          354 FGKANETIDLFEKMLSHGLKPDEVTLI  380 (647)
Q Consensus       354 ~g~~~~A~~~~~~m~~~g~~p~~~t~~  380 (647)
                      .|+..+|++..+.|++.  .|...+-.
T Consensus       299 lg~l~DAiK~~e~~~~~--~P~~~l~e  323 (366)
T KOG2796|consen  299 LGKLKDALKQLEAMVQQ--DPRHYLHE  323 (366)
T ss_pred             HHHHHHHHHHHHHHhcc--CCccchhh
Confidence            78899999999999875  45544433

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.68  E-value=0.035  Score=53.01  Aligned_cols=101  Identities=12%  Similarity=0.117  Sum_probs=68.9

Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcC-hHHHHHHHHHHHHcCCHHHHHHHHHhC----CCCC-ChhhHHHHH
Q 006388          378 TLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPI-HDHYTCMIDILSRAGRLEEAKSFINKM----PFPP-DAIGWATLL  451 (647)
Q Consensus       378 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~----~~~p-~~~~~~~ll  451 (647)
                      .|...+....+.|++++|...|+.+++.+.-.+- ...+-.+...|...|++++|...|+.+    |..| ....+..++
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            4444444445567777888777777765432221 245566778888888888888888776    2222 244555667


Q ss_pred             HHHHhcCChhHHHHHHHHHhccCCCCc
Q 006388          452 SSCRIHGNVEIGKWAAESLLELDPYNP  478 (647)
Q Consensus       452 ~~~~~~~~~~~a~~~~~~~~~~~p~~~  478 (647)
                      ..+...|+.+.|...++++++..|++.
T Consensus       225 ~~~~~~g~~~~A~~~~~~vi~~yP~s~  251 (263)
T PRK10803        225 VIMQDKGDTAKAKAVYQQVIKKYPGTD  251 (263)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCcCCH
Confidence            777788999999999999999988754

>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=96.67  E-value=0.014  Score=50.50  Aligned_cols=68  Identities=25%  Similarity=0.385  Sum_probs=54.4

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHH-----hCCCccCC
Q 006388          446 GWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMR-----EKGVRKDP  513 (647)
Q Consensus       446 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~-----~~g~~~~~  513 (647)
                      ....++..+...|+++.|...+++++..+|.+...|..++.+|...|+..+|.++++++.     +.|+.|.|
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~  136 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALDPYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSP  136 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----H
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCH
Confidence            456677778889999999999999999999999999999999999999999999998885     45776654

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.67  E-value=0.0063  Score=45.31  Aligned_cols=63  Identities=24%  Similarity=0.272  Sum_probs=50.8

Q ss_pred             HHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHH
Q 006388          420 DILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYV  482 (647)
Q Consensus       420 ~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~  482 (647)
                      ..|.+.+++++|.++++++ ...| ++..|......+...|++++|...++++++..|+++....
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p~~~~~~~   67 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELSPDDPDARA   67 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCCCcHHHHH
Confidence            4677888899999888887 4445 4777888888889999999999999999999997765543

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=96.59  E-value=0.067  Score=44.00  Aligned_cols=92  Identities=16%  Similarity=0.091  Sum_probs=54.1

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHCCCCCCH--HHHHHHHHHHhccCChHHHHHHHHHHHHhCCC--cchhHHHHHHHHHH
Q 006388          246 MLVGYGQNGCSEEAVKIFCNMQRNGIEPDD--FTLGSVISSCANLASLEEGTQFHGRSLVTGLI--SFITVSNALVTFYG  321 (647)
Q Consensus       246 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~li~~~~  321 (647)
                      +..++-..|+.++|+.+|++....|+..+.  ..+..+-+++...|++++|..+++......-.  .+..+...+...+.
T Consensus         7 ~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L~   86 (120)
T PF12688_consen    7 LAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALALY   86 (120)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHH
Confidence            445667778888888888888887765542  34455566667777777777777766654211  01122222333445


Q ss_pred             hcCCHHHHHHHHhhcC
Q 006388          322 KCGNIEDSHRLFNEMN  337 (647)
Q Consensus       322 ~~g~~~~A~~~~~~~~  337 (647)
                      ..|+.++|.+.+-...
T Consensus        87 ~~gr~~eAl~~~l~~l  102 (120)
T PF12688_consen   87 NLGRPKEALEWLLEAL  102 (120)
T ss_pred             HCCCHHHHHHHHHHHH
Confidence            5566666665554433

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.58  E-value=0.079  Score=48.69  Aligned_cols=135  Identities=10%  Similarity=0.024  Sum_probs=72.2

Q ss_pred             HHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCc-----hhHHHHHHH
Q 006388          143 TTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDN-----VFVGSALVD  217 (647)
Q Consensus       143 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~-----~~~~~~li~  217 (647)
                      +.++..+.-.|.+.-.+.++.+.++...+.+......+.+.-.+.|+.+.|...++.+.+..-..|     .-+......
T Consensus       181 y~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a~  260 (366)
T KOG2796|consen  181 YSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSAF  260 (366)
T ss_pred             HHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhhh
Confidence            444555555566666666666666655444555555555656666666666666665554322222     222223333


Q ss_pred             HHHhcCCHHHHHHHHhcCCCC---ChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHH
Q 006388          218 MYCKCKSIKYAESVFRTMAWK---NVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLG  279 (647)
Q Consensus       218 ~y~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~  279 (647)
                      .|.-.+++..|...|++++..   |++.-|.-.-+..-.|+..+|++..+.|...  .|...+-.
T Consensus       261 i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~--~P~~~l~e  323 (366)
T KOG2796|consen  261 LHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQ--DPRHYLHE  323 (366)
T ss_pred             heecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhcc--CCccchhh
Confidence            445555666666666665543   3444444444444456666666666666654  34443333

>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=96.55  E-value=0.027  Score=50.53  Aligned_cols=96  Identities=14%  Similarity=0.160  Sum_probs=65.4

Q ss_pred             HHHhcC--CCCChhHHHHHHHHHHhc-----CChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcc--------------
Q 006388          230 SVFRTM--AWKNVVSWTAMLVGYGQN-----GCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANL--------------  288 (647)
Q Consensus       230 ~~~~~~--~~~~~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~--------------  288 (647)
                      ..|+..  ..+|-.+|..++..|.+.     |..+=....+..|.+-|+.-|..+|+.||..+-+.              
T Consensus        35 ~~f~~~~~~~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~h  114 (228)
T PF06239_consen   35 ELFERAPGQAKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMH  114 (228)
T ss_pred             HHHHHHhhccccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhcc
Confidence            344444  345666666666666543     55666666777788888888888888888776432              


Q ss_pred             --CChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCC
Q 006388          289 --ASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGN  325 (647)
Q Consensus       289 --~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  325 (647)
                        .+-+.|..++++|...|+-||..++..|++.+++.+.
T Consensus       115 yp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  115 YPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             CcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence              2345677888888888888888888888877766543

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.51  E-value=0.34  Score=48.20  Aligned_cols=160  Identities=18%  Similarity=0.166  Sum_probs=97.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHhhcCCC---C----hhhHHHHHHHHHH---cCChHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 006388          315 ALVTFYGKCGNIEDSHRLFNEMNVR---D----EVSWTALVSGYAK---FGKANETIDLFEKMLSHGLKPDEVTLIGVLS  384 (647)
Q Consensus       315 ~li~~~~~~g~~~~A~~~~~~~~~~---d----~~~~~~li~~~~~---~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~  384 (647)
                      .++-.|-...+++...++.+.+...   +    ...--...-++-+   .|+.++|++++..+....-.++..||..+..
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            3444577777888888888877633   1    1111123344555   7888888888888666666777777777665


Q ss_pred             HHh---------cCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHH----HHHHHH---Hh-C---C-C--C
Q 006388          385 ACS---------RAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLE----EAKSFI---NK-M---P-F--P  441 (647)
Q Consensus       385 a~~---------~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~----~A~~~~---~~-~---~-~--~  441 (647)
                      .|-         .....++|...|.+.   +.+.|+..+--.++.++.-.|...    +..++-   .. .   + .  .
T Consensus       226 IyKD~~~~s~~~d~~~ldkAi~~Y~kg---Fe~~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~~~  302 (374)
T PF13281_consen  226 IYKDLFLESNFTDRESLDKAIEWYRKG---FEIEPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLEKM  302 (374)
T ss_pred             HHHHHHHHcCccchHHHHHHHHHHHHH---HcCCccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhcccccc
Confidence            542         122466777777644   355566543333334444444322    222222   11 1   1 2  2


Q ss_pred             CChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCC
Q 006388          442 PDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYN  477 (647)
Q Consensus       442 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~  477 (647)
                      .|-..+.+++.++.-.|+.+.|.++++++.++.|+.
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            344555788999999999999999999999988754

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.45  E-value=0.47  Score=49.33  Aligned_cols=53  Identities=11%  Similarity=-0.018  Sum_probs=29.8

Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCC
Q 006388          277 TLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNV  338 (647)
Q Consensus       277 t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  338 (647)
                      +...+..-+-+...+..|.++|..+-..         ..++++....+++++|..+-++.++
T Consensus       749 ~l~~~a~ylk~l~~~gLAaeIF~k~gD~---------ksiVqlHve~~~W~eAFalAe~hPe  801 (1081)
T KOG1538|consen  749 PLLLCATYLKKLDSPGLAAEIFLKMGDL---------KSLVQLHVETQRWDEAFALAEKHPE  801 (1081)
T ss_pred             HHHHHHHHHhhccccchHHHHHHHhccH---------HHHhhheeecccchHhHhhhhhCcc
Confidence            3333333344445555566666555332         2466666677777777777766663

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.33  E-value=0.042  Score=53.95  Aligned_cols=63  Identities=14%  Similarity=0.071  Sum_probs=57.3

Q ss_pred             hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHh
Q 006388          444 AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       444 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      ..++..|...+.+.+.+..|+...++.++++|+|..++..-+.+|...|+++.|+..|+++.+
T Consensus       257 ~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k  319 (397)
T KOG0543|consen  257 LACHLNLAACYLKLKEYKEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALK  319 (397)
T ss_pred             HHHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHH
Confidence            345677777888999999999999999999999999999999999999999999999999877

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=96.20  E-value=1.6  Score=43.82  Aligned_cols=70  Identities=16%  Similarity=0.231  Sum_probs=56.6

Q ss_pred             HHHHhCCCCC----ChhhHHHHHHH--HHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHH
Q 006388          433 SFINKMPFPP----DAIGWATLLSS--CRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRT  503 (647)
Q Consensus       433 ~~~~~~~~~p----~~~~~~~ll~~--~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  503 (647)
                      .++++.++.|    +...-|.|..|  +..+|++.++.-...-+.+..| ++.+|..++-......++++|..++..
T Consensus       445 ~fi~e~gl~~i~i~e~eian~LaDAEyLysqgey~kc~~ys~WL~~iaP-S~~~~RLlGl~l~e~k~Y~eA~~~l~~  520 (549)
T PF07079_consen  445 DFITEVGLTPITISEEEIANFLADAEYLYSQGEYHKCYLYSSWLTKIAP-SPQAYRLLGLCLMENKRYQEAWEYLQK  520 (549)
T ss_pred             HHHHhcCCCcccccHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCC-cHHHHHHHHHHHHHHhhHHHHHHHHHh
Confidence            4455555554    24455666665  4678999999999999999999 899999999999999999999999986

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=96.17  E-value=0.34  Score=39.65  Aligned_cols=140  Identities=16%  Similarity=0.139  Sum_probs=80.3

Q ss_pred             HHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHH
Q 006388          352 AKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEA  431 (647)
Q Consensus       352 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A  431 (647)
                      .-.|..++..++..+...+   .+..-++-++--....-+-+-..+.++.+-+-+.+.              .+|++...
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            3456777777777776653   233334444433333333344444455443322222              24444444


Q ss_pred             HHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHhCCCc
Q 006388          432 KSFINKMPFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREKGVR  510 (647)
Q Consensus       432 ~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~  510 (647)
                      ..-+-.++  .+......-+.+....|.-++-.+++..+.+.+..+|....-++++|.+.|+..++.+++.+.-++|++
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--KLSEYVDLALDILVKQGKKDQLDKIYNELKKNEEINPEFLVKIANAYKKLGNTREANELLKEACEKGLK  152 (161)
T ss_dssp             HHHHHHTT-----HHHHHHHHHHHHTT-HHHHHHHHHHH-----S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred             HHHHHHhc--chHHHHHHHHHHHHHhccHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence            44444443  234455666778888999999999998888766668899999999999999999999999999999985

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=96.11  E-value=2.2  Score=44.55  Aligned_cols=181  Identities=13%  Similarity=0.121  Sum_probs=123.3

Q ss_pred             cchhHHHHHHHHHHhcCCHHHHHHHHhhcCCC---ChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCC--CCHHHHHHH
Q 006388          308 SFITVSNALVTFYGKCGNIEDSHRLFNEMNVR---DEVSWTALVSGYAKFGKANETIDLFEKMLSHGLK--PDEVTLIGV  382 (647)
Q Consensus       308 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~--p~~~t~~~l  382 (647)
                      ++..+|+..++.-.+.|+.+.+.-+|++...|   =...|--.+.-....|+.+-|..++....+--++  |....+.+.
T Consensus       295 aql~nw~~yLdf~i~~g~~~~~~~l~ercli~cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~~~~i~L~~a~  374 (577)
T KOG1258|consen  295 AQLKNWRYYLDFEITLGDFSRVFILFERCLIPCALYDEFWIKYARWMESSGDVSLANNVLARACKIHVKKTPIIHLLEAR  374 (577)
T ss_pred             HHHHHHHHHhhhhhhcccHHHHHHHHHHHHhHHhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCCCCcHHHHHHHH
Confidence            35677888888888899999999999887755   2234544444444458888888777766654322  333333332


Q ss_pred             HHHHhcCCcHHHHHHHHHHHHHhcCCCcCh-HHHHHHHHHHHHcCCHHHHH---HHHHhC-CCCCChhhHHHHHHH----
Q 006388          383 LSACSRAGLVEKGRHYFEIMVKEYGIRPIH-DHYTCMIDILSRAGRLEEAK---SFINKM-PFPPDAIGWATLLSS----  453 (647)
Q Consensus       383 l~a~~~~g~~~~a~~~~~~~~~~~~~~p~~-~~~~~li~~~~~~g~~~~A~---~~~~~~-~~~p~~~~~~~ll~~----  453 (647)
                        -+-..|+++.|..+++.+..++   |+. ..-.--+....+.|..+.+.   +++... +.+.+..+...+.--    
T Consensus       375 --f~e~~~n~~~A~~~lq~i~~e~---pg~v~~~l~~~~~e~r~~~~~~~~~~~~l~s~~~~~~~~~~i~~~l~~~~~r~  449 (577)
T KOG1258|consen  375 --FEESNGNFDDAKVILQRIESEY---PGLVEVVLRKINWERRKGNLEDANYKNELYSSIYEGKENNGILEKLYVKFARL  449 (577)
T ss_pred             --HHHhhccHHHHHHHHHHHHhhC---CchhhhHHHHHhHHHHhcchhhhhHHHHHHHHhcccccCcchhHHHHHHHHHH
Confidence              3455789999999999998753   543 33344456677889998888   555444 223333333333322    


Q ss_pred             -HHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCC
Q 006388          454 -CRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGK  493 (647)
Q Consensus       454 -~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  493 (647)
                       +...++.+.|..++.++.+..|++...|..+++.....+.
T Consensus       450 ~~~i~~d~~~a~~~l~~~~~~~~~~k~~~~~~~~~~~~~~~  490 (577)
T KOG1258|consen  450 RYKIREDADLARIILLEANDILPDCKVLYLELIRFELIQPS  490 (577)
T ss_pred             HHHHhcCHHHHHHHHHHhhhcCCccHHHHHHHHHHHHhCCc
Confidence             3456889999999999999999999999999988877663

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.09  E-value=2.6  Score=45.29  Aligned_cols=100  Identities=13%  Similarity=0.093  Sum_probs=65.8

Q ss_pred             HHHHHhcCChHHHHHHhccCCCC-----CchHHHHHHHHHHhcCChHHHHHHhhcCCCCCeehHHHHHHHHHhCCChhHH
Q 006388           84 VDMYAKLGLIYDAKRGFDELPEK-----NIVMYNTMITGLLRRGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLEREA  158 (647)
Q Consensus        84 i~~~~~~g~~~~A~~~~~~~~~~-----~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  158 (647)
                      ++.+.+.+.+++|..+-+.....     -...+..+|..+.-.|++++|-...-.|...+..-|.--+.-+...++....
T Consensus       363 i~Wll~~k~yeeAl~~~k~~~~~~~~~~i~kv~~~yI~HLl~~~~y~~Aas~~p~m~gn~~~eWe~~V~~f~e~~~l~~I  442 (846)
T KOG2066|consen  363 IDWLLEKKKYEEALDAAKASIGNEERFVIKKVGKTYIDHLLFEGKYDEAASLCPKMLGNNAAEWELWVFKFAELDQLTDI  442 (846)
T ss_pred             HHHHHHhhHHHHHHHHHHhccCCccccchHHHHHHHHHHHHhcchHHHHHhhhHHHhcchHHHHHHHHHHhccccccchh
Confidence            45556677778887777665531     2346777888888888888888888888887777787777777777766544


Q ss_pred             HHHHHHHHHCCCCCChhhHHHHHHHHhc
Q 006388          159 IDLFREMRLEGLAMDQFTFGSVLTACGG  186 (647)
Q Consensus       159 ~~~~~~m~~~g~~pd~~t~~~ll~~~~~  186 (647)
                      ..+   +.......+...|-.+|..+..
T Consensus       443 a~~---lPt~~~rL~p~vYemvLve~L~  467 (846)
T KOG2066|consen  443 APY---LPTGPPRLKPLVYEMVLVEFLA  467 (846)
T ss_pred             hcc---CCCCCcccCchHHHHHHHHHHH
Confidence            333   2222222345556666666654

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=96.05  E-value=0.0087  Score=45.23  Aligned_cols=61  Identities=13%  Similarity=0.116  Sum_probs=38.8

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHhcc----CCC---CchhHHHHHHhhhhCCChhHHHHHHHHHH
Q 006388          445 IGWATLLSSCRIHGNVEIGKWAAESLLEL----DPY---NPASYVLLSSIYASKGKWDHVSQLRRTMR  505 (647)
Q Consensus       445 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~p~---~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  505 (647)
                      .+++.+...+...|++++|+..+++++++    +++   -..++..++.+|...|++++|.+++++..
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al   73 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKAL   73 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            35556666666666666666666665543    111   24567777888888888888888877654

...

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=95.99  E-value=0.14  Score=48.57  Aligned_cols=110  Identities=15%  Similarity=0.189  Sum_probs=65.9

Q ss_pred             ChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHh---cCCcHHHHHHHHHHHHHhcCCCcChHHHH
Q 006388          340 DEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACS---RAGLVEKGRHYFEIMVKEYGIRPIHDHYT  416 (647)
Q Consensus       340 d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~---~~g~~~~a~~~~~~~~~~~~~~p~~~~~~  416 (647)
                      |...|-.|...|...|+++.|...|.+..+. -.+|...+..+..++.   ......++..+|+++.+  .-+-++....
T Consensus       155 d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL-~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~--~D~~~iral~  231 (287)
T COG4235         155 DAEGWDLLGRAYMALGRASDALLAYRNALRL-AGDNPEILLGLAEALYYQAGQQMTAKARALLRQALA--LDPANIRALS  231 (287)
T ss_pred             CchhHHHHHHHHHHhcchhHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHh--cCCccHHHHH
Confidence            6777888888888888888888888877763 1223334444444432   23345567777777764  2233445555


Q ss_pred             HHHHHHHHcCCHHHHHHHHHhC-CCCCChhhHHHHHH
Q 006388          417 CMIDILSRAGRLEEAKSFINKM-PFPPDAIGWATLLS  452 (647)
Q Consensus       417 ~li~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~ll~  452 (647)
                      .|...+...|++.+|...|+.| ..-|....|..++.
T Consensus       232 lLA~~afe~g~~~~A~~~Wq~lL~~lp~~~~rr~~ie  268 (287)
T COG4235         232 LLAFAAFEQGDYAEAAAAWQMLLDLLPADDPRRSLIE  268 (287)
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHhcCCCCCchHHHHH
Confidence            6666666777777777777766 33333344544443

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=95.95  E-value=0.55  Score=43.19  Aligned_cols=49  Identities=14%  Similarity=0.132  Sum_probs=36.7

Q ss_pred             HHHHHHhcCChhHHHHHHHHHhccCCCCc---hhHHHHHHhhhhCCChhHHH
Q 006388          450 LLSSCRIHGNVEIGKWAAESLLELDPYNP---ASYVLLSSIYASKGKWDHVS  498 (647)
Q Consensus       450 ll~~~~~~~~~~~a~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~a~  498 (647)
                      +..-|.+.|.+..|..-++.+++.-|+.+   .+...++.+|.+.|..+.+.
T Consensus       147 ia~~Y~~~~~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a~  198 (203)
T PF13525_consen  147 IARFYYKRGKYKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAAD  198 (203)
T ss_dssp             HHHHHHCTT-HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             HHHHHHHcccHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHHH
Confidence            34457788999999999999999988754   45677888899999888443

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=95.93  E-value=0.061  Score=52.53  Aligned_cols=255  Identities=16%  Similarity=0.093  Sum_probs=143.2

Q ss_pred             HHHhCCChhHHHHHHHHHHHCCCCCChh----hHHHHHHHHhcCCChHHHHHHHHHHHH--c--CC-CCchhHHHHHHHH
Q 006388          148 GLMQNGLEREAIDLFREMRLEGLAMDQF----TFGSVLTACGGLLALEEGKQIHAFIIR--N--DH-KDNVFVGSALVDM  218 (647)
Q Consensus       148 ~~~~~g~~~~A~~~~~~m~~~g~~pd~~----t~~~ll~~~~~~~~~~~a~~~~~~~~~--~--g~-~~~~~~~~~li~~  218 (647)
                      -+++.|+....+.+|+..++.|.. |-.    .|..+-++|.-.+++++|.++|..=+-  .  |- .........|.+.
T Consensus        26 RLck~gdcraGv~ff~aA~qvGTe-Dl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdklGEAKssgNLGNt  104 (639)
T KOG1130|consen   26 RLCKMGDCRAGVDFFKAALQVGTE-DLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKLGEAKSSGNLGNT  104 (639)
T ss_pred             HHHhccchhhhHHHHHHHHHhcch-HHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchhccccccccccch
Confidence            367777777778888777776643 333    344455556666777777777654221  1  10 0011111223334


Q ss_pred             HHhcCCHHHHHHHHhcCC-------CC--ChhHHHHHHHHHHhcCC--------------------hhHHHHHHHHHH--
Q 006388          219 YCKCKSIKYAESVFRTMA-------WK--NVVSWTAMLVGYGQNGC--------------------SEEAVKIFCNMQ--  267 (647)
Q Consensus       219 y~~~g~~~~A~~~~~~~~-------~~--~~~~~~~li~~~~~~g~--------------------~~~A~~~~~~m~--  267 (647)
                      +--.|.+++|.-.-.+-.       .+  ...++-.+...|...|+                    ++.|.+.|.+=.  
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            444556666544322211       11  12234445555555443                    233444443221  


Q ss_pred             --HCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHh----CC-CcchhHHHHHHHHHHhcCCHHHHHHHHhhcC--
Q 006388          268 --RNGIEP-DDFTLGSVISSCANLASLEEGTQFHGRSLVT----GL-ISFITVSNALVTFYGKCGNIEDSHRLFNEMN--  337 (647)
Q Consensus       268 --~~g~~p-~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~--  337 (647)
                        +.|-.. --..|..+-+.|.-.|+++.|...|+.-+..    |- ......+..|.+++.-.|+++.|.+.++...  
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              111110 1134555556666678899998887754432    21 1234556678888888899999988887532  


Q ss_pred             -----CC--ChhhHHHHHHHHHHcCChHHHHHHHHHHHH----CC-CCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHH
Q 006388          338 -----VR--DEVSWTALVSGYAKFGKANETIDLFEKMLS----HG-LKPDEVTLIGVLSACSRAGLVEKGRHYFEIMV  403 (647)
Q Consensus       338 -----~~--d~~~~~~li~~~~~~g~~~~A~~~~~~m~~----~g-~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~  403 (647)
                           .+  ...+.-+|...|.-..++++|+.++.+-+.    .+ ..-....+.+|..++...|..++|..+.+...
T Consensus       265 Aielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl  342 (639)
T KOG1130|consen  265 AIELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHL  342 (639)
T ss_pred             HHHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence                 33  234556677888888888899888776432    11 12234577788888888888888887765443

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=95.91  E-value=0.063  Score=43.59  Aligned_cols=90  Identities=19%  Similarity=0.169  Sum_probs=74.0

Q ss_pred             HHHHHcCCHHHHHHHHHhC-CCC-CChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCC----chhHHHHHHhhhhCCC
Q 006388          420 DILSRAGRLEEAKSFINKM-PFP-PDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYN----PASYVLLSSIYASKGK  493 (647)
Q Consensus       420 ~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~----~~~~~~l~~~~~~~g~  493 (647)
                      -+++..|+++.|++.|.+. .+- ..+..||.-..+++-+|+.++|..-+++++++..+.    -.+|+.-+.+|...|+
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            3577889999999999877 333 357889999999999999999999999999875432    2458888899999999


Q ss_pred             hhHHHHHHHHHHhCCC
Q 006388          494 WDHVSQLRRTMREKGV  509 (647)
Q Consensus       494 ~~~a~~~~~~m~~~g~  509 (647)
                      -+.|..-|+...+.|-
T Consensus       131 dd~AR~DFe~AA~LGS  146 (175)
T KOG4555|consen  131 DDAARADFEAAAQLGS  146 (175)
T ss_pred             hHHHHHhHHHHHHhCC
Confidence            9999999998887665

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=95.85  E-value=0.013  Score=44.35  Aligned_cols=59  Identities=22%  Similarity=0.215  Sum_probs=32.5

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHhC-------C-CCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHhc
Q 006388          414 HYTCMIDILSRAGRLEEAKSFINKM-------P-FPPD-AIGWATLLSSCRIHGNVEIGKWAAESLLE  472 (647)
Q Consensus       414 ~~~~li~~~~~~g~~~~A~~~~~~~-------~-~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  472 (647)
                      +|+.+...|.+.|++++|++.+++.       + ..|+ ..++..+...+...|++++|+..++++++
T Consensus         7 ~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    7 AYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            4455555555555555555555443       1 1122 44566666666677777777777666554

...

>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=95.85  E-value=0.12  Score=42.87  Aligned_cols=49  Identities=14%  Similarity=0.305  Sum_probs=29.7

Q ss_pred             CCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHH
Q 006388          372 LKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMID  420 (647)
Q Consensus       372 ~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~  420 (647)
                      ..|+..+..+++.+|+..|++..|.++.+...+.|+++-+...|..|+.
T Consensus        48 l~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~   96 (126)
T PF12921_consen   48 LYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLE   96 (126)
T ss_pred             CCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            4566666666666666666666666666666666665555555555554

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=95.62  E-value=1.9  Score=39.99  Aligned_cols=194  Identities=22%  Similarity=0.200  Sum_probs=114.1

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhhcC-----CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHH-
Q 006388          311 TVSNALVTFYGKCGNIEDSHRLFNEMN-----VRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLS-  384 (647)
Q Consensus       311 ~~~~~li~~~~~~g~~~~A~~~~~~~~-----~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~-  384 (647)
                      .........+...+.+..+...+....     ......+......+...+++..+...+.........+. ........ 
T Consensus        60 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~  138 (291)
T COG0457          60 GLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDPD-LAEALLALG  138 (291)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCcc-hHHHHHHHH
Confidence            444455555666666666665555543     22334455555556666666677777776665432321 11112222 


Q ss_pred             HHhcCCcHHHHHHHHHHHHHhcCC--CcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC--hhhHHHHHHHHHhcCC
Q 006388          385 ACSRAGLVEKGRHYFEIMVKEYGI--RPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPPD--AIGWATLLSSCRIHGN  459 (647)
Q Consensus       385 a~~~~g~~~~a~~~~~~~~~~~~~--~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~--~~~~~~ll~~~~~~~~  459 (647)
                      ++...|+++.+...++..... ..  ......+......+...++.++|...+.+. ...|+  ...+..+...+...++
T Consensus       139 ~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  217 (291)
T COG0457         139 ALYELGDYEEALELYEKALEL-DPELNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLGLLYLKLGK  217 (291)
T ss_pred             HHHHcCCHHHHHHHHHHHHhc-CCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhCcccchHHHHHhhHHHHHccc
Confidence            566677777777777766431 11  122333444444456677777777777766 22233  5566677777777777


Q ss_pred             hhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHh
Q 006388          460 VEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       460 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      .+.+...+.......|.....+..+...+...|.++++...+.+...
T Consensus       218 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  264 (291)
T COG0457         218 YEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALE  264 (291)
T ss_pred             HHHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHH
Confidence            78888888887777776555666666666666667777777776654

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=95.57  E-value=0.59  Score=42.98  Aligned_cols=142  Identities=20%  Similarity=0.193  Sum_probs=75.0

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHCCCC-CC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHH
Q 006388          346 ALVSGYAKFGKANETIDLFEKMLSHGLK-PD-EVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILS  423 (647)
Q Consensus       346 ~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~  423 (647)
                      .....+.+.|++.+|...|+++...-.. |- ......+..++.+.|+++.|...++..++.++-.|... +...+.+.+
T Consensus        10 ~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~-~A~Y~~g~~   88 (203)
T PF13525_consen   10 QKALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKAD-YALYMLGLS   88 (203)
T ss_dssp             HHHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHH-HHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchh-hHHHHHHHH
Confidence            3445566777788888888777764211 11 12444556677777777777777777777665555431 111111111


Q ss_pred             HcCCHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchh-----------------HHHHHH
Q 006388          424 RAGRLEEAKSFINKMPFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPAS-----------------YVLLSS  486 (647)
Q Consensus       424 ~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~-----------------~~~l~~  486 (647)
                      .-......   +                ......+....|...++.+++..|+++-.                 -..++.
T Consensus        89 ~~~~~~~~---~----------------~~~~D~~~~~~A~~~~~~li~~yP~S~y~~~A~~~l~~l~~~la~~e~~ia~  149 (203)
T PF13525_consen   89 YYKQIPGI---L----------------RSDRDQTSTRKAIEEFEELIKRYPNSEYAEEAKKRLAELRNRLAEHELYIAR  149 (203)
T ss_dssp             HHHHHHHH---H-----------------TT---HHHHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhCccc---h----------------hcccChHHHHHHHHHHHHHHHHCcCchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            10000000   0                00112223455666666666666654322                 235678


Q ss_pred             hhhhCCChhHHHHHHHHHHhC
Q 006388          487 IYASKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       487 ~~~~~g~~~~a~~~~~~m~~~  507 (647)
                      .|.+.|++..|..-++.+.+.
T Consensus       150 ~Y~~~~~y~aA~~r~~~v~~~  170 (203)
T PF13525_consen  150 FYYKRGKYKAAIIRFQYVIEN  170 (203)
T ss_dssp             HHHCTT-HHHHHHHHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHHH
Confidence            899999999999999998874

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=95.54  E-value=3  Score=41.83  Aligned_cols=77  Identities=12%  Similarity=0.099  Sum_probs=54.0

Q ss_pred             CcccHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCCcchHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCchhhHHHHH
Q 006388            5 DGVSWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGSPLV   84 (647)
Q Consensus         5 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li   84 (647)
                      |+.+|-.||.-|...|.+++..+.+++|..--  |-=...|..-+++-....++.....+|.+.++..+.  ...|...+
T Consensus        41 nI~S~fqLiq~~~tq~s~~~~re~yeq~~~pf--p~~~~aw~ly~s~ELA~~df~svE~lf~rCL~k~l~--ldLW~lYl  116 (660)
T COG5107          41 NILSYFQLIQYLETQESMDAEREMYEQLSSPF--PIMEHAWRLYMSGELARKDFRSVESLFGRCLKKSLN--LDLWMLYL  116 (660)
T ss_pred             hHHHHHHHHHHHhhhhhHHHHHHHHHHhcCCC--ccccHHHHHHhcchhhhhhHHHHHHHHHHHHhhhcc--HhHHHHHH
Confidence            56678888888888888888888888887432  334456777777666777888888888887766543  44444444


Q ss_pred             H
Q 006388           85 D   85 (647)
Q Consensus        85 ~   85 (647)
                      +
T Consensus       117 ~  117 (660)
T COG5107         117 E  117 (660)
T ss_pred             H
Confidence            3

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=95.53  E-value=0.21  Score=49.26  Aligned_cols=138  Identities=15%  Similarity=0.075  Sum_probs=99.0

Q ss_pred             HHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCC
Q 006388          348 VSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGR  427 (647)
Q Consensus       348 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~  427 (647)
                      ...|.+.|++..|...|++....            |. +.+.-+.++......         .-...+..|.-.|.+.+.
T Consensus       215 Gn~~fK~gk~~~A~~~Yerav~~------------l~-~~~~~~~ee~~~~~~---------~k~~~~lNlA~c~lKl~~  272 (397)
T KOG0543|consen  215 GNVLFKEGKFKLAKKRYERAVSF------------LE-YRRSFDEEEQKKAEA---------LKLACHLNLAACYLKLKE  272 (397)
T ss_pred             hhHHHhhchHHHHHHHHHHHHHH------------hh-ccccCCHHHHHHHHH---------HHHHHhhHHHHHHHhhhh
Confidence            45677888888888888876542            11 111112222222211         122356677888999999


Q ss_pred             HHHHHHHHHhC-CCC-CChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHH-HHHHHHH
Q 006388          428 LEEAKSFINKM-PFP-PDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHV-SQLRRTM  504 (647)
Q Consensus       428 ~~~A~~~~~~~-~~~-p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a-~~~~~~m  504 (647)
                      +.+|++..++. ..+ +|+-..-.-..+|...|+++.|+..|+++++++|.|..+-..|+..-.+..++.+. .++|..|
T Consensus       273 ~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~P~Nka~~~el~~l~~k~~~~~~kekk~y~~m  352 (397)
T KOG0543|consen  273 YKEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALKLEPSNKAARAELIKLKQKIREYEEKEKKMYANM  352 (397)
T ss_pred             HHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999988876 333 45777777888999999999999999999999999998888888887777666554 7888888


Q ss_pred             HhC
Q 006388          505 REK  507 (647)
Q Consensus       505 ~~~  507 (647)
                      ..+
T Consensus       353 F~k  355 (397)
T KOG0543|consen  353 FAK  355 (397)
T ss_pred             hhc
Confidence            753

>PRK11906 transcriptional regulator; Provisional

Probab=95.49  E-value=1.2  Score=45.21  Aligned_cols=158  Identities=9%  Similarity=0.068  Sum_probs=100.8

Q ss_pred             hhH--HHHHHHHHHcC-----ChHHHHHHHHHHHH-CCCCCCHH-HHHHHHHHHh---------cCCcHHHHHHHHHHHH
Q 006388          342 VSW--TALVSGYAKFG-----KANETIDLFEKMLS-HGLKPDEV-TLIGVLSACS---------RAGLVEKGRHYFEIMV  403 (647)
Q Consensus       342 ~~~--~~li~~~~~~g-----~~~~A~~~~~~m~~-~g~~p~~~-t~~~ll~a~~---------~~g~~~~a~~~~~~~~  403 (647)
                      ..|  ...+.+.....     ..+.|+.+|.+... +...|+.. .|..+..++.         ......+|.+.-+..+
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            566  66666654422     34678888888872 23567654 3333332221         1234455666666555


Q ss_pred             HhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchh-
Q 006388          404 KEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPPD-AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPAS-  480 (647)
Q Consensus       404 ~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~-  480 (647)
                      +  --+-|......+..++.-.|+++.|..+|++. ...|| +.+|......+.-.|+.++|.+.++++++++|....+ 
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            3  22335667777777778888899999999888 56676 6677777777788899999999999999999874333 


Q ss_pred             -HHHHHHhhhhCCChhHHHHHHH
Q 006388          481 -YVLLSSIYASKGKWDHVSQLRR  502 (647)
Q Consensus       481 -~~~l~~~~~~~g~~~~a~~~~~  502 (647)
                       .-..++.|...+ +++|.+++-
T Consensus       410 ~~~~~~~~~~~~~-~~~~~~~~~  431 (458)
T PRK11906        410 VIKECVDMYVPNP-LKNNIKLYY  431 (458)
T ss_pred             HHHHHHHHHcCCc-hhhhHHHHh
Confidence             334444566554 455665554

>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=95.48  E-value=0.12  Score=42.98  Aligned_cols=50  Identities=16%  Similarity=0.298  Sum_probs=32.1

Q ss_pred             CCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC----CCCCChhhHHHHHHHHHh
Q 006388          407 GIRPIHDHYTCMIDILSRAGRLEEAKSFINKM----PFPPDAIGWATLLSSCRI  456 (647)
Q Consensus       407 ~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~----~~~p~~~~~~~ll~~~~~  456 (647)
                      ...|+.....+++.+|+..|++..|.++++..    +++-+..+|..|+.-+..
T Consensus        47 pl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~v  100 (126)
T PF12921_consen   47 PLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAYV  100 (126)
T ss_pred             CCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence            45566777777777777777777777766554    444446667666665443

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=95.31  E-value=0.12  Score=52.08  Aligned_cols=58  Identities=12%  Similarity=0.079  Sum_probs=33.2

Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcCh----HHHHHHHHHHHHcCCHHHHHHHHHhC
Q 006388          378 TLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIH----DHYTCMIDILSRAGRLEEAKSFINKM  438 (647)
Q Consensus       378 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~----~~~~~li~~~~~~g~~~~A~~~~~~~  438 (647)
                      .+..+..+|...|++++|...|+..++   +.|+.    ..|..+..+|...|++++|++.++++
T Consensus        77 a~~NLG~AL~~lGryeEAIa~f~rALe---L~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrA  138 (453)
T PLN03098         77 DAVNLGLSLFSKGRVKDALAQFETALE---LNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTA  138 (453)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHh---hCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            555556666666666666666665543   23442    23555666666666666666666554

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=95.27  E-value=2.8  Score=47.32  Aligned_cols=157  Identities=18%  Similarity=0.232  Sum_probs=89.0

Q ss_pred             CCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHH
Q 006388          223 KSIKYAESVFRTMAWKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSL  302 (647)
Q Consensus       223 g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~  302 (647)
                      +++++|..-+.++.   ...|+-.+..--+.|.+.+|+.++        +|+...+..+..+|+.            .+.
T Consensus       894 ~ry~~AL~hLs~~~---~~~~~e~~n~I~kh~Ly~~aL~ly--------~~~~e~~k~i~~~ya~------------hL~  950 (1265)
T KOG1920|consen  894 KRYEDALSHLSECG---ETYFPECKNYIKKHGLYDEALALY--------KPDSEKQKVIYEAYAD------------HLR  950 (1265)
T ss_pred             HHHHHHHHHHHHcC---ccccHHHHHHHHhcccchhhhhee--------ccCHHHHHHHHHHHHH------------HHH
Confidence            45566665555554   223444444445566666666664        6777777766666542            111


Q ss_pred             HhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHH--HH
Q 006388          303 VTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVT--LI  380 (647)
Q Consensus       303 ~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t--~~  380 (647)
                      +..      .++-..-+|.++|+.++|++.                  |...|++.+|+.+..+|..   .-|...  -.
T Consensus       951 ~~~------~~~~Aal~Ye~~GklekAl~a------------------~~~~~dWr~~l~~a~ql~~---~~de~~~~a~ 1003 (1265)
T KOG1920|consen  951 EEL------MSDEAALMYERCGKLEKALKA------------------YKECGDWREALSLAAQLSE---GKDELVILAE 1003 (1265)
T ss_pred             Hhc------cccHHHHHHHHhccHHHHHHH------------------HHHhccHHHHHHHHHhhcC---CHHHHHHHHH
Confidence            111      122234467778888887554                  4456778888777776642   112221  24


Q ss_pred             HHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC
Q 006388          381 GVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM  438 (647)
Q Consensus       381 ~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~  438 (647)
                      .|..-+...++.-+|-++..+...    .|     .--+..|+++-.+++|..+....
T Consensus      1004 ~L~s~L~e~~kh~eAa~il~e~~s----d~-----~~av~ll~ka~~~~eAlrva~~~ 1052 (1265)
T KOG1920|consen 1004 ELVSRLVEQRKHYEAAKILLEYLS----DP-----EEAVALLCKAKEWEEALRVASKA 1052 (1265)
T ss_pred             HHHHHHHHcccchhHHHHHHHHhc----CH-----HHHHHHHhhHhHHHHHHHHHHhc
Confidence            455666677777777666654432    22     23445666777777777776655

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.19  E-value=5.5  Score=42.75  Aligned_cols=333  Identities=11%  Similarity=0.071  Sum_probs=195.7

Q ss_pred             HCCCCCCCcchHHHH-----HHHHhCCCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHHhcCC---hHHHHHHhccCCC
Q 006388           34 KDGLGNLSRITFSTM-----LIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGSPLVDMYAKLGL---IYDAKRGFDELPE  105 (647)
Q Consensus        34 ~~g~~~~~~~~~~~l-----l~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~---~~~A~~~~~~~~~  105 (647)
                      +-|+ +.+..-|..|     +.-+...+.+..|.++-..+...-.. ...++.....-+.+..+   -+.+..+=+++..
T Consensus       425 ~~gI-plT~~qy~~l~~~~vi~Rl~~r~~Y~vaIQva~~l~~p~~~-~~~Vl~~Wa~~kI~~~d~~d~~vld~I~~kls~  502 (829)
T KOG2280|consen  425 RIGI-PLTHEQYRHLSEEVVIDRLVDRHLYSVAIQVAKLLNLPESQ-GDRVLLEWARRKIKQSDKMDEEVLDKIDEKLSA  502 (829)
T ss_pred             ccCc-cccHHHHhhhchhhhhHHHHhcchhHHHHHHHHHhCCcccc-ccHHHHHHHHHHHhccCccchHHHHHHHHHhcc
Confidence            4566 6665555444     55556677888888887666321111 15677777777777632   2334444444444


Q ss_pred             --CCchHHHHHHHHHHhcCChHHHHHHhhcCCCC--------CeehHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChh
Q 006388          106 --KNIVMYNTMITGLLRRGLVEESRRLFRGMKDK--------DSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQF  175 (647)
Q Consensus       106 --~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~--------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~  175 (647)
                        .+..+|....+-.-.+|+.+-|..+++.=+..        +..-+..-+.-..+.|+.+-...++..|.+.   .+..
T Consensus       503 ~~~~~iSy~~iA~~Ay~~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllhlk~~---~~~s  579 (829)
T KOG2280|consen  503 KLTPGISYAAIARRAYQEGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHLKNK---LNRS  579 (829)
T ss_pred             cCCCceeHHHHHHHHHhcCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHHHHH---HHHH
Confidence              56678999999999999999999999875432        3344566667777888888888877777653   1222


Q ss_pred             hHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHH-HhcC-----CCCChhHHHHHHHH
Q 006388          176 TFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESV-FRTM-----AWKNVVSWTAMLVG  249 (647)
Q Consensus       176 t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~-~~~~-----~~~~~~~~~~li~~  249 (647)
                      .|...+      .+...|..+|.+..+..-.      ..|-+.|-...+...+-.+ ++..     .+.-..........
T Consensus       580 ~l~~~l------~~~p~a~~lY~~~~r~~~~------~~l~d~y~q~dn~~~~a~~~~q~~~~~~~~~~r~~~lk~~a~~  647 (829)
T KOG2280|consen  580 SLFMTL------RNQPLALSLYRQFMRHQDR------ATLYDFYNQDDNHQALASFHLQASYAAETIEGRIPALKTAANA  647 (829)
T ss_pred             HHHHHH------HhchhhhHHHHHHHHhhch------hhhhhhhhcccchhhhhhhhhhhhhhhhhhcccchhHHHHHHH
Confidence            222222      2333445555554442100      1122223222222221111 1110     01111222223334


Q ss_pred             HHhcCCh----------hHHHHHHHHHHH-CCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHH
Q 006388          250 YGQNGCS----------EEAVKIFCNMQR-NGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVT  318 (647)
Q Consensus       250 ~~~~g~~----------~~A~~~~~~m~~-~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  318 (647)
                      +.+....          .+-+.+.+.+.. .|.....-|.+--+.-+...|+..+|.++-.+..    .||-..|-.-+.
T Consensus       648 ~a~sk~~s~e~ka~ed~~kLl~lQ~~Le~q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~  723 (829)
T KOG2280|consen  648 FAKSKEKSFEAKALEDQMKLLKLQRTLEDQFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLT  723 (829)
T ss_pred             HhhhhhhhhHHHHHHHHHHHHHHHHHHHHHhccccccCcHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHH
Confidence            4443331          111222222221 2334455566666777778888888888766543    567777777788


Q ss_pred             HHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHH
Q 006388          319 FYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHY  398 (647)
Q Consensus       319 ~~~~~g~~~~A~~~~~~~~~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~  398 (647)
                      +++..+++++-+++-+....  +.-|.-.+.+|.+.|+.++|.+++-+..     +..    -...+|.+.|++.+|.+.
T Consensus       724 aLa~~~kweeLekfAkskks--PIGy~PFVe~c~~~~n~~EA~KYiprv~-----~l~----ekv~ay~~~~~~~eAad~  792 (829)
T KOG2280|consen  724 ALADIKKWEELEKFAKSKKS--PIGYLPFVEACLKQGNKDEAKKYIPRVG-----GLQ----EKVKAYLRVGDVKEAADL  792 (829)
T ss_pred             HHHhhhhHHHHHHHHhccCC--CCCchhHHHHHHhcccHHHHhhhhhccC-----ChH----HHHHHHHHhccHHHHHHH
Confidence            88899999888777666544  7788888999999999999998887632     221    456678888888887654

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=95.19  E-value=0.38  Score=40.47  Aligned_cols=57  Identities=23%  Similarity=0.304  Sum_probs=37.6

Q ss_pred             HHHcCCHHHHHHHHHhC----CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCc
Q 006388          422 LSRAGRLEEAKSFINKM----PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNP  478 (647)
Q Consensus       422 ~~~~g~~~~A~~~~~~~----~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~  478 (647)
                      ..+.|++++|.+.|+.+    |..| ....-..|+.++.+.+++++|...+++.++++|.++
T Consensus        20 ~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp   81 (142)
T PF13512_consen   20 ALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHP   81 (142)
T ss_pred             HHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCC
Confidence            34567777777777666    2222 233445567777778888888888888888877654

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.00  E-value=2.6  Score=38.76  Aligned_cols=88  Identities=13%  Similarity=0.092  Sum_probs=53.0

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHhCC-------CCCCh-hhHHHHHHHHHhcCChhHHHHHHHHHhc----cCCCCchhH
Q 006388          414 HYTCMIDILSRAGRLEEAKSFINKMP-------FPPDA-IGWATLLSSCRIHGNVEIGKWAAESLLE----LDPYNPASY  481 (647)
Q Consensus       414 ~~~~li~~~~~~g~~~~A~~~~~~~~-------~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~----~~p~~~~~~  481 (647)
                      .|......|.+..+++||-..|.+-.       .-|+. ..+-+.+-.+....++..|++.++.--+    ..|++..+.
T Consensus       152 l~gk~sr~lVrl~kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~l  231 (308)
T KOG1585|consen  152 LYGKCSRVLVRLEKFTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSL  231 (308)
T ss_pred             HHHHhhhHhhhhHHhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHH
Confidence            34455566777777777776665542       11221 2234444455556678888888776443    245667777


Q ss_pred             HHHHHhhhhCCChhHHHHHHH
Q 006388          482 VLLSSIYASKGKWDHVSQLRR  502 (647)
Q Consensus       482 ~~l~~~~~~~g~~~~a~~~~~  502 (647)
                      ..|+.+| ..|+.+++.++..
T Consensus       232 enLL~ay-d~gD~E~~~kvl~  251 (308)
T KOG1585|consen  232 ENLLTAY-DEGDIEEIKKVLS  251 (308)
T ss_pred             HHHHHHh-ccCCHHHHHHHHc
Confidence            7777776 4577777666553

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.87  E-value=0.28  Score=45.95  Aligned_cols=57  Identities=16%  Similarity=0.154  Sum_probs=30.0

Q ss_pred             HHHHHHhcCChhHHHHHHHHHhccCCC---CchhHHHHHHhhhhCCChhHHHHHHHHHHh
Q 006388          450 LLSSCRIHGNVEIGKWAAESLLELDPY---NPASYVLLSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       450 ll~~~~~~~~~~~a~~~~~~~~~~~p~---~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      |+.++...|+++.|...|..+.+-.|.   -|..+.-|+.+..+.|+-++|..+++++.+
T Consensus       184 LGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~~d~A~atl~qv~k  243 (262)
T COG1729         184 LGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGNTDEACATLQQVIK  243 (262)
T ss_pred             HHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            445555555555555555555544433   234455555555555555555555555544

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.82  E-value=6.4  Score=42.86  Aligned_cols=141  Identities=13%  Similarity=0.029  Sum_probs=91.1

Q ss_pred             HHHHcCCChhHHHHHHHHHHHCCCCCCCcchHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHHhcCCh
Q 006388           14 SGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGSPLVDMYAKLGLI   93 (647)
Q Consensus        14 ~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~   93 (647)
                      +-+-+.|++++|..-|-+-...-  .|     ..+++-+........-..+++.+.+.|+ .+...-+.|+.+|.+.++.
T Consensus       376 d~Ly~Kgdf~~A~~qYI~tI~~l--e~-----s~Vi~kfLdaq~IknLt~YLe~L~~~gl-a~~dhttlLLncYiKlkd~  447 (933)
T KOG2114|consen  376 DYLYGKGDFDEATDQYIETIGFL--EP-----SEVIKKFLDAQRIKNLTSYLEALHKKGL-ANSDHTTLLLNCYIKLKDV  447 (933)
T ss_pred             HHHHhcCCHHHHHHHHHHHcccC--Ch-----HHHHHHhcCHHHHHHHHHHHHHHHHccc-ccchhHHHHHHHHHHhcch
Confidence            33457899999998887765321  22     2355556666667777778888899996 4455567899999999999


Q ss_pred             HHHHHHhccCCCCCc-hHHHHHHHHHHhcCChHHHHHHhhcCCCCCeehHHHHHHHHHhCCChhHHHHHHHHHH
Q 006388           94 YDAKRGFDELPEKNI-VMYNTMITGLLRRGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLEREAIDLFREMR  166 (647)
Q Consensus        94 ~~A~~~~~~~~~~~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  166 (647)
                      +.-.+..+...+... +-....+..+-+.+-+++|..+-..... +.....   -.+-..+++++|++.+..|.
T Consensus       448 ~kL~efI~~~~~g~~~fd~e~al~Ilr~snyl~~a~~LA~k~~~-he~vl~---ille~~~ny~eAl~yi~slp  517 (933)
T KOG2114|consen  448 EKLTEFISKCDKGEWFFDVETALEILRKSNYLDEAELLATKFKK-HEWVLD---ILLEDLHNYEEALRYISSLP  517 (933)
T ss_pred             HHHHHHHhcCCCcceeeeHHHHHHHHHHhChHHHHHHHHHHhcc-CHHHHH---HHHHHhcCHHHHHHHHhcCC
Confidence            998888877763211 1244556666667777777666544433 222222   22334567777777777664

>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=94.73  E-value=0.096  Score=45.26  Aligned_cols=69  Identities=7%  Similarity=0.059  Sum_probs=48.0

Q ss_pred             HHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCCcchHHHHHHHHhCCCChHHHHHHHHHHH-----HhCCCCchhh
Q 006388            9 WNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHIL-----KFGFGSYVFV   79 (647)
Q Consensus         9 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~-----~~g~~~~~~~   79 (647)
                      ...++..+...|++++|+++.+.+....  |-|...|..++.++...|+...|.++|+.+.     +.|+.|+..+
T Consensus        65 ~~~l~~~~~~~~~~~~a~~~~~~~l~~d--P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~  138 (146)
T PF03704_consen   65 LERLAEALLEAGDYEEALRLLQRALALD--PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPET  138 (146)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHHS--TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHH
T ss_pred             HHHHHHHHHhccCHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHH
Confidence            4456666777888888888888888876  6788888888888888888888888887764     3477777654

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=94.71  E-value=5.3  Score=40.19  Aligned_cols=134  Identities=12%  Similarity=0.093  Sum_probs=92.6

Q ss_pred             hhhHHHHHHHHHHcCChHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHH
Q 006388          341 EVSWTALVSGYAKFGKANETIDLFEKMLSHG-LKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMI  419 (647)
Q Consensus       341 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li  419 (647)
                      ...|...+..-.+..-.+.|..+|-+..+.| +.++...+++++.-++ .|+...|..+|+.=...+  +.+..--+-.+
T Consensus       397 t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~f--~d~~~y~~kyl  473 (660)
T COG5107         397 TFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLKF--PDSTLYKEKYL  473 (660)
T ss_pred             hhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHhC--CCchHHHHHHH
Confidence            3456667777667777788888888888887 5666667777776554 467778888887665532  22223334556


Q ss_pred             HHHHHcCCHHHHHHHHHhC--CCCCC--hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCC
Q 006388          420 DILSRAGRLEEAKSFINKM--PFPPD--AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYN  477 (647)
Q Consensus       420 ~~~~~~g~~~~A~~~~~~~--~~~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~  477 (647)
                      .-+.+.++-+.|..+|+..  .+..+  ...|..++.--..-|+...+..+-+++.+.-|+.
T Consensus       474 ~fLi~inde~naraLFetsv~r~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~~pQe  535 (660)
T COG5107         474 LFLIRINDEENARALFETSVERLEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRELVPQE  535 (660)
T ss_pred             HHHHHhCcHHHHHHHHHHhHHHHHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHHcCcH
Confidence            6677888888888888855  12222  4577888887778888888888777888877753

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=94.71  E-value=0.42  Score=46.21  Aligned_cols=162  Identities=14%  Similarity=0.155  Sum_probs=92.0

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHH-CCCCCCH---HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCc----ChHH
Q 006388          343 SWTALVSGYAKFGKANETIDLFEKMLS-HGLKPDE---VTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRP----IHDH  414 (647)
Q Consensus       343 ~~~~li~~~~~~g~~~~A~~~~~~m~~-~g~~p~~---~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p----~~~~  414 (647)
                      +|..+..++-+.-++.+++.+-+.-.. .|..|..   ....++..|....+.++++++.|+...+-..-..    ...+
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            344445555555555555555444332 2333311   1223345566666677888888877654211111    2356


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHhC-------CCCCC-----hhhHHHHHHHHHhcCChhHHHHHHHHHhccC------CC
Q 006388          415 YTCMIDILSRAGRLEEAKSFINKM-------PFPPD-----AIGWATLLSSCRIHGNVEIGKWAAESLLELD------PY  476 (647)
Q Consensus       415 ~~~li~~~~~~g~~~~A~~~~~~~-------~~~p~-----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~------p~  476 (647)
                      |..|...|++..++++|.-+..++       +++.-     ..+.-.|.-+++..|..-.|.+..+++.++.      |-
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            777888888888888776555443       22111     1223344556777888877888777766532      22


Q ss_pred             CchhHHHHHHhhhhCCChhHHHHHHHHH
Q 006388          477 NPASYVLLSSIYASKGKWDHVSQLRRTM  504 (647)
Q Consensus       477 ~~~~~~~l~~~~~~~g~~~~a~~~~~~m  504 (647)
                      .......++++|...|+.|.|..-++..
T Consensus       245 ~arc~~~~aDIyR~~gd~e~af~rYe~A  272 (518)
T KOG1941|consen  245 QARCLLCFADIYRSRGDLERAFRRYEQA  272 (518)
T ss_pred             HHHHHHHHHHHHHhcccHhHHHHHHHHH
Confidence            3344557788888888887777665543

>PRK11906 transcriptional regulator; Provisional

Probab=94.70  E-value=0.47  Score=48.10  Aligned_cols=116  Identities=9%  Similarity=0.056  Sum_probs=87.9

Q ss_pred             cHHHHHHHHHHHHHhcCCCcC-hHHHHHHHHHHHH---------cCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcC
Q 006388          391 LVEKGRHYFEIMVKEYGIRPI-HDHYTCMIDILSR---------AGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHG  458 (647)
Q Consensus       391 ~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~---------~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~  458 (647)
                      ..+.|..+|.+......+.|+ ...|..+...+..         .....+|.++.++. ...| |+.....+..+....+
T Consensus       273 ~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAveld~~Da~a~~~~g~~~~~~~  352 (458)
T PRK11906        273 SIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDITTVDGKILAIMGLITGLSG  352 (458)
T ss_pred             HHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHhhc
Confidence            456788888888754466665 3455555444322         23445666766665 4444 5777777777778888


Q ss_pred             ChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHh
Q 006388          459 NVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       459 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      +++.|...++++..++|+.+.+|...+....-.|+.++|.+.+++..+
T Consensus       353 ~~~~a~~~f~rA~~L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alr  400 (458)
T PRK11906        353 QAKVSHILFEQAKIHSTDIASLYYYRALVHFHNEKIEEARICIDKSLQ  400 (458)
T ss_pred             chhhHHHHHHHHhhcCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            899999999999999999999999999999999999999999988554

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.63  E-value=0.36  Score=45.24  Aligned_cols=91  Identities=19%  Similarity=0.230  Sum_probs=50.4

Q ss_pred             CCcHHHHHHHHHHHHHhcCCCc-ChHHHHHHHHHHHHcCCHHHHHHHHHhC----CCCCC-hhhHHHHHHHHHhcCChhH
Q 006388          389 AGLVEKGRHYFEIMVKEYGIRP-IHDHYTCMIDILSRAGRLEEAKSFINKM----PFPPD-AIGWATLLSSCRIHGNVEI  462 (647)
Q Consensus       389 ~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~----~~~p~-~~~~~~ll~~~~~~~~~~~  462 (647)
                      .|++..|...|...++.|.-.+ ....+--|...+...|++++|..+|..+    |..|- +..+--|.......|+.++
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            4455666666655555432111 1233334666666666666666666555    22222 3455555566666677777


Q ss_pred             HHHHHHHHhccCCCCch
Q 006388          463 GKWAAESLLELDPYNPA  479 (647)
Q Consensus       463 a~~~~~~~~~~~p~~~~  479 (647)
                      |...++++.+..|..+.
T Consensus       234 A~atl~qv~k~YP~t~a  250 (262)
T COG1729         234 ACATLQQVIKRYPGTDA  250 (262)
T ss_pred             HHHHHHHHHHHCCCCHH
Confidence            77777777777665543

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=94.63  E-value=4.1  Score=41.74  Aligned_cols=15  Identities=20%  Similarity=0.178  Sum_probs=10.5

Q ss_pred             HHHHHHHHhccCCCC
Q 006388          463 GKWAAESLLELDPYN  477 (647)
Q Consensus       463 a~~~~~~~~~~~p~~  477 (647)
                      |.+++.++.+.+|.-
T Consensus       365 aveAi~RAvefNPHV  379 (539)
T PF04184_consen  365 AVEAIHRAVEFNPHV  379 (539)
T ss_pred             HHHHHHHHHHhCCCC
Confidence            556777887777753

The molecular function of this protein is uncertain.

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=94.62  E-value=3.6  Score=41.18  Aligned_cols=72  Identities=17%  Similarity=0.111  Sum_probs=46.6

Q ss_pred             HHHHHHHhcCCHHHHHHHHhcCCCC---C----hhHHHHHHHHHHh---cCChhHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 006388          214 ALVDMYCKCKSIKYAESVFRTMAWK---N----VVSWTAMLVGYGQ---NGCSEEAVKIFCNMQRNGIEPDDFTLGSVIS  283 (647)
Q Consensus       214 ~li~~y~~~g~~~~A~~~~~~~~~~---~----~~~~~~li~~~~~---~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~  283 (647)
                      .|+-.|-...+++...++.+.+...   +    ...--...-++.+   .|+.++|++++..+....-.++..||..+..
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            3444577777788888888777653   1    1111223344555   7888888888888666666777777777665


Q ss_pred             HH
Q 006388          284 SC  285 (647)
Q Consensus       284 a~  285 (647)
                      .+
T Consensus       226 Iy  227 (374)
T PF13281_consen  226 IY  227 (374)
T ss_pred             HH
Confidence            54

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=94.57  E-value=0.34  Score=45.17  Aligned_cols=100  Identities=16%  Similarity=0.183  Sum_probs=80.6

Q ss_pred             HHHHHHhhcC--CCChhhHHHHHHHHHHc-----CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCc---------
Q 006388          328 DSHRLFNEMN--VRDEVSWTALVSGYAKF-----GKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGL---------  391 (647)
Q Consensus       328 ~A~~~~~~~~--~~d~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~---------  391 (647)
                      ..++.|..+.  ++|-.+|-+++..|..+     +.++-....++.|.+.|+.-|..+|..||..+-+..-         
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            3456677776  77888999999888654     5667777788999999999999999999998755432         


Q ss_pred             -------HHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCH
Q 006388          392 -------VEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRL  428 (647)
Q Consensus       392 -------~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~  428 (647)
                             -+=++.+++.|.. +|+.||.++-..|++++++.|..
T Consensus       132 F~HYP~QQ~C~I~vLeqME~-hGVmPdkE~e~~lvn~FGr~~~p  174 (406)
T KOG3941|consen  132 FLHYPQQQNCAIKVLEQMEW-HGVMPDKEIEDILVNAFGRWNFP  174 (406)
T ss_pred             HhhCchhhhHHHHHHHHHHH-cCCCCchHHHHHHHHHhcccccc
Confidence                   2347889999964 69999999999999999998864

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=94.46  E-value=4  Score=37.66  Aligned_cols=196  Identities=22%  Similarity=0.203  Sum_probs=125.1

Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHHHHh-CCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCC---ChhhHHHHHH-HH
Q 006388          277 TLGSVISSCANLASLEEGTQFHGRSLVT-GLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVR---DEVSWTALVS-GY  351 (647)
Q Consensus       277 t~~~ll~a~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---d~~~~~~li~-~~  351 (647)
                      .+......+...+....+...+...... ........+..+...+...+.+..+.+.+......   +...+..... .+
T Consensus        61 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  140 (291)
T COG0457          61 LLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDPDLAEALLALGAL  140 (291)
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCcchHHHHHHHHHH
Confidence            3334444444444444444444444332 22333444455555566666677777777665532   1122333333 67


Q ss_pred             HHcCChHHHHHHHHHHHHCCCCC----CHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCc-ChHHHHHHHHHHHHcC
Q 006388          352 AKFGKANETIDLFEKMLSHGLKP----DEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRP-IHDHYTCMIDILSRAG  426 (647)
Q Consensus       352 ~~~g~~~~A~~~~~~m~~~g~~p----~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g  426 (647)
                      ...|+++.|...+.+...  ..|    ....+......+...++.+.+...+....+.  ... ....+..+...+...+
T Consensus       141 ~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~  216 (291)
T COG0457         141 YELGDYEEALELYEKALE--LDPELNELAEALLALGALLEALGRYEEALELLEKALKL--NPDDDAEALLNLGLLYLKLG  216 (291)
T ss_pred             HHcCCHHHHHHHHHHHHh--cCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhh--CcccchHHHHHhhHHHHHcc
Confidence            888899999999988855  333    2334444444466788999999999888753  233 3677888888888999


Q ss_pred             CHHHHHHHHHhC-CCCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCC
Q 006388          427 RLEEAKSFINKM-PFPPD-AIGWATLLSSCRIHGNVEIGKWAAESLLELDPY  476 (647)
Q Consensus       427 ~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~  476 (647)
                      .+++|...+... ...|+ ...+..+...+...+..+.+...+++..+..|.
T Consensus       217 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  268 (291)
T COG0457         217 KYEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALELDPD  268 (291)
T ss_pred             cHHHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHhCcc
Confidence            999999998877 34444 455666666666667799999999999988885

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=94.42  E-value=1.3  Score=37.40  Aligned_cols=18  Identities=17%  Similarity=0.071  Sum_probs=12.6

Q ss_pred             hhHHHHHHHHHhccCCCC
Q 006388          460 VEIGKWAAESLLELDPYN  477 (647)
Q Consensus       460 ~~~a~~~~~~~~~~~p~~  477 (647)
                      ...|...|+.+++.-|++
T Consensus       115 ~~~A~~~f~~lv~~yP~S  132 (142)
T PF13512_consen  115 ARQAFRDFEQLVRRYPNS  132 (142)
T ss_pred             HHHHHHHHHHHHHHCcCC
Confidence            456777777777777764

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=94.37  E-value=2.1  Score=40.70  Aligned_cols=120  Identities=10%  Similarity=0.063  Sum_probs=84.0

Q ss_pred             HHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCChhhHHH---HHHHHHhcCChh
Q 006388          385 ACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKMPFPPDAIGWAT---LLSSCRIHGNVE  461 (647)
Q Consensus       385 a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~---ll~~~~~~~~~~  461 (647)
                      .....|++.+|...|+.....  .+-+...--.|+..|...|+.++|..++..+|.+-...-|..   -+..+.+..+..
T Consensus       143 ~~~~~e~~~~a~~~~~~al~~--~~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~  220 (304)
T COG3118         143 ELIEAEDFGEAAPLLKQALQA--APENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATP  220 (304)
T ss_pred             hhhhccchhhHHHHHHHHHHh--CcccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCC
Confidence            455678888888888877653  222346667788889999999999999999875444333333   233333444333


Q ss_pred             HHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHhC
Q 006388          462 IGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       462 ~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  507 (647)
                      +... +++-...+|+|...-..|+..|...|+.++|.+.+-.+..+
T Consensus       221 ~~~~-l~~~~aadPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~  265 (304)
T COG3118         221 EIQD-LQRRLAADPDDVEAALALADQLHLVGRNEAALEHLLALLRR  265 (304)
T ss_pred             CHHH-HHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            3332 34445678999999999999999999999999988777654

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=94.32  E-value=1.2  Score=45.36  Aligned_cols=144  Identities=15%  Similarity=0.062  Sum_probs=80.2

Q ss_pred             HHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHH--HHcCCHH
Q 006388          352 AKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDIL--SRAGRLE  429 (647)
Q Consensus       352 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~--~~~g~~~  429 (647)
                      -+..+.+.-+++-++.++  +.||-.+--.++ +-.....+.++.+++++..+. +    ...+.   ...  ...|.  
T Consensus       179 WRERnp~aRIkaA~eALe--i~pdCAdAYILL-AEEeA~Ti~Eae~l~rqAvkA-g----E~~lg---~s~~~~~~g~--  245 (539)
T PF04184_consen  179 WRERNPQARIKAAKEALE--INPDCADAYILL-AEEEASTIVEAEELLRQAVKA-G----EASLG---KSQFLQHHGH--  245 (539)
T ss_pred             HhcCCHHHHHHHHHHHHH--hhhhhhHHHhhc-ccccccCHHHHHHHHHHHHHH-H----HHhhc---hhhhhhcccc--
Confidence            344555666666666665  456654433332 233445677888887776543 1    00000   000  00111  


Q ss_pred             HHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCC--CchhHHHHHHhhhhCCChhHHHHHHHHHHhC
Q 006388          430 EAKSFINKMPFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPY--NPASYVLLSSIYASKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       430 ~A~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~--~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  507 (647)
                       ..+.+.+-...|-..+-..|...+++.|+.++|++.++.+++..|.  +-.+...|+..+...+.+.++..++.+--+-
T Consensus       246 -~~e~~~~Rdt~~~~y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi  324 (539)
T PF04184_consen  246 -FWEAWHRRDTNVLVYAKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDI  324 (539)
T ss_pred             -hhhhhhccccchhhhhHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccc
Confidence             1111111112223344455666777888888888888888776664  4557778888888888888888888876543


Q ss_pred             CC
Q 006388          508 GV  509 (647)
Q Consensus       508 g~  509 (647)
                      ..
T Consensus       325 ~l  326 (539)
T PF04184_consen  325 SL  326 (539)
T ss_pred             cC
Confidence            33

The molecular function of this protein is uncertain.

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=94.31  E-value=0.066  Score=32.57  Aligned_cols=32  Identities=25%  Similarity=0.148  Sum_probs=25.1

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHhccCCC
Q 006388          445 IGWATLLSSCRIHGNVEIGKWAAESLLELDPY  476 (647)
Q Consensus       445 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~  476 (647)
                      .+|..+...+...|++++|+..++++++++|+
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            46777888888888888888888888888875

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 ....

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.25  E-value=1.2  Score=42.73  Aligned_cols=113  Identities=14%  Similarity=0.092  Sum_probs=49.6

Q ss_pred             cCCHHHHHHHHhhcC---CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHH----HHHHhcCCcHHHH
Q 006388          323 CGNIEDSHRLFNEMN---VRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGV----LSACSRAGLVEKG  395 (647)
Q Consensus       323 ~g~~~~A~~~~~~~~---~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~l----l~a~~~~g~~~~a  395 (647)
                      .|+..+|...++++.   ..|..+|+--=.+|...|+...-...+++..-. ..||...|..+    .-++...|-+++|
T Consensus       116 ~g~~h~a~~~wdklL~d~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~-wn~dlp~~sYv~GmyaFgL~E~g~y~dA  194 (491)
T KOG2610|consen  116 RGKHHEAAIEWDKLLDDYPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK-WNADLPCYSYVHGMYAFGLEECGIYDDA  194 (491)
T ss_pred             cccccHHHHHHHHHHHhCchhhhhhhhhhhHHHhccchhhhhhHHHHhccc-cCCCCcHHHHHHHHHHhhHHHhccchhH
Confidence            344444444444444   225555555555555555555555555554432 23333222111    1223345555555


Q ss_pred             HHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC
Q 006388          396 RHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM  438 (647)
Q Consensus       396 ~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~  438 (647)
                      .+.-++..+-  .+.|.-.-.++...+...|+..++.++..+-
T Consensus       195 Ek~A~ralqi--N~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~t  235 (491)
T KOG2610|consen  195 EKQADRALQI--NRFDCWASHAKAHVLEMNGRHKEGKEFMYKT  235 (491)
T ss_pred             HHHHHhhccC--CCcchHHHHHHHHHHHhcchhhhHHHHHHhc
Confidence            5544433321  1112233334444455555555555555444

>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=94.20  E-value=0.82  Score=47.35  Aligned_cols=135  Identities=16%  Similarity=0.208  Sum_probs=86.4

Q ss_pred             HHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHH
Q 006388          350 GYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLE  429 (647)
Q Consensus       350 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~  429 (647)
                      .....|+++++.++.+.-.-..--| ..-...++.-+.+.|..+.|+++-+.-..             -.++..+.|+++
T Consensus       270 ~av~~~d~~~v~~~i~~~~ll~~i~-~~~~~~i~~fL~~~G~~e~AL~~~~D~~~-------------rFeLAl~lg~L~  335 (443)
T PF04053_consen  270 TAVLRGDFEEVLRMIAASNLLPNIP-KDQGQSIARFLEKKGYPELALQFVTDPDH-------------RFELALQLGNLD  335 (443)
T ss_dssp             HHHHTT-HHH-----HHHHTGGG---HHHHHHHHHHHHHTT-HHHHHHHSS-HHH-------------HHHHHHHCT-HH
T ss_pred             HHHHcCChhhhhhhhhhhhhcccCC-hhHHHHHHHHHHHCCCHHHHHhhcCChHH-------------HhHHHHhcCCHH
Confidence            3455677877766664211100012 33466777777888888888877443222             245567899999


Q ss_pred             HHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHhCCC
Q 006388          430 EAKSFINKMPFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREKGV  509 (647)
Q Consensus       430 ~A~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~  509 (647)
                      .|.++.++..   +...|..|......+|+++.|++.+++.        .-+..|+-.|...|+.+.-.++-+....+|-
T Consensus       336 ~A~~~a~~~~---~~~~W~~Lg~~AL~~g~~~lAe~c~~k~--------~d~~~L~lLy~~~g~~~~L~kl~~~a~~~~~  404 (443)
T PF04053_consen  336 IALEIAKELD---DPEKWKQLGDEALRQGNIELAEECYQKA--------KDFSGLLLLYSSTGDREKLSKLAKIAEERGD  404 (443)
T ss_dssp             HHHHHCCCCS---THHHHHHHHHHHHHTTBHHHHHHHHHHC--------T-HHHHHHHHHHCT-HHHHHHHHHHHHHTT-
T ss_pred             HHHHHHHhcC---cHHHHHHHHHHHHHcCCHHHHHHHHHhh--------cCccccHHHHHHhCCHHHHHHHHHHHHHccC
Confidence            9998888764   7779999999999999999999999875        3566788888888988777777776666553

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.

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=94.17  E-value=3  Score=35.51  Aligned_cols=42  Identities=14%  Similarity=0.169  Sum_probs=19.5

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc
Q 006388          346 ALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSR  388 (647)
Q Consensus       346 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~  388 (647)
                      .++..+...+.......+++.+...+ ..+....+.++..|++
T Consensus        12 ~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~   53 (140)
T smart00299       12 EVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAK   53 (140)
T ss_pred             HHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHH
Confidence            34444444445555555555554443 2333344444444443

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=94.14  E-value=0.1  Score=31.57  Aligned_cols=33  Identities=36%  Similarity=0.318  Sum_probs=24.2

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHhccCCCC
Q 006388          445 IGWATLLSSCRIHGNVEIGKWAAESLLELDPYN  477 (647)
Q Consensus       445 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~  477 (647)
                      ..|..+...+...|++++|+..++++++++|+|
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            356677777788888888888888888887754

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 ....

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.11  E-value=0.84  Score=43.77  Aligned_cols=84  Identities=13%  Similarity=0.058  Sum_probs=35.7

Q ss_pred             CCChhHHHHHHHHHHHCCCCCCCcchHHHHHHHHhCCCChHHHHHHHHHHHHh---CCCCchhhHHHHHHHHHhcCChHH
Q 006388           19 HGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKF---GFGSYVFVGSPLVDMYAKLGLIYD   95 (647)
Q Consensus        19 ~g~~~~A~~~~~~m~~~g~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---g~~~~~~~~~~li~~~~~~g~~~~   95 (647)
                      +|++.+|-..++++++.-  |.|..++...=.+|...|+...-+..+++++..   ++|-..++...+.-++..+|-+++
T Consensus       116 ~g~~h~a~~~wdklL~d~--PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~wn~dlp~~sYv~GmyaFgL~E~g~y~d  193 (491)
T KOG2610|consen  116 RGKHHEAAIEWDKLLDDY--PTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIYDD  193 (491)
T ss_pred             cccccHHHHHHHHHHHhC--chhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccchh
Confidence            344444444444444433  444444444444555555544444444444432   111122222223333334455555


Q ss_pred             HHHHhccCC
Q 006388           96 AKRGFDELP  104 (647)
Q Consensus        96 A~~~~~~~~  104 (647)
                      |++.-++..
T Consensus       194 AEk~A~ral  202 (491)
T KOG2610|consen  194 AEKQADRAL  202 (491)
T ss_pred             HHHHHHhhc
Confidence            554444443

>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=94.08  E-value=1.4  Score=45.64  Aligned_cols=132  Identities=10%  Similarity=0.072  Sum_probs=79.8

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHhccCCCCCchHHHHHHHHHHhcCChHHHHHHhhcCCCCCeehHHHHHHHHHhCCChhH
Q 006388           78 FVGSPLVDMYAKLGLIYDAKRGFDELPEKNIVMYNTMITGLLRRGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLERE  157 (647)
Q Consensus        78 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  157 (647)
                      ...+.++..+-+.|.++.|.++-..-        ..-.....++|+++.|.++-++..  +...|..|.....+.|+++-
T Consensus       296 ~~~~~i~~fL~~~G~~e~AL~~~~D~--------~~rFeLAl~lg~L~~A~~~a~~~~--~~~~W~~Lg~~AL~~g~~~l  365 (443)
T PF04053_consen  296 DQGQSIARFLEKKGYPELALQFVTDP--------DHRFELALQLGNLDIALEIAKELD--DPEKWKQLGDEALRQGNIEL  365 (443)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHSS-H--------HHHHHHHHHCT-HHHHHHHCCCCS--THHHHHHHHHHHHHTTBHHH
T ss_pred             hHHHHHHHHHHHCCCHHHHHhhcCCh--------HHHhHHHHhcCCHHHHHHHHHhcC--cHHHHHHHHHHHHHcCCHHH
Confidence            34667777777777777777665432        233445566777777777776655  55578888888888888888


Q ss_pred             HHHHHHHHHHCCCCCChhhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhc
Q 006388          158 AIDLFREMRLEGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRT  234 (647)
Q Consensus       158 A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~  234 (647)
                      |.+.|.+...         |..++-.+.-.|+.+.-.++.......|-      +|.-..++.-.|++++..+++.+
T Consensus       366 Ae~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~~~~------~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  366 AEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEERGD------INIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             HHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHTT-------HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             HHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHHccC------HHHHHHHHHHcCCHHHHHHHHHH
Confidence            8888877543         45555556666776666666666655541      23344444455666666655544

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.

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=93.94  E-value=2.9  Score=35.60  Aligned_cols=45  Identities=4%  Similarity=0.024  Sum_probs=23.4

Q ss_pred             cHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCCcchHHHHHHHHhC
Q 006388            8 SWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSS   54 (647)
Q Consensus         8 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~~ll~~~~~   54 (647)
                      .-..++..+.+.+.+.....+++.+...+  +.+...++.++..+++
T Consensus         9 ~~~~vv~~~~~~~~~~~l~~yLe~~~~~~--~~~~~~~~~li~ly~~   53 (140)
T smart00299        9 DVSEVVELFEKRNLLEELIPYLESALKLN--SENPALQTKLIELYAK   53 (140)
T ss_pred             CHHHHHHHHHhCCcHHHHHHHHHHHHccC--ccchhHHHHHHHHHHH
Confidence            34455555555555555555555555544  3344445555555543

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=93.61  E-value=16  Score=41.63  Aligned_cols=92  Identities=17%  Similarity=0.247  Sum_probs=53.1

Q ss_pred             HHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHH--HHHHHHHHhccCChHHH
Q 006388          217 DMYCKCKSIKYAESVFRTMAWKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFT--LGSVISSCANLASLEEG  294 (647)
Q Consensus       217 ~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t--~~~ll~a~~~~~~~~~a  294 (647)
                      -+|.++|+.++|.+                  +|..+|+|.+|+.+-.+|...   -|...  -..|..-+...++.-+|
T Consensus       960 l~Ye~~GklekAl~------------------a~~~~~dWr~~l~~a~ql~~~---~de~~~~a~~L~s~L~e~~kh~eA 1018 (1265)
T KOG1920|consen  960 LMYERCGKLEKALK------------------AYKECGDWREALSLAAQLSEG---KDELVILAEELVSRLVEQRKHYEA 1018 (1265)
T ss_pred             HHHHHhccHHHHHH------------------HHHHhccHHHHHHHHHhhcCC---HHHHHHHHHHHHHHHHHcccchhH
Confidence            45667777777665                  455678888888887766421   12221  13455555566666666


Q ss_pred             HHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcC
Q 006388          295 TQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMN  337 (647)
Q Consensus       295 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~  337 (647)
                      -++..+....        ..-.+..|++...+++|.++-....
T Consensus      1019 a~il~e~~sd--------~~~av~ll~ka~~~~eAlrva~~~~ 1053 (1265)
T KOG1920|consen 1019 AKILLEYLSD--------PEEAVALLCKAKEWEEALRVASKAK 1053 (1265)
T ss_pred             HHHHHHHhcC--------HHHHHHHHhhHhHHHHHHHHHHhcc
Confidence            5555444322        1234555667777777776655544

>PRK11619 lytic murein transglycosylase; Provisional

Probab=93.46  E-value=14  Score=40.51  Aligned_cols=75  Identities=12%  Similarity=0.000  Sum_probs=39.9

Q ss_pred             HHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCC
Q 006388          214 ALVDMYCKCKSIKYAESVFRTMAWKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLAS  290 (647)
Q Consensus       214 ~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~  290 (647)
                      .-+..+.+.++++.... |..-+..+...-.....+....|+.++|......+-..| .........++..+.+.|.
T Consensus       104 ~~l~~La~~~~w~~~~~-~~~~~p~~~~~~c~~~~A~~~~G~~~~A~~~a~~lW~~g-~~~p~~cd~l~~~~~~~g~  178 (644)
T PRK11619        104 RFVNELARREDWRGLLA-FSPEKPKPVEARCNYYYAKWATGQQQEAWQGAKELWLTG-KSLPNACDKLFSVWQQSGK  178 (644)
T ss_pred             HHHHHHHHccCHHHHHH-hcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC-CCCChHHHHHHHHHHHcCC
Confidence            33444555666666666 332223355555556666777777766766666665544 2233344455555444433

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=93.26  E-value=0.87  Score=42.57  Aligned_cols=98  Identities=13%  Similarity=0.136  Sum_probs=75.0

Q ss_pred             HHHHHhcCC--CCChhHHHHHHHHHHhc-----CChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccC-----------
Q 006388          228 AESVFRTMA--WKNVVSWTAMLVGYGQN-----GCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLA-----------  289 (647)
Q Consensus       228 A~~~~~~~~--~~~~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~-----------  289 (647)
                      .++.|....  ++|-.+|-+++..|...     +..+=....++.|.+-|+.-|..+|..+|+.+-+..           
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            455666666  56788888888877654     566667777889999999999999999998875432           


Q ss_pred             -----ChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCC
Q 006388          290 -----SLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGN  325 (647)
Q Consensus       290 -----~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  325 (647)
                           +-+.+..++++|...|+-||-.+-..|++++++.+-
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                 335577888888888888888888888888877665

>PRK15331 chaperone protein SicA; Provisional

Probab=93.15  E-value=0.4  Score=41.37  Aligned_cols=84  Identities=7%  Similarity=-0.117  Sum_probs=49.2

Q ss_pred             HhCCCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHHhcCChHHHHHHhccCC---CCCchHHHHHHHHHHhcCChHHHH
Q 006388           52 SSSRRCVDLGRQIHGHILKFGFGSYVFVGSPLVDMYAKLGLIYDAKRGFDELP---EKNIVMYNTMITGLLRRGLVEESR  128 (647)
Q Consensus        52 ~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~  128 (647)
                      +-..|++++|..+|..+...+ +.+...+..|..++-..+++++|...|....   ..|....-.....|...|+.+.|+
T Consensus        47 ~y~~Gk~~eA~~~F~~L~~~d-~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~dp~p~f~agqC~l~l~~~~~A~  125 (165)
T PRK15331         47 FYNQGRLDEAETFFRFLCIYD-FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKNDYRPVFFTGQCQLLMRKAAKAR  125 (165)
T ss_pred             HHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCCccchHHHHHHHhCCHHHHH
Confidence            445666666666666666555 2344445566666666666666666654322   234444555556666666667776


Q ss_pred             HHhhcCCC
Q 006388          129 RLFRGMKD  136 (647)
Q Consensus       129 ~~~~~~~~  136 (647)
                      ..|+...+
T Consensus       126 ~~f~~a~~  133 (165)
T PRK15331        126 QCFELVNE  133 (165)
T ss_pred             HHHHHHHh
Confidence            66666554

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=93.15  E-value=0.72  Score=37.72  Aligned_cols=88  Identities=18%  Similarity=0.099  Sum_probs=43.8

Q ss_pred             HhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC----CCCCC--hhhHHHHHHHHHhcCC
Q 006388          386 CSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM----PFPPD--AIGWATLLSSCRIHGN  459 (647)
Q Consensus       386 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~----~~~p~--~~~~~~ll~~~~~~~~  459 (647)
                      .+..|+.+.|++.|.....  -.+-....||.-..+|--.|+.++|++-+++.    +-+..  -..|-.-...|+..|+
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            3445555555555555442  22234455555555555555555555555544    11100  1122233334566666


Q ss_pred             hhHHHHHHHHHhccCC
Q 006388          460 VEIGKWAAESLLELDP  475 (647)
Q Consensus       460 ~~~a~~~~~~~~~~~p  475 (647)
                      .+.|..-|+.+-+++.
T Consensus       131 dd~AR~DFe~AA~LGS  146 (175)
T KOG4555|consen  131 DDAARADFEAAAQLGS  146 (175)
T ss_pred             hHHHHHhHHHHHHhCC
Confidence            6666666666655553

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=93.04  E-value=7.8  Score=36.25  Aligned_cols=58  Identities=16%  Similarity=0.123  Sum_probs=39.9

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHhccCCCCc---hhHHHHHHhhhhCCChhHHHHHHHHHHh
Q 006388          449 TLLSSCRIHGNVEIGKWAAESLLELDPYNP---ASYVLLSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       449 ~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      .+..-|.+.|.+..|..-++.+++.-|+.+   ..+..|..+|.+.|..++|.+.-+-+..
T Consensus       172 ~IaryY~kr~~~~AA~nR~~~v~e~y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~  232 (254)
T COG4105         172 AIARYYLKRGAYVAAINRFEEVLENYPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGA  232 (254)
T ss_pred             HHHHHHHHhcChHHHHHHHHHHHhccccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHh
Confidence            344557777777778777888777766543   3455566778888888888777665544

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=92.91  E-value=8.1  Score=36.12  Aligned_cols=170  Identities=18%  Similarity=0.157  Sum_probs=107.5

Q ss_pred             cchhHHHHHHHHHHhcCCHHHHHHHHhhcCCC------ChhhHHHHHHHHHHcCChHHHHHHHHHHHHC-CCCCCH--HH
Q 006388          308 SFITVSNALVTFYGKCGNIEDSHRLFNEMNVR------DEVSWTALVSGYAKFGKANETIDLFEKMLSH-GLKPDE--VT  378 (647)
Q Consensus       308 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~------d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-g~~p~~--~t  378 (647)
                      |-...|+.-+. -.+.|++++|.+.|+.+...      ...+--.++-++-+.+++++|+..+++.... +-.||.  ..
T Consensus        33 p~~~LY~~g~~-~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~  111 (254)
T COG4105          33 PASELYNEGLT-ELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAY  111 (254)
T ss_pred             CHHHHHHHHHH-HHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHH
Confidence            44455554444 34679999999999998743      2334455667788899999999999998874 333443  24


Q ss_pred             HHHHHHHHhcCC----c---HHHHHHHHHHHHHhcCCC---cChHHH------------HHHHHHHHHcCCHHHHHHHHH
Q 006388          379 LIGVLSACSRAG----L---VEKGRHYFEIMVKEYGIR---PIHDHY------------TCMIDILSRAGRLEEAKSFIN  436 (647)
Q Consensus       379 ~~~ll~a~~~~g----~---~~~a~~~~~~~~~~~~~~---p~~~~~------------~~li~~~~~~g~~~~A~~~~~  436 (647)
                      |...+.-+....    +   ..+|..-|+..+.++.-.   ||...-            -.+..-|.+.|.+..|..-++
T Consensus       112 YlkgLs~~~~i~~~~rDq~~~~~A~~~f~~~i~ryPnS~Ya~dA~~~i~~~~d~LA~~Em~IaryY~kr~~~~AA~nR~~  191 (254)
T COG4105         112 YLKGLSYFFQIDDVTRDQSAARAAFAAFKELVQRYPNSRYAPDAKARIVKLNDALAGHEMAIARYYLKRGAYVAAINRFE  191 (254)
T ss_pred             HHHHHHHhccCCccccCHHHHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHH
Confidence            444444333222    2   345566666666654322   222211            123456788899888888877


Q ss_pred             hC-CCCCC----hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCc
Q 006388          437 KM-PFPPD----AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNP  478 (647)
Q Consensus       437 ~~-~~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~  478 (647)
                      +| ..-|+    ...+-.+..+|...|-.++|....+-+....|+++
T Consensus       192 ~v~e~y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~N~p~s~  238 (254)
T COG4105         192 EVLENYPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGANYPDSQ  238 (254)
T ss_pred             HHHhccccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCc
Confidence            77 11122    44566777889999999999988766655566543

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=92.84  E-value=0.2  Score=32.71  Aligned_cols=39  Identities=13%  Similarity=0.182  Sum_probs=29.3

Q ss_pred             cHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCCcchHHHH
Q 006388            8 SWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTM   48 (647)
Q Consensus         8 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~~l   48 (647)
                      +|..+..+|.+.|++++|.++|++..+..  |.|...+..+
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~~--P~~~~a~~~L   41 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRALALD--PDDPEAWRAL   41 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHC--cCCHHHHHHh
Confidence            57778888888888888888888888875  5555555544

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=92.80  E-value=7.5  Score=37.12  Aligned_cols=142  Identities=15%  Similarity=0.138  Sum_probs=82.5

Q ss_pred             HHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHH
Q 006388          350 GYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLE  429 (647)
Q Consensus       350 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~  429 (647)
                      .....|+..+|..+|+...... .-+...-..+..++...|+++.|..++..+-.+ .-.........-+..+.+.....
T Consensus       143 ~~~~~e~~~~a~~~~~~al~~~-~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~-~~~~~~~~l~a~i~ll~qaa~~~  220 (304)
T COG3118         143 ELIEAEDFGEAAPLLKQALQAA-PENSEAKLLLAECLLAAGDVEAAQAILAALPLQ-AQDKAAHGLQAQIELLEQAAATP  220 (304)
T ss_pred             hhhhccchhhHHHHHHHHHHhC-cccchHHHHHHHHHHHcCChHHHHHHHHhCccc-chhhHHHHHHHHHHHHHHHhcCC
Confidence            4556777777888777777642 222345556667777788888888777765322 00111111223445555555555


Q ss_pred             HHHHHHHhCCCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccC--CCCchhHHHHHHhhhhCCC
Q 006388          430 EAKSFINKMPFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELD--PYNPASYVLLSSIYASKGK  493 (647)
Q Consensus       430 ~A~~~~~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--p~~~~~~~~l~~~~~~~g~  493 (647)
                      +...+-.+..-.| |...-..|...+...|+.+.|...+=.+++.+  -.|...-..|+.++..-|.
T Consensus       221 ~~~~l~~~~aadPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~lle~f~~~g~  287 (304)
T COG3118         221 EIQDLQRRLAADPDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKTLLELFEAFGP  287 (304)
T ss_pred             CHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHHHHHHHHhcCC
Confidence            5555555553345 45555566667777788877777666655543  3355666666666666653

>PRK09687 putative lyase; Provisional

Probab=92.58  E-value=11  Score=36.66  Aligned_cols=74  Identities=7%  Similarity=0.057  Sum_probs=37.7

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHh
Q 006388          309 FITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACS  387 (647)
Q Consensus       309 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~  387 (647)
                      +..+-...+.++++.|+......+.+.+..++  ..-..+.++...|.. +|+..+.++.+.  .||...-...+.+|.
T Consensus       205 ~~~VR~~A~~aLg~~~~~~av~~Li~~L~~~~--~~~~a~~ALg~ig~~-~a~p~L~~l~~~--~~d~~v~~~a~~a~~  278 (280)
T PRK09687        205 NEEIRIEAIIGLALRKDKRVLSVLIKELKKGT--VGDLIIEAAGELGDK-TLLPVLDTLLYK--FDDNEIITKAIDKLK  278 (280)
T ss_pred             ChHHHHHHHHHHHccCChhHHHHHHHHHcCCc--hHHHHHHHHHhcCCH-hHHHHHHHHHhh--CCChhHHHHHHHHHh
Confidence            44444555555556555333333333333333  223456666666664 577777776653  345555544454443

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=92.43  E-value=13  Score=37.40  Aligned_cols=148  Identities=11%  Similarity=-0.016  Sum_probs=73.4

Q ss_pred             ChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCC---CHHHHHHHHHHHhcCCcHHHHHHHHHHHHHh-cCCCcChHHH
Q 006388          340 DEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKP---DEVTLIGVLSACSRAGLVEKGRHYFEIMVKE-YGIRPIHDHY  415 (647)
Q Consensus       340 d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p---~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~-~~~~p~~~~~  415 (647)
                      ...+|..+...+.+.|+++.|...+.++...+..+   .......-+...-..|+..+|...++...+. ..-..+....
T Consensus       145 ~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~~~~~~~~~~~~  224 (352)
T PF02259_consen  145 LAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKCRLSKNIDSISN  224 (352)
T ss_pred             HHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhccccccH
Confidence            44567777788888888888888888777643211   2223333344455567777777777766652 1101011111


Q ss_pred             HHHHHHHHHcCCHHHHHHH-HHhCCCCCChhhHHHHHHHHHhc------CChhHHHHHHHHHhccCCCCchhHHHHHHhh
Q 006388          416 TCMIDILSRAGRLEEAKSF-INKMPFPPDAIGWATLLSSCRIH------GNVEIGKWAAESLLELDPYNPASYVLLSSIY  488 (647)
Q Consensus       416 ~~li~~~~~~g~~~~A~~~-~~~~~~~p~~~~~~~ll~~~~~~------~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  488 (647)
                      ..+...+..  ..+..... ........-...+..+..-+...      ++.+.+...++.+.++.|.....+..++..+
T Consensus       225 ~~~~~~~~~--~~~~~~~~~~~~~~~~~~a~~~l~~a~w~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~k~~~~~a~~~  302 (352)
T PF02259_consen  225 AELKSGLLE--SLEVISSTNLDKESKELKAKAFLLLAKWLDELYSKLSSESSDEILKYYKEATKLDPSWEKAWHSWALFN  302 (352)
T ss_pred             HHHhhcccc--ccccccccchhhhhHHHHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHHHhChhHHHHHHHHHHHH
Confidence            111100000  00000000 00000000012233333333333      7788888999999999998777777766655


Q ss_pred             h
Q 006388          489 A  489 (647)
Q Consensus       489 ~  489 (647)
                      .
T Consensus       303 ~  303 (352)
T PF02259_consen  303 D  303 (352)
T ss_pred             H
Confidence            3

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=92.29  E-value=7.4  Score=41.00  Aligned_cols=159  Identities=16%  Similarity=0.103  Sum_probs=99.4

Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHCC-CCCCH-----HHHHHHHHHHh----cCCcHHHHHHHHHHHHHhcCCCcChHH
Q 006388          345 TALVSGYAKFGKANETIDLFEKMLSHG-LKPDE-----VTLIGVLSACS----RAGLVEKGRHYFEIMVKEYGIRPIHDH  414 (647)
Q Consensus       345 ~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~-----~t~~~ll~a~~----~~g~~~~a~~~~~~~~~~~~~~p~~~~  414 (647)
                      ..+++...-.|+-+.+++++.+-.+.+ +.-..     .+|..++..+.    .....+.+.++++.+.+.|   |+...
T Consensus       192 ~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~y---P~s~l  268 (468)
T PF10300_consen  192 LKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKRY---PNSAL  268 (468)
T ss_pred             HHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHhC---CCcHH
Confidence            334444455566666666666654422 11111     12333333222    2457788999999888653   55544


Q ss_pred             HH-HHHHHHHHcCCHHHHHHHHHhCCC------CCChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHH-HHHH
Q 006388          415 YT-CMIDILSRAGRLEEAKSFINKMPF------PPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYV-LLSS  486 (647)
Q Consensus       415 ~~-~li~~~~~~g~~~~A~~~~~~~~~------~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~-~l~~  486 (647)
                      |. --...+...|++++|.+.|+++-.      +-....+--+...+....++++|...+.++.+.+.-....|. ..+-
T Consensus       269 fl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s~WSka~Y~Y~~a~  348 (468)
T PF10300_consen  269 FLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKESKWSKAFYAYLAAA  348 (468)
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhccccHHHHHHHHHHH
Confidence            43 334566778999999999987521      112344555666778889999999999999887654444444 4455


Q ss_pred             hhhhCCCh-------hHHHHHHHHHHh
Q 006388          487 IYASKGKW-------DHVSQLRRTMRE  506 (647)
Q Consensus       487 ~~~~~g~~-------~~a~~~~~~m~~  506 (647)
                      .|...|+.       ++|.+++++...
T Consensus       349 c~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  349 CLLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHHhhccchhhhhhHHHHHHHHHHHHH
Confidence            56778888       888888887654

In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.72  E-value=8.5  Score=42.00  Aligned_cols=51  Identities=14%  Similarity=0.208  Sum_probs=22.7

Q ss_pred             HHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHH
Q 006388          348 VSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYF  399 (647)
Q Consensus       348 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~  399 (647)
                      |.-|....+..+-..+++.+.+.|+.-.. .-+.|+.+|.+.++.++-.++.
T Consensus       404 i~kfLdaq~IknLt~YLe~L~~~gla~~d-httlLLncYiKlkd~~kL~efI  454 (933)
T KOG2114|consen  404 IKKFLDAQRIKNLTSYLEALHKKGLANSD-HTTLLLNCYIKLKDVEKLTEFI  454 (933)
T ss_pred             HHHhcCHHHHHHHHHHHHHHHHcccccch-hHHHHHHHHHHhcchHHHHHHH
Confidence            33344444444444455555555433222 2234445555555555544443

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=91.55  E-value=0.3  Score=30.15  Aligned_cols=26  Identities=15%  Similarity=0.299  Sum_probs=20.6

Q ss_pred             hHHHHHHhhhhCCChhHHHHHHHHHH
Q 006388          480 SYVLLSSIYASKGKWDHVSQLRRTMR  505 (647)
Q Consensus       480 ~~~~l~~~~~~~g~~~~a~~~~~~m~  505 (647)
                      +|..|+++|.+.|+|++|.+++++..
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            46778899999999999999988854

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=91.54  E-value=21  Score=37.71  Aligned_cols=158  Identities=11%  Similarity=0.049  Sum_probs=95.6

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHCC-CCCCh-----hhHHHHHHHHhc----CCChHHHHHHHHHHHHcCCCCchhH
Q 006388          142 WTTMITGLMQNGLEREAIDLFREMRLEG-LAMDQ-----FTFGSVLTACGG----LLALEEGKQIHAFIIRNDHKDNVFV  211 (647)
Q Consensus       142 ~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~pd~-----~t~~~ll~~~~~----~~~~~~a~~~~~~~~~~g~~~~~~~  211 (647)
                      ...++....-.|+-+.+++++.+-.+.+ +.-..     .+|..++..+..    ..+.+.+.+++..+.+.  -|+...
T Consensus       191 ~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--yP~s~l  268 (468)
T PF10300_consen  191 VLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--YPNSAL  268 (468)
T ss_pred             HHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--CCCcHH
Confidence            3344445555688888888887765432 22111     123333333332    45677888888888776  345444


Q ss_pred             HH-HHHHHHHhcCCHHHHHHHHhcCCCC-------ChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 006388          212 GS-ALVDMYCKCKSIKYAESVFRTMAWK-------NVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVIS  283 (647)
Q Consensus       212 ~~-~li~~y~~~g~~~~A~~~~~~~~~~-------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~  283 (647)
                      |. .-.+.+...|++++|.+.|++....       ....+--+.-.+.-.++|++|.+.|..+.+.. .....+|..+..
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 FLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKES-KWSKAFYAYLAA  347 (468)
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcc-ccHHHHHHHHHH
Confidence            43 3356777888999999999865431       22334445556777888999999998888753 344555555554


Q ss_pred             HH-hccCCh-------HHHHHHHHHHH
Q 006388          284 SC-ANLASL-------EEGTQFHGRSL  302 (647)
Q Consensus       284 a~-~~~~~~-------~~a~~~~~~~~  302 (647)
                      +| ...++.       ++|.+++.++.
T Consensus       348 ~c~~~l~~~~~~~~~~~~a~~l~~~vp  374 (468)
T PF10300_consen  348 ACLLMLGREEEAKEHKKEAEELFRKVP  374 (468)
T ss_pred             HHHHhhccchhhhhhHHHHHHHHHHHH
Confidence            44 334555       66666666553

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.

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=91.50  E-value=0.88  Score=40.29  Aligned_cols=88  Identities=17%  Similarity=0.161  Sum_probs=69.1

Q ss_pred             HHHHHcCCHHHHHHHHHhC----CCCC---ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCC
Q 006388          420 DILSRAGRLEEAKSFINKM----PFPP---DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKG  492 (647)
Q Consensus       420 ~~~~~~g~~~~A~~~~~~~----~~~p---~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  492 (647)
                      .-+.+.|++++|..-|..+    |-.+   ..+.|..-..+..+.+..+.|+....++++++|.+..+...-+.+|.+..
T Consensus       103 N~~F~ngdyeeA~skY~~Ale~cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pty~kAl~RRAeayek~e  182 (271)
T KOG4234|consen  103 NELFKNGDYEEANSKYQEALESCPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPTYEKALERRAEAYEKME  182 (271)
T ss_pred             HHhhhcccHHHHHHHHHHHHHhCccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCchhHHHHHHHHHHHHhhh
Confidence            3455778888888777665    2111   14455555667788899999999999999999988888888899999999


Q ss_pred             ChhHHHHHHHHHHhC
Q 006388          493 KWDHVSQLRRTMREK  507 (647)
Q Consensus       493 ~~~~a~~~~~~m~~~  507 (647)
                      ++++|.+-++++.+.
T Consensus       183 k~eealeDyKki~E~  197 (271)
T KOG4234|consen  183 KYEEALEDYKKILES  197 (271)
T ss_pred             hHHHHHHHHHHHHHh
Confidence            999999999998774

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=91.08  E-value=0.91  Score=43.28  Aligned_cols=62  Identities=23%  Similarity=0.351  Sum_probs=51.0

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHh
Q 006388          445 IGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       445 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      .++..++..+...|+++.+...++++++.+|-+...|..+..+|.+.|+...|...++.+.+
T Consensus       154 ~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~  215 (280)
T COG3629         154 KALTKLAEALIACGRADAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKK  215 (280)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHHHHHHH
Confidence            34556677777778888888888888888888888888888888888988888888887765

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=90.97  E-value=0.43  Score=40.95  Aligned_cols=84  Identities=12%  Similarity=0.049  Sum_probs=44.3

Q ss_pred             HHHHHhCCCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHHhcCChHHHHHHhccCCCCCchHHHHHHHHHHhcCChHHH
Q 006388           48 MLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGSPLVDMYAKLGLIYDAKRGFDELPEKNIVMYNTMITGLLRRGLVEES  127 (647)
Q Consensus        48 ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  127 (647)
                      +++.+.+.+.......+++.+.+.+...+....+.|+..|++.++.+...+.++....   .-...++..+.+.|.+++|
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~~---yd~~~~~~~c~~~~l~~~a   89 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTSNN---YDLDKALRLCEKHGLYEEA   89 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSSS---S-CTHHHHHHHTTTSHHHH
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccccc---cCHHHHHHHHHhcchHHHH
Confidence            3444555555566666666666555445566666777777776666666666653332   2223444444444555454


Q ss_pred             HHHhhcC
Q 006388          128 RRLFRGM  134 (647)
Q Consensus       128 ~~~~~~~  134 (647)
                      .-++.++
T Consensus        90 ~~Ly~~~   96 (143)
T PF00637_consen   90 VYLYSKL   96 (143)
T ss_dssp             HHHHHCC
T ss_pred             HHHHHHc
Confidence            4444443

These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. This entry represents the 7-fold alpha-alpha-superhelical ARM-type repeat found at the C-terminal of clathrin heavy chains and in VPS (vacuolar protein sorting-associated) proteins. In clathrin heavy chains, the C-terminal 7-fold ARM-type repeats interact to form the central hub of the triskelion. VPS proteins are required for vacuolar assembly and vacuolar traffick, and contain one clathrin-type repeat []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport; PDB: 3LVH_A 3LVG_C 1B89_A 3QIL_L.

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=90.85  E-value=14  Score=34.58  Aligned_cols=229  Identities=17%  Similarity=0.236  Sum_probs=132.3

Q ss_pred             CHHHHHHHHhcCCC----C---ChhHHHHHHHHHHhcCChhHHHHHHHHHHHC---CC--CCCHHHHHHHHHHHhccCCh
Q 006388          224 SIKYAESVFRTMAW----K---NVVSWTAMLVGYGQNGCSEEAVKIFCNMQRN---GI--EPDDFTLGSVISSCANLASL  291 (647)
Q Consensus       224 ~~~~A~~~~~~~~~----~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~---g~--~p~~~t~~~ll~a~~~~~~~  291 (647)
                      ..++|..-|+++.+    +   .-.+.-.||..+.+.|++++.+..|.+|..-   .+  .-+.-+.++++.-.+...+.
T Consensus        42 ~p~~Al~sF~kVlelEgEKgeWGFKALKQmiKI~f~l~~~~eMm~~Y~qlLTYIkSAVTrNySEKsIN~IlDyiStS~~m  121 (440)
T KOG1464|consen   42 EPKEALSSFQKVLELEGEKGEWGFKALKQMIKINFRLGNYKEMMERYKQLLTYIKSAVTRNYSEKSINSILDYISTSKNM  121 (440)
T ss_pred             CHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHhhhhhh
Confidence            45556655555432    1   2234455677777788888877777777431   11  22345667777666666666


Q ss_pred             HHHHHHHHHHHHh-----CCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCC--------C-------hhhHHHHHHHH
Q 006388          292 EEGTQFHGRSLVT-----GLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVR--------D-------EVSWTALVSGY  351 (647)
Q Consensus       292 ~~a~~~~~~~~~~-----~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~--------d-------~~~~~~li~~~  351 (647)
                      +.-..+++.-.+.     +-...-.+-+.|...|...|++.+..+++.++...        |       ...|..-|..|
T Consensus       122 ~LLQ~FYeTTL~ALkdAKNeRLWFKTNtKLgkl~fd~~e~~kl~KIlkqLh~SCq~edGedD~kKGtQLLEiYAlEIQmY  201 (440)
T KOG1464|consen  122 DLLQEFYETTLDALKDAKNERLWFKTNTKLGKLYFDRGEYTKLQKILKQLHQSCQTEDGEDDQKKGTQLLEIYALEIQMY  201 (440)
T ss_pred             HHHHHHHHHHHHHHHhhhcceeeeeccchHhhhheeHHHHHHHHHHHHHHHHHhccccCchhhhccchhhhhHhhHhhhh
Confidence            5555555443321     11223334456777888888888888887776411        1       23566667888


Q ss_pred             HHcCChHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHh-----cCCcHHHHHHHHHHHHHhcCCCcCh-----HHHHHHHH
Q 006388          352 AKFGKANETIDLFEKMLSHG-LKPDEVTLIGVLSACS-----RAGLVEKGRHYFEIMVKEYGIRPIH-----DHYTCMID  420 (647)
Q Consensus       352 ~~~g~~~~A~~~~~~m~~~g-~~p~~~t~~~ll~a~~-----~~g~~~~a~~~~~~~~~~~~~~p~~-----~~~~~li~  420 (647)
                      ....+-.....+|++..... .-|.+ ....+++-|.     +.|.+++|..-|=+..+.|.-..++     --|-.|..
T Consensus       202 T~qKnNKkLK~lYeqalhiKSAIPHP-lImGvIRECGGKMHlreg~fe~AhTDFFEAFKNYDEsGspRRttCLKYLVLAN  280 (440)
T KOG1464|consen  202 TEQKNNKKLKALYEQALHIKSAIPHP-LIMGVIRECGGKMHLREGEFEKAHTDFFEAFKNYDESGSPRRTTCLKYLVLAN  280 (440)
T ss_pred             hhhcccHHHHHHHHHHHHhhccCCch-HHHhHHHHcCCccccccchHHHHHhHHHHHHhcccccCCcchhHHHHHHHHHH
Confidence            88888888888888776532 23433 3445666664     5678888765444444444332222     33556667


Q ss_pred             HHHHcCC----HHHHHHHHHhCCCCCChhhHHHHHHHHHhc
Q 006388          421 ILSRAGR----LEEAKSFINKMPFPPDAIGWATLLSSCRIH  457 (647)
Q Consensus       421 ~~~~~g~----~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~  457 (647)
                      ++.++|-    -+||.    -....|.......|+.+|..+
T Consensus       281 MLmkS~iNPFDsQEAK----PyKNdPEIlAMTnlv~aYQ~N  317 (440)
T KOG1464|consen  281 MLMKSGINPFDSQEAK----PYKNDPEILAMTNLVAAYQNN  317 (440)
T ss_pred             HHHHcCCCCCcccccC----CCCCCHHHHHHHHHHHHHhcc
Confidence            7777662    11211    012345566778888888654

>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=90.85  E-value=8.9  Score=33.57  Aligned_cols=58  Identities=17%  Similarity=0.149  Sum_probs=33.5

Q ss_pred             hHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHhcCCChHHHHHHHHHHHH
Q 006388          141 SWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIR  202 (647)
Q Consensus       141 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~  202 (647)
                      .+..++..+...|++-+|+++.+.....    +...-..++.+..+.+|...-..++....+
T Consensus        91 ~~~~iievLL~~g~vl~ALr~ar~~~~~----~~~~~~~fLeAA~~~~D~~lf~~V~~ff~~  148 (167)
T PF07035_consen   91 AYEEIIEVLLSKGQVLEALRYARQYHKV----DSVPARKFLEAAANSNDDQLFYAVFRFFEE  148 (167)
T ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHcCCc----ccCCHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            4556667777777887777777664221    223334556666666655555555554444

>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=90.27  E-value=19  Score=35.01  Aligned_cols=17  Identities=12%  Similarity=-0.306  Sum_probs=10.9

Q ss_pred             HHhcCChhHHHHHHHHH
Q 006388          454 CRIHGNVEIGKWAAESL  470 (647)
Q Consensus       454 ~~~~~~~~~a~~~~~~~  470 (647)
                      +.+.++++.|...++-.
T Consensus       256 ~~~~k~y~~A~~w~~~a  272 (278)
T PF08631_consen  256 HYKAKNYDEAIEWYELA  272 (278)
T ss_pred             HHhhcCHHHHHHHHHHH
Confidence            45567777777766643

It is also involved in sporulation [].

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=90.26  E-value=0.42  Score=28.86  Aligned_cols=31  Identities=26%  Similarity=0.176  Sum_probs=21.9

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHhccCCC
Q 006388          446 GWATLLSSCRIHGNVEIGKWAAESLLELDPY  476 (647)
Q Consensus       446 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~  476 (647)
                      +|..+...+...|++++|...+++.++++|+
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            4566666777777777777777777777663

...

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=90.23  E-value=2.2  Score=40.79  Aligned_cols=76  Identities=16%  Similarity=0.230  Sum_probs=60.1

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhhcCCC---ChhhHHHHHHHHHHcCChHHHHHHHHHHHH-----CCCCCCHHHHHH
Q 006388          310 ITVSNALVTFYGKCGNIEDSHRLFNEMNVR---DEVSWTALVSGYAKFGKANETIDLFEKMLS-----HGLKPDEVTLIG  381 (647)
Q Consensus       310 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---d~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~g~~p~~~t~~~  381 (647)
                      ..++..++..+..+|+.+.+.+.++++...   |...|..++.+|.+.|+...|+..|+++.+     .|+.|...+...
T Consensus       153 ~~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~  232 (280)
T COG3629         153 IKALTKLAEALIACGRADAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRAL  232 (280)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHH
Confidence            345677888899999999999999888733   677899999999999999999999998865     467776665555


Q ss_pred             HHHH
Q 006388          382 VLSA  385 (647)
Q Consensus       382 ll~a  385 (647)
                      ....
T Consensus       233 y~~~  236 (280)
T COG3629         233 YEEI  236 (280)
T ss_pred             HHHH
Confidence            4444

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=90.00  E-value=23  Score=35.65  Aligned_cols=67  Identities=19%  Similarity=0.308  Sum_probs=56.0

Q ss_pred             ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCC----CCchhHHHHHHhhhhCCChhHHHHHHHHHHhCCC
Q 006388          443 DAIGWATLLSSCRIHGNVEIGKWAAESLLELDP----YNPASYVLLSSIYASKGKWDHVSQLRRTMREKGV  509 (647)
Q Consensus       443 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p----~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~  509 (647)
                      ...+|..+...++++|+++.|...+.++....+    ..+.....-+......|+-++|...++...+..+
T Consensus       145 ~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~~~  215 (352)
T PF02259_consen  145 LAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKCRL  215 (352)
T ss_pred             HHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHHHh
Confidence            467899999999999999999999999888652    2466777788999999999999999988877333

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>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=89.51  E-value=13  Score=32.14  Aligned_cols=89  Identities=16%  Similarity=0.105  Sum_probs=51.4

Q ss_pred             HHHhcCCcHHHHHHHHHHHHHhcCCCcCh-HHHHHHHHHHHHcCCHHHHHHHHHhCC-CCCChhhHHHHHHHHHhcCChh
Q 006388          384 SACSRAGLVEKGRHYFEIMVKEYGIRPIH-DHYTCMIDILSRAGRLEEAKSFINKMP-FPPDAIGWATLLSSCRIHGNVE  461 (647)
Q Consensus       384 ~a~~~~g~~~~a~~~~~~~~~~~~~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~~~-~~p~~~~~~~ll~~~~~~~~~~  461 (647)
                      ..-.+.++.+++..+++.+.   -+.|.. +.-..-...+.+.|++.+|..+|+++. -.|....-.+|+..|.....-.
T Consensus        18 ~~al~~~~~~D~e~lL~ALr---vLRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~~~~p~~kALlA~CL~~~~D~   94 (160)
T PF09613_consen   18 SVALRLGDPDDAEALLDALR---VLRPEFPELDLFDGWLHIVRGDWDDALRLLRELEERAPGFPYAKALLALCLYALGDP   94 (160)
T ss_pred             HHHHccCChHHHHHHHHHHH---HhCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccCCCChHHHHHHHHHHHHcCCh
Confidence            33445667777777777664   334432 222223344667888888888888873 3344445556666666554444


Q ss_pred             HHHHHHHHHhccCC
Q 006388          462 IGKWAAESLLELDP  475 (647)
Q Consensus       462 ~a~~~~~~~~~~~p  475 (647)
                      .=....+++++..+
T Consensus        95 ~Wr~~A~evle~~~  108 (160)
T PF09613_consen   95 SWRRYADEVLESGA  108 (160)
T ss_pred             HHHHHHHHHHhcCC
Confidence            44555555666555

>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=89.32  E-value=13  Score=32.52  Aligned_cols=134  Identities=13%  Similarity=0.101  Sum_probs=86.7

Q ss_pred             HHHHHHHHHCCCCCCCcchHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCc-hhhHHHHHHHHHhcCChHHHHHHhccCC
Q 006388           26 VKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSY-VFVGSPLVDMYAKLGLIYDAKRGFDELP  104 (647)
Q Consensus        26 ~~~~~~m~~~g~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~~~  104 (647)
                      ++.++.+.+.++ +|+...+..+++.+.+.|.+....+    ++..++-+| ..+...|++.-   +....+.++=-.|.
T Consensus        14 lEYirSl~~~~i-~~~~~L~~lli~lLi~~~~~~~L~q----llq~~Vi~DSk~lA~~LLs~~---~~~~~~~Ql~lDML   85 (167)
T PF07035_consen   14 LEYIRSLNQHNI-PVQHELYELLIDLLIRNGQFSQLHQ----LLQYHVIPDSKPLACQLLSLG---NQYPPAYQLGLDML   85 (167)
T ss_pred             HHHHHHHHHcCC-CCCHHHHHHHHHHHHHcCCHHHHHH----HHhhcccCCcHHHHHHHHHhH---ccChHHHHHHHHHH
Confidence            455666777888 8999999999999999998665444    444444444 44444443332   22233333333333


Q ss_pred             CCCchHHHHHHHHHHhcCChHHHHHHhhcCCCCCeehHHHHHHHHHhCCChhHHHHHHHHHHH
Q 006388          105 EKNIVMYNTMITGLLRRGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLEREAIDLFREMRL  167 (647)
Q Consensus       105 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  167 (647)
                      .+=...+..++..+...|++-+|.++.+....-+...-..++.+..+.++...=..+|+-..+
T Consensus        86 kRL~~~~~~iievLL~~g~vl~ALr~ar~~~~~~~~~~~~fLeAA~~~~D~~lf~~V~~ff~~  148 (167)
T PF07035_consen   86 KRLGTAYEEIIEVLLSKGQVLEALRYARQYHKVDSVPARKFLEAAANSNDDQLFYAVFRFFEE  148 (167)
T ss_pred             HHhhhhHHHHHHHHHhCCCHHHHHHHHHHcCCcccCCHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            322235667788899999999999999887665556667777777777776655555555444

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=89.30  E-value=38  Score=37.23  Aligned_cols=23  Identities=22%  Similarity=0.511  Sum_probs=16.6

Q ss_pred             HHHHhhhhCCChhHHHHHHHHHH
Q 006388          483 LLSSIYASKGKWDHVSQLRRTMR  505 (647)
Q Consensus       483 ~l~~~~~~~g~~~~a~~~~~~m~  505 (647)
                      .+.+.|...|+.++|.....+..
T Consensus       582 ~l~~~~~~~G~~~ka~~~~~~~~  604 (608)
T PF10345_consen  582 MLADSYEVQGDRDKAEEARQQLD  604 (608)
T ss_pred             HHHHHHHHcCcHHHHHHHHHHHH
Confidence            44555777888888888877653

It is associated with the cohesin complex and is required in G1 for cohesin binding to chromosomes, but is dispensable in G2 when cohesion has been established. It is often referred to as Ssl3 in Schizosaccharomyces pombe (Fission yeast), and Scc4 in Saccharomyces cerevisiae (Baker's yeast). It complexes with Mis4 [].

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=89.14  E-value=0.56  Score=28.95  Aligned_cols=28  Identities=25%  Similarity=0.128  Sum_probs=20.0

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHhcc
Q 006388          446 GWATLLSSCRIHGNVEIGKWAAESLLEL  473 (647)
Q Consensus       446 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~  473 (647)
                      +|..|...|...|++++|+.++++++.+
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL~l   28 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQALAL   28 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            4667778888888888888888885543

>PRK09687 putative lyase; Provisional

Probab=88.55  E-value=25  Score=34.12  Aligned_cols=80  Identities=11%  Similarity=0.041  Sum_probs=35.8

Q ss_pred             CchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCCh----hHHHHHHHHHHHCCCCCCHHHHHHHH
Q 006388          207 DNVFVGSALVDMYCKCKSIKYAESVFRTMAWKNVVSWTAMLVGYGQNGCS----EEAVKIFCNMQRNGIEPDDFTLGSVI  282 (647)
Q Consensus       207 ~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~----~~A~~~~~~m~~~g~~p~~~t~~~ll  282 (647)
                      +|..+....+..+...|..+-...+..-+..+|...-...+.++.+.|+.    .+++..+..+...  .|+...-...+
T Consensus        35 ~d~~vR~~A~~aL~~~~~~~~~~~l~~ll~~~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~--D~d~~VR~~A~  112 (280)
T PRK09687         35 HNSLKRISSIRVLQLRGGQDVFRLAIELCSSKNPIERDIGADILSQLGMAKRCQDNVFNILNNLALE--DKSACVRASAI  112 (280)
T ss_pred             CCHHHHHHHHHHHHhcCcchHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhc--CCCHHHHHHHH
Confidence            34444444444455444432222222222334444444455555555543    3455555555332  34444444444


Q ss_pred             HHHhcc
Q 006388          283 SSCANL  288 (647)
Q Consensus       283 ~a~~~~  288 (647)
                      .++...
T Consensus       113 ~aLG~~  118 (280)
T PRK09687        113 NATGHR  118 (280)
T ss_pred             HHHhcc
Confidence            444433

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=88.44  E-value=11  Score=36.76  Aligned_cols=62  Identities=16%  Similarity=0.230  Sum_probs=40.3

Q ss_pred             HHHHHHHHHHHHCCCCCCHH--HHHHHHHHHhcCCc--HHHHHHHHHHHHHhcCCCcChHHHHHHHH
Q 006388          358 NETIDLFEKMLSHGLKPDEV--TLIGVLSACSRAGL--VEKGRHYFEIMVKEYGIRPIHDHYTCMID  420 (647)
Q Consensus       358 ~~A~~~~~~m~~~g~~p~~~--t~~~ll~a~~~~g~--~~~a~~~~~~~~~~~~~~p~~~~~~~li~  420 (647)
                      +.+..+|+.+.+.|+..+..  ....+|..+.....  +.++.++++.+.+. ++++...+|..+.-
T Consensus       160 ~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~-~~kik~~~yp~lGl  225 (297)
T PF13170_consen  160 ERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKN-GVKIKYMHYPTLGL  225 (297)
T ss_pred             HHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHc-CCccccccccHHHH
Confidence            56777888888878766543  34444444333222  44778888888765 88888888776553

>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=88.20  E-value=14  Score=30.70  Aligned_cols=63  Identities=11%  Similarity=0.202  Sum_probs=39.1

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCC
Q 006388          344 WTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGI  408 (647)
Q Consensus       344 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~  408 (647)
                      .+..+..+...|+-+.-.+++.++.+. -.|++.....+..||.+.|+..++.+++....+. |+
T Consensus        89 vD~ALd~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACek-G~  151 (161)
T PF09205_consen   89 VDLALDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREANELLKEACEK-GL  151 (161)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHT-T-
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHh-ch
Confidence            344566677777777777777776642 3667777777778888888888888777777654 54

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>KOG0890 consensus Protein kinase of the PI-3 kinase family involved in mitotic growth, DNA repair and meiotic recombination [Signal transduction mechanisms; Chromatin structure and dynamics; Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=88.05  E-value=81  Score=39.41  Aligned_cols=64  Identities=13%  Similarity=0.099  Sum_probs=55.7

Q ss_pred             hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHhCCC
Q 006388          444 AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREKGV  509 (647)
Q Consensus       444 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~  509 (647)
                      ..+|......++..|.++.|....-++.+..+  +..+.-.+......|+-..|..++++-.+...
T Consensus      1670 ge~wLqsAriaR~aG~~q~A~nall~A~e~r~--~~i~~E~AK~lW~~gd~~~Al~~Lq~~l~~~~ 1733 (2382)
T KOG0890|consen 1670 GECWLQSARIARLAGHLQRAQNALLNAKESRL--PEIVLERAKLLWQTGDELNALSVLQEILSKNF 1733 (2382)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHhhhhccc--chHHHHHHHHHHhhccHHHHHHHHHHHHHhhc
Confidence            67899999999999999999999888877774  57889999999999999999999998876544

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=88.03  E-value=21  Score=32.53  Aligned_cols=163  Identities=15%  Similarity=0.141  Sum_probs=92.2

Q ss_pred             ChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHH
Q 006388          340 DEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMI  419 (647)
Q Consensus       340 d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li  419 (647)
                      -+..||-+.--+...|+++.|.+.|+...+....-+-...+. .-++--.|++.-|.+-|...-..-.-.|-...|-.+ 
T Consensus        98 m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNR-gi~~YY~gR~~LAq~d~~~fYQ~D~~DPfR~LWLYl-  175 (297)
T COG4785          98 MPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNR-GIALYYGGRYKLAQDDLLAFYQDDPNDPFRSLWLYL-  175 (297)
T ss_pred             cHHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhcc-ceeeeecCchHhhHHHHHHHHhcCCCChHHHHHHHH-
Confidence            356778787778888888888888888877532222222222 223445677877776555443321222322333222 


Q ss_pred             HHHHHcCCHHHHHHHH-HhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCC-------chhHHHHHHhhhhC
Q 006388          420 DILSRAGRLEEAKSFI-NKMPFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYN-------PASYVLLSSIYASK  491 (647)
Q Consensus       420 ~~~~~~g~~~~A~~~~-~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~-------~~~~~~l~~~~~~~  491 (647)
                        -.+.-+..+|..-+ ++.. .-|..-|+.-+-.+.- |+.. -+.+++++.+...++       ..+|.-|+.-|...
T Consensus       176 --~E~k~dP~~A~tnL~qR~~-~~d~e~WG~~iV~~yL-gkiS-~e~l~~~~~a~a~~n~~~Ae~LTEtyFYL~K~~l~~  250 (297)
T COG4785         176 --NEQKLDPKQAKTNLKQRAE-KSDKEQWGWNIVEFYL-GKIS-EETLMERLKADATDNTSLAEHLTETYFYLGKYYLSL  250 (297)
T ss_pred             --HHhhCCHHHHHHHHHHHHH-hccHhhhhHHHHHHHH-hhcc-HHHHHHHHHhhccchHHHHHHHHHHHHHHHHHHhcc
Confidence              23445666666544 3332 2355556655554432 2111 122333333332222       36788899999999


Q ss_pred             CChhHHHHHHHHHHhCCC
Q 006388          492 GKWDHVSQLRRTMREKGV  509 (647)
Q Consensus       492 g~~~~a~~~~~~m~~~g~  509 (647)
                      |+.++|..+|+......+
T Consensus       251 G~~~~A~~LfKLaiannV  268 (297)
T COG4785         251 GDLDEATALFKLAVANNV  268 (297)
T ss_pred             ccHHHHHHHHHHHHHHhH
Confidence            999999999998766443

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=87.97  E-value=9.8  Score=38.65  Aligned_cols=104  Identities=13%  Similarity=0.112  Sum_probs=48.7

Q ss_pred             HHHcCCHHHHHHHHHhCC--CCCChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHH
Q 006388          422 LSRAGRLEEAKSFINKMP--FPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQ  499 (647)
Q Consensus       422 ~~~~g~~~~A~~~~~~~~--~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~  499 (647)
                      ....|+++.+...+....  +.....+...++......|+.++|....+.++..+-+++.....-+..-...|-+|++.-
T Consensus       333 ~~~lg~ye~~~~~~s~~~~~~~s~~~~~~~~~r~~~~l~r~~~a~s~a~~~l~~eie~~ei~~iaa~sa~~l~~~d~~~~  412 (831)
T PRK15180        333 FSHLGYYEQAYQDISDVEKIIGTTDSTLRCRLRSLHGLARWREALSTAEMMLSNEIEDEEVLTVAAGSADALQLFDKSYH  412 (831)
T ss_pred             HHHhhhHHHHHHHhhchhhhhcCCchHHHHHHHhhhchhhHHHHHHHHHHHhccccCChhheeeecccHHHHhHHHHHHH
Confidence            344555555555554441  122334445555555555555555555555555444444443333333344455555555


Q ss_pred             HHHHHHhCCCccCCCcceEeEcCeEEEE
Q 006388          500 LRRTMREKGVRKDPGCSWIKYKSRVHIF  527 (647)
Q Consensus       500 ~~~~m~~~g~~~~~~~s~~~~~~~~~~f  527 (647)
                      .++++..-  .|.....|+.+-.....|
T Consensus       413 ~wk~~~~~--~~~~~~g~v~~~~~~~~~  438 (831)
T PRK15180        413 YWKRVLLL--NPETQSGWVNFLSSTQYF  438 (831)
T ss_pred             HHHHHhcc--CChhcccceeeeccceec
Confidence            55555442  222233355444444444

>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=87.26  E-value=11  Score=33.58  Aligned_cols=93  Identities=14%  Similarity=0.116  Sum_probs=45.8

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHH--HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCC--CcC----hHHH
Q 006388          344 WTALVSGYAKFGKANETIDLFEKMLSHGLKPDEV--TLIGVLSACSRAGLVEKGRHYFEIMVKEYGI--RPI----HDHY  415 (647)
Q Consensus       344 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~--t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~--~p~----~~~~  415 (647)
                      +..+..-|.+.|+.++|++.|.++.+....|...  .+..++..+...+++..+............-  +++    ...|
T Consensus        39 ~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk~~  118 (177)
T PF10602_consen   39 LEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLKVY  118 (177)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHHHH
Confidence            4444555555555555555555555544344333  3344455555555555555554444321111  111    1223


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHhC
Q 006388          416 TCMIDILSRAGRLEEAKSFINKM  438 (647)
Q Consensus       416 ~~li~~~~~~g~~~~A~~~~~~~  438 (647)
                      ..|.  +...|++.+|.+.|-..
T Consensus       119 ~gL~--~l~~r~f~~AA~~fl~~  139 (177)
T PF10602_consen  119 EGLA--NLAQRDFKEAAELFLDS  139 (177)
T ss_pred             HHHH--HHHhchHHHHHHHHHcc
Confidence            3332  23467888888887776

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.

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=86.86  E-value=33  Score=33.59  Aligned_cols=134  Identities=10%  Similarity=0.157  Sum_probs=66.9

Q ss_pred             hhHHHHHHHHHHHCCCCCChhhHHHHHHHHhc--CC----ChHHHHHHHHHHHHcCC---CCchhHHHHHHHHHHhcCCH
Q 006388          155 EREAIDLFREMRLEGLAMDQFTFGSVLTACGG--LL----ALEEGKQIHAFIIRNDH---KDNVFVGSALVDMYCKCKSI  225 (647)
Q Consensus       155 ~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~--~~----~~~~a~~~~~~~~~~g~---~~~~~~~~~li~~y~~~g~~  225 (647)
                      +++.+.+++.|.+.|++-+..+|.+..-....  ..    ....+..+|+.|.+.-.   .++..++..|+..  ..+++
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            34566777888888888777777654333222  11    23345555555555431   1222222222211  11111


Q ss_pred             HHHHHHHhcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCH--HHHHHHHHHHhccCC--hHHHHHHHHHH
Q 006388          226 KYAESVFRTMAWKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDD--FTLGSVISSCANLAS--LEEGTQFHGRS  301 (647)
Q Consensus       226 ~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~t~~~ll~a~~~~~~--~~~a~~~~~~~  301 (647)
                      +.                           -.+.+...|+.+.+.|+..+.  ...+.++..+.....  ...+..++..+
T Consensus       156 e~---------------------------l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l  208 (297)
T PF13170_consen  156 EE---------------------------LAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNAL  208 (297)
T ss_pred             HH---------------------------HHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHH
Confidence            10                           124456666777776665533  334444443333222  33566677777


Q ss_pred             HHhCCCcchhHHHHHH
Q 006388          302 LVTGLISFITVSNALV  317 (647)
Q Consensus       302 ~~~~~~~~~~~~~~li  317 (647)
                      .+.|++.....|..+.
T Consensus       209 ~~~~~kik~~~yp~lG  224 (297)
T PF13170_consen  209 KKNGVKIKYMHYPTLG  224 (297)
T ss_pred             HHcCCccccccccHHH
Confidence            7777776665555443

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=86.48  E-value=3.7  Score=35.45  Aligned_cols=51  Identities=22%  Similarity=0.307  Sum_probs=28.6

Q ss_pred             hcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHh
Q 006388          456 IHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       456 ~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      .+++.+.++.++.-+.-+.|..+..-..-++.+...|+|++|.++++.+.+
T Consensus        22 ~~~~~~D~e~lL~ALrvLRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~   72 (160)
T PF09613_consen   22 RLGDPDDAEALLDALRVLRPEFPELDLFDGWLHIVRGDWDDALRLLRELEE   72 (160)
T ss_pred             ccCChHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhc
Confidence            344555555555555555555555555555555555555555555555543

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=86.41  E-value=1.4  Score=42.32  Aligned_cols=111  Identities=13%  Similarity=0.068  Sum_probs=76.1

Q ss_pred             HHHHHhcCCcHHHHHHHHHHHHHhcCCCc-ChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcC
Q 006388          382 VLSACSRAGLVEKGRHYFEIMVKEYGIRP-IHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHG  458 (647)
Q Consensus       382 ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~  458 (647)
                      -..-|.++|.+++|+..|...+   .+.| ++..+..-..+|.+..++..|..-...+ .+.. -.-.|..-+.+-...|
T Consensus       103 ~GN~yFKQgKy~EAIDCYs~~i---a~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd~~Y~KAYSRR~~AR~~Lg  179 (536)
T KOG4648|consen  103 RGNTYFKQGKYEEAIDCYSTAI---AVYPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALDKLYVKAYSRRMQARESLG  179 (536)
T ss_pred             hhhhhhhccchhHHHHHhhhhh---ccCCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHHh
Confidence            3556889999999999998765   4456 7788888888999998888777655544 1111 1334555555556678


Q ss_pred             ChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHH
Q 006388          459 NVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQ  499 (647)
Q Consensus       459 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~  499 (647)
                      +..+|.+-++..++++|.+-.    |-..|+......++.-
T Consensus       180 ~~~EAKkD~E~vL~LEP~~~E----LkK~~a~i~Sl~E~~I  216 (536)
T KOG4648|consen  180 NNMEAKKDCETVLALEPKNIE----LKKSLARINSLRERKI  216 (536)
T ss_pred             hHHHHHHhHHHHHhhCcccHH----HHHHHHHhcchHhhhH
Confidence            899999999999999997533    3334444444444433

>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=85.58  E-value=4.4  Score=27.64  Aligned_cols=27  Identities=11%  Similarity=0.129  Sum_probs=22.5

Q ss_pred             hHHHHHHhhhhCCChhHHHHHHHHHHh
Q 006388          480 SYVLLSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       480 ~~~~l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      ....++-++.+.|++++|.+..+.+.+
T Consensus         3 ~lY~lAig~ykl~~Y~~A~~~~~~lL~   29 (53)
T PF14853_consen    3 CLYYLAIGHYKLGEYEKARRYCDALLE   29 (53)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            345678889999999999999999877

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=85.56  E-value=39  Score=33.32  Aligned_cols=127  Identities=17%  Similarity=0.129  Sum_probs=73.1

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHCCCC-----CCHHHHHHHHHHHhcCCcHHHHHHHHHHH---HHhcCCCcChHHHHH
Q 006388          346 ALVSGYAKFGKANETIDLFEKMLSHGLK-----PDEVTLIGVLSACSRAGLVEKGRHYFEIM---VKEYGIRPIHDHYTC  417 (647)
Q Consensus       346 ~li~~~~~~g~~~~A~~~~~~m~~~g~~-----p~~~t~~~ll~a~~~~g~~~~a~~~~~~~---~~~~~~~p~~~~~~~  417 (647)
                      +|..++.-.+.++++++.|+....---.     ..-..+..+-+-|.+..++++|.-+....   ...+++..-..-|.+
T Consensus       127 ~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~  206 (518)
T KOG1941|consen  127 SMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLKYRA  206 (518)
T ss_pred             hHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHHHH
Confidence            3555566666677777777766542111     11235666667777777777766554432   223343332233333


Q ss_pred             H-----HHHHHHcCCHHHHHHHHHhC-------CCCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHhc
Q 006388          418 M-----IDILSRAGRLEEAKSFINKM-------PFPPD-AIGWATLLSSCRIHGNVEIGKWAAESLLE  472 (647)
Q Consensus       418 l-----i~~~~~~g~~~~A~~~~~~~-------~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  472 (647)
                      +     .-+|-..|.+-+|.+.-++.       +.+|- ......+...|+..|+.+.|..-|+.+..
T Consensus       207 ~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR~~gd~e~af~rYe~Am~  274 (518)
T KOG1941|consen  207 MSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYRSRGDLERAFRRYEQAMG  274 (518)
T ss_pred             HHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHhcccHhHHHHHHHHHHH
Confidence            3     23455566665555555443       43332 44566778888899999988888887654

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=85.49  E-value=4  Score=34.60  Aligned_cols=54  Identities=11%  Similarity=0.116  Sum_probs=39.8

Q ss_pred             hcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHhCCC
Q 006388          456 IHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREKGV  509 (647)
Q Consensus       456 ~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~  509 (647)
                      ..++.++++.+++.+.-+.|+.+..-..-+..+...|+|++|.++++...+.+.
T Consensus        22 ~~~d~~D~e~lLdALrvLrP~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~~   75 (153)
T TIGR02561        22 RSADPYDAQAMLDALRVLRPNLKELDMFDGWLLIARGNYDEAARILRELLSSAG   75 (153)
T ss_pred             hcCCHHHHHHHHHHHHHhCCCccccchhHHHHHHHcCCHHHHHHHHHhhhccCC
Confidence            366777777777777777777777777777777778888888888777766543

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=85.36  E-value=15  Score=32.16  Aligned_cols=30  Identities=17%  Similarity=0.196  Sum_probs=15.1

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHCCCCC
Q 006388          244 TAMLVGYGQNGCSEEAVKIFCNMQRNGIEP  273 (647)
Q Consensus       244 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  273 (647)
                      .+|.-+-.+.|++.+|.++|.++......|
T Consensus       171 EALglAa~kagd~a~A~~~F~qia~Da~ap  200 (221)
T COG4649         171 EALGLAAYKAGDFAKAKSWFVQIANDAQAP  200 (221)
T ss_pred             HHHhHHHHhccchHHHHHHHHHHHccccCc
Confidence            344444445555555555555555433333

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=85.05  E-value=32  Score=31.79  Aligned_cols=62  Identities=11%  Similarity=-0.035  Sum_probs=33.7

Q ss_pred             HHHHHHHHc-CCHHHHHHHHHhCC-----CCCChhhHHHHHHH---HHhcCChhHHHHHHHHHhccCCCCc
Q 006388          417 CMIDILSRA-GRLEEAKSFINKMP-----FPPDAIGWATLLSS---CRIHGNVEIGKWAAESLLELDPYNP  478 (647)
Q Consensus       417 ~li~~~~~~-g~~~~A~~~~~~~~-----~~p~~~~~~~ll~~---~~~~~~~~~a~~~~~~~~~~~p~~~  478 (647)
                      .+.+.|..- .+++.|+..++...     -+.+...-..++..   -...+++.+|+.+|+++....-+|+
T Consensus       118 ~iaEiyEsdl~d~ekaI~~YE~Aae~yk~ees~ssANKC~lKvA~yaa~leqY~~Ai~iyeqva~~s~~n~  188 (288)
T KOG1586|consen  118 EIAEIYESDLQDFEKAIAHYEQAAEYYKGEESVSSANKCLLKVAQYAAQLEQYSKAIDIYEQVARSSLDNN  188 (288)
T ss_pred             hHHHHHhhhHHHHHHHHHHHHHHHHHHcchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccch
Confidence            344444433 45566666665551     11222222333332   2456889999999998876554443

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=84.99  E-value=6.6  Score=30.43  Aligned_cols=62  Identities=15%  Similarity=0.233  Sum_probs=47.2

Q ss_pred             hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHH
Q 006388          357 ANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMID  420 (647)
Q Consensus       357 ~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~  420 (647)
                      .-++.+-+..+....+.|+.....+.|.||.+..++..|.++|+....+  ...+...|..+++
T Consensus        23 ~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K--~~~~~~~y~~~lq   84 (103)
T cd00923          23 GWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDK--CGAHKEIYPYILQ   84 (103)
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH--ccCchhhHHHHHH
Confidence            3456666677777778999999999999999999999999999987643  2334556766654

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.

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=84.93  E-value=7.7  Score=37.18  Aligned_cols=97  Identities=13%  Similarity=0.173  Sum_probs=69.2

Q ss_pred             CCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCC-C--------ChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC
Q 006388          305 GLISFITVSNALVTFYGKCGNIEDSHRLFNEMNV-R--------DEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPD  375 (647)
Q Consensus       305 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-~--------d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  375 (647)
                      |.+....+...++..-....+++++...+-++.. +        ...+|-.++.    .=++++++.++..=++.|+-||
T Consensus        59 g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~irlll----ky~pq~~i~~l~npIqYGiF~d  134 (418)
T KOG4570|consen   59 GLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHTWIRLLL----KYDPQKAIYTLVNPIQYGIFPD  134 (418)
T ss_pred             CCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHHHHHHHH----ccChHHHHHHHhCcchhccccc
Confidence            4455555556666666667778888877766652 2        2233333332    3357788888888888999999


Q ss_pred             HHHHHHHHHHHhcCCcHHHHHHHHHHHHHh
Q 006388          376 EVTLIGVLSACSRAGLVEKGRHYFEIMVKE  405 (647)
Q Consensus       376 ~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~  405 (647)
                      ..|+..+++.+.+.+++.+|.++...|+..
T Consensus       135 qf~~c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  135 QFTFCLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             hhhHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            999999999999999999988887776654

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=84.49  E-value=2.2  Score=25.63  Aligned_cols=27  Identities=19%  Similarity=0.527  Sum_probs=17.9

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHH
Q 006388          343 SWTALVSGYAKFGKANETIDLFEKMLS  369 (647)
Q Consensus       343 ~~~~li~~~~~~g~~~~A~~~~~~m~~  369 (647)
                      +|..+...|...|++++|+..|++.++
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            566666677777777777777777665

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 ....

>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=84.49  E-value=17  Score=32.44  Aligned_cols=57  Identities=14%  Similarity=0.022  Sum_probs=31.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhcCCCCC------hhHHHHHHHHHHhcCChhHHHHHHHHHH
Q 006388          211 VGSALVDMYCKCKSIKYAESVFRTMAWKN------VVSWTAMLVGYGQNGCSEEAVKIFCNMQ  267 (647)
Q Consensus       211 ~~~~li~~y~~~g~~~~A~~~~~~~~~~~------~~~~~~li~~~~~~g~~~~A~~~~~~m~  267 (647)
                      .+..+.+.|.+.|+.+.|.+.|.++.+..      +..+-.+|......+++..+.....+..
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~  100 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAE  100 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            34556666666666666666666655432      1234455555555556555555555443

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.

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=84.49  E-value=7.2  Score=40.83  Aligned_cols=99  Identities=13%  Similarity=0.121  Sum_probs=52.0

Q ss_pred             HhcCChHHHHHHhhcCCCCCeehHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHhcCCChHHHHHHHH
Q 006388          119 LRRGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSVLTACGGLLALEEGKQIHA  198 (647)
Q Consensus       119 ~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~  198 (647)
                      .+.|+++.|.++..+.  .+..-|..|-.+..+.|++..|.+.|.....         |..|+-.+...|+-+....+-.
T Consensus       648 l~lgrl~iA~~la~e~--~s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~~la~  716 (794)
T KOG0276|consen  648 LKLGRLDIAFDLAVEA--NSEVKWRQLGDAALSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLAVLAS  716 (794)
T ss_pred             hhcCcHHHHHHHHHhh--cchHHHHHHHHHHhhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHHHHHH
Confidence            3456666666555442  2455577777777777777777777665543         4445555555555554444444


Q ss_pred             HHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhc
Q 006388          199 FIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRT  234 (647)
Q Consensus       199 ~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~  234 (647)
                      ...+.|..      |.-.-+|...|+++++.+++.+
T Consensus       717 ~~~~~g~~------N~AF~~~~l~g~~~~C~~lLi~  746 (794)
T KOG0276|consen  717 LAKKQGKN------NLAFLAYFLSGDYEECLELLIS  746 (794)
T ss_pred             HHHhhccc------chHHHHHHHcCCHHHHHHHHHh
Confidence            44444311      2222334455555555555443

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=84.41  E-value=4.2  Score=36.73  Aligned_cols=90  Identities=18%  Similarity=0.254  Sum_probs=39.6

Q ss_pred             HhcCCcHHHHHHHHHHHHHhcCCCcC-hHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-hhhHHHHHHHHHhcCChhH
Q 006388          386 CSRAGLVEKGRHYFEIMVKEYGIRPI-HDHYTCMIDILSRAGRLEEAKSFINKM-PFPPD-AIGWATLLSSCRIHGNVEI  462 (647)
Q Consensus       386 ~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~~~~~~  462 (647)
                      |-..|..+-|+-=|....   .+.|+ +.+||.|.--+...|+++.|.+.|+.. ...|. ..+...-.-++---|++..
T Consensus        75 YDSlGL~~LAR~DftQaL---ai~P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi~~YY~gR~~L  151 (297)
T COG4785          75 YDSLGLRALARNDFSQAL---AIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYYGGRYKL  151 (297)
T ss_pred             hhhhhHHHHHhhhhhhhh---hcCCCcHHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhccceeeeecCchHh
Confidence            334444444544444333   33443 244555555555555555555555544 33332 1111111112223455555


Q ss_pred             HHHHHHHHhccCCCCc
Q 006388          463 GKWAAESLLELDPYNP  478 (647)
Q Consensus       463 a~~~~~~~~~~~p~~~  478 (647)
                      |.+-+.+.-+.+|+||
T Consensus       152 Aq~d~~~fYQ~D~~DP  167 (297)
T COG4785         152 AQDDLLAFYQDDPNDP  167 (297)
T ss_pred             hHHHHHHHHhcCCCCh
Confidence            5555555555555443

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=84.10  E-value=1.6  Score=26.11  Aligned_cols=28  Identities=14%  Similarity=0.290  Sum_probs=24.3

Q ss_pred             hhHHHHHHhhhhCCChhHHHHHHHHHHh
Q 006388          479 ASYVLLSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       479 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      ..+..++.+|...|++++|.+.+++..+
T Consensus         2 ~~~~~lg~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF07719_consen    2 EAWYYLGQAYYQLGNYEEAIEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            4678899999999999999999998865

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 ....

>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=83.78  E-value=1.3  Score=24.92  Aligned_cols=24  Identities=21%  Similarity=0.283  Sum_probs=18.4

Q ss_pred             hhHHHHHHhhhhCCChhHHHHHHH
Q 006388          479 ASYVLLSSIYASKGKWDHVSQLRR  502 (647)
Q Consensus       479 ~~~~~l~~~~~~~g~~~~a~~~~~  502 (647)
                      .....|+.++...|++++|..+++
T Consensus         2 ~a~~~la~~~~~~G~~~eA~~~l~   25 (26)
T PF07721_consen    2 RARLALARALLAQGDPDEAERLLR   25 (26)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHh
Confidence            456677888888888888887765

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

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=83.77  E-value=1.3  Score=26.84  Aligned_cols=24  Identities=17%  Similarity=0.104  Sum_probs=14.4

Q ss_pred             CCchhhHHHHHHHHHhcCChHHHH
Q 006388           74 GSYVFVGSPLVDMYAKLGLIYDAK   97 (647)
Q Consensus        74 ~~~~~~~~~li~~~~~~g~~~~A~   97 (647)
                      |.+...++.|...|...|++++|+
T Consensus        10 P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen   10 PNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             CCCHHHHHHHHHHHHHCcCHHhhc
Confidence            445566666666666666666654

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=82.94  E-value=1.9  Score=27.22  Aligned_cols=28  Identities=18%  Similarity=0.370  Sum_probs=22.8

Q ss_pred             hhHHHHHHhhhhCCChhHHHHHHHHHHh
Q 006388          479 ASYVLLSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       479 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      .++..|+.+|...|++++|.+++++..+
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            4677889999999999999999988764

>KOG3364 consensus Membrane protein involved in organellar division [Cell wall/membrane/envelope biogenesis]

Probab=82.83  E-value=12  Score=31.09  Aligned_cols=64  Identities=14%  Similarity=0.040  Sum_probs=36.6

Q ss_pred             ChhhHHHHHHHHHhc---CChhHHHHHHHHHhc-cCCC-CchhHHHHHHhhhhCCChhHHHHHHHHHHh
Q 006388          443 DAIGWATLLSSCRIH---GNVEIGKWAAESLLE-LDPY-NPASYVLLSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       443 ~~~~~~~ll~~~~~~---~~~~~a~~~~~~~~~-~~p~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      +..+--.+..++...   .+..+++.+++.+.+ -.|. ......-|+-++.+.|+|+.+.++.+.+.+
T Consensus        31 s~~s~f~lAwaLV~S~~~~dv~~GI~iLe~l~~~~~~~~rRe~lyYLAvg~yRlkeY~~s~~yvd~ll~   99 (149)
T KOG3364|consen   31 SKQSQFNLAWALVRSRDTEDVQEGIVILEDLLKSAHPERRRECLYYLAVGHYRLKEYSKSLRYVDALLE   99 (149)
T ss_pred             hHHHHHHHHHHHHcccchHHHHHhHHHHHHHhhhcCcccchhhhhhhHHHHHHHhhHHHHHHHHHHHHh
Confidence            333333444444433   345566777777765 3333 233444566667777777777777777665

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=82.48  E-value=11  Score=29.56  Aligned_cols=60  Identities=17%  Similarity=0.274  Sum_probs=42.1

Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHH
Q 006388          359 ETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMID  420 (647)
Q Consensus       359 ~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~  420 (647)
                      +..+-+..+....+.|+.....+.|.||.+..++..|.++|+.+..+-+  +....|..+++
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            4555566666677899999999999999999999999999998876543  33337777664

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 ....

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=82.08  E-value=74  Score=33.77  Aligned_cols=141  Identities=9%  Similarity=0.043  Sum_probs=102.8

Q ss_pred             CcccHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCCcc-hHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCchhhHHHH
Q 006388            5 DGVSWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRI-TFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGSPL   83 (647)
Q Consensus         5 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l   83 (647)
                      +...|++||.---.....+.+...+..++..   -|..+ -|.....--.+.|..+.+..+|++.+. |++.++..+...
T Consensus        44 ~f~~wt~li~~~~~~~~~~~~r~~y~~fL~k---yPl~~gyW~kfA~~E~klg~~~~s~~Vfergv~-aip~SvdlW~~Y  119 (577)
T KOG1258|consen   44 DFDAWTTLIQENDSIEDVDALREVYDIFLSK---YPLCYGYWKKFADYEYKLGNAENSVKVFERGVQ-AIPLSVDLWLSY  119 (577)
T ss_pred             cccchHHHHhccCchhHHHHHHHHHHHHHhh---CccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHH-hhhhHHHHHHHH
Confidence            3457999888777777778888889988865   45544 345555555688899999999999875 466777777776


Q ss_pred             HHHHH-hcCChHHHHHHhccCCC------CCchHHHHHHHHHHhcCChHHHHHHhhcCCCCCeehHHHHHHHH
Q 006388           84 VDMYA-KLGLIYDAKRGFDELPE------KNIVMYNTMITGLLRRGLVEESRRLFRGMKDKDSISWTTMITGL  149 (647)
Q Consensus        84 i~~~~-~~g~~~~A~~~~~~~~~------~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~  149 (647)
                      +.... ..|+.+..++.|+...+      .....|...|.--..++++.....+++++.+-....++..-.-|
T Consensus       120 ~~f~~n~~~d~~~lr~~fe~A~~~vG~dF~S~~lWdkyie~en~qks~k~v~~iyeRileiP~~~~~~~f~~f  192 (577)
T KOG1258|consen  120 LAFLKNNNGDPETLRDLFERAKSYVGLDFLSDPLWDKYIEFENGQKSWKRVANIYERILEIPLHQLNRHFDRF  192 (577)
T ss_pred             HHHHhccCCCHHHHHHHHHHHHHhcccchhccHHHHHHHHHHhccccHHHHHHHHHHHHhhhhhHhHHHHHHH
Confidence            66544 45788888888887764      34567888888888999999999999988875444444444433

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=82.03  E-value=43  Score=31.00  Aligned_cols=87  Identities=16%  Similarity=0.306  Sum_probs=48.1

Q ss_pred             CcHHHHHHHHHHHHHhcCC-CcChHHHHHHH---HHHHHcCCHHHHHHHHHhC---CCCCChhhHHH---HHH-H-HHh-
Q 006388          390 GLVEKGRHYFEIMVKEYGI-RPIHDHYTCMI---DILSRAGRLEEAKSFINKM---PFPPDAIGWAT---LLS-S-CRI-  456 (647)
Q Consensus       390 g~~~~a~~~~~~~~~~~~~-~p~~~~~~~li---~~~~~~g~~~~A~~~~~~~---~~~p~~~~~~~---ll~-~-~~~-  456 (647)
                      .++++|+..|+..-+-|.. ..+...-.|++   +.-+..|++.+|.++|++.   ....+..-|..   ++. + |.- 
T Consensus       128 ~d~ekaI~~YE~Aae~yk~ees~ssANKC~lKvA~yaa~leqY~~Ai~iyeqva~~s~~n~LLKys~KdyflkAgLChl~  207 (288)
T KOG1586|consen  128 QDFEKAIAHYEQAAEYYKGEESVSSANKCLLKVAQYAAQLEQYSKAIDIYEQVARSSLDNNLLKYSAKDYFLKAGLCHLC  207 (288)
T ss_pred             HHHHHHHHHHHHHHHHHcchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccchHHHhHHHHHHHHHHHHhHh
Confidence            4555555555555432221 22222233343   3345678899999999887   23333333322   222 2 222 


Q ss_pred             cCChhHHHHHHHHHhccCCC
Q 006388          457 HGNVEIGKWAAESLLELDPY  476 (647)
Q Consensus       457 ~~~~~~a~~~~~~~~~~~p~  476 (647)
                      ..+.-.+...+++..+++|.
T Consensus       208 ~~D~v~a~~ALeky~~~dP~  227 (288)
T KOG1586|consen  208 KADEVNAQRALEKYQELDPA  227 (288)
T ss_pred             cccHHHHHHHHHHHHhcCCc
Confidence            36777788888999999996

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=81.96  E-value=69  Score=33.33  Aligned_cols=157  Identities=13%  Similarity=0.140  Sum_probs=94.9

Q ss_pred             hHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHH
Q 006388          241 VSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFY  320 (647)
Q Consensus       241 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  320 (647)
                      ...-+++..+.++..+.-...+..+|..-|  .+...|..++..|... ..+.-..+++++.+..+ .|+....-|++.|
T Consensus        67 ~~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~df-nDvv~~ReLa~~y  142 (711)
T COG1747          67 SCLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDF-NDVVIGRELADKY  142 (711)
T ss_pred             hHHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcc-hhHHHHHHHHHHH
Confidence            345567777777777777778888887754  4667777777777766 55666777777777653 3455556677777


Q ss_pred             HhcCCHHHHHHHHhhcCCC------C---hhhHHHHHHHHHHcCChHHHHHHHHHHHH-CCCCCCHHHHHHHHHHHhcCC
Q 006388          321 GKCGNIEDSHRLFNEMNVR------D---EVSWTALVSGYAKFGKANETIDLFEKMLS-HGLKPDEVTLIGVLSACSRAG  390 (647)
Q Consensus       321 ~~~g~~~~A~~~~~~~~~~------d---~~~~~~li~~~~~~g~~~~A~~~~~~m~~-~g~~p~~~t~~~ll~a~~~~g  390 (647)
                      -+ ++.+.+...|.++..+      +   -..|..++..-  ..+.+..+.+..+... .|..--.+.+.-+-.-|....
T Consensus       143 Ek-ik~sk~a~~f~Ka~yrfI~~~q~~~i~evWeKL~~~i--~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Ys~~e  219 (711)
T COG1747         143 EK-IKKSKAAEFFGKALYRFIPRRQNAAIKEVWEKLPELI--GDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKYSENE  219 (711)
T ss_pred             HH-hchhhHHHHHHHHHHHhcchhhhhhHHHHHHHHHHhc--cccHHHHHHHHHHHHHhhccchHHHHHHHHHHHhcccc
Confidence            66 7777777777765411      1   11344444311  2344555555555543 233333444444555666667


Q ss_pred             cHHHHHHHHHHHHH
Q 006388          391 LVEKGRHYFEIMVK  404 (647)
Q Consensus       391 ~~~~a~~~~~~~~~  404 (647)
                      ++++|++++..+.+
T Consensus       220 N~~eai~Ilk~il~  233 (711)
T COG1747         220 NWTEAIRILKHILE  233 (711)
T ss_pred             CHHHHHHHHHHHhh
Confidence            77777777666654

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=81.41  E-value=90  Score=34.32  Aligned_cols=68  Identities=16%  Similarity=0.001  Sum_probs=43.3

Q ss_pred             HHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCCcchHHHHHHHHhCCCCh-------HHHHHHHHHHHHhCCCCchh
Q 006388            9 WNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCV-------DLGRQIHGHILKFGFGSYVF   78 (647)
Q Consensus         9 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~~ll~~~~~~~~~-------~~a~~~~~~~~~~g~~~~~~   78 (647)
                      --++|=.+.+.|++++|.++.......-  ......|...++.+....+-       +....-+++..+.....|++
T Consensus       114 ~Wa~Iyy~LR~G~~~~A~~~~~~~~~~~--~~~~~~f~~~l~~~~~s~~~~l~~~~~~~l~~ey~~~~r~~~~~Dpy  188 (613)
T PF04097_consen  114 IWALIYYCLRCGDYDEALEVANENRNQF--QKIERSFPTYLKAYASSPDRRLPPELRDKLKLEYNQRIRNSTDGDPY  188 (613)
T ss_dssp             HHHHHHHHHTTT-HHHHHHHHHHTGGGS---TTTTHHHHHHHHCTTTTSS---TCCCHHHHHHHHHHTTT-TTS-HH
T ss_pred             cHHHHHHHHhcCCHHHHHHHHHHhhhhh--cchhHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHhcCCCCCChH
Confidence            3457778899999999999996665543  56677889999998775432       24445555555544333544

It is required for the correct assembly of the nuclear pore complex []. In Saccharomyces cerevisiae, Nic96 has been shown to be involved in the distribution and cellular concentration of the GTPase Gsp1 []. The structure of Nic96 has revealed a mostly alpha helical structure [].; GO: 0006810 transport, 0005643 nuclear pore; PDB: 2QX5_B 2RFO_A.

>PRK10941 hypothetical protein; Provisional

Probab=81.15  E-value=12  Score=35.99  Aligned_cols=62  Identities=23%  Similarity=0.137  Sum_probs=54.0

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHhC
Q 006388          446 GWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       446 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  507 (647)
                      ..+.|-.++.+.++++.|.++.+.++.+.|+++.-+..-+-+|.+.|.+..|..=++...+.
T Consensus       183 ml~nLK~~~~~~~~~~~AL~~~e~ll~l~P~dp~e~RDRGll~~qL~c~~~A~~DL~~fl~~  244 (269)
T PRK10941        183 LLDTLKAALMEEKQMELALRASEALLQFDPEDPYEIRDRGLIYAQLDCEHVALSDLSYFVEQ  244 (269)
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHHHh
Confidence            35666777889999999999999999999999988888999999999999999988887664

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=80.84  E-value=54  Score=31.42  Aligned_cols=58  Identities=14%  Similarity=0.032  Sum_probs=51.0

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHH
Q 006388          448 ATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMR  505 (647)
Q Consensus       448 ~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  505 (647)
                      +.....|...|.+.+|..+.++++.++|-+...+-.|.+.|+..|+--.|.+-++++.
T Consensus       283 gkva~~yle~g~~neAi~l~qr~ltldpL~e~~nk~lm~~la~~gD~is~~khyerya  340 (361)
T COG3947         283 GKVARAYLEAGKPNEAIQLHQRALTLDPLSEQDNKGLMASLATLGDEISAIKHYERYA  340 (361)
T ss_pred             HHHHHHHHHcCChHHHHHHHHHHhhcChhhhHHHHHHHHHHHHhccchhhhhHHHHHH
Confidence            3344568899999999999999999999999999999999999999888888777774

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=80.72  E-value=25  Score=27.52  Aligned_cols=88  Identities=11%  Similarity=0.130  Sum_probs=58.0

Q ss_pred             ChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHH
Q 006388          189 ALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQR  268 (647)
Q Consensus       189 ~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  268 (647)
                      ..++|..+-+.+...+-. ...+--.-+..+...|++++|..+.+.+..||...|-+|-..  +.|..+++..-+.+|..
T Consensus        20 cHqEA~tIAdwL~~~~~~-~E~v~lIRlsSLmNrG~Yq~Al~l~~~~~~pdlepw~ALce~--rlGl~s~l~~rl~rla~   96 (115)
T TIGR02508        20 CHQEANTIADWLHLKGES-EEAVQLIRLSSLMNRGDYQSALQLGNKLCYPDLEPWLALCEW--RLGLGSALESRLNRLAA   96 (115)
T ss_pred             HHHHHHHHHHHHhcCCch-HHHHHHHHHHHHHccchHHHHHHhcCCCCCchHHHHHHHHHH--hhccHHHHHHHHHHHHh
Confidence            345555555555443311 222222334567788999999999999999999999887653  56777777777777877


Q ss_pred             CCCCCCHHHHHH
Q 006388          269 NGIEPDDFTLGS  280 (647)
Q Consensus       269 ~g~~p~~~t~~~  280 (647)
                      +| .|...+|..
T Consensus        97 sg-~p~lq~Faa  107 (115)
T TIGR02508        97 SG-DPRLQTFVA  107 (115)
T ss_pred             CC-CHHHHHHHH
Confidence            76 565555543

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.

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=80.66  E-value=5.1  Score=38.77  Aligned_cols=86  Identities=21%  Similarity=0.205  Sum_probs=61.4

Q ss_pred             HHHHHHcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcC
Q 006388          348 VSGYAKFGKANETIDLFEKMLSHGLKP-DEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAG  426 (647)
Q Consensus       348 i~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g  426 (647)
                      ..-|.+.|.+++|++.|..-..  +.| |.+++..-..||.+...+..|..-.+..+.         .-...+.+|.|.|
T Consensus       104 GN~yFKQgKy~EAIDCYs~~ia--~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~Aia---------Ld~~Y~KAYSRR~  172 (536)
T KOG4648|consen  104 GNTYFKQGKYEEAIDCYSTAIA--VYPHNPVYHINRALAYLKQKSFAQAEEDCEAAIA---------LDKLYVKAYSRRM  172 (536)
T ss_pred             hhhhhhccchhHHHHHhhhhhc--cCCCCccchhhHHHHHHHHHHHHHHHHhHHHHHH---------hhHHHHHHHHHHH
Confidence            4569999999999999998776  467 899999999999999988887766555442         1123456666654


Q ss_pred             -------CHHHHHHHHHhC-CCCCCh
Q 006388          427 -------RLEEAKSFINKM-PFPPDA  444 (647)
Q Consensus       427 -------~~~~A~~~~~~~-~~~p~~  444 (647)
                             ...||.+-++.. .++|+.
T Consensus       173 ~AR~~Lg~~~EAKkD~E~vL~LEP~~  198 (536)
T KOG4648|consen  173 QARESLGNNMEAKKDCETVLALEPKN  198 (536)
T ss_pred             HHHHHHhhHHHHHHhHHHHHhhCccc
Confidence                   555555555444 466763

>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins

Probab=80.61  E-value=15  Score=32.49  Aligned_cols=45  Identities=16%  Similarity=0.121  Sum_probs=31.0

Q ss_pred             hhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCC----hhHHHHHHHHH
Q 006388          460 VEIGKWAAESLLELDPYNPASYVLLSSIYASKGK----WDHVSQLRRTM  504 (647)
Q Consensus       460 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~----~~~a~~~~~~m  504 (647)
                      +++|+.-+++++.++|+...++..++++|...|.    -.+|.++|++.
T Consensus        51 iedAisK~eeAL~I~P~~hdAlw~lGnA~ts~A~l~~d~~~A~~~F~kA   99 (186)
T PF06552_consen   51 IEDAISKFEEALKINPNKHDALWCLGNAYTSLAFLTPDTAEAEEYFEKA   99 (186)
T ss_dssp             HHHHHHHHHHHHHH-TT-HHHHHHHHHHHHHHHHH---HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHhhcCChHHHHHHHHHH
Confidence            4567777788888999999999999999987664    23444444444

Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.

>smart00028 TPR Tetratricopeptide repeats

Probab=80.13  E-value=3.5  Score=23.48  Aligned_cols=29  Identities=28%  Similarity=0.189  Sum_probs=15.7

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHhccCC
Q 006388          447 WATLLSSCRIHGNVEIGKWAAESLLELDP  475 (647)
Q Consensus       447 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~p  475 (647)
                      |..+...+...++++.|...+++.++..|
T Consensus         4 ~~~~a~~~~~~~~~~~a~~~~~~~~~~~~   32 (34)
T smart00028        4 LYNLGNAYLKLGDYDEALEYYEKALELDP   32 (34)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHccCC
Confidence            44445555555555555555555555544

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.

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=80.03  E-value=52  Score=30.70  Aligned_cols=24  Identities=13%  Similarity=0.113  Sum_probs=13.4

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHH
Q 006388          243 WTAMLVGYGQNGCSEEAVKIFCNM  266 (647)
Q Consensus       243 ~~~li~~~~~~g~~~~A~~~~~~m  266 (647)
                      ++--...|..+|.++.|-..+++.
T Consensus        94 ~eKAs~lY~E~GspdtAAmaleKA  117 (308)
T KOG1585|consen   94 YEKASELYVECGSPDTAAMALEKA  117 (308)
T ss_pred             HHHHHHHHHHhCCcchHHHHHHHH
Confidence            444555666666666655555443

---

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	647
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-13
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-07
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-10
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-06
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	6e-06
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	8e-05
3tax_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	2e-04
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	3e-04

>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 = 73.7 bits (180), Expect = 1e-13
 Identities = 96/631 (15%), Positives = 180/631 (28%), Gaps = 199/631 (31%)

Query: 76  YVFVGSPLVDMYAKLGLIYDAKRGFDELPEKNIVMYNTMITGLLRRGLVEESRRLFRGMK 135
             FV   L   Y     +    +     P     MY            +E+  RL+   +
Sbjct: 80  QKFVEEVLRINY---KFLMSPIKTEQRQPSMMTRMY------------IEQRDRLYNDNQ 124

Query: 136 --DKDSISWTTMITGLMQNGLE--REAIDLFREMRLEGLAMDQFTFGSVLTACGGLLALE 191
              K ++S       L +  L   R A ++     ++G+       GS            
Sbjct: 125 VFAKYNVSRLQPYLKL-RQALLELRPAKNVL----IDGVL------GS------------ 161

Query: 192 EGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWKNVVSWTAMLVGYG 251
            GK                     +    +CK       +F    W N+           
Sbjct: 162 -GKT-------------WVALDVCLSYKVQCK---MDFKIF----WLNL----------K 190

Query: 252 QNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSC-ANLASLEEGTQ--FHGRSLVTGLIS 308
                E  +++   +    I+P+  +     S+    + S++   +     +     L+ 
Sbjct: 191 NCNSPETVLEMLQKLLYQ-IDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLV 249

Query: 309 FITVSNALV--TFYGKC--------GNIEDSHRLFNEMNVR-DEVSWTALVSGYAKFGKA 357
            + V NA     F   C          + D        ++  D  S T            
Sbjct: 250 LLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMT--------LTPD 301

Query: 358 NETIDLFEKMLSHGLK--PDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIH-DH 414
            E   L  K L    +  P EV         S               +++      +  H
Sbjct: 302 -EVKSLLLKYLDCRPQDLPREVLTTNPR-RLSIIAE----------SIRDGLATWDNWKH 349

Query: 415 YTCMIDILSRAGRLEEA-KSFINKMP-------------FPPDA--------IGWATLLS 452
             C         +L    +S +N +              FPP A        + W  ++ 
Sbjct: 350 VNCD--------KLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIK 401

Query: 453 SCRIHGNVE--IGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREKGVR 510
           S      V   + K    SL+E  P   ++  + S     K K ++   L R++ +    
Sbjct: 402 SD-----VMVVVNKLHKYSLVEKQP-KESTISIPSIYLELKVKLENEYALHRSIVDH--- 452

Query: 511 KDPGCSWIKYKSRVHIFSADDWSSPYSDQ------------------------IYAELEK 546
                    Y      F +DD   PY DQ                        ++ +   
Sbjct: 453 ---------YNIPKT-FDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRF 502

Query: 547 LNRKMIKEGY----VPDMSSVLHDVELSEKIKMLNH-HSEKLAIAFGLLFIPPGLPIRVV 601
           L +K+  +         + + L  ++  +     N    E+L  A  L F+P     ++ 
Sbjct: 503 LEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAI-LDFLP-----KIE 556

Query: 602 KNLRVCSDCHNATKYISKITQREILVRDAVR 632
           +NL +CS   +  + I+ + + E +  +A +
Sbjct: 557 ENL-ICSKYTDLLR-IALMAEDEAIFEEAHK 585

>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 = 52.2 bits (124), Expect = 4e-07
 Identities = 91/606 (15%), Positives = 172/606 (28%), Gaps = 208/606 (34%)

Query: 188 LALEEGKQIHAFIIRNDHKD--NVFVGSALVDMYCKCKSIK-YAESVFRTMAWKNVVS-- 242
           +  E G+  + +      KD  +VF  + + +    CK ++   +S+       +++   
Sbjct: 7   MDFETGEHQYQY------KDILSVFEDAFVDNF--DCKDVQDMPKSILSKEEIDHIIMSK 58

Query: 243 ----------WTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPD-DFTLGSVISSCANLASL 291
                     WT  L+        EE V+ F       +  +  F L S I +     S+
Sbjct: 59  DAVSGTLRLFWT--LLSKQ-----EEMVQKFVE---EVLRINYKF-LMSPIKTEQRQPSM 107

Query: 292 EEGTQFHGRSL------------VTGLISFITVSNAL--------VTFYGK--CG----- 324
                   R              V+ L  ++ +  AL        V   G    G     
Sbjct: 108 MTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVA 167

Query: 325 -NIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEKM--LSHGLKPDEVTLIG 381
            ++  S+++  +M+   ++ W             N    + E +  L + + P+  +   
Sbjct: 168 LDVCLSYKVQCKMD--FKIFW-------LNLKNCNSPETVLEMLQKLLYQIDPNWTSRSD 218

Query: 382 VLSACSRAGLVEKGRHYFEIMVKEYGIRP----IHDH-----------YTCMIDILSR-- 424
             S         +      +  K Y        +  +            +C I + +R  
Sbjct: 219 HSSNIKLRIHSIQAELRRLLKSKPY---ENCLLVLLNVQNAKAWNAFNLSCKILLTTRFK 275

Query: 425 -------AGRLEEAKSFINKMPFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPY- 476
                  A          + M   PD +   +LL            K+      +L P  
Sbjct: 276 QVTDFLSAATTTHISLDHHSMTLTPDEV--KSLLL-----------KYLDCRPQDL-PRE 321

Query: 477 ----NPASYVLLSSIYAS----KGKWDHVSQLR----RTMREKGVRK-DPGCSWIKYKSR 523
               NP     LS I  S       WD+   +      T+ E  +   +P      +   
Sbjct: 322 VLTTNP---RRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRL 378

Query: 524 VHIFSADD----------WSSPYSDQIYAELEKLNRKMIKEGYVPDMSSVLHDVELSEKI 573
             +F              W       +   + KL++  + E    + +  +  + L  K+
Sbjct: 379 S-VFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKV 437

Query: 574 KMLN-------------------------------------HH------SEKLAIAFGLL 590
           K+ N                                     HH       E++ + F ++
Sbjct: 438 KLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTL-FRMV 496

Query: 591 FIPPGLPIRVVKN-LRVCSDCHNAT--------------KYISKI-TQREILVRDAVRFH 634
           F    L  R ++  +R  S   NA+               YI     + E LV   + F 
Sbjct: 497 F----LDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDF- 551

Query: 635 LFKNGE 640
           L K  E
Sbjct: 552 LPKIEE 557

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 64.1 bits (154), Expect = 1e-10
 Identities = 26/187 (13%), Positives = 53/187 (28%), Gaps = 7/187 (3%)

Query: 266 MQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGN 325
            ++    P +  L  ++       SL+      G+     L        A          
Sbjct: 83  TRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQ 142

Query: 326 IEDSHRLFNEM-------NVRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVT 378
           +  +H L            +     + A++ G+A+ G   E + +   +   GL PD ++
Sbjct: 143 LPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLS 202

Query: 379 LIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM 438
               L    R              + + G++        ++    RA  L+         
Sbjct: 203 YAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTF 262

Query: 439 PFPPDAI 445
             PP   
Sbjct: 263 SLPPQLP 269

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 50.6 bits (119), Expect = 2e-06
 Identities = 34/271 (12%), Positives = 78/271 (28%), Gaps = 21/271 (7%)

Query: 130 LFRGMKDKDSISWTTMITGLMQNGLEREAIDL----FREMRLEGLAMDQFTFGSVLTACG 185
           L    +      W   +  L+Q    + ++D+      +     L+  Q    +    C 
Sbjct: 79  LEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCL 138

Query: 186 GLLALEEGKQI---HAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWK---- 238
               L     +   H    +      + + +A++  + +  + K    V   +       
Sbjct: 139 LTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTP 198

Query: 239 NVVSWTAMLVGYGQNGCSEEAV-KIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQF 297
           +++S+ A L   G+       + +    M + G++        ++S       L+   + 
Sbjct: 199 DLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKV 258

Query: 298 HGRSLVTG-LISFITVSNALVTFYGKCGNIEDSHRLFNEMN--------VRDEVSWTALV 348
                +   L   +  S  L   Y K G +                   +  E++    V
Sbjct: 259 KPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPLKTLQCLFEKQLHMELASRVCV 318

Query: 349 SGYAKFGKANETIDLFEKMLSHGLKPDEVTL 379
               K    ++ +    K L       E  L
Sbjct: 319 VSVEKPTLPSKEVKHARKTLKTLRDQWEKAL 349

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 48.7 bits (114), Expect = 6e-06
 Identities = 18/115 (15%), Positives = 37/115 (32%), Gaps = 12/115 (10%)

Query: 83  LVDMYAKLG-------LIYDAKRGFDELPEKNIVMYNTMITGLLRRGLVEESRRLFRGMK 135
                           L+        +     + MYN ++ G  R+G  +E   +   +K
Sbjct: 133 FFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVK 192

Query: 136 DK----DSISWTTMITGLMQNGLEREAI-DLFREMRLEGLAMDQFTFGSVLTACG 185
           D     D +S+   +  + +   +   I     +M  EGL +       +L+   
Sbjct: 193 DAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEED 247

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 44.8 bits (104), Expect = 8e-05
 Identities = 10/82 (12%), Positives = 25/82 (30%), Gaps = 7/82 (8%)

Query: 111 YNTMITGLLRRGLVEESRRLFRGMKDK-------DSISWTTMITGLMQNGLEREAIDLFR 163
                   L    +  +  L      +           +  ++ G  + G  +E + +  
Sbjct: 130 LLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLF 189

Query: 164 EMRLEGLAMDQFTFGSVLTACG 185
            ++  GL  D  ++ + L   G
Sbjct: 190 MVKDAGLTPDLLSYAAALQCMG 211

>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 = 43.6 bits (102), Expect = 2e-04
 Identities = 35/201 (17%), Positives = 69/201 (34%), Gaps = 13/201 (6%)

Query: 343 SWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVL-SACSRAGLVEKGRHYFEI 401
           S   L +   + G   E + L+ K L   + P+       L S   + G +++   +++ 
Sbjct: 11  SLNNLANIKREQGNIEEAVRLYRKALE--VFPEFAAAHSNLASVLQQQGKLQEALMHYKE 68

Query: 402 MVKEYGIRPIH-DHYTCMIDILSRAGRLEEAKSFINKM--PFPPDAIGWATLLSSCRIHG 458
            ++   I P   D Y+ M + L     ++ A     +     P  A   + L S  +  G
Sbjct: 69  AIR---ISPTFADAYSNMGNTLKEMQDVQGALQCYTRAIQINPAFADAHSNLASIHKDSG 125

Query: 459 NVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREKGVRKDPGCSWI 518
           N+     +  + L+L P  P +Y  L+        W    +  +    K V         
Sbjct: 126 NIPEAIASYRTALKLKPDFPDAYCNLAHCLQIVCDWTDYDERMK----KLVSIVADQLEK 181

Query: 519 KYKSRVHIFSADDWSSPYSDQ 539
                VH   +  +   +  +
Sbjct: 182 NRLPSVHPHHSMLYPLSHGFR 202

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus} Length = 291

 Score = 42.4 bits (99), Expect = 3e-04
 Identities = 22/187 (11%), Positives = 48/187 (25%), Gaps = 39/187 (20%)

Query: 311 TVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEKMLSH 370
           T      + Y    N + + R  ++ +          V    K  + +      +KM   
Sbjct: 102 TFLLMAASIYFYDQNPDAALRTLHQGD--SLECMAMTVQILLKLDRLDLARKELKKMQD- 158

Query: 371 GLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEE 430
               D                                   +    T  + + +   +L++
Sbjct: 159 -QDEDA---------------------------------TLTQLATAWVSLAAGGEKLQD 184

Query: 431 AKSFINKM--PFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIY 488
           A     +M     P  +      +     G  E  +   +  L+ D  +P + + L  + 
Sbjct: 185 AYYIFQEMADKCSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDSGHPETLINLVVLS 244

Query: 489 ASKGKWD 495
              GK  
Sbjct: 245 QHLGKPP 251

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	647
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.96
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.96
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.95
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.95
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.92
2gw1_A	514	Mitochondrial precursor proteins import receptor;	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	99.9
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.89
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.83
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.83
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.82
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.82
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.81
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.79
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.79
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.78
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.77
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.77
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.76
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.76
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.75
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.74
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.73
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.73
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.72
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.72
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.7
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.69
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.69
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.66
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.65
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.65
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.64
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.6
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.59
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.58
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.56
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.55
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.54
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.5
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.49
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.49
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.48
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.48
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.48
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.48
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.47
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.47
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.47
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.47
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.46
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.45
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.44
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.43
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.43
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.43
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.43
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.42
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.4
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.38
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.34
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.33
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.33
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.31
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.31
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.31
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.3
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.28
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.28
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.27
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.27
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.25
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.23
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.22
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.21
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.19
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.19
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.15
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.11
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.11
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.08
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.06
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.0
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	98.99
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.98
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	98.97
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.96
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	98.94
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.93
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.93
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.93
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.89
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.89
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.88
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.85
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.8
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.8
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.79
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.78
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.78
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.77
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.75
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.75
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.72
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.72
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.72
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.72
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.68
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.67
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.67
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.66
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.64
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.63
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.61
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.61
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.61
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.6
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.6
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.6
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.59
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.57
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.57
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.55
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.54
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.52
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.5
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.5
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.46
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.45
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.45
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.45
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.44
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.4
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.39
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.38
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.38
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.37
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.37
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.37
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.35
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.34
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.34
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.32
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.31
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.31
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.3
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.3
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.3
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.29
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.27
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.26
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.25
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.25
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.24
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.23
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.22
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.22
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.21
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.21
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.19
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.17
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.16
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.13
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.13
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.12
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.12
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.12
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.11
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.07
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.07
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.06
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.05
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.04
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.02
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.01
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.01
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.0
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.99
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.98
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	97.97
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	97.96
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.96
3k9i_A	117	BH0479 protein; putative protein binding protein,	97.94
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.93
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	97.91
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	97.9
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.9
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.83
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.8
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	97.79
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.77
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.76
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.75
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.73
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	97.73
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.72
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.71
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.57
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.51
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.46
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.39
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.35
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.26
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.25
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.2
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.16
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.14
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	97.07
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.06
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.99
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.94
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.91
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.91
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.88
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	96.85
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.81
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.71
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.68
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.3
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.27
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.11
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	96.07
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	96.03
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	95.95
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	95.51
1pc2_A	152	Mitochondria fission protein; unknown function; NM	95.28
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	95.09
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	94.86
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	94.61
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	93.3
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	93.1
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	92.87
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	92.82
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	92.42
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	92.37
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	91.46
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	90.2
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	89.7
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	89.52
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	89.29
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	88.91
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	88.15
2p58_C	116	Putative type III secretion protein YSCG; type III	86.91
2qx5_A	661	Nucleoporin NIC96; mRNA transport, nuclear pore co	86.8
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	85.86
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	84.89
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	84.61
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	84.04
3ltm_A	211	Alpha-REP4; protein engineering, heat-like repeat,	83.84
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	83.79
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	83.73
2p58_C	116	Putative type III secretion protein YSCG; type III	83.5
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	82.58
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	82.18
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	82.13
1wdy_A	285	2-5A-dependent ribonuclease; hydrolase, RNA-bindin	81.82
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	81.31
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	81.23
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	80.86
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	80.67

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=2.1e-41  Score=370.08  Aligned_cols=476  Identities=9%  Similarity=-0.045  Sum_probs=393.0

Q ss_pred             cCCChhHHHHHHHHHHHCCCCCCCcchHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHHhcCChHHHH
Q 006388           18 SHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGSPLVDMYAKLGLIYDAK   97 (647)
Q Consensus        18 ~~g~~~~A~~~~~~m~~~g~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~   97 (647)
                      +.|....+...+..+.     .++...|+.++..+.+.|++++|..+++++.+..  |+..++..++.+|.+.|++++|.
T Consensus        65 ~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--p~~~~~~~l~~~~~~~g~~~~A~  137 (597)
T 2xpi_A           65 TDGSFLKERNAQNTDS-----LSREDYLRLWRHDALMQQQYKCAAFVGEKVLDIT--GNPNDAFWLAQVYCCTGDYARAK  137 (597)
T ss_dssp             ----------------------CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--CCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             ccCccCCCCCccccch-----HHHHHHHHHHHHHHHHccCchHHHHHHHHHHhhC--CCchHHHHHHHHHHHcCcHHHHH
Confidence            3444555555555443     4577788889999999999999999998888643  56678888889999999999999


Q ss_pred             HHhccCC--CCCchHHHHHHHHHHhcCChHHHHHHhhcCCCC-------------------CeehHHHHHHHHHhCCChh
Q 006388           98 RGFDELP--EKNIVMYNTMITGLLRRGLVEESRRLFRGMKDK-------------------DSISWTTMITGLMQNGLER  156 (647)
Q Consensus        98 ~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-------------------~~~~~~~li~~~~~~g~~~  156 (647)
                      .+|+.+.  .++..+|+.++.+|.+.|++++|.++|+++...                   +..+|+.++.+|.+.|+++
T Consensus       138 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  217 (597)
T 2xpi_A          138 CLLTKEDLYNRSSACRYLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFD  217 (597)
T ss_dssp             HHHHHTCGGGTCHHHHHHHHHHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHhccccchhHHHHHHHHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHH
Confidence            9998884  578888999999999999999999999854433                   3789999999999999999


Q ss_pred             HHHHHHHHHHHCCCCCChh-hHHHHHHHHhcCCChHHH--HHH-HHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHH
Q 006388          157 EAIDLFREMRLEGLAMDQF-TFGSVLTACGGLLALEEG--KQI-HAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVF  232 (647)
Q Consensus       157 ~A~~~~~~m~~~g~~pd~~-t~~~ll~~~~~~~~~~~a--~~~-~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~  232 (647)
                      +|+++|++|.+.+  |+.. .+..+...+...+..+.+  ..+ +..+...+......+++.++.+|.+.|++++|.++|
T Consensus       218 ~A~~~~~~~~~~~--p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~  295 (597)
T 2xpi_A          218 RAKECYKEALMVD--AKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYL  295 (597)
T ss_dssp             HHHHHHHHHHHHC--TTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC--chhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHH
Confidence            9999999998854  4443 444444333332222211  111 344444444555667788899999999999999999


Q ss_pred             hcCCC--CChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcch
Q 006388          233 RTMAW--KNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFI  310 (647)
Q Consensus       233 ~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~  310 (647)
                      +++..  +++.+|+.++.+|.+.|++++|+++|+++.+.+ +.+..++..++.++...|+.++|..++..+.+.. +.+.
T Consensus       296 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~  373 (597)
T 2xpi_A          296 SSINGLEKSSDLLLCKADTLFVRSRFIDVLAITTKILEID-PYNLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEKA  373 (597)
T ss_dssp             HTSTTGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSH
T ss_pred             HHhhcCCchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccH
Confidence            99987  799999999999999999999999999999765 3467889999999999999999999999998664 5678


Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHh
Q 006388          311 TVSNALVTFYGKCGNIEDSHRLFNEMN---VRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACS  387 (647)
Q Consensus       311 ~~~~~li~~~~~~g~~~~A~~~~~~~~---~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~  387 (647)
                      .+++.++.+|.++|++++|.++|+++.   ..+..+|+.++.+|.+.|++++|+++|++|.+.+ +++..++..++.+|.
T Consensus       374 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~  452 (597)
T 2xpi_A          374 VTWLAVGIYYLCVNKISEARRYFSKSSTMDPQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHM  452 (597)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHH
Confidence            899999999999999999999999875   4578899999999999999999999999999863 457789999999999


Q ss_pred             cCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-------CCCCC--hhhHHHHHHHHHhcC
Q 006388          388 RAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-------PFPPD--AIGWATLLSSCRIHG  458 (647)
Q Consensus       388 ~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-------~~~p~--~~~~~~ll~~~~~~~  458 (647)
                      +.|++++|.++|+.+.+.  .+.+..+|+.++.+|.+.|++++|.++|+++       +..|+  ..+|..++.+|.+.|
T Consensus       453 ~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g  530 (597)
T 2xpi_A          453 QLGNILLANEYLQSSYAL--FQYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLK  530 (597)
T ss_dssp             HHTCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTT
T ss_pred             HcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhc
Confidence            999999999999999874  3446889999999999999999999999988       45777  789999999999999


Q ss_pred             ChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHhC
Q 006388          459 NVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       459 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  507 (647)
                      ++++|+..++++++.+|+++.+|..++.+|.+.|++++|.++++++.+.
T Consensus       531 ~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~  579 (597)
T 2xpi_A          531 MYDAAIDALNQGLLLSTNDANVHTAIALVYLHKKIPGLAITHLHESLAI  579 (597)
T ss_dssp             CHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhc
Confidence            9999999999999999999999999999999999999999999999874

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=1.8e-41  Score=370.63  Aligned_cols=480  Identities=8%  Similarity=-0.053  Sum_probs=414.9

Q ss_pred             CCCCCcccHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCCcchHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCchhhH
Q 006388            1 MPFHDGVSWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVG   80 (647)
Q Consensus         1 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~   80 (647)
                      +|.+++..|+.++..|.+.|++++|+.+|++|...   .||..++..++.+|...|++++|..+++.+...  ++++.++
T Consensus        79 ~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~---~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~  153 (597)
T 2xpi_A           79 DSLSREDYLRLWRHDALMQQQYKCAAFVGEKVLDI---TGNPNDAFWLAQVYCCTGDYARAKCLLTKEDLY--NRSSACR  153 (597)
T ss_dssp             ---CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---HCCHHHHHHHHHHHHHTTCHHHHHHHHHHTCGG--GTCHHHH
T ss_pred             chHHHHHHHHHHHHHHHHccCchHHHHHHHHHHhh---CCCchHHHHHHHHHHHcCcHHHHHHHHHHHhcc--ccchhHH
Confidence            35678889999999999999999999999999964   568899999999999999999999999988654  6789999


Q ss_pred             HHHHHHHHhcCChHHHHHHhccCCCC-------------------CchHHHHHHHHHHhcCChHHHHHHhhcCCCC---C
Q 006388           81 SPLVDMYAKLGLIYDAKRGFDELPEK-------------------NIVMYNTMITGLLRRGLVEESRRLFRGMKDK---D  138 (647)
Q Consensus        81 ~~li~~~~~~g~~~~A~~~~~~~~~~-------------------~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~  138 (647)
                      +.++.+|.++|++++|.++|+++...                   +..+|+.++.+|.+.|++++|.++|+++.+.   +
T Consensus       154 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~  233 (597)
T 2xpi_A          154 YLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVDAKC  233 (597)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCchh
Confidence            99999999999999999999965433                   4789999999999999999999999998753   3


Q ss_pred             eehHHHHHHHHHhCCChhHHHH--H-HHHHHHCCCCCChhhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHHHH
Q 006388          139 SISWTTMITGLMQNGLEREAID--L-FREMRLEGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSAL  215 (647)
Q Consensus       139 ~~~~~~li~~~~~~g~~~~A~~--~-~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l  215 (647)
                      ...|..+...+...+..+.+..  + +..+...+..++..+|+.++..|.+.|++++|.++++.+.+.  +++..+++.+
T Consensus       234 ~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l  311 (597)
T 2xpi_A          234 YEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGL--EKSSDLLLCK  311 (597)
T ss_dssp             HHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTG--GGCHHHHHHH
T ss_pred             hHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHHHhhcC--CchHHHHHHH
Confidence            3455555554444433332222  1 555555555556667777888899999999999999998876  5889999999


Q ss_pred             HHHHHhcCCHHHHHHHHhcCC---CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChH
Q 006388          216 VDMYCKCKSIKYAESVFRTMA---WKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLE  292 (647)
Q Consensus       216 i~~y~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~  292 (647)
                      +.+|.+.|++++|.++|+++.   ..+..+|+.++.+|.+.|++++|..+|+++.+.. +.+..++..+...+.+.|+++
T Consensus       312 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~  390 (597)
T 2xpi_A          312 ADTLFVRSRFIDVLAITTKILEIDPYNLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKIS  390 (597)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhccHH
Confidence            999999999999999999985   3477899999999999999999999999998653 456789999999999999999


Q ss_pred             HHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHHHHHcCChHHHHHHHHHHHH
Q 006388          293 EGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMN---VRDEVSWTALVSGYAKFGKANETIDLFEKMLS  369 (647)
Q Consensus       293 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~  369 (647)
                      +|.+++..+.+.. +.+..+++.++.+|.+.|++++|.++|+++.   ..+..+|+.++.+|.+.|++++|+++|++|.+
T Consensus       391 ~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  469 (597)
T 2xpi_A          391 EARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLFQGTHLPYLFLGMQHMQLGNILLANEYLQSSYA  469 (597)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            9999999998864 4567899999999999999999999999875   44789999999999999999999999999998


Q ss_pred             CCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhc---CCCcC--hHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-
Q 006388          370 HGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEY---GIRPI--HDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-  442 (647)
Q Consensus       370 ~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~---~~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-  442 (647)
                      .. +.+..+|..++..|.+.|++++|.++|+.+.+..   +..|+  ..+|..++.+|.+.|++++|.++++++ ...| 
T Consensus       470 ~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  548 (597)
T 2xpi_A          470 LF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLSTN  548 (597)
T ss_dssp             HC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSC
T ss_pred             hC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC
Confidence            53 3467899999999999999999999999997643   55777  789999999999999999999999988 3334 


Q ss_pred             ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhh
Q 006388          443 DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYAS  490 (647)
Q Consensus       443 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  490 (647)
                      +..+|..+..+|...|++++|...++++++++|+++..+..|+++|..
T Consensus       549 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~  596 (597)
T 2xpi_A          549 DANVHTAIALVYLHKKIPGLAITHLHESLAISPNEIMASDLLKRALEE  596 (597)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHTTC-
T ss_pred             ChHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCChHHHHHHHHHHhc
Confidence            689999999999999999999999999999999999999999999864

>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=6e-28  Score=253.15  Aligned_cols=183  Identities=13%  Similarity=0.186  Sum_probs=153.8

Q ss_pred             hHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCC---------hHHHHHHHHHHHHhCCCcchh
Q 006388          241 VSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLAS---------LEEGTQFHGRSLVTGLISFIT  311 (647)
Q Consensus       241 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~---------~~~a~~~~~~~~~~~~~~~~~  311 (647)
                      ..++.+|.+|++.|+.++|+++|++|.+.|++||..||+++|.+|+..+.         ++.|.++|++|.+.|+.||..
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            35677788888888888888888888888888888888888888876543         577888888888888888888


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhhcC----CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHh
Q 006388          312 VSNALVTFYGKCGNIEDSHRLFNEMN----VRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACS  387 (647)
Q Consensus       312 ~~~~li~~~~~~g~~~~A~~~~~~~~----~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~  387 (647)
                      +||+||.+|++.|++++|.++|++|.    .||..+||+||.+|++.|+.++|.++|++|.+.|+.||..||+++|.+|+
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            88888888888888888888888876    56888888888888888888888888888888888888888888888888


Q ss_pred             cCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHH
Q 006388          388 RAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSR  424 (647)
Q Consensus       388 ~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~  424 (647)
                      +.|++++|.++|++|.+. +..|+..+|+.++..+.+
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            888888888888888765 888888888888888765

>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=1.4e-25  Score=230.74  Aligned_cols=343  Identities=11%  Similarity=0.064  Sum_probs=197.5

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHh
Q 006388          142 WTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCK  221 (647)
Q Consensus       142 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~  221 (647)
                      +..+...+.+.|++++|...++...+.. +.+..++..+...+...|++++|.+.++.+++.. +.+...+..+..+|.+
T Consensus        36 ~~~l~~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~  113 (388)
T 1w3b_A           36 LLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLK-PDFIDGYINLAAALVA  113 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHH
Confidence            3333344444444444444444443321 1233344444444444444444444444444432 2223344445555555


Q ss_pred             cCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHH
Q 006388          222 CKSIKYAESVFRTMAW---KNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFH  298 (647)
Q Consensus       222 ~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~  298 (647)
                      .|++++|.+.|+++..   .+...+..+...+...|++++|.+.|+++.... +-+..++..+...+...|++++|...+
T Consensus       114 ~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~  192 (388)
T 1w3b_A          114 AGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHF  192 (388)
T ss_dssp             HSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            5555555555544431   123344445555555555555555555554431 112344555555555555555555555


Q ss_pred             HHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC
Q 006388          299 GRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMN---VRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPD  375 (647)
Q Consensus       299 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  375 (647)
                      +.+.+.+ +.+...+..+...+...|++++|...|++..   ..+..+|..+...|...|++++|+..|+++.+.  .|+
T Consensus       193 ~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~  269 (388)
T 1w3b_A          193 EKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIEL--QPH  269 (388)
T ss_dssp             HHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--CSS
T ss_pred             HHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCC
Confidence            5555543 2334455556666666666666666666543   234566777777777777777777777777764  333


Q ss_pred             -HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-hhhHHHHHH
Q 006388          376 -EVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPPD-AIGWATLLS  452 (647)
Q Consensus       376 -~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~  452 (647)
                       ..++..+..++.+.|++++|...|+.+.+.  .+++...+..+...+.+.|++++|.+.++++ ...|+ ..+|..+..
T Consensus       270 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~  347 (388)
T 1w3b_A          270 FPDAYCNLANALKEKGSVAEAEDCYNTALRL--CPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLAS  347 (388)
T ss_dssp             CHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHH
Confidence             446667777777777777777777777653  3445667777777777777777777777776 33443 667777777


Q ss_pred             HHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCC
Q 006388          453 SCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKG  492 (647)
Q Consensus       453 ~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  492 (647)
                      .+.+.|++++|...+++++++.|+++..|..++.+|...|
T Consensus       348 ~~~~~g~~~~A~~~~~~a~~~~p~~~~a~~~lg~~~~~~~  387 (388)
T 1w3b_A          348 VLQQQGKLQEALMHYKEAIRISPTFADAYSNMGNTLKEMQ  387 (388)
T ss_dssp             HHHTTTCCHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTC
T ss_pred             HHHHcCCHHHHHHHHHHHHhhCCCCHHHHHhHHHHHHHcc
Confidence            7777777777777777777777777777777777766655

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.95  E-value=9e-25  Score=224.78  Aligned_cols=352  Identities=16%  Similarity=0.120  Sum_probs=307.9

Q ss_pred             HHHHHHhCCChhHHHHHHHHHHHCCCCCCh-hhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcC
Q 006388          145 MITGLMQNGLEREAIDLFREMRLEGLAMDQ-FTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCK  223 (647)
Q Consensus       145 li~~~~~~g~~~~A~~~~~~m~~~g~~pd~-~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g  223 (647)
                      +...+.+.|++++|.+.+.++.+.  .|+. ..+..+...+...|++++|...+...++.. +.+..++..+...|.+.|
T Consensus         5 ~a~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g   81 (388)
T 1w3b_A            5 LAHREYQAGDFEAAERHCMQLWRQ--EPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERG   81 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCC
Confidence            345678889999999999998775  3554 455666677788999999999999998875 667889999999999999


Q ss_pred             CHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCH-HHHHHHHHHHhccCChHHHHHHHH
Q 006388          224 SIKYAESVFRTMAW---KNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDD-FTLGSVISSCANLASLEEGTQFHG  299 (647)
Q Consensus       224 ~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~a~~~~~~~~~a~~~~~  299 (647)
                      ++++|...|+++..   .+..+|..+..++.+.|++++|++.|+++.+.  .|+. ..+..+...+...|++++|...+.
T Consensus        82 ~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~  159 (388)
T 1w3b_A           82 QLQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQY--NPDLYCVRSDLGNLLKALGRLEEAKACYL  159 (388)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHH--CTTCTHHHHHHHHHHHTTSCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHccCHHHHHHHHH
Confidence            99999999998753   35678999999999999999999999999875  4655 456667778888999999999999


Q ss_pred             HHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC-
Q 006388          300 RSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMN---VRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPD-  375 (647)
Q Consensus       300 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-  375 (647)
                      .+.+.. +.+..++..+...|.+.|++++|...|+++.   ..+...|..+...+...|++++|+..|++....  .|+ 
T Consensus       160 ~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~  236 (388)
T 1w3b_A          160 KAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSL--SPNH  236 (388)
T ss_dssp             HHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHH--CTTC
T ss_pred             HHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CcCC
Confidence            999875 4567889999999999999999999999886   346778999999999999999999999999874  454 


Q ss_pred             HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-C-CCCChhhHHHHHHH
Q 006388          376 EVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-P-FPPDAIGWATLLSS  453 (647)
Q Consensus       376 ~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~ll~~  453 (647)
                      ..++..+..++...|++++|...|+.+.+.  .+.+...|..+...|.+.|++++|.+.++++ . .+++..+|..+...
T Consensus       237 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~  314 (388)
T 1w3b_A          237 AVVHGNLACVYYEQGLIDLAIDTYRRAIEL--QPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANI  314 (388)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--CSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHH
Confidence            668889999999999999999999999863  2335678999999999999999999999988 2 33468899999999


Q ss_pred             HHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHh
Q 006388          454 CRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       454 ~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      +...|++++|...++++++..|+++.++..++.+|.+.|++++|.+.++++.+
T Consensus       315 ~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~  367 (388)
T 1w3b_A          315 KREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIR  367 (388)
T ss_dssp             HHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT
T ss_pred             HHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999999986

>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=3.6e-27  Score=247.22  Aligned_cols=184  Identities=15%  Similarity=0.169  Sum_probs=173.6

Q ss_pred             ehHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHhcCCC---------hHHHHHHHHHHHHcCCCCchh
Q 006388          140 ISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSVLTACGGLLA---------LEEGKQIHAFIIRNDHKDNVF  210 (647)
Q Consensus       140 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~---------~~~a~~~~~~~~~~g~~~~~~  210 (647)
                      ..++.+|.+|++.|++++|+++|++|.+.|++||..||+++|.+|++.+.         ++.|.++|++|.+.|+.||..
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            45888999999999999999999999999999999999999999987654         688999999999999999999


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhcCC----CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHh
Q 006388          211 VGSALVDMYCKCKSIKYAESVFRTMA----WKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCA  286 (647)
Q Consensus       211 ~~~~li~~y~~~g~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~  286 (647)
                      +||+||++|++.|++++|.++|++|.    .||..+||+||.+|++.|+.++|.++|++|.+.|+.||..||+++|.+|+
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            99999999999999999999999996    46999999999999999999999999999999999999999999999999


Q ss_pred             ccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhc
Q 006388          287 NLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKC  323 (647)
Q Consensus       287 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  323 (647)
                      +.|++++|.+++++|.+.+..|+..+|+.++..|...
T Consensus       187 ~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          187 DTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             hCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            9999999999999999999999999999999988764

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.92  E-value=6.2e-23  Score=219.24  Aligned_cols=95  Identities=17%  Similarity=0.086  Sum_probs=76.9

Q ss_pred             cccHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCCcchHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCchhhHHHHHH
Q 006388            6 GVSWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGSPLVD   85 (647)
Q Consensus         6 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~   85 (647)
                      +..|-.+...+.+.|++++|+..|+++.+..   ||..+|..+..++...|++++|...++.+++.. +.+...+..+..
T Consensus         6 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~---p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~   81 (514)
T 2gw1_A            6 ALALKDKGNQFFRNKKYDDAIKYYNWALELK---EDPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRAS   81 (514)
T ss_dssp             HHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC---CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhcC---ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHH
Confidence            3456777788888899999999999888874   578888888888888888888888888888876 456677788888


Q ss_pred             HHHhcCChHHHHHHhccCC
Q 006388           86 MYAKLGLIYDAKRGFDELP  104 (647)
Q Consensus        86 ~~~~~g~~~~A~~~~~~~~  104 (647)
                      +|.+.|++++|...|+.+.
T Consensus        82 ~~~~~g~~~~A~~~~~~~~  100 (514)
T 2gw1_A           82 ANEGLGKFADAMFDLSVLS  100 (514)
T ss_dssp             HHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHH
Confidence            8888888888888887664

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.91  E-value=4e-22  Score=212.93  Aligned_cols=392  Identities=8%  Similarity=-0.028  Sum_probs=317.0

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHhhcCCC--CCeehHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHhc
Q 006388          109 VMYNTMITGLLRRGLVEESRRLFRGMKD--KDSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSVLTACGG  186 (647)
Q Consensus       109 ~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~  186 (647)
                      ..|......+.+.|++++|...|+++.+  |+..+|..+...|.+.|++++|+..|+++.+.+ +.+..++..+..++..
T Consensus         7 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~   85 (514)
T 2gw1_A            7 LALKDKGNQFFRNKKYDDAIKYYNWALELKEDPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRASANEG   85 (514)
T ss_dssp             HHHHHHHHHHHHTSCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhcCccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHHHHHH
Confidence            4677788899999999999999998864  788889999999999999999999999998854 2245688889999999


Q ss_pred             CCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHh---------------------------------
Q 006388          187 LLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFR---------------------------------  233 (647)
Q Consensus       187 ~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~---------------------------------  233 (647)
                      .|++++|...+..+.+.+. ++......++..+.+......+.+.+.                                 
T Consensus        86 ~g~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  164 (514)
T 2gw1_A           86 LGKFADAMFDLSVLSLNGD-FNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSM  164 (514)
T ss_dssp             TTCHHHHHHHHHHHHHSSS-CCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHHHH
T ss_pred             HhhHHHHHHHHHHHHhcCC-CccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHH
Confidence            9999999999999998863 344444444444443322222222221                                 


Q ss_pred             -----cCC----------CCChhHHHHHHHHHHh---cCChhHHHHHHHHHHH-----CCCCC--------CHHHHHHHH
Q 006388          234 -----TMA----------WKNVVSWTAMLVGYGQ---NGCSEEAVKIFCNMQR-----NGIEP--------DDFTLGSVI  282 (647)
Q Consensus       234 -----~~~----------~~~~~~~~~li~~~~~---~g~~~~A~~~~~~m~~-----~g~~p--------~~~t~~~ll  282 (647)
                           ...          ..+...|..+...+..   .|++++|+..|+++..     ..-.|        +..++..+.
T Consensus       165 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  244 (514)
T 2gw1_A          165 ASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTG  244 (514)
T ss_dssp             HHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHH
Confidence                 110          0113445555555554   8999999999999987     32222        245677788


Q ss_pred             HHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHHHHHcCChHH
Q 006388          283 SSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMN---VRDEVSWTALVSGYAKFGKANE  359 (647)
Q Consensus       283 ~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~d~~~~~~li~~~~~~g~~~~  359 (647)
                      ..+...|+++.|...+..+.+....  ..++..+...|...|++++|.+.|+++.   ..+...|..+...|...|++++
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            8889999999999999999988644  8888999999999999999999999875   3367789999999999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-
Q 006388          360 TIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-  438 (647)
Q Consensus       360 A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-  438 (647)
                      |+..|++..+.. +.+...+..+...+...|++++|...++.+.+.  .+.+...+..+...|.+.|++++|.+.++++ 
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            999999999863 335568888999999999999999999999874  2345678999999999999999999999887 


Q ss_pred             ---CCCCC----hhhHHHHHHHHHh---cCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHhC
Q 006388          439 ---PFPPD----AIGWATLLSSCRI---HGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       439 ---~~~p~----~~~~~~ll~~~~~---~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  507 (647)
                         +..|+    ...|..+...+..   .|++++|...++++++..|+++.++..++.+|...|++++|.+.+++..+.
T Consensus       400 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  478 (514)
T 2gw1_A          400 ELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLDPRSEQAKIGLAQMKLQQEDIDEAITLFEESADL  478 (514)
T ss_dssp             HHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence               22233    3489999999999   999999999999999999999999999999999999999999999998874

>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=1.4e-21  Score=204.98  Aligned_cols=338  Identities=12%  Similarity=0.043  Sum_probs=234.1

Q ss_pred             CeehHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHH
Q 006388          138 DSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVD  217 (647)
Q Consensus       138 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~  217 (647)
                      +...|..+...+.+.|++++|+.+|+++.+.. +.+..++..+..++...|++++|...+..+++.+ +.+..++..+..
T Consensus        25 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~  102 (450)
T 2y4t_A           25 DVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTAARLQRGH  102 (450)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHHHHHHHHH
Confidence            45567777777788888888888888777642 2345566677777777777777777777777664 344566667777


Q ss_pred             HHHhcCCHHHHHHHHhcCCCCC---h---hHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCh
Q 006388          218 MYCKCKSIKYAESVFRTMAWKN---V---VSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASL  291 (647)
Q Consensus       218 ~y~~~g~~~~A~~~~~~~~~~~---~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~  291 (647)
                      +|.+.|++++|...|+++...+   .   .+|..++..+...+                       +..+...+...|++
T Consensus       103 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-----------------------~~~~a~~~~~~~~~  159 (450)
T 2y4t_A          103 LLLKQGKLDEAEDDFKKVLKSNPSENEEKEAQSQLIKSDEMQR-----------------------LRSQALNAFGSGDY  159 (450)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHTCH
T ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHHH-----------------------HHHHHHHHHHcCCH
Confidence            7777777777777777665432   2   45555544311111                       11112223334455


Q ss_pred             HHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHHHHHcCChHHHHHHHHHHH
Q 006388          292 EEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMN---VRDEVSWTALVSGYAKFGKANETIDLFEKML  368 (647)
Q Consensus       292 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~  368 (647)
                      ++|...+..+.+.. +.+..++..+..+|.+.|++++|.+.|+++.   ..+..+|..+...|...|++++|+..|+++.
T Consensus       160 ~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  238 (450)
T 2y4t_A          160 TAAIAFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLKNDNTEAFYKISTLYYQLGDHELSLSEVRECL  238 (450)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            55555555544432 3344555666666666666666666666654   3466777778888888888888888888887


Q ss_pred             HCCCCCCHH-HHHHH------------HHHHhcCCcHHHHHHHHHHHHHhcCCCcC--hHHHHHHHHHHHHcCCHHHHHH
Q 006388          369 SHGLKPDEV-TLIGV------------LSACSRAGLVEKGRHYFEIMVKEYGIRPI--HDHYTCMIDILSRAGRLEEAKS  433 (647)
Q Consensus       369 ~~g~~p~~~-t~~~l------------l~a~~~~g~~~~a~~~~~~~~~~~~~~p~--~~~~~~li~~~~~~g~~~~A~~  433 (647)
                      ..  .|+.. .+..+            ..+|.+.|++++|..+|+.+.+...-.|.  ..+|..++.++.+.|++++|.+
T Consensus       239 ~~--~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~  316 (450)
T 2y4t_A          239 KL--DQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPSIAEYTVRSKERICHCFSKDEKPVEAIR  316 (450)
T ss_dssp             HH--CTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHTTTCHHHHHH
T ss_pred             Hh--CCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHHCCCHHHHHH
Confidence            63  45443 33333            67888999999999999999864222222  4588999999999999999999


Q ss_pred             HHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHH------------HhhhhCC-----Ch
Q 006388          434 FINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLS------------SIYASKG-----KW  494 (647)
Q Consensus       434 ~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~------------~~~~~~g-----~~  494 (647)
                      .++++ ...| +..+|..+..+|...|++++|...++++++++|+++..+..++            +.|...|     +.
T Consensus       317 ~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~~~y~~lg~~~~~~~  396 (450)
T 2y4t_A          317 VCSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYETAQEHNENDQQIREGLEKAQRLLKQSQKRDYYKILGVKRNAKK  396 (450)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHHHHHHSCCSGGGSCSSTTCCT
T ss_pred             HHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcchHHHHHHHHHHHHHhhcccchhHHHHhCCCccCCH
Confidence            99987 4445 5889999999999999999999999999999999999999998            6677777     45


Q ss_pred             hHHHHHHHH
Q 006388          495 DHVSQLRRT  503 (647)
Q Consensus       495 ~~a~~~~~~  503 (647)
                      +++.+.+++
T Consensus       397 ~~~~~~y~~  405 (450)
T 2y4t_A          397 QEIIKAYRK  405 (450)
T ss_dssp             THHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            566666665

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=99.90  E-value=1.4e-21  Score=209.96  Aligned_cols=420  Identities=11%  Similarity=0.049  Sum_probs=217.2

Q ss_pred             cHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCCcchHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCchhhHHHHHHHH
Q 006388            8 SWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGSPLVDMY   87 (647)
Q Consensus         8 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~   87 (647)
                      .|..+...+.+.|++++|++.|+++.+..  |.+..++..+..++...|++++|.+.++.+++.. +.+...+..+..+|
T Consensus        27 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~  103 (537)
T 3fp2_A           27 QLKNRGNHFFTAKNFNEAIKYYQYAIELD--PNEPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRASAN  103 (537)
T ss_dssp             HHHHHHHHHHHTTCCC-CHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhhC--CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHHHH
Confidence            45555666666666666666666666654  4555666666666666666666666666666654 34455555555556


Q ss_pred             HhcCChHHHHHHhccCCCCCchHHHHHHHHHHhcCChHHHHHHhhcCCCCCeehHHHHHHHHHhCCChhHHHHHHHHHHH
Q 006388           88 AKLGLIYDAKRGFDELPEKNIVMYNTMITGLLRRGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLEREAIDLFREMRL  167 (647)
Q Consensus        88 ~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  167 (647)
                      .+.|++++|...|+.+.                                .++...+..+..+...+...+|...++++..
T Consensus       104 ~~~g~~~~A~~~~~~~~--------------------------------~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~  151 (537)
T 3fp2_A          104 ESLGNFTDAMFDLSVLS--------------------------------LNGDFDGASIEPMLERNLNKQAMKVLNENLS  151 (537)
T ss_dssp             HHHTCHHHHHHHHHHHC-------------------------------------------CHHHHHHHHHHHHHHHHHCC
T ss_pred             HHcCCHHHHHHHHHHHh--------------------------------cCCCCChHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            66666666655554322                                1111222223344444555677777777644


Q ss_pred             C------CCCCChhhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCch---hHHHHHHHHHHhc--------CCHHHHHH
Q 006388          168 E------GLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNV---FVGSALVDMYCKC--------KSIKYAES  230 (647)
Q Consensus       168 ~------g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~---~~~~~li~~y~~~--------g~~~~A~~  230 (647)
                      .      ...|+.......+    ...+.+.+...+...    ...+.   .....+...+...        |++++|..
T Consensus       152 ~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~  223 (537)
T 3fp2_A          152 KDEGRGSQVLPSNTSLASFF----GIFDSHLEVSSVNTS----SNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTD  223 (537)
T ss_dssp             -------CCCCCHHHHHHHH----HTSCHHHHHHTSCCC----CSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHH
T ss_pred             hCccccccccchHhHHHHHH----HhcChHHHHHHHhhc----cccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHH
Confidence            2      1223322222221    122222221111110    01111   1222333222221        24444555


Q ss_pred             HHhcCCCCC----------hhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHH
Q 006388          231 VFRTMAWKN----------VVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGR  300 (647)
Q Consensus       231 ~~~~~~~~~----------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~  300 (647)
                      +|+++...+          ..+|..+...+...|++++|+..|+++...  .|+...+..+...+...|+++.|...+..
T Consensus       224 ~~~~~l~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  301 (537)
T 3fp2_A          224 MYHSLLSANTVDDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINL--HPTPNSYIFLALTLADKENSQEFFKFFQK  301 (537)
T ss_dssp             HHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHTCCSSCCHHHHHHHHH
T ss_pred             HHHHHHHHCCCcchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHhcCHHHHHHHHHH
Confidence            444443221          112333344444444555555555444442  23333444444444444444444444444


Q ss_pred             HHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHH
Q 006388          301 SLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLI  380 (647)
Q Consensus       301 ~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~  380 (647)
                      +.+..                                ..+..+|..+...|...|++++|+..|++..+.. +.+...+.
T Consensus       302 ~~~~~--------------------------------~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~  348 (537)
T 3fp2_A          302 AVDLN--------------------------------PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLN-PENVYPYI  348 (537)
T ss_dssp             HHHHC--------------------------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCSHHHH
T ss_pred             HhccC--------------------------------CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CCCHHHHH
Confidence            44332                                2244556666666666666666666666666532 12234566


Q ss_pred             HHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC----CCCC----ChhhHHHHHH
Q 006388          381 GVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM----PFPP----DAIGWATLLS  452 (647)
Q Consensus       381 ~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~----~~~p----~~~~~~~ll~  452 (647)
                      .+...+...|++++|..+++.+.+.  .+.+...+..+...|.+.|++++|.+.++++    |..+    ....+..+..
T Consensus       349 ~la~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~  426 (537)
T 3fp2_A          349 QLACLLYKQGKFTESEAFFNETKLK--FPTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKAT  426 (537)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--CTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHH
Confidence            6666666666777777666666553  2334456666677777777777777776665    1111    1222334445


Q ss_pred             HHHhc----------CChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHhC
Q 006388          453 SCRIH----------GNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       453 ~~~~~----------~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  507 (647)
                      .+...          |++++|...++++++..|+++.++..++.+|...|++++|.+.+++..+.
T Consensus       427 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  491 (537)
T 3fp2_A          427 ILARQSSQDPTQLDEEKFNAAIKLLTKACELDPRSEQAKIGLAQLKLQMEKIDEAIELFEDSAIL  491 (537)
T ss_dssp             HHHHHHTC----CCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhhccchhhhHhHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            56666          77788888888888778877777788888888888888888888777663

>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=99.89  E-value=1.2e-20  Score=197.83  Aligned_cols=372  Identities=10%  Similarity=-0.023  Sum_probs=197.1

Q ss_pred             CchhhHHHHHHHHHhcCChHHHHHHhccCCC---CCchHHHHHHHHHHhcCChHHHHHHhhcCCC---CCeehHHHHHHH
Q 006388           75 SYVFVGSPLVDMYAKLGLIYDAKRGFDELPE---KNIVMYNTMITGLLRRGLVEESRRLFRGMKD---KDSISWTTMITG  148 (647)
Q Consensus        75 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~  148 (647)
                      .++..+..+...|.+.|++++|..+|+.+.+   .+..+|..+...+.+.|++++|...|+++.+   .+..+|..+...
T Consensus        24 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~  103 (450)
T 2y4t_A           24 ADVEKHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKMDFTAARLQRGHL  103 (450)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHHHH
Confidence            3444455555555555555555555554431   1223333333333333333333333333221   134455555555


Q ss_pred             HHhCCChhHHHHHHHHHHHCCCCCCh----hhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCC
Q 006388          149 LMQNGLEREAIDLFREMRLEGLAMDQ----FTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKS  224 (647)
Q Consensus       149 ~~~~g~~~~A~~~~~~m~~~g~~pd~----~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~  224 (647)
                      |.+.|++++|...|+++.+.  .|+.    ..+..+...+.                       ...+..+...|.+.|+
T Consensus       104 ~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~-----------------------~~~~~~~a~~~~~~~~  158 (450)
T 2y4t_A          104 LLKQGKLDEAEDDFKKVLKS--NPSENEEKEAQSQLIKSDE-----------------------MQRLRSQALNAFGSGD  158 (450)
T ss_dssp             HHHTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHHHHTC
T ss_pred             HHHcCCHHHHHHHHHHHHhc--CCCChhhHHHHHHHHHHHH-----------------------HHHHHHHHHHHHHcCC
Confidence            66666666666666555542  2222    12222221110                       0011223444566666


Q ss_pred             HHHHHHHHhcCC---CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHH
Q 006388          225 IKYAESVFRTMA---WKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRS  301 (647)
Q Consensus       225 ~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~  301 (647)
                      +++|...|+++.   ..+..+|..+...|.+.|++++|+..|+++.+.. +.+..++..+..++...|++++|...+..+
T Consensus       159 ~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  237 (450)
T 2y4t_A          159 YTAAIAFLDKILEVCVWDAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVREC  237 (450)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            666666666543   2345566666666666666666666666665432 223445555555555555555555555555


Q ss_pred             HHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC-----H
Q 006388          302 LVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPD-----E  376 (647)
Q Consensus       302 ~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-----~  376 (647)
                      .+.. +.+...+..+...    +               ....+..+...+...|++++|+..|+++.+.  .|+     .
T Consensus       238 ~~~~-p~~~~~~~~~~~~----~---------------~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~  295 (450)
T 2y4t_A          238 LKLD-QDHKRCFAHYKQV----K---------------KLNKLIESAEELIRDGRYTDATSKYESVMKT--EPSIAEYTV  295 (450)
T ss_dssp             HHHC-TTCHHHHHHHHHH----H---------------HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CCSSHHHHH
T ss_pred             HHhC-CChHHHHHHHHHH----H---------------HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcchHHHH
Confidence            5432 1122222211000    0               0001122366777778888888888877763  444     2


Q ss_pred             HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-hhhHHHHHHH-
Q 006388          377 VTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPPD-AIGWATLLSS-  453 (647)
Q Consensus       377 ~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~-  453 (647)
                      ..+..+..++.+.|++++|...++.+.+.  .+.+...|..+..+|...|++++|.+.++++ ...|+ ...+..+..+ 
T Consensus       296 ~~~~~l~~~~~~~g~~~~A~~~~~~a~~~--~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~  373 (450)
T 2y4t_A          296 RSKERICHCFSKDEKPVEAIRVCSEVLQM--EPDNVNALKDRAEAYLIEEMYDEAIQDYETAQEHNENDQQIREGLEKAQ  373 (450)
T ss_dssp             HHHHHHHHHHHTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcchHHHHHHHHHHH
Confidence            35666777777788888888888777653  2335677777888888888888888888776 45554 4555555532 


Q ss_pred             -----------HHhcC-----ChhHHHHHHHH-HhccCCCCc----------hhHHHHHHhhhhCCChhH
Q 006388          454 -----------CRIHG-----NVEIGKWAAES-LLELDPYNP----------ASYVLLSSIYASKGKWDH  496 (647)
Q Consensus       454 -----------~~~~~-----~~~~a~~~~~~-~~~~~p~~~----------~~~~~l~~~~~~~g~~~~  496 (647)
                                 |...|     +.+++.+.+++ .++..|++.          ..+..+..+|...|+.+.
T Consensus       374 ~~~~~~~~~~~y~~lg~~~~~~~~~~~~~y~~~~l~~~pd~~~~~~~~~~a~~~~~~i~~ay~~L~d~~~  443 (450)
T 2y4t_A          374 RLLKQSQKRDYYKILGVKRNAKKQEIIKAYRKLALQWHPDNFQNEEEKKKAEKKFIDIAAAKEVLSDPEM  443 (450)
T ss_dssp             HHHHHHHSCCSGGGSCSSTTCCTTHHHHHHHHHHHHSCGGGCCSHHHHHHHHHHHHHHHHHHHHSSGGGG
T ss_pred             HHhhcccchhHHHHhCCCccCCHHHHHHHHHHHHHHhCCCCCCCchHHHHHHHHHHHHHHHHHHhCCHHH
Confidence                       22233     56777888886 677777632          145556666666665544

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.83  E-value=9.9e-18  Score=169.56  Aligned_cols=305  Identities=11%  Similarity=0.024  Sum_probs=216.1

Q ss_pred             hhhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CChhHHHHHHHHH
Q 006388          174 QFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAW---KNVVSWTAMLVGY  250 (647)
Q Consensus       174 ~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~  250 (647)
                      ...+..+...+...|++++|...+..+++.. +.+..++..+...|...|++++|...|+++..   .+...|..+...+
T Consensus         3 ~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~   81 (359)
T 3ieg_A            3 VEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALKMDFTAARLQRGHLL   81 (359)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCcchHHHHHHHHH
Confidence            3456666777777888888888888887764 44566777777888888888888888877642   3556777777888


Q ss_pred             HhcCChhHHHHHHHHHHHCCCCC---CHH-HHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCH
Q 006388          251 GQNGCSEEAVKIFCNMQRNGIEP---DDF-TLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNI  326 (647)
Q Consensus       251 ~~~g~~~~A~~~~~~m~~~g~~p---~~~-t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  326 (647)
                      ...|++++|+..|+++.+.  .|   +.. .+..+....       .                ...+..+...+...|++
T Consensus        82 ~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~-------~----------------~~~~~~~a~~~~~~~~~  136 (359)
T 3ieg_A           82 LKQGKLDEAEDDFKKVLKS--NPSEQEEKEAESQLVKAD-------E----------------MQRLRSQALDAFDGADY  136 (359)
T ss_dssp             HHHTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHH-------H----------------HHHHHHHHHHHHHTTCH
T ss_pred             HHcCChHHHHHHHHHHHhc--CCcccChHHHHHHHHHHH-------H----------------HHHHHHHHHHHHHccCH
Confidence            8888888888888877764  34   222 222221100       0                01122345667777788


Q ss_pred             HHHHHHHhhcC---CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHH
Q 006388          327 EDSHRLFNEMN---VRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMV  403 (647)
Q Consensus       327 ~~A~~~~~~~~---~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~  403 (647)
                      ++|.+.|+++.   ..+...|..+...+...|++++|+..+++..+.. +.+..++..+...+...|++++|...|+...
T Consensus       137 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~  215 (359)
T 3ieg_A          137 TAAITFLDKILEVCVWDAELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECL  215 (359)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            88877777764   3456677777778888888888888888877652 3345577777777778888888888888776


Q ss_pred             HhcCCCcChHHHH------------HHHHHHHHcCCHHHHHHHHHhC-CCCCC-h----hhHHHHHHHHHhcCChhHHHH
Q 006388          404 KEYGIRPIHDHYT------------CMIDILSRAGRLEEAKSFINKM-PFPPD-A----IGWATLLSSCRIHGNVEIGKW  465 (647)
Q Consensus       404 ~~~~~~p~~~~~~------------~li~~~~~~g~~~~A~~~~~~~-~~~p~-~----~~~~~ll~~~~~~~~~~~a~~  465 (647)
                      +...  .+...+.            .+...+.+.|++++|.+.++++ ...|+ .    ..+..+...+...|++++|..
T Consensus       216 ~~~~--~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~  293 (359)
T 3ieg_A          216 KLDQ--DHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPSVAEYTVRSKERICHCFSKDEKPVEAIR  293 (359)
T ss_dssp             HHCT--TCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             hhCc--cchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHccCHHHHHH
Confidence            5422  2222222            3366788899999999998887 33343 2    235567778889999999999


Q ss_pred             HHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHhC
Q 006388          466 AAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       466 ~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  507 (647)
                      .++++++.+|+++.++..++.+|...|++++|.+.+++..+.
T Consensus       294 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~  335 (359)
T 3ieg_A          294 ICSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEH  335 (359)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            999999999999999999999999999999999999988764

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.83  E-value=1.2e-17  Score=168.84  Aligned_cols=325  Identities=11%  Similarity=0.016  Sum_probs=237.2

Q ss_pred             CeehHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHH
Q 006388          138 DSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVD  217 (647)
Q Consensus       138 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~  217 (647)
                      |+..|..+...+.+.|++++|+..|+++.+... .+..++..+...+...|++++|...++.+++.. +.+...+..+..
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~   79 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGDP-DNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGH   79 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCc-ccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHH
Confidence            345678888999999999999999999988532 356788888899999999999999999999875 446788999999


Q ss_pred             HHHhcCCHHHHHHHHhcCCCCCh------hHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCh
Q 006388          218 MYCKCKSIKYAESVFRTMAWKNV------VSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASL  291 (647)
Q Consensus       218 ~y~~~g~~~~A~~~~~~~~~~~~------~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~  291 (647)
                      +|.+.|++++|...|++....++      ..|..+...+.                       ...+..+...+...|++
T Consensus        80 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~-----------------------~~~~~~~a~~~~~~~~~  136 (359)
T 3ieg_A           80 LLLKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKADE-----------------------MQRLRSQALDAFDGADY  136 (359)
T ss_dssp             HHHHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHHHTTCH
T ss_pred             HHHHcCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHHH-----------------------HHHHHHHHHHHHHccCH
Confidence            99999999999999998865433      34444421100                       00112223334445555


Q ss_pred             HHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHHHHHcCChHHHHHHHHHHH
Q 006388          292 EEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMN---VRDEVSWTALVSGYAKFGKANETIDLFEKML  368 (647)
Q Consensus       292 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~  368 (647)
                      ++|...+..+.+.. +.+..++..+...|...|++++|...|+++.   ..+...|..+...|...|++++|...|++..
T Consensus       137 ~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~  215 (359)
T 3ieg_A          137 TAAITFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLKSDNTEAFYKISTLYYQLGDHELSLSEVRECL  215 (359)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            55555555554443 3344556666667777777777777776654   2356677777777888888888888888777


Q ss_pred             HCCCCCCHH-HHH------------HHHHHHhcCCcHHHHHHHHHHHHHhcCCCcCh--HHHHHHHHHHHHcCCHHHHHH
Q 006388          369 SHGLKPDEV-TLI------------GVLSACSRAGLVEKGRHYFEIMVKEYGIRPIH--DHYTCMIDILSRAGRLEEAKS  433 (647)
Q Consensus       369 ~~g~~p~~~-t~~------------~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~--~~~~~li~~~~~~g~~~~A~~  433 (647)
                      +.  .|+.. .+.            .+...+...|++++|...++.+.+...-.+..  ..+..+...|...|++++|.+
T Consensus       216 ~~--~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~  293 (359)
T 3ieg_A          216 KL--DQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPSVAEYTVRSKERICHCFSKDEKPVEAIR  293 (359)
T ss_dssp             HH--CTTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             hh--CccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHccCHHHHHH
Confidence            64  33332 222            23556888999999999999988753222211  345668889999999999999


Q ss_pred             HHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhh
Q 006388          434 FINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYAS  490 (647)
Q Consensus       434 ~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  490 (647)
                      .+++. ...| +..+|..+...+...|++++|...++++++++|+++..+..+..++..
T Consensus       294 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~  352 (359)
T 3ieg_A          294 ICSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEHNENDQQIREGLEKAQRL  352 (359)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCChHHHHHHHHHHHH
Confidence            99887 3345 588999999999999999999999999999999998888887776544

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=99.82  E-value=1.5e-17  Score=178.46  Aligned_cols=389  Identities=9%  Similarity=-0.039  Sum_probs=229.4

Q ss_pred             CCcccHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCCcchHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCchhhHHHH
Q 006388            4 HDGVSWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGSPL   83 (647)
Q Consensus         4 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l   83 (647)
                      .++.+|..+...|.+.|++++|++.|+++.+.+  |.+..++..+...+...|++++|...++ .+...  |+  ..+..
T Consensus        57 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~la~~~~~~g~~~~A~~~~~-~~~~~--~~--~~~~~  129 (537)
T 3fp2_A           57 NEPVFYSNISACYISTGDLEKVIEFTTKALEIK--PDHSKALLRRASANESLGNFTDAMFDLS-VLSLN--GD--FDGAS  129 (537)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHH-HHC-------------
T ss_pred             CCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHHcCCHHHHHHHHH-HHhcC--CC--CChHH
Confidence            467789999999999999999999999999987  7788899999999999999999999996 33322  22  22233


Q ss_pred             HHHHHhcCChHHHHHHhccCCCC------CchHHHHHHHHHHhcCChHHHHHHhhcCCCCCee---hHHHHHHHHHhC--
Q 006388           84 VDMYAKLGLIYDAKRGFDELPEK------NIVMYNTMITGLLRRGLVEESRRLFRGMKDKDSI---SWTTMITGLMQN--  152 (647)
Q Consensus        84 i~~~~~~g~~~~A~~~~~~~~~~------~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~---~~~~li~~~~~~--  152 (647)
                      +..+...+....|...++.+...      ........+..+....+.+.+...+......+..   .+..+...+...  
T Consensus       130 ~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  209 (537)
T 3fp2_A          130 IEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVSSVNTSSNYDTAYALLSDALQRLYSATDE  209 (537)
T ss_dssp             --CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHHTSCCCCSSCSSHHHHHHHHHHHHTCSHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHHHHhhccccccHHHHHHHHHHHHHHhhhh
Confidence            44555666677888888877542      2233455666777788888888888877765544   333443333322  


Q ss_pred             ------CChhHHHHHHHHHHHCCCCCCh--------hhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHH
Q 006388          153 ------GLEREAIDLFREMRLEGLAMDQ--------FTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDM  218 (647)
Q Consensus       153 ------g~~~~A~~~~~~m~~~g~~pd~--------~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~  218 (647)
                            |++++|+.+|+++.+..  |+.        .++..+...+...|++++|.+.+..+++..  |+..++..+...
T Consensus       210 ~~~~a~~~~~~A~~~~~~~l~~~--p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~l~~~  285 (537)
T 3fp2_A          210 GYLVANDLLTKSTDMYHSLLSAN--TVDDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINLH--PTPNSYIFLALT  285 (537)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC----CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHC--CCcchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhcC--CCchHHHHHHHH
Confidence                  47788888888887643  332        134444455566667777777777666653  335556666666


Q ss_pred             HHhcCCHHHHHHHHhcCC---CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHH
Q 006388          219 YCKCKSIKYAESVFRTMA---WKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGT  295 (647)
Q Consensus       219 y~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~  295 (647)
                      |.+.|++++|...|++..   ..+..+|..+...+...|++++|+..|++..... +.+...+..+..++...|++++|.
T Consensus       286 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~  364 (537)
T 3fp2_A          286 LADKENSQEFFKFFQKAVDLNPEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLN-PENVYPYIQLACLLYKQGKFTESE  364 (537)
T ss_dssp             TCCSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCSHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHhccCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHH
Confidence            666666666666666543   2345556666666666666666666666665532 112334444444445555555555


Q ss_pred             HHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCC----
Q 006388          296 QFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEKMLSHG----  371 (647)
Q Consensus       296 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g----  371 (647)
                      ..+..+.+.. +.                               +...|..+...+...|++++|+..|+++.+..    
T Consensus       365 ~~~~~~~~~~-~~-------------------------------~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~  412 (537)
T 3fp2_A          365 AFFNETKLKF-PT-------------------------------LPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQE  412 (537)
T ss_dssp             HHHHHHHHHC-TT-------------------------------CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCS
T ss_pred             HHHHHHHHhC-CC-------------------------------ChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcch
Confidence            5555444442 22                               33444444555555555555555555544321    


Q ss_pred             -CCCCHHHHHHHHHHHhcC----------CcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC
Q 006388          372 -LKPDEVTLIGVLSACSRA----------GLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM  438 (647)
Q Consensus       372 -~~p~~~t~~~ll~a~~~~----------g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~  438 (647)
                       .......+......+...          |++++|...|+.+.+.  .+.+...+..+...|.+.|++++|.+.|+++
T Consensus       413 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a  488 (537)
T 3fp2_A          413 KIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACEL--DPRSEQAKIGLAQLKLQMEKIDEAIELFEDS  488 (537)
T ss_dssp             SCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhccHHHHHHHHHHH
Confidence             011111222333334444          5566666666555542  1223455555666666666666666666554

>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=99.82  E-value=1.2e-18  Score=173.87  Aligned_cols=327  Identities=13%  Similarity=0.105  Sum_probs=148.0

Q ss_pred             hHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHH
Q 006388          141 SWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYC  220 (647)
Q Consensus       141 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~  220 (647)
                      +|..|..++.+.|++++|++.|.+.      +|..+|..++.++...|++++|...+....+.  .+++.+.+.|+.+|.
T Consensus        34 vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi~yl~~ark~--~~~~~i~~~Li~~Y~  105 (449)
T 1b89_A           34 VWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKK--ARESYVETELIFALA  105 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CccchhHHHHHHHHH
Confidence            5555556666666666666655431      34555666666666666666666655555443  334556666667777


Q ss_pred             hcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHH
Q 006388          221 KCKSIKYAESVFRTMAWKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGR  300 (647)
Q Consensus       221 ~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~  300 (647)
                      ++|+++++.++++.   |+..+|+.+...|...|++++|...|..+         ..|..+..++.+.|++++|.+.+..
T Consensus       106 Klg~l~e~e~f~~~---pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~~~LA~~L~~Lg~yq~AVea~~K  173 (449)
T 1b89_A          106 KTNRLAELEEFING---PNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARK  173 (449)
T ss_dssp             ---CHHHHTTTTTC---C----------------CTTTHHHHHHHT---------TCHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             HhCCHHHHHHHHcC---CcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhHHHHHHHHHHhccHHHHHHHHHH
Confidence            77777666666643   45557777777777777777777777655         2566666677777777777666665


Q ss_pred             HHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHH
Q 006388          301 SLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLI  380 (647)
Q Consensus       301 ~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~  380 (647)
                      +      .++.+|..++.+|...|+++.|......+. .++.-...++..|.+.|++++|+.+++...... +-....|+
T Consensus       174 A------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~-~~ad~l~~lv~~Yek~G~~eEai~lLe~aL~le-~ah~~~ft  245 (449)
T 1b89_A          174 A------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV-VHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFT  245 (449)
T ss_dssp             H------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHH
T ss_pred             c------CCchhHHHHHHHHHHcCcHHHHHHHHHHHH-hCHhhHHHHHHHHHHCCCHHHHHHHHHHHhCCc-HHHHHHHH
Confidence            5      255666777777777777777766555544 333334457777788888888888887776532 22233555


Q ss_pred             HHHHHHh--cCCcHHHHHHHHHHHHHhcCCCc------ChHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCChhhHHHHHH
Q 006388          381 GVLSACS--RAGLVEKGRHYFEIMVKEYGIRP------IHDHYTCMIDILSRAGRLEEAKSFINKMPFPPDAIGWATLLS  452 (647)
Q Consensus       381 ~ll~a~~--~~g~~~~a~~~~~~~~~~~~~~p------~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~  452 (647)
                      .+.-+++  +.+++.+.++.|.   ++-+++|      +...|.-++-.|...++++.|...+-+-+  |+..--..+..
T Consensus       246 el~il~~ky~p~k~~ehl~~~~---~~ini~k~~~~~~~~~~w~e~~~ly~~~~e~d~A~~tm~~h~--~~a~~~~~f~~  320 (449)
T 1b89_A          246 ELAILYSKFKPQKMREHLELFW---SRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMNHP--TDAWKEGQFKD  320 (449)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHS---TTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHHHHST--TTTCCHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHH---HHhcCcHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHHHhCC--hhhhhhHHHHH
Confidence            5544444  3445555555554   2234555      45678889999999999999988766653  34444455566


Q ss_pred             HHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHH
Q 006388          453 SCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRT  503 (647)
Q Consensus       453 ~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  503 (647)
                      ...+-.+.+.--++..-.++..|   ..++.|..++...=+...+.+++++
T Consensus       321 ~~~kv~n~elyYkai~fyl~~~p---~~l~~ll~~l~~~ld~~r~v~~~~~  368 (449)
T 1b89_A          321 IITKVANVELYYRAIQFYLEFKP---LLLNDLLMVLSPRLDHTRAVNYFSK  368 (449)
T ss_dssp             HHHHCSSTHHHHHHHHHHHHHCG---GGHHHHHHHHGGGCCHHHHHHHHHH
T ss_pred             HHhchhHHHHHHHHHHHHHhcCH---HHHHHHHHHHHhccCcHHHHHHHHH
Confidence            66667777666666665555555   4566666666555555555555544

>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=99.81  E-value=2.1e-17  Score=165.09  Aligned_cols=287  Identities=10%  Similarity=0.025  Sum_probs=209.1

Q ss_pred             CCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHH
Q 006388          206 KDNVFVGSALVDMYCKCKSIKYAESVFRTMAW---KNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVI  282 (647)
Q Consensus       206 ~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll  282 (647)
                      +.+..++..+...+...|++++|.++|+++..   .+...+..++..+...|++++|+.+++++.+.. +.+...+..+.
T Consensus        19 ~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~   97 (330)
T 3hym_B           19 QENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKDPFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVG   97 (330)
T ss_dssp             -CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHH
Confidence            34445555666666666777777776666542   234455566666677777777777777776642 22345566666


Q ss_pred             HHHhccC-ChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHHHHHcCChH
Q 006388          283 SSCANLA-SLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMN---VRDEVSWTALVSGYAKFGKAN  358 (647)
Q Consensus       283 ~a~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~d~~~~~~li~~~~~~g~~~  358 (647)
                      ..+...| ++++|...+..+.+.. +.+...+..+...|...|++++|.+.|+++.   ..+...|..+...|...|+++
T Consensus        98 ~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~  176 (330)
T 3hym_B           98 CYYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKGCHLPMLYIGLEYGLTNNSK  176 (330)
T ss_dssp             HHHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCSHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhhHH
Confidence            6666677 6777777777766654 3345667777888888888888888887765   335667777888888888999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcC-------CCcChHHHHHHHHHHHHcCCHHHH
Q 006388          359 ETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYG-------IRPIHDHYTCMIDILSRAGRLEEA  431 (647)
Q Consensus       359 ~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~-------~~p~~~~~~~li~~~~~~g~~~~A  431 (647)
                      +|...|++..+.. +.+...+..+...+...|++++|...++.+.+...       .+.....+..+...|.+.|++++|
T Consensus       177 ~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  255 (330)
T 3hym_B          177 LAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEA  255 (330)
T ss_dssp             HHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHH
Confidence            9999988888752 33456778888888889999999998888876421       133467888999999999999999


Q ss_pred             HHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhh-hhCCChh
Q 006388          432 KSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIY-ASKGKWD  495 (647)
Q Consensus       432 ~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~-~~~g~~~  495 (647)
                      .+.++++ ...| +...|..+...+...|++++|...+++++++.|+++..+..++.++ ...|+.+
T Consensus       256 ~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~g~~~  322 (330)
T 3hym_B          256 LDYHRQALVLIPQNASTYSAIGYIHSLMGNFENAVDYFHTALGLRRDDTFSVTMLGHCIEMYIGDSE  322 (330)
T ss_dssp             HHHHHHHHHHSTTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTCSCCHHHHHHHHHHHHTTTTC--
T ss_pred             HHHHHHHHhhCccchHHHHHHHHHHHHhccHHHHHHHHHHHHccCCCchHHHHHHHHHHHHHhCchh
Confidence            9999887 2333 5778899999999999999999999999999999999999999888 5666654

>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=99.79  E-value=5.2e-15  Score=164.17  Aligned_cols=379  Identities=13%  Similarity=0.075  Sum_probs=287.0

Q ss_pred             chhhHHHHHHHHHhcCChHHHHHHhccCCC-C-----CchHHHHHHHHHHhcCChHHHHHHhhcCCCCCeehHHHHHHHH
Q 006388           76 YVFVGSPLVDMYAKLGLIYDAKRGFDELPE-K-----NIVMYNTMITGLLRRGLVEESRRLFRGMKDKDSISWTTMITGL  149 (647)
Q Consensus        76 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-~-----~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~  149 (647)
                      ++.-....+..|...|.+.+|.++++++.- +     +...-+.++.+..+. +..+..+..++...-+   ...+...+
T Consensus       984 ~PeeVs~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~~d---~~eIA~Ia 1059 (1630)
T 1xi4_A          984 DPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLDNYD---APDIANIA 1059 (1630)
T ss_pred             CHHHhHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhhhcc---HHHHHHHH
Confidence            334445667778888888888888887762 2     224455566666666 4455555555444222   44577788


Q ss_pred             HhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHH
Q 006388          150 MQNGLEREAIDLFREMRLEGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAE  229 (647)
Q Consensus       150 ~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~  229 (647)
                      ...|.+++|..+|++..     -.....+.++.   ..+++++|.++.+..      .+..+|..+..++.+.|++++|.
T Consensus      1060 i~lglyEEAf~IYkKa~-----~~~~A~~VLie---~i~nldrAiE~Aerv------n~p~vWsqLAKAql~~G~~kEAI 1125 (1630)
T 1xi4_A         1060 ISNELFEEAFAIFRKFD-----VNTSAVQVLIE---HIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKGMVKEAI 1125 (1630)
T ss_pred             HhCCCHHHHHHHHHHcC-----CHHHHHHHHHH---HHhhHHHHHHHHHhc------CCHHHHHHHHHHHHhCCCHHHHH
Confidence            88999999999999852     12222333333   567888888887754      45778889999999999999999


Q ss_pred             HHHhcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcc
Q 006388          230 SVFRTMAWKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISF  309 (647)
Q Consensus       230 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~  309 (647)
                      +.|.+.  .|...|..++..+.+.|++++|++.|...++..  ++....+.+..+|++.++++....+.    +   .++
T Consensus      1126 dsYiKA--dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI----~---~~n 1194 (1630)
T 1xi4_A         1126 DSYIKA--DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI----N---GPN 1194 (1630)
T ss_pred             HHHHhc--CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH----h---CCC
Confidence            999764  678888999999999999999999998877754  44333445888899998888644442    2   344


Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcC
Q 006388          310 ITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRA  389 (647)
Q Consensus       310 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~  389 (647)
                      ...+..+.+.|...|++++|...|...     ..|..+...|.+.|++++|++.+++.      -+..+|..+-.+|...
T Consensus      1195 ~ad~~~iGd~le~eg~YeeA~~~Y~kA-----~ny~rLA~tLvkLge~q~AIEaarKA------~n~~aWkev~~acve~ 1263 (1630)
T 1xi4_A         1195 NAHIQQVGDRCYDEKMYDAAKLLYNNV-----SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDG 1263 (1630)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHhh-----hHHHHHHHHHHHhCCHHHHHHHHHHh------CCHHHHHHHHHHHhhh
Confidence            556667999999999999999999985     48999999999999999999999876      3568999999999999


Q ss_pred             CcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-hhhHHHHHHHHHhc--CChhHHHH
Q 006388          390 GLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPPD-AIGWATLLSSCRIH--GNVEIGKW  465 (647)
Q Consensus       390 g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~--~~~~~a~~  465 (647)
                      |++..|......      +..+++.+..++..|.+.|.+++|+.+++.. +.+|. ...|.-|...+.+.  ++..++.+
T Consensus      1264 ~Ef~LA~~cgl~------Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~LeraH~gmftELaiLyaKy~peklmEhlk 1337 (1630)
T 1xi4_A         1264 KEFRLAQMCGLH------IVVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFKPQKMREHLE 1337 (1630)
T ss_pred             hHHHHHHHHHHh------hhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccChhHhHHHHHHHHHHHhCCHHHHHHHHH
Confidence            999999887543      3456778889999999999999999999877 55554 55676676666654  46667777


Q ss_pred             HHHHHhccCC-----CCchhHHHHHHhhhhCCChhHHHHH
Q 006388          466 AAESLLELDP-----YNPASYVLLSSIYASKGKWDHVSQL  500 (647)
Q Consensus       466 ~~~~~~~~~p-----~~~~~~~~l~~~~~~~g~~~~a~~~  500 (647)
                      .|..-..+.|     .+...|..+...|.+.|+|+.|...
T Consensus      1338 ~f~~rini~k~~r~~e~~~lW~elv~LY~~~~e~dnA~~t 1377 (1630)
T 1xi4_A         1338 LFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIIT 1377 (1630)
T ss_pred             HHHHhcccchHhHHHHHHHHHHHHHHHHHhcccHHHHHHH
Confidence            7776666555     5778899999999999999999853

>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=99.79  E-value=4.5e-15  Score=164.62  Aligned_cols=381  Identities=11%  Similarity=0.089  Sum_probs=276.2

Q ss_pred             HHHHHHHHcCCChhHHHHHHHHHHHCCC-CCCCcchHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHH
Q 006388           10 NLLISGHASHGSVNDAVKVYNLMLKDGL-GNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGSPLVDMYA   88 (647)
Q Consensus        10 ~~li~~~~~~g~~~~A~~~~~~m~~~g~-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~   88 (647)
                      ...+.+|...|.+.+|+++|++....+- +..+...-+.|+.+..+. +...+..+...+-       .+...-+...+.
T Consensus       989 s~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd-------~~d~~eIA~Iai 1060 (1630)
T 1xi4_A          989 SVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLD-------NYDAPDIANIAI 1060 (1630)
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhh-------hccHHHHHHHHH
Confidence            4567888889999999999998884321 012334455555555554 5555655555543       122344677788


Q ss_pred             hcCChHHHHHHhccCCCCCchHHHHHHHHHHhcCChHHHHHHhhcCCCCCeehHHHHHHHHHhCCChhHHHHHHHHHHHC
Q 006388           89 KLGLIYDAKRGFDELPEKNIVMYNTMITGLLRRGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLEREAIDLFREMRLE  168 (647)
Q Consensus        89 ~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  168 (647)
                      ..|.+++|..+|++... .....+.++   -..+++++|.++.++..  +..+|..+..++.+.|++++|++.|.+.   
T Consensus      1061 ~lglyEEAf~IYkKa~~-~~~A~~VLi---e~i~nldrAiE~Aervn--~p~vWsqLAKAql~~G~~kEAIdsYiKA--- 1131 (1630)
T 1xi4_A         1061 SNELFEEAFAIFRKFDV-NTSAVQVLI---EHIGNLDRAYEFAERCN--EPAVWSQLAKAQLQKGMVKEAIDSYIKA--- 1131 (1630)
T ss_pred             hCCCHHHHHHHHHHcCC-HHHHHHHHH---HHHhhHHHHHHHHHhcC--CHHHHHHHHHHHHhCCCHHHHHHHHHhc---
Confidence            88999999999998752 122223332   27788999999988774  4678889999999999999999999663   


Q ss_pred             CCCCChhhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHH
Q 006388          169 GLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWKNVVSWTAMLV  248 (647)
Q Consensus       169 g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~  248 (647)
                         -|...|..++.+|.+.|+++++.+.+....+..  ++..+.+.++.+|++.+++++.....   ..++...|..+..
T Consensus      1132 ---dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI---~~~n~ad~~~iGd 1203 (1630)
T 1xi4_A         1132 ---DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI---NGPNNAHIQQVGD 1203 (1630)
T ss_pred             ---CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH---hCCCHHHHHHHHH
Confidence               367778889999999999999999998887764  44444556889999999988654443   3556677888888


Q ss_pred             HHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHH
Q 006388          249 GYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIED  328 (647)
Q Consensus       249 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  328 (647)
                      .|...|++++|..+|...         ..|..+..++.+.|+++.|.+.++..      .+..+|..+..++...|++..
T Consensus      1204 ~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA------~n~~aWkev~~acve~~Ef~L 1268 (1630)
T 1xi4_A         1204 RCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRL 1268 (1630)
T ss_pred             HHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHh------CCHHHHHHHHHHHhhhhHHHH
Confidence            999999999999999874         37888888999999999999888776      455778888888888899998


Q ss_pred             HHHHHhhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHH--HhcCCcHHHHHHHHHHHHHh
Q 006388          329 SHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEV-TLIGVLSA--CSRAGLVEKGRHYFEIMVKE  405 (647)
Q Consensus       329 A~~~~~~~~~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a--~~~~g~~~~a~~~~~~~~~~  405 (647)
                      |...... ...++..+..++..|...|.+++|+.+++..+..  .|... .|+-+...  -.+.++..++.++|..-.  
T Consensus      1269 A~~cgl~-Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~L--eraH~gmftELaiLyaKy~peklmEhlk~f~~ri-- 1343 (1630)
T 1xi4_A         1269 AQMCGLH-IVVHADELEELINYYQDRGYFEELITMLEAALGL--ERAHMGMFTELAILYSKFKPQKMREHLELFWSRV-- 1343 (1630)
T ss_pred             HHHHHHh-hhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc--ChhHhHHHHHHHHHHHhCCHHHHHHHHHHHHHhc--
Confidence            8887765 3345566778888899999999999999877653  34332 45444444  444556666666665332  


Q ss_pred             cCCCc------ChHHHHHHHHHHHHcCCHHHHHHHHH
Q 006388          406 YGIRP------IHDHYTCMIDILSRAGRLEEAKSFIN  436 (647)
Q Consensus       406 ~~~~p------~~~~~~~li~~~~~~g~~~~A~~~~~  436 (647)
                       +++|      +...|.-++-+|.+.|+++.|...+-
T Consensus      1344 -ni~k~~r~~e~~~lW~elv~LY~~~~e~dnA~~tm~ 1379 (1630)
T 1xi4_A         1344 -NIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMM 1379 (1630)
T ss_pred             -ccchHhHHHHHHHHHHHHHHHHHhcccHHHHHHHHH
Confidence             4444      45778889999999999998885443

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.78  E-value=1.4e-15  Score=161.03  Aligned_cols=350  Identities=11%  Similarity=0.016  Sum_probs=255.0

Q ss_pred             CChHHHHHHhhcCCC-CCeehHHHHHHHHHh----CCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHhc----CCChHH
Q 006388          122 GLVEESRRLFRGMKD-KDSISWTTMITGLMQ----NGLEREAIDLFREMRLEGLAMDQFTFGSVLTACGG----LLALEE  192 (647)
Q Consensus       122 g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~----~~~~~~  192 (647)
                      +++++|...|++..+ .+..++..|...|..    .+++++|++.|++..+.|   +...+..+...+..    .+++++
T Consensus        57 ~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~  133 (490)
T 2xm6_A           57 KDLTQAMDWFRRAAEQGYTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LPQAQQNLGVMYHEGNGVKVDKAE  133 (490)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHH
T ss_pred             cCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHH
Confidence            334444444433222 244556666666666    677777777777776654   44455555555555    567777


Q ss_pred             HHHHHHHHHHcCCCCchhHHHHHHHHHHh----cCCHHHHHHHHhcCCC-CChhHHHHHHHHHHh----cCChhHHHHHH
Q 006388          193 GKQIHAFIIRNDHKDNVFVGSALVDMYCK----CKSIKYAESVFRTMAW-KNVVSWTAMLVGYGQ----NGCSEEAVKIF  263 (647)
Q Consensus       193 a~~~~~~~~~~g~~~~~~~~~~li~~y~~----~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~----~g~~~~A~~~~  263 (647)
                      |.+.++...+.|   +...+..|..+|..    .++.++|.+.|++..+ .+..++..+...|..    .++.++|++.|
T Consensus       134 A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~  210 (490)
T 2xm6_A          134 SVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQGNVWSCNQLGYMYSRGLGVERNDAISAQWY  210 (490)
T ss_dssp             HHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHH
T ss_pred             HHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCCcCHHHHHHHH
Confidence            777777777654   45566667777776    6778888888876543 366777777777777    78888888888


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHhc----cCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHh----cCCHHHHHHHHhh
Q 006388          264 CNMQRNGIEPDDFTLGSVISSCAN----LASLEEGTQFHGRSLVTGLISFITVSNALVTFYGK----CGNIEDSHRLFNE  335 (647)
Q Consensus       264 ~~m~~~g~~p~~~t~~~ll~a~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~  335 (647)
                      ++..+.|   +...+..+...+..    .++.++|..++....+.+   +...+..|..+|..    .++.++|.+.|++
T Consensus       211 ~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~  284 (490)
T 2xm6_A          211 RKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQFRLGYILEQGLAGAKEPLKALEWYRK  284 (490)
T ss_dssp             HHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHTTTSSCCHHHHHHHHHH
T ss_pred             HHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHCCCCCCCCHHHHHHHHHH
Confidence            8887764   44555555555554    678888888888877764   34556667777877    8899999999988


Q ss_pred             cCC-CChhhHHHHHHHHHHc-----CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCC---cHHHHHHHHHHHHHhc
Q 006388          336 MNV-RDEVSWTALVSGYAKF-----GKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAG---LVEKGRHYFEIMVKEY  406 (647)
Q Consensus       336 ~~~-~d~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g---~~~~a~~~~~~~~~~~  406 (647)
                      ... .+..++..+...|...     +++++|+..|++..+.|   +...+..+...+...|   +.++|.++|+...+. 
T Consensus       285 a~~~~~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~-  360 (490)
T 2xm6_A          285 SAEQGNSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG---DATAQANLGAIYFRLGSEEEHKKAVEWFRKAAAK-  360 (490)
T ss_dssp             HHTTTCHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHT-
T ss_pred             HHHcCCHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHC-
Confidence            764 4677888888888887     89999999999998865   4456666666666656   889999999998764 


Q ss_pred             CCCcChHHHHHHHHHHHH----cCCHHHHHHHHHhCCCCCChhhHHHHHHHHHh----cCChhHHHHHHHHHhccCCC--
Q 006388          407 GIRPIHDHYTCMIDILSR----AGRLEEAKSFINKMPFPPDAIGWATLLSSCRI----HGNVEIGKWAAESLLELDPY--  476 (647)
Q Consensus       407 ~~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~p~--  476 (647)
                         .+...+..|..+|..    .+++++|.+.|++.-...++..+..|...|..    .++.++|...++++.+.+|+  
T Consensus       361 ---~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~  437 (490)
T 2xm6_A          361 ---GEKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQGLSAAQVQLGEIYYYGLGVERDYVQAWAWFDTASTNDMNLF  437 (490)
T ss_dssp             ---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHHHCCHH
T ss_pred             ---CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCCCc
Confidence               467788889999988    89999999999987323467788889988887    89999999999999999854  


Q ss_pred             -CchhHHHHHHhhhh
Q 006388          477 -NPASYVLLSSIYAS  490 (647)
Q Consensus       477 -~~~~~~~l~~~~~~  490 (647)
                       ++.....|+.++..
T Consensus       438 ~~~~a~~~l~~~~~~  452 (490)
T 2xm6_A          438 GTENRNITEKKLTAK  452 (490)
T ss_dssp             HHHHHHHHHTTSCHH
T ss_pred             CCHHHHHHHHhcCHh
Confidence             77777778777664

>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=99.77  E-value=1e-16  Score=160.12  Aligned_cols=264  Identities=12%  Similarity=0.015  Sum_probs=228.2

Q ss_pred             CChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHH
Q 006388          238 KNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALV  317 (647)
Q Consensus       238 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  317 (647)
                      .++..+..+...+...|++++|+++|+++.+.. +.+...+..+..++...|++++|...+..+.+.. +.+..++..+.
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            466678888899999999999999999998763 3344566677788899999999999999999875 45677888999


Q ss_pred             HHHHhcC-CHHHHHHHHhhcC---CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHH
Q 006388          318 TFYGKCG-NIEDSHRLFNEMN---VRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVE  393 (647)
Q Consensus       318 ~~~~~~g-~~~~A~~~~~~~~---~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~  393 (647)
                      ..|...| ++++|.+.|++..   ..+...|..+...+...|++++|+..|++..+.. +.+...+..+...+...|+++
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 9999999999876   3367789999999999999999999999998853 234567777888999999999


Q ss_pred             HHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC----C-------CCCChhhHHHHHHHHHhcCChhH
Q 006388          394 KGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM----P-------FPPDAIGWATLLSSCRIHGNVEI  462 (647)
Q Consensus       394 ~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~----~-------~~p~~~~~~~ll~~~~~~~~~~~  462 (647)
                      +|...++.+.+.  .+.+...+..+...|.+.|++++|.+.++++    +       .+....+|..+...+...|++++
T Consensus       177 ~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~  254 (330)
T 3hym_B          177 LAERFFSQALSI--APEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAE  254 (330)
T ss_dssp             HHHHHHHHHHTT--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHh--CCCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHH
Confidence            999999999753  3445788999999999999999999999876    1       02346789999999999999999


Q ss_pred             HHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHh
Q 006388          463 GKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       463 a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      |...++++++..|+++..+..++.+|...|++++|.+.+++..+
T Consensus       255 A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  298 (330)
T 3hym_B          255 ALDYHRQALVLIPQNASTYSAIGYIHSLMGNFENAVDYFHTALG  298 (330)
T ss_dssp             HHHHHHHHHHHSTTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTT
T ss_pred             HHHHHHHHHhhCccchHHHHHHHHHHHHhccHHHHHHHHHHHHc
Confidence            99999999999999999999999999999999999999997655

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.77  E-value=9.4e-16  Score=164.13  Aligned_cols=208  Identities=9%  Similarity=0.042  Sum_probs=124.8

Q ss_pred             HHHHHHHHHHHhCCCcchhHHHHHHHHHHh-------cCCHH-------HHHHHHhhcCC---C-ChhhHHHHHHHHHHc
Q 006388          293 EGTQFHGRSLVTGLISFITVSNALVTFYGK-------CGNIE-------DSHRLFNEMNV---R-DEVSWTALVSGYAKF  354 (647)
Q Consensus       293 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~-------~g~~~-------~A~~~~~~~~~---~-d~~~~~~li~~~~~~  354 (647)
                      .+..++++++... +.+..+|..++..+.+       .|+++       +|..+|++...   | +...|..++..+.+.
T Consensus       256 ~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~  334 (530)
T 2ooe_A          256 RVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESR  334 (530)
T ss_dssp             HHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhc
Confidence            3444555555442 3345555555555554       46654       66666666542   2 455666777777777


Q ss_pred             CChHHHHHHHHHHHHCCCCCCH--HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCc-ChHHHHHHHHH-HHHcCCHHH
Q 006388          355 GKANETIDLFEKMLSHGLKPDE--VTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRP-IHDHYTCMIDI-LSRAGRLEE  430 (647)
Q Consensus       355 g~~~~A~~~~~~m~~~g~~p~~--~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~-~~~~g~~~~  430 (647)
                      |++++|..+|+++.+.  .|+.  ..|...+..+.+.|++++|+.+|+...+.   .| +...|...+.+ +...|+.++
T Consensus       335 g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~---~~~~~~~~~~~a~~~~~~~~~~~~  409 (530)
T 2ooe_A          335 MKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED---ARTRHHVYVTAALMEYYCSKDKSV  409 (530)
T ss_dssp             TCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC---TTCCTHHHHHHHHHHHHHTCCHHH
T ss_pred             CCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhc---cCCchHHHHHHHHHHHHHcCChhH
Confidence            7777777777777663  4442  35666666666667777777777766542   22 22333222222 235677777


Q ss_pred             HHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCch----hHHHHHHhhhhCCChhHHHHHHHHH
Q 006388          431 AKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPA----SYVLLSSIYASKGKWDHVSQLRRTM  504 (647)
Q Consensus       431 A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~----~~~~l~~~~~~~g~~~~a~~~~~~m  504 (647)
                      |..+|++. ...| +...|..++..+...|+.+.|..+++++++..|.++.    .+...+......|+.+.+..+.+++
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            77777665 2223 3667777777777777777777777777776655443    5555566666677777777777766


Q ss_pred             Hh
Q 006388          505 RE  506 (647)
Q Consensus       505 ~~  506 (647)
                      .+
T Consensus       490 ~~  491 (530)
T 2ooe_A          490 FT  491 (530)
T ss_dssp             HH
T ss_pred             HH
Confidence            54

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.76  E-value=6.4e-17  Score=164.50  Aligned_cols=279  Identities=12%  Similarity=-0.040  Sum_probs=211.9

Q ss_pred             hcCCHHHHHH-HHhcCCC---C----ChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChH
Q 006388          221 KCKSIKYAES-VFRTMAW---K----NVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLE  292 (647)
Q Consensus       221 ~~g~~~~A~~-~~~~~~~---~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~  292 (647)
                      -.|++++|.. .|++...   .    +...|..+...+.+.|++++|+..|+++.+.. +.+..++..+..++...|+++
T Consensus        37 ~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~  115 (368)
T 1fch_A           37 WLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQEL  115 (368)
T ss_dssp             ---------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHH
Confidence            3466777776 6665432   1    24557777778888888888888888887753 335566777777778888888


Q ss_pred             HHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCC---ChhhHHH---------------HHHHHHHc
Q 006388          293 EGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVR---DEVSWTA---------------LVSGYAKF  354 (647)
Q Consensus       293 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---d~~~~~~---------------li~~~~~~  354 (647)
                      +|...+..+.+.. +.+..++..+...|...|++++|.+.|+++...   +...+..               .+..+...
T Consensus       116 ~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  194 (368)
T 1fch_A          116 LAISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSD  194 (368)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHH
T ss_pred             HHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHhhhhcccHHHHHHHHHhhc
Confidence            8888888877765 446677778888888888888888888776521   2222221               13334488


Q ss_pred             CChHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHH
Q 006388          355 GKANETIDLFEKMLSHGLK-PDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKS  433 (647)
Q Consensus       355 g~~~~A~~~~~~m~~~g~~-p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~  433 (647)
                      |++++|+..|+++.+.... ++..++..+...+...|++++|...|+.+.+.  .+.+...+..+...|.+.|++++|.+
T Consensus       195 ~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~g~~~~A~~  272 (368)
T 1fch_A          195 SLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV--RPNDYLLWNKLGATLANGNQSEEAVA  272 (368)
T ss_dssp             HHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            9999999999999885322 14678899999999999999999999999864  23457889999999999999999999


Q ss_pred             HHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCC-----------chhHHHHHHhhhhCCChhHHHHH
Q 006388          434 FINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYN-----------PASYVLLSSIYASKGKWDHVSQL  500 (647)
Q Consensus       434 ~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~-----------~~~~~~l~~~~~~~g~~~~a~~~  500 (647)
                      .++++ ...| +..+|..+...+...|++++|...+++++++.|++           +.++..++.+|...|++++|..+
T Consensus       273 ~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  352 (368)
T 1fch_A          273 AYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAA  352 (368)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHH
T ss_pred             HHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHhHHHh
Confidence            99987 3344 57889999999999999999999999999998877           78999999999999999999998


Q ss_pred             HHH
Q 006388          501 RRT  503 (647)
Q Consensus       501 ~~~  503 (647)
                      +++
T Consensus       353 ~~~  355 (368)
T 1fch_A          353 DAR  355 (368)
T ss_dssp             HTT
T ss_pred             HHH
Confidence            764

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.76  E-value=2.3e-15  Score=161.17  Aligned_cols=406  Identities=11%  Similarity=0.052  Sum_probs=215.8

Q ss_pred             HHHHHHhCCCCchhhHHHHHHHHHhcCChHHHHHHhccCCC--C-CchHHHHHHHHHHhcCChHHHHHHhhcCCC--CCe
Q 006388           65 HGHILKFGFGSYVFVGSPLVDMYAKLGLIYDAKRGFDELPE--K-NIVMYNTMITGLLRRGLVEESRRLFRGMKD--KDS  139 (647)
Q Consensus        65 ~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~  139 (647)
                      ++..++.. +.+...+..++. +.+.|++++|+.+|+++.+  | +...|..++..+.+.|++++|..+|++...  |++
T Consensus         2 le~al~~~-P~~~~~w~~l~~-~~~~~~~~~a~~~~e~al~~~P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~p~~   79 (530)
T 2ooe_A            2 AEKKLEEN-PYDLDAWSILIR-EAQNQPIDKARKTYERLVAQFPSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKVLHI   79 (530)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHH-HHHSSCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTCCCH
T ss_pred             hhhHhhhC-CCCHHHHHHHHH-HHHhCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCh
Confidence            34444444 457778888887 4778889999988888765  3 445677888888888888888888887665  455


Q ss_pred             ehHHHHHHHH-HhCCChhHHHH----HHHHHHH-CCCCCC-hhhHHHHHHHHhc---------CCChHHHHHHHHHHHHc
Q 006388          140 ISWTTMITGL-MQNGLEREAID----LFREMRL-EGLAMD-QFTFGSVLTACGG---------LLALEEGKQIHAFIIRN  203 (647)
Q Consensus       140 ~~~~~li~~~-~~~g~~~~A~~----~~~~m~~-~g~~pd-~~t~~~ll~~~~~---------~~~~~~a~~~~~~~~~~  203 (647)
                      ..|...+... ...|+.++|.+    +|++... .|..|+ ...|...+.....         .|+++.|..+++..++.
T Consensus        80 ~lw~~~~~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~  159 (530)
T 2ooe_A           80 DLWKCYLSYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVN  159 (530)
T ss_dssp             HHHHHHHHHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTS
T ss_pred             HHHHHHHHHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhc
Confidence            5666665432 34566666654    5555543 344443 3344444443332         45667777777776662


Q ss_pred             CCCCchhHHHHHHHHH-------------HhcCCHHHHHHHHhc-------CC------CCC--------hhHHHHHHHH
Q 006388          204 DHKDNVFVGSALVDMY-------------CKCKSIKYAESVFRT-------MA------WKN--------VVSWTAMLVG  249 (647)
Q Consensus       204 g~~~~~~~~~~li~~y-------------~~~g~~~~A~~~~~~-------~~------~~~--------~~~~~~li~~  249 (647)
                      .......+|.......             .+.++++.|..++..       +.      .++        ...|...+..
T Consensus       160 P~~~~~~~~~~~~~~e~~~~~~~~~~~l~~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w~~~~~~  239 (530)
T 2ooe_A          160 PMINIEQLWRDYNKYEEGINIHLAKKMIEDRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVDMWKKYIQW  239 (530)
T ss_dssp             CCTTHHHHHHHHHHHHHHHCHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHHHHHHHHHH
T ss_pred             hhhhHHHHHHHHHHHHHhhchhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHHHHHHHHHHHH
Confidence            1111122333222211             012344455544433       10      111        1344444433


Q ss_pred             HHhcC----Ch----hHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc-------cCChH-------HHHHHHHHHHHhCCC
Q 006388          250 YGQNG----CS----EEAVKIFCNMQRNGIEPDDFTLGSVISSCAN-------LASLE-------EGTQFHGRSLVTGLI  307 (647)
Q Consensus       250 ~~~~g----~~----~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~-------~~~~~-------~a~~~~~~~~~~~~~  307 (647)
                      ...++    +.    ++++.+|++..... +-+...|......+..       .|+++       +|..+++..++.-.+
T Consensus       240 e~~~~~~~~~~~~~~~~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p  318 (530)
T 2ooe_A          240 EKSNPLRTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLK  318 (530)
T ss_dssp             HHHCSSCCSCSHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCS
T ss_pred             HHcCCccCCcchhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCc
Confidence            22211    11    24555666655531 2233444444444433       45554       566666666542223


Q ss_pred             cchhHHHHHHHHHHhcCCHHHHHHHHhhcC--CC-Ch-hhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 006388          308 SFITVSNALVTFYGKCGNIEDSHRLFNEMN--VR-DE-VSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVL  383 (647)
Q Consensus       308 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~--~~-d~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll  383 (647)
                      .+..++..++..+.+.|++++|.++|+++.  .| +. ..|...+..+.+.|+.++|..+|++..+.. +.+...+....
T Consensus       319 ~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~-~~~~~~~~~~a  397 (530)
T 2ooe_A          319 KNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAA  397 (530)
T ss_dssp             SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCT-TCCTHHHHHHH
T ss_pred             ccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCccccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhcc-CCchHHHHHHH
Confidence            445566666666666666666666666554  22 22 356666666666666666666666665531 11122222211


Q ss_pred             H-HHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC----CCCCC--hhhHHHHHHHHHh
Q 006388          384 S-ACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM----PFPPD--AIGWATLLSSCRI  456 (647)
Q Consensus       384 ~-a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~----~~~p~--~~~~~~ll~~~~~  456 (647)
                      . .+...|+.++|..+|+...+..  +.+...|..+++.+.+.|+.++|..+|++.    +..|+  ...|...+.....
T Consensus       398 ~~~~~~~~~~~~A~~~~e~al~~~--p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~  475 (530)
T 2ooe_A          398 LMEYYCSKDKSVAFKIFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESN  475 (530)
T ss_dssp             HHHHHHTCCHHHHHHHHHHHHHHH--TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHH
T ss_pred             HHHHHHcCChhHHHHHHHHHHHHC--CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHH
Confidence            1 1223566666666666665432  223455666666666666666666666655    12221  3356666666666


Q ss_pred             cCChhHHHHHHHHHhccCCC
Q 006388          457 HGNVEIGKWAAESLLELDPY  476 (647)
Q Consensus       457 ~~~~~~a~~~~~~~~~~~p~  476 (647)
                      +|+.+.+..+.+++.+..|+
T Consensus       476 ~G~~~~~~~~~~r~~~~~p~  495 (530)
T 2ooe_A          476 IGDLASILKVEKRRFTAFRE  495 (530)
T ss_dssp             SSCHHHHHHHHHHHHHHTHH
T ss_pred             cCCHHHHHHHHHHHHHHCch
Confidence            66666666666666666653

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.75  E-value=1.2e-14  Score=153.82  Aligned_cols=352  Identities=12%  Similarity=0.010  Sum_probs=295.8

Q ss_pred             CCeehHHHHHHHHHh----CCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHhc----CCChHHHHHHHHHHHHcCCCCc
Q 006388          137 KDSISWTTMITGLMQ----NGLEREAIDLFREMRLEGLAMDQFTFGSVLTACGG----LLALEEGKQIHAFIIRNDHKDN  208 (647)
Q Consensus       137 ~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~----~~~~~~a~~~~~~~~~~g~~~~  208 (647)
                      .++.++..|...|..    .+++++|+..|++..+.|   +...+..+-..+..    .++.++|.+.+....+.|   +
T Consensus        37 g~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~  110 (490)
T 2xm6_A           37 GEAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---L  110 (490)
T ss_dssp             TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---C
T ss_pred             CCHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---C
Confidence            366777778888887    899999999999998865   56677777777777    899999999999999875   5


Q ss_pred             hhHHHHHHHHHHh----cCCHHHHHHHHhcCCCC-ChhHHHHHHHHHHh----cCChhHHHHHHHHHHHCCCCCCHHHHH
Q 006388          209 VFVGSALVDMYCK----CKSIKYAESVFRTMAWK-NVVSWTAMLVGYGQ----NGCSEEAVKIFCNMQRNGIEPDDFTLG  279 (647)
Q Consensus       209 ~~~~~~li~~y~~----~g~~~~A~~~~~~~~~~-~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~t~~  279 (647)
                      ...+..|..+|..    .+++++|...|++..+. ++.++..|...|..    .++.++|++.|++..+.|   +...+.
T Consensus       111 ~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a~~  187 (490)
T 2xm6_A          111 PQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQGRDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWSCN  187 (490)
T ss_dssp             HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             HHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            6677788999998    88999999999987644 67788889999988    789999999999998875   566777


Q ss_pred             HHHHHHhc----cCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHh----cCCHHHHHHHHhhcC-CCChhhHHHHHHH
Q 006388          280 SVISSCAN----LASLEEGTQFHGRSLVTGLISFITVSNALVTFYGK----CGNIEDSHRLFNEMN-VRDEVSWTALVSG  350 (647)
Q Consensus       280 ~ll~a~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~-~~d~~~~~~li~~  350 (647)
                      .+...+..    .++.++|...+....+.+   +......+..+|..    .+++++|.+.|++.. ..+..++..+...
T Consensus       188 ~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~  264 (490)
T 2xm6_A          188 QLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQGNSIAQFRLGYI  264 (490)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             HHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            77777776    899999999999998875   45677788888886    899999999999876 4467788888888


Q ss_pred             HHH----cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcC-----CcHHHHHHHHHHHHHhcCCCcChHHHHHHHHH
Q 006388          351 YAK----FGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRA-----GLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDI  421 (647)
Q Consensus       351 ~~~----~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~-----g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~  421 (647)
                      |..    .++.++|+..|++..+.|   +...+..+...+...     +++++|..+|+...+. +   +...+..|..+
T Consensus       265 y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~-~---~~~a~~~lg~~  337 (490)
T 2xm6_A          265 LEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQ-G---DATAQANLGAI  337 (490)
T ss_dssp             HHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHT-T---CHHHHHHHHHH
T ss_pred             HHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhc-C---CHHHHHHHHHH
Confidence            888    899999999999998765   445666677777766     8999999999998764 3   45677888888


Q ss_pred             HHHcC---CHHHHHHHHHhCCCCCChhhHHHHHHHHHh----cCChhHHHHHHHHHhccCCCCchhHHHHHHhhhh----
Q 006388          422 LSRAG---RLEEAKSFINKMPFPPDAIGWATLLSSCRI----HGNVEIGKWAAESLLELDPYNPASYVLLSSIYAS----  490 (647)
Q Consensus       422 ~~~~g---~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~----  490 (647)
                      |.+.|   ++++|.++|++.-...++..+..|...|..    .+++++|...++++.+.+  ++..+..|+.+|..    
T Consensus       338 y~~~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~--~~~a~~~Lg~~y~~g~g~  415 (490)
T 2xm6_A          338 YFRLGSEEEHKKAVEWFRKAAAKGEKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQG--LSAAQVQLGEIYYYGLGV  415 (490)
T ss_dssp             HHHSCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHTSSS
T ss_pred             HHhCCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCC--CHHHHHHHHHHHHcCCCC
Confidence            88877   889999999988323578889999999988    899999999999998865  57899999999998    


Q ss_pred             CCChhHHHHHHHHHHhCCC
Q 006388          491 KGKWDHVSQLRRTMREKGV  509 (647)
Q Consensus       491 ~g~~~~a~~~~~~m~~~g~  509 (647)
                      .+++++|...+++..+.|.
T Consensus       416 ~~d~~~A~~~~~~A~~~~~  434 (490)
T 2xm6_A          416 ERDYVQAWAWFDTASTNDM  434 (490)
T ss_dssp             CCCHHHHHHHHHHHHHHHC
T ss_pred             CCCHHHHHHHHHHHHHCCC
Confidence            8999999999999988764

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.74  E-value=5.9e-17  Score=164.72  Aligned_cols=261  Identities=10%  Similarity=-0.044  Sum_probs=203.2

Q ss_pred             ChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHH
Q 006388          239 NVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVT  318 (647)
Q Consensus       239 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  318 (647)
                      +...|..+...+.+.|++++|+..|+++.+.. +.+..++..+..++...|++++|...+..+.+.. +.+..++..+..
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~  141 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAV  141 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHH
Confidence            44557778888888888888888888887653 3356677777788888888888888888887764 445677888888


Q ss_pred             HHHhcCCHHHHHHHHhhcCCC---C----------hhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCC-CCHHHHHHHHH
Q 006388          319 FYGKCGNIEDSHRLFNEMNVR---D----------EVSWTALVSGYAKFGKANETIDLFEKMLSHGLK-PDEVTLIGVLS  384 (647)
Q Consensus       319 ~~~~~g~~~~A~~~~~~~~~~---d----------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~~~t~~~ll~  384 (647)
                      .|...|++++|.+.|+++...   +          ...+..+...+...|++++|+..|+++.+.... ++..++..+..
T Consensus       142 ~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~  221 (365)
T 4eqf_A          142 SYTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGV  221 (365)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHH
T ss_pred             HHHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHH
Confidence            888888888888888876522   1          223344578888999999999999999885322 15778889999


Q ss_pred             HHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhH
Q 006388          385 ACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEI  462 (647)
Q Consensus       385 a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~  462 (647)
                      .+...|++++|...|+.+.+.  .+.+...|..+..+|.+.|++++|.+.++++ ...| +..+|..+...+...|++++
T Consensus       222 ~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~  299 (365)
T 4eqf_A          222 LFHLSGEFNRAIDAFNAALTV--RPEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPGFIRSRYNLGISCINLGAYRE  299 (365)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCHHH
Confidence            999999999999999999864  2446789999999999999999999999987 3445 48889999999999999999


Q ss_pred             HHHHHHHHhccCCC------------CchhHHHHHHhhhhCCChhHHHHHHHH
Q 006388          463 GKWAAESLLELDPY------------NPASYVLLSSIYASKGKWDHVSQLRRT  503 (647)
Q Consensus       463 a~~~~~~~~~~~p~------------~~~~~~~l~~~~~~~g~~~~a~~~~~~  503 (647)
                      |...+++++++.|+            +...+..|+.++...|+.+.+.++.++
T Consensus       300 A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          300 AVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             HHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             HHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            99999999998776            367899999999999999988887664

>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=99.73  E-value=2.6e-16  Score=157.18  Aligned_cols=281  Identities=9%  Similarity=0.021  Sum_probs=83.5

Q ss_pred             cCCChhHHHHHHHHHHHCCCCCCCcchHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHHhcCChHHHH
Q 006388           18 SHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGSPLVDMYAKLGLIYDAK   97 (647)
Q Consensus        18 ~~g~~~~A~~~~~~m~~~g~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~   97 (647)
                      +.|+.++|.++++++.     .|  .+|..|..++.+.|++++|...|.+      .+|...+..++..+...|++++|+
T Consensus        15 ~~~~ld~A~~fae~~~-----~~--~vWs~La~A~l~~g~~~eAIdsfik------a~D~~~y~~V~~~ae~~g~~EeAi   81 (449)
T 1b89_A           15 HIGNLDRAYEFAERCN-----EP--AVWSQLAKAQLQKGMVKEAIDSYIK------ADDPSSYMEVVQAANTSGNWEELV   81 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhCC-----Ch--HHHHHHHHHHHHcCCHHHHHHHHHc------CCCHHHHHHHHHHHHhCCCHHHHH
Confidence            3455556666665552     22  2555666666666666666555533      134445555555555566666666


Q ss_pred             HHhccCCC--CCchHHHHHHHHHHhcCChHHHHHHhhcCCCCCeehHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChh
Q 006388           98 RGFDELPE--KNIVMYNTMITGLLRRGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQF  175 (647)
Q Consensus        98 ~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~  175 (647)
                      +.++...+  +++.+.+.++.+|.+.|+++++.++++.   |+..+|+.+...|...|++++|..+|..+         .
T Consensus        82 ~yl~~ark~~~~~~i~~~Li~~Y~Klg~l~e~e~f~~~---pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~  149 (449)
T 1b89_A           82 KYLQMARKKARESYVETELIFALAKTNRLAELEEFING---PNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------S  149 (449)
T ss_dssp             ---------------------------CHHHHTTTTTC---C----------------CTTTHHHHHHHT---------T
T ss_pred             HHHHHHHHhCccchhHHHHHHHHHHhCCHHHHHHHHcC---CcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------h
Confidence            65544432  3334555555555555555555555542   44455666666666666666666666544         2


Q ss_pred             hHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCC
Q 006388          176 TFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWKNVVSWTAMLVGYGQNGC  255 (647)
Q Consensus       176 t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~  255 (647)
                      .|..+..++.+.|++++|.+.+..+      .++.+|..++.+|...|+++.|......+. .++.....++..|.+.|+
T Consensus       150 n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~-~~ad~l~~lv~~Yek~G~  222 (449)
T 1b89_A          150 NFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV-VHADELEELINYYQDRGY  222 (449)
T ss_dssp             CHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT-TCHHHHHHHHHHHHHTTC
T ss_pred             hHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHHH-hCHhhHHHHHHHHHHCCC
Confidence            4555555555555555555555544      245555555555555555555555444433 333333345555666666


Q ss_pred             hhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc--cCChHHHHHHHHHHHHhCCCc------chhHHHHHHHHHHhcCCHH
Q 006388          256 SEEAVKIFCNMQRNGIEPDDFTLGSVISSCAN--LASLEEGTQFHGRSLVTGLIS------FITVSNALVTFYGKCGNIE  327 (647)
Q Consensus       256 ~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~--~~~~~~a~~~~~~~~~~~~~~------~~~~~~~li~~~~~~g~~~  327 (647)
                      +++|+.+++...... +-....|+.+--++++  .+++.+..+.|.  .+.++++      +..+|..++-.|.+-++++
T Consensus       223 ~eEai~lLe~aL~le-~ah~~~ftel~il~~ky~p~k~~ehl~~~~--~~ini~k~~~~~~~~~~w~e~~~ly~~~~e~d  299 (449)
T 1b89_A          223 FEELITMLEAALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFW--SRVNIPKVLRAAEQAHLWAELVFLYDKYEEYD  299 (449)
T ss_dssp             HHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTCHHHHHHHHHHHS--TTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHhCCc-HHHHHHHHHHHHHHHhcCHHHHHHHHHHHH--HHhcCcHHHHHHHHHHHHHHHHHHHHhhchHH
Confidence            666666665554322 1122223333222222  222222222222  1111121      2445566666666666666


Q ss_pred             HHHHHH
Q 006388          328 DSHRLF  333 (647)
Q Consensus       328 ~A~~~~  333 (647)
                      .|..+.
T Consensus       300 ~A~~tm  305 (449)
T 1b89_A          300 NAIITM  305 (449)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            665543

>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=99.73  E-value=4.4e-16  Score=158.25  Aligned_cols=270  Identities=13%  Similarity=-0.005  Sum_probs=144.5

Q ss_pred             HHHHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCChhHHHHHHHHHHhc
Q 006388          177 FGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMA---WKNVVSWTAMLVGYGQN  253 (647)
Q Consensus       177 ~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~  253 (647)
                      +..+...+...|++++|...+..+++.. +.+..++..+...|.+.|++++|...|+++.   ..+..+|..+...|...
T Consensus        67 ~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~  145 (368)
T 1fch_A           67 PFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELKPDNQTALMALAVSFTNE  145 (368)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHc
Confidence            3344444444444444444444444432 2344455556666666666666666666543   23556777777777777


Q ss_pred             CChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHH
Q 006388          254 GCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLF  333 (647)
Q Consensus       254 g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~  333 (647)
                      |++++|+..|+++....  |+........      +.....           ..+ ......+...+ ..|++++|...|
T Consensus       146 g~~~~A~~~~~~~~~~~--~~~~~~~~~~------~~~~~~-----------~~~-~~~~~~~~~~~-~~~~~~~A~~~~  204 (368)
T 1fch_A          146 SLQRQACEILRDWLRYT--PAYAHLVTPA------EEGAGG-----------AGL-GPSKRILGSLL-SDSLFLEVKELF  204 (368)
T ss_dssp             TCHHHHHHHHHHHHHTS--TTTGGGCC---------------------------------CTTHHHH-HHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhC--cCcHHHHHHH------HHHhhh-----------hcc-cHHHHHHHHHh-hcccHHHHHHHH
Confidence            77777777777777653  3222111000      000000           000 00001112222 455555555555


Q ss_pred             hhcC--CC---ChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCC
Q 006388          334 NEMN--VR---DEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGI  408 (647)
Q Consensus       334 ~~~~--~~---d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~  408 (647)
                      +++.  .|   +..+|..+...|...|++++|+..|+++.+.. +.+..++..+...+...|++++|...|+.+.+.  .
T Consensus       205 ~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~  281 (368)
T 1fch_A          205 LAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALEL--Q  281 (368)
T ss_dssp             HHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--C
T ss_pred             HHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--C
Confidence            5543  11   34556666666666666666666666665531 223446666666666666666666666666543  1


Q ss_pred             CcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC------------ChhhHHHHHHHHHhcCChhHHHHHHHHHh
Q 006388          409 RPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP------------DAIGWATLLSSCRIHGNVEIGKWAAESLL  471 (647)
Q Consensus       409 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p------------~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  471 (647)
                      +.+...+..+..+|.+.|++++|.+.++++ ...|            ...+|..+..++...|+.++|..++++.+
T Consensus       282 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l  357 (368)
T 1fch_A          282 PGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAADARDL  357 (368)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHHHTTCH
T ss_pred             CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHhHHHhHHHHH
Confidence            234556666666677777777777666655 1111            15667777777777777777777666443

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.72  E-value=2.8e-15  Score=146.54  Aligned_cols=268  Identities=10%  Similarity=0.001  Sum_probs=205.6

Q ss_pred             HHHhcCCHHHHHHHHhcCCCCCh----hHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHH
Q 006388          218 MYCKCKSIKYAESVFRTMAWKNV----VSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEE  293 (647)
Q Consensus       218 ~y~~~g~~~~A~~~~~~~~~~~~----~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~  293 (647)
                      -....|+++.|+..++.....++    ...-.+..+|...|++++|+..++.    .-+|+..++..+...+...++.+.
T Consensus         8 ~~~~~g~y~~ai~~~~~~~~~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~----~~~~~~~a~~~la~~~~~~~~~~~   83 (291)
T 3mkr_A            8 NAFYIGSYQQCINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKP----SSAPELQAVRMFAEYLASHSRRDA   83 (291)
T ss_dssp             HHHHTTCHHHHHHHHHHSCCCSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT----TSCHHHHHHHHHHHHHHCSTTHHH
T ss_pred             HHHHHHHHHHHHHHHHhcccCCchhhHHHHHHHHHHHHHCCCHHHHHHHhcc----cCChhHHHHHHHHHHHcCCCcHHH
Confidence            34456778888887777655442    2345567788888888888876644    134566677777777788888888


Q ss_pred             HHHHHHHHHHhCC-CcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCC
Q 006388          294 GTQFHGRSLVTGL-ISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGL  372 (647)
Q Consensus       294 a~~~~~~~~~~~~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  372 (647)
                      |.+.++.+...+. +.+...+..+...|...|++++|.+.|++  ..+...+..++..|.+.|++++|...|+++.+.  
T Consensus        84 A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~--~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~--  159 (291)
T 3mkr_A           84 IVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ--GDSLECMAMTVQILLKLDRLDLARKELKKMQDQ--  159 (291)
T ss_dssp             HHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT--CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--
T ss_pred             HHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh--
Confidence            8888888877664 34566677788899999999999999998  567889999999999999999999999999985  


Q ss_pred             CCCHHHH---HHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhH
Q 006388          373 KPDEVTL---IGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGW  447 (647)
Q Consensus       373 ~p~~~t~---~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~  447 (647)
                      .|+....   ...+..+...|++++|..+|+++.+.  .+.+...++.+..++.+.|++++|.+.++++ ...| ++.+|
T Consensus       160 ~p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~--~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~p~~~~~l  237 (291)
T 3mkr_A          160 DEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK--CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDSGHPETL  237 (291)
T ss_dssp             CTTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH--SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             CcCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHH
Confidence            4665321   12334445669999999999999875  4567889999999999999999999999987 4445 57889


Q ss_pred             HHHHHHHHhcCChhH-HHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHH
Q 006388          448 ATLLSSCRIHGNVEI-GKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQ  499 (647)
Q Consensus       448 ~~ll~~~~~~~~~~~-a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~  499 (647)
                      ..++..+...|+.++ +...++++++++|+++.+..    ...+.+.++++..
T Consensus       238 ~~l~~~~~~~g~~~eaa~~~~~~~~~~~P~~~~~~d----~~~~~~~fd~~~~  286 (291)
T 3mkr_A          238 INLVVLSQHLGKPPEVTNRYLSQLKDAHRSHPFIKE----YRAKENDFDRLVL  286 (291)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHH----HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHHhCCCChHHHH----HHHHHHHHHHHHH
Confidence            999999999998865 67899999999999876543    4455555555543

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.72  E-value=4.3e-15  Score=156.59  Aligned_cols=327  Identities=12%  Similarity=0.042  Sum_probs=174.5

Q ss_pred             hHHHHHHHHhcCCChHHHHHHHHHHHHcC------C-CCchhHHHHHHHHHHhc--CCHHHHHHHHhcCCC---CChhHH
Q 006388          176 TFGSVLTACGGLLALEEGKQIHAFIIRND------H-KDNVFVGSALVDMYCKC--KSIKYAESVFRTMAW---KNVVSW  243 (647)
Q Consensus       176 t~~~ll~~~~~~~~~~~a~~~~~~~~~~g------~-~~~~~~~~~li~~y~~~--g~~~~A~~~~~~~~~---~~~~~~  243 (647)
                      +|..+..++...|++++|...++.+++..      . .....++..+..++.+.  +++++|...|++..+   .++..+
T Consensus        96 ~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~~~~~~  175 (472)
T 4g1t_A           96 TWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPKNPEFT  175 (472)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTTCHHHH
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcccccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCCCHHHH
Confidence            44444444555555555554444443310      0 01122333333333333  345666666665432   233444


Q ss_pred             HHHHHH---HHhcCChhHHHHHHHHHHHCCCCCC-HHHHHHHHHHHh----ccCChHHHHHHHHHHHHhCCCcchhHHHH
Q 006388          244 TAMLVG---YGQNGCSEEAVKIFCNMQRNGIEPD-DFTLGSVISSCA----NLASLEEGTQFHGRSLVTGLISFITVSNA  315 (647)
Q Consensus       244 ~~li~~---~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  315 (647)
                      ..+...   +...++.++|++.|++..+.  .|+ ...+..+...+.    ..++.++|.+.+....+.. +.+..++..
T Consensus       176 ~~~~~~~~~l~~~~~~~~al~~~~~al~l--~p~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~  252 (472)
T 4g1t_A          176 SGLAIASYRLDNWPPSQNAIDPLRQAIRL--NPDNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLRS  252 (472)
T ss_dssp             HHHHHHHHHHHHSCCCCCTHHHHHHHHHH--CSSCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHHHH
T ss_pred             HHHHHHHHHhcCchHHHHHHHHHHHHhhc--CCcchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHHH
Confidence            443333   23345566666666666553  232 333333333332    2345566666666666554 344555666


Q ss_pred             HHHHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHHHHH-------------------cCChHHHHHHHHHHHHCCCC
Q 006388          316 LVTFYGKCGNIEDSHRLFNEMN---VRDEVSWTALVSGYAK-------------------FGKANETIDLFEKMLSHGLK  373 (647)
Q Consensus       316 li~~~~~~g~~~~A~~~~~~~~---~~d~~~~~~li~~~~~-------------------~g~~~~A~~~~~~m~~~g~~  373 (647)
                      +...|.+.|++++|...|++..   ..+..+|..+...|..                   .+..++|...|++..+.  .
T Consensus       253 lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~  330 (472)
T 4g1t_A          253 AAKFYRRKDEPDKAIELLKKALEYIPNNAYLHCQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEA--N  330 (472)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHH--C
T ss_pred             HHHHHHHcCchHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhc--C
Confidence            6667777777777777766654   2244455555444422                   23356788888887764  3


Q ss_pred             CC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcCh--HHHHHHHH-HHHHcCCHHHHHHHHHhC-CCCCChhhHH
Q 006388          374 PD-EVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIH--DHYTCMID-ILSRAGRLEEAKSFINKM-PFPPDAIGWA  448 (647)
Q Consensus       374 p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~--~~~~~li~-~~~~~g~~~~A~~~~~~~-~~~p~~~~~~  448 (647)
                      |+ ..++..+...+...|++++|...|+...+. ...|..  ..+..+.. .+...|+.++|++.+++. .+.|+...+.
T Consensus       331 ~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~~~~~~~~  409 (472)
T 4g1t_A          331 DNLFRVCSILASLHALADQYEEAEYYFQKEFSK-ELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKINQKSREKE  409 (472)
T ss_dssp             TTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHS-CCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSCCCCHHHH
T ss_pred             CchhhhhhhHHHHHHHhccHHHHHHHHHHHHhc-CCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcccHHHH
Confidence            33 346777888899999999999999988753 222221  12333333 234678999999999877 5667654443


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHhCCCccCCCcce
Q 006388          449 TLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREKGVRKDPGCSW  517 (647)
Q Consensus       449 ~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~s~  517 (647)
                      ..         ...+..++++.++.+|+++.+|..|+.+|...|++++|.+.+++..+.|-......+|
T Consensus       410 ~~---------~~~l~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a~~~  469 (472)
T 4g1t_A          410 KM---------KDKLQKIAKMRLSKNGADSEALHVLAFLQELNEKMQQADEDSERGLESGSLIPSASSW  469 (472)
T ss_dssp             HH---------HHHHHHHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC----------------------
T ss_pred             HH---------HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcHhhc
Confidence            32         3445677888889999999999999999999999999999999998766443233344

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=99.70  E-value=9.8e-16  Score=152.73  Aligned_cols=255  Identities=10%  Similarity=-0.053  Sum_probs=171.3

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcC
Q 006388          245 AMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCG  324 (647)
Q Consensus       245 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  324 (647)
                      .+...+...|++++|+.+|+++.+.. +.+...+..+..++...|++++|...+..+.+.. +.+..++..+...|...|
T Consensus        26 ~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~  103 (327)
T 3cv0_A           26 EEGLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEH  103 (327)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHHHHHHcC
Confidence            33334444444444444444443321 1122333333444444444444444444444432 223344444555555555


Q ss_pred             CHHHHHHHHhhcCC---CChhhHHHH--------------HH-HHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 006388          325 NIEDSHRLFNEMNV---RDEVSWTAL--------------VS-GYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSAC  386 (647)
Q Consensus       325 ~~~~A~~~~~~~~~---~d~~~~~~l--------------i~-~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~  386 (647)
                      ++++|.+.|+++..   .+...+..+              .. .+...|++++|...++++.+.. +.+...+..+...+
T Consensus       104 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~  182 (327)
T 3cv0_A          104 NANAALASLRAWLLSQPQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN-PNDAQLHASLGVLY  182 (327)
T ss_dssp             CHHHHHHHHHHHHHTSTTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHH
Confidence            55555555554431   122222222              22 3667788999999999998753 33567888888999


Q ss_pred             hcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHH
Q 006388          387 SRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGK  464 (647)
Q Consensus       387 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~  464 (647)
                      ...|++++|...++.+.+.  .+.+...+..+...|.+.|++++|.+.++++ ...| +..+|..+...+...|++++|.
T Consensus       183 ~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~g~~~~A~  260 (327)
T 3cv0_A          183 NLSNNYDSAAANLRRAVEL--RPDDAQLWNKLGATLANGNRPQEALDAYNRALDINPGYVRVMYNMAVSYSNMSQYDLAA  260 (327)
T ss_dssp             HHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhccHHHHH
Confidence            9999999999999998864  2345788999999999999999999999887 3334 5788999999999999999999


Q ss_pred             HHHHHHhccCCC------------CchhHHHHHHhhhhCCChhHHHHHHHHH
Q 006388          465 WAAESLLELDPY------------NPASYVLLSSIYASKGKWDHVSQLRRTM  504 (647)
Q Consensus       465 ~~~~~~~~~~p~------------~~~~~~~l~~~~~~~g~~~~a~~~~~~m  504 (647)
                      ..++++++..|.            ++..+..++.+|...|++++|..++++.
T Consensus       261 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  312 (327)
T 3cv0_A          261 KQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQN  312 (327)
T ss_dssp             HHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCC
T ss_pred             HHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            999999999998            6889999999999999999999998754

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.69  E-value=1.6e-15  Score=154.11  Aligned_cols=231  Identities=13%  Similarity=0.006  Sum_probs=196.5

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHH
Q 006388          274 DDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMN---VRDEVSWTALVSG  350 (647)
Q Consensus       274 ~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~d~~~~~~li~~  350 (647)
                      +...+..+...+...|++++|...+..+++.. +.+..++..+...|.+.|++++|.+.|+++.   ..+..+|..+...
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~  142 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQPNNLKALMALAVS  142 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHH
Confidence            34558888889999999999999999999875 5578889999999999999999999999876   3468899999999


Q ss_pred             HHHcCChHHHHHHHHHHHHCCCCCCHH-----------HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHH
Q 006388          351 YAKFGKANETIDLFEKMLSHGLKPDEV-----------TLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMI  419 (647)
Q Consensus       351 ~~~~g~~~~A~~~~~~m~~~g~~p~~~-----------t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li  419 (647)
                      |...|++++|+..|+++.+.  .|+..           .+..+...+...|++++|..+|+.+.+...-.++...+..+.
T Consensus       143 ~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~  220 (365)
T 4eqf_A          143 YTNTSHQQDACEALKNWIKQ--NPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLG  220 (365)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--CHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHH
T ss_pred             HHccccHHHHHHHHHHHHHh--CccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHH
Confidence            99999999999999999874  34432           233457788999999999999999987643333688999999


Q ss_pred             HHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHH
Q 006388          420 DILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHV  497 (647)
Q Consensus       420 ~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a  497 (647)
                      ..|.+.|++++|.+.++++ ...| +..+|..+...+...|++++|+..++++++..|+++.++..++.+|...|++++|
T Consensus       221 ~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A  300 (365)
T 4eqf_A          221 VLFHLSGEFNRAIDAFNAALTVRPEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPGFIRSRYNLGISCINLGAYREA  300 (365)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCHHHH
Confidence            9999999999999999987 3334 5889999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhC
Q 006388          498 SQLRRTMREK  507 (647)
Q Consensus       498 ~~~~~~m~~~  507 (647)
                      .+.++++.+.
T Consensus       301 ~~~~~~al~~  310 (365)
T 4eqf_A          301 VSNFLTALSL  310 (365)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            9999998763

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.69  E-value=3.1e-15  Score=146.26  Aligned_cols=246  Identities=8%  Similarity=0.018  Sum_probs=201.6

Q ss_pred             HHHHHhcCChhHHHHHHHHHHHCCCCCCH--HHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcC
Q 006388          247 LVGYGQNGCSEEAVKIFCNMQRNGIEPDD--FTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCG  324 (647)
Q Consensus       247 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  324 (647)
                      |.-....|++..|+..+++...  ..|+.  .....+..++...|+++.|...++.    .-+|+...+..+...|...|
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            3455678999999998877543  34554  3446677899999999999875533    24667888899999999999


Q ss_pred             CHHHHHHHHhhcC----CC-ChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHH
Q 006388          325 NIEDSHRLFNEMN----VR-DEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYF  399 (647)
Q Consensus       325 ~~~~A~~~~~~~~----~~-d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~  399 (647)
                      +.++|.+.++++.    .| +...+..+...+.+.|++++|++.+++      ..+...+..+...+.+.|++++|.+.|
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            9999999999864    24 566778888999999999999999987      456778888999999999999999999


Q ss_pred             HHHHHhcCCCcChHH---HHHHHHHHHHcCCHHHHHHHHHhC--CCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhccC
Q 006388          400 EIMVKEYGIRPIHDH---YTCMIDILSRAGRLEEAKSFINKM--PFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELD  474 (647)
Q Consensus       400 ~~~~~~~~~~p~~~~---~~~li~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  474 (647)
                      +.+.+.   .|+...   ...++..+...|++++|..+|+++  ..+++...|+.+..++...|++++|+..++++++.+
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            999875   355321   223445555669999999999998  234568899999999999999999999999999999


Q ss_pred             CCCchhHHHHHHhhhhCCChhH-HHHHHHHHHhC
Q 006388          475 PYNPASYVLLSSIYASKGKWDH-VSQLRRTMREK  507 (647)
Q Consensus       475 p~~~~~~~~l~~~~~~~g~~~~-a~~~~~~m~~~  507 (647)
                      |+++.++..++.++...|++++ +.++++++.+.
T Consensus       231 p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~  264 (291)
T 3mkr_A          231 SGHPETLINLVVLSQHLGKPPEVTNRYLSQLKDA  264 (291)
T ss_dssp             TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh
Confidence            9999999999999999999976 56888888763

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.66  E-value=2.6e-14  Score=150.57  Aligned_cols=378  Identities=12%  Similarity=-0.015  Sum_probs=218.6

Q ss_pred             CchhhHHHHHHHHHhcCChHHHHHHhccCC-----------CC-CchHHHHHHHHHHhcCChHHHHHHhhcCCC------
Q 006388           75 SYVFVGSPLVDMYAKLGLIYDAKRGFDELP-----------EK-NIVMYNTMITGLLRRGLVEESRRLFRGMKD------  136 (647)
Q Consensus        75 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~-----------~~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~------  136 (647)
                      .....||.|...|...|++++|.+.|++..           ++ ...+|+.+...|...|++++|...|++..+      
T Consensus        49 ~~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~  128 (472)
T 4g1t_A           49 FKATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFS  128 (472)
T ss_dssp             -CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSC
T ss_pred             hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcc
Confidence            345678999999999999999998887642           12 345788888888888888888887765432      


Q ss_pred             -C----CeehHHHHHHHHHh--CCChhHHHHHHHHHHHCCCCCChh-hHHHHHHH---HhcCCChHHHHHHHHHHHHcCC
Q 006388          137 -K----DSISWTTMITGLMQ--NGLEREAIDLFREMRLEGLAMDQF-TFGSVLTA---CGGLLALEEGKQIHAFIIRNDH  205 (647)
Q Consensus       137 -~----~~~~~~~li~~~~~--~g~~~~A~~~~~~m~~~g~~pd~~-t~~~ll~~---~~~~~~~~~a~~~~~~~~~~g~  205 (647)
                       +    ...+++.+..++..  .+++++|++.|++..+.  .|+.. .+..+..+   +...++.++|.+.++..++.. 
T Consensus       129 ~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~--~p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~-  205 (472)
T 4g1t_A          129 SPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEK--KPKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN-  205 (472)
T ss_dssp             CSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC-
T ss_pred             cccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC-
Confidence             1    22345555444444  35688888888888764  35433 23333222   345667777888888777764 


Q ss_pred             CCchhHHHHHHHHHHh----cCCHHHHHHHHhcCC---CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCH-HH
Q 006388          206 KDNVFVGSALVDMYCK----CKSIKYAESVFRTMA---WKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDD-FT  277 (647)
Q Consensus       206 ~~~~~~~~~li~~y~~----~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~t  277 (647)
                      +.+..++..+...+..    .|+.++|.+.+++..   ..+..+|..+...|...|++++|+..|++..+.  .|+. .+
T Consensus       206 p~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~  283 (472)
T 4g1t_A          206 PDNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKAPGVTDVLRSAAKFYRRKDEPDKAIELLKKALEY--IPNNAYL  283 (472)
T ss_dssp             SSCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHH
T ss_pred             CcchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHh--CCChHHH
Confidence            3344555555444443    456777888777653   345667888888888888888888888887764  3443 34


Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHHHHHc
Q 006388          278 LGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMN---VRDEVSWTALVSGYAKF  354 (647)
Q Consensus       278 ~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~d~~~~~~li~~~~~~  354 (647)
                      +..+..++...+..     .    ....       ...........+..+.|...|+...   ..+..+|..+...|...
T Consensus       284 ~~~lg~~y~~~~~~-----~----~~~~-------~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~lg~~~~~~  347 (472)
T 4g1t_A          284 HCQIGCCYRAKVFQ-----V----MNLR-------ENGMYGKRKLLELIGHAVAHLKKADEANDNLFRVCSILASLHALA  347 (472)
T ss_dssp             HHHHHHHHHHHHHH-----H----HHC-------------CHHHHHHHHHHHHHHHHHHHHHCTTTCCCHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHH-----h----hhHH-------HHHHHHHHHHHhhHHHHHHHHHHHhhcCCchhhhhhhHHHHHHHh
Confidence            44443333211000     0    0000       0001111112233567777777654   44677899999999999


Q ss_pred             CChHHHHHHHHHHHHCCCCCCHH--HHHHHHH-HHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHH
Q 006388          355 GKANETIDLFEKMLSHGLKPDEV--TLIGVLS-ACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEA  431 (647)
Q Consensus       355 g~~~~A~~~~~~m~~~g~~p~~~--t~~~ll~-a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A  431 (647)
                      |++++|+..|++..+....|...  .+..+.. ...+.|+.++|+..|+...+   +.|+........         ..+
T Consensus       348 ~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~---i~~~~~~~~~~~---------~~l  415 (472)
T 4g1t_A          348 DQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVK---INQKSREKEKMK---------DKL  415 (472)
T ss_dssp             TCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHH---SCCCCHHHHHHH---------HHH
T ss_pred             ccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCcccHHHHHHH---------HHH
Confidence            99999999999998864333322  2222222 34578999999999998874   455543322222         233


Q ss_pred             HHHHHhC-CCC-CChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHH
Q 006388          432 KSFINKM-PFP-PDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLS  485 (647)
Q Consensus       432 ~~~~~~~-~~~-p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~  485 (647)
                      .+++++. ... .++.+|..|...+...|++++|+..++++++++|.+|.+..-++
T Consensus       416 ~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a~~~~G  471 (472)
T 4g1t_A          416 QKIAKMRLSKNGADSEALHVLAFLQELNEKMQQADEDSERGLESGSLIPSASSWNG  471 (472)
T ss_dssp             HHHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC------------------------
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcHhhcCC
Confidence            3444433 223 35789999999999999999999999999999998887765543

>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=1.6e-16  Score=171.03  Aligned_cols=133  Identities=17%  Similarity=0.161  Sum_probs=116.6

Q ss_pred             CCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcC-------CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHH
Q 006388          305 GLISFITVSNALVTFYGKCGNIEDSHRLFNEMN-------VRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEV  377 (647)
Q Consensus       305 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~-------~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~  377 (647)
                      ....-..+||+||++|+++|++++|.++|++|.       .||+++||+||.+|++.|++++|.++|++|.+.|+.||.+
T Consensus       122 ~~~~~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvv  201 (1134)
T 3spa_A          122 QLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLL  201 (1134)
T ss_dssp             CCCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHH
T ss_pred             HHHhHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHH
Confidence            344556789999999999999999999997753       6799999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCCc-HHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC
Q 006388          378 TLIGVLSACSRAGL-VEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM  438 (647)
Q Consensus       378 t~~~ll~a~~~~g~-~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~  438 (647)
                      ||+++|.++++.|. .++|.++|++|.+. |+.||..+|++++....+.+-++...++...+
T Consensus       202 TYntLI~glcK~G~~~e~A~~Ll~EM~~k-G~~PD~vtY~~ll~~~eR~~vL~~Vrkv~P~f  262 (1134)
T 3spa_A          202 SYAAALQCMGRQDQDAGTIERCLEQMSQE-GLKLQALFTAVLLSEEDRATVLKAVHKVKPTF  262 (1134)
T ss_dssp             HHHHHHHHHHHHTCCHHHHHHHHHHHHHH-TCCSHHHHHHSCCCHHHHHHHHHHHGGGCCCC
T ss_pred             HHHHHHHHHHhCCCcHHHHHHHHHHHHHc-CCCCChhhcccccChhhHHHHHHHHHHhCccc
Confidence            99999999999987 57899999999887 99999999999998888776666555554444

>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=99.65  E-value=4.8e-14  Score=140.39  Aligned_cols=263  Identities=10%  Similarity=-0.021  Sum_probs=135.8

Q ss_pred             CeehHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHH
Q 006388          138 DSISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVD  217 (647)
Q Consensus       138 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~  217 (647)
                      +...|..+...+.+.|++++|+.+|+++.+... .+..++..+...+...|++++|.+.++.+++.. +           
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~-----------   86 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQAAP-EREEAWRSLGLTQAENEKDGLAIIALNHARMLD-P-----------   86 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-T-----------
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-c-----------
Confidence            445566677777777777777777777766421 133344444445555555555555555544432 1           


Q ss_pred             HHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHH-HHHHH-------------HH
Q 006388          218 MYCKCKSIKYAESVFRTMAWKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDF-TLGSV-------------IS  283 (647)
Q Consensus       218 ~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~l-------------l~  283 (647)
                                          .+..+|..+...|...|++++|++.|+++....  |+.. .+..+             ..
T Consensus        87 --------------------~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~  144 (327)
T 3cv0_A           87 --------------------KDIAVHAALAVSHTNEHNANAALASLRAWLLSQ--PQYEQLGSVNLQADVDIDDLNVQSE  144 (327)
T ss_dssp             --------------------TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS--TTTTTC-------------------
T ss_pred             --------------------CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CccHHHHHHHhHHHHHHHHHHHHHH
Confidence                                234455555556666666666666666665542  2221 11111             02


Q ss_pred             --HHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHHHHHcCChH
Q 006388          284 --SCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMN---VRDEVSWTALVSGYAKFGKAN  358 (647)
Q Consensus       284 --a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~d~~~~~~li~~~~~~g~~~  358 (647)
                        .+...|++++|...+..+.+.. +.+..++..+...|.+.|++++|.+.|+++.   ..+..+|..+...+...|+++
T Consensus       145 ~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  223 (327)
T 3cv0_A          145 DFFFAAPNEYRECRTLLHAALEMN-PNDAQLHASLGVLYNLSNNYDSAAANLRRAVELRPDDAQLWNKLGATLANGNRPQ  223 (327)
T ss_dssp             -CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             hHHHHHcccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHH
Confidence              2455566666666666665553 2344555555556666666666665555543   223445555555555556666


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCC----------cChHHHHHHHHHHHHcCCH
Q 006388          359 ETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIR----------PIHDHYTCMIDILSRAGRL  428 (647)
Q Consensus       359 ~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~----------p~~~~~~~li~~~~~~g~~  428 (647)
                      +|+..|+++.+.. +.+..++..+...+...|++++|.+.|+.+.+...-.          .+...+..+..+|.+.|++
T Consensus       224 ~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  302 (327)
T 3cv0_A          224 EALDAYNRALDIN-PGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRP  302 (327)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCH
Confidence            6666555555431 1223445555555555555555555555554321100          0234444555555555555


Q ss_pred             HHHHHHHHh
Q 006388          429 EEAKSFINK  437 (647)
Q Consensus       429 ~~A~~~~~~  437 (647)
                      ++|..++++
T Consensus       303 ~~A~~~~~~  311 (327)
T 3cv0_A          303 DLVELTYAQ  311 (327)
T ss_dssp             HHHHHHTTC
T ss_pred             HHHHHHHHH
Confidence            555555443

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.64  E-value=1.9e-16  Score=170.37  Aligned_cols=150  Identities=13%  Similarity=0.137  Sum_probs=124.5

Q ss_pred             CCchhHHHHHHHHHHhcCCHHHHHHHHhcCC-------CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHH
Q 006388          206 KDNVFVGSALVDMYCKCKSIKYAESVFRTMA-------WKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTL  278 (647)
Q Consensus       206 ~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~-------~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~  278 (647)
                      ..-..+||+||++|+++|++++|.++|++|.       .+|++|||+||.+|++.|+.++|.++|++|.+.|+.||.+||
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            4445689999999999999999999997753       579999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhccCCh-HHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCC-----ChhhHHHHHHHHH
Q 006388          279 GSVISSCANLASL-EEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVR-----DEVSWTALVSGYA  352 (647)
Q Consensus       279 ~~ll~a~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-----d~~~~~~li~~~~  352 (647)
                      +++|.++++.|.. +.|.+++++|.+.|+.||..+|++++..+.+.+-++.+.+++..+..+     .+.+-..|...|.
T Consensus       204 ntLI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~vL~~Vrkv~P~f~p~~~~~~~~~t~~LL~dl~s  283 (1134)
T 3spa_A          204 AAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYA  283 (1134)
T ss_dssp             HHHHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHHHHHHGGGCCCCCCCCCCCCCCCCCTTTHHHHC
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHHHHHHHHhCcccCCCCCCcccccchHHHHHHHc
Confidence            9999999999985 789999999999999999999999998887766555555554444321     1334444555555


Q ss_pred             HcC
Q 006388          353 KFG  355 (647)
Q Consensus       353 ~~g  355 (647)
                      +.+
T Consensus       284 ~d~  286 (1134)
T 3spa_A          284 KDG  286 (1134)
T ss_dssp             CCS
T ss_pred             cCC
Confidence            544

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.60  E-value=9.8e-14  Score=132.90  Aligned_cols=225  Identities=14%  Similarity=0.060  Sum_probs=162.1

Q ss_pred             hHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHH
Q 006388          241 VSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFY  320 (647)
Q Consensus       241 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  320 (647)
                      ..|..+...+...|++++|+..|++..+..  .+...+..+..++...|++++|...+..+.+.....            
T Consensus         6 ~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~------------   71 (258)
T 3uq3_A            6 DKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREM------------   71 (258)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHT------------
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCccc------------
Confidence            455666666666666666666666666554  444555555555555555555555554444321000            


Q ss_pred             HhcCCHHHHHHHHhhcCCCC----hhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHH
Q 006388          321 GKCGNIEDSHRLFNEMNVRD----EVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGR  396 (647)
Q Consensus       321 ~~~g~~~~A~~~~~~~~~~d----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~  396 (647)
                                       .++    ...|..+...|...|++++|+..|++..+.  .|+.       ..+...|++++|.
T Consensus        72 -----------------~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~-------~~~~~~~~~~~a~  125 (258)
T 3uq3_A           72 -----------------RADYKVISKSFARIGNAYHKLGDLKKTIEYYQKSLTE--HRTA-------DILTKLRNAEKEL  125 (258)
T ss_dssp             -----------------TCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCH-------HHHHHHHHHHHHH
T ss_pred             -----------------ccchHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhc--Cchh-------HHHHHHhHHHHHH
Confidence                             001    456677777788888888888888888773  4553       2355567888888


Q ss_pred             HHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccC
Q 006388          397 HYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELD  474 (647)
Q Consensus       397 ~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  474 (647)
                      ..++.+..  ..+.+...+..+...+...|++++|.+.++++ ...| +..+|..+...+...|++++|...++++++..
T Consensus       126 ~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~  203 (258)
T 3uq3_A          126 KKAEAEAY--VNPEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD  203 (258)
T ss_dssp             HHHHHHHH--CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHH--cCcchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC
Confidence            88888875  22335577888889999999999999999887 3333 57889999999999999999999999999999


Q ss_pred             CCCchhHHHHHHhhhhCCChhHHHHHHHHHHhC
Q 006388          475 PYNPASYVLLSSIYASKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       475 p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  507 (647)
                      |+++..+..++.+|...|++++|.+.+++..+.
T Consensus       204 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  236 (258)
T 3uq3_A          204 PNFVRAYIRKATAQIAVKEYASALETLDAARTK  236 (258)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh
Confidence            999999999999999999999999999988763

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.59  E-value=3.9e-14  Score=132.09  Aligned_cols=194  Identities=13%  Similarity=0.031  Sum_probs=153.4

Q ss_pred             CcchhHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC-HHHHHHH
Q 006388          307 ISFITVSNALVTFYGKCGNIEDSHRLFNEMN---VRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPD-EVTLIGV  382 (647)
Q Consensus       307 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~l  382 (647)
                      +++...+..+...+.+.|++++|...|++..   ..+...|..+...+.+.|++++|+..|++..+.  .|+ ...+..+
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~l   79 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKENPQDPEALYWLARTQLKLGLVNPALENGKTLVAR--TPRYLGGYMVL   79 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHH
Confidence            4556677778888889999999999998765   336778888889999999999999999998874  454 4577788


Q ss_pred             HHHHhcC-----------CcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCChhhHHHH
Q 006388          383 LSACSRA-----------GLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPPDAIGWATL  450 (647)
Q Consensus       383 l~a~~~~-----------g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l  450 (647)
                      ..++...           |++++|...|+...+.  -+.+...+..+..+|...|++++|.+.|++. ....++..|..+
T Consensus        80 g~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~l  157 (217)
T 2pl2_A           80 SEAYVALYRQAEDRERGKGYLEQALSVLKDAERV--NPRYAPLHLQRGLVYALLGERDKAEASLKQALALEDTPEIRSAL  157 (217)
T ss_dssp             HHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHH
T ss_pred             HHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcccchHHHHHH
Confidence            8888888           9999999999999864  2335678889999999999999999999987 222678899999


Q ss_pred             HHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHH
Q 006388          451 LSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTM  504 (647)
Q Consensus       451 l~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  504 (647)
                      ...+...|++++|+..++++++.+|+++..+..++.+|...|++++|.+.+++.
T Consensus       158 a~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~  211 (217)
T 2pl2_A          158 AELYLSMGRLDEALAQYAKALEQAPKDLDLRVRYASALLLKGKAEEAARAAALE  211 (217)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTC--------------
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999999998864

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.58  E-value=1.1e-13  Score=132.63  Aligned_cols=235  Identities=12%  Similarity=0.042  Sum_probs=166.3

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhcCCC--CChhHHHHHHHHHHhcCChhHHHHHHHHHHHCC--CCCC----HHHHHH
Q 006388          209 VFVGSALVDMYCKCKSIKYAESVFRTMAW--KNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNG--IEPD----DFTLGS  280 (647)
Q Consensus       209 ~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g--~~p~----~~t~~~  280 (647)
                      ...+..+...|...|++++|...|++...  .+..+|..+...|...|++++|+..|++..+..  ..|+    ..++..
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            45778899999999999999999987532  678899999999999999999999999987642  1112    244444


Q ss_pred             HHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChHHH
Q 006388          281 VISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANET  360 (647)
Q Consensus       281 ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~d~~~~~~li~~~~~~g~~~~A  360 (647)
                      +...+...|++++|...+..+.+..                                 ++       ...+...|++++|
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            4455555555555555555544432                                 11       1234455667777


Q ss_pred             HHHHHHHHHCCCCCCH-HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-
Q 006388          361 IDLFEKMLSHGLKPDE-VTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-  438 (647)
Q Consensus       361 ~~~~~~m~~~g~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-  438 (647)
                      +..++++...  .|+. ..+..+...+...|++++|...|+.+.+.  .+.+...+..+...|.+.|++++|.+.++++ 
T Consensus       125 ~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al  200 (258)
T 3uq3_A          125 LKKAEAEAYV--NPEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKR--APEDARGYSNRAAALAKLMSFPEAIADCNKAI  200 (258)
T ss_dssp             HHHHHHHHHC--CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHc--CcchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--CcccHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            7777777663  3333 35666667777778888888888777653  2335677778888888888888888888776 


Q ss_pred             CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccC------CCCchhHHHHHHh
Q 006388          439 PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELD------PYNPASYVLLSSI  487 (647)
Q Consensus       439 ~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~------p~~~~~~~~l~~~  487 (647)
                      ...| +...|..+...+...|++++|...+++++++.      |.+...+..+..+
T Consensus       201 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~p~~~~~~~~l~~~  256 (258)
T 3uq3_A          201 EKDPNFVRAYIRKATAQIAVKEYASALETLDAARTKDAEVNNGSSAREIDQLYYKA  256 (258)
T ss_dssp             HHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTTTHHHHHHHHHHT
T ss_pred             HhCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhChhhcCCCchHHHHHHHHHh
Confidence            3334 47778888888888999999999999888887      7766666655543

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.56  E-value=3.1e-13  Score=140.90  Aligned_cols=378  Identities=11%  Similarity=0.010  Sum_probs=202.0

Q ss_pred             HHHHHhCCCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHHhcCCh---HHHHHHhccCCCCCchHHHHHHHHHHhcCCh
Q 006388           48 MLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGSPLVDMYAKLGLI---YDAKRGFDELPEKNIVMYNTMITGLLRRGLV  124 (647)
Q Consensus        48 ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~---~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~  124 (647)
                      +...+.+.|++++|.+.+..+.+.|   ++..+..|..+|...|+.   ++|...|+...                    
T Consensus         9 la~~~~~~g~~~~A~~~~~~aa~~g---~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~--------------------   65 (452)
T 3e4b_A            9 LANEALKRGDTVTAQQNYQQLAELG---YSEAQVGLADIQVGTRDPAQIKQAEATYRAAA--------------------   65 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHT---CCTGGGTCC-------------------------------------------
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHccCCCCCHHHHHHHHHHHH--------------------
Confidence            3444555666666666666666655   222333344444444544   45555544443                    


Q ss_pred             HHHHHHhhcCCCCCeehHHHHHHHHHhCC-----ChhHHHHHHHHHHHCCCCCChhhHHHHHHHHhcCCCh---HHHHHH
Q 006388          125 EESRRLFRGMKDKDSISWTTMITGLMQNG-----LEREAIDLFREMRLEGLAMDQFTFGSVLTACGGLLAL---EEGKQI  196 (647)
Q Consensus       125 ~~A~~~~~~~~~~~~~~~~~li~~~~~~g-----~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~---~~a~~~  196 (647)
                                 +.++..+..|...+...+     ++++|+..|++..+.|..   ..+..+...+...+..   ..+.+.
T Consensus        66 -----------~~~~~A~~~Lg~~~~~~~~~~~~~~~~A~~~~~~Aa~~g~~---~A~~~Lg~~y~~~~~~~~~~~a~~~  131 (452)
T 3e4b_A           66 -----------DTSPRAQARLGRLLAAKPGATEAEHHEAESLLKKAFANGEG---NTLIPLAMLYLQYPHSFPNVNAQQQ  131 (452)
T ss_dssp             ----------------CHHHHHHHHHTC--CCHHHHHHHHHHHHHHHHTTCS---SCHHHHHHHHHHCGGGCTTCCHHHH
T ss_pred             -----------hCCHHHHHHHHHHHHhCCCCCCcCHHHHHHHHHHHHHCCCH---HHHHHHHHHHHhCCCCCCCHHHHHH
Confidence                       445556666666455544     667888888887776532   2444455555443332   234444


Q ss_pred             HHHHHHcCCCCchhHHHHHHHHHHhcC----CHHHHHHHHhcCCCCChhHHHHHHHHHHhcC---ChhHHHHHHHHHHHC
Q 006388          197 HAFIIRNDHKDNVFVGSALVDMYCKCK----SIKYAESVFRTMAWKNVVSWTAMLVGYGQNG---CSEEAVKIFCNMQRN  269 (647)
Q Consensus       197 ~~~~~~~g~~~~~~~~~~li~~y~~~g----~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g---~~~~A~~~~~~m~~~  269 (647)
                      +....+.|   +......|...|...+    ..+.+..+++.....++.++..|...|...|   +.++|++.|++..+.
T Consensus       132 ~~~a~~~g---~~~a~~~Lg~~y~~~~~~~~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~  208 (452)
T 3e4b_A          132 ISQWQAAG---YPEAGLAQVLLYRTQGTYDQHLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSR  208 (452)
T ss_dssp             HHHHHHHT---CTTHHHHHHHHHHHHTCGGGGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHCC---CHHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHC
Confidence            44444444   3445566777777776    4455566666666667778888888888888   777888888877776


Q ss_pred             CCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHH
Q 006388          270 GIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVS  349 (647)
Q Consensus       270 g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~d~~~~~~li~  349 (647)
                      | .++...+..+...+....                               ...+++++|.+.|++....++..+..+..
T Consensus       209 g-~~~a~~~~~Lg~~y~~g~-------------------------------~~~~d~~~A~~~~~~aa~g~~~a~~~Lg~  256 (452)
T 3e4b_A          209 G-TVTAQRVDSVARVLGDAT-------------------------------LGTPDEKTAQALLEKIAPGYPASWVSLAQ  256 (452)
T ss_dssp             T-CSCHHHHHHHHHHHTCGG-------------------------------GSSCCHHHHHHHHHHHGGGSTHHHHHHHH
T ss_pred             C-CHHHHHHHHHHHHHhCCC-------------------------------CCCCCHHHHHHHHHHHcCCCHHHHHHHHH
Confidence            6 333333333333333220                               00134444444444443223444444444


Q ss_pred             H-H--HHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCC-----cHHHHHHHHHHHHHhcCCCcChHHHHHHHHH
Q 006388          350 G-Y--AKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAG-----LVEKGRHYFEIMVKEYGIRPIHDHYTCMIDI  421 (647)
Q Consensus       350 ~-~--~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g-----~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~  421 (647)
                      . |  ...+++++|+..|++..+.|   +...+..+...|. .|     ++++|..+|+...     ..+...+..|..+
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            4 2  34566777777777776655   4444444544444 33     7777777776553     3345566666666


Q ss_pred             HHH----cCCHHHHHHHHHhCCCCCChhhHHHHHHHHHh----cCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCC
Q 006388          422 LSR----AGRLEEAKSFINKMPFPPDAIGWATLLSSCRI----HGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGK  493 (647)
Q Consensus       422 ~~~----~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  493 (647)
                      |..    ..++++|.++|++.-..-+......|...|..    ..+.++|...++++.+.++.+.......+......++
T Consensus       328 y~~G~g~~~d~~~A~~~~~~Aa~~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g~~~a~~~l~~l~~~~~~~~  407 (452)
T 3e4b_A          328 YRRGYLGKVYPQKALDHLLTAARNGQNSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKAQDTPEANDLATQLEAPLTPAQ  407 (452)
T ss_dssp             HHTTTTSSCCHHHHHHHHHHHHTTTCTTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHTTCCHHHHHHHHHHHTTCCHHH
T ss_pred             HHCCCCCCcCHHHHHHHHHHHHhhChHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCCHHH
Confidence            655    33778888888776222344455566666653    3578888888888887776443333333333344556


Q ss_pred             hhHHHHHHHHHHh
Q 006388          494 WDHVSQLRRTMRE  506 (647)
Q Consensus       494 ~~~a~~~~~~m~~  506 (647)
                      .++|.++.++.++
T Consensus       408 ~~~a~~~~~~~~~  420 (452)
T 3e4b_A          408 RAEGQRLVQQELA  420 (452)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            7777777766543

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.55  E-value=1.8e-13  Score=132.52  Aligned_cols=240  Identities=7%  Similarity=-0.098  Sum_probs=173.5

Q ss_pred             cCChhHHHHHHHHHHHCCCC--C-CHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHH
Q 006388          253 NGCSEEAVKIFCNMQRNGIE--P-DDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDS  329 (647)
Q Consensus       253 ~g~~~~A~~~~~~m~~~g~~--p-~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  329 (647)
                      .|++++|+..|+++.+....  | +..++..+...+...|++++|...+..+.+.. +.+..++..+...|...|++++|
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            45666677777666654211  1 23455566666666777777777777766654 34566777788888888888888


Q ss_pred             HHHHhhcC---CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhc
Q 006388          330 HRLFNEMN---VRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEY  406 (647)
Q Consensus       330 ~~~~~~~~---~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~  406 (647)
                      .+.|++..   ..+..+|..+...|...|++++|+..|+++.+.  .|+.......+..+...|++++|...++..... 
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            88888765   346778888889999999999999999999874  566555555555667779999999999887764 


Q ss_pred             CCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-----hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchh
Q 006388          407 GIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPPD-----AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPAS  480 (647)
Q Consensus       407 ~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~  480 (647)
                       .+++...+ .++..+...++.++|.+.+++. ...|+     ..+|..+...+...|++++|...++++++.+|++...
T Consensus       174 -~~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~  251 (275)
T 1xnf_A          174 -SDKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNFVE  251 (275)
T ss_dssp             -SCCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTCHH
T ss_pred             -CCcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCchhHHH
Confidence             23343444 3677777888889999998876 33332     5788899999999999999999999999999976544


Q ss_pred             HHHHHHhhhhCCChhHHHHHH
Q 006388          481 YVLLSSIYASKGKWDHVSQLR  501 (647)
Q Consensus       481 ~~~l~~~~~~~g~~~~a~~~~  501 (647)
                      +   ..++...|++++|.+.+
T Consensus       252 ~---~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          252 H---RYALLELSLLGQDQDDL  269 (275)
T ss_dssp             H---HHHHHHHHHHHHC----
T ss_pred             H---HHHHHHHHHHHhhHHHH
Confidence            4   66778889998887765

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.54  E-value=3.8e-13  Score=130.11  Aligned_cols=245  Identities=13%  Similarity=-0.025  Sum_probs=130.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCH--HHHHHHHHHHh
Q 006388          212 GSALVDMYCKCKSIKYAESVFRTMAW---KNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDD--FTLGSVISSCA  286 (647)
Q Consensus       212 ~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~t~~~ll~a~~  286 (647)
                      .......|.+.|++++|...|++..+   .+..+|..+...|...|++++|+..|++....+-.|+.  ..+..+...+.
T Consensus         6 ~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~   85 (272)
T 3u4t_A            6 EFRYADFLFKNNNYAEAIEVFNKLEAKKYNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILM   85 (272)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHHHTTCCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHH
Confidence            34455566666666666666665532   23445666666666666666666666666653211111  12444444555


Q ss_pred             ccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChHHHHHHHHH
Q 006388          287 NLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEK  366 (647)
Q Consensus       287 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~d~~~~~~li~~~~~~g~~~~A~~~~~~  366 (647)
                      ..|++++|...+..+.+.. +.                               +..+|..+...|...|++++|+..|++
T Consensus        86 ~~~~~~~A~~~~~~a~~~~-~~-------------------------------~~~~~~~l~~~~~~~~~~~~A~~~~~~  133 (272)
T 3u4t_A           86 KKGQDSLAIQQYQAAVDRD-TT-------------------------------RLDMYGQIGSYFYNKGNFPLAIQYMEK  133 (272)
T ss_dssp             HTTCHHHHHHHHHHHHHHS-TT-------------------------------CTHHHHHHHHHHHHTTCHHHHHHHHGG
T ss_pred             HcccHHHHHHHHHHHHhcC-cc-------------------------------cHHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            5555555555555554432 22                               334444444455555555555555554


Q ss_pred             HHHCCCCCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCC---HHHHHHHHHhC----
Q 006388          367 MLSHGLKPD-EVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGR---LEEAKSFINKM----  438 (647)
Q Consensus       367 m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~---~~~A~~~~~~~----  438 (647)
                      ..+.  .|+ ...+..+...+...+++++|...|+.+.+..  +.+...+..+...+...|+   +++|...++++    
T Consensus       134 al~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~  209 (272)
T 3u4t_A          134 QIRP--TTTDPKVFYELGQAYYYNKEYVKADSSFVKVLELK--PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVC  209 (272)
T ss_dssp             GCCS--SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHH
T ss_pred             Hhhc--CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC--ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHH
Confidence            4432  222 2233333312222335555555555555421  2224445555555555555   44455554443    


Q ss_pred             CCCCC------hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCC
Q 006388          439 PFPPD------AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKG  492 (647)
Q Consensus       439 ~~~p~------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  492 (647)
                      ...|+      ..+|..+...+...|++++|...++++++++|+++.+...+..+....+
T Consensus       210 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l~~~~~~~~  269 (272)
T 3u4t_A          210 APGGAKYKDELIEANEYIAYYYTINRDKVKADAAWKNILALDPTNKKAIDGLKMKLEHHH  269 (272)
T ss_dssp             GGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHC-------
T ss_pred             hcccccchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCccHHHHHHHhhhhhcccc
Confidence            11122      2467778888889999999999999999999999888777766655443

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.50  E-value=2.9e-13  Score=126.12  Aligned_cols=200  Identities=10%  Similarity=-0.062  Sum_probs=128.5

Q ss_pred             CCCCCcccHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCCcchHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCchhhH
Q 006388            1 MPFHDGVSWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVG   80 (647)
Q Consensus         1 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~   80 (647)
                      || +++..|..+...+.+.|++++|+..|++..+..  |.+...+..+...+.+.|++++|...++++++.. +.+...+
T Consensus         1 ~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~   76 (217)
T 2pl2_A            1 MQ-TAEQNPLRLGVQLYALGRYDAALTLFERALKEN--PQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGY   76 (217)
T ss_dssp             ----CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS--SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             CC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHH
Confidence            45 567789999999999999999999999999876  7788889999999999999999999999999887 4567777


Q ss_pred             HHHHHHHHhc-----------CChHHHHHHhccCCCCCchHHHHHHHHHHhcCChHHHHHHhhcCCCCCeehHHHHHHHH
Q 006388           81 SPLVDMYAKL-----------GLIYDAKRGFDELPEKNIVMYNTMITGLLRRGLVEESRRLFRGMKDKDSISWTTMITGL  149 (647)
Q Consensus        81 ~~li~~~~~~-----------g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~  149 (647)
                      ..+..+|.+.           |++++|...|++..+.                            ...+...|..+...|
T Consensus        77 ~~lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~----------------------------~P~~~~~~~~lg~~~  128 (217)
T 2pl2_A           77 MVLSEAYVALYRQAEDRERGKGYLEQALSVLKDAERV----------------------------NPRYAPLHLQRGLVY  128 (217)
T ss_dssp             HHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHH----------------------------CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHh----------------------------CcccHHHHHHHHHHH
Confidence            7788777776           4444444444433210                            011345566666666


Q ss_pred             HhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHH
Q 006388          150 MQNGLEREAIDLFREMRLEGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAE  229 (647)
Q Consensus       150 ~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~  229 (647)
                      .+.|++++|+..|++..+..  .+...+..+..++...|++++|...++.+++.. +.+..++..+...|.+.|++++|.
T Consensus       129 ~~~g~~~~A~~~~~~al~~~--~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~  205 (217)
T 2pl2_A          129 ALLGERDKAEASLKQALALE--DTPEIRSALAELYLSMGRLDEALAQYAKALEQA-PKDLDLRVRYASALLLKGKAEEAA  205 (217)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTC--------
T ss_pred             HHcCChHHHHHHHHHHHhcc--cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHH
Confidence            66677777777776666654  455556666666666666666666666666553 334455555666666666666666


Q ss_pred             HHHhcC
Q 006388          230 SVFRTM  235 (647)
Q Consensus       230 ~~~~~~  235 (647)
                      ..|++.
T Consensus       206 ~~~~~~  211 (217)
T 2pl2_A          206 RAAALE  211 (217)
T ss_dssp             ------
T ss_pred             HHHHHH
Confidence            655543

>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=99.49  E-value=6.8e-12  Score=119.73  Aligned_cols=163  Identities=10%  Similarity=0.038  Sum_probs=84.4

Q ss_pred             HHHHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHhcCCc
Q 006388          316 LVTFYGKCGNIEDSHRLFNEMN---VRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDE-VTLIGVLSACSRAGL  391 (647)
Q Consensus       316 li~~~~~~g~~~~A~~~~~~~~---~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~a~~~~g~  391 (647)
                      +...|...|++++|.+.|+++.   ..+...|..+...|...|++++|++.|+++...+..|+. ..+..+...+...|+
T Consensus        77 la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~  156 (252)
T 2ho1_A           77 LAVVFQTEMEPKLADEEYRKALASDSRNARVLNNYGGFLYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKK  156 (252)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCC
Confidence            3333444444444444443332   123444555555555555555555555555542233432 244555555556666


Q ss_pred             HHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHH
Q 006388          392 VEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAES  469 (647)
Q Consensus       392 ~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~  469 (647)
                      +++|..+|+.+.+..  +.+...+..+...|...|++++|.+.++++ ...| +...+..+...+...|+.++|...+++
T Consensus       157 ~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~  234 (252)
T 2ho1_A          157 PAQAKEYFEKSLRLN--RNQPSVALEMADLLYKEREYVPARQYYDLFAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQ  234 (252)
T ss_dssp             HHHHHHHHHHHHHHC--SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcC--cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            666666666555431  223455555666666666666666666554 2222 344555555556666666666666666


Q ss_pred             HhccCCCCchh
Q 006388          470 LLELDPYNPAS  480 (647)
Q Consensus       470 ~~~~~p~~~~~  480 (647)
                      +.+..|+++..
T Consensus       235 ~~~~~p~~~~~  245 (252)
T 2ho1_A          235 LKRLYPGSLEY  245 (252)
T ss_dssp             HHHHCTTSHHH
T ss_pred             HHHHCCCCHHH
Confidence            66666655443

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.49  E-value=3.5e-12  Score=119.11  Aligned_cols=198  Identities=10%  Similarity=0.076  Sum_probs=152.3

Q ss_pred             cchhHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 006388          308 SFITVSNALVTFYGKCGNIEDSHRLFNEMN---VRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLS  384 (647)
Q Consensus       308 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~  384 (647)
                      .+..++..+...|...|++++|.+.|+++.   ..+...|..+...|...|++++|...|+++.+.. +.+..++..+..
T Consensus         6 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~   84 (225)
T 2vq2_A            6 QVSNIKTQLAMEYMRGQDYRQATASIEDALKSDPKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGW   84 (225)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHH
Confidence            345566677777778888888888777654   3356677888888888888888888888887742 334557777788


Q ss_pred             HHhcC-CcHHHHHHHHHHHHHhcCCCcC-hHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCCh
Q 006388          385 ACSRA-GLVEKGRHYFEIMVKEYGIRPI-HDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNV  460 (647)
Q Consensus       385 a~~~~-g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~  460 (647)
                      .+... |++++|...++.+.+ .+..|+ ...+..+...+...|++++|.+.++++ ...| +...|..+...+...|++
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~  163 (225)
T 2vq2_A           85 FLCGRLNRPAESMAYFDKALA-DPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQPQFPPAFKELARTKMLAGQL  163 (225)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHT-STTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHhcCcHHHHHHHHHHHHc-CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHcCCH
Confidence            88888 888888888888876 233343 567778888888888888888888876 2334 477788888888888889


Q ss_pred             hHHHHHHHHHhccCC-CCchhHHHHHHhhhhCCChhHHHHHHHHHHhC
Q 006388          461 EIGKWAAESLLELDP-YNPASYVLLSSIYASKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       461 ~~a~~~~~~~~~~~p-~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  507 (647)
                      ++|...++++++..| .++..+..++..+...|+.++|..+++.+.+.
T Consensus       164 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  211 (225)
T 2vq2_A          164 GDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQAN  211 (225)
T ss_dssp             HHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh
Confidence            999988888888888 88888888888888888888888888887653

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.48  E-value=2.3e-12  Score=134.32  Aligned_cols=345  Identities=10%  Similarity=-0.016  Sum_probs=214.3

Q ss_pred             HHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHhcCCCh---HHHHHHHHHHHHcCCCCchhHHHHHHHHHH
Q 006388          144 TMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSVLTACGGLLAL---EEGKQIHAFIIRNDHKDNVFVGSALVDMYC  220 (647)
Q Consensus       144 ~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~---~~a~~~~~~~~~~g~~~~~~~~~~li~~y~  220 (647)
                      .+...+.+.|++++|+++|++..+.|   +...+..+-..+...|+.   ++|.+.++...+.    +...+..|..++.
T Consensus         8 ~la~~~~~~g~~~~A~~~~~~aa~~g---~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~----~~~A~~~Lg~~~~   80 (452)
T 3e4b_A            8 RLANEALKRGDTVTAQQNYQQLAELG---YSEAQVGLADIQVGTRDPAQIKQAEATYRAAADT----SPRAQARLGRLLA   80 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHT---CCTGGGTCC--------------------------------CHHHHHHHHH
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC----CHHHHHHHHHHHH
Confidence            35667778899999999999987765   233344444445556666   7888888887754    4445566666555


Q ss_pred             hcC-----CHHHHHHHHhcCCCC-ChhHHHHHHHHHHhcCChh---HHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCh
Q 006388          221 KCK-----SIKYAESVFRTMAWK-NVVSWTAMLVGYGQNGCSE---EAVKIFCNMQRNGIEPDDFTLGSVISSCANLASL  291 (647)
Q Consensus       221 ~~g-----~~~~A~~~~~~~~~~-~~~~~~~li~~~~~~g~~~---~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~  291 (647)
                      ..|     +.++|...|++...+ +..++..|...|...+..+   ++.+.+......|.   ......+...+...+.+
T Consensus        81 ~~~~~~~~~~~~A~~~~~~Aa~~g~~~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g~---~~a~~~Lg~~y~~~~~~  157 (452)
T 3e4b_A           81 AKPGATEAEHHEAESLLKKAFANGEGNTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAGY---PEAGLAQVLLYRTQGTY  157 (452)
T ss_dssp             TC--CCHHHHHHHHHHHHHHHHTTCSSCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHTC---TTHHHHHHHHHHHHTCG
T ss_pred             hCCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCCC---HHHHHHHHHHHHcCCCc
Confidence            554     677888888876543 4557777888887766543   34555555554442   33444555556666655


Q ss_pred             HHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcC---CHHHHHHHHhhcCC---CChhhHHHHHHHHHHc----CChHHHH
Q 006388          292 EEGTQFHGRSLVTGLISFITVSNALVTFYGKCG---NIEDSHRLFNEMNV---RDEVSWTALVSGYAKF----GKANETI  361 (647)
Q Consensus       292 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g---~~~~A~~~~~~~~~---~d~~~~~~li~~~~~~----g~~~~A~  361 (647)
                      +.+......+.+.-...++..+..|..+|.+.|   +.++|.+.|++...   ++...+..+...|...    +++++|+
T Consensus       158 ~~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~~a~~~~~Lg~~y~~g~~~~~d~~~A~  237 (452)
T 3e4b_A          158 DQHLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGTVTAQRVDSVARVLGDATLGTPDEKTAQ  237 (452)
T ss_dssp             GGGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCSCHHHHHHHHHHHTCGGGSSCCHHHHH
T ss_pred             ccCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCCCHHHHH
Confidence            555444333333333334447778888888888   88888888887652   2334446666666554    6888888


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHH-H--hcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcC-----CHHHHHH
Q 006388          362 DLFEKMLSHGLKPDEVTLIGVLSA-C--SRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAG-----RLEEAKS  433 (647)
Q Consensus       362 ~~~~~m~~~g~~p~~~t~~~ll~a-~--~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g-----~~~~A~~  433 (647)
                      ..|++.. .|   +...+..+... +  ...+++++|..+|+...+. |   +...+..|..+|. .|     ++++|.+
T Consensus       238 ~~~~~aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~-g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~  308 (452)
T 3e4b_A          238 ALLEKIA-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAA-D---QPRAELLLGKLYY-EGKWVPADAKAAEA  308 (452)
T ss_dssp             HHHHHHG-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHH-HCSSSCCCHHHHHH
T ss_pred             HHHHHHc-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHC-C---CHHHHHHHHHHHH-cCCCCCCCHHHHHH
Confidence            8888876 32   33344444444 3  4578888888888888753 3   5667777777776 55     8888888


Q ss_pred             HHHhCCCCCChhhHHHHHHHHHh----cCChhHHHHHHHHHhccCCCCchhHHHHHHhhhh----CCChhHHHHHHHHHH
Q 006388          434 FINKMPFPPDAIGWATLLSSCRI----HGNVEIGKWAAESLLELDPYNPASYVLLSSIYAS----KGKWDHVSQLRRTMR  505 (647)
Q Consensus       434 ~~~~~~~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~a~~~~~~m~  505 (647)
                      +|++.- ..++..+..|...|..    ..+.++|...++++.+.+  ++.....|+.+|..    ..+.++|...+++..
T Consensus       309 ~~~~Aa-~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g--~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~  385 (452)
T 3e4b_A          309 HFEKAV-GREVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNG--QNSADFAIAQLFSQGKGTKPDPLNAYVFSQLAK  385 (452)
T ss_dssp             HHHTTT-TTCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTT--CTTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHH
T ss_pred             HHHHHh-CCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhC--hHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHH
Confidence            888887 5567777777777665    338888888888877643  56778888888875    457888888888888


Q ss_pred             hCCCc
Q 006388          506 EKGVR  510 (647)
Q Consensus       506 ~~g~~  510 (647)
                      +.|..
T Consensus       386 ~~g~~  390 (452)
T 3e4b_A          386 AQDTP  390 (452)
T ss_dssp             TTCCH
T ss_pred             HCCCH
Confidence            87753

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.48  E-value=1e-12  Score=124.53  Aligned_cols=170  Identities=13%  Similarity=0.083  Sum_probs=92.5

Q ss_pred             HHHHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcH
Q 006388          316 LVTFYGKCGNIEDSHRLFNEMN---VRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLV  392 (647)
Q Consensus       316 li~~~~~~g~~~~A~~~~~~~~---~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~  392 (647)
                      +...|.+.|++++|.+.|+++.   ..+...|..+...|...|++++|+..|+++.+.. +.+...+..+...+...|++
T Consensus        63 la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~  141 (243)
T 2q7f_A           63 FANLLSSVNELERALAFYDKALELDSSAATAYYGAGNVYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQP  141 (243)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccH
Confidence            3334444444444444444332   2234455555555556666666666666655532 22344555555566666666


Q ss_pred             HHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHH
Q 006388          393 EKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESL  470 (647)
Q Consensus       393 ~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~  470 (647)
                      ++|..+++.+.+.  .+.+...+..+...+.+.|++++|.+.++++ ...| +..+|..+...+...|++++|...++++
T Consensus       142 ~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~  219 (243)
T 2q7f_A          142 KLALPYLQRAVEL--NENDTEARFQFGMCLANEGMLDEALSQFAAVTEQDPGHADAFYNAGVTYAYKENREKALEMLDKA  219 (243)
T ss_dssp             HHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh--CCccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            6666666665543  1234455566666666666666666666655 2222 3556666666666666666666666666


Q ss_pred             hccCCCCchhHHHHHHhh
Q 006388          471 LELDPYNPASYVLLSSIY  488 (647)
Q Consensus       471 ~~~~p~~~~~~~~l~~~~  488 (647)
                      ++..|+++..+..+..+.
T Consensus       220 ~~~~p~~~~~~~~~~~l~  237 (243)
T 2q7f_A          220 IDIQPDHMLALHAKKLLG  237 (243)
T ss_dssp             HHHCTTCHHHHHHHTC--
T ss_pred             HccCcchHHHHHHHHHHH
Confidence            666666666655554443

>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=99.48  E-value=2.6e-12  Score=122.60  Aligned_cols=197  Identities=10%  Similarity=-0.036  Sum_probs=170.6

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 006388          310 ITVSNALVTFYGKCGNIEDSHRLFNEMN---VRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSAC  386 (647)
Q Consensus       310 ~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~  386 (647)
                      ...+..+...|...|++++|.+.|+++.   ..+...|..+...|...|++++|++.|+++.+.. +.+...+..+...+
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            4566778888888899998888888765   3467789999999999999999999999998853 33566888888999


Q ss_pred             hcCCcHHHHHHHHHHHHHhcCCCc-ChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHH
Q 006388          387 SRAGLVEKGRHYFEIMVKEYGIRP-IHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIG  463 (647)
Q Consensus       387 ~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a  463 (647)
                      ...|++++|.++++.+.+ .+..| +...+..+...|.+.|++++|.+.++++ ...| +...|..+...+...|++++|
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            999999999999999875 23445 4678889999999999999999999987 3334 578899999999999999999


Q ss_pred             HHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHhCC
Q 006388          464 KWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREKG  508 (647)
Q Consensus       464 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g  508 (647)
                      ...++++++..|.++..+..++.+|...|++++|.++++++.+..
T Consensus       195 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~  239 (252)
T 2ho1_A          195 RQYYDLFAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLY  239 (252)
T ss_dssp             HHHHHHHHTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence            999999999999999999999999999999999999999998743

>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=99.48  E-value=1.8e-11  Score=118.49  Aligned_cols=224  Identities=11%  Similarity=-0.028  Sum_probs=128.6

Q ss_pred             ChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc----cCChHHHHHHHHHHHHhCCCcchhHHH
Q 006388          239 NVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCAN----LASLEEGTQFHGRSLVTGLISFITVSN  314 (647)
Q Consensus       239 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~  314 (647)
                      ++.++..+...|...|++++|+..|++..+.+   +...+..+...+..    .+++++|...+....+.+         
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---------   72 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---------   72 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---------
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---------
Confidence            55667777777777788888888887777632   33444445555555    555666666555555543         


Q ss_pred             HHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHH----cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc--
Q 006388          315 ALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAK----FGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSR--  388 (647)
Q Consensus       315 ~li~~~~~~g~~~~A~~~~~~~~~~d~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~--  388 (647)
                                               +..++..+...|..    .+++++|+..|++..+.+   +...+..+...+..  
T Consensus        73 -------------------------~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~  124 (273)
T 1ouv_A           73 -------------------------YSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGK  124 (273)
T ss_dssp             -------------------------CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCS
T ss_pred             -------------------------CHHHHHHHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCC
Confidence                                     33344444444444    555555555555555443   34444445555555  


Q ss_pred             --CCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHH----cCCHHHHHHHHHhCCCCCChhhHHHHHHHHHh----cC
Q 006388          389 --AGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSR----AGRLEEAKSFINKMPFPPDAIGWATLLSSCRI----HG  458 (647)
Q Consensus       389 --~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~----~~  458 (647)
                        .+++++|..+|+...+. +   +...+..+...|..    .+++++|.+.+++.-...+...+..+...+..    .+
T Consensus       125 ~~~~~~~~A~~~~~~a~~~-~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~  200 (273)
T 1ouv_A          125 VVTRDFKKAVEYFTKACDL-N---DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLKDSPGCFNAGNMYHHGEGATK  200 (273)
T ss_dssp             SSCCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCC
T ss_pred             CcccCHHHHHHHHHHHHhc-C---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCc
Confidence              55555555555555442 2   33445555555555    56666666666554111234555556666666    66


Q ss_pred             ChhHHHHHHHHHhccCCCCchhHHHHHHhhhh----CCChhHHHHHHHHHHhCC
Q 006388          459 NVEIGKWAAESLLELDPYNPASYVLLSSIYAS----KGKWDHVSQLRRTMREKG  508 (647)
Q Consensus       459 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~a~~~~~~m~~~g  508 (647)
                      ++++|...++++.+.+|  +..+..|+.+|..    .|++++|.+.+++..+.|
T Consensus       201 ~~~~A~~~~~~a~~~~~--~~a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          201 NFKEALARYSKACELEN--GGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             CHHHHHHHHHHHHHTTC--HHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             cHHHHHHHHHHHHhCCC--HHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHHcC
Confidence            66666666666666654  4566666666666    667777777776666544

>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=99.47  E-value=2.5e-12  Score=129.90  Aligned_cols=243  Identities=10%  Similarity=0.028  Sum_probs=180.3

Q ss_pred             hhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhccCC-hHHHHHHHHHHHHhCCCcchhHHHHHH
Q 006388          240 VVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPD-DFTLGSVISSCANLAS-LEEGTQFHGRSLVTGLISFITVSNALV  317 (647)
Q Consensus       240 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~li  317 (647)
                      ..+|+.+...+...|++++|+..|++....  .|+ ...|..+..++...|+ +++|...+..+++.. +.+..+|..+.
T Consensus        97 ~~a~~~lg~~~~~~g~~~~Al~~~~~al~l--~P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~~~g  173 (382)
T 2h6f_A           97 RDVYDYFRAVLQRDERSERAFKLTRDAIEL--NAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRR  173 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHh--CccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHHH
Confidence            356777777777788888888888877764  343 4566666777777775 888888887777765 44667777788


Q ss_pred             HHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhc-CCcH
Q 006388          318 TFYGKCGNIEDSHRLFNEMN---VRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKP-DEVTLIGVLSACSR-AGLV  392 (647)
Q Consensus       318 ~~~~~~g~~~~A~~~~~~~~---~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~-~g~~  392 (647)
                      .+|.+.|++++|+..|+++.   ..+...|..+..++.+.|++++|+..|+++++.  .| +...|..+..++.. .|..
T Consensus       174 ~~~~~~g~~~eAl~~~~kal~ldP~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l--~P~~~~a~~~lg~~l~~l~~~~  251 (382)
T 2h6f_A          174 VLVEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKE--DVRNNSVWNQRYFVISNTTGYN  251 (382)
T ss_dssp             HHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCSC
T ss_pred             HHHHHccCHHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCcc
Confidence            88888888888888888765   446778888888888888999999999888875  44 44577777777777 5554


Q ss_pred             HHH-----HHHHHHHHHhcCCCcChHHHHHHHHHHHHcC--CHHHHHHHHHhCCCCCC-hhhHHHHHHHHHhcC------
Q 006388          393 EKG-----RHYFEIMVKEYGIRPIHDHYTCMIDILSRAG--RLEEAKSFINKMPFPPD-AIGWATLLSSCRIHG------  458 (647)
Q Consensus       393 ~~a-----~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g--~~~~A~~~~~~~~~~p~-~~~~~~ll~~~~~~~------  458 (647)
                      ++|     +..|+..++.  -+-+...|..+..+|...|  ++++|.+.+.++...|+ ...+..++..+.+.|      
T Consensus       252 ~eA~~~~el~~~~~Al~l--~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~~~~p~~~~al~~La~~~~~~~~~~~~~  329 (382)
T 2h6f_A          252 DRAVLEREVQYTLEMIKL--VPHNESAWNYLKGILQDRGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDN  329 (382)
T ss_dssp             SHHHHHHHHHHHHHHHHH--STTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSS
T ss_pred             hHHHHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHccCccchHHHHHHHHHhccCCCCHHHHHHHHHHHHHHhcccccc
Confidence            666     4777777653  1234577888888888888  58888888887754554 677888888887764      


Q ss_pred             ---ChhHHHHHHHHH-hccCCCCchhHHHHHHhhh
Q 006388          459 ---NVEIGKWAAESL-LELDPYNPASYVLLSSIYA  489 (647)
Q Consensus       459 ---~~~~a~~~~~~~-~~~~p~~~~~~~~l~~~~~  489 (647)
                         ..++|+.+++++ .+++|.....|..++..+.
T Consensus       330 ~~~~~~~A~~~~~~l~~~~DP~r~~~w~~~~~~l~  364 (382)
T 2h6f_A          330 KEDILNKALELCEILAKEKDTIRKEYWRYIGRSLQ  364 (382)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHhCchhHHHHHHHHHHHH
Confidence               258899999999 8999988888877766544

>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=99.47  E-value=2e-11  Score=118.14  Aligned_cols=227  Identities=11%  Similarity=-0.068  Sum_probs=165.0

Q ss_pred             CchhHHHHHHHHHHhcCCHHHHHHHHhcCCCC-ChhHHHHHHHHHHh----cCChhHHHHHHHHHHHCCCCCCHHHHHHH
Q 006388          207 DNVFVGSALVDMYCKCKSIKYAESVFRTMAWK-NVVSWTAMLVGYGQ----NGCSEEAVKIFCNMQRNGIEPDDFTLGSV  281 (647)
Q Consensus       207 ~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~-~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~t~~~l  281 (647)
                      .+...+..+...|...|++++|...|++..++ +..++..+...|..    .+++++|+..|++..+.+   +...+..+
T Consensus         4 ~~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l   80 (273)
T 1ouv_A            4 QDPKELVGLGAKSYKEKDFTQAKKYFEKACDLKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLL   80 (273)
T ss_dssp             -CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHH
T ss_pred             CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHHHH
Confidence            35677888999999999999999999987654 67789999999999    999999999999999875   56666666


Q ss_pred             HHHHhc----cCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHH----
Q 006388          282 ISSCAN----LASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAK----  353 (647)
Q Consensus       282 l~a~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~d~~~~~~li~~~~~----  353 (647)
                      ...+..    .++.++|...+....+.+                                  +..++..+...|..    
T Consensus        81 g~~~~~g~~~~~~~~~A~~~~~~a~~~~----------------------------------~~~a~~~lg~~~~~~~~~  126 (273)
T 1ouv_A           81 GNLYYSGQGVSQNTNKALQYYSKACDLK----------------------------------YAEGCASLGGIYHDGKVV  126 (273)
T ss_dssp             HHHHHHTSSSCCCHHHHHHHHHHHHHTT----------------------------------CHHHHHHHHHHHHHCSSS
T ss_pred             HHHHhCCCCcccCHHHHHHHHHHHHHcC----------------------------------CccHHHHHHHHHHcCCCc
Confidence            666666    667777777666665543                                  33344445555555    


Q ss_pred             cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc----CCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHH----c
Q 006388          354 FGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSR----AGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSR----A  425 (647)
Q Consensus       354 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~----~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~----~  425 (647)
                      .+++++|+..|++..+.+   +...+..+...+..    .+++++|..+|+...+.    .+...+..+..+|..    .
T Consensus       127 ~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~----~~~~a~~~lg~~~~~g~~~~  199 (273)
T 1ouv_A          127 TRDFKKAVEYFTKACDLN---DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDL----KDSPGCFNAGNMYHHGEGAT  199 (273)
T ss_dssp             CCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHTCSSC
T ss_pred             ccCHHHHHHHHHHHHhcC---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC----CCHHHHHHHHHHHHcCCCCC
Confidence            566666666666666654   34455555555655    67777777777777653    245666777777777    8


Q ss_pred             CCHHHHHHHHHhCCCCCChhhHHHHHHHHHh----cCChhHHHHHHHHHhccCCCC
Q 006388          426 GRLEEAKSFINKMPFPPDAIGWATLLSSCRI----HGNVEIGKWAAESLLELDPYN  477 (647)
Q Consensus       426 g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~p~~  477 (647)
                      +++++|.+.+++.-...+...+..+...+..    .+++++|...++++.+.+|++
T Consensus       200 ~~~~~A~~~~~~a~~~~~~~a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~  255 (273)
T 1ouv_A          200 KNFKEALARYSKACELENGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGAKG  255 (273)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTCHH
T ss_pred             ccHHHHHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHHcCCHH
Confidence            8888888888776211236677778888887    888999999999999888854

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.47  E-value=1.1e-12  Score=124.27  Aligned_cols=196  Identities=10%  Similarity=0.130  Sum_probs=155.4

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 006388          309 FITVSNALVTFYGKCGNIEDSHRLFNEMN---VRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSA  385 (647)
Q Consensus       309 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a  385 (647)
                      ....+..+...+...|++++|...|+++.   ..+...|..+...|...|++++|+..|++..+.. +.+...+..+...
T Consensus        22 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~  100 (243)
T 2q7f_A           22 ASMTGGQQMGRGSEFGDYEKAAEAFTKAIEENKEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGNV  100 (243)
T ss_dssp             --------------------CCTTHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHHH
Confidence            45566777788888999999999888875   3367789999999999999999999999998853 3356688888899


Q ss_pred             HhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHH
Q 006388          386 CSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIG  463 (647)
Q Consensus       386 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a  463 (647)
                      +...|++++|..+++.+.+.  .+.+...+..+...+.+.|++++|.+.++++ ...| +...|..+...+...|++++|
T Consensus       101 ~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  178 (243)
T 2q7f_A          101 YVVKEMYKEAKDMFEKALRA--GMENGDLFYMLGTVLVKLEQPKLALPYLQRAVELNENDTEARFQFGMCLANEGMLDEA  178 (243)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--TCCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHHH
T ss_pred             HHHhccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHcCCHHHH
Confidence            99999999999999999874  2446778999999999999999999999987 3333 578899999999999999999


Q ss_pred             HHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHhC
Q 006388          464 KWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       464 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  507 (647)
                      ...++++++..|+++.++..++.+|...|++++|.+.++++.+.
T Consensus       179 ~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  222 (243)
T 2q7f_A          179 LSQFAAVTEQDPGHADAFYNAGVTYAYKENREKALEMLDKAIDI  222 (243)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHcc
Confidence            99999999999999999999999999999999999999998774

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.47  E-value=9.4e-12  Score=116.17  Aligned_cols=208  Identities=12%  Similarity=0.054  Sum_probs=144.4

Q ss_pred             ChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHH
Q 006388          239 NVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVT  318 (647)
Q Consensus       239 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  318 (647)
                      +...|..+...+...|++++|++.|+++.+..  |                                  .+..++..+..
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~----------------------------------~~~~~~~~l~~   50 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKSD--P----------------------------------KNELAWLVRAE   50 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--T----------------------------------TCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC--c----------------------------------cchHHHHHHHH
Confidence            34556666666666777777777666665532  2                                  12333444555


Q ss_pred             HHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHHHHHc-CChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhcCCcHH
Q 006388          319 FYGKCGNIEDSHRLFNEMN---VRDEVSWTALVSGYAKF-GKANETIDLFEKMLSHGLKPD-EVTLIGVLSACSRAGLVE  393 (647)
Q Consensus       319 ~~~~~g~~~~A~~~~~~~~---~~d~~~~~~li~~~~~~-g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~  393 (647)
                      .|...|++++|.+.|+++.   ..+..+|..+...|... |++++|+..|+++.+.+..|+ ...+..+..++...|+++
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            5555555555555555543   23556677777777788 888888888888877333444 346777778888888888


Q ss_pred             HHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCC--CChhhHHHHHHHHHhcCChhHHHHHHHHH
Q 006388          394 KGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFP--PDAIGWATLLSSCRIHGNVEIGKWAAESL  470 (647)
Q Consensus       394 ~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~--p~~~~~~~ll~~~~~~~~~~~a~~~~~~~  470 (647)
                      +|...|+.+.+.  .+.+...+..+...+.+.|++++|.+.++++ ...  .+...+..+...+...|+.+.+...++.+
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            888888888764  2334677888888899999999999988877 223  35667777777788899999999999999


Q ss_pred             hccCCCCchhHHHH
Q 006388          471 LELDPYNPASYVLL  484 (647)
Q Consensus       471 ~~~~p~~~~~~~~l  484 (647)
                      .+..|+++.....+
T Consensus       209 ~~~~p~~~~~~~~l  222 (225)
T 2vq2_A          209 QANFPYSEELQTVL  222 (225)
T ss_dssp             HHHCTTCHHHHHHH
T ss_pred             HHhCCCCHHHHHHh
Confidence            98999887665544

>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=5.5e-10  Score=120.45  Aligned_cols=438  Identities=7%  Similarity=0.003  Sum_probs=286.2

Q ss_pred             ChhHHHHHHHHHHHCCCCCCCcchHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCchhhHHHHHHHHHhcCC---hHHHH
Q 006388           21 SVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGSPLVDMYAKLGL---IYDAK   97 (647)
Q Consensus        21 ~~~~A~~~~~~m~~~g~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~---~~~A~   97 (647)
                      ...+-+..|++.+..+  |-|..+|..++..+.+.++++.++.+++.++.. ++.....|...+..-.+.|.   ++.+.
T Consensus        47 ~~~d~i~~lE~~l~~n--p~d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~-fP~~~~lW~~Yi~~E~~~~~~~~~~~v~  123 (679)
T 4e6h_A           47 DESDVIGKLNDMIEEQ--PTDIFLYVKLLKHHVSLKQWKQVYETFDKLHDR-FPLMANIWCMRLSLEFDKMEELDAAVIE  123 (679)
T ss_dssp             CCSCHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTC--CCCHHHHH
T ss_pred             CCHHHHHHHHHHHHHC--cCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHhhCCcchHHHHH
Confidence            4556677777777776  778899999999999889999999999999887 36677788888888888888   99999


Q ss_pred             HHhccCCC-----CCchHHHHHHHHHHhcCCh--------HHHHHHhhcCC------CC-CeehHHHHHHHHHh------
Q 006388           98 RGFDELPE-----KNIVMYNTMITGLLRRGLV--------EESRRLFRGMK------DK-DSISWTTMITGLMQ------  151 (647)
Q Consensus        98 ~~~~~~~~-----~~~~~~~~li~~~~~~g~~--------~~A~~~~~~~~------~~-~~~~~~~li~~~~~------  151 (647)
                      .+|++...     |++..|...+.-..+.++.        +...++|+...      .+ +...|...+.....      
T Consensus       124 ~lfeRal~~~~~~~sv~LW~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~  203 (679)
T 4e6h_A          124 PVLARCLSKELGNNDLSLWLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNK  203 (679)
T ss_dssp             HHHHHHTCSSSCCCCHHHHHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSH
T ss_pred             HHHHHHHHhcCCCCCHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCc
Confidence            99987763     6777888877766665543        33446666422      22 33567777765432      


Q ss_pred             ---CCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHH
Q 006388          152 ---NGLEREAIDLFREMRLEGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYA  228 (647)
Q Consensus       152 ---~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A  228 (647)
                         .++.+.+..+|++.+......-..+|..........+ ...+.+++.+.                     ...++.|
T Consensus       204 ~eeq~~~~~~R~iy~raL~iP~~~~~~~w~~Y~~fe~~~~-~~~a~~~~~e~---------------------~~~y~~A  261 (679)
T 4e6h_A          204 FEEQQRVQYIRKLYKTLLCQPMDCLESMWQRYTQWEQDVN-QLTARRHIGEL---------------------SAQYMNA  261 (679)
T ss_dssp             HHHHHHHHHHHHHHHHHTTSCCSSHHHHHHHHHHHHHHHC-TTTHHHHHHHH---------------------HHHHHHH
T ss_pred             HHHHhHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHhcC-cchHHHHHHHh---------------------hHHHHHH
Confidence               3346678888888775211111112211111100000 00111111110                     0112222


Q ss_pred             HHHHhc-------CCC--------------C--C------hhHHHHHHHHHHhcCC-------hhHHHHHHHHHHHCCCC
Q 006388          229 ESVFRT-------MAW--------------K--N------VVSWTAMLVGYGQNGC-------SEEAVKIFCNMQRNGIE  272 (647)
Q Consensus       229 ~~~~~~-------~~~--------------~--~------~~~~~~li~~~~~~g~-------~~~A~~~~~~m~~~g~~  272 (647)
                      ...+.+       +..              |  +      ...|...+.---.++.       .+.+..+|++.... .+
T Consensus       262 r~~~~e~~~~~~~l~r~~p~~~~~~~~~~~p~~~~~~~~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~-~p  340 (679)
T 4e6h_A          262 RSLYQDWLNITKGLKRNLPITLNQATESNLPKPNEYDVQQLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQH-VC  340 (679)
T ss_dssp             HHHHHHHHHHTTTCCCCCCSSSTTCCTTTSCCTTCCCHHHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHH-TT
T ss_pred             HHHHHHHHHHHHhHhhccccccccchhccCCCCchhHHHHHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHH-cC
Confidence            222221       100              0  0      2345555554333321       23455677777664 23


Q ss_pred             CCHHHHHHHHHHHhccCChHHHH-HHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCC-------------
Q 006388          273 PDDFTLGSVISSCANLASLEEGT-QFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNV-------------  338 (647)
Q Consensus       273 p~~~t~~~ll~a~~~~~~~~~a~-~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-------------  338 (647)
                      -+...|.....-+...|+.+.|. .+++..+.. ++.+..++-.++...-+.|+++.|.++|+++..             
T Consensus       341 ~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~  419 (679)
T 4e6h_A          341 FAPEIWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDD  419 (679)
T ss_dssp             TCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHS
T ss_pred             CCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhcc
Confidence            35566666666677778888886 999998864 456677788888889999999999999988753             


Q ss_pred             CC------------hhhHHHHHHHHHHcCChHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHhc-CCcHHHHHHHHHHHHH
Q 006388          339 RD------------EVSWTALVSGYAKFGKANETIDLFEKMLSH-GLKPDEVTLIGVLSACSR-AGLVEKGRHYFEIMVK  404 (647)
Q Consensus       339 ~d------------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-g~~p~~~t~~~ll~a~~~-~g~~~~a~~~~~~~~~  404 (647)
                      |+            ...|...+....+.|..+.|..+|.+..+. + .+....|......-.+ .++.+.|..+|+...+
T Consensus       420 p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~-~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk  498 (679)
T 4e6h_A          420 PTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKK-LVTPDIYLENAYIEYHISKDTKTACKVLELGLK  498 (679)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGG-GSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHH
T ss_pred             CcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHH
Confidence            21            236888888888889999999999999886 2 1223334332222223 3558999999999998


Q ss_pred             hcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC----ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCch
Q 006388          405 EYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP----DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPA  479 (647)
Q Consensus       405 ~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p----~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~  479 (647)
                      .+  +.+...+...++.....|+.+.|..+|++. ...|    ....|...+.--.++|+.+.+..+.+++.+..|+++ 
T Consensus       499 ~~--p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~P~~~-  575 (679)
T 4e6h_A          499 YF--ATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKFPEVN-  575 (679)
T ss_dssp             HH--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHSTTCC-
T ss_pred             HC--CCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCc-
Confidence            64  335566778899889999999999999987 2223    256899999999999999999999999999999764 


Q ss_pred             hHHHHHHhhh
Q 006388          480 SYVLLSSIYA  489 (647)
Q Consensus       480 ~~~~l~~~~~  489 (647)
                      ....+++-|.
T Consensus       576 ~~~~f~~ry~  585 (679)
T 4e6h_A          576 KLEEFTNKYK  585 (679)
T ss_dssp             HHHHHHHHTC
T ss_pred             HHHHHHHHhc
Confidence            3333444443

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.45  E-value=1e-11  Score=120.03  Aligned_cols=238  Identities=9%  Similarity=0.009  Sum_probs=167.5

Q ss_pred             hhhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC--CC----hhHHHHHH
Q 006388          174 QFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAW--KN----VVSWTAML  247 (647)
Q Consensus       174 ~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~~----~~~~~~li  247 (647)
                      ...+......+...|++++|...+..+++.. +.+..++..+...|.+.|++++|...|++...  .+    ..+|..+.
T Consensus         3 ~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg   81 (272)
T 3u4t_A            3 DDVEFRYADFLFKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYG   81 (272)
T ss_dssp             --CHHHHHHHHHTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHH
Confidence            3455667778889999999999999999875 34566888899999999999999999998754  22    23589999


Q ss_pred             HHHHhcCChhHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCH
Q 006388          248 VGYGQNGCSEEAVKIFCNMQRNGIEPD-DFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNI  326 (647)
Q Consensus       248 ~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  326 (647)
                      ..|...|++++|+..|++..+.  .|+ ...+                                   ..+...|...|++
T Consensus        82 ~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~-----------------------------------~~l~~~~~~~~~~  124 (272)
T 3u4t_A           82 KILMKKGQDSLAIQQYQAAVDR--DTTRLDMY-----------------------------------GQIGSYFYNKGNF  124 (272)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--STTCTHHH-----------------------------------HHHHHHHHHTTCH
T ss_pred             HHHHHcccHHHHHHHHHHHHhc--CcccHHHH-----------------------------------HHHHHHHHHccCH
Confidence            9999999999999999999875  333 2333                                   3355556666777


Q ss_pred             HHHHHHHhhcCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhcCCc---HHHHHHHH
Q 006388          327 EDSHRLFNEMNV---RDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPD-EVTLIGVLSACSRAGL---VEKGRHYF  399 (647)
Q Consensus       327 ~~A~~~~~~~~~---~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~---~~~a~~~~  399 (647)
                      ++|.+.|++...   .+...|..+...+...+++++|+..|++..+.  .|+ ...+..+..++...|+   +++|...+
T Consensus       125 ~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~  202 (272)
T 3u4t_A          125 PLAIQYMEKQIRPTTTDPKVFYELGQAYYYNKEYVKADSSFVKVLEL--KPNIYIGYLWRARANAAQDPDTKQGLAKPYY  202 (272)
T ss_dssp             HHHHHHHGGGCCSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHSTTCSSCTTHHHH
T ss_pred             HHHHHHHHHHhhcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHcCcchhhHHHHHHH
Confidence            777777766652   24556666662333445788888888887764  344 4455666666666666   66777777


Q ss_pred             HHHHHhcCCCcC------hHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-hhhHHHHH
Q 006388          400 EIMVKEYGIRPI------HDHYTCMIDILSRAGRLEEAKSFINKM-PFPPD-AIGWATLL  451 (647)
Q Consensus       400 ~~~~~~~~~~p~------~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll  451 (647)
                      +...+...-.|+      ...|..+...|.+.|++++|.+.++++ ...|+ ...+..+.
T Consensus       203 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l~  262 (272)
T 3u4t_A          203 EKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKADAAWKNILALDPTNKKAIDGLK  262 (272)
T ss_dssp             HHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHC
T ss_pred             HHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCccHHHHHHHhh
Confidence            777654333343      256777888888888888888888877 34454 44444443

>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=99.44  E-value=2.9e-12  Score=129.52  Aligned_cols=225  Identities=11%  Similarity=0.082  Sum_probs=192.2

Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCC-HHHHHHHHhhcC---CCChhhHHHHHHHH
Q 006388          276 FTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGN-IEDSHRLFNEMN---VRDEVSWTALVSGY  351 (647)
Q Consensus       276 ~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~-~~~A~~~~~~~~---~~d~~~~~~li~~~  351 (647)
                      ..+..+..++...|++++|...+..+++.. +.+..+++.+...|.+.|+ +++|+..|+++.   ..+...|+.+..++
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            456667777888999999999999999886 5578889999999999997 999999999886   44788999999999


Q ss_pred             HHcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHH-cCCHH
Q 006388          352 AKFGKANETIDLFEKMLSHGLKP-DEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSR-AGRLE  429 (647)
Q Consensus       352 ~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~-~g~~~  429 (647)
                      ...|++++|+..|+++++.  .| +...|..+..++...|++++|+..|+.+++.  -+-+...|+.+..+|.+ .|..+
T Consensus       177 ~~~g~~~eAl~~~~kal~l--dP~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l--~P~~~~a~~~lg~~l~~l~~~~~  252 (382)
T 2h6f_A          177 EWLRDPSQELEFIADILNQ--DAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKE--DVRNNSVWNQRYFVISNTTGYND  252 (382)
T ss_dssp             HHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCSCS
T ss_pred             HHccCHHHHHHHHHHHHHh--CccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCcch
Confidence            9999999999999999985  45 4558889999999999999999999999874  23467889999999999 66657


Q ss_pred             HH-----HHHHHhC-CCCCC-hhhHHHHHHHHHhcC--ChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCC--------
Q 006388          430 EA-----KSFINKM-PFPPD-AIGWATLLSSCRIHG--NVEIGKWAAESLLELDPYNPASYVLLSSIYASKG--------  492 (647)
Q Consensus       430 ~A-----~~~~~~~-~~~p~-~~~~~~ll~~~~~~~--~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g--------  492 (647)
                      +|     ++.+++. ...|+ ...|..+...+...|  ++++|...++++ +.+|+++..+..|+.+|.+.|        
T Consensus       253 eA~~~~el~~~~~Al~l~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~~p~~~~al~~La~~~~~~~~~~~~~~~  331 (382)
T 2h6f_A          253 RAVLEREVQYTLEMIKLVPHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QPSHSSPYLIAFLVDIYEDMLENQCDNKE  331 (382)
T ss_dssp             HHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TTTCCCHHHHHHHHHHHHHHHHTTCSSHH
T ss_pred             HHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHccCccchHHHHHHHHHh-ccCCCCHHHHHHHHHHHHHHhcccccchH
Confidence            77     4777766 44564 789999999998887  689999999998 899999999999999999875        


Q ss_pred             -ChhHHHHHHHHH-Hh
Q 006388          493 -KWDHVSQLRRTM-RE  506 (647)
Q Consensus       493 -~~~~a~~~~~~m-~~  506 (647)
                       .+++|.++++++ .+
T Consensus       332 ~~~~~A~~~~~~l~~~  347 (382)
T 2h6f_A          332 DILNKALELCEILAKE  347 (382)
T ss_dssp             HHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHH
Confidence             358999999997 44

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.43  E-value=1.3e-12  Score=134.75  Aligned_cols=196  Identities=9%  Similarity=0.004  Sum_probs=132.3

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhhcCCC---------ChhhHHHHHHHHHHcCC-----------------hHHHHHHH
Q 006388          311 TVSNALVTFYGKCGNIEDSHRLFNEMNVR---------DEVSWTALVSGYAKFGK-----------------ANETIDLF  364 (647)
Q Consensus       311 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~---------d~~~~~~li~~~~~~g~-----------------~~~A~~~~  364 (647)
                      .++..+...|...|++++|...|++....         ...+|..+...|...|+                 +++|+..+
T Consensus       127 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~  206 (411)
T 4a1s_A          127 KSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFY  206 (411)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHH
Confidence            44455555566666666666555544311         23356666666777777                 77777776


Q ss_pred             HHHHHC----CCCCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcC----hHHHHHHHHHHHHcCCHHHHHHHH
Q 006388          365 EKMLSH----GLKPD-EVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPI----HDHYTCMIDILSRAGRLEEAKSFI  435 (647)
Q Consensus       365 ~~m~~~----g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~~li~~~~~~g~~~~A~~~~  435 (647)
                      ++..+.    +-.|. ..++..+...+...|++++|..+++...+...-.++    ...+..+...|...|++++|.+.+
T Consensus       207 ~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  286 (411)
T 4a1s_A          207 QENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHY  286 (411)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHH
Confidence            665431    11122 236666777788888888888888877653211112    236778888888889988888888


Q ss_pred             HhC----CCCCC----hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCC------CchhHHHHHHhhhhCCChhHHHHHH
Q 006388          436 NKM----PFPPD----AIGWATLLSSCRIHGNVEIGKWAAESLLELDPY------NPASYVLLSSIYASKGKWDHVSQLR  501 (647)
Q Consensus       436 ~~~----~~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~------~~~~~~~l~~~~~~~g~~~~a~~~~  501 (647)
                      ++.    +...+    ..++..+...+...|++++|...++++++..+.      ...++..++.+|...|++++|.+.+
T Consensus       287 ~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  366 (411)
T 4a1s_A          287 KRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYA  366 (411)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHH
Confidence            766    11111    567788888889999999999999988876443      2457888999999999999999999


Q ss_pred             HHHHh
Q 006388          502 RTMRE  506 (647)
Q Consensus       502 ~~m~~  506 (647)
                      ++..+
T Consensus       367 ~~al~  371 (411)
T 4a1s_A          367 EQHLQ  371 (411)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            98776

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.43  E-value=3e-12  Score=131.56  Aligned_cols=196  Identities=16%  Similarity=0.074  Sum_probs=131.9

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhhcCC-----CC----hhhHHHHHHHHHHcCC--------------------hHHHH
Q 006388          311 TVSNALVTFYGKCGNIEDSHRLFNEMNV-----RD----EVSWTALVSGYAKFGK--------------------ANETI  361 (647)
Q Consensus       311 ~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~d----~~~~~~li~~~~~~g~--------------------~~~A~  361 (647)
                      .++..+...|...|++++|...|++...     .+    ..++..+...|...|+                    +++|+
T Consensus        88 ~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~  167 (406)
T 3sf4_A           88 KASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAV  167 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHH
Confidence            3445555666666666666666555431     11    3356666667777777                    77777


Q ss_pred             HHHHHHHHC----CCCCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcC----hHHHHHHHHHHHHcCCHHHHH
Q 006388          362 DLFEKMLSH----GLKPD-EVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPI----HDHYTCMIDILSRAGRLEEAK  432 (647)
Q Consensus       362 ~~~~~m~~~----g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~~li~~~~~~g~~~~A~  432 (647)
                      ..+++....    +-.|. ..++..+...+...|++++|...++...+...-.++    ...+..+...|...|++++|.
T Consensus       168 ~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  247 (406)
T 3sf4_A          168 DFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETAS  247 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHH
Confidence            777665431    11222 225666777778888888888888877643211122    246777888888888888888


Q ss_pred             HHHHhC----CCCCC----hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCC------chhHHHHHHhhhhCCChhHHH
Q 006388          433 SFINKM----PFPPD----AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYN------PASYVLLSSIYASKGKWDHVS  498 (647)
Q Consensus       433 ~~~~~~----~~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~------~~~~~~l~~~~~~~g~~~~a~  498 (647)
                      +.+++.    +..++    ..++..+...+...|++++|...++++++..+..      ..++..++.+|...|++++|.
T Consensus       248 ~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  327 (406)
T 3sf4_A          248 EYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAM  327 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            888765    11112    5577788888888999999999988888764432      557888899999999999999


Q ss_pred             HHHHHHHh
Q 006388          499 QLRRTMRE  506 (647)
Q Consensus       499 ~~~~~m~~  506 (647)
                      +.+++..+
T Consensus       328 ~~~~~al~  335 (406)
T 3sf4_A          328 HFAEKHLE  335 (406)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99888764

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.43  E-value=5.6e-12  Score=125.54  Aligned_cols=260  Identities=15%  Similarity=0.081  Sum_probs=168.8

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHCCCCCC-----HHHHHHHHHHHhccCChHHHHHHHHHHHHh----CCC-cchhHHHH
Q 006388          246 MLVGYGQNGCSEEAVKIFCNMQRNGIEPD-----DFTLGSVISSCANLASLEEGTQFHGRSLVT----GLI-SFITVSNA  315 (647)
Q Consensus       246 li~~~~~~g~~~~A~~~~~~m~~~g~~p~-----~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~  315 (647)
                      ....+...|++++|+..|+++.+..  |+     ...+..+...+...|+++.|...+....+.    +.. ....++..
T Consensus        11 ~g~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~   88 (338)
T 3ro2_A           11 EGERLCKSGDCRAGVSFFEAAVQVG--TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGN   88 (338)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC--CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHhhC--cccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHH
Confidence            3344455555555555555554431  22     133444444555555555555555544332    111 12445566


Q ss_pred             HHHHHHhcCCHHHHHHHHhhcCC-----CC----hhhHHHHHHHHHHcCC--------------------hHHHHHHHHH
Q 006388          316 LVTFYGKCGNIEDSHRLFNEMNV-----RD----EVSWTALVSGYAKFGK--------------------ANETIDLFEK  366 (647)
Q Consensus       316 li~~~~~~g~~~~A~~~~~~~~~-----~d----~~~~~~li~~~~~~g~--------------------~~~A~~~~~~  366 (647)
                      +...|...|++++|...|++...     .+    ..++..+...|...|+                    +++|+..+++
T Consensus        89 l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~  168 (338)
T 3ro2_A           89 LGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEE  168 (338)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHH
Confidence            66677777777777776665431     12    2366677777777777                    7778777777


Q ss_pred             HHHC----CCCCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcC----hHHHHHHHHHHHHcCCHHHHHHHHHh
Q 006388          367 MLSH----GLKPD-EVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPI----HDHYTCMIDILSRAGRLEEAKSFINK  437 (647)
Q Consensus       367 m~~~----g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~  437 (647)
                      ....    +..|. ..++..+...+...|++++|...++...+...-.++    ...+..+...|...|++++|.+.+++
T Consensus       169 a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  248 (338)
T 3ro2_A          169 NLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKK  248 (338)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            5432    11122 236667777888889999999888877643211112    34778888899999999999998887


Q ss_pred             C----CCCCC----hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCC------chhHHHHHHhhhhCCChhHHHHHHHH
Q 006388          438 M----PFPPD----AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYN------PASYVLLSSIYASKGKWDHVSQLRRT  503 (647)
Q Consensus       438 ~----~~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~------~~~~~~l~~~~~~~g~~~~a~~~~~~  503 (647)
                      .    +..++    ..++..+...+...|++++|...++++++..|..      ..++..++.+|...|++++|.+.+++
T Consensus       249 al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  328 (338)
T 3ro2_A          249 TLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEK  328 (338)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHH
Confidence            6    11122    5577888888999999999999999988765432      45788999999999999999999998


Q ss_pred             HHhC
Q 006388          504 MREK  507 (647)
Q Consensus       504 m~~~  507 (647)
                      ..+.
T Consensus       329 a~~~  332 (338)
T 3ro2_A          329 HLEI  332 (338)
T ss_dssp             HHHC
T ss_pred             HHHH
Confidence            8763

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.43  E-value=1e-11  Score=120.05  Aligned_cols=215  Identities=8%  Similarity=-0.055  Sum_probs=144.9

Q ss_pred             hCCChhHHHHHHHHHHHCCCCC---ChhhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHH
Q 006388          151 QNGLEREAIDLFREMRLEGLAM---DQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKY  227 (647)
Q Consensus       151 ~~g~~~~A~~~~~~m~~~g~~p---d~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~  227 (647)
                      ..|++++|+..|+++.+.....   +..++..+...+...|++++|...+..+++.. +.+..++..+...|...|++++
T Consensus        17 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~   95 (275)
T 1xnf_A           17 PTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDA   95 (275)
T ss_dssp             CCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHH
T ss_pred             ccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHHH
Confidence            3467788888888877653211   34456667777777888888888888777764 4456777778888888888888


Q ss_pred             HHHHHhcCCC---CChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHh
Q 006388          228 AESVFRTMAW---KNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVT  304 (647)
Q Consensus       228 A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~  304 (647)
                      |...|++...   .+..+|..+...|...|++++|+..|+++.+.  .|+.......+..+...|++++|...+......
T Consensus        96 A~~~~~~al~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~  173 (275)
T 1xnf_A           96 AYEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEK  173 (275)
T ss_dssp             HHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            8888877653   35677888888888888888888888888774  455544444455556667777777777766665


Q ss_pred             CCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCC-------hhhHHHHHHHHHHcCChHHHHHHHHHHHHC
Q 006388          305 GLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRD-------EVSWTALVSGYAKFGKANETIDLFEKMLSH  370 (647)
Q Consensus       305 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~d-------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  370 (647)
                      . +++...+ .++..+...++.++|.+.++.....+       ...|..+...|...|++++|...|++..+.
T Consensus       174 ~-~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  244 (275)
T 1xnf_A          174 S-DKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN  244 (275)
T ss_dssp             S-CCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             C-CcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhC
Confidence            3 2333333 35566666666677777776665432       345566666666666666666666666653

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.42  E-value=9.6e-12  Score=112.39  Aligned_cols=164  Identities=15%  Similarity=0.120  Sum_probs=132.3

Q ss_pred             ChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHH
Q 006388          340 DEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPD-EVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCM  418 (647)
Q Consensus       340 d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l  418 (647)
                      +...|..+...|.+.|++++|+..|++..+.  .|+ ...+..+..++.+.|++++|...++.....  .+.+...+..+
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~   79 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKA--DPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVL--DTTSAEAYYIL   79 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CchhHHHHHHH
Confidence            4566777888888888888888888888774  454 447777778888888888888888887653  23345677777


Q ss_pred             HHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhH
Q 006388          419 IDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDH  496 (647)
Q Consensus       419 i~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  496 (647)
                      ...+...+++++|.+.+.+. ...| +...|..+...+...|++++|+..++++++.+|.++.++..++.+|.+.|++++
T Consensus        80 ~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~~  159 (184)
T 3vtx_A           80 GSANFMIDEKQAAIDALQRAIALNTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRDE  159 (184)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHHH
Confidence            78888888999888888876 3334 477888888899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhC
Q 006388          497 VSQLRRTMREK  507 (647)
Q Consensus       497 a~~~~~~m~~~  507 (647)
                      |.+.+++..+.
T Consensus       160 A~~~~~~al~~  170 (184)
T 3vtx_A          160 AVKYFKKALEK  170 (184)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHhC
Confidence            99999988763

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.40  E-value=2.3e-12  Score=135.26  Aligned_cols=192  Identities=10%  Similarity=-0.019  Sum_probs=160.7

Q ss_pred             cchhHHHHHHHHHHhcCCH-HHHHHHHhhcC---CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 006388          308 SFITVSNALVTFYGKCGNI-EDSHRLFNEMN---VRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVL  383 (647)
Q Consensus       308 ~~~~~~~~li~~~~~~g~~-~~A~~~~~~~~---~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll  383 (647)
                      .+...+..+...|...|++ ++|.+.|++..   ..+...|..+...|.+.|++++|+..|++..+.  .|+...+..+.
T Consensus       100 ~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~lg  177 (474)
T 4abn_A          100 VEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEPELVEAWNQLGEVYWKKGDVTSAHTCFSGALTH--CKNKVSLQNLS  177 (474)
T ss_dssp             CCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT--CCCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCHHHHHHHH
Confidence            3455566666666666777 77777766654   335678888888999999999999999999885  57777888888


Q ss_pred             HHHhcC---------CcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHc--------CCHHHHHHHHHhC-CCCC---
Q 006388          384 SACSRA---------GLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRA--------GRLEEAKSFINKM-PFPP---  442 (647)
Q Consensus       384 ~a~~~~---------g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~--------g~~~~A~~~~~~~-~~~p---  442 (647)
                      ..+...         |++++|...|+...+.  .+.+...|..+..+|...        |++++|.+.|++. ...|   
T Consensus       178 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~  255 (474)
T 4abn_A          178 MVLRQLQTDSGDEHSRHVMDSVRQAKLAVQM--DVLDGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKVDRKAS  255 (474)
T ss_dssp             HHHTTCCCSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCGGGG
T ss_pred             HHHHHhccCChhhhhhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhCCCcc
Confidence            899999         9999999999998864  234578889999999998        9999999999988 4455   


Q ss_pred             -ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHH
Q 006388          443 -DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRT  503 (647)
Q Consensus       443 -~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  503 (647)
                       +...|..+...+...|++++|...++++++++|+++.++..++.++...|++++|.+.+.+
T Consensus       256 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~a~~~l~~~~~~lg~~~eAi~~~~~  317 (474)
T 4abn_A          256 SNPDLHLNRATLHKYEESYGEALEGFSQAAALDPAWPEPQQREQQLLEFLSRLTSLLESKGK  317 (474)
T ss_dssp             GCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             cCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence             6889999999999999999999999999999999999999999999999999999876544

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.38  E-value=5.3e-12  Score=129.67  Aligned_cols=292  Identities=13%  Similarity=-0.003  Sum_probs=185.4

Q ss_pred             ChhhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCc---hhHHHHHHHHHHhcCCHHHHHHHHhcCCC-----C----Ch
Q 006388          173 DQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDN---VFVGSALVDMYCKCKSIKYAESVFRTMAW-----K----NV  240 (647)
Q Consensus       173 d~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~---~~~~~~li~~y~~~g~~~~A~~~~~~~~~-----~----~~  240 (647)
                      ....+......+...|++++|...++.+++......   ..++..+...|...|++++|...|++...     .    ..
T Consensus         8 ~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~   87 (406)
T 3sf4_A            8 SCLELALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEA   87 (406)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHH
Confidence            444555666667778888888888888877642211   24566677777777777777777665431     1    13


Q ss_pred             hHHHHHHHHHHhcCChhHHHHHHHHHHHCCC-CCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHH
Q 006388          241 VSWTAMLVGYGQNGCSEEAVKIFCNMQRNGI-EPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTF  319 (647)
Q Consensus       241 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  319 (647)
                      .+|..+...|...|++++|+..|++...... .++.                               .....++..+...
T Consensus        88 ~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~-------------------------------~~~~~~~~~l~~~  136 (406)
T 3sf4_A           88 KASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDK-------------------------------VGEARALYNLGNV  136 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCH-------------------------------HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccc-------------------------------cchHHHHHHHHHH
Confidence            4566666677777777777777766544210 0010                               0012233344444


Q ss_pred             HHhcCC--------------------HHHHHHHHhhcC-------CC--ChhhHHHHHHHHHHcCChHHHHHHHHHHHHC
Q 006388          320 YGKCGN--------------------IEDSHRLFNEMN-------VR--DEVSWTALVSGYAKFGKANETIDLFEKMLSH  370 (647)
Q Consensus       320 ~~~~g~--------------------~~~A~~~~~~~~-------~~--d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  370 (647)
                      |...|+                    +++|.+.+++..       .+  ...+|..+...|...|++++|+..+++..+.
T Consensus       137 ~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  216 (406)
T 3sf4_A          137 YHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLI  216 (406)
T ss_dssp             HHHHHHTCC-------CCCCHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHH
T ss_pred             HHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            444444                    444444444332       11  1345667777777888888888888776642


Q ss_pred             CC-CCC----HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcC----hHHHHHHHHHHHHcCCHHHHHHHHHhC---
Q 006388          371 GL-KPD----EVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPI----HDHYTCMIDILSRAGRLEEAKSFINKM---  438 (647)
Q Consensus       371 g~-~p~----~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~~---  438 (647)
                      .. .++    ..++..+...+...|++++|..+++...+...-.++    ...+..+...|...|++++|.+.+++.   
T Consensus       217 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  296 (406)
T 3sf4_A          217 AKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAI  296 (406)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHH
Confidence            10 122    226677777888888888888888877643211111    467788888999999999999888776   


Q ss_pred             -CCCCC----hhhHHHHHHHHHhcCChhHHHHHHHHHhccCC------CCchhHHHHHHhhhhCCChh
Q 006388          439 -PFPPD----AIGWATLLSSCRIHGNVEIGKWAAESLLELDP------YNPASYVLLSSIYASKGKWD  495 (647)
Q Consensus       439 -~~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p------~~~~~~~~l~~~~~~~g~~~  495 (647)
                       +..++    ..++..+...+...|++++|...+++++++.+      ....++..++.+|...|+..
T Consensus       297 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  364 (406)
T 3sf4_A          297 AQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISREVGDKSGELTARLNLSDLQMVLGLSY  364 (406)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTS
T ss_pred             HHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHhhHhH
Confidence             11122    56788888899999999999999999887632      23556778888888777664

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.34  E-value=3.1e-11  Score=109.00  Aligned_cols=167  Identities=12%  Similarity=0.056  Sum_probs=141.4

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 006388          309 FITVSNALVTFYGKCGNIEDSHRLFNEMN---VRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSA  385 (647)
Q Consensus       309 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a  385 (647)
                      ++.+|..+...|.+.|++++|.+.|++..   ..++.+|..+...|.+.|++++|+..+.+..... +-+...+..+...
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~   82 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGSA   82 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHHH
Confidence            56678889999999999999999998875   3477889999999999999999999999988752 2344567777788


Q ss_pred             HhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHH
Q 006388          386 CSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIG  463 (647)
Q Consensus       386 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a  463 (647)
                      +...++++.+...++...+.  .+.+...+..+...|.+.|++++|++.|++. ...| +..+|..+...+...|++++|
T Consensus        83 ~~~~~~~~~a~~~~~~a~~~--~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~~A  160 (184)
T 3vtx_A           83 NFMIDEKQAAIDALQRAIAL--NTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRDEA  160 (184)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHHHH
Confidence            88999999999999988764  3445678889999999999999999999987 4445 578899999999999999999


Q ss_pred             HHHHHHHhccCCCCc
Q 006388          464 KWAAESLLELDPYNP  478 (647)
Q Consensus       464 ~~~~~~~~~~~p~~~  478 (647)
                      +..++++++++|+++
T Consensus       161 ~~~~~~al~~~p~~a  175 (184)
T 3vtx_A          161 VKYFKKALEKEEKKA  175 (184)
T ss_dssp             HHHHHHHHHTTHHHH
T ss_pred             HHHHHHHHhCCccCH
Confidence            999999999999653

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.33  E-value=4.4e-10  Score=110.74  Aligned_cols=218  Identities=12%  Similarity=0.079  Sum_probs=136.7

Q ss_pred             hHHHHHHHHHHHCCCCCCHHHHHHHHHHHh-------ccCCh-------HHHHHHHHHHHHhCCCcchhHHHHHHHHHHh
Q 006388          257 EEAVKIFCNMQRNGIEPDDFTLGSVISSCA-------NLASL-------EEGTQFHGRSLVTGLISFITVSNALVTFYGK  322 (647)
Q Consensus       257 ~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~-------~~~~~-------~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  322 (647)
                      ++|+.+|++..... +-+...|......+.       ..|+.       ++|..++++.++.-.+.+..++..++..+.+
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            45556666665531 223334444444332       23554       6666666666663123345566777777777


Q ss_pred             cCCHHHHHHHHhhcCC--C-Chh-hHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH-hcCCcHHHHHH
Q 006388          323 CGNIEDSHRLFNEMNV--R-DEV-SWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSAC-SRAGLVEKGRH  397 (647)
Q Consensus       323 ~g~~~~A~~~~~~~~~--~-d~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~-~~~g~~~~a~~  397 (647)
                      .|++++|.++|++...  | +.. .|..++..+.+.|++++|..+|++..+.. +++...|....... ...|++++|..
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            7777777777776652  2 333 67777777777778888888888777643 22333443333222 23578888888


Q ss_pred             HHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-C---CCC--ChhhHHHHHHHHHhcCChhHHHHHHHHHh
Q 006388          398 YFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-P---FPP--DAIGWATLLSSCRIHGNVEIGKWAAESLL  471 (647)
Q Consensus       398 ~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~---~~p--~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  471 (647)
                      +|+...+..  +.+...|..++..+.+.|++++|..+|++. .   ..|  ....|..++.....+|+.+.|..+++++.
T Consensus       191 ~~~~al~~~--p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~  268 (308)
T 2ond_A          191 IFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRF  268 (308)
T ss_dssp             HHHHHHHHH--TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHHHHHHhC--CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            887777642  234567777777777778888888877776 1   244  25577777777777788888888888887


Q ss_pred             ccCCCCc
Q 006388          472 ELDPYNP  478 (647)
Q Consensus       472 ~~~p~~~  478 (647)
                      +..|+++
T Consensus       269 ~~~p~~~  275 (308)
T 2ond_A          269 TAFREEY  275 (308)
T ss_dssp             HHTTTTT
T ss_pred             HHccccc
Confidence            7777644

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.33  E-value=1.1e-11  Score=127.73  Aligned_cols=267  Identities=13%  Similarity=0.003  Sum_probs=166.3

Q ss_pred             HHHHHHHHhcCCChHHHHHHHHHHHHcCCCCch----hHHHHHHHHHHhcCCHHHHHHHHhcCCCC---------ChhHH
Q 006388          177 FGSVLTACGGLLALEEGKQIHAFIIRNDHKDNV----FVGSALVDMYCKCKSIKYAESVFRTMAWK---------NVVSW  243 (647)
Q Consensus       177 ~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~----~~~~~li~~y~~~g~~~~A~~~~~~~~~~---------~~~~~  243 (647)
                      +..+...+...|++++|...++.+++.... +.    .++..+...|...|++++|...|++....         ...+|
T Consensus        51 l~~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~  129 (411)
T 4a1s_A           51 LALEGERLCNAGDCRAGVAFFQAAIQAGTE-DLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSS  129 (411)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHhCcHHHHHHHHHHHHHhccc-ChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHH
Confidence            334444556667777777777766665322 22    34555666666666666666666554311         22345


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhC-CCcchhHHHHHHHHHHh
Q 006388          244 TAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTG-LISFITVSNALVTFYGK  322 (647)
Q Consensus       244 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~li~~~~~  322 (647)
                      ..+...|...|++++|+..|++.....                               .+.+ .+....++..+...|..
T Consensus       130 ~~l~~~~~~~g~~~~A~~~~~~al~~~-------------------------------~~~~~~~~~~~~~~~l~~~~~~  178 (411)
T 4a1s_A          130 GNLGNTLKVMGRFDEAAICCERHLTLA-------------------------------RQLGDRLSEGRALYNLGNVYHA  178 (411)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHH-------------------------------HHHTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHH-------------------------------HHhhchHHHHHHHHHHHHHHHH
Confidence            555556666666666666655544320                               0000 01123344455555555


Q ss_pred             cCC-----------------HHHHHHHHhhcC-------CC--ChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCC-CCC
Q 006388          323 CGN-----------------IEDSHRLFNEMN-------VR--DEVSWTALVSGYAKFGKANETIDLFEKMLSHGL-KPD  375 (647)
Q Consensus       323 ~g~-----------------~~~A~~~~~~~~-------~~--d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~  375 (647)
                      .|+                 +++|.+.+++..       .+  ...+|..+...|...|++++|+..|++..+... .++
T Consensus       179 ~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~  258 (411)
T 4a1s_A          179 KGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGD  258 (411)
T ss_dssp             HHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTC
T ss_pred             cCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCC
Confidence            555                 555555555432       11  234677777788888888888888887765211 112


Q ss_pred             ----HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCc----ChHHHHHHHHHHHHcCCHHHHHHHHHhC-CC---CCC
Q 006388          376 ----EVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRP----IHDHYTCMIDILSRAGRLEEAKSFINKM-PF---PPD  443 (647)
Q Consensus       376 ----~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p----~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~---~p~  443 (647)
                          ..++..+...+...|++++|...++.......-..    ....+..+...|...|++++|.+.+++. ..   .++
T Consensus       259 ~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~  338 (411)
T 4a1s_A          259 RAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGD  338 (411)
T ss_dssp             HHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTC
T ss_pred             cHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCC
Confidence                12667778888899999999999887765321111    2467888889999999999999998876 11   112


Q ss_pred             ----hhhHHHHHHHHHhcCChhHHHHHHHHHhccCC
Q 006388          444 ----AIGWATLLSSCRIHGNVEIGKWAAESLLELDP  475 (647)
Q Consensus       444 ----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p  475 (647)
                          ..++..+...+...|++++|...+++++++.+
T Consensus       339 ~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~  374 (411)
T 4a1s_A          339 RIGEARACWSLGNAHSAIGGHERALKYAEQHLQLAX  374 (411)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC
T ss_pred             hHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHh
Confidence                45778888899999999999999999888765

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.31  E-value=4.8e-12  Score=124.77  Aligned_cols=236  Identities=13%  Similarity=0.137  Sum_probs=128.2

Q ss_pred             hhHHHHHHHHHHhcCChhHHHHHHHHHHHC-------CCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHh------CC
Q 006388          240 VVSWTAMLVGYGQNGCSEEAVKIFCNMQRN-------GIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVT------GL  306 (647)
Q Consensus       240 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-------g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~------~~  306 (647)
                      ..+|..+...+...|++++|+.+|+++.+.       ........+..+...+...|++++|...+..+.+.      +-
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            457888888889999999999998888762       11122344555556666666666666666655543      11


Q ss_pred             -CcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHC------CCCCC-HHH
Q 006388          307 -ISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEKMLSH------GLKPD-EVT  378 (647)
Q Consensus       307 -~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------g~~p~-~~t  378 (647)
                       +....+                               |..+...|...|++++|+..|++..+.      +-.|+ ...
T Consensus       107 ~~~~~~~-------------------------------~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~  155 (311)
T 3nf1_A          107 HPAVAAT-------------------------------LNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQ  155 (311)
T ss_dssp             CHHHHHH-------------------------------HHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             ChHHHHH-------------------------------HHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHH
Confidence             112333                               444444444455555555555444432      11222 224


Q ss_pred             HHHHHHHHhcCCcHHHHHHHHHHHHHhc-----C-CCcChHHHHHHHHHHHHcCCHHHHHHHHHhCC----------CCC
Q 006388          379 LIGVLSACSRAGLVEKGRHYFEIMVKEY-----G-IRPIHDHYTCMIDILSRAGRLEEAKSFINKMP----------FPP  442 (647)
Q Consensus       379 ~~~ll~a~~~~g~~~~a~~~~~~~~~~~-----~-~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~----------~~p  442 (647)
                      +..+...+...|++++|..+++.+.+..     + .+.....+..+...|.+.|++++|.+.++++-          ..+
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            5555556666666666666666654421     1 11123456666666677777777766665541          111


Q ss_pred             C-hhh------HHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHh
Q 006388          443 D-AIG------WATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       443 ~-~~~------~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      . ...      +..+...+...+.+.++...++.+....|..+.++..++.+|...|++++|.+++++..+
T Consensus       236 ~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          236 ENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             --CCHHHHHHHHHHC-------CCSCCCC---------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            1 111      222222333445566666677777777777788888888999999999999888887754

>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=99.31  E-value=2.3e-11  Score=132.74  Aligned_cols=162  Identities=18%  Similarity=0.248  Sum_probs=126.1

Q ss_pred             ChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCc-ChHHHHH
Q 006388          340 DEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPD-EVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRP-IHDHYTC  417 (647)
Q Consensus       340 d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~  417 (647)
                      +..+|+.|...|.+.|++++|++.|++.++.  .|+ ...+..+..++.+.|++++|++.|++.++.   .| +...|..
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l--~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l---~P~~~~a~~n   82 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALEV--FPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI---SPTFADAYSN   82 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHH
Confidence            3456777777777777777788777777763  455 347777777788888888888888877653   33 4577888


Q ss_pred             HHHHHHHcCCHHHHHHHHHhC-CCCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChh
Q 006388          418 MIDILSRAGRLEEAKSFINKM-PFPPD-AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWD  495 (647)
Q Consensus       418 li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~  495 (647)
                      +..+|.+.|++++|++.|++. .+.|+ ...|..+...+...|++++|+..++++++++|+++.++..|+.+|...|+|+
T Consensus        83 Lg~~l~~~g~~~~A~~~~~kAl~l~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~~L~~~l~~~g~~~  162 (723)
T 4gyw_A           83 MGNTLKEMQDVQGALQCYTRAIQINPAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHCLQIVCDWT  162 (723)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCCT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHhhhhhHHHhcccHH
Confidence            888888888888888888776 44554 7788888888888888888888888888888888888888888888888888


Q ss_pred             HHHHHHHHHHh
Q 006388          496 HVSQLRRTMRE  506 (647)
Q Consensus       496 ~a~~~~~~m~~  506 (647)
                      +|.+.+++..+
T Consensus       163 ~A~~~~~kal~  173 (723)
T 4gyw_A          163 DYDERMKKLVS  173 (723)
T ss_dssp             THHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            88888877653

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.31  E-value=4.1e-11  Score=119.25  Aligned_cols=133  Identities=15%  Similarity=0.043  Sum_probs=74.3

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcC----hH
Q 006388          343 SWTALVSGYAKFGKANETIDLFEKMLSHGL-KPD----EVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPI----HD  413 (647)
Q Consensus       343 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~----~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~----~~  413 (647)
                      .+..+...+...|++++|...+++..+... .++    ..++..+...+...|++++|..+++...+...-.++    ..
T Consensus       185 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  264 (338)
T 3ro2_A          185 AFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQ  264 (338)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHH
Confidence            344444445555555555555554432100 011    114455555566666666666666655432111111    34


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHhC----CCCCC----hhhHHHHHHHHHhcCChhHHHHHHHHHhccCC
Q 006388          414 HYTCMIDILSRAGRLEEAKSFINKM----PFPPD----AIGWATLLSSCRIHGNVEIGKWAAESLLELDP  475 (647)
Q Consensus       414 ~~~~li~~~~~~g~~~~A~~~~~~~----~~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p  475 (647)
                      .+..+...|...|++++|.+.++++    +..++    ..++..+...+...|++++|...+++++++.+
T Consensus       265 ~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~  334 (338)
T 3ro2_A          265 SCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISR  334 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC--
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHH
Confidence            5666777777777777777777665    10111    44677777888888888888888888887765

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.30  E-value=6.5e-11  Score=120.79  Aligned_cols=195  Identities=12%  Similarity=0.037  Sum_probs=119.1

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhhcC-----CC-----ChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCC-CCCH---
Q 006388          311 TVSNALVTFYGKCGNIEDSHRLFNEMN-----VR-----DEVSWTALVSGYAKFGKANETIDLFEKMLSHGL-KPDE---  376 (647)
Q Consensus       311 ~~~~~li~~~~~~g~~~~A~~~~~~~~-----~~-----d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~---  376 (647)
                      .++..+...|...|++++|...+++..     .+     ...+++.+...|...|++++|+..|++..+... .++.   
T Consensus       144 ~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  223 (383)
T 3ulq_A          144 EFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLM  223 (383)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHH
Confidence            344455555555555555555554432     01     123566666677777777777777766654210 1111   


Q ss_pred             -HHHHHHHHHHhcCCcHHHHHHHHHHHHHh---cCC-CcChHHHHHHHHHHHHcCCHHHHHHHHHhC-C-----CCCC-h
Q 006388          377 -VTLIGVLSACSRAGLVEKGRHYFEIMVKE---YGI-RPIHDHYTCMIDILSRAGRLEEAKSFINKM-P-----FPPD-A  444 (647)
Q Consensus       377 -~t~~~ll~a~~~~g~~~~a~~~~~~~~~~---~~~-~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~-----~~p~-~  444 (647)
                       .++..+...+...|++++|...|+...+-   .+. +....++..+...|.+.|++++|.+.+++. .     ..|. .
T Consensus       224 ~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  303 (383)
T 3ulq_A          224 GRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYL  303 (383)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHH
Confidence             25666677777777777777777766541   122 223466777777788888888888777765 1     1121 2


Q ss_pred             hhHHHHHHHHHhcCC---hhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHh
Q 006388          445 IGWATLLSSCRIHGN---VEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       445 ~~~~~ll~~~~~~~~---~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      ..+..+...+...|+   +++|...+++. ...|.....+..++.+|...|++++|.+.+++..+
T Consensus       304 ~~~~~l~~~~~~~~~~~~~~~al~~~~~~-~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          304 SEFEFLKSLYLSGPDEEAIQGFFDFLESK-MLYADLEDFAIDVAKYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHHHHHHTSSCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCcHHHHHHHHHHHHHC-cCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            234556666667777   66666666655 22333455777888888888888888888888764

>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=99.28  E-value=9.4e-09  Score=110.87  Aligned_cols=430  Identities=11%  Similarity=0.039  Sum_probs=265.8

Q ss_pred             CCcccHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCCcchHHHHHHHHhCCCC---hHHHHHHHHHHHHhCC-CCchhh
Q 006388            4 HDGVSWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRC---VDLGRQIHGHILKFGF-GSYVFV   79 (647)
Q Consensus         4 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~~ll~~~~~~~~---~~~a~~~~~~~~~~g~-~~~~~~   79 (647)
                      .|..+|..++..+.+.+.++.+..+|+++...-  |.+...|..-+..-.+.++   .+.+..+|++.+.... +|++..
T Consensus        64 ~d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~f--P~~~~lW~~Yi~~E~~~~~~~~~~~v~~lfeRal~~~~~~~sv~L  141 (679)
T 4e6h_A           64 TDIFLYVKLLKHHVSLKQWKQVYETFDKLHDRF--PLMANIWCMRLSLEFDKMEELDAAVIEPVLARCLSKELGNNDLSL  141 (679)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHTC--CCCHHHHHHHHHHHTCSSSCCCCHHH
T ss_pred             CCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHHhcCCCCCHHH
Confidence            467789999999999999999999999999874  7777888888888888888   9999999999988652 478888


Q ss_pred             HHHHHHHHHhcCCh--------HHHHHHhccCC------CC-CchHHHHHHHHHH---------hcCChHHHHHHhhcCC
Q 006388           80 GSPLVDMYAKLGLI--------YDAKRGFDELP------EK-NIVMYNTMITGLL---------RRGLVEESRRLFRGMK  135 (647)
Q Consensus        80 ~~~li~~~~~~g~~--------~~A~~~~~~~~------~~-~~~~~~~li~~~~---------~~g~~~~A~~~~~~~~  135 (647)
                      |...+....+.++.        +..+++|+...      ++ ....|...+.-..         ..++++.+.++|+...
T Consensus       142 W~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~eeq~~~~~~R~iy~raL  221 (679)
T 4e6h_A          142 WLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQQRVQYIRKLYKTLL  221 (679)
T ss_dssp             HHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHHHhHHHHHHHHHHHHH
Confidence            88887776665554        33447777532      23 3357877776543         3456788999999877


Q ss_pred             CCCe----ehHHHHHHHHHh-C------------CChhHHHHHHHHHHH--CCCC---CCh-hhHHHHHHHHhcCC-ChH
Q 006388          136 DKDS----ISWTTMITGLMQ-N------------GLEREAIDLFREMRL--EGLA---MDQ-FTFGSVLTACGGLL-ALE  191 (647)
Q Consensus       136 ~~~~----~~~~~li~~~~~-~------------g~~~~A~~~~~~m~~--~g~~---pd~-~t~~~ll~~~~~~~-~~~  191 (647)
                      .-..    ..|......--. +            ..++.|...+.++..  .++.   |.. .+..  ....-..+ ...
T Consensus       222 ~iP~~~~~~~w~~Y~~fe~~~~~~~a~~~~~e~~~~y~~Ar~~~~e~~~~~~~l~r~~p~~~~~~~--~~~~p~~~~~~~  299 (679)
T 4e6h_A          222 CQPMDCLESMWQRYTQWEQDVNQLTARRHIGELSAQYMNARSLYQDWLNITKGLKRNLPITLNQAT--ESNLPKPNEYDV  299 (679)
T ss_dssp             TSCCSSHHHHHHHHHHHHHHHCTTTHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCCCCSSSTTCC--TTTSCCTTCCCH
T ss_pred             hCccHHHHHHHHHHHHHHHhcCcchHHHHHHHhhHHHHHHHHHHHHHHHHHHhHhhccccccccch--hccCCCCchhHH
Confidence            5211    122221111100 0            112223333333221  1110   000 0000  00000000 000


Q ss_pred             HHHHHHHHHHHcCCCCchhHHHHHHHHHHhcC-------CHHHHHHHHhcCC---CCChhHHHHHHHHHHhcCChhHHH-
Q 006388          192 EGKQIHAFIIRNDHKDNVFVGSALVDMYCKCK-------SIKYAESVFRTMA---WKNVVSWTAMLVGYGQNGCSEEAV-  260 (647)
Q Consensus       192 ~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g-------~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~-  260 (647)
                      ...               ..|...+..--..+       ..+.+..+|++..   ..+...|-..+.-+...|+.++|. 
T Consensus       300 ~ql---------------~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~~p~~~~lW~~ya~~~~~~~~~~~a~r  364 (679)
T 4e6h_A          300 QQL---------------LIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQHVCFAPEIWFNMANYQGEKNTDSTVIT  364 (679)
T ss_dssp             HHH---------------HHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHSCCTTHHH
T ss_pred             HHH---------------HHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCcHHHHHH
Confidence            111               12222222221111       0122334444433   235667777777777788888886 


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhC----------CCc-----------chhHHHHHHHH
Q 006388          261 KIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTG----------LIS-----------FITVSNALVTF  319 (647)
Q Consensus       261 ~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~----------~~~-----------~~~~~~~li~~  319 (647)
                      ++|++.... .+.+...+...+...-..|+++.|+.+++.+++..          .+.           ...+|...++.
T Consensus       365 ~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~  443 (679)
T 4e6h_A          365 KYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNT  443 (679)
T ss_dssp             HHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHH
Confidence            888888763 23344445556666677788888888888877641          111           23578888888


Q ss_pred             HHhcCCHHHHHHHHhhcCCC-C---hhhHHHHHHHHHHc-CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHH
Q 006388          320 YGKCGNIEDSHRLFNEMNVR-D---EVSWTALVSGYAKF-GKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEK  394 (647)
Q Consensus       320 ~~~~g~~~~A~~~~~~~~~~-d---~~~~~~li~~~~~~-g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~  394 (647)
                      ..+.|.++.|.++|.+..+. .   ...|-..+..-.+. ++.+.|..+|+...+. ..-+...+...+......|+.+.
T Consensus       444 erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~~~~~~  522 (679)
T 4e6h_A          444 MKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHISKDTKTACKVLELGLKY-FATDGEYINKYLDFLIYVNEESQ  522 (679)
T ss_dssp             HHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCchHHHHHHHHHHHhCCCHHH
Confidence            88899999999999987633 2   23333222222233 4589999999998885 23344455677777777899999


Q ss_pred             HHHHHHHHHHhcCCCc---ChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCChhhHHHHHHHHHh
Q 006388          395 GRHYFEIMVKEYGIRP---IHDHYTCMIDILSRAGRLEEAKSFINKM-PFPPDAIGWATLLSSCRI  456 (647)
Q Consensus       395 a~~~~~~~~~~~~~~p---~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~ll~~~~~  456 (647)
                      |+.+|+..+..  .++   ....|...++.-.+.|+.+.+.++.+++ ...|+......+..-|..
T Consensus       523 AR~lferal~~--~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~P~~~~~~~f~~ry~~  586 (679)
T 4e6h_A          523 VKSLFESSIDK--ISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKFPEVNKLEEFTNKYKV  586 (679)
T ss_dssp             HHHHHHHHTTT--SSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHSTTCCHHHHHHHHTCB
T ss_pred             HHHHHHHHHHh--cCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCcHHHHHHHHhcC
Confidence            99999988753  221   3478888999889999999999999998 233554455555555543

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.28  E-value=7.3e-10  Score=109.15  Aligned_cols=245  Identities=11%  Similarity=0.051  Sum_probs=157.8

Q ss_pred             HHHHHHHhcCCC---CChhHHHHHHHHHH-------hcCCh-------hHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhc
Q 006388          226 KYAESVFRTMAW---KNVVSWTAMLVGYG-------QNGCS-------EEAVKIFCNMQRNGIEPD-DFTLGSVISSCAN  287 (647)
Q Consensus       226 ~~A~~~~~~~~~---~~~~~~~~li~~~~-------~~g~~-------~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~  287 (647)
                      ++|..+|++...   .++..|..++..+.       +.|+.       ++|..+|++.... +.|+ ...|..+...+..
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            345555554432   34555665555554       24664       6777777777652 2343 3456666666677


Q ss_pred             cCChHHHHHHHHHHHHhCCCcchh-HHHHHHHHHHhcCCHHHHHHHHhhcCCC---ChhhHHHHHHHHH-HcCChHHHHH
Q 006388          288 LASLEEGTQFHGRSLVTGLISFIT-VSNALVTFYGKCGNIEDSHRLFNEMNVR---DEVSWTALVSGYA-KFGKANETID  362 (647)
Q Consensus       288 ~~~~~~a~~~~~~~~~~~~~~~~~-~~~~li~~~~~~g~~~~A~~~~~~~~~~---d~~~~~~li~~~~-~~g~~~~A~~  362 (647)
                      .|++++|..+++.+++.. +.+.. ++..++..+.+.|++++|.++|++....   +...|........ ..|++++|..
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            777777777777777642 11232 6777888888888888888888876532   3334433322222 2699999999


Q ss_pred             HHHHHHHCCCCC-CHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCc--ChHHHHHHHHHHHHcCCHHHHHHHHHhC-
Q 006388          363 LFEKMLSHGLKP-DEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRP--IHDHYTCMIDILSRAGRLEEAKSFINKM-  438 (647)
Q Consensus       363 ~~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p--~~~~~~~li~~~~~~g~~~~A~~~~~~~-  438 (647)
                      +|++..+.  .| +...+..++..+.+.|++++|+.+|+.......++|  ....|..++..+.+.|+.++|..+++++ 
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            99998874  34 455788888888999999999999999987433455  3578888899999999999999999887 


Q ss_pred             CCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHH
Q 006388          439 PFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLS  485 (647)
Q Consensus       439 ~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~  485 (647)
                      ...|+......+ ..+          ....+++.+.|+++..++.|+
T Consensus       269 ~~~p~~~~~~~~-~~~----------~~r~~~l~~~P~~~~~ln~lg  304 (308)
T 2ond_A          269 TAFREEYEGKET-ALL----------VDRYKFMDLYPCSASELKALG  304 (308)
T ss_dssp             HHTTTTTSSCHH-HHH----------HTTTCBTTBCSSCHHHHHTTT
T ss_pred             HHcccccccchH-HHH----------HHHHHhcccCCCCHHHHHhcC
Confidence            223331100000 111          001145668898887777654

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.27  E-value=1.3e-11  Score=121.59  Aligned_cols=239  Identities=12%  Similarity=0.075  Sum_probs=147.4

Q ss_pred             CchhHHHHHHHHHHhcCCHHHHHHHHhcCCC--------C---ChhHHHHHHHHHHhcCChhHHHHHHHHHHHC------
Q 006388          207 DNVFVGSALVDMYCKCKSIKYAESVFRTMAW--------K---NVVSWTAMLVGYGQNGCSEEAVKIFCNMQRN------  269 (647)
Q Consensus       207 ~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--------~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------  269 (647)
                      .+..++..+...|...|++++|..+|+++..        .   ...++..+...|...|++++|+..|++....      
T Consensus        25 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~  104 (311)
T 3nf1_A           25 ARLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLG  104 (311)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhC
Confidence            3456788899999999999999999988764        2   2457888999999999999999999998764      


Q ss_pred             CCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHh------CC-CcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCCh
Q 006388          270 GIEP-DDFTLGSVISSCANLASLEEGTQFHGRSLVT------GL-ISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDE  341 (647)
Q Consensus       270 g~~p-~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~------~~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~d~  341 (647)
                      +-.| ...++..+...+...|++++|...+..+.+.      +. +....++..+...|...|++++|.+.|++      
T Consensus       105 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~------  178 (311)
T 3nf1_A          105 KDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQR------  178 (311)
T ss_dssp             TTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHH------
T ss_pred             CCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHH------
Confidence            2223 3456777888888999999999999887764      11 12334455555555555665555555544      


Q ss_pred             hhHHHHHHHHHHcCChHHHHHHHHHHHHC------CCCCCH-HHHHHHHHHHhcCCcHHHHHHHHHHHHHhc------CC
Q 006388          342 VSWTALVSGYAKFGKANETIDLFEKMLSH------GLKPDE-VTLIGVLSACSRAGLVEKGRHYFEIMVKEY------GI  408 (647)
Q Consensus       342 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~------g~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~------~~  408 (647)
                                               +.+.      +-.|+. .++..+...+...|++++|..+++.+.+..      ..
T Consensus       179 -------------------------a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  233 (311)
T 3nf1_A          179 -------------------------ALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSV  233 (311)
T ss_dssp             -------------------------HHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC--
T ss_pred             -------------------------HHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCC
Confidence                                     3321      111211 134444444555555555555555444310      00


Q ss_pred             Cc-------ChHHHHHHHHHHHHcCCHHHHHHHHHhCC-CCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCC
Q 006388          409 RP-------IHDHYTCMIDILSRAGRLEEAKSFINKMP-FPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPY  476 (647)
Q Consensus       409 ~p-------~~~~~~~li~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~  476 (647)
                      .+       ....+..+...+...+.+.+|...++... ..| +..+|..+...|...|++++|...+++++++.|.
T Consensus       234 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~~~  310 (311)
T 3nf1_A          234 DDENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMRSRKQ  310 (311)
T ss_dssp             ----CCHHHHHHHHHHC-------CCSCCCC---------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHC-
T ss_pred             CcchHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhc
Confidence            11       11223333344455566666666666663 334 3678889999999999999999999999887764

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.27  E-value=1.4e-10  Score=118.29  Aligned_cols=229  Identities=9%  Similarity=0.015  Sum_probs=159.0

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHCC-CCCC----HHHHHHHHHHHhccCChHHHHHHHHHHHHhC--C----CcchhHHH
Q 006388          246 MLVGYGQNGCSEEAVKIFCNMQRNG-IEPD----DFTLGSVISSCANLASLEEGTQFHGRSLVTG--L----ISFITVSN  314 (647)
Q Consensus       246 li~~~~~~g~~~~A~~~~~~m~~~g-~~p~----~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~--~----~~~~~~~~  314 (647)
                      ....+...|++++|+..|++....- -.+|    ..++..+...+...|+++.|...+....+..  .    +....+++
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            3444556666666666666665421 0111    2345555556666666666666666655431  1    11234667


Q ss_pred             HHHHHHHhcCCHHHHHHHHhhcCC-----CC----hhhHHHHHHHHHHcCChHHHHHHHHHHHHC----CCCCC-HHHHH
Q 006388          315 ALVTFYGKCGNIEDSHRLFNEMNV-----RD----EVSWTALVSGYAKFGKANETIDLFEKMLSH----GLKPD-EVTLI  380 (647)
Q Consensus       315 ~li~~~~~~g~~~~A~~~~~~~~~-----~d----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p~-~~t~~  380 (647)
                      .+...|...|++++|.+.|++...     ++    ..+|..+...|...|++++|+..|++..+.    +..|+ ..++.
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            777888888888888888776541     11    246788888999999999999999888762    33244 44788


Q ss_pred             HHHHHHhcCCcHHHHHHHHHHHHHhc---CCCcChHHHHHHHHHHHHcCC---HHHHHHHHHhCCCCCC-hhhHHHHHHH
Q 006388          381 GVLSACSRAGLVEKGRHYFEIMVKEY---GIRPIHDHYTCMIDILSRAGR---LEEAKSFINKMPFPPD-AIGWATLLSS  453 (647)
Q Consensus       381 ~ll~a~~~~g~~~~a~~~~~~~~~~~---~~~p~~~~~~~li~~~~~~g~---~~~A~~~~~~~~~~p~-~~~~~~ll~~  453 (647)
                      .+...+...|++++|...++...+..   +.+.....+..+...|...|+   +++|..++++.+..|+ ...+..+...
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            88889999999999999998876532   122223446778888889998   9999999999865554 5577788899


Q ss_pred             HHhcCChhHHHHHHHHHhccC
Q 006388          454 CRIHGNVEIGKWAAESLLELD  474 (647)
Q Consensus       454 ~~~~~~~~~a~~~~~~~~~~~  474 (647)
                      |...|++++|...+++++++.
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            999999999999999988754

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=99.25  E-value=1.8e-10  Score=103.51  Aligned_cols=160  Identities=14%  Similarity=0.077  Sum_probs=98.7

Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHH
Q 006388          345 TALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSR  424 (647)
Q Consensus       345 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~  424 (647)
                      ..+...+...|++++|+..|+++.+.. +.+...+..+...+...|++++|..+++.+.+.  .+.+...+..+...+..
T Consensus        12 ~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~   88 (186)
T 3as5_A           12 RDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLAD--APDNVKVATVLGLTYVQ   88 (186)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHH
Confidence            333444444444444444444443321 123334444455555555555555555555442  12234555666666666


Q ss_pred             cCCHHHHHHHHHhC-C-CCCChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHH
Q 006388          425 AGRLEEAKSFINKM-P-FPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRR  502 (647)
Q Consensus       425 ~g~~~~A~~~~~~~-~-~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~  502 (647)
                      .|++++|.+.++++ . .+.+...|..+...+...|++++|...++++++..|.++..+..++.+|...|++++|.+.++
T Consensus        89 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~  168 (186)
T 3as5_A           89 VQKYDLAVPLLIKVAEANPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPNEGKVHRAIAFSYEQMGRHEEALPHFK  168 (186)
T ss_dssp             HTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHhcCcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            66666666666655 1 223466777777777788888888888888888888888888888888888888888888888


Q ss_pred             HHHhC
Q 006388          503 TMREK  507 (647)
Q Consensus       503 ~m~~~  507 (647)
                      +..+.
T Consensus       169 ~~~~~  173 (186)
T 3as5_A          169 KANEL  173 (186)
T ss_dssp             HHHHH
T ss_pred             HHHHc
Confidence            77653

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=99.23  E-value=7.4e-10  Score=103.75  Aligned_cols=204  Identities=10%  Similarity=0.060  Sum_probs=135.4

Q ss_pred             CCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHH
Q 006388          273 PDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMN---VRDEVSWTALVS  349 (647)
Q Consensus       273 p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~d~~~~~~li~  349 (647)
                      .|...+......+...|++++|...+...++...+++...+..+...|...|++++|.+.|++..   ..+...|..+..
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            34566667777777888888888888888777643555666667778888888888888887765   224566777777


Q ss_pred             HHHHcCChHHHHHHHHHHHHCCCCCC-H-------HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcC---hHHHHHH
Q 006388          350 GYAKFGKANETIDLFEKMLSHGLKPD-E-------VTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPI---HDHYTCM  418 (647)
Q Consensus       350 ~~~~~g~~~~A~~~~~~m~~~g~~p~-~-------~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~---~~~~~~l  418 (647)
                      .|...|++++|+..|++..+.  .|+ .       ..+..+...+...|++++|...|+...+   +.|+   ...+..+
T Consensus        85 ~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~---~~p~~~~~~~~~~l  159 (228)
T 4i17_A           85 AYRDMKNNQEYIATLTEGIKA--VPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATD---VTSKKWKTDALYSL  159 (228)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTT---SSCHHHHHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHh---cCCCcccHHHHHHH
Confidence            888888888888888887764  343 2       3455566667777888888888877753   3454   4566666


Q ss_pred             HHHHHHcCCHHHHHHHHHhC-CC-CCChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhh
Q 006388          419 IDILSRAGRLEEAKSFINKM-PF-PPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIY  488 (647)
Q Consensus       419 i~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  488 (647)
                      ...|...|+.     +++++ .. ..+...+..+.  ....+.+++|...++++++++|+++.+...+..+.
T Consensus       160 ~~~~~~~~~~-----~~~~a~~~~~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~p~~~~~~~~l~~i~  224 (228)
T 4i17_A          160 GVLFYNNGAD-----VLRKATPLASSNKEKYASEK--AKADAAFKKAVDYLGEAVTLSPNRTEIKQMQDQVK  224 (228)
T ss_dssp             HHHHHHHHHH-----HHHHHGGGTTTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHH-----HHHHHHhcccCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhcCCCCHHHHHHHHHHH
Confidence            6666655433     22222 01 11233332222  23445678899999999999998887777666554

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.22  E-value=5.2e-09  Score=106.10  Aligned_cols=258  Identities=10%  Similarity=0.022  Sum_probs=159.1

Q ss_pred             HHHhcCChhHHHHHHHHHHHCCCCCCHH----HHHHHHHHHhccCChHHHHHHHHHHHHhCC---Cc--chhHHHHHHHH
Q 006388          249 GYGQNGCSEEAVKIFCNMQRNGIEPDDF----TLGSVISSCANLASLEEGTQFHGRSLVTGL---IS--FITVSNALVTF  319 (647)
Q Consensus       249 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~----t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~---~~--~~~~~~~li~~  319 (647)
                      .+...|++++|...+++.....-..+..    .+..+...+...|+++.|...+....+..-   .+  ...+...+...
T Consensus        23 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~  102 (373)
T 1hz4_A           23 VAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEI  102 (373)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH
Confidence            3444555555555555554432111111    233333444455566666555555443210   00  12234556666


Q ss_pred             HHhcCCHHHHHHHHhhcC-------C---C-ChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCC--C--CHHHHHHHHH
Q 006388          320 YGKCGNIEDSHRLFNEMN-------V---R-DEVSWTALVSGYAKFGKANETIDLFEKMLSHGLK--P--DEVTLIGVLS  384 (647)
Q Consensus       320 ~~~~g~~~~A~~~~~~~~-------~---~-d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~--p--~~~t~~~ll~  384 (647)
                      +...|++++|...+++..       .   + ....+..+...+...|++++|...+++.......  |  ...++..+..
T Consensus       103 ~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~  182 (373)
T 1hz4_A          103 LFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQ  182 (373)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHHH
Confidence            777777777777776543       1   1 1234556677788888888888888887653211  1  1245666777


Q ss_pred             HHhcCCcHHHHHHHHHHHHHhcCCCcChHHHH-----HHHHHHHHcCCHHHHHHHHHhCC-CCCC-----hhhHHHHHHH
Q 006388          385 ACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYT-----CMIDILSRAGRLEEAKSFINKMP-FPPD-----AIGWATLLSS  453 (647)
Q Consensus       385 a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~-----~li~~~~~~g~~~~A~~~~~~~~-~~p~-----~~~~~~ll~~  453 (647)
                      .+...|++++|...++.......-......+.     ..+..+...|++++|...+++.. ..|.     ...+..+...
T Consensus       183 ~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~~  262 (373)
T 1hz4_A          183 CSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARA  262 (373)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHHHH
Confidence            78888999999988888765322111111111     23345778999999999998872 2221     2246677788


Q ss_pred             HHhcCChhHHHHHHHHHhccCCC-----C-chhHHHHHHhhhhCCChhHHHHHHHHHHh
Q 006388          454 CRIHGNVEIGKWAAESLLELDPY-----N-PASYVLLSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       454 ~~~~~~~~~a~~~~~~~~~~~p~-----~-~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      +...|++++|...++++.+..+.     + ...+..++.+|...|+.++|...+++..+
T Consensus       263 ~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~  321 (373)
T 1hz4_A          263 QILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  321 (373)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            88899999999999988765332     1 23677888999999999999999988764

>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=99.21  E-value=5.5e-10  Score=104.62  Aligned_cols=188  Identities=12%  Similarity=-0.033  Sum_probs=87.3

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhhcC---C-CChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCH-HHHHHHHH
Q 006388          310 ITVSNALVTFYGKCGNIEDSHRLFNEMN---V-RDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDE-VTLIGVLS  384 (647)
Q Consensus       310 ~~~~~~li~~~~~~g~~~~A~~~~~~~~---~-~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~  384 (647)
                      +..+..+...|...|++++|.+.|++..   . ++...|..+..++...|++++|+..|++..+.  .|+. ..+..+..
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            3444445555555555555555555443   1 34444444555555555555555555555542  3332 24444445


Q ss_pred             HHhcCCcHHHHHHHHHHHHHhcCCCcCh-----HHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC---hhhHHHHHHHHH
Q 006388          385 ACSRAGLVEKGRHYFEIMVKEYGIRPIH-----DHYTCMIDILSRAGRLEEAKSFINKM-PFPPD---AIGWATLLSSCR  455 (647)
Q Consensus       385 a~~~~g~~~~a~~~~~~~~~~~~~~p~~-----~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~---~~~~~~ll~~~~  455 (647)
                      ++...|++++|...|+...+...-.+..     ..|..+...+.+.|++++|.+.++++ ...|+   ...|..+...+.
T Consensus        85 ~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~  164 (228)
T 4i17_A           85 AYRDMKNNQEYIATLTEGIKAVPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVTSKKWKTDALYSLGVLFY  164 (228)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcCCCcccHHHHHHHHHHHH
Confidence            5555555555555555554421111111     23444444455555555555555444 33333   233444444432


Q ss_pred             hcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHh
Q 006388          456 IHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       456 ~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      .     .+...++++..+.+.++..|..+  .....|.+++|...+++..+
T Consensus       165 ~-----~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~~~~A~~~~~~a~~  208 (228)
T 4i17_A          165 N-----NGADVLRKATPLASSNKEKYASE--KAKADAAFKKAVDYLGEAVT  208 (228)
T ss_dssp             H-----HHHHHHHHHGGGTTTCHHHHHHH--HHHHHHHHHHHHHHHHHHHH
T ss_pred             H-----HHHHHHHHHHhcccCCHHHHHHH--HHHHHHHHHHHHHHHHHHhh
Confidence            2     22333344444444333333222  12233445778888777765

>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=99.19  E-value=8.1e-10  Score=99.23  Aligned_cols=169  Identities=14%  Similarity=0.020  Sum_probs=143.3

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 006388          310 ITVSNALVTFYGKCGNIEDSHRLFNEMNV---RDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSAC  386 (647)
Q Consensus       310 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~  386 (647)
                      ...+..+...+...|++++|.+.|+++..   .+...|..+...+...|++++|...++++.+.. +.+...+..+...+
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~   86 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVYDADAFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTY   86 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTCCTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHH
Confidence            34566778889999999999999999873   367788899999999999999999999998752 33566888888899


Q ss_pred             hcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHH
Q 006388          387 SRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGK  464 (647)
Q Consensus       387 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~  464 (647)
                      ...|++++|.++++.+.+.  .+.+...+..+...+...|++++|.+.++++ ...| +...|..+...+...|++++|.
T Consensus        87 ~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~  164 (186)
T 3as5_A           87 VQVQKYDLAVPLLIKVAEA--NPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPNEGKVHRAIAFSYEQMGRHEEAL  164 (186)
T ss_dssp             HHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHhc--CcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCHHHHH
Confidence            9999999999999999864  3456788899999999999999999999887 2233 5788999999999999999999


Q ss_pred             HHHHHHhccCCCCchhH
Q 006388          465 WAAESLLELDPYNPASY  481 (647)
Q Consensus       465 ~~~~~~~~~~p~~~~~~  481 (647)
                      ..++++++..|+++...
T Consensus       165 ~~~~~~~~~~~~~~~~~  181 (186)
T 3as5_A          165 PHFKKANELDEGASVEL  181 (186)
T ss_dssp             HHHHHHHHHHHCCCGGG
T ss_pred             HHHHHHHHcCCCchhhH
Confidence            99999999988766443

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.19  E-value=7.1e-10  Score=112.78  Aligned_cols=221  Identities=12%  Similarity=0.036  Sum_probs=139.1

Q ss_pred             HhccCChHHHHHHHHHHHHhC--CC---cchhHHHHHHHHHHhcCCHHHHHHHHhhcC-----CC-----ChhhHHHHHH
Q 006388          285 CANLASLEEGTQFHGRSLVTG--LI---SFITVSNALVTFYGKCGNIEDSHRLFNEMN-----VR-----DEVSWTALVS  349 (647)
Q Consensus       285 ~~~~~~~~~a~~~~~~~~~~~--~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~~~-----~~-----d~~~~~~li~  349 (647)
                      +...|++++|...+..+.+..  ..   ....++..+...|...|+++.|...+++..     .+     ...+++.+..
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            344556666666655554431  01   123455566666777777666666665543     11     1345667777


Q ss_pred             HHHHcCChHHHHHHHHHHHHC----CCCCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhc---CCCcChHHHHHHHHH
Q 006388          350 GYAKFGKANETIDLFEKMLSH----GLKPD-EVTLIGVLSACSRAGLVEKGRHYFEIMVKEY---GIRPIHDHYTCMIDI  421 (647)
Q Consensus       350 ~~~~~g~~~~A~~~~~~m~~~----g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~---~~~p~~~~~~~li~~  421 (647)
                      .|...|++++|++.|++..+.    +-.+. ..++..+...+...|++++|...|+...+-.   +.+....++..+...
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            788888888888887776542    11111 2356667777888888888888888776511   222235677788888


Q ss_pred             HHHcCCHHHHHHHHHhC----CC--CCC-hhhHHHHHHHHHhcCC---hhHHHHHHHHHhccCCCCchhHHHHHHhhhhC
Q 006388          422 LSRAGRLEEAKSFINKM----PF--PPD-AIGWATLLSSCRIHGN---VEIGKWAAESLLELDPYNPASYVLLSSIYASK  491 (647)
Q Consensus       422 ~~~~g~~~~A~~~~~~~----~~--~p~-~~~~~~ll~~~~~~~~---~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  491 (647)
                      |.+.|++++|.+.+++.    +.  .|. ...+..+...+...++   +.+|...+++. ...|.....+..++..|...
T Consensus       271 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~-~~~~~~~~~~~~la~~y~~~  349 (378)
T 3q15_A          271 LCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKK-NLHAYIEACARSAAAVFESS  349 (378)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHT
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhC-CChhHHHHHHHHHHHHHHHC
Confidence            88888888888888776    11  222 3344555555566667   66666666652 22233445677889999999


Q ss_pred             CChhHHHHHHHHHHh
Q 006388          492 GKWDHVSQLRRTMRE  506 (647)
Q Consensus       492 g~~~~a~~~~~~m~~  506 (647)
                      |++++|.+.+++..+
T Consensus       350 g~~~~A~~~~~~al~  364 (378)
T 3q15_A          350 CHFEQAAAFYRKVLK  364 (378)
T ss_dssp             TCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHH
Confidence            999999999887754

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.15  E-value=3.5e-10  Score=118.57  Aligned_cols=211  Identities=11%  Similarity=-0.063  Sum_probs=123.3

Q ss_pred             hHHHHHHHHHHHCCCCCCCcchHHHHHHHHhCCCCh-HHHHHHHHHHHHhCCCCchhhHHHHHHHHHhcCChHHHHHHhc
Q 006388           23 NDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCV-DLGRQIHGHILKFGFGSYVFVGSPLVDMYAKLGLIYDAKRGFD  101 (647)
Q Consensus        23 ~~A~~~~~~m~~~g~~~~~~~~~~~ll~~~~~~~~~-~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~  101 (647)
                      ++++..++......  +.+...+..+...+...|++ ++|...++++++.. +.+...+..+...|.+.|++++|...|+
T Consensus        85 ~~al~~l~~~~~~~--~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~  161 (474)
T 4abn_A           85 EKTLQQMEEVLGSA--QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCFS  161 (474)
T ss_dssp             HHHHHHHHHHHTTC--CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHhccC--chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            33444444443332  33444555555555555555 55555555555544 2334455555555555555555555554


Q ss_pred             cCCCCCchHHHHHHHHHHhcCChHHHHHHhhcCCCCCeehHHHHHHHHHhC---------CChhHHHHHHHHHHHCCCCC
Q 006388          102 ELPEKNIVMYNTMITGLLRRGLVEESRRLFRGMKDKDSISWTTMITGLMQN---------GLEREAIDLFREMRLEGLAM  172 (647)
Q Consensus       102 ~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~---------g~~~~A~~~~~~m~~~g~~p  172 (647)
                      +..+.                             .|+...|..+...|...         |++++|++.|++..+... -
T Consensus       162 ~al~~-----------------------------~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p-~  211 (474)
T 4abn_A          162 GALTH-----------------------------CKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDV-L  211 (474)
T ss_dssp             HHHTT-----------------------------CCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCT-T
T ss_pred             HHHhh-----------------------------CCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhCC-C
Confidence            44321                             13345555566666666         677777777777665421 1


Q ss_pred             ChhhHHHHHHHHhcC--------CChHHHHHHHHHHHHcCCC--CchhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCC
Q 006388          173 DQFTFGSVLTACGGL--------LALEEGKQIHAFIIRNDHK--DNVFVGSALVDMYCKCKSIKYAESVFRTMA---WKN  239 (647)
Q Consensus       173 d~~t~~~ll~~~~~~--------~~~~~a~~~~~~~~~~g~~--~~~~~~~~li~~y~~~g~~~~A~~~~~~~~---~~~  239 (647)
                      +...+..+..++...        |++++|.+.++.+++....  .+...+..+..+|.+.|++++|...|++..   ..+
T Consensus       212 ~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~  291 (474)
T 4abn_A          212 DGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDPAW  291 (474)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             CHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCC
Confidence            344566666666665        6677777777777765311  466677777777777777777777777654   235


Q ss_pred             hhHHHHHHHHHHhcCChhHHHHHHHHH
Q 006388          240 VVSWTAMLVGYGQNGCSEEAVKIFCNM  266 (647)
Q Consensus       240 ~~~~~~li~~~~~~g~~~~A~~~~~~m  266 (647)
                      ..+|..+...+...|++++|++.+.++
T Consensus       292 ~~a~~~l~~~~~~lg~~~eAi~~~~~~  318 (474)
T 4abn_A          292 PEPQQREQQLLEFLSRLTSLLESKGKT  318 (474)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTTTC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            566777777777777777777665443

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.11  E-value=1.4e-08  Score=103.14  Aligned_cols=227  Identities=10%  Similarity=0.029  Sum_probs=155.8

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHhccCChHHHHHHHHHHHHhC--C---C-cchhHHH
Q 006388          246 MLVGYGQNGCSEEAVKIFCNMQRNGI-EPD----DFTLGSVISSCANLASLEEGTQFHGRSLVTG--L---I-SFITVSN  314 (647)
Q Consensus       246 li~~~~~~g~~~~A~~~~~~m~~~g~-~p~----~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~--~---~-~~~~~~~  314 (647)
                      ....+...|++++|+..|++....-. .++    ..++..+..++...|+++.|...+....+..  .   . ....+++
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            34445566777777777766654310 122    2345555666666777777777666665431  0   1 1244566


Q ss_pred             HHHHHHHhcCCHHHHHHHHhhcCC-----CC----hhhHHHHHHHHHHcCChHHHHHHHHHHHH-----CCCCCCHHHHH
Q 006388          315 ALVTFYGKCGNIEDSHRLFNEMNV-----RD----EVSWTALVSGYAKFGKANETIDLFEKMLS-----HGLKPDEVTLI  380 (647)
Q Consensus       315 ~li~~~~~~g~~~~A~~~~~~~~~-----~d----~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~g~~p~~~t~~  380 (647)
                      .+...|...|++++|.+.|++...     ++    ..+++.+...|...|++++|+..|++..+     .. +....++.
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            777788888888888877776541     12    34677788888889999999999888876     32 22245777


Q ss_pred             HHHHHHhcCCcHHHHHHHHHHHHHhcCC---CcChHHHHHHHHHHHHcCC---HHHHHHHHHhCCCCCC-hhhHHHHHHH
Q 006388          381 GVLSACSRAGLVEKGRHYFEIMVKEYGI---RPIHDHYTCMIDILSRAGR---LEEAKSFINKMPFPPD-AIGWATLLSS  453 (647)
Q Consensus       381 ~ll~a~~~~g~~~~a~~~~~~~~~~~~~---~p~~~~~~~li~~~~~~g~---~~~A~~~~~~~~~~p~-~~~~~~ll~~  453 (647)
                      .+...+.+.|++++|..+++...+...-   +.....+..+...|...|+   +++|..++++.+..|+ ...+..+...
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            8888899999999999999988764322   2223456677777778888   8999999998754444 4566778888


Q ss_pred             HHhcCChhHHHHHHHHHhcc
Q 006388          454 CRIHGNVEIGKWAAESLLEL  473 (647)
Q Consensus       454 ~~~~~~~~~a~~~~~~~~~~  473 (647)
                      |...|++++|...++++++.
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            99999999999999887654

>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=99.11  E-value=8.6e-10  Score=106.65  Aligned_cols=197  Identities=16%  Similarity=0.208  Sum_probs=120.6

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhhcCC-------C----ChhhHHHHHHHHHHcCChHHHHHHHHHHHHC------CC
Q 006388          310 ITVSNALVTFYGKCGNIEDSHRLFNEMNV-------R----DEVSWTALVSGYAKFGKANETIDLFEKMLSH------GL  372 (647)
Q Consensus       310 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~-------~----d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------g~  372 (647)
                      ..++..+...|...|++++|...|++...       +    ...+|..+...|...|++++|+..|++....      .-
T Consensus        43 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  122 (283)
T 3edt_B           43 ATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKF  122 (283)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCC
Confidence            44455555555566666665555554430       1    2345666666777777777777777766543      11


Q ss_pred             CCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhc-----C-CCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-------
Q 006388          373 KPD-EVTLIGVLSACSRAGLVEKGRHYFEIMVKEY-----G-IRPIHDHYTCMIDILSRAGRLEEAKSFINKM-------  438 (647)
Q Consensus       373 ~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~-----~-~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-------  438 (647)
                      .|+ ..++..+...+...|++++|..+++.+.+..     + .+.....+..+...|.+.|++++|.++++++       
T Consensus       123 ~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~  202 (283)
T 3edt_B          123 HPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEILTRAHEK  202 (283)
T ss_dssp             CHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHh
Confidence            232 3467777778888888888888888776531     1 1223467778888888889988888888765       


Q ss_pred             ---CCCCC-hhhHHHHHHHHHhcCCh------hHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHh
Q 006388          439 ---PFPPD-AIGWATLLSSCRIHGNV------EIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       439 ---~~~p~-~~~~~~ll~~~~~~~~~------~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                         ...+. ...|..+.......+..      ..+...++......|..+.++..++.+|...|++++|.+++++..+
T Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          203 EFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTVNTTLRSLGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             HSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             cCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence               12233 33444444444433332      2233333333333455667889999999999999999999998765

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.08  E-value=5e-08  Score=98.77  Aligned_cols=158  Identities=9%  Similarity=-0.131  Sum_probs=74.8

Q ss_pred             HHHHHHhCCChhHHHHHHHHHHHCCCCCChh----hHHHHHHHHhcCCChHHHHHHHHHHHHcCCC-Cc----hhHHHHH
Q 006388          145 MITGLMQNGLEREAIDLFREMRLEGLAMDQF----TFGSVLTACGGLLALEEGKQIHAFIIRNDHK-DN----VFVGSAL  215 (647)
Q Consensus       145 li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~----t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~-~~----~~~~~~l  215 (647)
                      +...+...|++++|...+++........+..    .+..+...+...|+++.|.+.+...++.... .+    ..+...+
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            3344556777777777777766543211211    2333344455566666666666555442110 11    1123445


Q ss_pred             HHHHHhcCCHHHHHHHHhcCCC-------C----ChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCC--C--CHHHHHH
Q 006388          216 VDMYCKCKSIKYAESVFRTMAW-------K----NVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIE--P--DDFTLGS  280 (647)
Q Consensus       216 i~~y~~~g~~~~A~~~~~~~~~-------~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~--p--~~~t~~~  280 (647)
                      ...|...|++++|...+++...       +    ...++..+...+...|++++|...+++.......  +  ...++..
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            5555556666665555544321       0    1123444555555556666666665555432111  1  1123333


Q ss_pred             HHHHHhccCChHHHHHHHHHHH
Q 006388          281 VISSCANLASLEEGTQFHGRSL  302 (647)
Q Consensus       281 ll~a~~~~~~~~~a~~~~~~~~  302 (647)
                      +...+...|++++|...++...
T Consensus       180 la~~~~~~g~~~~A~~~l~~a~  201 (373)
T 1hz4_A          180 LIQCSLARGDLDNARSQLNRLE  201 (373)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHH
Confidence            4444444555555555554443

>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=99.06  E-value=1.4e-09  Score=118.80  Aligned_cols=165  Identities=15%  Similarity=0.156  Sum_probs=138.0

Q ss_pred             CcchhHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC-HHHHHHH
Q 006388          307 ISFITVSNALVTFYGKCGNIEDSHRLFNEMN---VRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPD-EVTLIGV  382 (647)
Q Consensus       307 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~l  382 (647)
                      +.+...++.|...|.+.|++++|.+.|++..   ..+..+|+.+..+|.+.|++++|+..|++.++.  .|+ ...+..+
T Consensus         6 P~~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l--~P~~~~a~~nL   83 (723)
T 4gyw_A            6 PTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI--SPTFADAYSNM   83 (723)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHH
Confidence            3456778888888889999999998888765   346778999999999999999999999998884  565 4588888


Q ss_pred             HHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-hhhHHHHHHHHHhcCCh
Q 006388          383 LSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPPD-AIGWATLLSSCRIHGNV  460 (647)
Q Consensus       383 l~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~~~~  460 (647)
                      ..++...|++++|++.|++.++.  -+-+...|..+..+|.+.|++++|++.|++. ...|+ ...|..|...+...|++
T Consensus        84 g~~l~~~g~~~~A~~~~~kAl~l--~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~~L~~~l~~~g~~  161 (723)
T 4gyw_A           84 GNTLKEMQDVQGALQCYTRAIQI--NPAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHCLQIVCDW  161 (723)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHhhhhhHHHhcccH
Confidence            89999999999999999988764  1235688999999999999999999999887 55565 78899999999999999


Q ss_pred             hHHHHHHHHHhccCC
Q 006388          461 EIGKWAAESLLELDP  475 (647)
Q Consensus       461 ~~a~~~~~~~~~~~p  475 (647)
                      ++|.+.+++++++.|
T Consensus       162 ~~A~~~~~kal~l~~  176 (723)
T 4gyw_A          162 TDYDERMKKLVSIVA  176 (723)
T ss_dssp             TTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCh
Confidence            999999999887654

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.00  E-value=1.9e-08  Score=96.23  Aligned_cols=204  Identities=11%  Similarity=0.053  Sum_probs=117.0

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhhcCC--C-C---hhhHHHHHHHHHHcCChHHHHHHHHHHHHCCC-CCC-HHHHHH
Q 006388          310 ITVSNALVTFYGKCGNIEDSHRLFNEMNV--R-D---EVSWTALVSGYAKFGKANETIDLFEKMLSHGL-KPD-EVTLIG  381 (647)
Q Consensus       310 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-d---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~-~~t~~~  381 (647)
                      ...+-.+...+.+.|++++|...|+++..  | +   ...|..+..+|.+.|++++|+..|++..+... .|. ...+..
T Consensus        15 ~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~   94 (261)
T 3qky_A           15 PQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEYE   94 (261)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHHH
Confidence            34444455555566666666666665542  1 2   33455555555666666666666666555311 111 123344


Q ss_pred             HHHHHhc--------CCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCChhhHHHHHHH
Q 006388          382 VLSACSR--------AGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKMPFPPDAIGWATLLSS  453 (647)
Q Consensus       382 ll~a~~~--------~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~  453 (647)
                      +..++..        .|++++|...|+.+++.+.-.+  .....+.......+.+               ...+..+...
T Consensus        95 lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p~~~--~~~~a~~~~~~~~~~~---------------~~~~~~la~~  157 (261)
T 3qky_A           95 RAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYPNHE--LVDDATQKIRELRAKL---------------ARKQYEAARL  157 (261)
T ss_dssp             HHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHCTTCT--THHHHHHHHHHHHHHH---------------HHHHHHHHHH
T ss_pred             HHHHHHHhcccccccchhHHHHHHHHHHHHHHCcCch--hHHHHHHHHHHHHHHH---------------HHHHHHHHHH
Confidence            4444444        5555555555555554321111  1111111100000000               1113567788


Q ss_pred             HHhcCChhHHHHHHHHHhccCCCC---chhHHHHHHhhhhC----------CChhHHHHHHHHHHhCCCccCCCcceEeE
Q 006388          454 CRIHGNVEIGKWAAESLLELDPYN---PASYVLLSSIYASK----------GKWDHVSQLRRTMREKGVRKDPGCSWIKY  520 (647)
Q Consensus       454 ~~~~~~~~~a~~~~~~~~~~~p~~---~~~~~~l~~~~~~~----------g~~~~a~~~~~~m~~~g~~~~~~~s~~~~  520 (647)
                      +...|++++|+..++++++..|++   +..+..++.+|...          |++++|...++++.+..    |       
T Consensus       158 ~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~----p-------  226 (261)
T 3qky_A          158 YERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIF----P-------  226 (261)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHC----T-------
T ss_pred             HHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHC----C-------
Confidence            999999999999999999999984   45788999999876          99999999999987742    2       


Q ss_pred             cCeEEEEEecCCCCcchHHHHHHHHHHHHhhHh
Q 006388          521 KSRVHIFSADDWSSPYSDQIYAELEKLNRKMIK  553 (647)
Q Consensus       521 ~~~~~~f~~~~~~~~~~~~~~~~l~~l~~~m~~  553 (647)
                                  .+|...+....+.++...+.+
T Consensus       227 ------------~~~~~~~a~~~l~~~~~~~~~  247 (261)
T 3qky_A          227 ------------DSPLLRTAEELYTRARQRLTE  247 (261)
T ss_dssp             ------------TCTHHHHHHHHHHHHHHHHHH
T ss_pred             ------------CChHHHHHHHHHHHHHHHHHH
Confidence                        244455555666666666544

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=98.99  E-value=7.6e-09  Score=100.90  Aligned_cols=217  Identities=10%  Similarity=-0.010  Sum_probs=113.7

Q ss_pred             CHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHC----CCCCC-HHHHHHHHHHHhccCChHHHHHHH
Q 006388          224 SIKYAESVFRTMAWKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRN----GIEPD-DFTLGSVISSCANLASLEEGTQFH  298 (647)
Q Consensus       224 ~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p~-~~t~~~ll~a~~~~~~~~~a~~~~  298 (647)
                      ++++|...|++.           ...|...|++++|+..|.+....    |-.++ ..+|..+..++...|++++|...+
T Consensus        32 ~~~~A~~~~~~a-----------~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~  100 (292)
T 1qqe_A           32 KFEEAADLCVQA-----------ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSL  100 (292)
T ss_dssp             HHHHHHHHHHHH-----------HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHH-----------HHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            477777766553           66777788888888887766442    21111 234444444555555555555544


Q ss_pred             HHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHHc-CChHHHHHHHHHHHHCCCC-CC-
Q 006388          299 GRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKF-GKANETIDLFEKMLSHGLK-PD-  375 (647)
Q Consensus       299 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~d~~~~~~li~~~~~~-g~~~~A~~~~~~m~~~g~~-p~-  375 (647)
                      ...++.               +...|+...+           ..+|+.+...|... |++++|+..|++..+.... .+ 
T Consensus       101 ~~Al~l---------------~~~~g~~~~~-----------a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~  154 (292)
T 1qqe_A          101 ENAIQI---------------FTHRGQFRRG-----------ANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSV  154 (292)
T ss_dssp             HHHHHH---------------HHHTTCHHHH-----------HHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHH---------------HHHcCCHHHH-----------HHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCCh
Confidence            444331               1111221111           22455566666664 7777777766666542100 01 


Q ss_pred             ---HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcCh-----HHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCChh-
Q 006388          376 ---EVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIH-----DHYTCMIDILSRAGRLEEAKSFINKM-PFPPDAI-  445 (647)
Q Consensus       376 ---~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~-----~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~~-  445 (647)
                         ..++..+...+...|++++|...|+...+...-.+..     ..|..+..++...|++++|...+++. .+.|+.. 
T Consensus       155 ~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~  234 (292)
T 1qqe_A          155 ALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFAD  234 (292)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC------
T ss_pred             HHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCC
Confidence               2345566666667777777777777666431111111     14555666666777777777777665 3334311 


Q ss_pred             -----hHHHHHHHHH--hcCChhHHHHHHHHHhccCCCC
Q 006388          446 -----GWATLLSSCR--IHGNVEIGKWAAESLLELDPYN  477 (647)
Q Consensus       446 -----~~~~ll~~~~--~~~~~~~a~~~~~~~~~~~p~~  477 (647)
                           .+..++.++.  ..+++++|...++++.+++|.+
T Consensus       235 ~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~l~~~~  273 (292)
T 1qqe_A          235 SRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMRLDKWK  273 (292)
T ss_dssp             ---HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSCCCHHH
T ss_pred             cHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCCccHHHH
Confidence                 2333444443  2345666666666666666643

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.98  E-value=7.7e-08  Score=92.13  Aligned_cols=163  Identities=10%  Similarity=0.051  Sum_probs=93.4

Q ss_pred             ChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCc-----ChH
Q 006388          340 DEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPD-EVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRP-----IHD  413 (647)
Q Consensus       340 d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-----~~~  413 (647)
                      +..++..+..++...|++++|++++.+.+..|..++ ...+...+..+.+.|+.+.|.+.++.|.+.   .|     +..
T Consensus        99 ~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~~---~~d~~~~~d~  175 (310)
T 3mv2_B           99 SPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTNA---IEDTVSGDNE  175 (310)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---SCHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc---CccccccchH
Confidence            334444555566666666666666666555432222 235555556666666666666666666532   34     233


Q ss_pred             HHHHHHHH--HHHcC--CHHHHHHHHHhC-CCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhcc----------CCCCc
Q 006388          414 HYTCMIDI--LSRAG--RLEEAKSFINKM-PFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLEL----------DPYNP  478 (647)
Q Consensus       414 ~~~~li~~--~~~~g--~~~~A~~~~~~~-~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----------~p~~~  478 (647)
                      +...|..+  ....|  ++++|..+|+++ ...|+..+-..|++++...|++++|+..++.+.+.          +|+++
T Consensus       176 ~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~~p~~~~k~~~~p~~~  255 (310)
T 3mv2_B          176 MILNLAESYIKFATNKETATSNFYYYEELSQTFPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSDYYSVEQKENAVLYKP  255 (310)
T ss_dssp             HHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTTSCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSHHHHTTTCHHHHSSHH
T ss_pred             HHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccccccCCCCCH
Confidence            34444433  22223  667777777666 22344223333444666677777777777766654          36677


Q ss_pred             hhHHHHHHhhhhCCChhHHHHHHHHHHhC
Q 006388          479 ASYVLLSSIYASKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       479 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  507 (647)
                      .++..++..+...|+  +|.++++++.+.
T Consensus       256 ~~LaN~i~l~~~lgk--~a~~l~~qL~~~  282 (310)
T 3mv2_B          256 TFLANQITLALMQGL--DTEDLTNQLVKL  282 (310)
T ss_dssp             HHHHHHHHHHHHTTC--TTHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhCh--HHHHHHHHHHHh
Confidence            777666666666676  677777777663

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=98.97  E-value=8.6e-09  Score=100.54  Aligned_cols=200  Identities=11%  Similarity=0.036  Sum_probs=143.1

Q ss_pred             ChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCC-----CC----hhhHHHHHHHHHHcCChHHH
Q 006388          290 SLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNV-----RD----EVSWTALVSGYAKFGKANET  360 (647)
Q Consensus       290 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~d----~~~~~~li~~~~~~g~~~~A  360 (647)
                      ++++|...+...               ...|...|++++|.+.|++...     .+    ..+|+.+...|...|++++|
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            367777766554               4457778888888888876541     11    45788889999999999999


Q ss_pred             HHHHHHHHHC----CCCCC-HHHHHHHHHHHhcC-CcHHHHHHHHHHHHHhcCCCcC----hHHHHHHHHHHHHcCCHHH
Q 006388          361 IDLFEKMLSH----GLKPD-EVTLIGVLSACSRA-GLVEKGRHYFEIMVKEYGIRPI----HDHYTCMIDILSRAGRLEE  430 (647)
Q Consensus       361 ~~~~~~m~~~----g~~p~-~~t~~~ll~a~~~~-g~~~~a~~~~~~~~~~~~~~p~----~~~~~~li~~~~~~g~~~~  430 (647)
                      +..|++..+.    |-.+. ..++..+...|... |++++|...|+...+-..-..+    ..++..+...|.+.|++++
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            9999887653    21111 34778888899996 9999999999988764211111    3578889999999999999


Q ss_pred             HHHHHHhC-CCCCC---h-----hhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchh-----HHHHHHhhh--hCCCh
Q 006388          431 AKSFINKM-PFPPD---A-----IGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPAS-----YVLLSSIYA--SKGKW  494 (647)
Q Consensus       431 A~~~~~~~-~~~p~---~-----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~-----~~~l~~~~~--~~g~~  494 (647)
                      |.+.+++. ...|+   .     ..|..+..++...|++++|+..++++++++|.....     +..++..|.  ..+++
T Consensus       177 A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~l~~l~~~~~~~~~~~~  256 (292)
T 1qqe_A          177 ASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQL  256 (292)
T ss_dssp             HHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTH
T ss_pred             HHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHcCCHHHH
Confidence            99999987 22332   1     156778888999999999999999999999975443     445666664  45778


Q ss_pred             hHHHHHHHHH
Q 006388          495 DHVSQLRRTM  504 (647)
Q Consensus       495 ~~a~~~~~~m  504 (647)
                      ++|.+.++++
T Consensus       257 ~~A~~~~~~~  266 (292)
T 1qqe_A          257 SEHCKEFDNF  266 (292)
T ss_dssp             HHHHHHHTTS
T ss_pred             HHHHHHhccC
Confidence            8888877653

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.96  E-value=5.2e-08  Score=90.83  Aligned_cols=180  Identities=10%  Similarity=0.003  Sum_probs=108.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhhcCC--CC----hhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHH----HHHH
Q 006388          312 VSNALVTFYGKCGNIEDSHRLFNEMNV--RD----EVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEV----TLIG  381 (647)
Q Consensus       312 ~~~~li~~~~~~g~~~~A~~~~~~~~~--~d----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~----t~~~  381 (647)
                      .+..+...+.+.|++++|...|+++..  |+    ...+..+..+|.+.|++++|+..|++..+.  .|+..    .+..
T Consensus         6 ~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~--~P~~~~~~~a~~~   83 (225)
T 2yhc_A            6 EIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRL--NPTHPNIDYVMYM   83 (225)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCTTHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--CcCCCcHHHHHHH
Confidence            344455666777777777777776652  21    235666667777777777777777777663  23321    2222


Q ss_pred             HHHHHhc------------------CCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCC
Q 006388          382 VLSACSR------------------AGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKMPFPPD  443 (647)
Q Consensus       382 ll~a~~~------------------~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~  443 (647)
                      +..++..                  .|++++|...|+.+++.+.-.+  ..+.++..+    +.+....           
T Consensus        84 ~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~P~~~--~a~~a~~~l----~~~~~~~-----------  146 (225)
T 2yhc_A           84 RGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGYPNSQ--YTTDATKRL----VFLKDRL-----------  146 (225)
T ss_dssp             HHHHHHHHHC--------------CCHHHHHHHHHHHHHHTTCTTCT--THHHHHHHH----HHHHHHH-----------
T ss_pred             HHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHCcCCh--hHHHHHHHH----HHHHHHH-----------
Confidence            3333322                  3445555555555543221111  111111000    0000000           


Q ss_pred             hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCc---hhHHHHHHhhhhCCChhHHHHHHHHHHhCCCc
Q 006388          444 AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNP---ASYVLLSSIYASKGKWDHVSQLRRTMREKGVR  510 (647)
Q Consensus       444 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~  510 (647)
                      ......+...+...|++++|+..++++++..|+++   .++..++.+|.+.|++++|.+.++.+...+..
T Consensus       147 ~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~~  216 (225)
T 2yhc_A          147 AKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSSN  216 (225)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCSC
T ss_pred             HHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCC
Confidence            00113456678899999999999999999999876   56899999999999999999999998876543

>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=98.94  E-value=1.7e-08  Score=97.43  Aligned_cols=162  Identities=15%  Similarity=0.140  Sum_probs=85.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhhcCC-------C----ChhhHHHHHHHHHHcCChHHHHHHHHHHHHC------CCCC
Q 006388          312 VSNALVTFYGKCGNIEDSHRLFNEMNV-------R----DEVSWTALVSGYAKFGKANETIDLFEKMLSH------GLKP  374 (647)
Q Consensus       312 ~~~~li~~~~~~g~~~~A~~~~~~~~~-------~----d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------g~~p  374 (647)
                      ++..+...|...|++++|.+.|++...       +    ...+|..+...|...|++++|+..|++..+.      +-.|
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            344444444444444444444443320       1    1334555666666666666666666666543      1123


Q ss_pred             C-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhc------CCCcC-hHHHHHHHHHHHHc------CCHHHHHHHHHhCC-
Q 006388          375 D-EVTLIGVLSACSRAGLVEKGRHYFEIMVKEY------GIRPI-HDHYTCMIDILSRA------GRLEEAKSFINKMP-  439 (647)
Q Consensus       375 ~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~------~~~p~-~~~~~~li~~~~~~------g~~~~A~~~~~~~~-  439 (647)
                      + ..++..+...+...|++++|..+++...+..      ...+. ...+..+...+...      ..+.++...++... 
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 2356666677777777777777777665421      11121 22333333333322      23445555555553 


Q ss_pred             CCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHhcc
Q 006388          440 FPPD-AIGWATLLSSCRIHGNVEIGKWAAESLLEL  473 (647)
Q Consensus       440 ~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  473 (647)
                      ..|+ ..++..+...+...|++++|...++++++.
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            2233 567888888999999999999999988765

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.93  E-value=3.9e-08  Score=94.06  Aligned_cols=202  Identities=10%  Similarity=0.035  Sum_probs=143.6

Q ss_pred             CCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcc---hhHHHHHHHHHHhcCCHHHHHHHHhhcCC--C----Chhh
Q 006388          273 PDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISF---ITVSNALVTFYGKCGNIEDSHRLFNEMNV--R----DEVS  343 (647)
Q Consensus       273 p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~----d~~~  343 (647)
                      .+...+......+...|++++|...+..+++.. +.+   ...+..+..+|.+.|++++|...|++...  |    ...+
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            345667777788889999999999999998874 223   66778899999999999999999998762  2    2346


Q ss_pred             HHHHHHHHHH--------cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHH
Q 006388          344 WTALVSGYAK--------FGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHY  415 (647)
Q Consensus       344 ~~~li~~~~~--------~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~  415 (647)
                      +..+..++..        .|++++|+..|++..+.  .|+....             ..+...+......     ....+
T Consensus        92 ~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~-------------~~a~~~~~~~~~~-----~~~~~  151 (261)
T 3qky_A           92 EYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDR--YPNHELV-------------DDATQKIRELRAK-----LARKQ  151 (261)
T ss_dssp             HHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHH--CTTCTTH-------------HHHHHHHHHHHHH-----HHHHH
T ss_pred             HHHHHHHHHHhcccccccchhHHHHHHHHHHHHHH--CcCchhH-------------HHHHHHHHHHHHH-----HHHHH
Confidence            7778888888        99999999999999885  4543211             1111111111111     11235


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHhC-CCCCC----hhhHHHHHHHHHhc----------CChhHHHHHHHHHhccCCCCchh
Q 006388          416 TCMIDILSRAGRLEEAKSFINKM-PFPPD----AIGWATLLSSCRIH----------GNVEIGKWAAESLLELDPYNPAS  480 (647)
Q Consensus       416 ~~li~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~ll~~~~~~----------~~~~~a~~~~~~~~~~~p~~~~~  480 (647)
                      ..+...|.+.|++++|...|+++ ...|+    ...+..+..++...          |++++|+..++++++..|+++..
T Consensus       152 ~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~  231 (261)
T 3qky_A          152 YEAARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFPDSPLL  231 (261)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCTTCTHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCCCChHH
Confidence            56778888999999999998877 22233    45677777777765          88999999999999999987543


Q ss_pred             ---HHHHHHhhhhCCChh
Q 006388          481 ---YVLLSSIYASKGKWD  495 (647)
Q Consensus       481 ---~~~l~~~~~~~g~~~  495 (647)
                         ...+..++...|+++
T Consensus       232 ~~a~~~l~~~~~~~~~~~  249 (261)
T 3qky_A          232 RTAEELYTRARQRLTELE  249 (261)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhh
Confidence               344444444444443

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=98.93  E-value=1.8e-08  Score=84.85  Aligned_cols=122  Identities=18%  Similarity=0.277  Sum_probs=73.2

Q ss_pred             HHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CC-CCChhhHHHHHHHHHhcCCh
Q 006388          383 LSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PF-PPDAIGWATLLSSCRIHGNV  460 (647)
Q Consensus       383 l~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~ll~~~~~~~~~  460 (647)
                      ...+...|++++|..+++.+.+.  .+.+...+..+...+...|++++|.++++++ .. +.+...|..+...+...|++
T Consensus         8 ~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   85 (136)
T 2fo7_A            8 GNAYYKQGDYDEAIEYYQKALEL--DPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDY   85 (136)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCH
T ss_pred             HHHHHHcCcHHHHHHHHHHHHHc--CCcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCCCchHHHHHHHHHHHHhcCH
Confidence            33344444444444444444332  1123344444555555555555555555554 11 22355666667777777777


Q ss_pred             hHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHh
Q 006388          461 EIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       461 ~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      ++|...++++.+..|.++..+..++.+|...|++++|.+.++++.+
T Consensus        86 ~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  131 (136)
T 2fo7_A           86 DEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALE  131 (136)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHHHHc
Confidence            7777777777777777777777777777778888888777777665

>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=98.93  E-value=1.3e-09  Score=94.53  Aligned_cols=139  Identities=9%  Similarity=-0.014  Sum_probs=95.2

Q ss_pred             HHHcCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHH
Q 006388          351 YAKFGKANETIDLFEKMLSHGLKPDEV-TLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLE  429 (647)
Q Consensus       351 ~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~  429 (647)
                      +...|++++|+..+++....  .|+.. .+..+...|.+.|++++|.+.|+..++.  -+-+...|..+..+|.+.|+++
T Consensus         7 ~~~~~~~e~ai~~~~~a~~~--~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~~~~~   82 (150)
T 4ga2_A            7 RRSKADVERYIASVQGSTPS--PRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINV--QERDPKAHRFLGLLYELEENTD   82 (150)
T ss_dssp             CCCHHHHHHHHHHHHHHSCS--HHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHcChHHHHHHHHHHhccc--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCchH
Confidence            33445566666666655432  23322 4445556666677777777777766643  1234567777777778888888


Q ss_pred             HHHHHHHhC-CCCCC-hhhHHHHHHHHHhcCChhHHHH-HHHHHhccCCCCchhHHHHHHhhhhCCC
Q 006388          430 EAKSFINKM-PFPPD-AIGWATLLSSCRIHGNVEIGKW-AAESLLELDPYNPASYVLLSSIYASKGK  493 (647)
Q Consensus       430 ~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~~~~~~a~~-~~~~~~~~~p~~~~~~~~l~~~~~~~g~  493 (647)
                      +|...|++. ...|+ ..+|..+...+...|+.++|.+ .++++++++|+++.+|.....++...|+
T Consensus        83 ~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A           83 KAVECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPGSPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTTCHHHHHHHHHHHHTCCC
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCc
Confidence            888877776 44554 7788888888888888876555 4688999999999998888888887775

>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=6e-09  Score=114.30  Aligned_cols=168  Identities=7%  Similarity=-0.061  Sum_probs=138.0

Q ss_pred             HhcCCHHHHHHHHhhcC-----------CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhc
Q 006388          321 GKCGNIEDSHRLFNEMN-----------VRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKP-DEVTLIGVLSACSR  388 (647)
Q Consensus       321 ~~~g~~~~A~~~~~~~~-----------~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~  388 (647)
                      ...|++++|.+.|++..           ..+...|..+...|.+.|++++|+..|++..+.  .| +...+..+..++..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAER--VGWRWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--HCCCHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhcc--CcchHHHHHHHHHHHHH
Confidence            67788999998888765           336678888889999999999999999998874  45 44577888888999


Q ss_pred             CCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHH
Q 006388          389 AGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWA  466 (647)
Q Consensus       389 ~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~  466 (647)
                      .|++++|...|+...+.  .+.+...|..+..+|.+.|++++ .+.|+++ ...| +...|..+..++...|++++|+..
T Consensus       480 ~g~~~~A~~~~~~al~l--~P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~  556 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDT--FPGELAPKLALAATAELAGNTDE-HKFYQTVWSTNDGVISAAFGLARARSAEGDRVGAVRT  556 (681)
T ss_dssp             HTCHHHHHHHHHHHHHH--STTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCchHHHHHHHHHHHHHcCCHHHHHHH
Confidence            99999999999998864  13356788889999999999999 8888887 4445 477899999999999999999999


Q ss_pred             HHHHhccCCCCchhHHHHHHhhhhCCC
Q 006388          467 AESLLELDPYNPASYVLLSSIYASKGK  493 (647)
Q Consensus       467 ~~~~~~~~p~~~~~~~~l~~~~~~~g~  493 (647)
                      ++++++++|++..++..++.+|...|+
T Consensus       557 ~~~al~l~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          557 LDEVPPTSRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHTSCTTSTTHHHHHHHHHHHTC----
T ss_pred             HHhhcccCcccHHHHHHHHHHHHccCC
Confidence            999999999999999999999987666

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.89  E-value=3e-07  Score=88.04  Aligned_cols=242  Identities=8%  Similarity=-0.047  Sum_probs=158.9

Q ss_pred             HHhcCCHHHHHHHHhcCCCCCh-hHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHH
Q 006388          219 YCKCKSIKYAESVFRTMAWKNV-VSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQF  297 (647)
Q Consensus       219 y~~~g~~~~A~~~~~~~~~~~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~  297 (647)
                      ..-.|.+..+..-...+...+. ..---+.++|...|++....         .-.|....+..+...+ ..+    +...
T Consensus        23 ~fy~G~yq~~i~e~~~~~~~~~~~~~~~~~Rs~iAlg~~~~~~---------~~~~~~~a~~~la~~~-~~~----a~~~   88 (310)
T 3mv2_B           23 NYYTGNFVQCLQEIEKFSKVTDNTLLFYKAKTLLALGQYQSQD---------PTSKLGKVLDLYVQFL-DTK----NIEE   88 (310)
T ss_dssp             HHTTTCHHHHTHHHHTSSCCCCHHHHHHHHHHHHHTTCCCCCC---------SSSTTHHHHHHHHHHH-TTT----CCHH
T ss_pred             HHHhhHHHHHHHHHHhcCccchHHHHHHHHHHHHHcCCCccCC---------CCCHHHHHHHHHHHHh-ccc----HHHH
Confidence            3345666666665555443322 22233446677777665321         1223332333332222 222    5566


Q ss_pred             HHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCC-----CChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCC
Q 006388          298 HGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNV-----RDEVSWTALVSGYAKFGKANETIDLFEKMLSHGL  372 (647)
Q Consensus       298 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  372 (647)
                      ++.....+ .++......+..+|...|++++|++++.+...     .+...+-.++..+.+.|+.+.|.+.+++|.+.  
T Consensus        89 l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~~--  165 (310)
T 3mv2_B           89 LENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTNA--  165 (310)
T ss_dssp             HHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--
T ss_pred             HHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--
Confidence            66665554 34444456788889999999999999988742     24567778889999999999999999999874  


Q ss_pred             CC-----CHHHHHHHHHHH--hc--CCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CC--
Q 006388          373 KP-----DEVTLIGVLSAC--SR--AGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PF--  440 (647)
Q Consensus       373 ~p-----~~~t~~~ll~a~--~~--~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~--  440 (647)
                      .|     +..+...+..++  ..  .+++.+|..+|+++...   .|+...-..+..++.+.|++++|.+.++.+ ..  
T Consensus       166 ~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~---~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~~p  242 (310)
T 3mv2_B          166 IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT---FPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSDYY  242 (310)
T ss_dssp             SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT---SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSHHH
T ss_pred             CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh---CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhcc
Confidence            66     366667777663  22  34899999999998754   355333334444888999999999998765 21  


Q ss_pred             --------CC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHH
Q 006388          441 --------PP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYV  482 (647)
Q Consensus       441 --------~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~  482 (647)
                              .| ++.+...++......|+  .|.++++++.+..|+++.+..
T Consensus       243 ~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~P~hp~i~d  291 (310)
T 3mv2_B          243 SVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLDHEHAFIKH  291 (310)
T ss_dssp             HTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTTCCCHHHHH
T ss_pred             cccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhCCCChHHHH
Confidence                    24 46666566666666676  789999999999999876644

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=98.88  E-value=4.9e-08  Score=82.04  Aligned_cols=131  Identities=19%  Similarity=0.285  Sum_probs=98.0

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHH
Q 006388          343 SWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDIL  422 (647)
Q Consensus       343 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~  422 (647)
                      .|..+...+...|++++|+.+|+++.+.. +.+...+..+...+...|++++|..+++.+.+.  .+.+...+..+...+
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~   79 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL--DPRSAEAWYNLGNAY   79 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHH--CCCchHHHHHHHHHH
Confidence            46667777777888888888888877642 234556677777777888888888888887654  234556777788888


Q ss_pred             HHcCCHHHHHHHHHhC-CCC-CChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCC
Q 006388          423 SRAGRLEEAKSFINKM-PFP-PDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPY  476 (647)
Q Consensus       423 ~~~g~~~~A~~~~~~~-~~~-p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~  476 (647)
                      ...|++++|.++++++ ... .+...|..+...+...|++++|...++++++.+|.
T Consensus        80 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~  135 (136)
T 2fo7_A           80 YKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPR  135 (136)
T ss_dssp             HTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHSTT
T ss_pred             HHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHHHHccCCC
Confidence            8888888888888776 222 35677888888888889999999999888888774

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.85  E-value=2.7e-08  Score=96.65  Aligned_cols=172  Identities=11%  Similarity=-0.025  Sum_probs=130.1

Q ss_pred             HHHHHhhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcC
Q 006388          329 SHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPD-EVTLIGVLSACSRAGLVEKGRHYFEIMVKEYG  407 (647)
Q Consensus       329 A~~~~~~~~~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~  407 (647)
                      ..+.+......+...+..+...+.+.|++++|+..|++..+.  .|+ ...+..+...+...|++++|...++.+...  
T Consensus       105 l~~~l~~~lp~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~--  180 (287)
T 3qou_A          105 IRALLDXVLPREEELXAQQAMQLMQESNYTDALPLLXDAWQL--SNQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ--  180 (287)
T ss_dssp             HHHHHHHHSCCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--TTSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG--
T ss_pred             HHHHHHHHcCCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh--
Confidence            334444444445556667777788888888888888888874  454 447777788888889999999888877543  


Q ss_pred             CCcChHHHHHH-HHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCC--chhHH
Q 006388          408 IRPIHDHYTCM-IDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYN--PASYV  482 (647)
Q Consensus       408 ~~p~~~~~~~l-i~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~--~~~~~  482 (647)
                       .|+....... ...+.+.|+.++|.+.+++. ...| +...+..+...+...|++++|...++++++.+|++  ...+.
T Consensus       181 -~p~~~~~~~~~~~~l~~~~~~~~a~~~l~~al~~~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~  259 (287)
T 3qou_A          181 -DQDTRYQGLVAQIELLXQAADTPEIQQLQQQVAENPEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRX  259 (287)
T ss_dssp             -GCSHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHH
T ss_pred             -hcchHHHHHHHHHHHHhhcccCccHHHHHHHHhcCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHH
Confidence             4554333222 23366777788888888776 3344 57889999999999999999999999999999987  88899


Q ss_pred             HHHHhhhhCCChhHHHHHHHHHH
Q 006388          483 LLSSIYASKGKWDHVSQLRRTMR  505 (647)
Q Consensus       483 ~l~~~~~~~g~~~~a~~~~~~m~  505 (647)
                      .|+.+|...|+.++|...+++..
T Consensus       260 ~l~~~~~~~g~~~~a~~~~r~al  282 (287)
T 3qou_A          260 TFQEILAALGTGDALASXYRRQL  282 (287)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHcCCCCcHHHHHHHHH
Confidence            99999999999999998887654

>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=98.80  E-value=2.5e-07  Score=99.41  Aligned_cols=159  Identities=12%  Similarity=0.052  Sum_probs=121.1

Q ss_pred             cCCHHHHHHHHhhcCC---CChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhcCCcHHHHHHH
Q 006388          323 CGNIEDSHRLFNEMNV---RDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPD-EVTLIGVLSACSRAGLVEKGRHY  398 (647)
Q Consensus       323 ~g~~~~A~~~~~~~~~---~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~  398 (647)
                      .|++++|.+.|++...   .+...|..+...|.+.|++++|++.|++..+.  .|+ ...+..+..++...|++++|.+.
T Consensus         2 ~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRPQDFVAWLMLADAELGMGDTTAGEMAVQRGLAL--HPGHPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             -------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT--STTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            3677788888877652   35678888889999999999999999998875  444 55888888899999999999999


Q ss_pred             HHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhc---CChhHHHHHHHHHhcc
Q 006388          399 FEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIH---GNVEIGKWAAESLLEL  473 (647)
Q Consensus       399 ~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~---~~~~~a~~~~~~~~~~  473 (647)
                      ++...+.  .+.+...+..+..+|.+.|++++|.+.+++. ...| +...+..+...+...   |+.++|...++++++.
T Consensus        80 ~~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~  157 (568)
T 2vsy_A           80 LQQASDA--APEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQ  157 (568)
T ss_dssp             HHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHhc--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Confidence            9998864  2345678899999999999999999999887 3344 477888999999999   9999999999999999


Q ss_pred             CCCCchhHHHHH
Q 006388          474 DPYNPASYVLLS  485 (647)
Q Consensus       474 ~p~~~~~~~~l~  485 (647)
                      +|.+...|..++
T Consensus       158 ~p~~~~~~~~l~  169 (568)
T 2vsy_A          158 GVGAVEPFAFLS  169 (568)
T ss_dssp             TCCCSCHHHHTT
T ss_pred             CCcccChHHHhC
Confidence            999888887766

>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=98.80  E-value=2.8e-07  Score=84.88  Aligned_cols=162  Identities=10%  Similarity=-0.022  Sum_probs=126.1

Q ss_pred             CChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCC----cHHHHHHHHHHHHHhcCCCcChHH
Q 006388          339 RDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAG----LVEKGRHYFEIMVKEYGIRPIHDH  414 (647)
Q Consensus       339 ~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g----~~~~a~~~~~~~~~~~~~~p~~~~  414 (647)
                      .++.++..+...|...+++++|+..|++..+.|   +...+..+...|.. +    ++++|.++|+...+.    .+...
T Consensus        16 g~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~~----g~~~a   87 (212)
T 3rjv_A           16 GDRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEKAVEA----GSKSG   87 (212)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHHT----TCHHH
T ss_pred             CCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHC----CCHHH
Confidence            366677777777777888888888888887765   45566666666666 5    788888888888653    35567


Q ss_pred             HHHHHHHHHH----cCCHHHHHHHHHhC-CCCCC---hhhHHHHHHHHHh----cCChhHHHHHHHHHhccCCCCchhHH
Q 006388          415 YTCMIDILSR----AGRLEEAKSFINKM-PFPPD---AIGWATLLSSCRI----HGNVEIGKWAAESLLELDPYNPASYV  482 (647)
Q Consensus       415 ~~~li~~~~~----~g~~~~A~~~~~~~-~~~p~---~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~p~~~~~~~  482 (647)
                      +..|..+|..    .+++++|.++|++. ...|+   +..+..|...|..    .++.++|...++++.+. |.++..+.
T Consensus        88 ~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~-~~~~~a~~  166 (212)
T 3rjv_A           88 EIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSL-SRTGYAEY  166 (212)
T ss_dssp             HHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHT-SCTTHHHH
T ss_pred             HHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHc-CCCHHHHH
Confidence            7777777876    78899999999887 33443   7788888888887    78899999999999888 66778899


Q ss_pred             HHHHhhhhC-C-----ChhHHHHHHHHHHhCCC
Q 006388          483 LLSSIYASK-G-----KWDHVSQLRRTMREKGV  509 (647)
Q Consensus       483 ~l~~~~~~~-g-----~~~~a~~~~~~m~~~g~  509 (647)
                      .|+.+|... |     ++++|.+.+++..+.|.
T Consensus       167 ~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          167 WAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             HHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            999999764 3     89999999999888765

>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=98.79  E-value=7.7e-09  Score=89.55  Aligned_cols=121  Identities=12%  Similarity=-0.005  Sum_probs=101.1

Q ss_pred             HHHHhcCCcHHHHHHHHHHHHHhcCCCcC-hHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCC
Q 006388          383 LSACSRAGLVEKGRHYFEIMVKEYGIRPI-HDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGN  459 (647)
Q Consensus       383 l~a~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~  459 (647)
                      ...+...|++++|+..++...   ...|+ ...+-.+...|.+.|++++|.+.|++. ...| +..+|..+...+...|+
T Consensus         4 G~~~~~~~~~e~ai~~~~~a~---~~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~   80 (150)
T 4ga2_A            4 GSMRRSKADVERYIASVQGST---PSPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQERDPKAHRFLGLLYELEEN   80 (150)
T ss_dssp             ---CCCHHHHHHHHHHHHHHS---CSHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHcChHHHHHHHHHHhc---ccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCc
Confidence            345566789999999988765   33443 345667899999999999999999988 4555 58899999999999999


Q ss_pred             hhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHH-HHHHHh
Q 006388          460 VEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQL-RRTMRE  506 (647)
Q Consensus       460 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~-~~~m~~  506 (647)
                      +++|+..++++++++|+++.++..++.+|.+.|++++|.+. +++..+
T Consensus        81 ~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~  128 (150)
T 4ga2_A           81 TDKAVECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAK  128 (150)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999887765 476665

>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=98.78  E-value=1e-07  Score=93.63  Aligned_cols=220  Identities=10%  Similarity=0.041  Sum_probs=147.2

Q ss_pred             cCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHH
Q 006388          253 NGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRL  332 (647)
Q Consensus       253 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  332 (647)
                      .|++++|.+++++..+.. +..   +      +...++++.|...+..+               ...|...|++++|...
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            456677777777665431 110   0      11135566666655443               3456667777777777


Q ss_pred             HhhcCC-----CC----hhhHHHHHHHHHHcCChHHHHHHHHHHHHCC---CCCC--HHHHHHHHHHHhcCCcHHHHHHH
Q 006388          333 FNEMNV-----RD----EVSWTALVSGYAKFGKANETIDLFEKMLSHG---LKPD--EVTLIGVLSACSRAGLVEKGRHY  398 (647)
Q Consensus       333 ~~~~~~-----~d----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g---~~p~--~~t~~~ll~a~~~~g~~~~a~~~  398 (647)
                      |.+...     .+    ..+|+.+...|...|++++|+..|++..+.-   -.|.  ..++..+...|.. |++++|...
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            665431     11    3467788888999999999999998876521   1222  2467778888888 999999999


Q ss_pred             HHHHHHhcCCC---c-ChHHHHHHHHHHHHcCCHHHHHHHHHhC-CC---CCC----hhhHHHHHHHHHhcCChhHHHHH
Q 006388          399 FEIMVKEYGIR---P-IHDHYTCMIDILSRAGRLEEAKSFINKM-PF---PPD----AIGWATLLSSCRIHGNVEIGKWA  466 (647)
Q Consensus       399 ~~~~~~~~~~~---p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~---~p~----~~~~~~ll~~~~~~~~~~~a~~~  466 (647)
                      |+....-+.-.   + ...++..+...|.+.|++++|.+.|++. ..   .++    ...+..++..+...|++++|...
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            99887532111   1 1467888999999999999999999887 11   122    23566777777888999999999


Q ss_pred             HHHHhccCCCCchh-----HHHHHHhhhhCCChhHHHHH
Q 006388          467 AESLLELDPYNPAS-----YVLLSSIYASKGKWDHVSQL  500 (647)
Q Consensus       467 ~~~~~~~~p~~~~~-----~~~l~~~~~~~g~~~~a~~~  500 (647)
                      +++++ +.|.....     ...++.+| ..|+.+.+.++
T Consensus       218 ~~~al-~~p~~~~~~e~~~l~~l~~~~-~~~d~~~~~~~  254 (307)
T 2ifu_A          218 VRESY-SIPGFSGSEDCAALEDLLQAY-DEQDEEQLLRV  254 (307)
T ss_dssp             HHHHT-TSTTSTTSHHHHHHHHHHHHH-HTTCHHHHHHH
T ss_pred             HHHHh-CCCCCCCCHHHHHHHHHHHHH-HhcCHHHHHHH
Confidence            99999 98865432     44555555 56777666553

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.78  E-value=3.6e-06  Score=88.01  Aligned_cols=361  Identities=10%  Similarity=-0.031  Sum_probs=166.4

Q ss_pred             CC-ChHHHHHHHHHHHHhCCCCchhhHHHHHHHHHhcCChHHHHHHhccCCC--CCchHHHHHHHHHHhcCC-hHHHHHH
Q 006388           55 RR-CVDLGRQIHGHILKFGFGSYVFVGSPLVDMYAKLGLIYDAKRGFDELPE--KNIVMYNTMITGLLRRGL-VEESRRL  130 (647)
Q Consensus        55 ~~-~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~-~~~A~~~  130 (647)
                      .| ++..|+.+++.++..=  |.              |+++.+..+|++...  |++..|...+.-..+.+. .+....+
T Consensus         7 ~~~~i~~aR~vyer~l~~~--P~--------------~~~e~~~~iferal~~~ps~~LW~~Y~~f~~~~~~~~~~i~~~   70 (493)
T 2uy1_A            7 MGVELSSPSAIMEHARRLY--MS--------------KDYRSLESLFGRCLKKSYNLDLWMLYIEYVRKVSQKKFKLYEV   70 (493)
T ss_dssp             -----CCHHHHHHHHHHHH--HT--------------TCHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHC----CTHHH
T ss_pred             cCcchHHHHHHHHHHHHHC--CC--------------CCHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCchHHHHHHH
Confidence            45 3777788887776542  21              889999999988765  777788887777776653 3444555


Q ss_pred             hhcCC------CCCeehHHHHHHHHH----hCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHh---cCCChHHHHHHH
Q 006388          131 FRGMK------DKDSISWTTMITGLM----QNGLEREAIDLFREMRLEGLAMDQFTFGSVLTACG---GLLALEEGKQIH  197 (647)
Q Consensus       131 ~~~~~------~~~~~~~~~li~~~~----~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~---~~~~~~~a~~~~  197 (647)
                      |+...      ..+...|...+..+.    .+++.+.+..+|++....  ++..  +..+-..|.   ...+...+..+.
T Consensus        71 fe~al~~vg~d~~s~~iW~~Yi~f~~~~~~~~~~~~~vR~iy~rAL~~--P~~~--~~~lw~~Y~~fE~~~~~~~~~~~~  146 (493)
T 2uy1_A           71 YEFTLGQFENYWDSYGLYKEYIEEEGKIEDEQTRIEKIRNGYMRALQT--PMGS--LSELWKDFENFELELNKITGKKIV  146 (493)
T ss_dssp             HHHHHHHSTTCTTCHHHHHHHHHHTSSCSSHHHHHHHHHHHHHHHHTS--CCTT--HHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             HHHHHHHcCCCcccHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHHhC--hhhh--HHHHHHHHHHHHHHhccccHHHHH
Confidence            55432      124456666666543    235566777777777763  1111  112222111   111111121111


Q ss_pred             HHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCC----CCChhHHHHHHHHHHhcCC-------hhHHHHHHHHH
Q 006388          198 AFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMA----WKNVVSWTAMLVGYGQNGC-------SEEAVKIFCNM  266 (647)
Q Consensus       198 ~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~g~-------~~~A~~~~~~m  266 (647)
                      ....                     +.+..|+.+++.+.    ..+...|...+.--..++.       .+.+..+|+++
T Consensus       147 ~~~~---------------------~~y~~ar~~y~~~~~~~~~~s~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~a  205 (493)
T 2uy1_A          147 GDTL---------------------PIFQSSFQRYQQIQPLIRGWSVKNAARLIDLEMENGMKLGGRPHESRMHFIHNYI  205 (493)
T ss_dssp             HHHH---------------------HHHHHHHHHHHHHHHHHHTCSHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHH
T ss_pred             HHHh---------------------HHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhcCCccCcchhhHHHHHHHHHHH
Confidence            1110                     11222222222211    1233455554443222211       23455677776


Q ss_pred             HHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHH-HHHHhhcC--------
Q 006388          267 QRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDS-HRLFNEMN--------  337 (647)
Q Consensus       267 ~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A-~~~~~~~~--------  337 (647)
                      .... +-+...|...+.-+...|+++.|..++++.+..  +.+...+..    |+...+.++. ..+.+...        
T Consensus       206 l~~~-p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~~----y~~~~e~~~~~~~l~~~~~~~~~~~~~  278 (493)
T 2uy1_A          206 LDSF-YYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSLY----YGLVMDEEAVYGDLKRKYSMGEAESAE  278 (493)
T ss_dssp             HHHT-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHHH----HHHHTTCTHHHHHHHHHTC--------
T ss_pred             HHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHHH----HHhhcchhHHHHHHHHHHHhhccchhh
Confidence            6642 334555555566666677777777777777776  333333322    2221111111 01111100        


Q ss_pred             ----CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHh-cCCcHHHHHHHHHHHHHhcCCCcCh
Q 006388          338 ----VRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACS-RAGLVEKGRHYFEIMVKEYGIRPIH  412 (647)
Q Consensus       338 ----~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~-~~g~~~~a~~~~~~~~~~~~~~p~~  412 (647)
                          ......|-..+....+.+..+.|..+|++. .. ..++...|......-. ..++.+.|+.+|+...+.++-  ++
T Consensus       279 ~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~-~~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~~~--~~  354 (493)
T 2uy1_A          279 KVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GN-EGVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKHPD--ST  354 (493)
T ss_dssp             --CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TT-SCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHCTT--CH
T ss_pred             hhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hC-CCCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCCC--CH
Confidence                001123444444444555566666666655 21 1112222321111111 122456666666665554322  22


Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHH
Q 006388          413 DHYTCMIDILSRAGRLEEAKSFINKMPFPPDAIGWATLLSSCRIHGNVEIGKWAAES  469 (647)
Q Consensus       413 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~  469 (647)
                      ..+...++...+.|+.+.|..+|+++.  .....|...+.--..+|+.+.+..++++
T Consensus       355 ~~~~~yid~e~~~~~~~~aR~l~er~~--k~~~lw~~~~~fE~~~G~~~~~r~v~~~  409 (493)
T 2uy1_A          355 LLKEEFFLFLLRIGDEENARALFKRLE--KTSRMWDSMIEYEFMVGSMELFRELVDQ  409 (493)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHSC--CBHHHHHHHHHHHHHHSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHH--HHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            334445555555666666666666652  1344455555444445555444444443

>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=98.77  E-value=1.2e-07  Score=103.90  Aligned_cols=188  Identities=12%  Similarity=0.059  Sum_probs=141.6

Q ss_pred             hccCChHHHHHHHHHHH--------HhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHHHHHc
Q 006388          286 ANLASLEEGTQFHGRSL--------VTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMN---VRDEVSWTALVSGYAKF  354 (647)
Q Consensus       286 ~~~~~~~~a~~~~~~~~--------~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~d~~~~~~li~~~~~~  354 (647)
                      ...|++++|.+.++.+.        +. .+.+...+..+...|.+.|++++|.+.|++..   ..+...|..+..+|.+.
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~-~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~  480 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVD-FSESVELPLMEVRALLDLGDVAKATRKLDDLAERVGWRWRLVWYRAVAELLT  480 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------C-CTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccc-cccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcchHHHHHHHHHHHHHc
Confidence            66778888888888776        32 24456677788888999999999999998876   44778899999999999


Q ss_pred             CChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHH
Q 006388          355 GKANETIDLFEKMLSHGLKPD-EVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKS  433 (647)
Q Consensus       355 g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~  433 (647)
                      |++++|+..|++..+.  .|+ ...+..+..++...|++++ .+.|+...+.  -+.+...|..+..+|.+.|++++|.+
T Consensus       481 g~~~~A~~~~~~al~l--~P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~--~P~~~~a~~~lg~~~~~~g~~~~A~~  555 (681)
T 2pzi_A          481 GDYDSATKHFTEVLDT--FPGELAPKLALAATAELAGNTDE-HKFYQTVWST--NDGVISAAFGLARARSAEGDRVGAVR  555 (681)
T ss_dssp             TCHHHHHHHHHHHHHH--STTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             CCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcCChHH-HHHHHHHHHh--CCchHHHHHHHHHHHHHcCCHHHHHH
Confidence            9999999999999884  454 4578888888999999999 9999988764  23356788999999999999999999


Q ss_pred             HHHhC-CCCCC-hhhHHHHHHHHHhcCC-----hhHHHHHHHHHhccCCCCch
Q 006388          434 FINKM-PFPPD-AIGWATLLSSCRIHGN-----VEIGKWAAESLLELDPYNPA  479 (647)
Q Consensus       434 ~~~~~-~~~p~-~~~~~~ll~~~~~~~~-----~~~a~~~~~~~~~~~p~~~~  479 (647)
                      .|+++ ...|+ ...|..+..++...++     .+...++.+.+.++.+.++.
T Consensus       556 ~~~~al~l~P~~~~a~~~~~~~~~~~~~~~~~~~~~~~~A~~~l~~~~~~~~~  608 (681)
T 2pzi_A          556 TLDEVPPTSRHFTTARLTSAVTLLSGRSTSEVTEEQIRDAARRVEALPPTEPR  608 (681)
T ss_dssp             HHHTSCTTSTTHHHHHHHHHHHTC-------CCHHHHHHHHHHHHTSCTTSTT
T ss_pred             HHHhhcccCcccHHHHHHHHHHHHccCCCCCCCHHHHHHHHHHHhhCCCCcHH
Confidence            99998 56776 6677777777766554     23444444444455444443

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.75  E-value=3e-08  Score=85.50  Aligned_cols=102  Identities=11%  Similarity=-0.021  Sum_probs=90.1

Q ss_pred             CCCcC-hHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHH
Q 006388          407 GIRPI-HDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVL  483 (647)
Q Consensus       407 ~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~  483 (647)
                      .+.|+ ...+..+...+.+.|++++|.+.|++. ...| +...|..+..++...|++++|+..++++++++|+++..|..
T Consensus        30 ~l~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~~~~~  109 (151)
T 3gyz_A           30 AIPDDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYDFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTPVFH  109 (151)
T ss_dssp             CSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcHHHHH
Confidence            34453 467778888899999999999999988 4455 58899999999999999999999999999999999999999


Q ss_pred             HHHhhhhCCChhHHHHHHHHHHhCC
Q 006388          484 LSSIYASKGKWDHVSQLRRTMREKG  508 (647)
Q Consensus       484 l~~~~~~~g~~~~a~~~~~~m~~~g  508 (647)
                      ++.+|...|++++|.+.+++..+..
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            9999999999999999999988743

>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=98.75  E-value=6.5e-08  Score=104.05  Aligned_cols=151  Identities=15%  Similarity=0.030  Sum_probs=116.8

Q ss_pred             cCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHH
Q 006388          354 FGKANETIDLFEKMLSHGLKPD-EVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAK  432 (647)
Q Consensus       354 ~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~  432 (647)
                      .|++++|+..|++..+.  .|+ ...+..+...+...|++++|.+.|+...+.  .+.+...+..+...|...|++++|.
T Consensus         2 ~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~   77 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRH--RPQDFVAWLMLADAELGMGDTTAGEMAVQRGLAL--HPGHPEAVARLGRVRWTQQRHAEAA   77 (568)
T ss_dssp             ---------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT--STTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             CccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHH
Confidence            47889999999998874  454 568888889999999999999999998753  2335788999999999999999999


Q ss_pred             HHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhC---CChhHHHHHHHHHHhC
Q 006388          433 SFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASK---GKWDHVSQLRRTMREK  507 (647)
Q Consensus       433 ~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~---g~~~~a~~~~~~m~~~  507 (647)
                      +.+++. ...| +...|..+...+...|++++|...++++++.+|+++..+..++.+|...   |++++|.+.+++..+.
T Consensus        78 ~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~  157 (568)
T 2vsy_A           78 VLLQQASDAAPEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQ  157 (568)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Confidence            999987 3344 4789999999999999999999999999999999999999999999999   9999999999988654


Q ss_pred             C
Q 006388          508 G  508 (647)
Q Consensus       508 g  508 (647)
                      +
T Consensus       158 ~  158 (568)
T 2vsy_A          158 G  158 (568)
T ss_dssp             T
T ss_pred             C
Confidence            3

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.72  E-value=1.8e-07  Score=85.90  Aligned_cols=126  Identities=10%  Similarity=0.047  Sum_probs=95.0

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHc
Q 006388          347 LVSGYAKFGKANETIDLFEKMLSHGLKPD-EVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRA  425 (647)
Q Consensus       347 li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~  425 (647)
                      +...|.+.|++++|+..|++..+.  .|+ ...+..+..++...|++++|...|+...+.  -+.+...+..+...|...
T Consensus        60 lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~  135 (208)
T 3urz_A           60 LALAYKKNRNYDKAYLFYKELLQK--APNNVDCLEACAEMQVCRGQEKDALRMYEKILQL--EADNLAANIFLGNYYYLT  135 (208)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHH
Confidence            788888999999999999998884  454 557888888899999999999999998864  233567888888888766


Q ss_pred             CC--HHHHHHHHHhCCCCCC--hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCC
Q 006388          426 GR--LEEAKSFINKMPFPPD--AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYN  477 (647)
Q Consensus       426 g~--~~~A~~~~~~~~~~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~  477 (647)
                      |.  .+++...++... .|+  ...|..+..++...|++++|+..+++++++.|++
T Consensus       136 ~~~~~~~~~~~~~~~~-~~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~P~~  190 (208)
T 3urz_A          136 AEQEKKKLETDYKKLS-SPTKMQYARYRDGLSKLFTTRYEKARNSLQKVILRFPST  190 (208)
T ss_dssp             HHHHHHHHHHHHC----CCCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTTSCCH
T ss_pred             hHHHHHHHHHHHHHHh-CCCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCH
Confidence            54  445666666663 333  3345556667778899999999999999999953

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.72  E-value=8.7e-08  Score=79.95  Aligned_cols=108  Identities=12%  Similarity=0.005  Sum_probs=59.6

Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHH
Q 006388          378 TLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCR  455 (647)
Q Consensus       378 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~  455 (647)
                      .+......+.+.|++++|++.|+..++.  .+.+...|..+..+|.+.|++++|++.+++. .+.| +...|..+..++.
T Consensus        15 ~~~~~G~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~   92 (126)
T 4gco_A           15 EEKNKGNEYFKKGDYPTAMRHYNEAVKR--DPENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYIRKAACLV   92 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHHHHHHHHH
Confidence            3444445555555555555555555432  1223455555555555666666666555554 2233 3555666666666


Q ss_pred             hcCChhHHHHHHHHHhccCCCCchhHHHHHHh
Q 006388          456 IHGNVEIGKWAAESLLELDPYNPASYVLLSSI  487 (647)
Q Consensus       456 ~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  487 (647)
                      ..|++++|+..++++++++|+++.++..|.++
T Consensus        93 ~~~~~~~A~~~~~~al~l~P~~~~a~~~l~~~  124 (126)
T 4gco_A           93 AMREWSKAQRAYEDALQVDPSNEEAREGVRNC  124 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHHCcCCHHHHHHHHHh
Confidence            66666666666666666666666555555443

>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=98.72  E-value=5.6e-08  Score=83.80  Aligned_cols=101  Identities=11%  Similarity=0.047  Sum_probs=88.5

Q ss_pred             CCCc-ChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHH
Q 006388          407 GIRP-IHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVL  483 (647)
Q Consensus       407 ~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~  483 (647)
                      .+.| +...+..+...+.+.|++++|...|++. ...| +...|..+..++...|++++|+..++++++++|+++..+..
T Consensus        15 ~~~p~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~   94 (148)
T 2vgx_A           15 EISSDTLEQLYSLAFNQYQSGXYEDAHXVFQALCVLDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIXEPRFPFH   94 (148)
T ss_dssp             TCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHH
T ss_pred             cCCHhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHH
Confidence            3344 4566777888999999999999999887 3344 68889999999999999999999999999999999999999


Q ss_pred             HHHhhhhCCChhHHHHHHHHHHhC
Q 006388          484 LSSIYASKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       484 l~~~~~~~g~~~~a~~~~~~m~~~  507 (647)
                      ++.+|...|++++|.+.+++..+.
T Consensus        95 lg~~~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           95 AAECLLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHH
Confidence            999999999999999999998763

>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=98.72  E-value=6.6e-08  Score=86.20  Aligned_cols=76  Identities=11%  Similarity=-0.037  Sum_probs=57.3

Q ss_pred             HHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCC--chhHHHHHHhhhhCCChhHHHHHHHHHHh
Q 006388          431 AKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYN--PASYVLLSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       431 A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~--~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      |.+.+++. ...| +...|..+...+...|++++|...++++++.+|+.  +..+..++.+|...|+.++|...+++...
T Consensus        93 a~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~~y~~al~  172 (176)
T 2r5s_A           93 ELKRLEQELAANPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIASKYRRQLY  172 (176)
T ss_dssp             HHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHHHHHHHHH
Confidence            44445444 2334 47778888888888888888888888888888764  55888888888888888888888876543

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.68  E-value=2.4e-05  Score=81.67  Aligned_cols=347  Identities=11%  Similarity=0.003  Sum_probs=197.9

Q ss_pred             cHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCCcchHHHHHHHHhCCCC-hHHHHHHHHHHHHh-CC-CCchhhHHHHH
Q 006388            8 SWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRC-VDLGRQIHGHILKF-GF-GSYVFVGSPLV   84 (647)
Q Consensus         8 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~~ll~~~~~~~~-~~~a~~~~~~~~~~-g~-~~~~~~~~~li   84 (647)
                      .|...+..+-. |+++.+..+|++....   .|+...|..-++...+.++ .+....+|+.++.. |. +.+..+|...+
T Consensus        17 vyer~l~~~P~-~~~e~~~~iferal~~---~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~~s~~iW~~Yi   92 (493)
T 2uy1_A           17 IMEHARRLYMS-KDYRSLESLFGRCLKK---SYNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYWDSYGLYKEYI   92 (493)
T ss_dssp             HHHHHHHHHHT-TCHHHHHHHHHHHSTT---CCCHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCTTCHHHHHHHH
T ss_pred             HHHHHHHHCCC-CCHHHHHHHHHHHhcc---CCCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCcccHHHHHHHH
Confidence            35556666644 7899999999999875   5688888888877666553 35567788887765 53 33566777777


Q ss_pred             HHHH----hcCChHHHHHHhccCCC-C--Cc-hHHHHHHHHHH-------------hcCChHHHHHHhhcCCC----CCe
Q 006388           85 DMYA----KLGLIYDAKRGFDELPE-K--NI-VMYNTMITGLL-------------RRGLVEESRRLFRGMKD----KDS  139 (647)
Q Consensus        85 ~~~~----~~g~~~~A~~~~~~~~~-~--~~-~~~~~li~~~~-------------~~g~~~~A~~~~~~~~~----~~~  139 (647)
                      ..+.    ..|+++.++++|++... |  +. ..|......-.             ..+.+..|..+++.+..    .+.
T Consensus        93 ~f~~~~~~~~~~~~~vR~iy~rAL~~P~~~~~~lw~~Y~~fE~~~~~~~~~~~~~~~~~~y~~ar~~y~~~~~~~~~~s~  172 (493)
T 2uy1_A           93 EEEGKIEDEQTRIEKIRNGYMRALQTPMGSLSELWKDFENFELELNKITGKKIVGDTLPIFQSSFQRYQQIQPLIRGWSV  172 (493)
T ss_dssp             HHTSSCSSHHHHHHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSH
T ss_pred             HHHHhchhhhHHHHHHHHHHHHHHhChhhhHHHHHHHHHHHHHHhccccHHHHHHHHhHHHHHHHHHHHHHHHHHhhccH
Confidence            6654    34678889999987754 2  11 12222211110             11122233333332221    133


Q ss_pred             ehHHHHHHHHHhCC--C-----hhHHHHHHHHHHHCCCCCChhhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHH
Q 006388          140 ISWTTMITGLMQNG--L-----EREAIDLFREMRLEGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVG  212 (647)
Q Consensus       140 ~~~~~li~~~~~~g--~-----~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~  212 (647)
                      ..|...+..-..++  -     .+.+..+|+++.... +-+...|...+.-+...|+.+.|..+++..++.  +.+...+
T Consensus       173 ~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al~~~-p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~  249 (493)
T 2uy1_A          173 KNAARLIDLEMENGMKLGGRPHESRMHFIHNYILDSF-YYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLS  249 (493)
T ss_dssp             HHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHH
T ss_pred             HHHHHHHHHHhcCCccCcchhhHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHH
Confidence            35655555433221  1     234667888877643 334556666666777788899999999988887  3343333


Q ss_pred             HHHHHHHHhcCCHHHH-HHHHhcCC--C-------C---ChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHH
Q 006388          213 SALVDMYCKCKSIKYA-ESVFRTMA--W-------K---NVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLG  279 (647)
Q Consensus       213 ~~li~~y~~~g~~~~A-~~~~~~~~--~-------~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~  279 (647)
                      ..    |+.....++. ..+.+...  .       +   ....|-..+....+.++.+.|..+|.+. ... ..+...|.
T Consensus       250 ~~----y~~~~e~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~~-~~~~~v~i  323 (493)
T 2uy1_A          250 LY----YGLVMDEEAVYGDLKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GNE-GVGPHVFI  323 (493)
T ss_dssp             HH----HHHHTTCTHHHHHHHHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TTS-CCCHHHHH
T ss_pred             HH----HHhhcchhHHHHHHHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hCC-CCChHHHH
Confidence            32    3222111111 11111110  0       0   1234666666666677788888888877 221 12333332


Q ss_pred             HHHHHHh-ccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChH
Q 006388          280 SVISSCA-NLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKAN  358 (647)
Q Consensus       280 ~ll~a~~-~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~d~~~~~~li~~~~~~g~~~  358 (647)
                      .....-. ..++.+.|+.+++...+.- +.++..+...++...+.|+.+.|..+|+++. .....|...+.--...|+.+
T Consensus       324 ~~A~lE~~~~~d~~~ar~ife~al~~~-~~~~~~~~~yid~e~~~~~~~~aR~l~er~~-k~~~lw~~~~~fE~~~G~~~  401 (493)
T 2uy1_A          324 YCAFIEYYATGSRATPYNIFSSGLLKH-PDSTLLKEEFFLFLLRIGDEENARALFKRLE-KTSRMWDSMIEYEFMVGSME  401 (493)
T ss_dssp             HHHHHHHHHHCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHSC-CBHHHHHHHHHHHHHHSCHH
T ss_pred             HHHHHHHHHCCChHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH-HHHHHHHHHHHHHHHCCCHH
Confidence            2111111 1235788888888877753 3334455667777777888888888888874 34556666666556667777


Q ss_pred             HHHHHHHHHHH
Q 006388          359 ETIDLFEKMLS  369 (647)
Q Consensus       359 ~A~~~~~~m~~  369 (647)
                      .+..+++++..
T Consensus       402 ~~r~v~~~~~~  412 (493)
T 2uy1_A          402 LFRELVDQKMD  412 (493)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            77776666653

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.67  E-value=4.2e-06  Score=80.95  Aligned_cols=149  Identities=12%  Similarity=0.141  Sum_probs=87.0

Q ss_pred             CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHH--HHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCC-----
Q 006388          355 GKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVE--KGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGR-----  427 (647)
Q Consensus       355 g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~--~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~-----  427 (647)
                      +++++++.+++++.+.. +-|...|..-...+.+.|.++  +++++++.+++.  -.-+-..|+.-..++.+.|.     
T Consensus       124 ~~~~~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~--d~~N~sAW~~R~~ll~~l~~~~~~~  200 (306)
T 3dra_A          124 FDPYREFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDT--DLKNNSAWSHRFFLLFSKKHLATDN  200 (306)
T ss_dssp             CCTHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHSSGGGCCHH
T ss_pred             CCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhccccchhh
Confidence            45566666666665532 223445554444445555555  666666666543  12344445544444555554     


Q ss_pred             -HHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCCh-hHHHHHHHHHhccC---CCCchhHHHHHHhhhhCCChhHHHHH
Q 006388          428 -LEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNV-EIGKWAAESLLELD---PYNPASYVLLSSIYASKGKWDHVSQL  500 (647)
Q Consensus       428 -~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~-~~a~~~~~~~~~~~---p~~~~~~~~l~~~~~~~g~~~~a~~~  500 (647)
                       ++++++.++++ ...| |...|+-+...+.+.|+. +....+++++.+++   |.++.++..++.+|.+.|+.++|.++
T Consensus       201 ~~~eEl~~~~~aI~~~p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~  280 (306)
T 3dra_A          201 TIDEELNYVKDKIVKCPQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTV  280 (306)
T ss_dssp             HHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHH
Confidence             66666666655 2233 466777777666666653 33455666666655   66677777777777777777777777


Q ss_pred             HHHHHh
Q 006388          501 RRTMRE  506 (647)
Q Consensus       501 ~~~m~~  506 (647)
                      ++.+.+
T Consensus       281 ~~~l~~  286 (306)
T 3dra_A          281 YDLLKS  286 (306)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            777654

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.67  E-value=9.8e-08  Score=79.63  Aligned_cols=100  Identities=12%  Similarity=0.103  Sum_probs=90.2

Q ss_pred             CCcC-hHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHH
Q 006388          408 IRPI-HDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLL  484 (647)
Q Consensus       408 ~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l  484 (647)
                      +.|+ ...+......|.+.|++++|++.|++. ...| +...|..+..++...|++++|+..++++++++|+++.+|..+
T Consensus         8 inP~~a~~~~~~G~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l   87 (126)
T 4gco_A            8 INPELAQEEKNKGNEYFKKGDYPTAMRHYNEAVKRDPENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYIRK   87 (126)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHHHH
Confidence            4554 367788899999999999999999987 4445 588999999999999999999999999999999999999999


Q ss_pred             HHhhhhCCChhHHHHHHHHHHhC
Q 006388          485 SSIYASKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       485 ~~~~~~~g~~~~a~~~~~~m~~~  507 (647)
                      +.+|...|++++|.+.+++..+.
T Consensus        88 g~~~~~~~~~~~A~~~~~~al~l  110 (126)
T 4gco_A           88 AACLVAMREWSKAQRAYEDALQV  110 (126)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHH
Confidence            99999999999999999998773

>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=98.66  E-value=4.2e-06  Score=81.35  Aligned_cols=160  Identities=8%  Similarity=-0.063  Sum_probs=119.0

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHCC-CCCCHH----HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcC----hHHHHH
Q 006388          347 LVSGYAKFGKANETIDLFEKMLSHG-LKPDEV----TLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPI----HDHYTC  417 (647)
Q Consensus       347 li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~----t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~~  417 (647)
                      .+..+...|++++|..++++..+.. ..|+..    .+..+...+...|++++|...|+...+...-.++    ...++.
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            3566788888999999988887642 222321    2334566677788999999999888763222223    346888


Q ss_pred             HHHHHHHcCCHHHHHHHHHhCC-----C---CCC-hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCC------chhHH
Q 006388          418 MIDILSRAGRLEEAKSFINKMP-----F---PPD-AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYN------PASYV  482 (647)
Q Consensus       418 li~~~~~~g~~~~A~~~~~~~~-----~---~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~------~~~~~  482 (647)
                      +...|...|++++|.+.++++-     .   .|. ..++..+...|...|++++|...+++++++.+..      +.+|.
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            9999999999999998887761     1   112 4478889999999999999999999988765332      57899


Q ss_pred             HHHHhhhhCCC-hhHHHHHHHHHHh
Q 006388          483 LLSSIYASKGK-WDHVSQLRRTMRE  506 (647)
Q Consensus       483 ~l~~~~~~~g~-~~~a~~~~~~m~~  506 (647)
                      .++.+|.+.|+ +++|.+.+++...
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            99999999995 6999999988753

>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=98.64  E-value=9.3e-08  Score=93.90  Aligned_cols=196  Identities=6%  Similarity=-0.059  Sum_probs=148.8

Q ss_pred             cCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHH
Q 006388          288 LASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEKM  367 (647)
Q Consensus       288 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~d~~~~~~li~~~~~~g~~~~A~~~~~~m  367 (647)
                      .|++++|.+++.+..+..-. .         .+...+++++|...|.+           ....|...|++++|...|.+.
T Consensus         4 ~~~~~eA~~~~~~a~k~~~~-~---------~~~~~~~~~~A~~~~~~-----------a~~~~~~~g~~~~A~~~~~~a   62 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYLKT-S---------FMKWKPDYDSAASEYAK-----------AAVAFKNAKQLEQAKDAYLQE   62 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHHCC-C---------SSSCSCCHHHHHHHHHH-----------HHHHHHHTTCHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHccc-c---------ccCCCCCHHHHHHHHHH-----------HHHHHHHcCCHHHHHHHHHHH
Confidence            56778888888887764211 1         11115788888888765           466788999999999999987


Q ss_pred             HHC----CCCCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCC--Cc--ChHHHHHHHHHHHHcCCHHHHHHHHHhC
Q 006388          368 LSH----GLKPD-EVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGI--RP--IHDHYTCMIDILSRAGRLEEAKSFINKM  438 (647)
Q Consensus       368 ~~~----g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~--~p--~~~~~~~li~~~~~~g~~~~A~~~~~~~  438 (647)
                      .+.    |-.+. ..+|..+...|...|++++|...|+...+-+.-  .|  ...++..+..+|.+ |++++|++.+++.
T Consensus        63 l~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~A  141 (307)
T 2ifu_A           63 AEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQA  141 (307)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHH
Confidence            653    21111 237888888999999999999999987654211  11  24678888999988 9999999999876


Q ss_pred             -CC---CCC----hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCc------hhHHHHHHhhhhCCChhHHHHHHHHH
Q 006388          439 -PF---PPD----AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNP------ASYVLLSSIYASKGKWDHVSQLRRTM  504 (647)
Q Consensus       439 -~~---~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~------~~~~~l~~~~~~~g~~~~a~~~~~~m  504 (647)
                       .+   ..+    ..++..+...+...|++++|+..+++++++.|.+.      ..+..++.++...|++++|...+++.
T Consensus       142 l~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~a  221 (307)
T 2ifu_A          142 AAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRES  221 (307)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence             11   111    46788899999999999999999999998766433      36777888899999999999999987


Q ss_pred             H
Q 006388          505 R  505 (647)
Q Consensus       505 ~  505 (647)
                      .
T Consensus       222 l  222 (307)
T 2ifu_A          222 Y  222 (307)
T ss_dssp             T
T ss_pred             h
Confidence            7

>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=98.63  E-value=6e-07  Score=82.54  Aligned_cols=123  Identities=9%  Similarity=-0.031  Sum_probs=95.4

Q ss_pred             HHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcC
Q 006388          381 GVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHG  458 (647)
Q Consensus       381 ~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~  458 (647)
                      .+...+...|++++|...|+..     +.|+...+..+...|.+.|++++|.+.+++. ...| +...|..+...+...|
T Consensus        11 ~~g~~~~~~~~~~~A~~~~~~a-----~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~lg~~~~~~~   85 (213)
T 1hh8_A           11 NEGVLAADKKDWKGALDAFSAV-----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQTE   85 (213)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHTS-----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhCCHHHHHHHHHHH-----cCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcc
Confidence            3444566677777777777644     3456677777777777788888887777766 2233 4677888888888888


Q ss_pred             ChhHHHHHHHHHhccCCCCc----------------hhHHHHHHhhhhCCChhHHHHHHHHHHhCC
Q 006388          459 NVEIGKWAAESLLELDPYNP----------------ASYVLLSSIYASKGKWDHVSQLRRTMREKG  508 (647)
Q Consensus       459 ~~~~a~~~~~~~~~~~p~~~----------------~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g  508 (647)
                      ++++|...++++++..|.+.                ..+..++.+|...|++++|.+.+++..+..
T Consensus        86 ~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  151 (213)
T 1hh8_A           86 KYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  151 (213)
T ss_dssp             CHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             cHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcC
Confidence            89999999998888888776                889999999999999999999999988743

>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=98.61  E-value=4.1e-07  Score=80.97  Aligned_cols=155  Identities=9%  Similarity=-0.065  Sum_probs=111.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH-Hhc
Q 006388          313 SNALVTFYGKCGNIEDSHRLFNEMN---VRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSA-CSR  388 (647)
Q Consensus       313 ~~~li~~~~~~g~~~~A~~~~~~~~---~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a-~~~  388 (647)
                      ...+...+.+.|++++|...|++..   ..+...|..+...+...|++++|+..|++....  .|+.......... +..
T Consensus         9 ~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~--~p~~~~~~~~~~~~~~~   86 (176)
T 2r5s_A            9 LLKQVSELLQQGEHAQALNVIQTLSDELQSRGDVKLAKADCLLETKQFELAQELLATIPLE--YQDNSYKSLIAKLELHQ   86 (176)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSCHHHHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGG--GCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhc--cCChHHHHHHHHHHHHh
Confidence            3445667778888888888888877   336677888888888889999998888887654  3443322221111 112


Q ss_pred             CCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC---hhhHHHHHHHHHhcCChhHHH
Q 006388          389 AGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPPD---AIGWATLLSSCRIHGNVEIGK  464 (647)
Q Consensus       389 ~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~---~~~~~~ll~~~~~~~~~~~a~  464 (647)
                      .+...+|...++...+.  .+.+...+..+...|...|++++|.+.++++ ...|+   ...|..+...+...|+.++|.
T Consensus        87 ~~~~~~a~~~~~~al~~--~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~  164 (176)
T 2r5s_A           87 QAAESPELKRLEQELAA--NPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIA  164 (176)
T ss_dssp             HHTSCHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHH
T ss_pred             hcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHH
Confidence            12223467778877753  2235678888999999999999999999887 44554   558889999999999999999


Q ss_pred             HHHHHHh
Q 006388          465 WAAESLL  471 (647)
Q Consensus       465 ~~~~~~~  471 (647)
                      ..+++.+
T Consensus       165 ~~y~~al  171 (176)
T 2r5s_A          165 SKYRRQL  171 (176)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9988765

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.61  E-value=7.2e-07  Score=86.81  Aligned_cols=164  Identities=9%  Similarity=-0.063  Sum_probs=119.0

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCH-----HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCC--CcC--hH
Q 006388          343 SWTALVSGYAKFGKANETIDLFEKMLSHGLKPDE-----VTLIGVLSACSRAGLVEKGRHYFEIMVKEYGI--RPI--HD  413 (647)
Q Consensus       343 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-----~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~--~p~--~~  413 (647)
                      .+...+..+...|++++|++.+++..+.....+.     ..+..+...+...|++++|...++...+...-  .+.  ..
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            3444566777888888888888887765322111     12333455667788999999998887643111  111  45


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHhC----CCCCC-----hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCC------Cc
Q 006388          414 HYTCMIDILSRAGRLEEAKSFINKM----PFPPD-----AIGWATLLSSCRIHGNVEIGKWAAESLLELDPY------NP  478 (647)
Q Consensus       414 ~~~~li~~~~~~g~~~~A~~~~~~~----~~~p~-----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~------~~  478 (647)
                      .|+.+...|...|++++|.+.++++    ...|+     ..++..+...|...|++++|...+++++++.+.      -.
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            7888899999999999999988776    11222     258888999999999999999999998876432      15


Q ss_pred             hhHHHHHHhhhhCCChhHH-HHHHHHHHh
Q 006388          479 ASYVLLSSIYASKGKWDHV-SQLRRTMRE  506 (647)
Q Consensus       479 ~~~~~l~~~~~~~g~~~~a-~~~~~~m~~  506 (647)
                      .+|..++.+|...|++++| ...+++...
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            6789999999999999999 777777653

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.61  E-value=1.1e-06  Score=81.63  Aligned_cols=183  Identities=8%  Similarity=-0.048  Sum_probs=130.1

Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCc--chhHHHHHHHHHHhcCCHHHHHHHHhhcC--CC-Chh---hHHH
Q 006388          275 DFTLGSVISSCANLASLEEGTQFHGRSLVTGLIS--FITVSNALVTFYGKCGNIEDSHRLFNEMN--VR-DEV---SWTA  346 (647)
Q Consensus       275 ~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~li~~~~~~g~~~~A~~~~~~~~--~~-d~~---~~~~  346 (647)
                      ...+......+...|++++|...+..+++.....  ....+..+..+|.+.|++++|...|++..  .| +..   +|..
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            3455566677888999999999999999864221  24567778999999999999999999976  23 222   4555


Q ss_pred             HHHHHHH------------------cCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhcCCcHHHHHHHHHHHHHhcC
Q 006388          347 LVSGYAK------------------FGKANETIDLFEKMLSHGLKPDEV-TLIGVLSACSRAGLVEKGRHYFEIMVKEYG  407 (647)
Q Consensus       347 li~~~~~------------------~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~  407 (647)
                      +..++..                  .|++++|+..|++..+.  .|+.. ....              ......+...  
T Consensus        84 ~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~P~~~~a~~a--------------~~~l~~~~~~--  145 (225)
T 2yhc_A           84 RGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG--YPNSQYTTDA--------------TKRLVFLKDR--  145 (225)
T ss_dssp             HHHHHHHHHC--------------CCHHHHHHHHHHHHHHTT--CTTCTTHHHH--------------HHHHHHHHHH--
T ss_pred             HHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH--CcCChhHHHH--------------HHHHHHHHHH--
Confidence            5555554                  57899999999999985  45543 2111              1111111100  


Q ss_pred             CCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC----hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCc
Q 006388          408 IRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPPD----AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNP  478 (647)
Q Consensus       408 ~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~  478 (647)
                         .......+...|.+.|++++|...|+++ ...|+    ...+..+..++.+.|+.++|+..++++....|++.
T Consensus       146 ---~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~~~~  218 (225)
T 2yhc_A          146 ---LAKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSSNTL  218 (225)
T ss_dssp             ---HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCSCCC
T ss_pred             ---HHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCch
Confidence               0112235677889999999999999887 33343    35688899999999999999999999998888754

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.60  E-value=2e-06  Score=83.34  Aligned_cols=156  Identities=8%  Similarity=-0.008  Sum_probs=80.8

Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCC--CChhhHHH-HHHHHHHc
Q 006388          278 LGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNV--RDEVSWTA-LVSGYAKF  354 (647)
Q Consensus       278 ~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~d~~~~~~-li~~~~~~  354 (647)
                      +..+...+...|++++|...++.+.+.. +.+...+..+...|.+.|++++|...|+++..  |+...... ....+.+.
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            3334444445555555555555555443 33445555666666666777777777766652  22222111 12224455


Q ss_pred             CChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHH
Q 006388          355 GKANETIDLFEKMLSHGLKPD-EVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKS  433 (647)
Q Consensus       355 g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~  433 (647)
                      ++.++|+..|++....  .|+ ...+..+..++...|++++|...|+.+.+...-..+...+..++..|...|+.++|..
T Consensus       199 ~~~~~a~~~l~~al~~--~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~a~~  276 (287)
T 3qou_A          199 AADTPEIQQLQQQVAE--NPEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGTGDALAS  276 (287)
T ss_dssp             HTSCHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCTTCHHHH
T ss_pred             cccCccHHHHHHHHhc--CCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCCCCcHHH
Confidence            5566666666666553  333 3355555556666666666666666665442111224455555555555555555554


Q ss_pred             HHH
Q 006388          434 FIN  436 (647)
Q Consensus       434 ~~~  436 (647)
                      .++
T Consensus       277 ~~r  279 (287)
T 3qou_A          277 XYR  279 (287)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            443

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.60  E-value=3.6e-07  Score=78.05  Aligned_cols=96  Identities=14%  Similarity=0.008  Sum_probs=84.7

Q ss_pred             hHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhh
Q 006388          412 HDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYA  489 (647)
Q Consensus       412 ~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  489 (647)
                      ...+..+...+.+.|++++|...|++. ...| +...|..+..++...|++++|+..++++++++|+++..+..++.+|.
T Consensus        18 ~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~   97 (142)
T 2xcb_A           18 LEQLYALGFNQYQAGKWDDAQKIFQALCMLDHYDARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPRFPFHAAECHL   97 (142)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Confidence            455667778888999999999999887 3344 57889999999999999999999999999999999999999999999


Q ss_pred             hCCChhHHHHHHHHHHhC
Q 006388          490 SKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       490 ~~g~~~~a~~~~~~m~~~  507 (647)
                      ..|++++|.+.+++..+.
T Consensus        98 ~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           98 QLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHh
Confidence            999999999999988763

>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=98.60  E-value=2.5e-06  Score=78.34  Aligned_cols=143  Identities=6%  Similarity=-0.058  Sum_probs=83.1

Q ss_pred             HHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHH
Q 006388          315 ALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEK  394 (647)
Q Consensus       315 ~li~~~~~~g~~~~A~~~~~~~~~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~  394 (647)
                      .+...+...|++++|.+.|++...++...|..+...|...|++++|+..|++..+.. +.+...+..+..++...|++++
T Consensus        11 ~~g~~~~~~~~~~~A~~~~~~a~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~   89 (213)
T 1hh8_A           11 NEGVLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKYDL   89 (213)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHcCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcccHHH
Confidence            445556666777777777766665566666666666666666666666666665532 2233355555555555666666


Q ss_pred             HHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHhcc
Q 006388          395 GRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKMPFPPD-AIGWATLLSSCRIHGNVEIGKWAAESLLEL  473 (647)
Q Consensus       395 a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  473 (647)
                      |...|+...+...-.+...        +...|           +...|+ ...|..+...+...|++++|...+++++++
T Consensus        90 A~~~~~~al~~~~~~~~~~--------~~~~~-----------~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  150 (213)
T 1hh8_A           90 AIKDLKEALIQLRGNQLID--------YKILG-----------LQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM  150 (213)
T ss_dssp             HHHHHHHHHHTTTTCSEEE--------CGGGT-----------BCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhCCCccHHH--------HHHhc-----------cccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHc
Confidence            6665555543211100000        00000           011222 366777888888888888888888888888


Q ss_pred             CCCC
Q 006388          474 DPYN  477 (647)
Q Consensus       474 ~p~~  477 (647)
                      .|++
T Consensus       151 ~p~~  154 (213)
T 1hh8_A          151 KSEP  154 (213)
T ss_dssp             CCSG
T ss_pred             Cccc
Confidence            8865

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.59  E-value=1.1e-06  Score=80.52  Aligned_cols=185  Identities=14%  Similarity=0.022  Sum_probs=115.1

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHh
Q 006388          243 WTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGK  322 (647)
Q Consensus       243 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  322 (647)
                      +-.....+...|++++|+..|++....  .|+......... .   ..              .........+.+...|.+
T Consensus         7 ~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~-~---~~--------------~~~~~~~~~~~lg~~~~~   66 (208)
T 3urz_A            7 MLQKVSAAIEAGQNGQAVSYFRQTIAL--NIDRTEMYYWTN-V---DK--------------NSEISSKLATELALAYKK   66 (208)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--CHHHHHHHHHHH-S---CT--------------TSHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHhh-h---cc--------------hhhhhHHHHHHHHHHHHH
Confidence            334455667778888888888877764  344322111100 0   00              001122233457778888


Q ss_pred             cCCHHHHHHHHhhcC---CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhcCCc--HHHHH
Q 006388          323 CGNIEDSHRLFNEMN---VRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPD-EVTLIGVLSACSRAGL--VEKGR  396 (647)
Q Consensus       323 ~g~~~~A~~~~~~~~---~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~--~~~a~  396 (647)
                      .|++++|...|++..   ..++..|..+...|...|++++|+..|++..+.  .|+ ..++..+..++...|.  .+.+.
T Consensus        67 ~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~~~~~~~~~~  144 (208)
T 3urz_A           67 NRNYDKAYLFYKELLQKAPNNVDCLEACAEMQVCRGQEKDALRMYEKILQL--EADNLAANIFLGNYYYLTAEQEKKKLE  144 (208)
T ss_dssp             TTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHHhHHHHHHHH
Confidence            888888888888765   346778888888888889999999999888874  454 4467777666655443  34445


Q ss_pred             HHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCChhhHHHHHH
Q 006388          397 HYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPPDAIGWATLLS  452 (647)
Q Consensus       397 ~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~ll~  452 (647)
                      ..++...   ...|....+..+...+...|++++|...|++. ...|+......+..
T Consensus       145 ~~~~~~~---~~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~P~~~~~~~l~~  198 (208)
T 3urz_A          145 TDYKKLS---SPTKMQYARYRDGLSKLFTTRYEKARNSLQKVILRFPSTEAQKTLDK  198 (208)
T ss_dssp             HHHC------CCCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTTSCCHHHHHHHHH
T ss_pred             HHHHHHh---CCCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCHHHHHHHHH
Confidence            5554442   22333333444566677788999999999887 67788666555544

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.57  E-value=3.3e-05  Score=74.62  Aligned_cols=227  Identities=10%  Similarity=0.050  Sum_probs=155.8

Q ss_pred             ChhHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhccC--ChHHHHHHHHHHHHhCCCcchhHHHHHHHHH----Hhc---C
Q 006388          255 CSEEAVKIFCNMQRNGIEPDDF-TLGSVISSCANLA--SLEEGTQFHGRSLVTGLISFITVSNALVTFY----GKC---G  324 (647)
Q Consensus       255 ~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~----~~~---g  324 (647)
                      ..++|++++..+...  .|+.. .++.--.++...+  .++++...+..++... +.+..+|+.-...+    .+.   +
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            334566666666553  34432 3344444444455  6666666666666554 22333343333333    333   6


Q ss_pred             CHHHHHHHHhhcC---CCChhhHHHHHHHHHHcCChH--HHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCc------HH
Q 006388          325 NIEDSHRLFNEMN---VRDEVSWTALVSGYAKFGKAN--ETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGL------VE  393 (647)
Q Consensus       325 ~~~~A~~~~~~~~---~~d~~~~~~li~~~~~~g~~~--~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~------~~  393 (647)
                      ++++++++++.+.   .++..+|+--.-.+.+.|.++  ++++.++++.+.. .-|...|..-.....+.+.      ++
T Consensus       125 ~~~~EL~~~~~~l~~~pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d-~~N~sAW~~R~~ll~~l~~~~~~~~~~  203 (306)
T 3dra_A          125 DPYREFDILEAMLSSDPKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTD-LKNNSAWSHRFFLLFSKKHLATDNTID  203 (306)
T ss_dssp             CTHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHSSGGGCCHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccchhhhHH
Confidence            7888888888776   457778888888888888888  9999999999864 2355566666666666665      89


Q ss_pred             HHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHH-HHHHHHhC-CC----CCChhhHHHHHHHHHhcCChhHHHHHH
Q 006388          394 KGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEE-AKSFINKM-PF----PPDAIGWATLLSSCRIHGNVEIGKWAA  467 (647)
Q Consensus       394 ~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~-A~~~~~~~-~~----~p~~~~~~~ll~~~~~~~~~~~a~~~~  467 (647)
                      +++++++.++..  .+-|...|+.+..++.+.|+..+ +.++..+. ..    ..+...+..+...+.+.|+.++|.+++
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            999999988864  34577888888889999988544 55677765 22    236788999999999999999999999


Q ss_pred             HHHhc-cCCCCchhHHHHHHh
Q 006388          468 ESLLE-LDPYNPASYVLLSSI  487 (647)
Q Consensus       468 ~~~~~-~~p~~~~~~~~l~~~  487 (647)
                      +.+.+ .+|.....+...++.
T Consensus       282 ~~l~~~~Dpir~~yW~~~~~~  302 (306)
T 3dra_A          282 DLLKSKYNPIRSNFWDYQISK  302 (306)
T ss_dssp             HHHHHTTCGGGHHHHHHHHHT
T ss_pred             HHHHhccChHHHHHHHHHHhh
Confidence            99986 799877766655443

>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=98.57  E-value=3.5e-06  Score=77.44  Aligned_cols=172  Identities=9%  Similarity=-0.069  Sum_probs=122.7

Q ss_pred             HHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCC-CChhhHHHHHHHHHHcC----ChHHHHHHHHHHH
Q 006388          294 GTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNV-RDEVSWTALVSGYAKFG----KANETIDLFEKML  368 (647)
Q Consensus       294 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-~d~~~~~~li~~~~~~g----~~~~A~~~~~~m~  368 (647)
                      |.+.+....+.|   ++..+..|..+|...+++++|.+.|++... .++.++..|...|.. +    ++++|+..|++..
T Consensus         5 A~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~   80 (212)
T 3rjv_A            5 PGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQGDGDALALLAQLKIR-NPQQADYPQARQLAEKAV   80 (212)
T ss_dssp             TTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHH
Confidence            444455555443   445556666777777777777777776653 356677777777766 5    7888888888887


Q ss_pred             HCCCCCCHHHHHHHHHHHhc----CCcHHHHHHHHHHHHHhcCCCcC---hHHHHHHHHHHHH----cCCHHHHHHHHHh
Q 006388          369 SHGLKPDEVTLIGVLSACSR----AGLVEKGRHYFEIMVKEYGIRPI---HDHYTCMIDILSR----AGRLEEAKSFINK  437 (647)
Q Consensus       369 ~~g~~p~~~t~~~ll~a~~~----~g~~~~a~~~~~~~~~~~~~~p~---~~~~~~li~~~~~----~g~~~~A~~~~~~  437 (647)
                      +.|   +...+..+...+..    .+++++|..+|+...+   ..|.   +..+..|..+|..    .+++++|.++|++
T Consensus        81 ~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~---~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~  154 (212)
T 3rjv_A           81 EAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAAR---DSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKG  154 (212)
T ss_dssp             HTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTS---STTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHH
T ss_pred             HCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHH---cCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHH
Confidence            754   55566667777766    7889999999888764   2332   6778888888888    7889999999988


Q ss_pred             C-CCCCChhhHHHHHHHHHhc-C-----ChhHHHHHHHHHhccCC
Q 006388          438 M-PFPPDAIGWATLLSSCRIH-G-----NVEIGKWAAESLLELDP  475 (647)
Q Consensus       438 ~-~~~p~~~~~~~ll~~~~~~-~-----~~~~a~~~~~~~~~~~p  475 (647)
                      . ...++...+..|...|... |     +.++|...++++.+.+.
T Consensus       155 A~~~~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          155 SSSLSRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             HHHTSCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             HHHcCCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            7 3334566777777777653 3     89999999999887764

>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=98.55  E-value=9.2e-07  Score=77.41  Aligned_cols=127  Identities=9%  Similarity=0.009  Sum_probs=94.3

Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHH
Q 006388          378 TLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCR  455 (647)
Q Consensus       378 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~  455 (647)
                      .+..+...+...|++++|...|+...+.  .+.+...+..+...+...|++++|.+.+++. ...| +...|..+...+.
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            3444555666677777777777766653  1234566777777788888888888887766 2233 4778888888899


Q ss_pred             hcCChhHHHHHHHHHhccCCCCchhHHHHH--HhhhhCCChhHHHHHHHHHHh
Q 006388          456 IHGNVEIGKWAAESLLELDPYNPASYVLLS--SIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       456 ~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~--~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      ..|++++|...++++++..|.++..+..+.  ..+...|++++|.+.++...+
T Consensus        93 ~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  145 (166)
T 1a17_A           93 ALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRS  145 (166)
T ss_dssp             HTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHcccchHH
Confidence            999999999999999999998887775444  448888999999999887653

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.54  E-value=1.1e-06  Score=72.56  Aligned_cols=114  Identities=18%  Similarity=0.234  Sum_probs=80.1

Q ss_pred             HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CC-CCChhhHHHHHHHH
Q 006388          377 VTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PF-PPDAIGWATLLSSC  454 (647)
Q Consensus       377 ~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~ll~~~  454 (647)
                      ..+..+...+...|++++|.++++.+.+.  .+.+...+..+...+.+.|++++|..+++++ .. +.+..+|..+...+
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            34555556666666666666666666543  1234556667777777777777777777766 22 23567778888888


Q ss_pred             HhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCC
Q 006388          455 RIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKG  492 (647)
Q Consensus       455 ~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  492 (647)
                      ...|++++|...++++++..|.++..+..++.++...|
T Consensus        88 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  125 (125)
T 1na0_A           88 YKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAKQKQG  125 (125)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHC
T ss_pred             HHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhcc
Confidence            88888888888888888888888888888877766543

>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=98.52  E-value=2.6e-07  Score=89.28  Aligned_cols=190  Identities=9%  Similarity=-0.057  Sum_probs=119.0

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHH
Q 006388          310 ITVSNALVTFYGKCGNIEDSHRLFNEMN---VRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPD-EVTLIGVLSA  385 (647)
Q Consensus       310 ~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a  385 (647)
                      ...+..+...+.+.|++++|...|++..   ..+...|..+...|.+.|++++|+..+++..+.  .|+ ...+..+..+
T Consensus         4 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~   81 (281)
T 2c2l_A            4 AQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALEL--DGQSVKAHFFLGQC   81 (281)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--CTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCCHHHHHHHHHH
Confidence            3445556666777777777777777654   335667777777777788888888888777764  343 4466677777


Q ss_pred             HhcCCcHHHHHHHHHHHHHhcCCCcCh-HHHHHHHHHHHHcCCHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHH
Q 006388          386 CSRAGLVEKGRHYFEIMVKEYGIRPIH-DHYTCMIDILSRAGRLEEAKSFINKMPFPPDAIGWATLLSSCRIHGNVEIGK  464 (647)
Q Consensus       386 ~~~~g~~~~a~~~~~~~~~~~~~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~  464 (647)
                      +...|++++|...|+...+.   .|+. ..+...+....+.+....... .......++......+ ..+ ..|+.++|.
T Consensus        82 ~~~~g~~~~A~~~~~~al~l---~p~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~i~~~l-~~l-~~~~~~~A~  155 (281)
T 2c2l_A           82 QLEMESYDEAIANLQRAYSL---AKEQRLNFGDDIPSALRIAKKKRWNS-IEERRIHQESELHSYL-TRL-IAAEREREL  155 (281)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---HHHTTCCCCSHHHHHHHHHHHHHHHH-HHHTCCCCCCHHHHHH-HHH-HHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHh---CccchhhHHHHHHHHHHHHHHHHHHH-HHHHHHhhhHHHHHHH-HHH-HHHHHHHHH
Confidence            77888888888887776543   1211 011111111111111111111 2222333344444333 333 268889999


Q ss_pred             HHHHHHhccCCCCchhHHHHHHhhhhC-CChhHHHHHHHHHHhC
Q 006388          465 WAAESLLELDPYNPASYVLLSSIYASK-GKWDHVSQLRRTMREK  507 (647)
Q Consensus       465 ~~~~~~~~~~p~~~~~~~~l~~~~~~~-g~~~~a~~~~~~m~~~  507 (647)
                      +.++++++.+|++......+...+... +++++|.++|.+..+.
T Consensus       156 ~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~~  199 (281)
T 2c2l_A          156 EECQRNHEGHEDDGHIRAQQACIEAKHDKYMADMDELFSQVDEK  199 (281)
T ss_dssp             TTTSGGGTTTSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSCT
T ss_pred             HHHHhhhccccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            999999999998887777887777776 7799999999887653

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.50  E-value=1e-06  Score=73.33  Aligned_cols=115  Identities=12%  Similarity=-0.015  Sum_probs=85.4

Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHH
Q 006388          378 TLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCR  455 (647)
Q Consensus       378 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~  455 (647)
                      .+..+...+...|++++|...|+...+.  .+.+...+..+...+...|++++|.+.+++. ...| +...|..+...+.
T Consensus        14 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (131)
T 2vyi_A           14 RLKTEGNEQMKVENFEAAVHFYGKAIEL--NPANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGLALS   91 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHHHHH
Confidence            4555556666677777777777766653  2234566777777777788888887777766 2233 4677888888888


Q ss_pred             hcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCCh
Q 006388          456 IHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKW  494 (647)
Q Consensus       456 ~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  494 (647)
                      ..|++++|...++++++..|+++..+..++.++...|++
T Consensus        92 ~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           92 SLNKHVEAVAYYKKALELDPDNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTTC
T ss_pred             HhCCHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHhcC
Confidence            899999999999999999998888888888888887775

>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=98.50  E-value=6.4e-07  Score=89.01  Aligned_cols=144  Identities=15%  Similarity=0.060  Sum_probs=104.9

Q ss_pred             ChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHH
Q 006388          340 DEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMI  419 (647)
Q Consensus       340 d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li  419 (647)
                      +...|..+...|.+.|++++|+..|++..+.  .|+...+           ..+.+.+. .        +-....|..+.
T Consensus       146 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~~-----------~~~~~~~~-~--------~~~~~~~~nla  203 (336)
T 1p5q_A          146 QSTIVKERGTVYFKEGKYKQALLQYKKIVSW--LEYESSF-----------SNEEAQKA-Q--------ALRLASHLNLA  203 (336)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--TTTCCCC-----------CSHHHHHH-H--------HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--hhccccC-----------ChHHHHHH-H--------HHHHHHHHHHH
Confidence            3455666666677777777777777766653  2221000           00111110 0        00145778888


Q ss_pred             HHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHH
Q 006388          420 DILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHV  497 (647)
Q Consensus       420 ~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a  497 (647)
                      .+|.+.|++++|.+.++++ ...| +...|..+..++...|++++|+..++++++++|+++.++..++.++...|++++|
T Consensus       204 ~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a  283 (336)
T 1p5q_A          204 MCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIRRQLAR  283 (336)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            8999999999999998887 3344 5788999999999999999999999999999999999999999999999999999


Q ss_pred             -HHHHHHHH
Q 006388          498 -SQLRRTMR  505 (647)
Q Consensus       498 -~~~~~~m~  505 (647)
                       ...++.|.
T Consensus       284 ~~~~~~~~~  292 (336)
T 1p5q_A          284 EKKLYANMF  292 (336)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence             45666664

>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=98.46  E-value=1e-06  Score=73.23  Aligned_cols=96  Identities=13%  Similarity=0.059  Sum_probs=83.1

Q ss_pred             hHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhh
Q 006388          412 HDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYA  489 (647)
Q Consensus       412 ~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  489 (647)
                      ...+..+...+.+.|++++|.+.|++. ...| +...|..+..++...|++++|+..++++++++|+++..+..++.+|.
T Consensus         4 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~   83 (126)
T 3upv_A            4 AEEARLEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQI   83 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHH
Confidence            356677778888899999999988877 3344 57889999999999999999999999999999999999999999999


Q ss_pred             hCCChhHHHHHHHHHHhC
Q 006388          490 SKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       490 ~~g~~~~a~~~~~~m~~~  507 (647)
                      ..|++++|.+.+++..+.
T Consensus        84 ~~~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           84 AVKEYASALETLDAARTK  101 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HHhCHHHHHHHHHHHHHh
Confidence            999999999999988763

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.45  E-value=1.1e-06  Score=73.52  Aligned_cols=111  Identities=9%  Similarity=-0.003  Sum_probs=60.2

Q ss_pred             HHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhc
Q 006388          380 IGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIH  457 (647)
Q Consensus       380 ~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~  457 (647)
                      ..+...+...|++++|...|+...+.  .+.+...+..+...|...|++++|.+.+++. ...| +...|..+...+...
T Consensus        20 ~~~~~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~   97 (133)
T 2lni_A           20 KNKGNECFQKGDYPQAMKHYTEAIKR--NPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAAALEAM   97 (133)
T ss_dssp             HHHHHHHHHTTCSHHHHHHHHHHHTT--CTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHH
Confidence            33333344444444444444443321  1112334444444444455555555544443 1122 355666677777777


Q ss_pred             CChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCC
Q 006388          458 GNVEIGKWAAESLLELDPYNPASYVLLSSIYASKG  492 (647)
Q Consensus       458 ~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  492 (647)
                      |++++|...++++++.+|.+...+..++.++...|
T Consensus        98 ~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~  132 (133)
T 2lni_A           98 KDYTKAMDVYQKALDLDSSCKEAADGYQRCMMAQY  132 (133)
T ss_dssp             TCHHHHHHHHHHHHHHCGGGTHHHHHHHHHHHHHT
T ss_pred             hhHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhc
Confidence            77777777777777777777777777777766555

>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=98.45  E-value=2.3e-05  Score=76.05  Aligned_cols=159  Identities=14%  Similarity=-0.037  Sum_probs=119.1

Q ss_pred             HHHHHHHhcCCHHHHHHHHhhcCCC---Ch-----h-hHHHHHHHHHHcCChHHHHHHHHHHHHCCCC-CC----HHHHH
Q 006388          315 ALVTFYGKCGNIEDSHRLFNEMNVR---DE-----V-SWTALVSGYAKFGKANETIDLFEKMLSHGLK-PD----EVTLI  380 (647)
Q Consensus       315 ~li~~~~~~g~~~~A~~~~~~~~~~---d~-----~-~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~----~~t~~  380 (647)
                      ..+..+...|++++|.+.+++....   +.     . .+..+...+...|++++|+..|++....... ++    ..+++
T Consensus        80 ~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~  159 (293)
T 3u3w_A           80 DQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIEN  159 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHH
Confidence            3467788899999999999886532   11     1 2334666667778999999999999884322 23    22688


Q ss_pred             HHHHHHhcCCcHHHHHHHHHHHHHhc----CCCcC-hHHHHHHHHHHHHcCCHHHHHHHHHhC-------CCCCC-hhhH
Q 006388          381 GVLSACSRAGLVEKGRHYFEIMVKEY----GIRPI-HDHYTCMIDILSRAGRLEEAKSFINKM-------PFPPD-AIGW  447 (647)
Q Consensus       381 ~ll~a~~~~g~~~~a~~~~~~~~~~~----~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~-------~~~p~-~~~~  447 (647)
                      .+...|...|++++|..+|+.+.+..    +..+. ..+|..+...|.+.|++++|.+.+++.       +..+. ..+|
T Consensus       160 ~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~  239 (293)
T 3u3w_A          160 AIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLY  239 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHH
Confidence            88899999999999999999887422    12222 347888999999999999999998876       12222 6788


Q ss_pred             HHHHHHHHhcCC-hhHHHHHHHHHhcc
Q 006388          448 ATLLSSCRIHGN-VEIGKWAAESLLEL  473 (647)
Q Consensus       448 ~~ll~~~~~~~~-~~~a~~~~~~~~~~  473 (647)
                      ..+..++...|+ +++|...+++++++
T Consensus       240 ~~lg~~~~~~g~~~~~A~~~~~~Al~i  266 (293)
T 3u3w_A          240 YQRGECLRKLEYEEAEIEDAYKKASFF  266 (293)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHHH
Confidence            899999999995 69999999987754

>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=98.45  E-value=4.6e-07  Score=80.62  Aligned_cols=120  Identities=9%  Similarity=0.047  Sum_probs=91.7

Q ss_pred             hcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHH-HHhcCCh--h
Q 006388          387 SRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSS-CRIHGNV--E  461 (647)
Q Consensus       387 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~-~~~~~~~--~  461 (647)
                      ...|++++|...++...+.  .+.+...+..+...|...|++++|.+.++++ ...| +...|..+... +...|++  +
T Consensus        21 ~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~l~~~~~~~~~~   98 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRA--NPQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGENAELYAALATVLYYQASQHMTA   98 (177)
T ss_dssp             C-----CCCCHHHHHHHHH--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCCCH
T ss_pred             hhccCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCcchH
Confidence            4456777777777777654  2345677788888888888888888888776 2233 56677778877 7788888  9


Q ss_pred             HHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHhCC
Q 006388          462 IGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREKG  508 (647)
Q Consensus       462 ~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g  508 (647)
                      +|...++++++.+|.++..+..++.+|...|++++|...+++..+..
T Consensus        99 ~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  145 (177)
T 2e2e_A           99 QTRAMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQKVMDLN  145 (177)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhC
Confidence            99999999999999999999999999999999999999999887743

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.44  E-value=6.4e-06  Score=80.01  Aligned_cols=162  Identities=14%  Similarity=-0.065  Sum_probs=117.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhhcCC--C-Ch------hhHHHHHHHHHHcCChHHHHHHHHHHHHCCC---CCC--HH
Q 006388          312 VSNALVTFYGKCGNIEDSHRLFNEMNV--R-DE------VSWTALVSGYAKFGKANETIDLFEKMLSHGL---KPD--EV  377 (647)
Q Consensus       312 ~~~~li~~~~~~g~~~~A~~~~~~~~~--~-d~------~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~---~p~--~~  377 (647)
                      .+...+..+...|++++|.+.+++...  + ..      ..+..+...+...|++++|+..+++..+...   .+.  ..
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            444567778888999999888875431  1 11      2234455667778899999999999876321   122  34


Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHH---hcCCCcC--hHHHHHHHHHHHHcCCHHHHHHHHHhC-C------CCCC-h
Q 006388          378 TLIGVLSACSRAGLVEKGRHYFEIMVK---EYGIRPI--HDHYTCMIDILSRAGRLEEAKSFINKM-P------FPPD-A  444 (647)
Q Consensus       378 t~~~ll~a~~~~g~~~~a~~~~~~~~~---~~~~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~~-~------~~p~-~  444 (647)
                      ++..+...|...|++++|..+|+...+   ..+..+.  ...+..+...|.+.|++++|.+.+++. .      .... .
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            788888899999999999999998873   2222221  258888999999999999999998876 1      1111 6


Q ss_pred             hhHHHHHHHHHhcCChhHH-HHHHHHHhcc
Q 006388          445 IGWATLLSSCRIHGNVEIG-KWAAESLLEL  473 (647)
Q Consensus       445 ~~~~~ll~~~~~~~~~~~a-~~~~~~~~~~  473 (647)
                      .+|..+...+...|++++| ...+++++++
T Consensus       237 ~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~~  266 (293)
T 2qfc_A          237 QLYYQRGECLRKLEYEEAEIEDAYKKASFF  266 (293)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCcHHHHHHHHHHHHHH
Confidence            6788899999999999999 7778877643

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.40  E-value=6.9e-07  Score=73.78  Aligned_cols=94  Identities=14%  Similarity=0.007  Sum_probs=81.8

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhC
Q 006388          414 HYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASK  491 (647)
Q Consensus       414 ~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  491 (647)
                      .+..+...+.+.|++++|...+++. ...| +...|..+..++...|++++|+..++++++++|+++..+..++.+|...
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~~~   98 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNE   98 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHc
Confidence            3455677788999999999999887 3445 5888999999999999999999999999999999999999999999999


Q ss_pred             CChhHHHHHHHHHHhC
Q 006388          492 GKWDHVSQLRRTMREK  507 (647)
Q Consensus       492 g~~~~a~~~~~~m~~~  507 (647)
                      |++++|...+++..+.
T Consensus        99 g~~~~A~~~~~~al~~  114 (121)
T 1hxi_A           99 HNANAALASLRAWLLS  114 (121)
T ss_dssp             HHHHHHHHHHHHHHC-
T ss_pred             CCHHHHHHHHHHHHHh
Confidence            9999999999988763

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.39  E-value=1.1e-06  Score=75.72  Aligned_cols=98  Identities=9%  Similarity=-0.043  Sum_probs=69.3

Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHH
Q 006388          378 TLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCR  455 (647)
Q Consensus       378 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~  455 (647)
                      .+..+...+.+.|++++|...|+...+.  -+.+...|..+..+|.+.|++++|.+.|+++ ...| ++..|..+..++.
T Consensus        38 ~~~~lg~~~~~~g~~~eA~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~~~~~lg~~~~  115 (151)
T 3gyz_A           38 DIYSYAYDFYNKGRIEEAEVFFRFLCIY--DFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTPVFHTGQCQL  115 (151)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcHHHHHHHHHHH
Confidence            4555556666677777777777766643  1234566777777777777777777777776 3344 3667788888888


Q ss_pred             hcCChhHHHHHHHHHhccCCCC
Q 006388          456 IHGNVEIGKWAAESLLELDPYN  477 (647)
Q Consensus       456 ~~~~~~~a~~~~~~~~~~~p~~  477 (647)
                      ..|++++|+..+++++++.|++
T Consensus       116 ~lg~~~eA~~~~~~al~l~~~~  137 (151)
T 3gyz_A          116 RLKAPLKAKECFELVIQHSNDE  137 (151)
T ss_dssp             HTTCHHHHHHHHHHHHHHCCCH
T ss_pred             HcCCHHHHHHHHHHHHHhCCCH
Confidence            8888888888888888888754

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.38  E-value=1.5e-06  Score=69.99  Aligned_cols=98  Identities=11%  Similarity=0.024  Sum_probs=78.8

Q ss_pred             hHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCC--CchhHHHHHHh
Q 006388          412 HDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPY--NPASYVLLSSI  487 (647)
Q Consensus       412 ~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~--~~~~~~~l~~~  487 (647)
                      ...+..+...+.+.|++++|...+++. ...| +...|..+...+...|++++|...++++++..|.  ++..+..++.+
T Consensus         6 ~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~~   85 (112)
T 2kck_A            6 PEEYYLEGVLQYDAGNYTESIDLFEKAIQLDPEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKADA   85 (112)
T ss_dssp             TTGGGGHHHHHHSSCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHHHH
Confidence            345566777777788888888887776 2223 5677888888888899999999999999999998  88899999999


Q ss_pred             hhhC-CChhHHHHHHHHHHhCCC
Q 006388          488 YASK-GKWDHVSQLRRTMREKGV  509 (647)
Q Consensus       488 ~~~~-g~~~~a~~~~~~m~~~g~  509 (647)
                      |... |++++|.+.+++..+..-
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~~p  108 (112)
T 2kck_A           86 LRYIEGKEVEAEIAEARAKLEHH  108 (112)
T ss_dssp             HTTCSSCSHHHHHHHHHHGGGCC
T ss_pred             HHHHhCCHHHHHHHHHHHhhccc
Confidence            9999 999999999998876543

>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=98.38  E-value=6.2e-07  Score=77.15  Aligned_cols=107  Identities=10%  Similarity=-0.047  Sum_probs=79.8

Q ss_pred             CCCHH-HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHH
Q 006388          373 KPDEV-TLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWAT  449 (647)
Q Consensus       373 ~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~  449 (647)
                      .|+.. .+..+...+...|++++|...|+.....  -+.+...|..+..+|...|++++|.+.|++. ...| +...|..
T Consensus        17 ~p~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~   94 (148)
T 2vgx_A           17 SSDTLEQLYSLAFNQYQSGXYEDAHXVFQALCVL--DHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIXEPRFPFH   94 (148)
T ss_dssp             CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHH
T ss_pred             CHhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHc--CcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHH
Confidence            44333 5555666777788888888888877653  2335667777888888888888888888876 3334 4677888


Q ss_pred             HHHHHHhcCChhHHHHHHHHHhccCCCCchhH
Q 006388          450 LLSSCRIHGNVEIGKWAAESLLELDPYNPASY  481 (647)
Q Consensus       450 ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~  481 (647)
                      +..++...|++++|+..+++++++.|+++...
T Consensus        95 lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~  126 (148)
T 2vgx_A           95 AAECLLQXGELAEAESGLFLAQELIANXPEFX  126 (148)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHTTCGGGH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCcCCCcch
Confidence            88888999999999999999999988776553

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.37  E-value=1.4e-06  Score=76.45  Aligned_cols=96  Identities=13%  Similarity=0.071  Sum_probs=69.5

Q ss_pred             ChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhh
Q 006388          411 IHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIY  488 (647)
Q Consensus       411 ~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  488 (647)
                      +...+..+...+.+.|++++|.+.|++. ...| +...|..+..++...|++++|+..++++++++|+++..|..++.+|
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~   89 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIAPANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSKAWSRLGLAR   89 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            3455666667777777777777777665 2333 4667777777777777777777777777777777777777777777


Q ss_pred             hhCCChhHHHHHHHHHHh
Q 006388          489 ASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       489 ~~~g~~~~a~~~~~~m~~  506 (647)
                      ...|++++|.+.+++..+
T Consensus        90 ~~~g~~~~A~~~~~~al~  107 (164)
T 3sz7_A           90 FDMADYKGAKEAYEKGIE  107 (164)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHccCHHHHHHHHHHHHH
Confidence            777888777777777765

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=98.37  E-value=3e-06  Score=71.46  Aligned_cols=98  Identities=13%  Similarity=0.023  Sum_probs=84.8

Q ss_pred             cChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHh
Q 006388          410 PIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSI  487 (647)
Q Consensus       410 p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  487 (647)
                      .+...+..+...+...|++++|...|++. ...| +...|..+...+...|++++|...++++++++|+++..+..++.+
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~   86 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQC   86 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHHHH
Confidence            45677888888888889999998888876 3334 477888999999999999999999999999999999999999999


Q ss_pred             hhhCCChhHHHHHHHHHHhC
Q 006388          488 YASKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       488 ~~~~g~~~~a~~~~~~m~~~  507 (647)
                      |...|++++|...+++..+.
T Consensus        87 ~~~~~~~~~A~~~~~~a~~~  106 (137)
T 3q49_B           87 QLEMESYDEAIANLQRAYSL  106 (137)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHHH
Confidence            99999999999999988763

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.37  E-value=5.9e-06  Score=78.04  Aligned_cols=181  Identities=10%  Similarity=-0.030  Sum_probs=118.7

Q ss_pred             hcCCHHHHHHHHhhcC---CCChhhHHHH-------HHHHHHcCChHHHHHHHHHHHHCCCCCCH---------------
Q 006388          322 KCGNIEDSHRLFNEMN---VRDEVSWTAL-------VSGYAKFGKANETIDLFEKMLSHGLKPDE---------------  376 (647)
Q Consensus       322 ~~g~~~~A~~~~~~~~---~~d~~~~~~l-------i~~~~~~g~~~~A~~~~~~m~~~g~~p~~---------------  376 (647)
                      ..++.+.|.+.|.++.   ......|+.+       ...+...++..+++..+.+-..  +.|+.               
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            4677777777777765   2245567766       4555555555555555554433  23321               


Q ss_pred             -------HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCC----hh
Q 006388          377 -------VTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKMPFPPD----AI  445 (647)
Q Consensus       377 -------~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~----~~  445 (647)
                             .....+...+...|++++|.+.|+.+..   ..|+......+...+.+.|++++|+..|+.....|+    ..
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 YPVTSPLAITMGFAACEAAQGNYADAMEALEAAPV---AGSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWPDKFLAGA  172 (282)
T ss_dssp             EECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCC---TTCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCSCHHHHHH
T ss_pred             cccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCCchHHHHHHHHHHHHcCCHHHHHHHHHHhhccCCcccHHH
Confidence                   1223345566777888888888876653   234433555666677888888888888876643333    23


Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHhccC--CC-CchhHHHHHHhhhhCCChhHHHHHHHHHHhC
Q 006388          446 GWATLLSSCRIHGNVEIGKWAAESLLELD--PY-NPASYVLLSSIYASKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       446 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--p~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  507 (647)
                      .+..+..++...|++++|+..+++.....  |. .+.....++.++.+.|+.++|..+|+++...
T Consensus       173 a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~  237 (282)
T 4f3v_A          173 AGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT  237 (282)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            66777778888888888888888877433  43 3456777888888888888888888888763

>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=98.35  E-value=1.3e-06  Score=72.88  Aligned_cols=94  Identities=7%  Similarity=-0.031  Sum_probs=80.7

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCc-------hhHHH
Q 006388          413 DHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNP-------ASYVL  483 (647)
Q Consensus       413 ~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~-------~~~~~  483 (647)
                      ..+..+...+.+.|++++|++.|++. .+.| +...|..+..+|...|++++|+..++++++++|++.       .+|..
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            45667888899999999999999887 4455 478899999999999999999999999999988654       36778


Q ss_pred             HHHhhhhCCChhHHHHHHHHHHh
Q 006388          484 LSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       484 l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      ++.+|...|++++|.+.+++..+
T Consensus        89 lg~~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           89 AGNAFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHh
Confidence            88999999999999999998765

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.34  E-value=5.4e-06  Score=75.25  Aligned_cols=59  Identities=10%  Similarity=0.014  Sum_probs=29.5

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHhccCC--CC----chhHHHHHHhhhhCCChhHHHHHHHHHH
Q 006388          447 WATLLSSCRIHGNVEIGKWAAESLLELDP--YN----PASYVLLSSIYASKGKWDHVSQLRRTMR  505 (647)
Q Consensus       447 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~p--~~----~~~~~~l~~~~~~~g~~~~a~~~~~~m~  505 (647)
                      +..+...+...|++++|...++++++..+  .+    ..++..++.+|...|++++|.+.+++..
T Consensus       110 ~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al  174 (203)
T 3gw4_A          110 AYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKNLLEAQQHWLRAR  174 (203)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHH
Confidence            44444445555555555555555443211  11    1224556666666666666666665554

>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=98.34  E-value=2.6e-06  Score=77.34  Aligned_cols=168  Identities=11%  Similarity=-0.023  Sum_probs=102.2

Q ss_pred             HHhcCCHHHHHHHHhhcCCC---ChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHH
Q 006388          320 YGKCGNIEDSHRLFNEMNVR---DEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGR  396 (647)
Q Consensus       320 ~~~~g~~~~A~~~~~~~~~~---d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~  396 (647)
                      ....|+++++.+.++.-...   ....|..+...+...|++++|+..|++..+.  .|+...+...        ....  
T Consensus        14 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~--------~~~~--   81 (198)
T 2fbn_A           14 RENLYFQGAKKSIYDYTDEEKVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDF--FIHTEEWDDQ--------ILLD--   81 (198)
T ss_dssp             --------CCCSGGGCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--TTTCTTCCCH--------HHHH--
T ss_pred             hhhhhhccccCchhhCCHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--Hhcccccchh--------hHHH--
Confidence            33445555555555432211   3445666677777778888888877777763  2221100000        0000  


Q ss_pred             HHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccC
Q 006388          397 HYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELD  474 (647)
Q Consensus       397 ~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  474 (647)
                           -..    ......|..+..+|.+.|++++|...+++. ...| +...|..+..++...|++++|...++++++++
T Consensus        82 -----~~~----~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~  152 (198)
T 2fbn_A           82 -----KKK----NIEISCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLN  152 (198)
T ss_dssp             -----HHH----HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             -----HHH----HHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC
Confidence                 000    001356777888888899999999888877 3334 57788899999999999999999999999999


Q ss_pred             CCCchhHHHHHHhhhhCCChhHHH-HHHHHHHhCC
Q 006388          475 PYNPASYVLLSSIYASKGKWDHVS-QLRRTMREKG  508 (647)
Q Consensus       475 p~~~~~~~~l~~~~~~~g~~~~a~-~~~~~m~~~g  508 (647)
                      |.++..+..+..++...|+.+++. ..+..|...|
T Consensus       153 p~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~f~~~  187 (198)
T 2fbn_A          153 PNNLDIRNSYELCVNKLKEARKKDKLTFGGMFDKG  187 (198)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHHC-------------
T ss_pred             CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            999999999999999988888877 5566665443

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=98.32  E-value=0.00025  Score=69.31  Aligned_cols=228  Identities=9%  Similarity=-0.034  Sum_probs=136.7

Q ss_pred             HHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCCcchHHHHHHHHhCCC-ChHHHHHHHHHHHHhCCCCchhhHHHHHHHH
Q 006388            9 WNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRR-CVDLGRQIHGHILKFGFGSYVFVGSPLVDMY   87 (647)
Q Consensus         9 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~   87 (647)
                      |+.+-....+.+..++|++++++++...  |.+...|+.--..+...+ .++++....+.++... +.+..+++.-..++
T Consensus        57 ~~~~r~~~~~~e~se~AL~lt~~~L~~n--P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL  133 (349)
T 3q7a_A           57 MDYFRAIAAKEEKSERALELTEIIVRMN--PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLL  133 (349)
T ss_dssp             HHHHHHHHHTTCCSHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHhC--chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHH
Confidence            4444444555666678888888888776  556666777666666666 4788888888887765 45666666666665


Q ss_pred             Hhc-C-ChHHHHHHhccCCCCCchHHHHHHHHHHhcCChHHHHHHhhcCCCCCeehHHHHHHHHHhCCChh--------H
Q 006388           88 AKL-G-LIYDAKRGFDELPEKNIVMYNTMITGLLRRGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLER--------E  157 (647)
Q Consensus        88 ~~~-g-~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~--------~  157 (647)
                      .+. + +++++..+++.+.+.|.                            +|..+|+.-.-.+.+.|.++        +
T Consensus       134 ~~l~~~~~~~EL~~~~k~L~~dp----------------------------kNy~AW~~R~wvl~~l~~~~~~~~~~~~e  185 (349)
T 3q7a_A          134 DRISPQDPVSEIEYIHGSLLPDP----------------------------KNYHTWAYLHWLYSHFSTLGRISEAQWGS  185 (349)
T ss_dssp             HHHCCSCCHHHHHHHHHHTSSCT----------------------------TCHHHHHHHHHHHHHHHHTTCCCHHHHHH
T ss_pred             HHhcCCChHHHHHHHHHHHHhCC----------------------------CCHHHHHHHHHHHHHhccccccchhhHHH
Confidence            555 5 66777777776664322                            13333333333333333333        6


Q ss_pred             HHHHHHHHHHCCCCCChhhHHHHHHHHhcCCC-------hHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCH-----
Q 006388          158 AIDLFREMRLEGLAMDQFTFGSVLTACGGLLA-------LEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSI-----  225 (647)
Q Consensus       158 A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~-------~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~-----  225 (647)
                      +++.+.++.+..+. |...|+.....+.+.+.       ++++.+....+++.. +.|...|+.+-..+.+.|+-     
T Consensus       186 ELe~~~k~I~~dp~-N~SAW~~R~~lL~~l~~~~~~~~~~~eELe~~~~aI~~~-P~n~SaW~Ylr~Ll~~~~~~~~~~~  263 (349)
T 3q7a_A          186 ELDWCNEMLRVDGR-NNSAWGWRWYLRVSRPGAETSSRSLQDELIYILKSIHLI-PHNVSAWNYLRGFLKHFSLPLVPIL  263 (349)
T ss_dssp             HHHHHHHHHHHCTT-CHHHHHHHHHHHTTSTTCCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCSGGGH
T ss_pred             HHHHHHHHHHhCCC-CHHHHHHHHHHHHhccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCCccccc
Confidence            67777777665432 55556555555555554       456666666666654 45666676666666665542     


Q ss_pred             ---------------HHHHHHHhcCCC---------CChhHHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 006388          226 ---------------KYAESVFRTMAW---------KNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRN  269 (647)
Q Consensus       226 ---------------~~A~~~~~~~~~---------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  269 (647)
                                     ........++..         +.+.++..|+..|...|+.++|.++++.+.+.
T Consensus       264 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~~  331 (349)
T 3q7a_A          264 PAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTPLPVPLALEYLADSFIEQNRVDDAAKVFEKLSSE  331 (349)
T ss_dssp             HHHGGGTC--------------CCCCC-CCCSSCCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             ccccccccccccccchhHHHHHHHHHhcccccccCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHhh
Confidence                           223333333321         34567778888888888888888888887643

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.31  E-value=3.8e-06  Score=70.13  Aligned_cols=99  Identities=9%  Similarity=0.040  Sum_probs=89.5

Q ss_pred             CcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHH
Q 006388          409 RPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSS  486 (647)
Q Consensus       409 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~  486 (647)
                      +.+...+..+...+.+.|++++|.+.+++. ...| +...|..+...+...|++++|...++++++..|.++..+..++.
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~   92 (133)
T 2lni_A           13 PDLALMVKNKGNECFQKGDYPQAMKHYTEAIKRNPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAA   92 (133)
T ss_dssp             SCHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHH
Confidence            345678888999999999999999999987 4455 57889999999999999999999999999999999999999999


Q ss_pred             hhhhCCChhHHHHHHHHHHhC
Q 006388          487 IYASKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       487 ~~~~~g~~~~a~~~~~~m~~~  507 (647)
                      +|...|++++|.+.+++..+.
T Consensus        93 ~~~~~~~~~~A~~~~~~~~~~  113 (133)
T 2lni_A           93 ALEAMKDYTKAMDVYQKALDL  113 (133)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHh
Confidence            999999999999999998764

>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=98.31  E-value=4.6e-06  Score=67.82  Aligned_cols=94  Identities=7%  Similarity=0.089  Sum_probs=59.4

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhh
Q 006388          413 DHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYAS  490 (647)
Q Consensus       413 ~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  490 (647)
                      ..+..+...+...|++++|.+.+++. ...| +...|..+...+...|++++|...++++++..|.++..+..++.+|..
T Consensus         5 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~   84 (118)
T 1elw_A            5 NELKEKGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEF   84 (118)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHHHHHH
Confidence            34555555666666666666666655 2222 455666666666666666667666666666666666666666677777


Q ss_pred             CCChhHHHHHHHHHHh
Q 006388          491 KGKWDHVSQLRRTMRE  506 (647)
Q Consensus       491 ~g~~~~a~~~~~~m~~  506 (647)
                      .|++++|.+.+++..+
T Consensus        85 ~~~~~~A~~~~~~~~~  100 (118)
T 1elw_A           85 LNRFEEAKRTYEEGLK  100 (118)
T ss_dssp             TTCHHHHHHHHHHHHT
T ss_pred             HhhHHHHHHHHHHHHH
Confidence            7777777766666554

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.30  E-value=4.2e-06  Score=68.81  Aligned_cols=96  Identities=21%  Similarity=0.336  Sum_probs=87.0

Q ss_pred             hHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhh
Q 006388          412 HDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYA  489 (647)
Q Consensus       412 ~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  489 (647)
                      ...+..+...+.+.|++++|.++++++ ...| +..+|..+...+...|++++|...++++.+..|.++..+..++.+|.
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~   88 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYY   88 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHH
Confidence            567888899999999999999999987 2233 57889999999999999999999999999999999999999999999


Q ss_pred             hCCChhHHHHHHHHHHhC
Q 006388          490 SKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       490 ~~g~~~~a~~~~~~m~~~  507 (647)
                      ..|++++|.+.++++.+.
T Consensus        89 ~~~~~~~A~~~~~~~~~~  106 (125)
T 1na0_A           89 KQGDYDEAIEYYQKALEL  106 (125)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHh
Confidence            999999999999998764

>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=98.30  E-value=8.9e-06  Score=66.06  Aligned_cols=109  Identities=16%  Similarity=0.096  Sum_probs=77.2

Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHH
Q 006388          378 TLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCR  455 (647)
Q Consensus       378 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~  455 (647)
                      .+..+...+...|++++|...|+.....  .+.+...+..+...+.+.|++++|.+.+++. ...| +...|..+...+.
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            4455555666667777777777766543  1234566777777777778888887777766 2233 4677888888888


Q ss_pred             hcCChhHHHHHHHHHhccCCCCchhHHHHHHhh
Q 006388          456 IHGNVEIGKWAAESLLELDPYNPASYVLLSSIY  488 (647)
Q Consensus       456 ~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  488 (647)
                      ..|++++|...++++++.+|+++..+..++.+.
T Consensus        84 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~  116 (118)
T 1elw_A           84 FLNRFEEAKRTYEEGLKHEANNPQLKEGLQNME  116 (118)
T ss_dssp             HTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHH
T ss_pred             HHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHhh
Confidence            888999999999999888888877776665543

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.30  E-value=2.6e-06  Score=72.57  Aligned_cols=104  Identities=13%  Similarity=-0.046  Sum_probs=75.7

Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHH
Q 006388          378 TLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCR  455 (647)
Q Consensus       378 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~  455 (647)
                      .+..+...+.+.|++++|...|+.....  -+.+...|..+..+|.+.|++++|...|++. ...| +...|..+..++.
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            4444555667777777777777777653  2335567777778888888888888888776 3334 4667778888888


Q ss_pred             hcCChhHHHHHHHHHhccCCCCchhHHH
Q 006388          456 IHGNVEIGKWAAESLLELDPYNPASYVL  483 (647)
Q Consensus       456 ~~~~~~~a~~~~~~~~~~~p~~~~~~~~  483 (647)
                      ..|++++|...+++++++.|+++.....
T Consensus        98 ~~g~~~~A~~~~~~al~~~p~~~~~~~~  125 (142)
T 2xcb_A           98 QLGDLDGAESGFYSARALAAAQPAHEAL  125 (142)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHTCGGGHHH
T ss_pred             HcCCHHHHHHHHHHHHHhCCCCcchHHH
Confidence            8899999999999988888877665544

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.29  E-value=1.5e-05  Score=75.32  Aligned_cols=182  Identities=6%  Similarity=-0.119  Sum_probs=98.8

Q ss_pred             cCCChhHHHHHHHHHHHCCCCCCCcchHHHHH-------HHHhCCCChHHHHHHHHHHHHhCCCCc--------------
Q 006388           18 SHGSVNDAVKVYNLMLKDGLGNLSRITFSTML-------IMSSSRRCVDLGRQIHGHILKFGFGSY--------------   76 (647)
Q Consensus        18 ~~g~~~~A~~~~~~m~~~g~~~~~~~~~~~ll-------~~~~~~~~~~~a~~~~~~~~~~g~~~~--------------   76 (647)
                      ..+++..|++.|.+..+..  |.....|..++       .++.+.+...++...+...  .++.|+              
T Consensus        18 ~~~d~~~A~~~F~~a~~~d--P~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~--l~l~p~~l~a~~~~~g~y~~   93 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYD--ESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGS--VQISMSTLNARIAIGGLYGD   93 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHT--TTCCGGGGCCEEECCTTTCC
T ss_pred             cCCCHHHHHHHHHHHHHhC--hhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHH--hcCChhhhhhhhccCCcccc
Confidence            5789999999999999876  56666777663       2222222222222222221  222222              


Q ss_pred             --------hhhHHHHHHHHHhcCChHHHHHHhccCCC--CCchHHHHHHHHHHhcCChHHHHHHhhcCCCCC-----eeh
Q 006388           77 --------VFVGSPLVDMYAKLGLIYDAKRGFDELPE--KNIVMYNTMITGLLRRGLVEESRRLFRGMKDKD-----SIS  141 (647)
Q Consensus        77 --------~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-----~~~  141 (647)
                              ..+.-.+..++...|++++|.++|+.+..  |+....-.+...+.+.+++++|+..|+......     ...
T Consensus        94 ~~~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~d~~~~~~a  173 (282)
T 4f3v_A           94 ITYPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAGSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWPDKFLAGAA  173 (282)
T ss_dssp             CEEECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTTCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCSCHHHHHHH
T ss_pred             cccccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHcCCHHHHHHHHHHhhccCCcccHHHH
Confidence                    11223455666677777777777777764  322244444445666666666666666444321     124


Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHCCCCCC--hhhHHHHHHHHhcCCChHHHHHHHHHHHHc
Q 006388          142 WTTMITGLMQNGLEREAIDLFREMRLEGLAMD--QFTFGSVLTACGGLLALEEGKQIHAFIIRN  203 (647)
Q Consensus       142 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd--~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~  203 (647)
                      +..+-.++.+.|++++|+..|++.......|.  .........++.+.|+.++|...++.+...
T Consensus       174 ~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~  237 (282)
T 4f3v_A          174 GVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT  237 (282)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            55555666666666666666666553222133  113334444455566666666666666554

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.27  E-value=1.7e-05  Score=67.58  Aligned_cols=110  Identities=10%  Similarity=-0.015  Sum_probs=69.9

Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcC----hHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHH
Q 006388          378 TLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPI----HDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLL  451 (647)
Q Consensus       378 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll  451 (647)
                      .+..+...+...|++++|...|+...+   ..|+    ...+..+...|...|++++|.+.+++. ...| +...|..+.
T Consensus        30 ~~~~~a~~~~~~~~~~~A~~~~~~a~~---~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a  106 (148)
T 2dba_A           30 QLRKEGNELFKCGDYGGALAAYTQALG---LDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALYRRS  106 (148)
T ss_dssp             HHHHHHHHHHTTTCHHHHHHHHHHHHT---SCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHH---HcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHHHHH
Confidence            444444555555555555555555542   2333    455566666666677777777666655 2233 466777777


Q ss_pred             HHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhh
Q 006388          452 SSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYAS  490 (647)
Q Consensus       452 ~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  490 (647)
                      .++...|++++|...++++++++|+++..+..+..+..+
T Consensus       107 ~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~  145 (148)
T 2dba_A          107 QALEKLGRLDQAVLDLQRCVSLEPKNKVFQEALRNISGP  145 (148)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHCS
T ss_pred             HHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHhh
Confidence            778888888888888888888888777776666655443

>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=98.26  E-value=6.1e-06  Score=73.22  Aligned_cols=127  Identities=7%  Similarity=0.053  Sum_probs=96.7

Q ss_pred             HHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHH-HHHcCCH--
Q 006388          352 AKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDI-LSRAGRL--  428 (647)
Q Consensus       352 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~-~~~~g~~--  428 (647)
                      ...|++++|+..+++..+.. +.+...+..+...+...|++++|...|+...+..  +.+...+..+..+ +...|++  
T Consensus        21 ~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~la~~l~~~~~~~~~   97 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR--GENAELYAALATVLYYQASQHMT   97 (177)
T ss_dssp             C-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--CSCHHHHHHHHHHHHHHTTTCCC
T ss_pred             hhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHhcCCcch
Confidence            45678888888888877642 3355677888888888999999999998887642  2356677788888 7788998  


Q ss_pred             HHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhH
Q 006388          429 EEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASY  481 (647)
Q Consensus       429 ~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~  481 (647)
                      ++|...++++ ...| +...|..+...+...|++++|...++++++..|+++...
T Consensus        98 ~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~  152 (177)
T 2e2e_A           98 AQTRAMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQKVMDLNSPRINRT  152 (177)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTSCHH
T ss_pred             HHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCCCCccHH
Confidence            9999999887 3344 477888899999999999999999999999999875443

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.25  E-value=7.3e-06  Score=69.93  Aligned_cols=98  Identities=10%  Similarity=-0.027  Sum_probs=89.5

Q ss_pred             cChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC----hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHH
Q 006388          410 PIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPPD----AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLL  484 (647)
Q Consensus       410 p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l  484 (647)
                      .+...+..+...+.+.|++++|.+.|++. ...|+    ...|..+...+...|++++|+..++++++..|+++..+..+
T Consensus        26 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~  105 (148)
T 2dba_A           26 SSVEQLRKEGNELFKCGDYGGALAAYTQALGLDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALYRR  105 (148)
T ss_dssp             CCHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHHHH
Confidence            35678888999999999999999999987 56676    67888999999999999999999999999999999999999


Q ss_pred             HHhhhhCCChhHHHHHHHHHHhC
Q 006388          485 SSIYASKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       485 ~~~~~~~g~~~~a~~~~~~m~~~  507 (647)
                      +.+|...|++++|.+.+++..+.
T Consensus       106 a~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A          106 SQALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHc
Confidence            99999999999999999998764

>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=98.25  E-value=5.6e-06  Score=68.67  Aligned_cols=108  Identities=10%  Similarity=-0.092  Sum_probs=73.7

Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHH
Q 006388          378 TLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCR  455 (647)
Q Consensus       378 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~  455 (647)
                      .+......+.+.|++++|...|+...+.  .+.+...|..+..+|.+.|++++|.+.+++. ...| +...|..+..++.
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            3444555566666777777776666543  1234566777777777777777777777766 3334 3667788888888


Q ss_pred             hcCChhHHHHHHHHHhccC------CCCchhHHHHHHh
Q 006388          456 IHGNVEIGKWAAESLLELD------PYNPASYVLLSSI  487 (647)
Q Consensus       456 ~~~~~~~a~~~~~~~~~~~------p~~~~~~~~l~~~  487 (647)
                      ..|++++|...++++++++      |.++.....+..+
T Consensus        84 ~~~~~~~A~~~~~~al~~~p~~~~~p~~~~~~~~l~~~  121 (126)
T 3upv_A           84 AVKEYASALETLDAARTKDAEVNNGSSAREIDQLYYKA  121 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHHHTTTTHHHHHHHHHHH
T ss_pred             HHhCHHHHHHHHHHHHHhCcccCCchhHHHHHHHHHHH
Confidence            8888888888888888888      7666666555544

>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=98.24  E-value=2e-05  Score=68.68  Aligned_cols=127  Identities=9%  Similarity=-0.028  Sum_probs=70.2

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHH
Q 006388          343 SWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDIL  422 (647)
Q Consensus       343 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~  422 (647)
                      .|..+...+...|++++|...|++..+.. +.+...+..+..++...|++++|...++...+.  .+.+...+..+...+
T Consensus        15 ~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~a~~~   91 (166)
T 1a17_A           15 ELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIEL--DKKYIKGYYRRAASN   91 (166)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHH
Confidence            34445555556666666666666655531 223445555556666666666666666666543  123445566666666


Q ss_pred             HHcCCHHHHHHHHHhC-CCCC-ChhhHH--HHHHHHHhcCChhHHHHHHHHHhc
Q 006388          423 SRAGRLEEAKSFINKM-PFPP-DAIGWA--TLLSSCRIHGNVEIGKWAAESLLE  472 (647)
Q Consensus       423 ~~~g~~~~A~~~~~~~-~~~p-~~~~~~--~ll~~~~~~~~~~~a~~~~~~~~~  472 (647)
                      ...|++++|.+.++++ ...| +...+.  .++..+...|++++|...+++..+
T Consensus        92 ~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  145 (166)
T 1a17_A           92 MALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRS  145 (166)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHcccchHH
Confidence            6666666666666655 2222 233332  223335556677777776665543

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.23  E-value=7.8e-06  Score=71.36  Aligned_cols=64  Identities=9%  Similarity=0.035  Sum_probs=58.2

Q ss_pred             hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHhC
Q 006388          444 AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       444 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  507 (647)
                      ...|..+..++...|++++|+..++++++++|.++.+|..++.+|...|++++|...+++..+.
T Consensus        63 ~~~~~nla~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  126 (162)
T 3rkv_A           63 IPLYANMSQCYLNIGDLHEAEETSSEVLKREETNEKALFRRAKARIAAWKLDEAEEDLKLLLRN  126 (162)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc
Confidence            4678888889999999999999999999999999999999999999999999999999987763

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.22  E-value=6.6e-06  Score=72.01  Aligned_cols=107  Identities=13%  Similarity=-0.034  Sum_probs=82.1

Q ss_pred             HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHH
Q 006388          377 VTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSC  454 (647)
Q Consensus       377 ~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~  454 (647)
                      ..+..+...+...|++++|...|+...+..  +.+...|..+..+|.+.|++++|++.+++. ...| +...|..+..++
T Consensus        12 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~   89 (164)
T 3sz7_A           12 DKLKSEGNAAMARKEYSKAIDLYTQALSIA--PANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSKAWSRLGLAR   89 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            355566667777777777777777776531  235677778888888888888888888776 3344 477889999999


Q ss_pred             HhcCChhHHHHHHHHHhccCCCCchhHHHHH
Q 006388          455 RIHGNVEIGKWAAESLLELDPYNPASYVLLS  485 (647)
Q Consensus       455 ~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~  485 (647)
                      ...|++++|...++++++++|+++..+...+
T Consensus        90 ~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~  120 (164)
T 3sz7_A           90 FDMADYKGAKEAYEKGIEAEGNGGSDAMKRG  120 (164)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHSSSCCHHHHHH
T ss_pred             HHccCHHHHHHHHHHHHHhCCCchHHHHHHH
Confidence            9999999999999999999999887665443

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.22  E-value=2e-05  Score=71.35  Aligned_cols=47  Identities=15%  Similarity=0.022  Sum_probs=23.8

Q ss_pred             cCCHHHHHH---HHhcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHH
Q 006388          222 CKSIKYAES---VFRTMAWKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQR  268 (647)
Q Consensus       222 ~g~~~~A~~---~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  268 (647)
                      .|++++|.+   .+..-+.....+++.+...+...|++++|+..|++...
T Consensus         5 ~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~   54 (203)
T 3gw4_A            5 AHDYALAERQAQALLAHPATASGARFMLGYVYAFMDRFDEARASFQALQQ   54 (203)
T ss_dssp             --CHHHHHHHHHHHHTSTTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cccHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHH
Confidence            455555555   44332223344555556666666666666666655543

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.21  E-value=6.7e-06  Score=68.21  Aligned_cols=97  Identities=15%  Similarity=0.125  Sum_probs=87.6

Q ss_pred             ChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhh
Q 006388          411 IHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIY  488 (647)
Q Consensus       411 ~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  488 (647)
                      +...+..+...+...|++++|.+.+++. ...| +...|..+...+...|++++|...++++++..|.++..+..++.+|
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   90 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIELNPANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGLAL   90 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHHHH
Confidence            4567888889999999999999999987 3334 5788999999999999999999999999999999999999999999


Q ss_pred             hhCCChhHHHHHHHHHHhC
Q 006388          489 ASKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       489 ~~~g~~~~a~~~~~~m~~~  507 (647)
                      ...|++++|.+.+++..+.
T Consensus        91 ~~~~~~~~A~~~~~~~~~~  109 (131)
T 2vyi_A           91 SSLNKHVEAVAYYKKALEL  109 (131)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHhc
Confidence            9999999999999998764

>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=98.21  E-value=1.5e-05  Score=76.79  Aligned_cols=187  Identities=10%  Similarity=-0.038  Sum_probs=109.8

Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhhHHHHHHHHHHc
Q 006388          278 LGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNV---RDEVSWTALVSGYAKF  354 (647)
Q Consensus       278 ~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~d~~~~~~li~~~~~~  354 (647)
                      +..+...+...|++++|...+..+++.. +.+...+..+...|.+.|++++|.+.+++...   .+...|..+..+|...
T Consensus         7 ~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~   85 (281)
T 2c2l_A            7 LKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQCQLEM   85 (281)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHc
Confidence            3333344444444555555444444442 33555666777778888888888888877653   3566788888888999


Q ss_pred             CChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHH
Q 006388          355 GKANETIDLFEKMLSHGLKPDEV-TLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKS  433 (647)
Q Consensus       355 g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~  433 (647)
                      |++++|+..|++..+.  .|+.. .+...+....   ...++... ..... ....++......+...+  .|+.++|.+
T Consensus        86 g~~~~A~~~~~~al~l--~p~~~~~~~~~~~~~~---~~~~~~~~-~~~~~-~~~~~~~~i~~~l~~l~--~~~~~~A~~  156 (281)
T 2c2l_A           86 ESYDEAIANLQRAYSL--AKEQRLNFGDDIPSAL---RIAKKKRW-NSIEE-RRIHQESELHSYLTRLI--AAERERELE  156 (281)
T ss_dssp             TCHHHHHHHHHHHHHH--HHHTTCCCCSHHHHHH---HHHHHHHH-HHHHH-TCCCCCCHHHHHHHHHH--HHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHHh--CccchhhHHHHHHHHH---HHHHHHHH-HHHHH-HHHhhhHHHHHHHHHHH--HHHHHHHHH
Confidence            9999999999887763  22210 1111111111   11112222 22222 24555555555554443  689999999


Q ss_pred             HHHhC-CCCCCh-hhHHHHHHHHHhc-CChhHHHHHHHHHhccC
Q 006388          434 FINKM-PFPPDA-IGWATLLSSCRIH-GNVEIGKWAAESLLELD  474 (647)
Q Consensus       434 ~~~~~-~~~p~~-~~~~~ll~~~~~~-~~~~~a~~~~~~~~~~~  474 (647)
                      .+++. ...|+. .....+...+... +.++++..+|+++.+..
T Consensus       157 ~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~~~  200 (281)
T 2c2l_A          157 ECQRNHEGHEDDGHIRAQQACIEAKHDKYMADMDELFSQVDEKR  200 (281)
T ss_dssp             TTSGGGTTTSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSCTT
T ss_pred             HHHhhhccccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhccc
Confidence            88877 556664 3344444444444 66888999998887643

>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=98.19  E-value=5e-06  Score=70.83  Aligned_cols=92  Identities=12%  Similarity=0.009  Sum_probs=73.2

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-------------hhhHHHHHHHHHhcCChhHHHHHHHHHhcc-------
Q 006388          415 YTCMIDILSRAGRLEEAKSFINKM-PFPPD-------------AIGWATLLSSCRIHGNVEIGKWAAESLLEL-------  473 (647)
Q Consensus       415 ~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-------------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-------  473 (647)
                      +......+.+.|++++|.+.|++. .+.|+             ...|..+..++...|++++|+..+++++++       
T Consensus        14 ~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~   93 (159)
T 2hr2_A           14 ALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGEL   93 (159)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCT
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccC
Confidence            344555566667777777766665 22222             238888999999999999999999999998       


Q ss_pred             CCCCchhH----HHHHHhhhhCCChhHHHHHHHHHHh
Q 006388          474 DPYNPASY----VLLSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       474 ~p~~~~~~----~~l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      +|++...|    ...+.++...|++++|...|++..+
T Consensus        94 ~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAle  130 (159)
T 2hr2_A           94 NQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  130 (159)
T ss_dssp             TSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHh
Confidence            99999999    9999999999999999999998865

>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=98.17  E-value=1.1e-05  Score=83.86  Aligned_cols=145  Identities=16%  Similarity=0.108  Sum_probs=99.1

Q ss_pred             hhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHH
Q 006388          341 EVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMID  420 (647)
Q Consensus       341 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~  420 (647)
                      ...|..+...|.+.|++++|+..|++.++.  .|+...+          . -+...+ ..        .-....|..+..
T Consensus       268 a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~--~p~~~~~----------~-~~~~~~-~~--------~~~~~~~~nla~  325 (457)
T 1kt0_A          268 AAIVKEKGTVYFKGGKYMQAVIQYGKIVSW--LEMEYGL----------S-EKESKA-SE--------SFLLAAFLNLAM  325 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HTTCCSC----------C-HHHHHH-HH--------HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHH--hcccccC----------C-hHHHHH-HH--------HHHHHHHHHHHH
Confidence            445666666677777777777777766652  1221000          0 000000 00        011457888888


Q ss_pred             HHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHH
Q 006388          421 ILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVS  498 (647)
Q Consensus       421 ~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~  498 (647)
                      +|.+.|++++|+..++++ ...| +...|..+..++...|++++|+..++++++++|++..++..++.++...|+++++.
T Consensus       326 ~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a~  405 (457)
T 1kt0_A          326 CYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQISMCQKKAKEHNERD  405 (457)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC----CHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999887 3344 57889999999999999999999999999999999999999999999999998887


Q ss_pred             H-HHHHHHhC
Q 006388          499 Q-LRRTMREK  507 (647)
Q Consensus       499 ~-~~~~m~~~  507 (647)
                      + .+++|..+
T Consensus       406 ~~~~~~~f~k  415 (457)
T 1kt0_A          406 RRIYANMFKK  415 (457)
T ss_dssp             HHHHHHC---
T ss_pred             HHHHHHHHhh
Confidence            5 45555443

>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=98.16  E-value=0.0011  Score=64.82  Aligned_cols=174  Identities=13%  Similarity=0.067  Sum_probs=92.0

Q ss_pred             HHHHhcCChhHHHHHHHHHHHCCCCCCH-HHHHHHHHHHhccC-ChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhc-C
Q 006388          248 VGYGQNGCSEEAVKIFCNMQRNGIEPDD-FTLGSVISSCANLA-SLEEGTQFHGRSLVTGLISFITVSNALVTFYGKC-G  324 (647)
Q Consensus       248 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~a~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~-g  324 (647)
                      ......+..++|++++.++...  .|+. ..++.--.++...+ .++++..++..++... +.+..+|+.-...+.+. +
T Consensus        62 ~~~~~~e~se~AL~lt~~~L~~--nP~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL~~l~~  138 (349)
T 3q7a_A           62 AIAAKEEKSERALELTEIIVRM--NPAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLLDRISP  138 (349)
T ss_dssp             HHHHTTCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHHHCC
T ss_pred             HHHHhCCCCHHHHHHHHHHHHh--CchhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhcC
Confidence            3334445556677777777664  3443 33444444444445 3666666666666544 33444555444444444 4


Q ss_pred             -CHHHHHHHHhhcCCC---ChhhHHHHHHHHHHcCChH--------HHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCc-
Q 006388          325 -NIEDSHRLFNEMNVR---DEVSWTALVSGYAKFGKAN--------ETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGL-  391 (647)
Q Consensus       325 -~~~~A~~~~~~~~~~---d~~~~~~li~~~~~~g~~~--------~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~-  391 (647)
                       ++++++++++.+...   |..+|+--.-.+.+.|.++        ++++.++++.+.. .-|...|+.....+.+.+. 
T Consensus       139 ~~~~~EL~~~~k~L~~dpkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d-p~N~SAW~~R~~lL~~l~~~  217 (349)
T 3q7a_A          139 QDPVSEIEYIHGSLLPDPKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD-GRNNSAWGWRWYLRVSRPGA  217 (349)
T ss_dssp             SCCHHHHHHHHHHTSSCTTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHTTSTTC
T ss_pred             CChHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcccc
Confidence             566777777766633   4455555444444444444        6667777766642 2244455555555555543 


Q ss_pred             ------HHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCC
Q 006388          392 ------VEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGR  427 (647)
Q Consensus       392 ------~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~  427 (647)
                            +++++++++.++..  .+-|...|+.+-.++.+.|+
T Consensus       218 ~~~~~~~~eELe~~~~aI~~--~P~n~SaW~Ylr~Ll~~~~~  257 (349)
T 3q7a_A          218 ETSSRSLQDELIYILKSIHL--IPHNVSAWNYLRGFLKHFSL  257 (349)
T ss_dssp             CCCHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTC
T ss_pred             ccchHHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhcCC
Confidence                  45666666655542  22344555555555555443

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.13  E-value=1.1e-05  Score=67.15  Aligned_cols=91  Identities=13%  Similarity=0.105  Sum_probs=68.2

Q ss_pred             HHHHHHHHcCCHHHHHHHHHhC-CCCCC-h---hhHHHHHHHHHhcCChhHHHHHHHHHhccCCCC---chhHHHHHHhh
Q 006388          417 CMIDILSRAGRLEEAKSFINKM-PFPPD-A---IGWATLLSSCRIHGNVEIGKWAAESLLELDPYN---PASYVLLSSIY  488 (647)
Q Consensus       417 ~li~~~~~~g~~~~A~~~~~~~-~~~p~-~---~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~---~~~~~~l~~~~  488 (647)
                      .+...+.+.|++++|.+.|++. ...|+ .   ..|..+..++...|++++|...++++++..|++   +.++..++.+|
T Consensus         7 ~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~~~   86 (129)
T 2xev_A            7 NVAFDALKNGKYDDASQLFLSFLELYPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLSQ   86 (129)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHH
Confidence            3455666777777777777765 22233 2   467777778888888888888888888888877   66688888888


Q ss_pred             hhCCChhHHHHHHHHHHhC
Q 006388          489 ASKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       489 ~~~g~~~~a~~~~~~m~~~  507 (647)
                      ...|++++|...+++..+.
T Consensus        87 ~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           87 YGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHH
Confidence            8888888888888887763

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.13  E-value=3.3e-05  Score=79.58  Aligned_cols=164  Identities=7%  Similarity=-0.080  Sum_probs=116.2

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHHC-CCCCCHH----HHHHHHHHHhcCCcHHHHHHHHHHHHHh---cCCCc-ChH
Q 006388          343 SWTALVSGYAKFGKANETIDLFEKMLSH-GLKPDEV----TLIGVLSACSRAGLVEKGRHYFEIMVKE---YGIRP-IHD  413 (647)
Q Consensus       343 ~~~~li~~~~~~g~~~~A~~~~~~m~~~-g~~p~~~----t~~~ll~a~~~~g~~~~a~~~~~~~~~~---~~~~p-~~~  413 (647)
                      ++..+...|...|++++|.+.+.++... +..++..    +.+.+-..+...|..+++..+++.....   .+..+ ...
T Consensus        57 al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  136 (434)
T 4b4t_Q           57 SILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHS  136 (434)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHH
Confidence            3566778888888888888888876542 1112221    2222333445678899998888776542   12222 246


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHhC-----C--CCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHhccC---CCC----c
Q 006388          414 HYTCMIDILSRAGRLEEAKSFINKM-----P--FPPD-AIGWATLLSSCRIHGNVEIGKWAAESLLELD---PYN----P  478 (647)
Q Consensus       414 ~~~~li~~~~~~g~~~~A~~~~~~~-----~--~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~---p~~----~  478 (647)
                      .+..+...|...|++++|..++++.     +  .+|. ..++..++..|...|++++|...++++....   +.+    .
T Consensus       137 ~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~  216 (434)
T 4b4t_Q          137 LSIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVA  216 (434)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHH
T ss_pred             HHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHH
Confidence            7888999999999999999998765     1  1222 5678888899999999999999999887653   222    2


Q ss_pred             hhHHHHHHhhhhCCChhHHHHHHHHHHh
Q 006388          479 ASYVLLSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       479 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      ..+..++..+...|++++|...+.+..+
T Consensus       217 ~~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          217 ELDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             HHHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            4567788889999999999998877753

>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=98.12  E-value=1.2e-05  Score=67.68  Aligned_cols=100  Identities=7%  Similarity=-0.132  Sum_probs=66.5

Q ss_pred             CHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHH
Q 006388          375 DEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLS  452 (647)
Q Consensus       375 ~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~  452 (647)
                      +...+..+...+...|++++|...|+...+.  .+.+...+..+...|...|++++|...+++. ...| +...|..+..
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            3445556666666666666666666666543  1234566666777777777777777777665 2233 4667777777


Q ss_pred             HHHhcCChhHHHHHHHHHhccCCC
Q 006388          453 SCRIHGNVEIGKWAAESLLELDPY  476 (647)
Q Consensus       453 ~~~~~~~~~~a~~~~~~~~~~~p~  476 (647)
                      .+...|++++|...+++++++.|+
T Consensus        86 ~~~~~~~~~~A~~~~~~a~~~~p~  109 (137)
T 3q49_B           86 CQLEMESYDEAIANLQRAYSLAKE  109 (137)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHHChh
Confidence            788888888888888888877765

>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=98.12  E-value=5.1e-06  Score=86.67  Aligned_cols=114  Identities=9%  Similarity=0.007  Sum_probs=57.4

Q ss_pred             hcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHH
Q 006388          387 SRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGK  464 (647)
Q Consensus       387 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~  464 (647)
                      .+.|++++|.+.|++..+.  .+.+...|..+..+|.+.|++++|.+.+++. ...| +...|..+..++...|++++|+
T Consensus        17 ~~~g~~~~A~~~~~~Al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~g~~~eA~   94 (477)
T 1wao_1           17 FKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKFRAAL   94 (477)
T ss_dssp             TTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHH
Confidence            3445555555555554432  1122445555555555555555555555544 2233 2445555555555556666666


Q ss_pred             HHHHHHhccCCCCchhHHHHHHh--hhhCCChhHHHHHHH
Q 006388          465 WAAESLLELDPYNPASYVLLSSI--YASKGKWDHVSQLRR  502 (647)
Q Consensus       465 ~~~~~~~~~~p~~~~~~~~l~~~--~~~~g~~~~a~~~~~  502 (647)
                      ..++++++++|+++..+..++.+  +.+.|++++|.+.++
T Consensus        95 ~~~~~al~~~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           95 RDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            66666655555555555555555  555555555555554

>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=98.12  E-value=1.7e-05  Score=82.61  Aligned_cols=112  Identities=10%  Similarity=-0.022  Sum_probs=45.9

Q ss_pred             HcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHH
Q 006388          353 KFGKANETIDLFEKMLSHGLKPD-EVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEA  431 (647)
Q Consensus       353 ~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A  431 (647)
                      +.|++++|++.|++..+.  .|+ ...+..+..++.+.|++++|.+.+++..+.  .+.+...|..+..+|.+.|++++|
T Consensus        18 ~~g~~~~A~~~~~~Al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~lg~~~~~~g~~~eA   93 (477)
T 1wao_1           18 KAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIEL--DKKYIKGYYRRAASNMALGKFRAA   93 (477)
T ss_dssp             TTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--CTTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HhCCHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHH
Confidence            344444444444444442  222 334444444444455555555554444431  122334444445555555555555


Q ss_pred             HHHHHhC-CCCCC-hhhHHHHHHH--HHhcCChhHHHHHHH
Q 006388          432 KSFINKM-PFPPD-AIGWATLLSS--CRIHGNVEIGKWAAE  468 (647)
Q Consensus       432 ~~~~~~~-~~~p~-~~~~~~ll~~--~~~~~~~~~a~~~~~  468 (647)
                      .+.++++ ...|+ ...+..+..+  +...|++++|+..++
T Consensus        94 ~~~~~~al~~~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           94 LRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            5555443 11221 2233333333  444455555555555

>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=98.11  E-value=0.00046  Score=67.03  Aligned_cols=78  Identities=10%  Similarity=0.040  Sum_probs=36.8

Q ss_pred             HHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcC--CHHHHHHHHhhcC---CCChhhHHHHHHHHHHcCC-hHHHHHHHH
Q 006388          292 EEGTQFHGRSLVTGLISFITVSNALVTFYGKCG--NIEDSHRLFNEMN---VRDEVSWTALVSGYAKFGK-ANETIDLFE  365 (647)
Q Consensus       292 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g--~~~~A~~~~~~~~---~~d~~~~~~li~~~~~~g~-~~~A~~~~~  365 (647)
                      +++..++..+.... +-+..+|+.-...+.+.|  .+++++.+++.+.   .+|..+|+--.-.+...|. ++++++.+.
T Consensus        91 ~~EL~~~~~~L~~~-PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~dprNy~AW~~R~~vl~~l~~~~~eel~~~~  169 (331)
T 3dss_A           91 KAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTD  169 (331)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCcCHHHHHHHHH
Confidence            34444444444432 223344443333344444  2555555555544   3344555555555555555 355666666


Q ss_pred             HHHHC
Q 006388          366 KMLSH  370 (647)
Q Consensus       366 ~m~~~  370 (647)
                      ++.+.
T Consensus       170 ~~I~~  174 (331)
T 3dss_A          170 SLITR  174 (331)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            65553

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.07  E-value=2.3e-06  Score=70.11  Aligned_cols=82  Identities=17%  Similarity=0.146  Sum_probs=52.8

Q ss_pred             cCCHHHHHHHHHhC-CC---CCC-hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHH
Q 006388          425 AGRLEEAKSFINKM-PF---PPD-AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQ  499 (647)
Q Consensus       425 ~g~~~~A~~~~~~~-~~---~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~  499 (647)
                      .|++++|+..|++. ..   .|+ ...|..+...+...|++++|+..++++++.+|+++..+..++.+|...|++++|..
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~   82 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQGVE   82 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHHHHH
Confidence            45556666666555 22   232 45666666777777777777777777777777777777777777777777777777


Q ss_pred             HHHHHHh
Q 006388          500 LRRTMRE  506 (647)
Q Consensus       500 ~~~~m~~  506 (647)
                      .+++..+
T Consensus        83 ~~~~al~   89 (117)
T 3k9i_A           83 LLLKIIA   89 (117)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            7776654

>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=98.07  E-value=1.2e-05  Score=66.64  Aligned_cols=96  Identities=10%  Similarity=0.085  Sum_probs=80.3

Q ss_pred             hHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCC-------chhHH
Q 006388          412 HDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYN-------PASYV  482 (647)
Q Consensus       412 ~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~-------~~~~~  482 (647)
                      ...+..+...+...|++++|...+++. ...| +...|..+...+...|++++|...++++++..|.+       +.++.
T Consensus         4 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (131)
T 1elr_A            4 ALKEKELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYA   83 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHH
Confidence            345677778888888888888888876 2233 57788888888999999999999999999887765       78899


Q ss_pred             HHHHhhhhCCChhHHHHHHHHHHhC
Q 006388          483 LLSSIYASKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       483 ~l~~~~~~~g~~~~a~~~~~~m~~~  507 (647)
                      .++.+|...|++++|.+.+++..+.
T Consensus        84 ~la~~~~~~~~~~~A~~~~~~~~~~  108 (131)
T 1elr_A           84 RIGNSYFKEEKYKDAIHFYNKSLAE  108 (131)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHh
Confidence            9999999999999999999998774

>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=98.06  E-value=2.3e-05  Score=77.61  Aligned_cols=112  Identities=17%  Similarity=0.106  Sum_probs=62.1

Q ss_pred             CChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcC--CC-C---------------hhhHHHHHHH
Q 006388          289 ASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMN--VR-D---------------EVSWTALVSG  350 (647)
Q Consensus       289 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~--~~-d---------------~~~~~~li~~  350 (647)
                      ++++.|...+....+.. +.+...+..+...|.+.|++++|...|++..  .| +               ...|..+..+
T Consensus       127 ~~~~~A~~~~~~a~~~~-p~~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~  205 (336)
T 1p5q_A          127 KSFEKAKESWEMNSEEK-LEQSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMC  205 (336)
T ss_dssp             EEEECCCCGGGCCHHHH-HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHH
T ss_pred             eecccccchhcCCHHHH-HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHH
Confidence            44444544444333221 2356778889999999999999999999865  22 2               2445555555


Q ss_pred             HHHcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhcCCcHHHHHHHHHHHH
Q 006388          351 YAKFGKANETIDLFEKMLSHGLKP-DEVTLIGVLSACSRAGLVEKGRHYFEIMV  403 (647)
Q Consensus       351 ~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~  403 (647)
                      |.+.|++++|+..|++.++.  .| +...+..+..++...|++++|...|+...
T Consensus       206 ~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al  257 (336)
T 1p5q_A          206 HLKLQAFSAAIESCNKALEL--DSNNEKGLSRRGEAHLAVNDFELARADFQKVL  257 (336)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            55555555555555555442  22 22344444444444444444444444443

>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=98.05  E-value=0.00076  Score=65.51  Aligned_cols=178  Identities=9%  Similarity=0.041  Sum_probs=133.1

Q ss_pred             HHHHHHHHhhcC---CCChhhHHHHHHHHHHcCC--hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCc-HHHHHHHH
Q 006388          326 IEDSHRLFNEMN---VRDEVSWTALVSGYAKFGK--ANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGL-VEKGRHYF  399 (647)
Q Consensus       326 ~~~A~~~~~~~~---~~d~~~~~~li~~~~~~g~--~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~-~~~a~~~~  399 (647)
                      +++++.+++.+.   .++..+|+.-...+...|+  +++++.+++++.+.. +-|...|+.-...+.+.|. ++++++++
T Consensus        90 l~~EL~~~~~~L~~~PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~d-prNy~AW~~R~~vl~~l~~~~~eel~~~  168 (331)
T 3dss_A           90 VKAELGFLESCLRVNPKSYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFT  168 (331)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCcCHHHHHHHH
Confidence            566777777665   4578889888888888884  899999999999863 3356677776666777777 69999999


Q ss_pred             HHHHHhcCCCcChHHHHHHHHHHHHc--------------CCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhc------
Q 006388          400 EIMVKEYGIRPIHDHYTCMIDILSRA--------------GRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIH------  457 (647)
Q Consensus       400 ~~~~~~~~~~p~~~~~~~li~~~~~~--------------g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~------  457 (647)
                      +.+++.  .+-+...|+....++.+.              +.++++++.+.+. ...| |...|+-+-..+...      
T Consensus       169 ~~~I~~--~p~N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~P~d~SaW~Y~r~ll~~~~~~~~~  246 (331)
T 3dss_A          169 DSLITR--NFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGAGSGRCEL  246 (331)
T ss_dssp             HHHHHH--CSCCHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHSSSCGGGC
T ss_pred             HHHHHH--CCCCHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhccCcccc
Confidence            999875  244667777777666665              4588999998877 3344 688888776666555      


Q ss_pred             -----CChhHHHHHHHHHhccCCCCchhHHHHHHh---hhhCCChhHHHHHHHHHHh
Q 006388          458 -----GNVEIGKWAAESLLELDPYNPASYVLLSSI---YASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       458 -----~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~---~~~~g~~~~a~~~~~~m~~  506 (647)
                           +.++++++.++++++++|++...+..++..   ....|..++....+.++.+
T Consensus       247 ~~~~~~~l~~el~~~~elle~~pd~~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~  303 (331)
T 3dss_A          247 SVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKA  303 (331)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHHHhhCcccchHHHHHHHHHHhhcccccHHHHHHHHHHHHH
Confidence                 457899999999999999986665554432   2346778888888888876

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.04  E-value=1.8e-05  Score=65.17  Aligned_cols=96  Identities=13%  Similarity=0.008  Sum_probs=65.5

Q ss_pred             HHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcC
Q 006388          381 GVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHG  458 (647)
Q Consensus       381 ~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~  458 (647)
                      .+...+.+.|++++|...|+...+.  -+.+...|..+..++.+.|++++|+..+++. ...| +...|..+..++...|
T Consensus        22 ~~g~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~~~g   99 (121)
T 1hxi_A           22 EEGLSMLKLANLAEAALAFEAVCQK--EPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEH   99 (121)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcC
Confidence            3445566677777777777777653  1235567777777788888888888887776 3445 4667888888888888


Q ss_pred             ChhHHHHHHHHHhccCCCCc
Q 006388          459 NVEIGKWAAESLLELDPYNP  478 (647)
Q Consensus       459 ~~~~a~~~~~~~~~~~p~~~  478 (647)
                      ++++|+..++++++.+|.++
T Consensus       100 ~~~~A~~~~~~al~~~P~~~  119 (121)
T 1hxi_A          100 NANAALASLRAWLLSQPQYE  119 (121)
T ss_dssp             HHHHHHHHHHHHHC------
T ss_pred             CHHHHHHHHHHHHHhCcCCC
Confidence            88888888888888888653

>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=98.02  E-value=2.5e-05  Score=64.89  Aligned_cols=100  Identities=9%  Similarity=-0.048  Sum_probs=52.1

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHH
Q 006388          343 SWTALVSGYAKFGKANETIDLFEKMLSHGLKPD-EVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDI  421 (647)
Q Consensus       343 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~  421 (647)
                      +|..+...+.+.|++++|+..|++.++.  .|+ ...|..+..+|...|++++|++.++..++.   .|+          
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~~--~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~---~~~----------   74 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIEL--DPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEV---GRE----------   74 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---HHH----------
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHh---Ccc----------
Confidence            4455555555555555555555555542  233 234444555555555555555555544421   110          


Q ss_pred             HHHcCCHHHHHHHHHhCCCCCC----hhhHHHHHHHHHhcCChhHHHHHHHHHhccCC
Q 006388          422 LSRAGRLEEAKSFINKMPFPPD----AIGWATLLSSCRIHGNVEIGKWAAESLLELDP  475 (647)
Q Consensus       422 ~~~~g~~~~A~~~~~~~~~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p  475 (647)
                                        ..++    ..+|..+..++...|++++|+..++++++..|
T Consensus        75 ------------------~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~kal~~~~  114 (127)
T 4gcn_A           75 ------------------TRADYKLIAKAMSRAGNAFQKQNDLSLAVQWFHRSLSEFR  114 (127)
T ss_dssp             ------------------TTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSC
T ss_pred             ------------------cchhhHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCc
Confidence                              0011    12455566666667777777777777766665

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.01  E-value=3.1e-05  Score=66.84  Aligned_cols=93  Identities=16%  Similarity=0.121  Sum_probs=58.9

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHhC----CCCCC----hhhHHHHHHHHHhcCChhHHHHHHHHHhccCC------CCch
Q 006388          414 HYTCMIDILSRAGRLEEAKSFINKM----PFPPD----AIGWATLLSSCRIHGNVEIGKWAAESLLELDP------YNPA  479 (647)
Q Consensus       414 ~~~~li~~~~~~g~~~~A~~~~~~~----~~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p------~~~~  479 (647)
                      .+..+...+...|++++|.+.+++.    +..++    ...+..+...+...|++++|...++++++..+      ....
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            4445555555566666665555543    10111    34556666667777777777777777665421      1245


Q ss_pred             hHHHHHHhhhhCCChhHHHHHHHHHHh
Q 006388          480 SYVLLSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       480 ~~~~l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      .+..++.+|...|++++|.+.+++..+
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            677888888888999999888887654

>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=98.01  E-value=4.5e-05  Score=63.08  Aligned_cols=106  Identities=8%  Similarity=-0.043  Sum_probs=56.4

Q ss_pred             HHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC----C-CCCC----hhhHHHH
Q 006388          380 IGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM----P-FPPD----AIGWATL  450 (647)
Q Consensus       380 ~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~----~-~~p~----~~~~~~l  450 (647)
                      ..+...+...|++++|...|+...+.  .+.+...+..+...|...|++++|...++++    + ..++    ..+|..+
T Consensus         8 ~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~l   85 (131)
T 1elr_A            8 KELGNDAYKKKDFDTALKHYDKAKEL--DPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARI   85 (131)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHHH
Confidence            33344444445555555555444432  1223344555555555555555555555544    1 1112    4556666


Q ss_pred             HHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhh
Q 006388          451 LSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIY  488 (647)
Q Consensus       451 l~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  488 (647)
                      ...+...|++++|...++++++..| ++.....+..++
T Consensus        86 a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~  122 (131)
T 1elr_A           86 GNSYFKEEKYKDAIHFYNKSLAEHR-TPDVLKKCQQAE  122 (131)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCC-CHHHHHHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHhCC-CHHHHHHHHHHH
Confidence            6677777777777777777777766 455555444443

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.00  E-value=4.3e-05  Score=61.17  Aligned_cols=100  Identities=6%  Similarity=-0.089  Sum_probs=85.2

Q ss_pred             CCCcccHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCCcchHHHHHHHHhCCCChHHHHHHHHHHHHhCCCC--chhhH
Q 006388            3 FHDGVSWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGFGS--YVFVG   80 (647)
Q Consensus         3 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~--~~~~~   80 (647)
                      ..+...|..+...+.+.|++++|...|++..+..  +.+...+..+...+...|++++|...++..++.. +.  +...+
T Consensus         3 p~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~   79 (112)
T 2kck_A            3 DQNPEEYYLEGVLQYDAGNYTESIDLFEKAIQLD--PEESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVW   79 (112)
T ss_dssp             CSSTTGGGGHHHHHHSSCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHH
T ss_pred             CCcHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC--cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHH
Confidence            3456788999999999999999999999998876  6677888889999999999999999999998875 34  57788


Q ss_pred             HHHHHHHHhc-CChHHHHHHhccCCC
Q 006388           81 SPLVDMYAKL-GLIYDAKRGFDELPE  105 (647)
Q Consensus        81 ~~li~~~~~~-g~~~~A~~~~~~~~~  105 (647)
                      ..+...|.+. |++++|.+.|+...+
T Consensus        80 ~~l~~~~~~~~~~~~~A~~~~~~~~~  105 (112)
T 2kck_A           80 AAKADALRYIEGKEVEAEIAEARAKL  105 (112)
T ss_dssp             HHHHHHHTTCSSCSHHHHHHHHHHGG
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHhh
Confidence            8888899999 999999988887663

>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=97.99  E-value=3.9e-05  Score=76.97  Aligned_cols=137  Identities=9%  Similarity=-0.014  Sum_probs=101.6

Q ss_pred             hhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCc-ChHHHHHHHH
Q 006388          342 VSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRP-IHDHYTCMID  420 (647)
Q Consensus       342 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~  420 (647)
                      ..|..+...+.+.|++++|+..|++.++.  .|+..          .....+++.          ...| +...|..+..
T Consensus       224 ~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~--~~~~~----------~~~~~~~~~----------~~~~~~~~~~~nla~  281 (370)
T 1ihg_A          224 EDLKNIGNTFFKSQNWEMAIKKYTKVLRY--VEGSR----------AAAEDADGA----------KLQPVALSCVLNIGA  281 (370)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HHHHH----------HHSCHHHHG----------GGHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHH--hhcCc----------cccChHHHH----------HHHHHHHHHHHHHHH
Confidence            44666677777777777777777776641  01000          000011100          1122 3567888999


Q ss_pred             HHHHcCCHHHHHHHHHhC-CCCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHH
Q 006388          421 ILSRAGRLEEAKSFINKM-PFPPD-AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVS  498 (647)
Q Consensus       421 ~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~  498 (647)
                      +|.+.|++++|++.++++ ...|+ ...|..+..++...|++++|+..++++++++|++...+..+..++...++.+++.
T Consensus       282 ~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~~~~~~~~l~~~~~~~~~~~~a~  361 (370)
T 1ihg_A          282 CKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVKQKIKAQKDKE  361 (370)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhccCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999887 55564 7789999999999999999999999999999999999999999999988888776


Q ss_pred             HH
Q 006388          499 QL  500 (647)
Q Consensus       499 ~~  500 (647)
                      +.
T Consensus       362 k~  363 (370)
T 1ihg_A          362 KA  363 (370)
T ss_dssp             HC
T ss_pred             HH
Confidence            53

>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=97.98  E-value=1.2e-05  Score=68.58  Aligned_cols=71  Identities=11%  Similarity=-0.012  Sum_probs=55.3

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHhC-C-------CCCC-hhhH----HHHHHHHHhcCChhHHHHHHHHHhccCCCCchh
Q 006388          414 HYTCMIDILSRAGRLEEAKSFINKM-P-------FPPD-AIGW----ATLLSSCRIHGNVEIGKWAAESLLELDPYNPAS  480 (647)
Q Consensus       414 ~~~~li~~~~~~g~~~~A~~~~~~~-~-------~~p~-~~~~----~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~  480 (647)
                      .|..+..++.+.|++++|+..+++. .       +.|+ ...|    .....++...|++++|+..|+++++++|++...
T Consensus        59 a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~d~~~  138 (159)
T 2hr2_A           59 CHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGE  138 (159)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCSC
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHH
Confidence            5666666677777777766666554 3       3786 6788    999999999999999999999999999988766


Q ss_pred             HHHH
Q 006388          481 YVLL  484 (647)
Q Consensus       481 ~~~l  484 (647)
                      +..+
T Consensus       139 ~~~~  142 (159)
T 2hr2_A          139 TPGK  142 (159)
T ss_dssp             CTTH
T ss_pred             HHHH
Confidence            5433

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=97.97  E-value=6.9e-05  Score=62.06  Aligned_cols=102  Identities=13%  Similarity=0.039  Sum_probs=63.2

Q ss_pred             HHHHhcCCcHHHHHHHHHHHHHhcCCCcC-hHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC----hhhHHHHHHHHHh
Q 006388          383 LSACSRAGLVEKGRHYFEIMVKEYGIRPI-HDHYTCMIDILSRAGRLEEAKSFINKM-PFPPD----AIGWATLLSSCRI  456 (647)
Q Consensus       383 l~a~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~ll~~~~~  456 (647)
                      ...+...|++++|...|+.+.+...-.+. ...+..+...+.+.|++++|...+++. ...|+    ...+..+..++..
T Consensus         9 a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~~~~~   88 (129)
T 2xev_A            9 AFDALKNGKYDDASQLFLSFLELYPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLSQYG   88 (129)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHH
Confidence            33455566666666666666543211111 135556666777777777777777665 22232    4556777777788


Q ss_pred             cCChhHHHHHHHHHhccCCCCchhHHHH
Q 006388          457 HGNVEIGKWAAESLLELDPYNPASYVLL  484 (647)
Q Consensus       457 ~~~~~~a~~~~~~~~~~~p~~~~~~~~l  484 (647)
                      .|++++|...++++++..|+++......
T Consensus        89 ~g~~~~A~~~~~~~~~~~p~~~~~~~a~  116 (129)
T 2xev_A           89 EGKNTEAQQTLQQVATQYPGSDAARVAQ  116 (129)
T ss_dssp             TTCHHHHHHHHHHHHHHSTTSHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHCCCChHHHHHH
Confidence            8888888888888888888766554433

>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=97.96  E-value=9.3e-05  Score=66.86  Aligned_cols=96  Identities=10%  Similarity=-0.057  Sum_probs=81.2

Q ss_pred             hHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-----------------hhhHHHHHHHHHhcCChhHHHHHHHHHhcc
Q 006388          412 HDHYTCMIDILSRAGRLEEAKSFINKM-PFPPD-----------------AIGWATLLSSCRIHGNVEIGKWAAESLLEL  473 (647)
Q Consensus       412 ~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-----------------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  473 (647)
                      ...+..+...+.+.|++++|.+.|++. ...|+                 ...|..+..++...|++++|+..+++++++
T Consensus        38 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~  117 (198)
T 2fbn_A           38 AFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKI  117 (198)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            345666777788888888888888766 22221                 268888999999999999999999999999


Q ss_pred             CCCCchhHHHHHHhhhhCCChhHHHHHHHHHHhC
Q 006388          474 DPYNPASYVLLSSIYASKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       474 ~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  507 (647)
                      +|+++.++..++.+|...|++++|.+.+++..+.
T Consensus       118 ~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~  151 (198)
T 2fbn_A          118 DKNNVKALYKLGVANMYFGFLEEAKENLYKAASL  151 (198)
T ss_dssp             STTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             CcccHHHHHHHHHHHHHcccHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999998763

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.96  E-value=1.2e-05  Score=79.90  Aligned_cols=147  Identities=11%  Similarity=0.023  Sum_probs=84.8

Q ss_pred             hhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHH
Q 006388          341 EVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMID  420 (647)
Q Consensus       341 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~  420 (647)
                      ...|..+...+.+.|++++|+..|++....  .|+...       +...|+.+++...+.           ...|..+..
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            456777777888889999999999988763  455432       233444444433221           136788889


Q ss_pred             HHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhh-hhCCChhHH
Q 006388          421 ILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIY-ASKGKWDHV  497 (647)
Q Consensus       421 ~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~-~~~g~~~~a  497 (647)
                      +|.+.|++++|+..+++. ...| +...|..+..++...|++++|+..++++++++|+++.++..|..+. ...+..+++
T Consensus       239 ~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a~~~L~~l~~~~~~~~~~a  318 (338)
T 2if4_A          239 CLIKLKRYDEAIGHCNIVLTEEEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELRALAEQEKALYQKQ  318 (338)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC--------------------------
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999887 3445 5788999999999999999999999999999999999998888884 455778888


Q ss_pred             HHHHHHHHhC
Q 006388          498 SQLRRTMREK  507 (647)
Q Consensus       498 ~~~~~~m~~~  507 (647)
                      .+.+++|.+.
T Consensus       319 ~~~~~~~l~~  328 (338)
T 2if4_A          319 KEMYKGIFKG  328 (338)
T ss_dssp             ----------
T ss_pred             HHHHHHhhCC
Confidence            8888887654

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=97.94  E-value=1.1e-05  Score=66.05  Aligned_cols=93  Identities=12%  Similarity=0.054  Sum_probs=63.4

Q ss_pred             CCcHHHHHHHHHHHHHhcC-CCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHH
Q 006388          389 AGLVEKGRHYFEIMVKEYG-IRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKW  465 (647)
Q Consensus       389 ~g~~~~a~~~~~~~~~~~~-~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~  465 (647)
                      .|++++|+..|+...+... -+.+...+..+...|.+.|++++|.+.+++. ...| +...+..+..++...|++++|+.
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~   82 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQGVE   82 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHHHHH
Confidence            4666677777776653200 1223466777777888888888888888776 3334 46778888888888888888988


Q ss_pred             HHHHHhccCCCCchhH
Q 006388          466 AAESLLELDPYNPASY  481 (647)
Q Consensus       466 ~~~~~~~~~p~~~~~~  481 (647)
                      .++++++..|+++...
T Consensus        83 ~~~~al~~~p~~~~~~   98 (117)
T 3k9i_A           83 LLLKIIAETSDDETIQ   98 (117)
T ss_dssp             HHHHHHHHHCCCHHHH
T ss_pred             HHHHHHHhCCCcHHHH
Confidence            8888888888776543

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.93  E-value=5.8e-05  Score=78.21  Aligned_cols=124  Identities=13%  Similarity=0.118  Sum_probs=96.1

Q ss_pred             HHhcCCcHHHHHHHHHHHHHhcC--C---Cc-ChHHHHHHHHHHHHcCCHHHHHHHHHhC---------CCCCC-hhhHH
Q 006388          385 ACSRAGLVEKGRHYFEIMVKEYG--I---RP-IHDHYTCMIDILSRAGRLEEAKSFINKM---------PFPPD-AIGWA  448 (647)
Q Consensus       385 a~~~~g~~~~a~~~~~~~~~~~~--~---~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~---------~~~p~-~~~~~  448 (647)
                      .+...|++++|..+++...+...  +   .| ...+++.|..+|...|++++|..++++.         +..|+ ..+++
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            34567888888888777654321  1   12 2467888889999999999998888765         24455 66889


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHhc-----cCCCCchh---HHHHHHhhhhCCChhHHHHHHHHHHhCC
Q 006388          449 TLLSSCRIHGNVEIGKWAAESLLE-----LDPYNPAS---YVLLSSIYASKGKWDHVSQLRRTMREKG  508 (647)
Q Consensus       449 ~ll~~~~~~~~~~~a~~~~~~~~~-----~~p~~~~~---~~~l~~~~~~~g~~~~a~~~~~~m~~~g  508 (647)
                      .|...|...|++++|+.+++++++     ++|++|.+   ...|..++...|++++|..++++++++-
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            999999999999999999999886     46776544   4578888899999999999999998754

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=97.91  E-value=2.4e-05  Score=68.21  Aligned_cols=74  Identities=12%  Similarity=0.017  Sum_probs=61.3

Q ss_pred             hHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCc-hhHHHHH
Q 006388          412 HDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNP-ASYVLLS  485 (647)
Q Consensus       412 ~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~-~~~~~l~  485 (647)
                      ...|..+..+|.+.|++++|...+++. ...| +...|..+..++...|++++|...++++++++|+++ .....+.
T Consensus        63 ~~~~~nla~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~l~  139 (162)
T 3rkv_A           63 IPLYANMSQCYLNIGDLHEAEETSSEVLKREETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNHPAAASVVAREMK  139 (162)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCGGGHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcCCCCHHHHHHHHH
Confidence            467888888999999999999998887 3445 477899999999999999999999999999999887 4444443

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=97.90  E-value=5.4e-05  Score=65.28  Aligned_cols=131  Identities=15%  Similarity=0.050  Sum_probs=70.8

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCc----ChHH
Q 006388          344 WTALVSGYAKFGKANETIDLFEKMLSHGL-KPD----EVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRP----IHDH  414 (647)
Q Consensus       344 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~----~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p----~~~~  414 (647)
                      +..+...|...|++++|+..+++..+... .++    ..++..+...+...|++++|..+++...+...-.+    ....
T Consensus        12 ~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~   91 (164)
T 3ro3_A           12 FGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQS   91 (164)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHH
Confidence            33444444445555555555544433110 011    12444455555666666666666665543211111    1345


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHhC-------CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccC
Q 006388          415 YTCMIDILSRAGRLEEAKSFINKM-------PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELD  474 (647)
Q Consensus       415 ~~~li~~~~~~g~~~~A~~~~~~~-------~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  474 (647)
                      +..+...+...|++++|.+.+++.       +..+ ....+..+...+...|++++|...+++++++.
T Consensus        92 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~  159 (164)
T 3ro3_A           92 CYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEIS  159 (164)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHH
Confidence            566666777777777777766654       1111 13456677777788888888888888776543

>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=97.90  E-value=0.00048  Score=73.11  Aligned_cols=170  Identities=9%  Similarity=-0.015  Sum_probs=136.1

Q ss_pred             CCHHHHHHHHhhcC---CCChhhHHHHHHHHHHcCC----------hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCC
Q 006388          324 GNIEDSHRLFNEMN---VRDEVSWTALVSGYAKFGK----------ANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAG  390 (647)
Q Consensus       324 g~~~~A~~~~~~~~---~~d~~~~~~li~~~~~~g~----------~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g  390 (647)
                      ..-++|.+.++.+.   ..+..+|+.--..+...|+          ++++++.++++.+.. +-+...|..-..++.+.+
T Consensus        43 ~~~eeal~~~~~~l~~nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~-pK~y~aW~hR~w~l~~l~  121 (567)
T 1dce_A           43 ELDESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLP  121 (567)
T ss_dssp             CCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCS
T ss_pred             CCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcc
Confidence            33467777777765   3356678877777777777          899999999998853 234558888778888888


Q ss_pred             --cHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcC-CHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhc--------
Q 006388          391 --LVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAG-RLEEAKSFINKM-PFPP-DAIGWATLLSSCRIH--------  457 (647)
Q Consensus       391 --~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g-~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~--------  457 (647)
                        +++++++.++.+.+.  -+-+...|+.-..++.+.| .++++++.++++ ...| +...|+.....+...        
T Consensus       122 ~~~~~~el~~~~k~l~~--d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~~~~~  199 (567)
T 1dce_A          122 EPNWARELELCARFLEA--DERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGP  199 (567)
T ss_dssp             SCCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSS
T ss_pred             cccHHHHHHHHHHHHhh--ccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhhcccccccc
Confidence              779999999999874  2346678888888888899 899999999988 5555 588999888887663        


Q ss_pred             ------CChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhH
Q 006388          458 ------GNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDH  496 (647)
Q Consensus       458 ------~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  496 (647)
                            +.++++.+.++++++.+|++..+|.-+..++.+.|+.++
T Consensus       200 ~~~~~~~~~~eel~~~~~ai~~~P~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          200 QGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             CCSSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHHHSCCCCCSC
T ss_pred             cccccHHHHHHHHHHHHHHHhhCCCCccHHHHHHHHHhcCCCccc
Confidence                  557899999999999999999999999999999988655

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.83  E-value=4.2e-05  Score=75.84  Aligned_cols=152  Identities=9%  Similarity=0.010  Sum_probs=81.5

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcC
Q 006388          310 ITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRA  389 (647)
Q Consensus       310 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~  389 (647)
                      ...+..+...+.+.|++++|...|++....+....     .+...|+..++...+.          ...+..+..++.+.
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            45567788889999999999999998652221111     1222333344433221          13677788889999


Q ss_pred             CcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-hhhHHHHHHHH-HhcCChhHHHHH
Q 006388          390 GLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPPD-AIGWATLLSSC-RIHGNVEIGKWA  466 (647)
Q Consensus       390 g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~-~~~~~~~~a~~~  466 (647)
                      |++++|+..++...+.  .+.+...|..+..+|...|++++|.+.|+++ ...|+ ...+..|.... ...+..+.+...
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            9999999999988764  2346788889999999999999999999988 55565 45555555552 345677888899


Q ss_pred             HHHHhccCCCCc
Q 006388          467 AESLLELDPYNP  478 (647)
Q Consensus       467 ~~~~~~~~p~~~  478 (647)
                      ++++++..|.++
T Consensus       322 ~~~~l~~~p~~~  333 (338)
T 2if4_A          322 YKGIFKGKDEGG  333 (338)
T ss_dssp             ------------
T ss_pred             HHHhhCCCCCCC
Confidence            999999888754

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.80  E-value=3.4e-05  Score=61.90  Aligned_cols=92  Identities=11%  Similarity=0.026  Sum_probs=73.3

Q ss_pred             ChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCC------chhHH
Q 006388          411 IHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYN------PASYV  482 (647)
Q Consensus       411 ~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~------~~~~~  482 (647)
                      +...+..+...+.+.|++++|.+.+++. ...| +...|..+..++...|++++|+..++++++++|++      ...+.
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~   82 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTSTAEHVAIRSKLQY   82 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSSTTSHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCccHHHHHHHHHH
Confidence            4556777888888888888888888876 3334 57788889999999999999999999999999988      67777


Q ss_pred             HHHHhhhhCCChhHHHHHHH
Q 006388          483 LLSSIYASKGKWDHVSQLRR  502 (647)
Q Consensus       483 ~l~~~~~~~g~~~~a~~~~~  502 (647)
                      .++.++...|++++|.+.++
T Consensus        83 ~~~~~~~~~~~~~~a~~~~~  102 (111)
T 2l6j_A           83 RLELAQGAVGSVQIPVVEVD  102 (111)
T ss_dssp             HHHHHHHHHHCCCCCSSSSS
T ss_pred             HHHHHHHHHHhHhhhHhHHH
Confidence            88888887777776655443

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.79  E-value=0.00025  Score=72.87  Aligned_cols=158  Identities=11%  Similarity=-0.018  Sum_probs=116.0

Q ss_pred             HHHHHcCChHHHHHHHHHHHHCCCCCC----------------HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcCh
Q 006388          349 SGYAKFGKANETIDLFEKMLSHGLKPD----------------EVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIH  412 (647)
Q Consensus       349 ~~~~~~g~~~~A~~~~~~m~~~g~~p~----------------~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~  412 (647)
                      ..+.+.|++++|++.|.+..+......                ...+..+...|...|++++|.+++..+.+..+..++.
T Consensus        12 ~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~   91 (434)
T 4b4t_Q           12 RRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKS   91 (434)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccch
Confidence            345667888888888888776432211                1246778899999999999999999887644333332


Q ss_pred             ----HHHHHHHHHHHHcCCHHHHHHHHHhC-------CCCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHhcc------C
Q 006388          413 ----DHYTCMIDILSRAGRLEEAKSFINKM-------PFPPD-AIGWATLLSSCRIHGNVEIGKWAAESLLEL------D  474 (647)
Q Consensus       413 ----~~~~~li~~~~~~g~~~~A~~~~~~~-------~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~------~  474 (647)
                          .+.+.+...+...|++++|.+++++.       +..+. ..++..|...+...|++++|...++++...      .
T Consensus        92 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~  171 (434)
T 4b4t_Q           92 KTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDDK  171 (434)
T ss_dssp             HHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCS
T ss_pred             HHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccc
Confidence                23344444555678999999888765       22333 567888999999999999999999987753      1


Q ss_pred             CCCchhHHHHHHhhhhCCChhHHHHHHHHHHh
Q 006388          475 PYNPASYVLLSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       475 p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      |.....+..++.+|...|++++|..++++...
T Consensus       172 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~  203 (434)
T 4b4t_Q          172 PSLVDVHLLESKVYHKLRNLAKSKASLTAART  203 (434)
T ss_dssp             THHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHH
Confidence            22346788999999999999999999988764

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.77  E-value=8.1e-05  Score=58.65  Aligned_cols=65  Identities=22%  Similarity=0.167  Sum_probs=60.7

Q ss_pred             ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHhC
Q 006388          443 DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       443 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  507 (647)
                      +...|..+...+...|++++|+..++++++++|+++.+|..++.+|...|++++|.+.+++..+.
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l   70 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETDPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEV   70 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            57789999999999999999999999999999999999999999999999999999999988753

>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=97.76  E-value=0.00012  Score=73.28  Aligned_cols=65  Identities=11%  Similarity=-0.013  Sum_probs=61.0

Q ss_pred             ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHhC
Q 006388          443 DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       443 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  507 (647)
                      +...|..+..++.+.|++++|+..++++++++|+++.++..++.+|...|++++|.+.+++..+.
T Consensus       272 ~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l  336 (370)
T 1ihg_A          272 ALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEI  336 (370)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence            36788999999999999999999999999999999999999999999999999999999998764

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.75  E-value=9.1e-05  Score=56.81  Aligned_cols=81  Identities=21%  Similarity=0.305  Sum_probs=65.1

Q ss_pred             hHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhh
Q 006388          412 HDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYA  489 (647)
Q Consensus       412 ~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  489 (647)
                      ...+..+...+.+.|++++|...+++. ...| +...|..+...+...|++++|...++++++.+|.++..+..++.++.
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~   88 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAKQ   88 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHH
Confidence            456777778888888888888888776 2333 46778888888999999999999999999999998888888888876


Q ss_pred             hCC
Q 006388          490 SKG  492 (647)
Q Consensus       490 ~~g  492 (647)
                      ..|
T Consensus        89 ~~g   91 (91)
T 1na3_A           89 KQG   91 (91)
T ss_dssp             HHC
T ss_pred             hcC
Confidence            544

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.73  E-value=5.5e-05  Score=61.37  Aligned_cols=77  Identities=13%  Similarity=0.098  Sum_probs=64.0

Q ss_pred             HHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHh
Q 006388          430 EAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       430 ~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      +|.+.+++. ...| +...|..+...+...|++++|+..++++++.+|.++..+..++.+|...|++++|...+++..+
T Consensus         3 ~a~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~   81 (115)
T 2kat_A            3 AITERLEAMLAQGTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESGLA   81 (115)
T ss_dssp             CHHHHHHHHHTTTCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            345555554 3344 4778888888999999999999999999999999999999999999999999999999998765

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=97.73  E-value=5.9e-06  Score=81.70  Aligned_cols=432  Identities=11%  Similarity=0.078  Sum_probs=271.3

Q ss_pred             cccHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCCcchHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCchhhHHHHHH
Q 006388            6 GVSWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGSPLVD   85 (647)
Q Consensus         6 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~   85 (647)
                      +..|+.|..++.+.|...+|++.|-+       ..|...|..++.++.+.|.++.-...+....+.  ..++.+=+.|+-
T Consensus        54 p~VWs~LgkAqL~~~~v~eAIdsyIk-------A~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~--~ke~~IDteLi~  124 (624)
T 3lvg_A           54 PAVWSQLAKAQLQKGMVKEAIDSYIK-------ADDPSSYMEVVQAANTSGNWEELVKYLQMARKK--ARESYVETELIF  124 (624)
T ss_dssp             CCCSSSHHHHTTTSSSCTTTTTSSCC-------CSCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTT--CCSTTTTHHHHH
T ss_pred             ccHHHHHHHHHHccCchHHHHHHHHh-------CCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHH--hcccccHHHHHH
Confidence            45799999999999999988876532       347778999999999999999999888776655  356677789999


Q ss_pred             HHHhcCChHHHHHHhccCCCCCchHHHHHHHHHHhcCChHHHHHHhhcCCC------------------------CCeeh
Q 006388           86 MYAKLGLIYDAKRGFDELPEKNIVMYNTMITGLLRRGLVEESRRLFRGMKD------------------------KDSIS  141 (647)
Q Consensus        86 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~------------------------~~~~~  141 (647)
                      +|++.+++.+-++.+   ..||..-......-|...|.++.|.-+|..+..                        .++.|
T Consensus       125 ayAk~~rL~elEefl---~~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~kt  201 (624)
T 3lvg_A          125 ALAKTNRLAELEEFI---NGPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRT  201 (624)
T ss_dssp             HHHTSCSSSTTTSTT---SCCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCS
T ss_pred             HHHhhCcHHHHHHHH---cCCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhH
Confidence            999999877643322   236777777788888888888888888877652                        37889


Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHh
Q 006388          142 WTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCK  221 (647)
Q Consensus       142 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~  221 (647)
                      |-.+-.+|...+.+.-|--.--.+.-   .||  ....++..|-..|.+++-..+++..+... ......++-|.-.|+|
T Consensus       202 WKeV~~ACvd~~EfrLAqicGLniIv---had--eL~elv~~YE~~G~f~ELIsLlEaglglE-rAHmGmFTELaILYsK  275 (624)
T 3lvg_A          202 WKEVCFACVDGKEFRLAQMCGLHIVV---HAD--ELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSK  275 (624)
T ss_dssp             HHHHTHHHHHSCTTTTTTHHHHHHHC---CSS--CCSGGGSSSSTTCCCTTSTTTHHHHTTST-TCCHHHHHHHHHHHHS
T ss_pred             HHHHHHHHhCchHHHHHHHhcchhcc---cHH--HHHHHHHHHHhCCCHHHHHHHHHHHhCCC-chhHHHHHHHHHHHHh
Confidence            99999999999999877665444442   222  23345667888899999888888766322 4567789999999998


Q ss_pred             cCCHHHHHHHHhcCCC----C-------ChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCC
Q 006388          222 CKSIKYAESVFRTMAW----K-------NVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLAS  290 (647)
Q Consensus       222 ~g~~~~A~~~~~~~~~----~-------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~  290 (647)
                      -. .++-.+.++..-.    |       ....|.-++-.|.+-.+++.|...   |.+.  .|+...-........+..+
T Consensus       276 Y~-PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~lt---Mi~h--~~~Aw~h~~Fkdii~KVaN  349 (624)
T 3lvg_A          276 FK-PQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIIT---MMNH--PTDAWKEGQFKDIITKVAN  349 (624)
T ss_dssp             SC-TTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHHHT---TTSC--HHHHCCGGGGTTTGGGCSC
T ss_pred             cC-HHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHHHH---HHhC--ChhhccHHHHHHHHHHcch
Confidence            63 4444444443222    2       345688888889888888877543   2221  1111111111112222223


Q ss_pred             hHHHHHHHHHHHHhCCCcchhHHHH-------------HHHHHHhcCCHHHHHHHHhhcCCCChhhHH-HHHHHHHHcCC
Q 006388          291 LEEGTQFHGRSLVTGLISFITVSNA-------------LVTFYGKCGNIEDSHRLFNEMNVRDEVSWT-ALVSGYAKFGK  356 (647)
Q Consensus       291 ~~~a~~~~~~~~~~~~~~~~~~~~~-------------li~~~~~~g~~~~A~~~~~~~~~~d~~~~~-~li~~~~~~g~  356 (647)
                      .+.--+.....++.    .+...+-             .++++.+.|++.-....+......|...-| ++-..|....+
T Consensus       350 ~EiyYKAi~FYL~e----~P~lL~DLL~vL~prlDh~RvV~~~~k~~~LpLIkpYL~~Vq~~N~~aVNeAln~L~IEEED  425 (624)
T 3lvg_A          350 VELYYRAIQFYLEF----KPLLLNDLLMVLSPRLDHTRAVNYFSKVKQLPLVKPYLRSVQNHNNKSVNESLNNLFITEED  425 (624)
T ss_dssp             SHHHHHHHHHHTTS----CCTTSHHHHHHHCTTCCSTTTHHHHHTTTCGGGGTGGGTSCCCSCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHh----ChHHHHHHHHhccccCChHHHHHHHHhcCCchhhHHHHHHHHHhhHHHHHHHHHHHHhhhhh
Confidence            22211111111111    1111222             334445555555554455444444444433 23334444554


Q ss_pred             hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHH
Q 006388          357 ANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFIN  436 (647)
Q Consensus       357 ~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~  436 (647)
                      ++                   ++..-+.+|-+-..+.-|.++     ++   .+-.+.-..-...|.+.++++++.++.+
T Consensus       426 y~-------------------~LR~SId~ydNFD~i~LA~rL-----Ek---HeL~eFRrIAA~LYkkn~rw~qsi~l~K  478 (624)
T 3lvg_A          426 YQ-------------------ALRTSIDAYDNFDNISLAQRL-----EK---HELIEFRRIAAYLFKGNNRWKQSVELCK  478 (624)
T ss_dssp             CH-------------------HHHHTTSSCCCSCTTHHHHHH-----HT---CSSHHHHHHHHHHHHTTCHHHHHSSCSS
T ss_pred             HH-------------------HHHHHHHHhccccHHHHHHHH-----hh---CchHHHHHHHHHHHHhcccHHHHHHHHH
Confidence            43                   222333334444444444332     11   1233344445567888999999988876


Q ss_pred             hCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHH
Q 006388          437 KMPFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQL  500 (647)
Q Consensus       437 ~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~  500 (647)
                      +=+.-.|.      +......|+.+.++.+++-..+.+  +...|...+..|...=+.|-+.++
T Consensus       479 kDklykDA------ietAa~S~~~elaeeLL~yFv~~g--~~EcF~a~LytCYdLlrpDvVlEl  534 (624)
T 3lvg_A          479 KDSLYKDA------MQYASESKDTELAEELLQWFLQEE--KRECFGACLFTCYDLLRPDVVLET  534 (624)
T ss_dssp             TTCCTTGG------GTTTTTCCCTTHHHHHHHHHHHHC--STHHHHHHHHHTSSSSSCHHHHHH
T ss_pred             hcccHHHH------HHHHHHcCCHHHHHHHHHHHHHcC--chHHHHHHHHHHhhccChHHHHHH
Confidence            65433333      334556788888998888887765  447788888888888888887776

>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=97.72  E-value=0.00027  Score=73.22  Aligned_cols=95  Identities=9%  Similarity=-0.023  Sum_probs=77.7

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC----------------hhhHHHHHHHHHhcCChhHHHHHHHHHhccCC
Q 006388          413 DHYTCMIDILSRAGRLEEAKSFINKM-PFPPD----------------AIGWATLLSSCRIHGNVEIGKWAAESLLELDP  475 (647)
Q Consensus       413 ~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~----------------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p  475 (647)
                      ..|..+...|.+.|++++|...|+++ ...|+                ...|..+..++.+.|++++|+..++++++++|
T Consensus       269 ~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p  348 (457)
T 1kt0_A          269 AIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLDS  348 (457)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCC
Confidence            34555566666666666666666655 11122                57888999999999999999999999999999


Q ss_pred             CCchhHHHHHHhhhhCCChhHHHHHHHHHHhC
Q 006388          476 YNPASYVLLSSIYASKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       476 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  507 (647)
                      +++.+|..++.+|...|++++|...+++..+.
T Consensus       349 ~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l  380 (457)
T 1kt0_A          349 ANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV  380 (457)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             ccHHHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence            99999999999999999999999999998874

>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=97.71  E-value=1.9e-05  Score=67.07  Aligned_cols=84  Identities=15%  Similarity=0.111  Sum_probs=64.7

Q ss_pred             HcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCC----------hhHHHHHHHHHhccCCCCchhHHHHHHhhhhC
Q 006388          424 RAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGN----------VEIGKWAAESLLELDPYNPASYVLLSSIYASK  491 (647)
Q Consensus       424 ~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~----------~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  491 (647)
                      +.+.+++|.+.+++. ...| +...|..+..++...++          +++|+..++++++++|++..+|..++++|...
T Consensus        14 r~~~feeA~~~~~~Ai~l~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~~~A~~~LG~ay~~l   93 (158)
T 1zu2_A           14 RILLFEQIRQDAENTYKSNPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYTSF   93 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHh
Confidence            445566666666555 2333 45666666666666554          56999999999999999999999999999987


Q ss_pred             C-----------ChhHHHHHHHHHHhC
Q 006388          492 G-----------KWDHVSQLRRTMREK  507 (647)
Q Consensus       492 g-----------~~~~a~~~~~~m~~~  507 (647)
                      |           ++++|.+.|++..+.
T Consensus        94 g~l~P~~~~a~g~~~eA~~~~~kAl~l  120 (158)
T 1zu2_A           94 AFLTPDETEAKHNFDLATQFFQQAVDE  120 (158)
T ss_dssp             HHHCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccCcchhhhhccHHHHHHHHHHHHHh
Confidence            5           899999999998873

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.57  E-value=7.1e-05  Score=59.97  Aligned_cols=97  Identities=13%  Similarity=0.054  Sum_probs=78.0

Q ss_pred             CcccHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCCcchHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCc------hh
Q 006388            5 DGVSWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSY------VF   78 (647)
Q Consensus         5 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~------~~   78 (647)
                      ++..|..+...+.+.|++++|++.|++..+..  |.+...+..+..++...|++++|...++..++... .+      ..
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~~~   79 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQ--PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTS-TAEHVAIRSK   79 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCS-STTSHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC-CccHHHHHHH
Confidence            45678889999999999999999999998876  66788899999999999999999999999987652 22      44


Q ss_pred             hHHHHHHHHHhcCChHHHHHHhccCC
Q 006388           79 VGSPLVDMYAKLGLIYDAKRGFDELP  104 (647)
Q Consensus        79 ~~~~li~~~~~~g~~~~A~~~~~~~~  104 (647)
                      .+..+...+...|+.+.|...|++++
T Consensus        80 ~~~~~~~~~~~~~~~~~a~~~~~~~~  105 (111)
T 2l6j_A           80 LQYRLELAQGAVGSVQIPVVEVDELP  105 (111)
T ss_dssp             HHHHHHHHHHHHHCCCCCSSSSSSCS
T ss_pred             HHHHHHHHHHHHHhHhhhHhHHHHhH
Confidence            55666667777777777777776665

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.51  E-value=0.00045  Score=53.30  Aligned_cols=70  Identities=14%  Similarity=0.092  Sum_probs=61.5

Q ss_pred             CCChhhHHHHHHHHHhcCC---hhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHhCCCc
Q 006388          441 PPDAIGWATLLSSCRIHGN---VEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREKGVR  510 (647)
Q Consensus       441 ~p~~~~~~~ll~~~~~~~~---~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~  510 (647)
                      ++++..|..+..++...++   .++|...++++++.+|+++.+...++..+...|++++|...|+++.+....
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p~   75 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSNDP   75 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCCT
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            3467888888888865554   799999999999999999999999999999999999999999999986554

>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=97.46  E-value=9.4e-05  Score=62.82  Aligned_cols=87  Identities=16%  Similarity=0.067  Sum_probs=55.5

Q ss_pred             CcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCC----------HHHHHHHHHhC-CCCCC-hhhHHHHHHHHHhc
Q 006388          390 GLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGR----------LEEAKSFINKM-PFPPD-AIGWATLLSSCRIH  457 (647)
Q Consensus       390 g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~----------~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~  457 (647)
                      +.+++|.+.++...+.  -+.+...|..+..++...|+          +++|+..|++. .+.|+ ...|..+..+|...
T Consensus        16 ~~feeA~~~~~~Ai~l--~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~~~A~~~LG~ay~~l   93 (158)
T 1zu2_A           16 LLFEQIRQDAENTYKS--NPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYTSF   93 (158)
T ss_dssp             HHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHh
Confidence            3445555555554432  12234455555555555443          34777777666 44554 66777777777765


Q ss_pred             -----------CChhHHHHHHHHHhccCCCCc
Q 006388          458 -----------GNVEIGKWAAESLLELDPYNP  478 (647)
Q Consensus       458 -----------~~~~~a~~~~~~~~~~~p~~~  478 (647)
                                 |++++|+..|+++++++|++.
T Consensus        94 g~l~P~~~~a~g~~~eA~~~~~kAl~l~P~~~  125 (158)
T 1zu2_A           94 AFLTPDETEAKHNFDLATQFFQQAVDEQPDNT  125 (158)
T ss_dssp             HHHCCCHHHHHHHHHHHHHHHHHHHHHCTTCH
T ss_pred             cccCcchhhhhccHHHHHHHHHHHHHhCCCCH
Confidence                       489999999999999999874

>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=97.39  E-value=0.00025  Score=72.28  Aligned_cols=116  Identities=11%  Similarity=0.108  Sum_probs=85.8

Q ss_pred             HHHHHHcCCHHHHHHHHHhC------CCCCC----hhhHHHHHHHHHhcCChhHHHHHHHHHhcc-----CCCCc---hh
Q 006388          419 IDILSRAGRLEEAKSFINKM------PFPPD----AIGWATLLSSCRIHGNVEIGKWAAESLLEL-----DPYNP---AS  480 (647)
Q Consensus       419 i~~~~~~g~~~~A~~~~~~~------~~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----~p~~~---~~  480 (647)
                      +.-+.+.|++++|.+++++.      -+.|+    ..+++.|..+|...|++++|+.+++++++.     +|++|   ..
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            34456778888888887655      12232    567888888999999999999999988753     45444   56


Q ss_pred             HHHHHHhhhhCCChhHHHHHHHHHHhCCCccCCCcceEeEcCeEEEEEecCCCCcchHHHHHHHHHHHHhhH
Q 006388          481 YVLLSSIYASKGKWDHVSQLRRTMREKGVRKDPGCSWIKYKSRVHIFSADDWSSPYSDQIYAELEKLNRKMI  552 (647)
Q Consensus       481 ~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~s~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~l~~~m~  552 (647)
                      +..|+.+|...|++++|..++++..+--- ..-                 ...||...++...+.+....|+
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al~i~~-~~l-----------------G~~Hp~~~~~~~~l~~~~~e~~  427 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAFDIMR-VTH-----------------GREHSLIEDLILLLEECDANIR  427 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHH-HHT-----------------CTTSHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHH-Hhc-----------------CCCChHHHHHHHHHHHHHHHHh
Confidence            88999999999999999999998865211 000                 1369999998888888777765

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.35  E-value=0.0011  Score=68.52  Aligned_cols=122  Identities=17%  Similarity=0.027  Sum_probs=81.2

Q ss_pred             HHHcCChHHHHHHHHHHHHC---CCCCC---H-HHHHHHHHHHhcCCcHHHHHHHHHHHHHh----cC-CCcC-hHHHHH
Q 006388          351 YAKFGKANETIDLFEKMLSH---GLKPD---E-VTLIGVLSACSRAGLVEKGRHYFEIMVKE----YG-IRPI-HDHYTC  417 (647)
Q Consensus       351 ~~~~g~~~~A~~~~~~m~~~---g~~p~---~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~----~~-~~p~-~~~~~~  417 (647)
                      +...|++++|+.++++.++.   -+.|+   . .+++.+..+|...|++++|..++++...-    +| -.|+ ..+++.
T Consensus       319 ~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~n  398 (490)
T 3n71_A          319 ARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMR  398 (490)
T ss_dssp             HHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHH
T ss_pred             HHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            44567777777777766542   12233   2 26777777888888888888777766532    22 1222 467888


Q ss_pred             HHHHHHHcCCHHHHHHHHHhC---------CCCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHhc
Q 006388          418 MIDILSRAGRLEEAKSFINKM---------PFPPD-AIGWATLLSSCRIHGNVEIGKWAAESLLE  472 (647)
Q Consensus       418 li~~~~~~g~~~~A~~~~~~~---------~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  472 (647)
                      |..+|...|++++|..++++.         +..|+ ..+.+.|..++...+.+++|+..+.++.+
T Consensus       399 La~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          399 AGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            888899999999998888776         23344 33444555566678888999998887764

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.26  E-value=0.0009  Score=51.00  Aligned_cols=83  Identities=12%  Similarity=0.059  Sum_probs=65.0

Q ss_pred             CcccHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCCcchHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCchhhHHHHH
Q 006388            5 DGVSWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGSPLV   84 (647)
Q Consensus         5 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li   84 (647)
                      +...|..+...+.+.|++++|+..|++..+..  +.+...+..+...+...|++++|...++..++.. +.+...+..+.
T Consensus         8 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~   84 (91)
T 1na3_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALELD--PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAKQNLG   84 (91)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCHHHHHHHH
Confidence            35578888888889999999999999988875  5677788888888889999999999998888875 34556666666


Q ss_pred             HHHHhc
Q 006388           85 DMYAKL   90 (647)
Q Consensus        85 ~~~~~~   90 (647)
                      .++.+.
T Consensus        85 ~~~~~~   90 (91)
T 1na3_A           85 NAKQKQ   90 (91)
T ss_dssp             HHHHHH
T ss_pred             HHHHhc
Confidence            665543

>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=97.25  E-value=0.0023  Score=53.68  Aligned_cols=116  Identities=7%  Similarity=-0.036  Sum_probs=59.5

Q ss_pred             CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHH
Q 006388          355 GKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSF  434 (647)
Q Consensus       355 g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~  434 (647)
                      +++++|++.|++..+.| .|+..    +...|...+.+++|.++|+...+.    .+...+..|..+|..-.        
T Consensus         9 ~d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~----g~~~a~~~Lg~~y~~G~--------   71 (138)
T 1klx_A            9 KDLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACEL----NSGNGCRFLGDFYENGK--------   71 (138)
T ss_dssp             HHHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHCS--------
T ss_pred             cCHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcC----CCHHHHHHHHHHHHcCC--------
Confidence            34556666666666555 23322    444444555555565555555432    23334444444444300        


Q ss_pred             HHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhh----CCChhHHHHHHHHHHhCCC
Q 006388          435 INKMPFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYAS----KGKWDHVSQLRRTMREKGV  509 (647)
Q Consensus       435 ~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~a~~~~~~m~~~g~  509 (647)
                                          ...++.++|...++++.+.  .++.++..|+.+|..    .+++++|.+.+++..+.|.
T Consensus        72 --------------------g~~~d~~~A~~~~~~Aa~~--g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           72 --------------------YVKKDLRKAAQYYSKACGL--NDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             --------------------SSCCCHHHHHHHHHHHHHT--TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             --------------------CCCccHHHHHHHHHHHHcC--CCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence                                0044555555555555544  245556666666666    5666666666666665554

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.20  E-value=0.0009  Score=53.96  Aligned_cols=80  Identities=15%  Similarity=0.085  Sum_probs=53.3

Q ss_pred             HHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhc
Q 006388          395 GRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLE  472 (647)
Q Consensus       395 a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  472 (647)
                      +...|+...+.  .+.+...+..+...|.+.|++++|...+++. ...| +...|..+...+...|++++|...++++++
T Consensus         4 a~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~   81 (115)
T 2kat_A            4 ITERLEAMLAQ--GTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESGLA   81 (115)
T ss_dssp             HHHHHHHHHTT--TCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHh--CCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            44555555432  2234566677777777777777777777765 2333 366777777788888888888888888877


Q ss_pred             cCCC
Q 006388          473 LDPY  476 (647)
Q Consensus       473 ~~p~  476 (647)
                      +.|.
T Consensus        82 ~~~~   85 (115)
T 2kat_A           82 AAQS   85 (115)
T ss_dssp             HHHH
T ss_pred             hccc
Confidence            7663

>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=97.16  E-value=0.0041  Score=65.92  Aligned_cols=148  Identities=11%  Similarity=0.002  Sum_probs=119.1

Q ss_pred             CChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhcCCc----------HHHHHHHHHHHHHhcCCCcChHHHHHHHHHHH
Q 006388          355 GKANETIDLFEKMLSHGLKPDEV-TLIGVLSACSRAGL----------VEKGRHYFEIMVKEYGIRPIHDHYTCMIDILS  423 (647)
Q Consensus       355 g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~----------~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~  423 (647)
                      ...++|++.++++.+.  .|+.. .|+.--.++...|+          +++++++++.+.+.  .+-+...|..-..++.
T Consensus        43 ~~~eeal~~~~~~l~~--nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~--~pK~y~aW~hR~w~l~  118 (567)
T 1dce_A           43 ELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRV--NPKSYGTWHHRCWLLS  118 (567)
T ss_dssp             CCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHH--CchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHH
Confidence            3456889999999984  66655 55554445555555          89999999999874  3446678888888888


Q ss_pred             HcC--CHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcC-ChhHHHHHHHHHhccCCCCchhHHHHHHhhhhC-------
Q 006388          424 RAG--RLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHG-NVEIGKWAAESLLELDPYNPASYVLLSSIYASK-------  491 (647)
Q Consensus       424 ~~g--~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~-------  491 (647)
                      +.|  ++++|+++++++ ...| +...|+.-.......| ..+++.+.++++++.+|.|..+|...+.++.+.       
T Consensus       119 ~l~~~~~~~el~~~~k~l~~d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~~~~  198 (567)
T 1dce_A          119 RLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSG  198 (567)
T ss_dssp             TCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSS
T ss_pred             HcccccHHHHHHHHHHHHhhccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhhccccccc
Confidence            999  779999999998 3344 6889999998988888 899999999999999999999999988887763       


Q ss_pred             -------CChhHHHHHHHHHHh
Q 006388          492 -------GKWDHVSQLRRTMRE  506 (647)
Q Consensus       492 -------g~~~~a~~~~~~m~~  506 (647)
                             ++++++.+.+++...
T Consensus       199 ~~~~~~~~~~~eel~~~~~ai~  220 (567)
T 1dce_A          199 PQGRLPENVLLKELELVQNAFF  220 (567)
T ss_dssp             SCCSSCHHHHHHHHHHHHHHHH
T ss_pred             ccccccHHHHHHHHHHHHHHHh
Confidence                   667888888887765

>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=97.14  E-value=0.0068  Score=59.10  Aligned_cols=137  Identities=12%  Similarity=0.033  Sum_probs=64.0

Q ss_pred             CCChhhHHHHHHHHHH--cCC---hHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhc----CC----cHHHHHHHHHHHH
Q 006388          338 VRDEVSWTALVSGYAK--FGK---ANETIDLFEKMLSHGLKPDEV-TLIGVLSACSR----AG----LVEKGRHYFEIMV  403 (647)
Q Consensus       338 ~~d~~~~~~li~~~~~--~g~---~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~----~g----~~~~a~~~~~~~~  403 (647)
                      ..+..+|...+.+...  .++   ..+|..+|++.++.  .|+.. .+..+..++..    .+    ........++...
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            4467778777766432  333   47889999998884  67643 44444333320    00    0000001111110


Q ss_pred             HhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCC
Q 006388          404 KEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPY  476 (647)
Q Consensus       404 ~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~  476 (647)
                      .....+.+...|..+.-.+...|++++|...++++ ...|+...|..+...+...|+.++|...+++++.++|.
T Consensus       269 a~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~P~  342 (372)
T 3ly7_A          269 TLPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLEMSWLNYVLLGKVYEMKGMNREAADAYLTAFNLRPG  342 (372)
T ss_dssp             TCGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCS
T ss_pred             hcccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC
Confidence            00011233444444444444445555555555544 22344444444444444555555555555555555553

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=97.07  E-value=5e-05  Score=75.24  Aligned_cols=388  Identities=12%  Similarity=0.096  Sum_probs=224.0

Q ss_pred             ChHHHHHHhccCCCCCchHHHHHHHHHHhcCChHHHHHHhhcCCCCCeehHHHHHHHHHhCCChhHHHHHHHHHHHCCCC
Q 006388           92 LIYDAKRGFDELPEKNIVMYNTMITGLLRRGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLEREAIDLFREMRLEGLA  171 (647)
Q Consensus        92 ~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  171 (647)
                      ++++|.+.-++..+|  ..|+.|..+..+.+++.+|++-|-+  ..|+..|..+|....+.|.+++-+..+.-.++..- 
T Consensus        40 ~ldRa~eyA~~~n~p--~VWs~LgkAqL~~~~v~eAIdsyIk--A~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~k-  114 (624)
T 3lvg_A           40 NLDRAYEFAERCNEP--AVWSQLAKAQLQKGMVKEAIDSYIK--ADDPSSYMEVVQAANTSGNWEELVKYLQMARKKAR-  114 (624)
T ss_dssp             CSTTTTTSSSSCCCC--CCSSSHHHHTTTSSSCTTTTTSSCC--CSCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCC-
T ss_pred             ccHHHHHHHHHhCCc--cHHHHHHHHHHccCchHHHHHHHHh--CCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhc-
Confidence            444444444444433  4577778888888888777776644  34666788888888888888888877765555432 


Q ss_pred             CChhhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCC---------------
Q 006388          172 MDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMA---------------  236 (647)
Q Consensus       172 pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~---------------  236 (647)
                       +...=+.++-+|++.+++.+-++++.       .||..-...+.+-+...|.++.|.-+|..+.               
T Consensus       115 -e~~IDteLi~ayAk~~rL~elEefl~-------~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~y  186 (624)
T 3lvg_A          115 -ESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEY  186 (624)
T ss_dssp             -STTTTHHHHHHHHTSCSSSTTTSTTS-------CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGG
T ss_pred             -ccccHHHHHHHHHhhCcHHHHHHHHc-------CCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHH
Confidence             33333567788888887766444432       4555555667777777788887777777664               


Q ss_pred             ---------CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCC
Q 006388          237 ---------WKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLI  307 (647)
Q Consensus       237 ---------~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~  307 (647)
                               ..++.+|-.+-.+|...+.+.-|.-.--.+.   +.||.  +..++..|-..|.+++-..+++...... .
T Consensus       187 q~AVdaArKAns~ktWKeV~~ACvd~~EfrLAqicGLniI---vhade--L~elv~~YE~~G~f~ELIsLlEaglglE-r  260 (624)
T 3lvg_A          187 QAAVDGARKANSTRTWKEVCFACVDGKEFRLAQMCGLHIV---VHADE--LEELINYYQDRGYFEELITMLEAALGLE-R  260 (624)
T ss_dssp             GSSTTTTTTCCSSCSHHHHTHHHHHSCTTTTTTHHHHHHH---CCSSC--CSGGGSSSSTTCCCTTSTTTHHHHTTST-T
T ss_pred             HHHHHHHHhcCChhHHHHHHHHHhCchHHHHHHHhcchhc---ccHHH--HHHHHHHHHhCCCHHHHHHHHHHHhCCC-c
Confidence                     1367799999999999999887755444443   22322  2234555777888888887777665322 4


Q ss_pred             cchhHHHHHHHHHHhcCCHHHHHHHHhhc----CCC-------ChhhHHHHHHHHHHcCChHHHHHH-------------
Q 006388          308 SFITVSNALVTFYGKCGNIEDSHRLFNEM----NVR-------DEVSWTALVSGYAKFGKANETIDL-------------  363 (647)
Q Consensus       308 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~----~~~-------d~~~~~~li~~~~~~g~~~~A~~~-------------  363 (647)
                      ....+++-|.-.|+|- +.++..+.++..    .-|       ....|.-++-.|.+-.+++.|...             
T Consensus       261 AHmGmFTELaILYsKY-~PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~ltMi~h~~~Aw~h~~  339 (624)
T 3lvg_A          261 AHMGMFTELAILYSKF-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMNHPTDAWKEGQ  339 (624)
T ss_dssp             CCHHHHHHHHHHHHSS-CTTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHHHTTTSCHHHHCCGGG
T ss_pred             hhHHHHHHHHHHHHhc-CHHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHHHHHHhCChhhccHHH
Confidence            5677888888888875 344444444432    222       456788898888888888877532             


Q ss_pred             HHHHHHCCCCCCHHHH---------------HHHHHHHhcCCcHHHHHHHHHHHHHh-----c----CCCcChHHHHHHH
Q 006388          364 FEKMLSHGLKPDEVTL---------------IGVLSACSRAGLVEKGRHYFEIMVKE-----Y----GIRPIHDHYTCMI  419 (647)
Q Consensus       364 ~~~m~~~g~~p~~~t~---------------~~ll~a~~~~g~~~~a~~~~~~~~~~-----~----~~~p~~~~~~~li  419 (647)
                      |++....  .+|...|               +-||.++...=+..+..++|+..-.-     |    .-.-+..+-.++-
T Consensus       340 Fkdii~K--VaN~EiyYKAi~FYL~e~P~lL~DLL~vL~prlDh~RvV~~~~k~~~LpLIkpYL~~Vq~~N~~aVNeAln  417 (624)
T 3lvg_A          340 FKDIITK--VANVELYYRAIQFYLEFKPLLLNDLLMVLSPRLDHTRAVNYFSKVKQLPLVKPYLRSVQNHNNKSVNESLN  417 (624)
T ss_dssp             GTTTGGG--CSCSHHHHHHHHHHTTSCCTTSHHHHHHHCTTCCSTTTHHHHHTTTCGGGGTGGGTSCCCSCCHHHHHHHH
T ss_pred             HHHHHHH--cchHHHHHHHHHHHHHhChHHHHHHHHhccccCChHHHHHHHHhcCCchhhHHHHHHHHHhhHHHHHHHHH
Confidence            1111110  1222222               33444444333444444444432100     0    0011334556677


Q ss_pred             HHHHHcCCHHHHHHHHHhCC-C-----------CCChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHh
Q 006388          420 DILSRAGRLEEAKSFINKMP-F-----------PPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSI  487 (647)
Q Consensus       420 ~~~~~~g~~~~A~~~~~~~~-~-----------~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  487 (647)
                      +.|....+++.-..-++... +           .+-...-..-...|.+++++++++.+.       ..| ..|-..+..
T Consensus       418 ~L~IEEEDy~~LR~SId~ydNFD~i~LA~rLEkHeL~eFRrIAA~LYkkn~rw~qsi~l~-------KkD-klykDAiet  489 (624)
T 3lvg_A          418 NLFITEEDYQALRTSIDAYDNFDNISLAQRLEKHELIEFRRIAAYLFKGNNRWKQSVELC-------KKD-SLYKDAMQY  489 (624)
T ss_dssp             HHHHHTTCCHHHHHTTSSCCCSCTTHHHHHHHTCSSHHHHHHHHHHHHTTCHHHHHSSCS-------STT-CCTTGGGTT
T ss_pred             HHHhhhhhHHHHHHHHHHhccccHHHHHHHHhhCchHHHHHHHHHHHHhcccHHHHHHHH-------Hhc-ccHHHHHHH
Confidence            77777777776555544331 1           011111111222345555555544332       212 344445555


Q ss_pred             hhhCCChhHHHHHHHHHHhCCC
Q 006388          488 YASKGKWDHVSQLRRTMREKGV  509 (647)
Q Consensus       488 ~~~~g~~~~a~~~~~~m~~~g~  509 (647)
                      -+..|+.+-|.++++-..+.|-
T Consensus       490 Aa~S~~~elaeeLL~yFv~~g~  511 (624)
T 3lvg_A          490 ASESKDTELAEELLQWFLQEEK  511 (624)
T ss_dssp             TTTCCCTTHHHHHHHHHHHHCS
T ss_pred             HHHcCCHHHHHHHHHHHHHcCc
Confidence            6666777777777776665543

>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=97.06  E-value=0.008  Score=50.26  Aligned_cols=107  Identities=7%  Similarity=-0.074  Sum_probs=81.0

Q ss_pred             cCCHHHHHHHHhhcCC-CChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc----CCcHHHHHH
Q 006388          323 CGNIEDSHRLFNEMNV-RDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSR----AGLVEKGRH  397 (647)
Q Consensus       323 ~g~~~~A~~~~~~~~~-~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~----~g~~~~a~~  397 (647)
                      .+++++|.+.|++..+ .++...  +...|...+.+++|++.|++..+.|   +......+...|..    .+++++|.+
T Consensus         8 ~~d~~~A~~~~~~aa~~g~~~a~--lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~   82 (138)
T 1klx_A            8 KKDLKKAIQYYVKACELNEMFGC--LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAAQ   82 (138)
T ss_dssp             HHHHHHHHHHHHHHHHTTCTTHH--HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHH
T ss_pred             ccCHHHHHHHHHHHHcCCCHhhh--HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHHHH
Confidence            3568899999988763 355555  7777778888999999999999875   56667777777776    789999999


Q ss_pred             HHHHHHHhcCCCcChHHHHHHHHHHHH----cCCHHHHHHHHHhC
Q 006388          398 YFEIMVKEYGIRPIHDHYTCMIDILSR----AGRLEEAKSFINKM  438 (647)
Q Consensus       398 ~~~~~~~~~~~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~~  438 (647)
                      +|+...+.    -+...+..|..+|..    .+++++|.++|++.
T Consensus        83 ~~~~Aa~~----g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~A  123 (138)
T 1klx_A           83 YYSKACGL----NDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKA  123 (138)
T ss_dssp             HHHHHHHT----TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHH
T ss_pred             HHHHHHcC----CCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHH
Confidence            99988763    345666777777776    67777777777665

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=96.99  E-value=0.00071  Score=68.81  Aligned_cols=82  Identities=7%  Similarity=-0.024  Sum_probs=60.9

Q ss_pred             cCCHHHHHHHHHhC---------CCCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHhc-----cCCCC---chhHHHHHH
Q 006388          425 AGRLEEAKSFINKM---------PFPPD-AIGWATLLSSCRIHGNVEIGKWAAESLLE-----LDPYN---PASYVLLSS  486 (647)
Q Consensus       425 ~g~~~~A~~~~~~~---------~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-----~~p~~---~~~~~~l~~  486 (647)
                      .|++++|..++++.         +..|+ ..+++.|..+|...|++++|+.+++++++     ++|++   ..++..|+.
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            35666666666543         22333 46778888888888888888888888775     34544   456889999


Q ss_pred             hhhhCCChhHHHHHHHHHHh
Q 006388          487 IYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       487 ~~~~~g~~~~a~~~~~~m~~  506 (647)
                      +|...|++++|..++++..+
T Consensus       391 ~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          391 LYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhccCHHHHHHHHHHHHH
Confidence            99999999999999998865

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.94  E-value=0.0038  Score=52.29  Aligned_cols=65  Identities=9%  Similarity=-0.054  Sum_probs=53.1

Q ss_pred             CChhhHHHHHHHHHhcC---ChhHHHHHHHHHhccC-C-CCchhHHHHHHhhhhCCChhHHHHHHHHHHh
Q 006388          442 PDAIGWATLLSSCRIHG---NVEIGKWAAESLLELD-P-YNPASYVLLSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       442 p~~~~~~~ll~~~~~~~---~~~~a~~~~~~~~~~~-p-~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      ++..+...+..++.+.+   +.++|+.+++.+++.+ | ++...+..|+-+|.+.|++++|.++++.+.+
T Consensus        30 ~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~A~~y~~~lL~   99 (152)
T 1pc2_A           30 VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQ   99 (152)
T ss_dssp             CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHHHHHHHHHHHh
Confidence            56777777888888777   6668888888888887 6 4577888888899999999999999998876

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.91  E-value=0.0013  Score=51.30  Aligned_cols=78  Identities=18%  Similarity=0.181  Sum_probs=57.0

Q ss_pred             HHHHHHHcCCHHHHHHHHHhC-CCCC-Chh-hHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCCh
Q 006388          418 MIDILSRAGRLEEAKSFINKM-PFPP-DAI-GWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKW  494 (647)
Q Consensus       418 li~~~~~~g~~~~A~~~~~~~-~~~p-~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  494 (647)
                      ....+.+.|++++|.+.+++. ...| +.. .|..+..++...|++++|+..++++++++|+++..+..        +.+
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~--------~~~   77 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNPDSPALQAR--------KMV   77 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTHHHHH--------HHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHH--------HHH
Confidence            345667788888888888776 3344 456 78888888888999999999999999999988776632        445


Q ss_pred             hHHHHHHHH
Q 006388          495 DHVSQLRRT  503 (647)
Q Consensus       495 ~~a~~~~~~  503 (647)
                      .++...+++
T Consensus        78 ~~a~~~~~~   86 (99)
T 2kc7_A           78 MDILNFYNK   86 (99)
T ss_dssp             HHHHHHHCC
T ss_pred             HHHHHHHHH
Confidence            555555544

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=96.91  E-value=0.0032  Score=64.01  Aligned_cols=94  Identities=12%  Similarity=0.004  Sum_probs=66.7

Q ss_pred             cCCcHHHHHHHHHHHHHhc--CCC---c-ChHHHHHHHHHHHHcCCHHHHHHHHHhC---------CCCCC-hhhHHHHH
Q 006388          388 RAGLVEKGRHYFEIMVKEY--GIR---P-IHDHYTCMIDILSRAGRLEEAKSFINKM---------PFPPD-AIGWATLL  451 (647)
Q Consensus       388 ~~g~~~~a~~~~~~~~~~~--~~~---p-~~~~~~~li~~~~~~g~~~~A~~~~~~~---------~~~p~-~~~~~~ll  451 (647)
                      ..|++++|..+++...+..  -+.   | ...+++.|..+|...|++++|..++++.         +..|+ ..+++.|.
T Consensus       310 ~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa  389 (433)
T 3qww_A          310 HYKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLG  389 (433)
T ss_dssp             TTSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHH
Confidence            3467777777776655421  111   2 2367788888888888888888887765         24455 66788999


Q ss_pred             HHHHhcCChhHHHHHHHHHhc-----cCCCCchhH
Q 006388          452 SSCRIHGNVEIGKWAAESLLE-----LDPYNPASY  481 (647)
Q Consensus       452 ~~~~~~~~~~~a~~~~~~~~~-----~~p~~~~~~  481 (647)
                      ..|...|++++|+.+++++++     ++|++|.+-
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~i~~~~lG~~Hp~~~  424 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIAIMEVAHGKDHPYIS  424 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHHHHHHHcCCCChHHH
Confidence            999999999999999998876     467766543

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.88  E-value=0.06  Score=43.26  Aligned_cols=140  Identities=9%  Similarity=0.000  Sum_probs=96.2

Q ss_pred             HHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHH
Q 006388          352 AKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEA  431 (647)
Q Consensus       352 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A  431 (647)
                      .-.|..++..++..+...+   .+..-++-++--....-+-+-..+.++.+-+-+.+              ..+|++...
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            3456677777777776653   23334444444333344444455555554332222              245666666


Q ss_pred             HHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHhCCCc
Q 006388          432 KSFINKMPFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREKGVR  510 (647)
Q Consensus       432 ~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~  510 (647)
                      ..-+-.++  .+......-+.....+|.-++-.+++..++..+|.+|.....++++|.+.|+..+|.+++.+.-++|++
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--TLNEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  157 (172)
T ss_dssp             HHHHHHTT--CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHhc--chHHHHHHHHHHHHHhccHhHHHHHHHHHhccCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhhH
Confidence            66666664  245556677888889999999999999987777778999999999999999999999999999999985

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=96.85  E-value=0.0022  Score=50.21  Aligned_cols=84  Identities=13%  Similarity=0.014  Sum_probs=65.4

Q ss_pred             CcccHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCCcchHHHHHHHHhCCCChHHHHHHHHHHHHhCC-CCchhhHHHH
Q 006388            5 DGVSWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGF-GSYVFVGSPL   83 (647)
Q Consensus         5 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~-~~~~~~~~~l   83 (647)
                      +...|..+...|.+.|++++|+..|++..+..  |.+...|..+..++...|++++|...+++.++... .++......+
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~l   83 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETD--PDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEVAREEGTQKDLSEL   83 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhhhcCCchhHHHHH
Confidence            45678899999999999999999999999886  66788899999999999999999999998876532 2344444444


Q ss_pred             HHHHHhc
Q 006388           84 VDMYAKL   90 (647)
Q Consensus        84 i~~~~~~   90 (647)
                      ...+.+.
T Consensus        84 ~~~l~~~   90 (100)
T 3ma5_A           84 QDAKLKA   90 (100)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHc
Confidence            4444443

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=96.81  E-value=0.0051  Score=62.57  Aligned_cols=100  Identities=11%  Similarity=-0.012  Sum_probs=67.9

Q ss_pred             HHHhcCCcHHHHHHHHHHHHHhcC--CCc----ChHHHHHHHHHHHHcCCHHHHHHHHHhC---------CCCCC-hhhH
Q 006388          384 SACSRAGLVEKGRHYFEIMVKEYG--IRP----IHDHYTCMIDILSRAGRLEEAKSFINKM---------PFPPD-AIGW  447 (647)
Q Consensus       384 ~a~~~~g~~~~a~~~~~~~~~~~~--~~p----~~~~~~~li~~~~~~g~~~~A~~~~~~~---------~~~p~-~~~~  447 (647)
                      ..+.+.|++++|..+++.......  +.|    ...+++.|..+|...|++++|+.++++.         +..|+ ..++
T Consensus       295 e~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l  374 (429)
T 3qwp_A          295 EELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQV  374 (429)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHH
T ss_pred             HHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHH
Confidence            334456677777777766653211  112    2356777777888888888888777665         23454 5678


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHhc-----cCCCCchhHHH
Q 006388          448 ATLLSSCRIHGNVEIGKWAAESLLE-----LDPYNPASYVL  483 (647)
Q Consensus       448 ~~ll~~~~~~~~~~~a~~~~~~~~~-----~~p~~~~~~~~  483 (647)
                      +.|...|...|++++|+.+++++++     ++|++|.+-..
T Consensus       375 ~nLa~~~~~~g~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~  415 (429)
T 3qwp_A          375 MKVGKLQLHQGMFPQAMKNLRLAFDIMRVTHGREHSLIEDL  415 (429)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHH
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHHHHHhcCCCChHHHHH
Confidence            8888899999999999999988775     47777655443

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.71  E-value=0.085  Score=58.78  Aligned_cols=101  Identities=18%  Similarity=0.179  Sum_probs=62.0

Q ss_pred             HHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHH
Q 006388          217 DMYCKCKSIKYAESVFRTMAWKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQ  296 (647)
Q Consensus       217 ~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~  296 (647)
                      ......|+++.|.++.+.+.  +...|..+...+.+.|+++.|.+.|.++..         |..+...+...++.+....
T Consensus       660 ~~~l~~~~~~~A~~~~~~~~--~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~  728 (814)
T 3mkq_A          660 ELALKVGQLTLARDLLTDES--AEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVT  728 (814)
T ss_dssp             HHHHHHTCHHHHHHHHTTCC--CHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHH
T ss_pred             ehhhhcCCHHHHHHHHHhhC--cHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHH
Confidence            34566788888888877663  457888888888888888888888887643         3334444444555555554


Q ss_pred             HHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHh
Q 006388          297 FHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFN  334 (647)
Q Consensus       297 ~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  334 (647)
                      +-......|.      ++....+|.+.|++++|.+++.
T Consensus       729 ~~~~a~~~~~------~~~A~~~~~~~g~~~~a~~~~~  760 (814)
T 3mkq_A          729 LAKDAETTGK------FNLAFNAYWIAGDIQGAKDLLI  760 (814)
T ss_dssp             HHHHHHHTTC------HHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHcCc------hHHHHHHHHHcCCHHHHHHHHH
Confidence            4444444331      1233344555666666655543

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.68  E-value=0.0032  Score=48.87  Aligned_cols=59  Identities=20%  Similarity=0.359  Sum_probs=54.2

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHhccCCCCch-hHHHHHHhhhhCCChhHHHHHHHHHHhC
Q 006388          449 TLLSSCRIHGNVEIGKWAAESLLELDPYNPA-SYVLLSSIYASKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       449 ~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~-~~~~l~~~~~~~g~~~~a~~~~~~m~~~  507 (647)
                      .....+...|++++|+..++++++.+|+++. .+..++.+|...|++++|.+.+++..+.
T Consensus         5 ~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~   64 (99)
T 2kc7_A            5 KTIKELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIEL   64 (99)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            3456678899999999999999999999999 9999999999999999999999998874

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.30  E-value=0.16  Score=56.51  Aligned_cols=129  Identities=12%  Similarity=0.071  Sum_probs=86.6

Q ss_pred             HHHHHHHHhcCChHHHHHHhccCCCCCchHHHHHHHHHHhcCChHHHHHHhhcCCCCCeehHHHHHHHHHhCCChhHHHH
Q 006388           81 SPLVDMYAKLGLIYDAKRGFDELPEKNIVMYNTMITGLLRRGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLEREAID  160 (647)
Q Consensus        81 ~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  160 (647)
                      ..++..+.+.|.+++|.++.+.-        ..-.......|++++|.++.+.+.  +...|..|...+.+.|+++.|.+
T Consensus       633 ~~~~~~l~~~~~~~~a~~~~~~~--------~~~f~~~l~~~~~~~A~~~~~~~~--~~~~W~~la~~al~~~~~~~A~~  702 (814)
T 3mkq_A          633 TKIARFLEGQEYYEEALNISPDQ--------DQKFELALKVGQLTLARDLLTDES--AEMKWRALGDASLQRFNFKLAIE  702 (814)
T ss_dssp             HHHHHHHHHTTCHHHHHHHCCCH--------HHHHHHHHHHTCHHHHHHHHTTCC--CHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHhCCChHHheecCCCc--------chheehhhhcCCHHHHHHHHHhhC--cHhHHHHHHHHHHHcCCHHHHHH
Confidence            66777778888888888766421        122344567888888888887764  55789999999999999999999


Q ss_pred             HHHHHHHCCCCCChhhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhc
Q 006388          161 LFREMRLEGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRT  234 (647)
Q Consensus       161 ~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~  234 (647)
                      +|..+..         |..+...+...++.+...++-+.....|.      ++.-..+|.+.|++++|.+++.+
T Consensus       703 ~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a~~~~~------~~~A~~~~~~~g~~~~a~~~~~~  761 (814)
T 3mkq_A          703 AFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDAETTGK------FNLAFNAYWIAGDIQGAKDLLIK  761 (814)
T ss_dssp             HHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHHHHTTC------HHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHHHHcCc------hHHHHHHHHHcCCHHHHHHHHHH
Confidence            9988743         44444455556676666655555555441      23334456667777777665443

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=96.27  E-value=0.014  Score=54.49  Aligned_cols=87  Identities=13%  Similarity=0.120  Sum_probs=69.5

Q ss_pred             HHHHHHHHHhC-CCCCC---hhhHHHHHHHHHh-----cCChhHHHHHHHHHhccCCC-CchhHHHHHHhhhhC-CChhH
Q 006388          428 LEEAKSFINKM-PFPPD---AIGWATLLSSCRI-----HGNVEIGKWAAESLLELDPY-NPASYVLLSSIYASK-GKWDH  496 (647)
Q Consensus       428 ~~~A~~~~~~~-~~~p~---~~~~~~ll~~~~~-----~~~~~~a~~~~~~~~~~~p~-~~~~~~~l~~~~~~~-g~~~~  496 (647)
                      ..+|...+++. .+.|+   ...|..|...|.+     -|+.++|++.|+++++++|+ +..+++.++..|+.. |+.++
T Consensus       179 l~~A~a~lerAleLDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~~  258 (301)
T 3u64_A          179 VHAAVMMLERACDLWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRAG  258 (301)
T ss_dssp             HHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHHH
T ss_pred             HHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHHH
Confidence            34555555554 44565   5577777777777     49999999999999999997 499999999999885 99999


Q ss_pred             HHHHHHHHHhCCCccCCC
Q 006388          497 VSQLRRTMREKGVRKDPG  514 (647)
Q Consensus       497 a~~~~~~m~~~g~~~~~~  514 (647)
                      +.+.+++........+|+
T Consensus       259 a~~~L~kAL~a~p~~~P~  276 (301)
T 3u64_A          259 FDEALDRALAIDPESVPH  276 (301)
T ss_dssp             HHHHHHHHHHCCGGGCSS
T ss_pred             HHHHHHHHHcCCCCCCCC
Confidence            999999999977765554

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.11  E-value=0.03  Score=43.91  Aligned_cols=74  Identities=12%  Similarity=0.082  Sum_probs=54.7

Q ss_pred             ChHHHHHHHHHHHHcCCHHHHHHHHHhC-----C----CCCChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhH
Q 006388          411 IHDHYTCMIDILSRAGRLEEAKSFINKM-----P----FPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASY  481 (647)
Q Consensus       411 ~~~~~~~li~~~~~~g~~~~A~~~~~~~-----~----~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~  481 (647)
                      +..-+-.|...+.+.|+++.|...++.+     +    -.+...++..|..++.+.|+++.|...+++++++.|+++.+.
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~P~~~~~~   83 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRAN   83 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHH
Confidence            3344556666777777777777776654     1    113467788999999999999999999999999999887665


Q ss_pred             HHH
Q 006388          482 VLL  484 (647)
Q Consensus       482 ~~l  484 (647)
                      ..+
T Consensus        84 ~n~   86 (104)
T 2v5f_A           84 GNL   86 (104)
T ss_dssp             HHH
T ss_pred             hhH
Confidence            544

>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=96.07  E-value=1.9  Score=45.71  Aligned_cols=252  Identities=9%  Similarity=0.041  Sum_probs=125.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCC
Q 006388          211 VGSALVDMYCKCKSIKYAESVFRTMAWKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLAS  290 (647)
Q Consensus       211 ~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~  290 (647)
                      .-+.-+..+.+.+++......+.. ...+...-.....+....|+..+|......+-..| .........++..+.+.|.
T Consensus        74 Lr~~~l~~l~~~~~w~~~l~~~~~-~p~~~~~~c~~~~A~~~~G~~~~a~~~~~~lW~~~-~~~p~~c~~l~~~~~~~g~  151 (618)
T 1qsa_A           74 LQSRFVNELARREDWRGLLAFSPE-KPGTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTG-KSQPNACDKLFSVWRASGK  151 (618)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHCCS-CCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCS-SCCCTHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhCCCHHHHHHhccC-CCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHhCC-CCCcHHHHHHHHHHHHCCC
Confidence            334455666677777777776665 43455555556667777787777777666666554 2233344445555544443


Q ss_pred             hHHH--HHHHHHHHHhC-----------CCcc-hhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChh---hHHHHHHHHHH
Q 006388          291 LEEG--TQFHGRSLVTG-----------LISF-ITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEV---SWTALVSGYAK  353 (647)
Q Consensus       291 ~~~a--~~~~~~~~~~~-----------~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~d~~---~~~~li~~~~~  353 (647)
                      +...  .+=+..+...|           ++++ ......++..+.+-..+   ....... .++..   .+...+.-+++
T Consensus       152 lt~~~~~~R~~~al~~~~~~~a~~l~~~l~~~~~~~a~~~~al~~~p~~~---~~~~~~~-~~~~~~~~~~~~~~~rlar  227 (618)
T 1qsa_A          152 QDPLAYLERIRLAMKAGNTGLVTVLAGQMPADYQTIASAIISLANNPNTV---LTFARTT-GATDFTRQMAAVAFASVAR  227 (618)
T ss_dssp             SCHHHHHHHHHHHHHTTCHHHHHHHHHTCCGGGHHHHHHHHHHHHCGGGH---HHHHHHS-CCCHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHhCCHHHHHHHHHHHHHHhChHhH---HHHHhcc-CCChhhHHHHHHHHHHHHh
Confidence            3221  11111111111           1111 11223333333222222   2222221 11111   11112222333


Q ss_pred             cCChHHHHHHHHHHHHCC-CCCCHH--HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHH
Q 006388          354 FGKANETIDLFEKMLSHG-LKPDEV--TLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEE  430 (647)
Q Consensus       354 ~g~~~~A~~~~~~m~~~g-~~p~~~--t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~  430 (647)
                       .+.+.|..+|....... +.+...  ....+.......+...++...+......   .++.....-.+..-.+.|+++.
T Consensus       228 -~d~~~A~~~~~~~~~~~~~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~e~~~r~Alr~~d~~~  303 (618)
T 1qsa_A          228 -QDAENARLMIPSLAQAQQLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMR---SQSTSLIERRVRMALGTGDRRG  303 (618)
T ss_dssp             -HCHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHT---CCCHHHHHHHHHHHHHHTCHHH
T ss_pred             -cCHHHHHHHHHhhhhccCCCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhcccc---CCChHHHHHHHHHHHHCCCHHH
Confidence             37788888888876533 222222  2222333334445345556666654432   2333333334444557799999


Q ss_pred             HHHHHHhCCCCC-ChhhH-HHHHHHHHhcCChhHHHHHHHHHhc
Q 006388          431 AKSFINKMPFPP-DAIGW-ATLLSSCRIHGNVEIGKWAAESLLE  472 (647)
Q Consensus       431 A~~~~~~~~~~p-~~~~~-~~ll~~~~~~~~~~~a~~~~~~~~~  472 (647)
                      |...|+.|+..+ +..-| -=+..+....|+.++|...++.+.+
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            999999986432 21111 1234466678999999999888874

>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=96.03  E-value=0.047  Score=53.24  Aligned_cols=131  Identities=15%  Similarity=0.093  Sum_probs=90.5

Q ss_pred             CCCHHHHHHHHHHHh--c---CCcHHHHHHHHHHHHHhcCCCcC-hHHHHHHHHHHH----HcCC-------HHHHHHHH
Q 006388          373 KPDEVTLIGVLSACS--R---AGLVEKGRHYFEIMVKEYGIRPI-HDHYTCMIDILS----RAGR-------LEEAKSFI  435 (647)
Q Consensus       373 ~p~~~t~~~ll~a~~--~---~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~----~~g~-------~~~A~~~~  435 (647)
                      +.|...|...+.+..  .   .....+|+.+|++.++.   .|+ ...|..+.-+|.    ..+.       +..|.+-.
T Consensus       191 p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~l---DP~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~  267 (372)
T 3ly7_A          191 PHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQS---SPEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNI  267 (372)
T ss_dssp             CSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHH
Confidence            455556666666543  2   23457899999999854   565 244443333332    1111       12233322


Q ss_pred             HhCCC-CCChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHhC
Q 006388          436 NKMPF-PPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       436 ~~~~~-~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  507 (647)
                      ..+.. +.++.+|..+...+...|++++|...++++++++| +...|..++.++.-.|++++|.+.+++....
T Consensus       268 ~a~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln~-s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL  339 (372)
T 3ly7_A          268 VTLPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLEM-SWLNYVLLGKVYEMKGMNREAADAYLTAFNL  339 (372)
T ss_dssp             HTCGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HhcccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            33332 34688888888878888999999999999999997 5778889999999999999999999988764

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=95.95  E-value=0.033  Score=42.58  Aligned_cols=68  Identities=9%  Similarity=0.004  Sum_probs=51.9

Q ss_pred             CcChHHHHHHHHHHHHcCC---HHHHHHHHHhC-CCCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCC
Q 006388          409 RPIHDHYTCMIDILSRAGR---LEEAKSFINKM-PFPPD-AIGWATLLSSCRIHGNVEIGKWAAESLLELDPY  476 (647)
Q Consensus       409 ~p~~~~~~~li~~~~~~g~---~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~  476 (647)
                      ++++..+..+..++...++   .++|..++++. ...|+ +..+..+...+.+.|++++|+..++++++.+|+
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p~   75 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSNDP   75 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCCT
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            3466777777777765554   68888888877 44554 667777788888889999999999999888887

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=95.51  E-value=0.074  Score=42.77  Aligned_cols=65  Identities=9%  Similarity=-0.096  Sum_probs=42.2

Q ss_pred             CChhhHHHHHHHHHhcCChhH---HHHHHHHHhccC-C-CCchhHHHHHHhhhhCCChhHHHHHHHHHHh
Q 006388          442 PDAIGWATLLSSCRIHGNVEI---GKWAAESLLELD-P-YNPASYVLLSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       442 p~~~~~~~ll~~~~~~~~~~~---a~~~~~~~~~~~-p-~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      |+..+--.+..++.+.++...   ++.+++.+.+.+ | ........|+-++.+.|++++|.++.+.+.+
T Consensus        33 ~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A~~~~~~lL~  102 (126)
T 1nzn_A           33 VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQ  102 (126)
T ss_dssp             CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            455555556666665554444   777777766665 4 3445666777777777777777777777765

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=95.28  E-value=0.054  Score=45.32  Aligned_cols=73  Identities=12%  Similarity=-0.022  Sum_probs=46.9

Q ss_pred             cChHHHHHHHHHHHHcC---CHHHHHHHHHhC-CCC-C--ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHH
Q 006388          410 PIHDHYTCMIDILSRAG---RLEEAKSFINKM-PFP-P--DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYV  482 (647)
Q Consensus       410 p~~~~~~~li~~~~~~g---~~~~A~~~~~~~-~~~-p--~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~  482 (647)
                      ++..+...+..++.+.+   +++++..++++. ... |  ....+-.|.-++.+.|++++|.+.++.+++.+|+|..+..
T Consensus        30 ~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~A~~y~~~lL~ieP~n~QA~~  109 (152)
T 1pc2_A           30 VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQTEPQNNQAKE  109 (152)
T ss_dssp             CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHH
Confidence            44444445555555555   344555555444 112 3  2445566777889999999999999999999998765443

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=95.09  E-value=1.4  Score=37.72  Aligned_cols=129  Identities=15%  Similarity=0.126  Sum_probs=77.9

Q ss_pred             HHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHH
Q 006388          318 TFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRH  397 (647)
Q Consensus       318 ~~~~~~g~~~~A~~~~~~~~~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~  397 (647)
                      +....+|+++.|.++.+.+  .+...|..|.......|+++-|.+.|.+...         |..+.--|.-.|+.+.-..
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            3455678888888877765  4567888888888888888888888877543         2233334444566655554


Q ss_pred             HHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHH
Q 006388          398 YFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKMPFPPDAIGWATLLSSCRIHGNVEIGKWAAESL  470 (647)
Q Consensus       398 ~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~  470 (647)
                      +-+....+ |      -++.-...+.-.|+++++.+++.+.+.-|...      -....+|..+.|.++.+.+
T Consensus        82 la~iA~~~-g------~~n~af~~~l~lGdv~~~i~lL~~~~r~~eA~------~~A~t~g~~~~a~~~~~~~  141 (177)
T 3mkq_B           82 MQNIAQTR-E------DFGSMLLNTFYNNSTKERSSIFAEGGSLPLAY------AVAKANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHHHHT-T------CHHHHHHHHHHHTCHHHHHHHHHHTTCHHHHH------HHHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHHHC-c------cHHHHHHHHHHcCCHHHHHHHHHHCCChHHHH------HHHHHcCcHHHHHHHHHHh
Confidence            43333222 2      13333444556788888888887775323221      1123356666666666544

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=94.86  E-value=1.3  Score=37.87  Aligned_cols=102  Identities=8%  Similarity=0.099  Sum_probs=55.9

Q ss_pred             HHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHH
Q 006388          217 DMYCKCKSIKYAESVFRTMAWKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQ  296 (647)
Q Consensus       217 ~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~  296 (647)
                      +....+|+++.|.++.+.+  .+...|..|.......|+.+-|.+.|.+...         +..+.-.|...|+.+.-..
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            3445667777777766655  3456777777777777777777777765432         2333333444555555444


Q ss_pred             HHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhh
Q 006388          297 FHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNE  335 (647)
Q Consensus       297 ~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  335 (647)
                      +-......|-      ++.....+.-.|+++++.++|.+
T Consensus        82 la~iA~~~g~------~n~af~~~l~lGdv~~~i~lL~~  114 (177)
T 3mkq_B           82 MQNIAQTRED------FGSMLLNTFYNNSTKERSSIFAE  114 (177)
T ss_dssp             HHHHHHHTTC------HHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHCcc------HHHHHHHHHHcCCHHHHHHHHHH
Confidence            4443333331      22333334445666665555544

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=94.61  E-value=0.58  Score=38.27  Aligned_cols=66  Identities=8%  Similarity=-0.027  Sum_probs=45.2

Q ss_pred             CCChhhHHHHHHHHHhcC---ChhHHHHHHHHHhccCCC-CchhHHHHHHhhhhCCChhHHHHHHHHHHh
Q 006388          441 PPDAIGWATLLSSCRIHG---NVEIGKWAAESLLELDPY-NPASYVLLSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       441 ~p~~~~~~~ll~~~~~~~---~~~~a~~~~~~~~~~~p~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      .|+..+--.+..++.+..   +..+++.+++.+...+|. .......|+-+|.+.|++++|+++.+.+.+
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~  105 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  105 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            355555555555665544   345677777777777774 445666778888888888888888888776

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=93.30  E-value=0.26  Score=38.37  Aligned_cols=64  Identities=16%  Similarity=-0.006  Sum_probs=54.5

Q ss_pred             ChhhHHHHHHHHHhcCChhHHHHHHHHHhccC-------CCCchhHHHHHHhhhhCCChhHHHHHHHHHHh
Q 006388          443 DAIGWATLLSSCRIHGNVEIGKWAAESLLELD-------PYNPASYVLLSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       443 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-------p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      ++.-...|+..+...|+++.|...++.+++..       +..+.++..|+.+|.+.|++++|...+++..+
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~   74 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE   74 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHh
Confidence            44556688889999999999999999988752       33567799999999999999999999999876

>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=93.10  E-value=1.9  Score=40.23  Aligned_cols=49  Identities=8%  Similarity=0.021  Sum_probs=23.6

Q ss_pred             CChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhc-CCHHHHHHHHhcCC
Q 006388          188 LALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKC-KSIKYAESVFRTMA  236 (647)
Q Consensus       188 ~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~-g~~~~A~~~~~~~~  236 (647)
                      |+.++|++.|++.++.+...+..++....+.+++. |+.+.|.+.+++..
T Consensus       218 Gd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~~a~~~L~kAL  267 (301)
T 3u64_A          218 GGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRAGFDEALDRAL  267 (301)
T ss_dssp             CCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            45555555555555544322344444445555442 55555555555443

>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=92.87  E-value=0.38  Score=39.70  Aligned_cols=55  Identities=11%  Similarity=-0.048  Sum_probs=39.6

Q ss_pred             hcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHhCCCc
Q 006388          456 IHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREKGVR  510 (647)
Q Consensus       456 ~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~  510 (647)
                      ..+|.++|..+|+.++.+...=+..+...+.--.+.|+.+.|.+++.+....+.+
T Consensus        72 ei~D~d~aR~vy~~a~~~hKkFAKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k  126 (161)
T 4h7y_A           72 AIQEPDDARDYFQMARANCKKFAFVHISFAQFELSQGNVKKSKQLLQKAVERGAV  126 (161)
T ss_dssp             HHHCGGGCHHHHHHHHHHCTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCB
T ss_pred             HhcCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCCC
Confidence            3478888888888887764433555666666667888888888888888776654

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=92.82  E-value=0.79  Score=49.47  Aligned_cols=53  Identities=15%  Similarity=0.079  Sum_probs=48.5

Q ss_pred             HHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHH
Q 006388          452 SSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTM  504 (647)
Q Consensus       452 ~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  504 (647)
                      .-|...|+++.|..+++++...-|.+..+|..|+.+|...|+|+.|.-.+..+
T Consensus       345 ~FLl~K~~~elAL~~Ak~AV~~aPseF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          345 NFLLNRGDYELALGVSNTSTELALDSFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             HHHhccCcHHHHHHHHHHHHhcCchhhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence            34667899999999999999999999999999999999999999999999877

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=92.42  E-value=11  Score=41.48  Aligned_cols=92  Identities=10%  Similarity=-0.009  Sum_probs=50.3

Q ss_pred             HHHHHHHHHcCCChhHHHHHHHHHHHCC-----CC---CCC-cchHHHHH----HHHhCCCChHHH-HHHHHH----HHH
Q 006388            9 WNLLISGHASHGSVNDAVKVYNLMLKDG-----LG---NLS-RITFSTML----IMSSSRRCVDLG-RQIHGH----ILK   70 (647)
Q Consensus         9 ~~~li~~~~~~g~~~~A~~~~~~m~~~g-----~~---~~~-~~~~~~ll----~~~~~~~~~~~a-~~~~~~----~~~   70 (647)
                      .+.|+.-|.+.|.+.+|+.+.-+..+..     +.   ..+ ..+|..++    .++...-..+.- .++++.    ..+
T Consensus       148 v~~iv~~cl~hnae~~AvdLalE~erLD~Le~~vd~~~~~~~~~n~~rvclYlls~v~~lv~p~~fr~~vLr~l~~Iy~k  227 (963)
T 4ady_A          148 FERMIEKCLKASELKLALGIALEGYRLDIIESALKSKLDQDSTSENVKIINYLLTLAITTVTNSKFRSSILRKSFDFLMN  227 (963)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHTTCHHHHHHHHHHHCCC-CHHHHHHHHHHHHHHHHHTCCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHhhHHHHHHHHHhhccccccccHHHHHHHHHHHhhccCCChHHHHHHHHHHHHHHHh
Confidence            4667777888888888887765443221     10   111 23444444    333322222221 122222    222


Q ss_pred             hCCCCchhhHHHHHHHHHhcCChHHHHHHhccCC
Q 006388           71 FGFGSYVFVGSPLVDMYAKLGLIYDAKRGFDELP  104 (647)
Q Consensus        71 ~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~  104 (647)
                      .. .|   -|..++.++.+.++.+.+.++|+.+.
T Consensus       228 ~~-~~---dy~~a~~~ai~LnD~~li~~if~~l~  257 (963)
T 4ady_A          228 MP-NC---DYLTLNKVVVNLNDAGLALQLFKKLK  257 (963)
T ss_dssp             SS-SC---CHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             CC-ch---hHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            22 12   35667778888899999999999864

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=92.37  E-value=0.81  Score=36.69  Aligned_cols=73  Identities=12%  Similarity=-0.040  Sum_probs=42.9

Q ss_pred             cChHHHHHHHHHHHHcCCHHH---HHHHHHhC-CCC-C--ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHH
Q 006388          410 PIHDHYTCMIDILSRAGRLEE---AKSFINKM-PFP-P--DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYV  482 (647)
Q Consensus       410 p~~~~~~~li~~~~~~g~~~~---A~~~~~~~-~~~-p--~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~  482 (647)
                      |+..+--.+..++.++....+   ++.+++.. ... |  .....-.|.-++.+.|+++.|.+.++.+++.+|+|..+..
T Consensus        33 ~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A~~~~~~lL~~eP~n~QA~~  112 (126)
T 1nzn_A           33 VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQTEPQNNQAKE  112 (126)
T ss_dssp             CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCCCHHHHH
Confidence            444444444444444444333   44444443 111 2  1233445666788889999999999999999998765443

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=91.46  E-value=0.63  Score=37.51  Aligned_cols=65  Identities=8%  Similarity=-0.028  Sum_probs=35.9

Q ss_pred             CChhhHHHHHHHHHhcC---ChhHHHHHHHHHhccCCC-CchhHHHHHHhhhhCCChhHHHHHHHHHHh
Q 006388          442 PDAIGWATLLSSCRIHG---NVEIGKWAAESLLELDPY-NPASYVLLSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       442 p~~~~~~~ll~~~~~~~---~~~~a~~~~~~~~~~~p~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      |+..+--.+..++.+..   +..+|+.+++.+.+.+|. ....+..|+-++.+.|++++|.++.+.+.+
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            34444334444444333   334566666666665553 344555666666666777766666666654

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=90.20  E-value=5  Score=33.15  Aligned_cols=97  Identities=13%  Similarity=0.306  Sum_probs=60.6

Q ss_pred             CCChhHHHHHHHHHHhcCCh------hHHHHHHHHHHHCCCCCCHH----HHHHHHH---HHhccCChHHHHHHHHHHHH
Q 006388          237 WKNVVSWTAMLVGYGQNGCS------EEAVKIFCNMQRNGIEPDDF----TLGSVIS---SCANLASLEEGTQFHGRSLV  303 (647)
Q Consensus       237 ~~~~~~~~~li~~~~~~g~~------~~A~~~~~~m~~~g~~p~~~----t~~~ll~---a~~~~~~~~~a~~~~~~~~~  303 (647)
                      ..|..+|-..+...-+.|++      ++..++|++.... ++|+..    .|..+.-   .+...++++.|+++|+.+++
T Consensus        10 p~~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~-~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~   88 (161)
T 4h7y_A           10 ANNPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEA-LPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARA   88 (161)
T ss_dssp             CCSHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHH-SCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHc-CCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            45778888888888888888      8888888888764 566531    1111111   11233677888888887766


Q ss_pred             hCCCcchhHHHHHHHHHHhcCCHHHHHHHHhh
Q 006388          304 TGLISFITVSNALVTFYGKCGNIEDSHRLFNE  335 (647)
Q Consensus       304 ~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  335 (647)
                      . .+.-..++......-.+.|++..|.+++.+
T Consensus        89 ~-hKkFAKiwi~~AqFEiRqgnl~kARkILg~  119 (161)
T 4h7y_A           89 N-CKKFAFVHISFAQFELSQGNVKKSKQLLQK  119 (161)
T ss_dssp             H-CTTBHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             H-hHHHHHHHHHHHHHHHHcccHHHHHHHHHH
Confidence            5 232355555555555566666666665554

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=89.70  E-value=14  Score=35.02  Aligned_cols=167  Identities=10%  Similarity=0.055  Sum_probs=97.7

Q ss_pred             HHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChhHHHHH----HHHHHHCCCCCCHHHHHHHHHHHhcc
Q 006388          213 SALVDMYCKCKSIKYAESVFRTMAWKNVVSWTAMLVGYGQNGCSEEAVKI----FCNMQRNGIEPDDFTLGSVISSCANL  288 (647)
Q Consensus       213 ~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~----~~~m~~~g~~p~~~t~~~ll~a~~~~  288 (647)
                      .++..=|.+.+++++|.+++..           -...+.+.|+...|-++    .+-..+.+++++..+...++..+...
T Consensus        37 Rtl~~Ry~~~~~~~eAidlL~~-----------ga~~ll~~~Q~~sa~DLa~llvev~~~~~~~~~~~~~~rl~~l~~~~  105 (312)
T 2wpv_A           37 RTIANRYVRSKSYEHAIELISQ-----------GALSFLKAKQGGSGTDLIFYLLEVYDLAEVKVDDISVARLVRLIAEL  105 (312)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHH-----------HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCSHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHhcCHHHHHHHHHH-----------HHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHC
Confidence            4455667788888888876543           22345566776555443    45556678888888888777776553


Q ss_pred             CChH-HHHHHHHHHHH----hC--CCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHHc---CChH
Q 006388          289 ASLE-EGTQFHGRSLV----TG--LISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKF---GKAN  358 (647)
Q Consensus       289 ~~~~-~a~~~~~~~~~----~~--~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~d~~~~~~li~~~~~~---g~~~  358 (647)
                      ..-+ .-..+...+++    .|  -..++.....+...|.+.|++.+|+..|-.-...|...+..|+.-+...   |...
T Consensus       106 p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H~i~~~~~s~~~~a~~l~~w~~~~~~~~~~  185 (312)
T 2wpv_A          106 DPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYFMLGTHDSMIKYVDLLWDWLCQVDDIEDS  185 (312)
T ss_dssp             CTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHHTSCHHHHHHHHHHHHHHHHHTTCCCHH
T ss_pred             CCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHhCCCccHHHHHHHHHHHHHhcCCCCcc
Confidence            3211 12333344433    22  2247778888999999999999998877632222444554444443333   3333


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHh
Q 006388          359 ETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKE  405 (647)
Q Consensus       359 ~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~  405 (647)
                      ++--.+              -..++ -|.-.|++..|..+|+...+.
T Consensus       186 e~dlf~--------------~RaVL-~yL~l~n~~~A~~~~~~f~~~  217 (312)
T 2wpv_A          186 TVAEFF--------------SRLVF-NYLFISNISFAHESKDIFLER  217 (312)
T ss_dssp             HHHHHH--------------HHHHH-HHHHTTBHHHHHHHHHHHHHH
T ss_pred             hHHHHH--------------HHHHH-HHHHhcCHHHHHHHHHHHHHH
Confidence            321111              11222 244568888888888876554

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=89.52  E-value=29  Score=38.40  Aligned_cols=247  Identities=11%  Similarity=0.017  Sum_probs=127.6

Q ss_pred             HHhcCCHHHHHHHHhcCCCC----C--hhHHHHHHHHHHhcCChhHHHHHHHHHHHCCC--CCC---H-HH-HHH--HHH
Q 006388          219 YCKCKSIKYAESVFRTMAWK----N--VVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGI--EPD---D-FT-LGS--VIS  283 (647)
Q Consensus       219 y~~~g~~~~A~~~~~~~~~~----~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~--~p~---~-~t-~~~--ll~  283 (647)
                      ....|+.+++..+++.....    +  +..-..+.-+....|..++++.++.......-  .-+   . .. -.+  +.-
T Consensus       384 lIh~g~~~~gl~~L~~yL~~~~s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGLGl  463 (963)
T 4ady_A          384 VIHKGNLLEGKKVMAPYLPGSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGIGL  463 (963)
T ss_dssp             HHTSSCTTTHHHHHTTTSTTSCCSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHHHH
T ss_pred             hhccCchHHHHHHHHHhccccCCCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHHHH
Confidence            34456777888888876541    2  22334445566677776778887777654321  000   1 11 111  222


Q ss_pred             HHhccCChHHHHHHHHHHHHhCCCc-chhHHHHHHHHHHhcCCHHHHHHHHhhcCCC-C--hhhHHHHHHHHHHcCChHH
Q 006388          284 SCANLASLEEGTQFHGRSLVTGLIS-FITVSNALVTFYGKCGNIEDSHRLFNEMNVR-D--EVSWTALVSGYAKFGKANE  359 (647)
Q Consensus       284 a~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-d--~~~~~~li~~~~~~g~~~~  359 (647)
                      ++...++ +++...+..++...-.. .....-+|.-.|.-.|+-+....++..+... +  +.-.-++.-++...|+.+.
T Consensus       464 a~~GS~~-eev~e~L~~~L~dd~~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~~e~vrR~aalgLGll~~g~~e~  542 (963)
T 4ady_A          464 AAMGSAN-IEVYEALKEVLYNDSATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQHGNITRGLAVGLALINYGRQEL  542 (963)
T ss_dssp             HSTTCCC-HHHHHHHHHHHHTCCHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCGGG
T ss_pred             HhcCCCC-HHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhhhCCChHH
Confidence            2233333 34444444444322110 1122234455566778877777777655422 2  2222333344557799999


Q ss_pred             HHHHHHHHHHCCCCCCHH-HHH---HHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHH
Q 006388          360 TIDLFEKMLSHGLKPDEV-TLI---GVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFI  435 (647)
Q Consensus       360 A~~~~~~m~~~g~~p~~~-t~~---~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~  435 (647)
                      +..+.+.+...   .|.. -|.   .+.-+|+..|+.....+++..+.++  ...++.....+.-++.-.|+.+.+.+++
T Consensus       543 ~~~li~~L~~~---~dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d--~~d~VRraAViaLGlI~~g~~e~v~rlv  617 (963)
T 4ady_A          543 ADDLITKMLAS---DESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSD--SNDDVRRAAVIALGFVLLRDYTTVPRIV  617 (963)
T ss_dssp             GHHHHHHHHHC---SCHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHC--SCHHHHHHHHHHHHHHTSSSCSSHHHHT
T ss_pred             HHHHHHHHHhC---CCHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccC--CcHHHHHHHHHHHHhhccCCHHHHHHHH
Confidence            99898888863   3333 333   3345778889988888898888753  2333333333333344466666666666


Q ss_pred             HhCCCCCChhhHH--HHHHHHHhcCCh-hHHHHHHHHHh
Q 006388          436 NKMPFPPDAIGWA--TLLSSCRIHGNV-EIGKWAAESLL  471 (647)
Q Consensus       436 ~~~~~~p~~~~~~--~ll~~~~~~~~~-~~a~~~~~~~~  471 (647)
                      +.+....|..+-.  .+.-+....|+. ..+...+..+.
T Consensus       618 ~~L~~~~d~~VR~gAalALGli~aGn~~~~aid~L~~L~  656 (963)
T 4ady_A          618 QLLSKSHNAHVRCGTAFALGIACAGKGLQSAIDVLDPLT  656 (963)
T ss_dssp             TTGGGCSCHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHH
T ss_pred             HHHHhcCCHHHHHHHHHHHHHhccCCCcHHHHHHHHHHc
Confidence            6542122332222  222222323332 45666666654

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=89.29  E-value=7.6  Score=31.40  Aligned_cols=84  Identities=15%  Similarity=0.114  Sum_probs=53.2

Q ss_pred             hcCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHH
Q 006388          322 KCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEI  401 (647)
Q Consensus       322 ~~g~~~~A~~~~~~~~~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~  401 (647)
                      .||++......+-.+.. +....+..+..+...|+-++-.+++..+.. +.+|++.....+..||.+.|+..++.+++.+
T Consensus        73 ~C~NlKrVi~C~~~~n~-~se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~  150 (172)
T 1wy6_A           73 KCQNLKSVVECGVINNT-LNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIE  150 (172)
T ss_dssp             GCSCTHHHHHHHHHTTC-CCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             hhhcHHHHHHHHHHhcc-hHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHH
Confidence            34555555444444332 333445566677777777777777777533 2467777777777788888888888877777


Q ss_pred             HHHhcCC
Q 006388          402 MVKEYGI  408 (647)
Q Consensus       402 ~~~~~~~  408 (647)
                      ..+. |+
T Consensus       151 AC~k-G~  156 (172)
T 1wy6_A          151 ACKK-GE  156 (172)
T ss_dssp             HHHT-TC
T ss_pred             HHHh-hh
Confidence            7654 54

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=88.91  E-value=17  Score=34.80  Aligned_cols=166  Identities=12%  Similarity=0.100  Sum_probs=103.2

Q ss_pred             HHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChHHHHHHH----HHHHHCCCCCCHHHHHHHHHHHhcC
Q 006388          314 NALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLF----EKMLSHGLKPDEVTLIGVLSACSRA  389 (647)
Q Consensus       314 ~~li~~~~~~g~~~~A~~~~~~~~~~d~~~~~~li~~~~~~g~~~~A~~~~----~~m~~~g~~p~~~t~~~ll~a~~~~  389 (647)
                      .++..=|.+.+++++|.+++..           -...+.++|+...|.++-    +-..+.++++|..+...++..+...
T Consensus        39 RTi~~Ry~~~k~y~eAidLL~~-----------GA~~ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~~L~~~~  107 (336)
T 3lpz_A           39 RLVAARYSKQGNWAAAVDILAS-----------VSQTLLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLLGCLRLF  107 (336)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHH-----------HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTS
T ss_pred             HHHHHHHHhhcCHHHHHHHHHH-----------HHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhC
Confidence            4455558888899988887643           234466777776666554    5555678888888887777776654


Q ss_pred             CcHH-HHHHHHHHHHH---hcC--CCcChHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHH
Q 006388          390 GLVE-KGRHYFEIMVK---EYG--IRPIHDHYTCMIDILSRAGRLEEAKSFINKMPFPPDAIGWATLLSSCRIHGNVEIG  463 (647)
Q Consensus       390 g~~~-~a~~~~~~~~~---~~~--~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a  463 (647)
                      ..-+ .=..+.+.+++   ++|  -.-++.....+...|.+.|++.+|...|- .+..+++..+..++.-+...+..   
T Consensus       108 ~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~i-lg~~~s~~~~a~mL~ew~~~~~~---  183 (336)
T 3lpz_A          108 QPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKHLV-LGTKESPEVLARMEYEWYKQDES---  183 (336)
T ss_dssp             CTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHT-TSCTTHHHHHHHHHHHHHHTSCG---
T ss_pred             CCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHHHH-hcCCchHHHHHHHHHHHHHhcCC---
Confidence            4211 11222222221   123  23467778889999999999999999885 34344456666665555444332   


Q ss_pred             HHHHHHHhccCCCCchhHH-HHHHhhhhCCChhHHHHHHHHHHh
Q 006388          464 KWAAESLLELDPYNPASYV-LLSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       464 ~~~~~~~~~~~p~~~~~~~-~l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                                  .....|. ...--|...|+...|..+++...+
T Consensus       184 ------------~e~dlfiaRaVL~yL~l~n~~~A~~~~~~f~~  215 (336)
T 3lpz_A          184 ------------HTAPLYCARAVLPYLLVANVRAANTAYRIFTS  215 (336)
T ss_dssp             ------------GGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ------------ccHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence                        2222222 223346678899999998877664

>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=88.15  E-value=0.85  Score=45.43  Aligned_cols=68  Identities=15%  Similarity=0.151  Sum_probs=53.3

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHH-----hCCCccCCC
Q 006388          447 WATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMR-----EKGVRKDPG  514 (647)
Q Consensus       447 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~-----~~g~~~~~~  514 (647)
                      ...++.++...|+.+++...++.+...+|-+...+..|+.+|.+.|+..+|.+.|++..     +.|+.|.|.
T Consensus       174 ~~~~~~~~l~~g~~~~a~~~l~~~~~~~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~  246 (388)
T 2ff4_A          174 HTAKAEAEIACGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPT  246 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHH
Confidence            34456667778888888888888888888888888888888888888888888887764     358877653

>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=86.91  E-value=8.2  Score=29.09  Aligned_cols=88  Identities=14%  Similarity=0.090  Sum_probs=62.4

Q ss_pred             CChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHH
Q 006388          188 LALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQ  267 (647)
Q Consensus       188 ~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  267 (647)
                      ...++|..+-+.+...+.  ...+--.-+..+...|++++|..+.+....||..+|-+|-.  .+.|..+++...+.++.
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            356677777777666553  33333333456778899999999999999999999988865  36677788888777777


Q ss_pred             HCCCCCCHHHHHH
Q 006388          268 RNGIEPDDFTLGS  280 (647)
Q Consensus       268 ~~g~~p~~~t~~~  280 (647)
                      .+| .|....|..
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            776 555555543

>2qx5_A Nucleoporin NIC96; mRNA transport, nuclear pore complex, nucleus, protein transport, translocation, transport, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2rfo_A

Probab=86.80  E-value=35  Score=36.18  Aligned_cols=44  Identities=18%  Similarity=0.046  Sum_probs=27.4

Q ss_pred             HHHHHHHHcCCChhHHHHHHHHHHHCCCCCCCcchHHHHHHHHhCC
Q 006388           10 NLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSR   55 (647)
Q Consensus        10 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~~ll~~~~~~   55 (647)
                      -.+|=.+.+.|.+++|.++.++....-  ..-...|...+..+...
T Consensus       156 Wa~IyY~LR~G~~~~A~e~~~~~~~~~--~~~d~~F~~~l~~~~~s  199 (661)
T 2qx5_A          156 WALIFYLLRAGLIKEALQVLVENKANI--KKVEQSFLTYFKAYASS  199 (661)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHTGGGC-------CHHHHHHHC---
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHhhhhH--hhhhHHHHHHHHHHHhC
Confidence            356778889999999999987765321  11224677777777643

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=85.86  E-value=7.8  Score=29.15  Aligned_cols=88  Identities=11%  Similarity=0.121  Sum_probs=63.3

Q ss_pred             CChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHH
Q 006388          188 LALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQ  267 (647)
Q Consensus       188 ~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  267 (647)
                      ...++|..+-+.+...+.  ...+--.-+..+...|++++|..+.+....||..+|-+|-.  .+.|..+++...+.++.
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            356677777776666553  33333333456778899999999999999999999988765  47788888888888888


Q ss_pred             HCCCCCCHHHHHH
Q 006388          268 RNGIEPDDFTLGS  280 (647)
Q Consensus       268 ~~g~~p~~~t~~~  280 (647)
                      .+| .|....|..
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 555555543

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=84.89  E-value=5.3  Score=33.62  Aligned_cols=22  Identities=9%  Similarity=0.283  Sum_probs=12.1

Q ss_pred             HHHHHHHcCCHHHHHHHHHhCC
Q 006388          418 MIDILSRAGRLEEAKSFINKMP  439 (647)
Q Consensus       418 li~~~~~~g~~~~A~~~~~~~~  439 (647)
                      +..+|.+.|++++|+.+++..|
T Consensus       128 ia~C~~~l~~~~~Ai~~Le~Ip  149 (167)
T 3ffl_A          128 LAECYTVLKQDKDAIAILDGIP  149 (167)
T ss_dssp             HHHHHHHTTCHHHHHHHHHTSC
T ss_pred             HHHHHHHHCCHHHHHHHHhcCC
Confidence            4445555555555555555554

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=84.61  E-value=4.2  Score=30.83  Aligned_cols=62  Identities=19%  Similarity=0.288  Sum_probs=48.4

Q ss_pred             hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHH
Q 006388          357 ANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMID  420 (647)
Q Consensus       357 ~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~  420 (647)
                      .-++.+-++.+....+.|+.....+.|.||.+..++..|.++|+.+..+-  .+....|..+++
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            44566667777777889999999999999999999999999999887643  334556777764

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=84.04  E-value=12  Score=28.25  Aligned_cols=86  Identities=10%  Similarity=0.019  Sum_probs=57.0

Q ss_pred             hHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHC
Q 006388          291 LEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEKMLSH  370 (647)
Q Consensus       291 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  370 (647)
                      .++|..|-+.+...+.  ...+--.=+..+...|++++|..+.+....||...|-++-.  .+.|..+++..-+.++..+
T Consensus        22 HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL~~la~s   97 (115)
T 2uwj_G           22 HEEALCIAEWLERLGQ--DEAARLIRISSLANQGRYQEALAFAHGNPWPALEPWFALCE--WHLGLGAALDRRLAGLGGS   97 (115)
T ss_dssp             HHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHGGGTTCCCGGGHHHHHHHH--HHTTCHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHHHHHHhC
Confidence            4555555555555443  22222223344667899999999999988999999987754  4678888888777777776


Q ss_pred             CCCCCHHHHHH
Q 006388          371 GLKPDEVTLIG  381 (647)
Q Consensus       371 g~~p~~~t~~~  381 (647)
                      | .|....|..
T Consensus        98 g-~p~~q~Fa~  107 (115)
T 2uwj_G           98 S-DPALADFAA  107 (115)
T ss_dssp             S-SHHHHHHHH
T ss_pred             C-CHHHHHHHH
Confidence            5 555555543

>3ltm_A Alpha-REP4; protein engineering, heat-like repeat, protein binding; HET: 1PE 12P; 2.15A {Synthetic}

Probab=83.84  E-value=22  Score=31.19  Aligned_cols=14  Identities=21%  Similarity=0.019  Sum_probs=5.3

Q ss_pred             hHHHHHHHHHHhcC
Q 006388          210 FVGSALVDMYCKCK  223 (647)
Q Consensus       210 ~~~~~li~~y~~~g  223 (647)
                      .+-...+.++.+.|
T Consensus       127 ~vr~~a~~aL~~~~  140 (211)
T 3ltm_A          127 FVRIAAAFALGEIG  140 (211)
T ss_dssp             HHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHcC
Confidence            33333333333333

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=83.79  E-value=31  Score=32.93  Aligned_cols=130  Identities=12%  Similarity=0.085  Sum_probs=74.6

Q ss_pred             HHHHHHhcCChHHHHHHhhcCCCCCeehHHHHHHHHHhCCChhHHHHHH----HHHHHCCCCCChhhHHHHHHHHhcCCC
Q 006388          114 MITGLLRRGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLEREAIDLF----REMRLEGLAMDQFTFGSVLTACGGLLA  189 (647)
Q Consensus       114 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~----~~m~~~g~~pd~~t~~~ll~~~~~~~~  189 (647)
                      +..=|.+.+++++|.+++..           -...+.+.|+...|-++-    +-+.+.++++|..+...++..+.....
T Consensus        41 i~~Ry~~~k~y~eAidLL~~-----------GA~~ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~~L~~~~~~  109 (336)
T 3lpz_A           41 VAARYSKQGNWAAAVDILAS-----------VSQTLLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLLGCLRLFQP  109 (336)
T ss_dssp             HHHHHHHTTCHHHHHHHHHH-----------HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTSCT
T ss_pred             HHHHHHhhcCHHHHHHHHHH-----------HHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCC
Confidence            33445555666666555422           233455667766655554    445567788888887777777766553


Q ss_pred             hH-HHHHHHH----HHHHcC--CCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcC
Q 006388          190 LE-EGKQIHA----FIIRND--HKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWKNVVSWTAMLVGYGQNG  254 (647)
Q Consensus       190 ~~-~a~~~~~----~~~~~g--~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g  254 (647)
                      -+ .=..+..    +-.+.|  ...|+.....+...|.+.+++.+|+..|-.-..+.+..+..|+.-+...+
T Consensus       110 ~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~ilg~~~s~~~~a~mL~ew~~~~  181 (336)
T 3lpz_A          110 GEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKHLVLGTKESPEVLARMEYEWYKQD  181 (336)
T ss_dssp             TCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHTTSCTTHHHHHHHHHHHHHHTS
T ss_pred             CCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHhcCCchHHHHHHHHHHHHHhc
Confidence            22 1122333    333334  34566777788888888888888888874322222355555544444433

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=83.73  E-value=9  Score=32.25  Aligned_cols=63  Identities=10%  Similarity=-0.143  Sum_probs=45.0

Q ss_pred             cHHHHHHHHHcCCChhHHHHHHHHHHHCC-CCCCCc-------chHHHHHHHHhCCCChHHHHHHHHHHHHh
Q 006388            8 SWNLLISGHASHGSVNDAVKVYNLMLKDG-LGNLSR-------ITFSTMLIMSSSRRCVDLGRQIHGHILKF   71 (647)
Q Consensus         8 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~~~~~-------~~~~~ll~~~~~~~~~~~a~~~~~~~~~~   71 (647)
                      .+-.-+..+...|.++.|.-+.+.+.... . .|+.       .++..+..++...+++..|...+++.++.
T Consensus        22 ~l~dqik~L~d~~LY~sA~~La~lLlSl~~~-~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~   92 (167)
T 3ffl_A           22 NVIDHVRDMAAAGLHSNVRLLSSLLLTLSNN-NPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQ   92 (167)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH-STTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHhhcC-CcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHH
Confidence            34445667788899999988887765432 1 3342       25677778888999999999999887554

>2p58_C Putative type III secretion protein YSCG; type III secretion system, structure, needle protein, YSCE, YSCF, transport protein/chaperone complex; 1.80A {Yersinia pestis}

Probab=83.50  E-value=12  Score=28.15  Aligned_cols=87  Identities=15%  Similarity=0.143  Sum_probs=57.0

Q ss_pred             ChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHH
Q 006388          290 SLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEKMLS  369 (647)
Q Consensus       290 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~  369 (647)
                      ..++|..|-+.+...+.  ...+--.=+..+...|++++|..+.+....||...|-++-.  .+.|..+++..-+.++..
T Consensus        22 ~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL~~la~   97 (116)
T 2p58_C           22 YHEEANCIAEWLHLKGE--EEAVQLIRLSSLMNRGDYASALQQGNKLAYPDLEPWLALCE--YRLGLGSALESRLNRLAR   97 (116)
T ss_dssp             CHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTSCCGGGHHHHHHHH--HHHTCHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHHHHHHh
Confidence            34555555555555543  22222223344667899999999999999999999987755  466777777777777776


Q ss_pred             CCCCCCHHHHHH
Q 006388          370 HGLKPDEVTLIG  381 (647)
Q Consensus       370 ~g~~p~~~t~~~  381 (647)
                      +| .|....|..
T Consensus        98 sg-~p~~q~Fa~  108 (116)
T 2p58_C           98 SQ-DPRIQTFVN  108 (116)
T ss_dssp             CC-CHHHHHHHH
T ss_pred             CC-CHHHHHHHH
Confidence            65 455445543

>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=82.58  E-value=5.8  Score=31.95  Aligned_cols=37  Identities=19%  Similarity=0.185  Sum_probs=26.4

Q ss_pred             hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchh
Q 006388          444 AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPAS  480 (647)
Q Consensus       444 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~  480 (647)
                      ...+--|.-++.+.|+++.|.+..+.+++.+|+|..+
T Consensus        78 Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~eP~N~QA  114 (134)
T 3o48_A           78 RECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQV  114 (134)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHTTCTTCHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHhhCCCCHHH
Confidence            3445556667778888888888888888888876533

>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha solenoid, regulatory PART LID, hydrolase, protein binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A

Probab=82.18  E-value=34  Score=33.63  Aligned_cols=159  Identities=11%  Similarity=-0.034  Sum_probs=0.0

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHH----HHHHHHHHHhcCCc-----HHHHHHHHHHHHHhcCCCcChH
Q 006388          343 SWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEV----TLIGVLSACSRAGL-----VEKGRHYFEIMVKEYGIRPIHD  413 (647)
Q Consensus       343 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~----t~~~ll~a~~~~g~-----~~~a~~~~~~~~~~~~~~p~~~  413 (647)
                      +...|...|.+.|+.++..+++.....-=-.....    ....++..+....+     ++-..+.++....+...-....
T Consensus        21 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~~~r~flr~~  100 (394)
T 3txn_A           21 GILQQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWAKQEKRTFLRQS  100 (394)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHH


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHhC-----CCCCC---hhhHHHHHHHHHhcCChhHHHHHHHHHhccC----CC---Cc
Q 006388          414 HYTCMIDILSRAGRLEEAKSFINKM-----PFPPD---AIGWATLLSSCRIHGNVEIGKWAAESLLELD----PY---NP  478 (647)
Q Consensus       414 ~~~~li~~~~~~g~~~~A~~~~~~~-----~~~p~---~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~----p~---~~  478 (647)
                      .=.-++..|...|++.+|.+++.++     .....   ..++..-+..|...+|+..+..++.++....    |+   -+
T Consensus       101 l~~kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~i~a  180 (394)
T 3txn_A          101 LEARLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPKVQG  180 (394)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHHHHH


Q ss_pred             hhHHHHHHhhh-hCCChhHHHHHH
Q 006388          479 ASYVLLSSIYA-SKGKWDHVSQLR  501 (647)
Q Consensus       479 ~~~~~l~~~~~-~~g~~~~a~~~~  501 (647)
                      .....-+-.+. ..++|.+|...|
T Consensus       181 ~i~~~~Gi~~l~~~rdyk~A~~~F  204 (394)
T 3txn_A          181 ALDLQSGILHAADERDFKTAFSYF  204 (394)
T ss_dssp             HHHHHHHHHHHHTTSCHHHHHHHH
T ss_pred             HHHHHhhHHHHHhccCHHHHHHHH

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=82.13  E-value=10  Score=43.74  Aligned_cols=124  Identities=6%  Similarity=-0.150  Sum_probs=80.2

Q ss_pred             HHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC--CCCC-----------------
Q 006388          382 VLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM--PFPP-----------------  442 (647)
Q Consensus       382 ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~--~~~p-----------------  442 (647)
                      ++..+...+..+.+.++..-      .+.+...--.+..+|...|++++|.+.|++.  ++.+                 
T Consensus       818 l~~~l~~~~~~~~~~~l~~~------~~~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~~~~~~~~l~~~~~~~~~~~~~  891 (1139)
T 4fhn_B          818 LVEKLFLFKQYNACMQLIGW------LNSDPIAVYLKALIYLKSKEAVKAVRCFKTTSLVLYSHTSQFAVLREFQEIAEK  891 (1139)
T ss_dssp             HHHHHHHHSCTTHHHHHHHH------SCCCHHHHHHHHHHHHHTTCHHHHHHHHHTCCCSCTTCCCSCSSHHHHHHHHHT
T ss_pred             HHHHHHHhhhHHHHHHHhhh------ccCCcHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccchhhhhhccccccccc
Confidence            44455555555555543321      1223333334556677788888888888776  1110                 


Q ss_pred             ------ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCC-Cc----hhHHHHHHhhhhCCChhHHHHHHHHHHhCCCcc
Q 006388          443 ------DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPY-NP----ASYVLLSSIYASKGKWDHVSQLRRTMREKGVRK  511 (647)
Q Consensus       443 ------~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~-~~----~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~~  511 (647)
                            -...|..++..+.+++.++.+.++.+.+++..+. +.    ..|..+...+...|++++|...+-.+.+...++
T Consensus       892 ~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~r~  971 (1139)
T 4fhn_B          892 YHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPLKK  971 (1139)
T ss_dssp             TTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSSCH
T ss_pred             ccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHHHH
Confidence                  1234566777788899999999999888876543 32    256778888899999999999998877655543

>1wdy_A 2-5A-dependent ribonuclease; hydrolase, RNA-binding; HET: 25A; 1.80A {Homo sapiens} SCOP: d.211.1.1

Probab=81.82  E-value=20  Score=32.99  Aligned_cols=207  Identities=14%  Similarity=0.081  Sum_probs=99.5

Q ss_pred             HHHHHHHcCCChhHHHHHHHHHHHCCCCCCCcc---hHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCchh--hHHHHHH
Q 006388           11 LLISGHASHGSVNDAVKVYNLMLKDGLGNLSRI---TFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVF--VGSPLVD   85 (647)
Q Consensus        11 ~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~---~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~--~~~~li~   85 (647)
                      +.+...++.|+.+...    .+.+.|. .++..   .-.+.+...+..|+.+    +.+.+++.|..++..  ...+.+.
T Consensus         7 ~~L~~A~~~g~~~~v~----~Ll~~g~-~~~~~~~~~g~t~L~~A~~~g~~~----~v~~Ll~~g~~~~~~~~~g~t~L~   77 (285)
T 1wdy_A            7 HLLIKAVQNEDVDLVQ----QLLEGGA-NVNFQEEEGGWTPLHNAVQMSRED----IVELLLRHGADPVLRKKNGATPFL   77 (285)
T ss_dssp             HHHHHHHHTTCHHHHH----HHHHTTC-CTTCCCTTTCCCHHHHHHHTTCHH----HHHHHHHTTCCTTCCCTTCCCHHH
T ss_pred             hHHHHHHHcCCHHHHH----HHHHcCC-CcccccCCCCCcHHHHHHHcCCHH----HHHHHHHcCCCCcccCCCCCCHHH
Confidence            4455566778765444    4445554 33322   1122334444556654    445555666554432  1223445


Q ss_pred             HHHhcCChHHHHHHhccCCCCC---chHHHHHHHHHHhcCChHHHHHHhhcCCCCCee-------------hHHHHHHHH
Q 006388           86 MYAKLGLIYDAKRGFDELPEKN---IVMYNTMITGLLRRGLVEESRRLFRGMKDKDSI-------------SWTTMITGL  149 (647)
Q Consensus        86 ~~~~~g~~~~A~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~-------------~~~~li~~~  149 (647)
                      ..++.|+.+-+..+++.-..++   ...+ +.+...++.|+.+-...+++.-...+..             .++ .+...
T Consensus        78 ~A~~~~~~~~v~~Ll~~g~~~~~~~~~g~-t~L~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~~~~~~~~~g~t-~L~~A  155 (285)
T 1wdy_A           78 LAAIAGSVKLLKLFLSKGADVNECDFYGF-TAFMEAAVYGKVKALKFLYKRGANVNLRRKTKEDQERLRKGGAT-ALMDA  155 (285)
T ss_dssp             HHHHHTCHHHHHHHHHTTCCTTCBCTTCC-BHHHHHHHTTCHHHHHHHHHTTCCTTCCCCCCHHHHHTTCCCCC-HHHHH
T ss_pred             HHHHcCCHHHHHHHHHcCCCCCccCcccC-CHHHHHHHhCCHHHHHHHHHhCCCcccccccHHHHHhhccCCCc-HHHHH
Confidence            5567788887777777644332   2222 2344455677777777777664433221             112 23333


Q ss_pred             HhCCChhHHHHHHHHHHHC-CCCCCh---hhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCchh--HHHHHHHHHHhcC
Q 006388          150 MQNGLEREAIDLFREMRLE-GLAMDQ---FTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVF--VGSALVDMYCKCK  223 (647)
Q Consensus       150 ~~~g~~~~A~~~~~~m~~~-g~~pd~---~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~--~~~~li~~y~~~g  223 (647)
                      +..|+.+-+    +.+.+. |..++.   ...+.+..++ ..++.....++.+.+++.|..++..  ...+.+...++.|
T Consensus       156 ~~~~~~~~v----~~Ll~~~~~~~~~~~~~g~t~l~~a~-~~~~~~~~~~i~~~Ll~~g~~~~~~~~~g~t~L~~A~~~~  230 (285)
T 1wdy_A          156 AEKGHVEVL----KILLDEMGADVNACDNMGRNALIHAL-LSSDDSDVEAITHLLLDHGADVNVRGERGKTPLILAVEKK  230 (285)
T ss_dssp             HHHTCHHHH----HHHHHTSCCCTTCCCTTSCCHHHHHH-HCSCTTTHHHHHHHHHHTTCCSSCCCTTSCCHHHHHHHTT
T ss_pred             HHcCCHHHH----HHHHHhcCCCCCccCCCCCCHHHHHH-HccccchHHHHHHHHHHcCCCCCCcCCCCCcHHHHHHHcC
Confidence            444554433    333333 443332   2223333332 3344444456666667766554432  1122334445556


Q ss_pred             CHHHHHHHHh
Q 006388          224 SIKYAESVFR  233 (647)
Q Consensus       224 ~~~~A~~~~~  233 (647)
                      +.+-+..+++
T Consensus       231 ~~~~v~~Ll~  240 (285)
T 1wdy_A          231 HLGLVQRLLE  240 (285)
T ss_dssp             CHHHHHHHHH
T ss_pred             CHHHHHHHHh
Confidence            6665555555

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=81.31  E-value=14  Score=30.09  Aligned_cols=72  Identities=11%  Similarity=0.037  Sum_probs=44.5

Q ss_pred             CcChHHHHHHHHHHHHcCCHH---HHHHHHHhC-CCCC--ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchh
Q 006388          409 RPIHDHYTCMIDILSRAGRLE---EAKSFINKM-PFPP--DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPAS  480 (647)
Q Consensus       409 ~p~~~~~~~li~~~~~~g~~~---~A~~~~~~~-~~~p--~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~  480 (647)
                      .|+..+--.+..++.++...+   +++.+++.. ...|  .....--|.-++.+.|+++.|.+..+.+++.+|+|..+
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~eP~n~QA  113 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQV  113 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTCCCCHHH
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcHHH
Confidence            344444444445555554332   344444443 1123  23344566678899999999999999999999988544

>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=81.23  E-value=10  Score=37.57  Aligned_cols=68  Identities=15%  Similarity=0.098  Sum_probs=45.3

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHH----hcCCCcChHH
Q 006388          346 ALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVK----EYGIRPIHDH  414 (647)
Q Consensus       346 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~----~~~~~p~~~~  414 (647)
                      .++..+...|++.+|+..+..+... -+-+...+..++.++.+.|+..+|++.|+...+    +.|+.|...+
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 AKAEAEIACGRASAVIAELEALTFE-HPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  247 (388)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH-STTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHH
Confidence            3455666777777777777776654 233566777777777777777777777766533    4577776654

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=80.86  E-value=37  Score=34.20  Aligned_cols=186  Identities=9%  Similarity=0.129  Sum_probs=119.7

Q ss_pred             cCChhHHHHHHHHHHHC-----CCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHh-CCCcchh--HHHHHHHHHHhcC
Q 006388          253 NGCSEEAVKIFCNMQRN-----GIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVT-GLISFIT--VSNALVTFYGKCG  324 (647)
Q Consensus       253 ~g~~~~A~~~~~~m~~~-----g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~-~~~~~~~--~~~~li~~~~~~g  324 (647)
                      .|+++.|++.+..+.+.     ...........++..|...++++...+....+.+. |......  ..+.+++......
T Consensus        29 ~~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~qlk~ai~~~V~~~~~~l~~~~  108 (445)
T 4b4t_P           29 QNDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLKLSIQYMIQKVMEYLKSSK  108 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSHHHHHHHHHHHHHHHHHHC
T ss_pred             cCCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhcCC
Confidence            37788999888776542     23445667788899999999999887777665543 3322221  1223333333333


Q ss_pred             CH--HHHHHHHhhcCCC-C---------hhhHHHHHHHHHHcCChHHHHHHHHHHHHC--CCCCCH---HHHHHHHHHHh
Q 006388          325 NI--EDSHRLFNEMNVR-D---------EVSWTALVSGYAKFGKANETIDLFEKMLSH--GLKPDE---VTLIGVLSACS  387 (647)
Q Consensus       325 ~~--~~A~~~~~~~~~~-d---------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--g~~p~~---~t~~~ll~a~~  387 (647)
                      ..  +.-..+.+....- +         ......|...|...|++.+|..++.++...  |..+..   ..+...+..|.
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            32  2333444443311 1         123456778889999999999999998753  322221   25566677899


Q ss_pred             cCCcHHHHHHHHHHHHHh-cCC--CcC--hHHHHHHHHHHHHcCCHHHHHHHHHhC
Q 006388          388 RAGLVEKGRHYFEIMVKE-YGI--RPI--HDHYTCMIDILSRAGRLEEAKSFINKM  438 (647)
Q Consensus       388 ~~g~~~~a~~~~~~~~~~-~~~--~p~--~~~~~~li~~~~~~g~~~~A~~~~~~~  438 (647)
                      ..+++.+|..+++.+... ...  .|+  ...|.+++..+...+++.+|...|.+.
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 122  222  256788888889999999998887665

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=80.67  E-value=29  Score=39.94  Aligned_cols=165  Identities=12%  Similarity=0.013  Sum_probs=94.2

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCh
Q 006388          212 GSALVDMYCKCKSIKYAESVFRTMAWKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASL  291 (647)
Q Consensus       212 ~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~  291 (647)
                      ...++..+.+.+..+.|.++..-.+. +..+--.+..+|...|++++|.+.|.+.- .|+..+.....          ..
T Consensus       815 ~~~l~~~l~~~~~~~~~~~l~~~~~~-~~~~~yl~g~~~L~~ge~~~A~~~F~kaa-~~~~~~~~l~~----------~~  882 (1139)
T 4fhn_B          815 VTELVEKLFLFKQYNACMQLIGWLNS-DPIAVYLKALIYLKSKEAVKAVRCFKTTS-LVLYSHTSQFA----------VL  882 (1139)
T ss_dssp             HHHHHHHHHHHSCTTHHHHHHHHSCC-CHHHHHHHHHHHHHTTCHHHHHHHHHTCC-CSCTTCCCSCS----------SH
T ss_pred             HHHHHHHHHHhhhHHHHHHHhhhccC-CcHHHHHHHHHHHhcCCHHHHHHHHHHHh-hhhcccchhhh----------hh
Confidence            34466667777777777776555443 44444556678888999999999997642 12222111000          00


Q ss_pred             HHHHHHHHHHHHh-C-CCcchhHHHHHHHHHHhcCCHHHHHHHHhhc----CCCCh----hhHHHHHHHHHHcCChHHHH
Q 006388          292 EEGTQFHGRSLVT-G-LISFITVSNALVTFYGKCGNIEDSHRLFNEM----NVRDE----VSWTALVSGYAKFGKANETI  361 (647)
Q Consensus       292 ~~a~~~~~~~~~~-~-~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~----~~~d~----~~~~~li~~~~~~g~~~~A~  361 (647)
                      ..    +..+... . ...-..-|..++..+.+.+.++.+.++-...    ...+.    ..|..+..++...|++++|.
T Consensus       883 ~~----~~~~~~~~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay  958 (1139)
T 4fhn_B          883 RE----FQEIAEKYHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAH  958 (1139)
T ss_dssp             HH----HHHHHHTTTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGG
T ss_pred             cc----cccccccccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHH
Confidence            00    0011110 0 0112234555666677777766665544322    22221    25888999999999999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHH
Q 006388          362 DLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEK  394 (647)
Q Consensus       362 ~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~  394 (647)
                      ..+-.+.....+  ...+..++...+..|..+.
T Consensus       959 ~aL~~~pd~~~r--~~cLr~LV~~lce~~~~~~  989 (1139)
T 4fhn_B          959 VALMVLSTTPLK--KSCLLDFVNQLTKQGKINQ  989 (1139)
T ss_dssp             HHHHHHHHSSSC--HHHHHHHHHHHHHHCCHHH
T ss_pred             HHHHhCCCHHHH--HHHHHHHHHHHHhCCChhh
Confidence            999888765433  4456666666665555443

---

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	647
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	2e-06

>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 = 48.1 bits (113), Expect = 2e-06
 Identities = 33/193 (17%), Positives = 66/193 (34%), Gaps = 10/193 (5%)

Query: 309 FITVSNALVTFYGKCGNIEDSHRLFN---EMNVRDEVSWTALVSGYAKFGKANETIDLFE 365
           F    + L   +   G I  +   F     ++     ++  L +   +    +  +  + 
Sbjct: 168 FAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYL 227

Query: 366 KMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRP-IHDHYTCMIDILSR 424
           + LS            +       GL++     +   ++   ++P   D Y  + + L  
Sbjct: 228 RALSLSPNHAV-VHGNLACVYYEQGLIDLAIDTYRRAIE---LQPHFPDAYCNLANALKE 283

Query: 425 AGRLEEAKSFINK--MPFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYV 482
            G + EA+   N      P  A     L +  R  GN+E         LE+ P   A++ 
Sbjct: 284 KGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHS 343

Query: 483 LLSSIYASKGKWD 495
            L+S+   +GK  
Sbjct: 344 NLASVLQQQGKLQ 356

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	647
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.9
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.89
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.56
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.51
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.08
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.02
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.97
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.97
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	98.96
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	98.95
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	98.94
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.89
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.89
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.78
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.59
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.54
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.5
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.5
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.45
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.44
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.41
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.39
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.34
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.33
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.25
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.22
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.19
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.15
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.08
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.06
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.06
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.05
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.0
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.96
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.96
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.93
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.91
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.88
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.88
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.86
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.83
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.79
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	97.77
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.68
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.51
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.49
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.42
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.39
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.37
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	96.99
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	96.98
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	96.98
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	96.95
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	96.85
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	96.02
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	95.87
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	93.97
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	93.78
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	93.37
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	92.52
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	91.44
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	90.5
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	84.48

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.90  E-value=1.2e-20  Score=190.65  Aligned_cols=347  Identities=11%  Similarity=0.056  Sum_probs=234.4

Q ss_pred             eehHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHH
Q 006388          139 SISWTTMITGLMQNGLEREAIDLFREMRLEGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDM  218 (647)
Q Consensus       139 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~  218 (647)
                      +..|..+...|.+.|++++|+..|++..+... -+..++..+...+...|++++|.+.+....+... .+..........
T Consensus        33 ~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p-~~~~a~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~  110 (388)
T d1w3ba_          33 TGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNP-LLAEAYSNLGNVYKERGQLQEAIEHYRHALRLKP-DFIDGYINLAAA  110 (388)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHhhhhcccccccccccccccccc-cccccccccccc
Confidence            34455555555555555555555555544321 1233445555555555555555555555555432 222222223333


Q ss_pred             HHhcCCHHHHHHHHhcC---CCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHH
Q 006388          219 YCKCKSIKYAESVFRTM---AWKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGT  295 (647)
Q Consensus       219 y~~~g~~~~A~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~  295 (647)
                      +...+....+.......   .......+..........+....+...+.+..... +-+...+..+...+...+..+.|.
T Consensus       111 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~  189 (388)
T d1w3ba_         111 LVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAI  189 (388)
T ss_dssp             HHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHH
T ss_pred             ccccccccccccccccccccccccccccccccccccccchhhhhHHHHHHhhccC-cchhHHHHhhcccccccCcHHHHH
Confidence            33333333332222221   12233444455555666666666666666665542 223445556666667777777777


Q ss_pred             HHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCC
Q 006388          296 QFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMN---VRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGL  372 (647)
Q Consensus       296 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  372 (647)
                      ..+...++.. +.+...+..+...|...|++++|...|++..   ..+...|..+...+.+.|++++|+..|++..+.  
T Consensus       190 ~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--  266 (388)
T d1w3ba_         190 HHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIEL--  266 (388)
T ss_dssp             HHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--
T ss_pred             HHHHHHHHhC-cccHHHHHHHhhhhhccccHHHHHHHHHHhHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--
Confidence            7777776654 3455667778888888888888888887655   346667888888889999999999999998874  


Q ss_pred             CCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-hhhHHH
Q 006388          373 KPD-EVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPPD-AIGWAT  449 (647)
Q Consensus       373 ~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~  449 (647)
                      .|+ ..++..+..++...|++++|.+.++.....  .+.+...+..+...+.+.|++++|.+.+++. ...|+ ..+|..
T Consensus       267 ~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~  344 (388)
T d1w3ba_         267 QPHFPDAYCNLANALKEKGSVAEAEDCYNTALRL--CPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSN  344 (388)
T ss_dssp             CSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhcc--CCccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHH
Confidence            454 457888888899999999999999888763  4556778888899999999999999999886 55665 778888


Q ss_pred             HHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCC
Q 006388          450 LLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGK  493 (647)
Q Consensus       450 ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  493 (647)
                      +...+...|++++|+..++++++++|+++.+|..|+.+|.+.|+
T Consensus       345 la~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         345 LASVLQQQGKLQEALMHYKEAIRISPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHHHHHTTTCCHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCC
Confidence            99999999999999999999999999999999999999988775

>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=99.89  E-value=1.9e-19  Score=181.66  Aligned_cols=354  Identities=15%  Similarity=0.086  Sum_probs=292.2

Q ss_pred             HHHHHHhCCChhHHHHHHHHHHHCCCCC-ChhhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcC
Q 006388          145 MITGLMQNGLEREAIDLFREMRLEGLAM-DQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCK  223 (647)
Q Consensus       145 li~~~~~~g~~~~A~~~~~~m~~~g~~p-d~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g  223 (647)
                      +...+.+.|++++|++.|+++.+..  | +...+..+...+...|++++|...++.+++.. +.+..++..+..+|.+.|
T Consensus         5 la~~~~~~G~~~~A~~~~~~~l~~~--p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~g   81 (388)
T d1w3ba_           5 LAHREYQAGDFEAAERHCMQLWRQE--PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERG   81 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhhc
Confidence            4456778899999999999998753  4 45677888888999999999999999999875 456778899999999999


Q ss_pred             CHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHH
Q 006388          224 SIKYAESVFRTMAW---KNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGR  300 (647)
Q Consensus       224 ~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~  300 (647)
                      ++++|...+.....   .+...+..........+....+............ ................+....+......
T Consensus        82 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (388)
T d1w3ba_          82 QLQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNP-DLYCVRSDLGNLLKALGRLEEAKACYLK  160 (388)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCT-TCTHHHHHHHHHHHTTSCHHHHHHHHHH
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccccccccchhhhhHHHHHH
Confidence            99999999988754   3445566666666777777777777766655533 3334444455556667777777777777


Q ss_pred             HHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHH
Q 006388          301 SLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMN---VRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEV  377 (647)
Q Consensus       301 ~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~  377 (647)
                      ..... +.+...+..+...+...|++++|...+++..   ..+..+|..+...+...|++++|+..+++....+ ..+..
T Consensus       161 ~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~  238 (388)
T d1w3ba_         161 AIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAV  238 (388)
T ss_dssp             HHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHH
T ss_pred             hhccC-cchhHHHHhhcccccccCcHHHHHHHHHHHHHhCcccHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-hhHHH
Confidence            76664 4456778888999999999999999998765   3467789999999999999999999999998853 34556


Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC--CCCCChhhHHHHHHHHH
Q 006388          378 TLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM--PFPPDAIGWATLLSSCR  455 (647)
Q Consensus       378 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~ll~~~~  455 (647)
                      .+..+...+.+.|++++|...|+...+.  .+.+...+..+...|...|++++|.+.++..  ..+.+...+..+...+.
T Consensus       239 ~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~  316 (388)
T d1w3ba_         239 VHGNLACVYYEQGLIDLAIDTYRRAIEL--QPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKR  316 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHT--CSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccCCccchhhhHHHHHHH
Confidence            7788888999999999999999998763  2345678999999999999999999999887  23446788999999999


Q ss_pred             hcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHh
Q 006388          456 IHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       456 ~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      ..|++++|+..++++++..|+++.++..++.+|...|++++|.+.+++..+
T Consensus       317 ~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  367 (388)
T d1w3ba_         317 EQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIR  367 (388)
T ss_dssp             TTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT
T ss_pred             HCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999999876

>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=99.56  E-value=1.3e-13  Score=134.80  Aligned_cols=239  Identities=14%  Similarity=0.003  Sum_probs=166.2

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhc
Q 006388          245 AMLVGYGQNGCSEEAVKIFCNMQRNGIEPD-DFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKC  323 (647)
Q Consensus       245 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  323 (647)
                      .....+.+.|++++|+..|+++.+.  .|+ ..++..+..++...|+++.|...+..+++.. +.+...+..+...|...
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~  100 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQ--DPKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNE  100 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHS--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-ccccccccccccccccc
Confidence            4556677888888888888888775  343 4566666677777777777777777766654 33455555566666666


Q ss_pred             CCHHHHHHHHhhcCCCCh---hhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHH
Q 006388          324 GNIEDSHRLFNEMNVRDE---VSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFE  400 (647)
Q Consensus       324 g~~~~A~~~~~~~~~~d~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~  400 (647)
                      |++++|.+.++.....++   ..+........                    ..+.......+..+...+...++...|.
T Consensus       101 ~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~--------------------~~~~~~~~~~~~~~~~~~~~~~a~~~~~  160 (323)
T d1fcha_         101 SLQRQACEILRDWLRYTPAYAHLVTPAEEGAG--------------------GAGLGPSKRILGSLLSDSLFLEVKELFL  160 (323)
T ss_dssp             TCHHHHHHHHHHHHHTSTTTGGGCC-----------------------------------CTTHHHHHHHHHHHHHHHHH
T ss_pred             ccccccccchhhHHHhccchHHHHHhhhhhhh--------------------hcccccchhhHHHHHHhhHHHHHHHHHH
Confidence            666666666655431111   00000000000                    0000001111222334456778888888


Q ss_pred             HHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCc
Q 006388          401 IMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNP  478 (647)
Q Consensus       401 ~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~  478 (647)
                      ...+...-.++...+..+...+.+.|++++|...+++. ...| +...|..+...+...|++++|+..++++++++|+++
T Consensus       161 ~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~  240 (323)
T d1fcha_         161 AAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYI  240 (323)
T ss_dssp             HHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCH
T ss_pred             HHHHHhhcccccccchhhHHHHHHHHHHhhhhcccccccccccccccchhhhhhcccccccchhHHHHHHHHHHHhhccH
Confidence            87765444556788889999999999999999999987 3445 478899999999999999999999999999999999


Q ss_pred             hhHHHHHHhhhhCCChhHHHHHHHHHHh
Q 006388          479 ASYVLLSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       479 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      .++..++.+|.+.|++++|.+.+++..+
T Consensus       241 ~a~~~lg~~~~~~g~~~~A~~~~~~al~  268 (323)
T d1fcha_         241 RSRYNLGISCINLGAHREAVEHFLEALN  268 (323)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            9999999999999999999999999876

>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=99.51  E-value=1.1e-12  Score=128.27  Aligned_cols=264  Identities=12%  Similarity=-0.007  Sum_probs=191.4

Q ss_pred             HHHHHHHhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhccC
Q 006388          214 ALVDMYCKCKSIKYAESVFRTMAW---KNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEP-DDFTLGSVISSCANLA  289 (647)
Q Consensus       214 ~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~~  289 (647)
                      .....|.+.|++++|...|+++.+   .++.+|..+...|...|++++|+..|.+..+.  .| +...+..+...+...|
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~~  101 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLEL--KPDNQTALMALAVSFTNES  101 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhcc--ccccccccccccccccccc
Confidence            366778999999999999999754   35779999999999999999999999998875  45 4567777888899999


Q ss_pred             ChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHH
Q 006388          290 SLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEKMLS  369 (647)
Q Consensus       290 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~  369 (647)
                      ++++|.+.+..+........ .......... .               ..+.......+..+...+...+|...|.+..+
T Consensus       102 ~~~~A~~~~~~~~~~~~~~~-~~~~~~~~~~-~---------------~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~  164 (323)
T d1fcha_         102 LQRQACEILRDWLRYTPAYA-HLVTPAEEGA-G---------------GAGLGPSKRILGSLLSDSLFLEVKELFLAAVR  164 (323)
T ss_dssp             CHHHHHHHHHHHHHTSTTTG-GGCC-------------------------------CTTHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccccccchhhHHHhccchH-HHHHhhhhhh-h---------------hcccccchhhHHHHHHhhHHHHHHHHHHHHHH
Confidence            99999999999877542111 1000000000 0               00111111122334455667888888888776


Q ss_pred             CC-CCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-hhh
Q 006388          370 HG-LKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPPD-AIG  446 (647)
Q Consensus       370 ~g-~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~  446 (647)
                      .. -.++...+..+...+...|++++|...|+......  +-+...|..+...|.+.|++++|.+.+++. ...|+ ..+
T Consensus       165 ~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a  242 (323)
T d1fcha_         165 LDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR--PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRS  242 (323)
T ss_dssp             HSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHH
T ss_pred             HhhcccccccchhhHHHHHHHHHHhhhhcccccccccc--cccccchhhhhhcccccccchhHHHHHHHHHHHhhccHHH
Confidence            42 23455677788888999999999999999987642  335678889999999999999999999887 44554 778


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhH-----------HHHHHhhhhCCChhHHH
Q 006388          447 WATLLSSCRIHGNVEIGKWAAESLLELDPYNPASY-----------VLLSSIYASKGKWDHVS  498 (647)
Q Consensus       447 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~-----------~~l~~~~~~~g~~~~a~  498 (647)
                      |..++.+|...|++++|+..+++++++.|++...+           ..+..++...|+.+.+.
T Consensus       243 ~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~l~~al~~~~~~d~~~  305 (323)
T d1fcha_         243 RYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYG  305 (323)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCCcChhhhhhhHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            99999999999999999999999999988766543           34455555556655443

>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=99.08  E-value=2.1e-08  Score=97.94  Aligned_cols=256  Identities=10%  Similarity=0.017  Sum_probs=158.9

Q ss_pred             HHHhcCChhHHHHHHHHHHHCCCCCCH------HHHHHHHHHHhccCChHHHHHHHHHHHHhC----C-CcchhHHHHHH
Q 006388          249 GYGQNGCSEEAVKIFCNMQRNGIEPDD------FTLGSVISSCANLASLEEGTQFHGRSLVTG----L-ISFITVSNALV  317 (647)
Q Consensus       249 ~~~~~g~~~~A~~~~~~m~~~g~~p~~------~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~----~-~~~~~~~~~li  317 (647)
                      .+...|++++|++++++.....  |+.      ..+..+..++...|++++|...+....+..    . ......+..+.
T Consensus        21 ~~~~~g~~~~A~~~~~~aL~~~--~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~   98 (366)
T d1hz4a_          21 VAINDGNPDEAERLAKLALEEL--PPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQS   98 (366)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTC--CTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHhhC--cCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHH
Confidence            3444555555555555544431  211      123333344445555555555555443321    0 01123334455


Q ss_pred             HHHHhcCCHHHHHHHHhhcC-------CC----ChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCC----CCCHHHHHHH
Q 006388          318 TFYGKCGNIEDSHRLFNEMN-------VR----DEVSWTALVSGYAKFGKANETIDLFEKMLSHGL----KPDEVTLIGV  382 (647)
Q Consensus       318 ~~~~~~g~~~~A~~~~~~~~-------~~----d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~----~p~~~t~~~l  382 (647)
                      ..|...|++..|...+....       .+    ....+..+...+...|+++.+...+.+......    .....++...
T Consensus        99 ~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  178 (366)
T d1hz4a_          99 EILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAML  178 (366)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHH
Confidence            56666777766666665432       11    122455566777888888888888888775321    1223355555


Q ss_pred             HHHHhcCCcHHHHHHHHHHHHHhcCCCcC-----hHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-----ChhhHHHHH
Q 006388          383 LSACSRAGLVEKGRHYFEIMVKEYGIRPI-----HDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-----DAIGWATLL  451 (647)
Q Consensus       383 l~a~~~~g~~~~a~~~~~~~~~~~~~~p~-----~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-----~~~~~~~ll  451 (647)
                      ...+...+...++...+........-...     ...+..+...+...|++++|...+++. ...|     ....+..+.
T Consensus       179 ~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la  258 (366)
T d1hz4a_         179 IQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIA  258 (366)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHH
T ss_pred             HHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHH
Confidence            56677788888888877766543222111     234566777888999999999999887 2222     134566778


Q ss_pred             HHHHhcCChhHHHHHHHHHhc------cCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHh
Q 006388          452 SSCRIHGNVEIGKWAAESLLE------LDPYNPASYVLLSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       452 ~~~~~~~~~~~a~~~~~~~~~------~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      .++...|++++|...+++++.      ..|....++..++.+|...|++++|.+.+++..+
T Consensus       259 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         259 RAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  319 (366)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            889999999999999998874      3355567889999999999999999999988754

>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=99.02  E-value=1.6e-08  Score=97.09  Aligned_cols=185  Identities=14%  Similarity=0.135  Sum_probs=137.6

Q ss_pred             ChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCC--C-C-hhhHHHHHHHHHHcCChHHHHHHHH
Q 006388          290 SLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMNV--R-D-EVSWTALVSGYAKFGKANETIDLFE  365 (647)
Q Consensus       290 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-d-~~~~~~li~~~~~~g~~~~A~~~~~  365 (647)
                      ..+.+..+++..++...+.+...+..++..+.+.|+++.|..+|+++..  + + ...|...+....+.|+.++|.++|+
T Consensus        79 ~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~  158 (308)
T d2onda1          79 FSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFK  158 (308)
T ss_dssp             HHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHH
Confidence            3467777888877765566677788888888888999999999887652  2 3 3468888888888889999999999


Q ss_pred             HHHHCCCCCCHHHHHHHHH-HHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC----CC
Q 006388          366 KMLSHGLKPDEVTLIGVLS-ACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM----PF  440 (647)
Q Consensus       366 ~m~~~g~~p~~~t~~~ll~-a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~----~~  440 (647)
                      ++.+.+.. +...|..... -+...|+.+.|..+|+.+.+.+  +.+...|..+++.+.+.|++++|..+|++.    +.
T Consensus       159 ~al~~~~~-~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~--p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~  235 (308)
T d2onda1         159 KAREDART-RHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSL  235 (308)
T ss_dssp             HHHTSTTC-CTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH--TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSS
T ss_pred             HHHHhCCC-cHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhh--hhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC
Confidence            98876432 2333333332 2344678888999999888753  345677888888888899999999888876    33


Q ss_pred             CCC--hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCC
Q 006388          441 PPD--AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYN  477 (647)
Q Consensus       441 ~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~  477 (647)
                      .|+  ...|...+.--..+|+.+.+..+.+++.+..|.+
T Consensus       236 ~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~~~~~  274 (308)
T d2onda1         236 PPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFREE  274 (308)
T ss_dssp             CGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHTTTT
T ss_pred             ChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCccc
Confidence            443  4578888888888899999988888888877754

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.97  E-value=1e-09  Score=107.04  Aligned_cols=230  Identities=9%  Similarity=-0.040  Sum_probs=162.5

Q ss_pred             hcCChhHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhccC--ChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHH
Q 006388          252 QNGCSEEAVKIFCNMQRNGIEP-DDFTLGSVISSCANLA--SLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIED  328 (647)
Q Consensus       252 ~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  328 (647)
                      ..|++++|+..++...+.  .| +...+..+..++...+  +.+++...+..+.+.........+......+...+..++
T Consensus        85 ~~~~~~~al~~~~~~l~~--~pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~  162 (334)
T d1dcea1          85 SAALVKAELGFLESCLRV--NPKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAE  162 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHH
T ss_pred             HHHHHHHHHHHHHHHHHh--CCCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhCchhhhhhhhHHHHHHHhccccHH
Confidence            345577888888887765  34 3445555555554444  467888888888877533333333445577788899999


Q ss_pred             HHHHHhhcCCC---ChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHh
Q 006388          329 SHRLFNEMNVR---DEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKE  405 (647)
Q Consensus       329 A~~~~~~~~~~---d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~  405 (647)
                      |...++.+...   +..+|+.+...+.+.|++++|...+++....  .|+..   .+...+...+..+++...+..... 
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            99999988733   6778888999999999988887666554432  22222   222333444556667777776654 


Q ss_pred             cCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHH
Q 006388          406 YGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPPD-AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVL  483 (647)
Q Consensus       406 ~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~  483 (647)
                       .-+++...+..++..+...|+.++|.+.+.+. +..|+ ..+|..++..+...|+.++|...++++++++|.+...|..
T Consensus       237 -~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ldP~~~~y~~~  315 (334)
T d1dcea1         237 -GRAEPLFRCELSVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDD  315 (334)
T ss_dssp             -SCCCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGGGHHHHHH
T ss_pred             -hCcchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCcccHHHHHH
Confidence             33444555667777888889999999998877 55564 6788889999999999999999999999999988888888


Q ss_pred             HHHhhhh
Q 006388          484 LSSIYAS  490 (647)
Q Consensus       484 l~~~~~~  490 (647)
                      |...+.-
T Consensus       316 L~~~~~~  322 (334)
T d1dcea1         316 LRSKFLL  322 (334)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHhH
Confidence            8777653

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=98.97  E-value=4.6e-09  Score=98.10  Aligned_cols=198  Identities=10%  Similarity=-0.027  Sum_probs=106.6

Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHHHHH
Q 006388          277 TLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFYGKCGNIEDSHRLFNEMN---VRDEVSWTALVSGYAK  353 (647)
Q Consensus       277 t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~d~~~~~~li~~~~~  353 (647)
                      ++..+..++.+.|++++|...|...++.. +.++.+++.+..+|.+.|++++|.+.|+++.   ..+..+|..+...|..
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            34444455555666666666666665553 3455566666777777777777777776654   2245567777777777


Q ss_pred             cCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHc----CCH
Q 006388          354 FGKANETIDLFEKMLSHGLKPD-EVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRA----GRL  428 (647)
Q Consensus       354 ~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~----g~~  428 (647)
                      .|++++|+..|++..+.  .|+ ......+..++.+.+..+....+.......   .+....++ ++..+...    +..
T Consensus       118 ~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~-~~~~~~~~~~~~~~~  191 (259)
T d1xnfa_         118 GGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKS---DKEQWGWN-IVEFYLGNISEQTLM  191 (259)
T ss_dssp             TTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHS---CCCSTHHH-HHHHHTTSSCHHHHH
T ss_pred             HhhHHHHHHHHHHHHhh--ccccHHHHHHHHHHHHHhhhHHHHHHHHHHhhcc---chhhhhhh-HHHHHHHHHHHHHHH
Confidence            77777777777777664  333 333333333344444444444444433321   22221222 11222111    112


Q ss_pred             HHHHHHHHhC-CCCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhH
Q 006388          429 EEAKSFINKM-PFPPD-AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASY  481 (647)
Q Consensus       429 ~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~  481 (647)
                      +.+...+... ...|+ ..+|..+...+...|++++|...++++++.+|++...|
T Consensus       192 ~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~  246 (259)
T d1xnfa_         192 ERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNFVEH  246 (259)
T ss_dssp             HHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTCHHH
T ss_pred             HHHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHH
Confidence            2222222111 11222 34566677777888888888888888888888765444

>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=98.96  E-value=4.7e-08  Score=95.34  Aligned_cols=187  Identities=7%  Similarity=-0.026  Sum_probs=107.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhcCC----C----ChhhHHHHHHHHHHcCChHHHHHHHHHHHHC--CCCCCH----HH
Q 006388          313 SNALVTFYGKCGNIEDSHRLFNEMNV----R----DEVSWTALVSGYAKFGKANETIDLFEKMLSH--GLKPDE----VT  378 (647)
Q Consensus       313 ~~~li~~~~~~g~~~~A~~~~~~~~~----~----d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--g~~p~~----~t  378 (647)
                      +..+...+...|+++.+...+.....    .    ...++..+...+...++..++...+.+....  ......    ..
T Consensus       136 ~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~  215 (366)
T d1hz4a_         136 VRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNA  215 (366)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHH
T ss_pred             HHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHH
Confidence            34455556666666666666554430    0    1233444555566677777777766655431  111111    13


Q ss_pred             HHHHHHHHhcCCcHHHHHHHHHHHHHhcCC--CcChHHHHHHHHHHHHcCCHHHHHHHHHhC-------CCCCC-hhhHH
Q 006388          379 LIGVLSACSRAGLVEKGRHYFEIMVKEYGI--RPIHDHYTCMIDILSRAGRLEEAKSFINKM-------PFPPD-AIGWA  448 (647)
Q Consensus       379 ~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~--~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-------~~~p~-~~~~~  448 (647)
                      +......+...|++++|...++...+...-  ......+..+...+...|++++|.+.+++.       +..|+ ...|.
T Consensus       216 ~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  295 (366)
T d1hz4a_         216 NKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLL  295 (366)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHH
Confidence            344455666777888888777765432111  112344556777788888888888777665       33343 45677


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHhccCCCC---------chhHHHHHHhhhhCCChhHHHH
Q 006388          449 TLLSSCRIHGNVEIGKWAAESLLELDPYN---------PASYVLLSSIYASKGKWDHVSQ  499 (647)
Q Consensus       449 ~ll~~~~~~~~~~~a~~~~~~~~~~~p~~---------~~~~~~l~~~~~~~g~~~~a~~  499 (647)
                      .+...+...|++++|...+++++++.+..         ...+..+...+...|+.+++.+
T Consensus       296 ~la~~~~~~g~~~~A~~~l~~Al~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~l~e~e~  355 (366)
T d1hz4a_         296 LLNQLYWQAGRKSDAQRVLLDALKLANRTGFISHFVIEGEAMAQQLRQLIQLNTLPELEQ  355 (366)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHHHHCCCHHHHTTHHHHHHHHHHHHHTTCSCHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHhhhcCcHHHHHHHHHHHHHHHHHHHhcCCChHHHH
Confidence            77788888888888888888877754321         1223334444555566665544

>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=98.95  E-value=4.7e-09  Score=101.04  Aligned_cols=189  Identities=7%  Similarity=0.079  Sum_probs=100.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHHHHHcC-ChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHh
Q 006388          313 SNALVTFYGKCGNIEDSHRLFNEMN---VRDEVSWTALVSGYAKFG-KANETIDLFEKMLSHGLKPD-EVTLIGVLSACS  387 (647)
Q Consensus       313 ~~~li~~~~~~g~~~~A~~~~~~~~---~~d~~~~~~li~~~~~~g-~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~  387 (647)
                      ++-+...+.+.+..++|+++++++.   ..+..+|+....++...| ++++|+..+++..+.  .|+ ..+|..+...+.
T Consensus        46 ~~~~~~~~~~~e~~~~Al~~~~~ai~lnP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~--~p~~~~a~~~~~~~~~  123 (315)
T d2h6fa1          46 YDYFRAVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEE--QPKNYQVWHHRRVLVE  123 (315)
T ss_dssp             HHHHHHHHHHTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCchHHHHHHHHHHHHHCCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHH--HHhhhhHHHHHhHHHH
Confidence            3344444555555555555555544   224445555555555544 355666666655553  333 335555555555


Q ss_pred             cCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCC------
Q 006388          388 RAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGN------  459 (647)
Q Consensus       388 ~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~------  459 (647)
                      +.|++++|+..++.+.+.  -+.+...|..+...+.+.|++++|++.++++ ...| +...|+.+...+...+.      
T Consensus       124 ~l~~~~eAl~~~~kal~~--dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~n~~a~~~r~~~l~~~~~~~~~~~  201 (315)
T d2h6fa1         124 WLRDPSQELEFIADILNQ--DAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVRNNSVWNQRYFVISNTTGYNDRAV  201 (315)
T ss_dssp             HHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCSCSHHH
T ss_pred             hhccHHHHHHHHhhhhhh--hhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCccHHHHHHHHHHHHHccccchhhh
Confidence            566666666666655542  1223455555666666666666666666555 3333 34455555444443332      


Q ss_pred             hhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHh
Q 006388          460 VEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       460 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      +++|...+.++++++|++...+..++.++...| .+++.+.++...+
T Consensus       202 ~~~ai~~~~~al~~~P~~~~~~~~l~~ll~~~~-~~~~~~~~~~~~~  247 (315)
T d2h6fa1         202 LEREVQYTLEMIKLVPHNESAWNYLKGILQDRG-LSKYPNLLNQLLD  247 (315)
T ss_dssp             HHHHHHHHHHHHHHSTTCHHHHHHHHHHHTTTC-GGGCHHHHHHHHH
T ss_pred             hHHhHHHHHHHHHhCCCchHHHHHHHHHHHhcC-hHHHHHHHHHHHH
Confidence            455666666666666666666666666555443 3555555555544

>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=98.94  E-value=2.2e-08  Score=96.19  Aligned_cols=209  Identities=13%  Similarity=0.154  Sum_probs=126.9

Q ss_pred             hHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCCcchhHHHHHHHHH
Q 006388          241 VSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLISFITVSNALVTFY  320 (647)
Q Consensus       241 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  320 (647)
                      .+++.+...+.+.+.+++|+++++++.+.  .|+..                                  .+|+....++
T Consensus        44 ~a~~~~~~~~~~~e~~~~Al~~~~~ai~l--nP~~~----------------------------------~a~~~r~~~l   87 (315)
T d2h6fa1          44 DVYDYFRAVLQRDERSERAFKLTRDAIEL--NAANY----------------------------------TVWHFRRVLL   87 (315)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHH--CTTCH----------------------------------HHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHHH--CCCCh----------------------------------HHHHHHHHHH
Confidence            35556666666777777777777777663  44433                                  2333333333


Q ss_pred             HhcC-CHHHHHHHHhhcC---CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhcCCcHHHH
Q 006388          321 GKCG-NIEDSHRLFNEMN---VRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKP-DEVTLIGVLSACSRAGLVEKG  395 (647)
Q Consensus       321 ~~~g-~~~~A~~~~~~~~---~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a  395 (647)
                      ...| ++++|+..++...   ..+..+|+.+...+.+.|++++|+..++++.+.  .| +...|..+...+.+.|++++|
T Consensus        88 ~~l~~~~~eal~~~~~al~~~p~~~~a~~~~~~~~~~l~~~~eAl~~~~kal~~--dp~n~~a~~~~~~~~~~~~~~~~A  165 (315)
T d2h6fa1          88 KSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLVEWLRDPSQELEFIADILNQ--DAKNYHAWQHRQWVIQEFKLWDNE  165 (315)
T ss_dssp             HHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCTTH
T ss_pred             HHhCcCHHHHHHHHHHHHHHHHhhhhHHHHHhHHHHhhccHHHHHHHHhhhhhh--hhcchHHHHHHHHHHHHHHhhHHH
Confidence            3333 2455555554443   335566666666667777777777777777663  33 344666666677777777777


Q ss_pred             HHHHHHHHHhcCCCcChHHHHHHHHHHHHcCC------HHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHH
Q 006388          396 RHYFEIMVKEYGIRPIHDHYTCMIDILSRAGR------LEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAA  467 (647)
Q Consensus       396 ~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~------~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~  467 (647)
                      ++.++.+++.  -+.+...|+.+..++.+.|.      +++|.+.+.++ ...| +...|..+...+.. ...+++...+
T Consensus       166 l~~~~~al~~--~p~n~~a~~~r~~~l~~~~~~~~~~~~~~ai~~~~~al~~~P~~~~~~~~l~~ll~~-~~~~~~~~~~  242 (315)
T d2h6fa1         166 LQYVDQLLKE--DVRNNSVWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKLVPHNESAWNYLKGILQD-RGLSKYPNLL  242 (315)
T ss_dssp             HHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTT-TCGGGCHHHH
T ss_pred             HHHHHHHHHH--CCccHHHHHHHHHHHHHccccchhhhhHHhHHHHHHHHHhCCCchHHHHHHHHHHHh-cChHHHHHHH
Confidence            7777777653  12244566666666655554      56777777665 3445 47778777666544 4467788888


Q ss_pred             HHHhccCCCC--chhHHHHHHhhhh
Q 006388          468 ESLLELDPYN--PASYVLLSSIYAS  490 (647)
Q Consensus       468 ~~~~~~~p~~--~~~~~~l~~~~~~  490 (647)
                      +.+.++.|..  +..+..++.+|..
T Consensus       243 ~~~~~l~~~~~~~~~~~~l~~~y~~  267 (315)
T d2h6fa1         243 NQLLDLQPSHSSPYLIAFLVDIYED  267 (315)
T ss_dssp             HHHHHHTTTCCCHHHHHHHHHHHHH
T ss_pred             HHHHHhCCCcCCHHHHHHHHHHHHH
Confidence            8888888764  3445566666644

>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=98.89  E-value=8.8e-08  Score=91.72  Aligned_cols=182  Identities=9%  Similarity=0.050  Sum_probs=143.6

Q ss_pred             CCHHHHHHHHhhcC----CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHH
Q 006388          324 GNIEDSHRLFNEMN----VRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYF  399 (647)
Q Consensus       324 g~~~~A~~~~~~~~----~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~  399 (647)
                      +..++|..+|++..    ..+...|...+..+...|+.++|..+|+++.+.........|...+..+.+.|+++.|+++|
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            44577888888753    34667889999999999999999999999987533333457889999999999999999999


Q ss_pred             HHHHHhcCCCcChHHHHHHHHHH-HHcCCHHHHHHHHHhC-C-CCCChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCC
Q 006388          400 EIMVKEYGIRPIHDHYTCMIDIL-SRAGRLEEAKSFINKM-P-FPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPY  476 (647)
Q Consensus       400 ~~~~~~~~~~p~~~~~~~li~~~-~~~g~~~~A~~~~~~~-~-~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~  476 (647)
                      +.+.+.  .+.+...|....... ...|+.+.|..+|+++ . .+.+...|...+..+...|+++.|+.+|+++++..|.
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            998753  233445555555443 3468999999999988 2 3335789999999999999999999999999998775


Q ss_pred             Cch----hHHHHHHhhhhCCChhHHHHHHHHHHhC
Q 006388          477 NPA----SYVLLSSIYASKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       477 ~~~----~~~~l~~~~~~~g~~~~a~~~~~~m~~~  507 (647)
                      ++.    .|...+..-...|+.+.+.++.+++.+.
T Consensus       236 ~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~  270 (308)
T d2onda1         236 PPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             CGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            543    5667777767889999999999998764

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=98.89  E-value=7e-09  Score=96.80  Aligned_cols=193  Identities=11%  Similarity=0.035  Sum_probs=137.1

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHH
Q 006388          310 ITVSNALVTFYGKCGNIEDSHRLFNEMN---VRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPD-EVTLIGVLSA  385 (647)
Q Consensus       310 ~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a  385 (647)
                      ..++..+..+|.+.|++++|.+.|++..   ..++.+|+.+..+|.+.|++++|+..|++..+.  .|+ ..++..+..+
T Consensus        37 a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~  114 (259)
T d1xnfa_          37 AQLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLEL--DPTYNYAHLNRGIA  114 (259)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHhhccCCCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHH--HhhhhhhHHHHHHH
Confidence            3456678899999999999999999876   457889999999999999999999999999985  454 4578888899


Q ss_pred             HhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCChhhHHHHHHHHHhc----CCh
Q 006388          386 CSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPPDAIGWATLLSSCRIH----GNV  460 (647)
Q Consensus       386 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~ll~~~~~~----~~~  460 (647)
                      +...|++++|...|+...+..  +.+......+...+.+.+..+.+..+.... ...++...++. +..+...    +..
T Consensus       115 ~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~  191 (259)
T d1xnfa_         115 LYYGGRDKLAQDDLLAFYQDD--PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDKEQWGWNI-VEFYLGNISEQTLM  191 (259)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCCCSTHHHH-HHHHTTSSCHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHhhc--cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccchhhhhhhH-HHHHHHHHHHHHHH
Confidence            999999999999999998642  234444444445555666655555544433 12222222322 2222111    223


Q ss_pred             hHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHhC
Q 006388          461 EIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       461 ~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  507 (647)
                      +.+...+.......|....+|..++.+|...|++++|.+.+++..+.
T Consensus       192 ~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  238 (259)
T d1xnfa_         192 ERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN  238 (259)
T ss_dssp             HHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc
Confidence            33333333334445666678889999999999999999999998764

>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=98.78  E-value=1.2e-08  Score=99.16  Aligned_cols=251  Identities=8%  Similarity=-0.032  Sum_probs=174.0

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHH-H---HHHHHHh-------ccCChHHHHHHHHHHHHhCCCcchhHHH
Q 006388          246 MLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTL-G---SVISSCA-------NLASLEEGTQFHGRSLVTGLISFITVSN  314 (647)
Q Consensus       246 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~-~---~ll~a~~-------~~~~~~~a~~~~~~~~~~~~~~~~~~~~  314 (647)
                      ++......+..++|++++++..+.  .|+..+. +   .++....       ..+.++++..+++.+.+.. +.+...+.
T Consensus        35 ~~~~~~~~~~~~~al~~~~~~l~~--~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~-pk~~~~~~  111 (334)
T d1dcea1          35 VFQKRQAGELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWH  111 (334)
T ss_dssp             HHHHHHTTCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             HHHHHhcccccHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC-CCcHHHHH
Confidence            333333344457888888888764  5665442 2   2222222       2345677888888887765 44666666


Q ss_pred             HHHHHHHhcC--CHHHHHHHHhhcC---CCChhhHHHH-HHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc
Q 006388          315 ALVTFYGKCG--NIEDSHRLFNEMN---VRDEVSWTAL-VSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSR  388 (647)
Q Consensus       315 ~li~~~~~~g--~~~~A~~~~~~~~---~~d~~~~~~l-i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~  388 (647)
                      .+...+...+  ++++|...++++.   .++...|... ...+...+.+++|+..+++..+.. +-+...|..+...+..
T Consensus       112 ~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~-p~~~~a~~~l~~~~~~  190 (334)
T d1dcea1         112 HRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQ  190 (334)
T ss_dssp             HHHHHHHTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHH
T ss_pred             HhhHHHHHhccccHHHHHHHHHHHHhhCchhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHH
Confidence            6766666655  4888988888875   3455666544 456677899999999998888753 2245577777778888


Q ss_pred             CCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC--CCCCChhhHHHHHHHHHhcCChhHHHHH
Q 006388          389 AGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM--PFPPDAIGWATLLSSCRIHGNVEIGKWA  466 (647)
Q Consensus       389 ~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~ll~~~~~~~~~~~a~~~  466 (647)
                      .|++++|...++...+.   .|.   ...+...+...+..+++...+.+.  ..+++...+..++..+...++.++|...
T Consensus       191 ~~~~~~A~~~~~~~~~~---~~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  264 (334)
T d1dcea1         191 LHPQPDSGPQGRLPENV---LLK---ELELVQNAFFTDPNDQSAWFYHRWLLGRAEPLFRCELSVEKSTVLQSELESCKE  264 (334)
T ss_dssp             HSCCCCSSSCCSSCHHH---HHH---HHHHHHHHHHHCSSCSHHHHHHHHHHSCCCCSSSCCCCHHHHHHHHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHhHHh---HHH---HHHHHHHHHHhcchhHHHHHHHHHHHhCcchhhHHHHHHHHHHHHhhHHHHHHH
Confidence            88877776555443321   111   112333455667777777776665  2234466677778888888999999999


Q ss_pred             HHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHh
Q 006388          467 AESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       467 ~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      +.+..+.+|.+..++..++.+|...|++++|.+.+++..+
T Consensus       265 ~~~~~~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~  304 (334)
T d1dcea1         265 LQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKA  304 (334)
T ss_dssp             HHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHH
T ss_pred             HHHHHhhCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999877

>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=1.1e-07  Score=84.64  Aligned_cols=97  Identities=13%  Similarity=0.031  Sum_probs=57.9

Q ss_pred             cChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHh
Q 006388          410 PIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSI  487 (647)
Q Consensus       410 p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  487 (647)
                      |+...+......|.+.|++++|+..|+++ ...| ++..|..+..+|.+.|+++.|+..++++++++|+++.+|..++.+
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~lg~~   81 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQC   81 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCCcHHHHHHHHHH
Confidence            44444555555566666666666666554 2233 355566666666666666666666666666666666666666666


Q ss_pred             hhhCCChhHHHHHHHHHHh
Q 006388          488 YASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       488 ~~~~g~~~~a~~~~~~m~~  506 (647)
                      |...|++++|...+++..+
T Consensus        82 ~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          82 QLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHH
Confidence            6666666666666665543

>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=98.54  E-value=1.6e-06  Score=75.91  Aligned_cols=138  Identities=5%  Similarity=-0.077  Sum_probs=91.2

Q ss_pred             HHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhcCCcHHHH
Q 006388          317 VTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPD-EVTLIGVLSACSRAGLVEKG  395 (647)
Q Consensus       317 i~~~~~~g~~~~A~~~~~~~~~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a  395 (647)
                      ...+...|+++.|.+.|.++..++...|..+..+|...|++++|++.|++.++.  .|+ ...|..+..++.+.|++++|
T Consensus        12 g~~~~~~~d~~~Al~~~~~i~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~l--dp~~~~a~~~~g~~~~~~g~~~~A   89 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINR--DKHLAVAYFQRGMLYYQTEKYDLA   89 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHH--hhhhhhhHHHHHHHHHhhccHHHH
Confidence            445667788888888888877777777888888888888888888888888774  344 34677777777788888888


Q ss_pred             HHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhCC--CCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHhc
Q 006388          396 RHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKMP--FPPD-AIGWATLLSSCRIHGNVEIGKWAAESLLE  472 (647)
Q Consensus       396 ~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~--~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  472 (647)
                      ...|+.....  .+++...      .             +...+  .+++ ..++..+..++.+.|++++|...++++++
T Consensus        90 ~~~~~kAl~~--~~~n~~~------~-------------~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~  148 (192)
T d1hh8a_          90 IKDLKEALIQ--LRGNQLI------D-------------YKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATS  148 (192)
T ss_dssp             HHHHHHHHHT--TTTCSEE------E-------------CGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHh--CccCchH------H-------------HHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            8777776542  1111000      0             00000  1111 23455666777788888888888888888


Q ss_pred             cCCCC
Q 006388          473 LDPYN  477 (647)
Q Consensus       473 ~~p~~  477 (647)
                      +.|..
T Consensus       149 ~~~~~  153 (192)
T d1hh8a_         149 MKSEP  153 (192)
T ss_dssp             TCCSG
T ss_pred             cCCCc
Confidence            77754

>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=98.50  E-value=5.5e-07  Score=71.82  Aligned_cols=102  Identities=16%  Similarity=0.127  Sum_probs=55.3

Q ss_pred             HHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChh
Q 006388          384 SACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVE  461 (647)
Q Consensus       384 ~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~  461 (647)
                      ..+...|++++|...|+..++.  -+.+...|..+..+|.+.|++++|++.+.+. .+.| ++..|..+..++...|+++
T Consensus        11 ~~~~~~g~~~eAi~~~~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~~~   88 (117)
T d1elwa_          11 NKALSVGNIDDALQCYSEAIKL--DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRFE   88 (117)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhc--CCcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccCHH
Confidence            3445555566666665555542  1223445555555555556666665555554 2222 3555555666666666666


Q ss_pred             HHHHHHHHHhccCCCCchhHHHHHHh
Q 006388          462 IGKWAAESLLELDPYNPASYVLLSSI  487 (647)
Q Consensus       462 ~a~~~~~~~~~~~p~~~~~~~~l~~~  487 (647)
                      +|+..++++++.+|+++..+..+.++
T Consensus        89 ~A~~~~~~a~~~~p~~~~~~~~l~~l  114 (117)
T d1elwa_          89 EAKRTYEEGLKHEANNPQLKEGLQNM  114 (117)
T ss_dssp             HHHHHHHHHHTTCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            66666666666666655555544443

>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=98.50  E-value=3.6e-07  Score=72.94  Aligned_cols=90  Identities=8%  Similarity=0.097  Sum_probs=82.7

Q ss_pred             HHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChh
Q 006388          418 MIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWD  495 (647)
Q Consensus       418 li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~  495 (647)
                      -...+.+.|++++|...|++. ...| +...|..+..++...|++++|+..++++++++|+++..|..++.+|...|+++
T Consensus         9 ~g~~~~~~g~~~eAi~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~~~   88 (117)
T d1elwa_           9 KGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRFE   88 (117)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccCHH
Confidence            466788999999999999998 4445 58889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhC
Q 006388          496 HVSQLRRTMREK  507 (647)
Q Consensus       496 ~a~~~~~~m~~~  507 (647)
                      +|...+++..+.
T Consensus        89 ~A~~~~~~a~~~  100 (117)
T d1elwa_          89 EAKRTYEEGLKH  100 (117)
T ss_dssp             HHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHh
Confidence            999999998863

>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=98.45  E-value=1.9e-07  Score=73.85  Aligned_cols=88  Identities=15%  Similarity=0.035  Sum_probs=79.7

Q ss_pred             HHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCCh
Q 006388          417 CMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKW  494 (647)
Q Consensus       417 ~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  494 (647)
                      .+...+.+.|++++|...|++. ...| ++..|..+..++...|++++|+..++++++++|+++.++..|+.+|...|++
T Consensus        21 ~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~la~~y~~~g~~  100 (112)
T d1hxia_          21 EEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEHNA  100 (112)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHhhhcccccccchhhhhhhhhhhhhhhHHHhhcccccccccccccccchHHHHHHHHHCCCH
Confidence            3566788899999999999987 4456 4889999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHH
Q 006388          495 DHVSQLRRTM  504 (647)
Q Consensus       495 ~~a~~~~~~m  504 (647)
                      ++|.+.+++.
T Consensus       101 ~~A~~~l~~~  110 (112)
T d1hxia_         101 NAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999999875

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.44  E-value=3.7e-07  Score=80.94  Aligned_cols=117  Identities=7%  Similarity=-0.133  Sum_probs=89.4

Q ss_pred             CCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-hhhHHHHH
Q 006388          374 PDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPPD-AIGWATLL  451 (647)
Q Consensus       374 p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll  451 (647)
                      |+...+......+.+.|++++|+..|+..++.  .+.+...|..+..+|.+.|++++|+..|+++ .+.|+ ..+|..+.
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            66666777777888888888888888887753  2445677888888888888888888888877 56675 77888888


Q ss_pred             HHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCC
Q 006388          452 SSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKG  492 (647)
Q Consensus       452 ~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  492 (647)
                      .++...|++++|...++++++++|++...+...+..+...+
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~l~~~  120 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYSLAKEQRLNFGDDIPSALRIA  120 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCCCCSHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHH
Confidence            88999999999999999988888866555554444444433

>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=98.41  E-value=1.7e-06  Score=75.78  Aligned_cols=118  Identities=9%  Similarity=0.003  Sum_probs=82.8

Q ss_pred             HhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-hhhHHHHHHHHHhcCChhHH
Q 006388          386 CSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPPD-AIGWATLLSSCRIHGNVEIG  463 (647)
Q Consensus       386 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~~~~~~a  463 (647)
                      +...|++++|++.|+.+     .+|+...|..+..+|...|++++|.+.|++. .+.|+ +..|..+..++.+.|++++|
T Consensus        15 ~~~~~d~~~Al~~~~~i-----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~~~~a~~~~g~~~~~~g~~~~A   89 (192)
T d1hh8a_          15 AADKKDWKGALDAFSAV-----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQTEKYDLA   89 (192)
T ss_dssp             HHHTTCHHHHHHHHHTS-----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHCCCHHHHHHHHHhc-----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhhhhhHHHHHHHHHhhccHHHH
Confidence            45566677776666533     2455566666777777777777777777666 33443 66777777777777778878


Q ss_pred             HHHHHHHhccCCCCc----------------hhHHHHHHhhhhCCChhHHHHHHHHHHhCC
Q 006388          464 KWAAESLLELDPYNP----------------ASYVLLSSIYASKGKWDHVSQLRRTMREKG  508 (647)
Q Consensus       464 ~~~~~~~~~~~p~~~----------------~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g  508 (647)
                      ...++++++..|.+.                .++..++.+|...|++++|.+.+++..+..
T Consensus        90 ~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~  150 (192)
T d1hh8a_          90 IKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  150 (192)
T ss_dssp             HHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            777777766544332                456788999999999999999999877643

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.39  E-value=4.2e-06  Score=78.84  Aligned_cols=189  Identities=10%  Similarity=0.003  Sum_probs=126.6

Q ss_pred             HHHHHHHhcCCHHHHHHHHhhcCC-----CC----hhhHHHHHHHHHHcCChHHHHHHHHHHHHC----CCC-CCHHHHH
Q 006388          315 ALVTFYGKCGNIEDSHRLFNEMNV-----RD----EVSWTALVSGYAKFGKANETIDLFEKMLSH----GLK-PDEVTLI  380 (647)
Q Consensus       315 ~li~~~~~~g~~~~A~~~~~~~~~-----~d----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~-p~~~t~~  380 (647)
                      ....+|...|++++|.+.|.+...     .+    ..+|+.+...|.+.|++++|+..+++..+.    |-. ....++.
T Consensus        42 ~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~  121 (290)
T d1qqea_          42 QAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKF  121 (290)
T ss_dssp             HHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHH
Confidence            345667788888888888776541     12    357888888899999999999988876542    211 1123555


Q ss_pred             HHHHHHh-cCCcHHHHHHHHHHHHHhc---CCCcC-hHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC--------hhh
Q 006388          381 GVLSACS-RAGLVEKGRHYFEIMVKEY---GIRPI-HDHYTCMIDILSRAGRLEEAKSFINKM-PFPPD--------AIG  446 (647)
Q Consensus       381 ~ll~a~~-~~g~~~~a~~~~~~~~~~~---~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~--------~~~  446 (647)
                      .+...|. ..|++++|.+.++...+-+   +..+. ..++..+...|...|++++|.+.+++. ...|+        ...
T Consensus       122 ~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~  201 (290)
T d1qqea_         122 ELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDY  201 (290)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHH
T ss_pred             HHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHH
Confidence            6666664 4699999999998875422   22221 356788899999999999999999886 11111        122


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHhccCCCCch-----hHHHHHHhhhh--CCChhHHHHHHHH
Q 006388          447 WATLLSSCRIHGNVEIGKWAAESLLELDPYNPA-----SYVLLSSIYAS--KGKWDHVSQLRRT  503 (647)
Q Consensus       447 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~-----~~~~l~~~~~~--~g~~~~a~~~~~~  503 (647)
                      +...+..+...|+++.|...+++..+.+|..+.     ....|+.+|..  .+++++|...+++
T Consensus       202 ~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~  265 (290)
T d1qqea_         202 FLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDN  265 (290)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTT
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            344555667789999999999999999885332     34556666654  3567888877764

>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=98.34  E-value=2.2e-06  Score=72.53  Aligned_cols=116  Identities=9%  Similarity=0.011  Sum_probs=92.0

Q ss_pred             HHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-hhhHHHHHHHHHhcCCh
Q 006388          383 LSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPPD-AIGWATLLSSCRIHGNV  460 (647)
Q Consensus       383 l~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~~~~  460 (647)
                      ...|.+.|++++|...|+..++.  -+.+...|..+..+|...|++++|.+.|+++ ...|+ ..+|..++.++...|++
T Consensus        17 gn~~~~~~~y~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g~~   94 (159)
T d1a17a_          17 ANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKF   94 (159)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHhhhcccc--chhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHHcCCH
Confidence            44677888888888888888764  2345678888889999999999999999887 44554 67899999999999999


Q ss_pred             hHHHHHHHHHhccCCCCchhHHHHHHhh--hhCCChhHHHHH
Q 006388          461 EIGKWAAESLLELDPYNPASYVLLSSIY--ASKGKWDHVSQL  500 (647)
Q Consensus       461 ~~a~~~~~~~~~~~p~~~~~~~~l~~~~--~~~g~~~~a~~~  500 (647)
                      ++|...++++++++|+++..+..+..+.  ...+.+++|...
T Consensus        95 ~eA~~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~~~a~~~  136 (159)
T d1a17a_          95 RAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAG  136 (159)
T ss_dssp             HHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            9999999999999999988887776554  334456666544

>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=98.33  E-value=1.2e-06  Score=74.33  Aligned_cols=92  Identities=16%  Similarity=0.086  Sum_probs=83.3

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCC
Q 006388          416 TCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGK  493 (647)
Q Consensus       416 ~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  493 (647)
                      ......|.+.|++++|...|++. ...| +...|..+...+...|++++|...++++++++|.+..+|..++.+|...|+
T Consensus        14 ~~~gn~~~~~~~y~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g~   93 (159)
T d1a17a_          14 KTQANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGK   93 (159)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHcCCHHHHHHHhhhccccchhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHHcCC
Confidence            34466788999999999999988 4445 588999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHHhC
Q 006388          494 WDHVSQLRRTMREK  507 (647)
Q Consensus       494 ~~~a~~~~~~m~~~  507 (647)
                      +++|.+.+++....
T Consensus        94 ~~eA~~~~~~a~~~  107 (159)
T d1a17a_          94 FRAALRDYETVVKV  107 (159)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc
Confidence            99999999998774

>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=98.25  E-value=7.7e-06  Score=76.96  Aligned_cols=172  Identities=10%  Similarity=-0.009  Sum_probs=129.3

Q ss_pred             CHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHC----CCCCCH-HHHHHHHHHHhcCCcHHHHHHHH
Q 006388          325 NIEDSHRLFNEMNVRDEVSWTALVSGYAKFGKANETIDLFEKMLSH----GLKPDE-VTLIGVLSACSRAGLVEKGRHYF  399 (647)
Q Consensus       325 ~~~~A~~~~~~~~~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p~~-~t~~~ll~a~~~~g~~~~a~~~~  399 (647)
                      ++++|.++|.+           ....|...|++++|.+.|.+..+.    +-.|+. .+|..+..+|.+.|++++|...+
T Consensus        32 ~~~~Aa~~y~~-----------aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~  100 (290)
T d1qqea_          32 KFEEAADLCVQ-----------AATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSL  100 (290)
T ss_dssp             HHHHHHHHHHH-----------HHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cHHHHHHHHHH-----------HHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHH
Confidence            45677666544           577889999999999999988652    222222 47888899999999999999999


Q ss_pred             HHHHHhcCCCcC----hHHHHHHHHHHHH-cCCHHHHHHHHHhC-------CCCCC-hhhHHHHHHHHHhcCChhHHHHH
Q 006388          400 EIMVKEYGIRPI----HDHYTCMIDILSR-AGRLEEAKSFINKM-------PFPPD-AIGWATLLSSCRIHGNVEIGKWA  466 (647)
Q Consensus       400 ~~~~~~~~~~p~----~~~~~~li~~~~~-~g~~~~A~~~~~~~-------~~~p~-~~~~~~ll~~~~~~~~~~~a~~~  466 (647)
                      +...+-+.-..+    ...+..+...|.. .|++++|.+.+++.       +..+. ..++..+...+...|++++|...
T Consensus       101 ~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~  180 (290)
T d1qqea_         101 ENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDI  180 (290)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHhhHHhhhcccchhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHH
Confidence            977653221112    3556677777755 59999999999876       11111 45678889999999999999999


Q ss_pred             HHHHhccCCCCch-------hHHHHHHhhhhCCChhHHHHHHHHHHhC
Q 006388          467 AESLLELDPYNPA-------SYVLLSSIYASKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       467 ~~~~~~~~p~~~~-------~~~~l~~~~~~~g~~~~a~~~~~~m~~~  507 (647)
                      ++++....|.++.       .+...+..|...|+++.|.+.+++..+.
T Consensus       181 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~  228 (290)
T d1qqea_         181 YSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSE  228 (290)
T ss_dssp             HHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC
T ss_pred             HHHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            9999998876543       3456677788899999999999987654

>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=7.9e-06  Score=69.81  Aligned_cols=133  Identities=14%  Similarity=0.048  Sum_probs=95.7

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHH
Q 006388          343 SWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDIL  422 (647)
Q Consensus       343 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~  422 (647)
                      .+......+.+.|++++|+..|.+.+..-  |..            .+..+.-......+        ....|+.+..+|
T Consensus        15 ~l~~~G~~~~~~~~~~~Ai~~y~~al~~~--~~~------------~~~~~~~~~~~~~~--------~~~~~~nla~~y   72 (170)
T d1p5qa1          15 IVKERGTVYFKEGKYKQALLQYKKIVSWL--EYE------------SSFSNEEAQKAQAL--------RLASHLNLAMCH   72 (170)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHT--TTC------------CCCCSHHHHHHHHH--------HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHh--hhc------------cccchHHHhhhchh--------HHHHHHHHHHHH
Confidence            44555667788888888888888776521  110            00000000111111        123577788899


Q ss_pred             HHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHH
Q 006388          423 SRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHV  497 (647)
Q Consensus       423 ~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a  497 (647)
                      .+.|++++|...+++. ...| ++..|..+..++...|++++|+..++++++++|+|+.+...+..+....+...+.
T Consensus        73 ~k~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~~~~~~~~  149 (170)
T d1p5qa1          73 LKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIRRQLAR  149 (170)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhhhhcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999887 4456 5889999999999999999999999999999999999999998887766655544

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.19  E-value=2.6e-06  Score=68.06  Aligned_cols=104  Identities=13%  Similarity=-0.037  Sum_probs=77.6

Q ss_pred             HHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCC---HHHHHHHHHhC-CCCCC---hhhHHHHHHH
Q 006388          381 GVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGR---LEEAKSFINKM-PFPPD---AIGWATLLSS  453 (647)
Q Consensus       381 ~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~---~~~A~~~~~~~-~~~p~---~~~~~~ll~~  453 (647)
                      .+++.+...+++++|.+.|+...+.  -+.+..++..+..++.+.++   +++|+++++++ ...|+   ..+|..|..+
T Consensus         4 ~l~n~~~~~~~l~~Ae~~Y~~aL~~--~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~   81 (122)
T d1nzna_           4 AVLNELVSVEDLLKFEKKFQSEKAA--GSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVG   81 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH--SCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHH
Confidence            4666777778888888888887753  24456777778888876554   44688888876 34443   3367888999


Q ss_pred             HHhcCChhHHHHHHHHHhccCCCCchhHHHHHH
Q 006388          454 CRIHGNVEIGKWAAESLLELDPYNPASYVLLSS  486 (647)
Q Consensus       454 ~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~  486 (647)
                      |.+.|++++|+..++++++++|++..+...+..
T Consensus        82 y~~~g~~~~A~~~~~~aL~~~P~~~~A~~l~~~  114 (122)
T d1nzna_          82 NYRLKEYEKALKYVRGLLQTEPQNNQAKELERL  114 (122)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHhhhHHHHHHHHHHHHhCcCCHHHHHHHHH
Confidence            999999999999999999999998766655443

>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=98.15  E-value=1.7e-05  Score=67.64  Aligned_cols=63  Identities=10%  Similarity=-0.033  Sum_probs=58.5

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHhC
Q 006388          445 IGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       445 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  507 (647)
                      .+|+.+..+|.+.|++++|+..++++++++|+++.++..++.+|...|++++|...+++..+.
T Consensus        63 ~~~~nla~~y~k~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  125 (170)
T d1p5qa1          63 ASHLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQL  125 (170)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            356678888999999999999999999999999999999999999999999999999998773

>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=98.08  E-value=2.4e-05  Score=66.48  Aligned_cols=94  Identities=13%  Similarity=0.076  Sum_probs=77.1

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhh
Q 006388          413 DHYTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYAS  490 (647)
Q Consensus       413 ~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  490 (647)
                      ..|..+..+|.+.|++++|+..+++. ...| +...|..+..++...|++++|+..++++++++|+++.+...+..+...
T Consensus        65 ~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~  144 (168)
T d1kt1a1          65 AAFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQIFMCQKK  144 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHH
T ss_pred             HHHHhHHHHHHHhhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            35667888899999999999999887 3344 588899999999999999999999999999999999999988888777


Q ss_pred             CCChh-HHHHHHHHHHh
Q 006388          491 KGKWD-HVSQLRRTMRE  506 (647)
Q Consensus       491 ~g~~~-~a~~~~~~m~~  506 (647)
                      .+... ...+++..|.+
T Consensus       145 ~~~~~e~~kk~~~~~f~  161 (168)
T d1kt1a1         145 AKEHNERDRRTYANMFK  161 (168)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHh
Confidence            66554 35556666543

>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=98.06  E-value=3e-05  Score=64.67  Aligned_cols=63  Identities=11%  Similarity=-0.037  Sum_probs=56.1

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHhC
Q 006388          445 IGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       445 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  507 (647)
                      .++..+..++.+.|++++|+..++++++++|.+..+|..++.+|...|++++|...+++..+.
T Consensus        68 ~~~~Nla~~~~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l  130 (153)
T d2fbna1          68 SCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASL  130 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHh
Confidence            356678888899999999999999999999999999999999999999999999999987763

>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=98.06  E-value=0.0006  Score=62.42  Aligned_cols=228  Identities=12%  Similarity=-0.001  Sum_probs=135.3

Q ss_pred             ChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc----cCChHHHHHHHHHHHHhCCCcchhHHH
Q 006388          239 NVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCAN----LASLEEGTQFHGRSLVTGLISFITVSN  314 (647)
Q Consensus       239 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~  314 (647)
                      |+..+..|...+.+.+++++|++.|++..+.|   |...+..+-..+..    ..+...+...+....+.+         
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            45667777777778888888888888887765   23333333333322    234444444444444333         


Q ss_pred             HHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHH----cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH--Hhc
Q 006388          315 ALVTFYGKCGNIEDSHRLFNEMNVRDEVSWTALVSGYAK----FGKANETIDLFEKMLSHGLKPDEVTLIGVLSA--CSR  388 (647)
Q Consensus       315 ~li~~~~~~g~~~~A~~~~~~~~~~d~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a--~~~  388 (647)
                                               +...+..+...+..    ..+.+.|...+++....|..+....+ .....  ...
T Consensus        69 -------------------------~~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~~~a~~~l-~~~~~~~~~~  122 (265)
T d1ouva_          69 -------------------------YSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLKYAEGCASL-GGIYHDGKVV  122 (265)
T ss_dssp             -------------------------CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHH-HHHHHHCSSS
T ss_pred             -------------------------ccchhhccccccccccccchhhHHHHHHHhhhhhhhhhhHHHhh-cccccCCCcc
Confidence                                     22233333333322    34556666777666665432221111 11111  122


Q ss_pred             CCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHH----cCCHHHHHHHHHhCCCCCChhhHHHHHHHHHh----cCCh
Q 006388          389 AGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSR----AGRLEEAKSFINKMPFPPDAIGWATLLSSCRI----HGNV  460 (647)
Q Consensus       389 ~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~----~~~~  460 (647)
                      ......+...+.....    ..+...+..|...|..    ..+...+..+++...-..+......|...+..    ..++
T Consensus       123 ~~~~~~a~~~~~~~~~----~~~~~~~~~L~~~~~~~~~~~~~~~~~~~~~~~a~~~g~~~A~~~lg~~y~~g~~~~~d~  198 (265)
T d1ouva_         123 TRDFKKAVEYFTKACD----LNDGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLKDSPGCFNAGNMYHHGEGATKNF  198 (265)
T ss_dssp             CCCHHHHHHHHHHHHH----TTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCCCH
T ss_pred             cchhHHHHHHhhhhhc----ccccchhhhhhhhhccCCCcccccccchhhhhccccccccccccchhhhcccCcccccch
Confidence            4456666666665543    2345566666666665    34566677776665323356666666656554    4689


Q ss_pred             hHHHHHHHHHhccCCCCchhHHHHHHhhhh----CCChhHHHHHHHHHHhCCCc
Q 006388          461 EIGKWAAESLLELDPYNPASYVLLSSIYAS----KGKWDHVSQLRRTMREKGVR  510 (647)
Q Consensus       461 ~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~a~~~~~~m~~~g~~  510 (647)
                      +.|+..++++.+.+  ++..+..|+.+|..    ..+.++|.+++++..+.|..
T Consensus       199 ~~A~~~~~~aa~~g--~~~a~~~LG~~y~~G~g~~~n~~~A~~~~~kAa~~g~~  250 (265)
T d1ouva_         199 KEALARYSKACELE--NGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGAK  250 (265)
T ss_dssp             HHHHHHHHHHHHTT--CHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTCH
T ss_pred             hhhhhhHhhhhccc--CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHCcCH
Confidence            99999999998875  56788889999876    34899999999999887763

>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=98.05  E-value=5.8e-06  Score=65.89  Aligned_cols=91  Identities=9%  Similarity=-0.018  Sum_probs=76.9

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhc---CChhHHHHHHHHHhccCCCC--chhHHHHHHhh
Q 006388          416 TCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIH---GNVEIGKWAAESLLELDPYN--PASYVLLSSIY  488 (647)
Q Consensus       416 ~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~---~~~~~a~~~~~~~~~~~p~~--~~~~~~l~~~~  488 (647)
                      ..+++.+...+++++|.+.|++. ...| ++.++..+..++.+.   +++++|+..++++++.+|.+  ..++..|+.+|
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y   82 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAGSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGN   82 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHH
Confidence            45778888999999999999988 4444 578888888888764   45567999999999988754  34789999999


Q ss_pred             hhCCChhHHHHHHHHHHh
Q 006388          489 ASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       489 ~~~g~~~~a~~~~~~m~~  506 (647)
                      .+.|++++|.+.++++.+
T Consensus        83 ~~~g~~~~A~~~~~~aL~  100 (122)
T d1nzna_          83 YRLKEYEKALKYVRGLLQ  100 (122)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHHhhhHHHHHHHHHHHH
Confidence            999999999999999987

>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=98.00  E-value=1.9e-05  Score=67.31  Aligned_cols=131  Identities=10%  Similarity=0.003  Sum_probs=91.8

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCc-ChHHHHHHHHHH
Q 006388          344 WTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRP-IHDHYTCMIDIL  422 (647)
Q Consensus       344 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~  422 (647)
                      +......+...|++++|+..|.+.++.            +..........+.          ..+.| ....|..+..+|
T Consensus        30 ~~~~~~~~~~~~~y~~Ai~~y~~al~~------------~~~~~~~~~~~~~----------~~~~~~~~~~~~nla~~~   87 (169)
T d1ihga1          30 LKNIGNTFFKSQNWEMAIKKYTKVLRY------------VEGSRAAAEDADG----------AKLQPVALSCVLNIGACK   87 (169)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH------------HHHHHHHSCHHHH----------GGGHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHh------------hhhhhhhhhhHHH----------HHhChhhHHHHHHHHHHH
Confidence            444556677788888888888776541            0000000000000          01122 345677788899


Q ss_pred             HHcCCHHHHHHHHHhC-CCCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhH
Q 006388          423 SRAGRLEEAKSFINKM-PFPPD-AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDH  496 (647)
Q Consensus       423 ~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  496 (647)
                      .+.|++++|+..++++ .+.|+ +..|..+..++...|++++|+..++++++++|+++.++..|..++.+.....+
T Consensus        88 ~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~n~~~~~~l~~~~~~l~~~~~  163 (169)
T d1ihga1          88 LKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVKQKIKAQKD  163 (169)
T ss_dssp             HHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             HhhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999887 55664 78899999999999999999999999999999998888888777655444333

>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=97.96  E-value=1.1e-05  Score=65.09  Aligned_cols=92  Identities=11%  Similarity=0.096  Sum_probs=76.6

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCch-------hHHHHH
Q 006388          415 YTCMIDILSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPA-------SYVLLS  485 (647)
Q Consensus       415 ~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~-------~~~~l~  485 (647)
                      +..+...+.+.|++++|++.|++. ...| +..+|..+..+|.+.|++++|+..++++++++|.++.       +|..++
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            445677888999999999999887 3444 5888999999999999999999999999999887665       455677


Q ss_pred             HhhhhCCChhHHHHHHHHHHh
Q 006388          486 SIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       486 ~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      ..+...+++++|.+.+++...
T Consensus        87 ~~~~~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          87 NSYFKEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHh
Confidence            778888999999999987654

>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=97.96  E-value=0.0075  Score=56.35  Aligned_cols=27  Identities=4%  Similarity=0.114  Sum_probs=18.2

Q ss_pred             hHHHHHHHHHHHHcCCHHHHHHHHHhC
Q 006388          412 HDHYTCMIDILSRAGRLEEAKSFINKM  438 (647)
Q Consensus       412 ~~~~~~li~~~~~~g~~~~A~~~~~~~  438 (647)
                      ..+.++|.+.|...++++.-.+.++.-
T Consensus       280 ~~vn~al~~lyie~~d~~~l~~~i~~~  306 (336)
T d1b89a_         280 KSVNESLNNLFITEEDYQALRTSIDAY  306 (336)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhCcchhHHHHHHHHHh
Confidence            356777777777777776666666554

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.93  E-value=3.6e-05  Score=65.47  Aligned_cols=64  Identities=11%  Similarity=-0.012  Sum_probs=60.1

Q ss_pred             hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHhC
Q 006388          444 AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       444 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  507 (647)
                      ...|..+..++.+.|++++|+..++++++++|.++.+|..++.+|...|++++|.+.+++..+.
T Consensus        77 ~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l  140 (169)
T d1ihga1          77 LSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEI  140 (169)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHh
Confidence            5677888889999999999999999999999999999999999999999999999999998873

>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=97.91  E-value=1.7e-05  Score=62.17  Aligned_cols=92  Identities=7%  Similarity=-0.074  Sum_probs=76.0

Q ss_pred             cHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCCcchHHHHHHHHhCCCChHHHHHHHHHHHHhCCCCchhhHHHHHHHH
Q 006388            8 SWNLLISGHASHGSVNDAVKVYNLMLKDGLGNLSRITFSTMLIMSSSRRCVDLGRQIHGHILKFGFGSYVFVGSPLVDMY   87 (647)
Q Consensus         8 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~   87 (647)
                      .+-.+...+.+.|++++|+..|++..+..  |.+..+|..+..++...|++++|...+++.++.. +.+..++..|...|
T Consensus        18 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y   94 (112)
T d1hxia_          18 NPMEEGLSMLKLANLAEAALAFEAVCQKE--PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSH   94 (112)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHhhhcccc--cccchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHH
Confidence            34456677788899999999999988876  6678888888888999999999999999988876 56677888888888


Q ss_pred             HhcCChHHHHHHhcc
Q 006388           88 AKLGLIYDAKRGFDE  102 (647)
Q Consensus        88 ~~~g~~~~A~~~~~~  102 (647)
                      ...|++++|.+.|++
T Consensus        95 ~~~g~~~~A~~~l~~  109 (112)
T d1hxia_          95 TNEHNANAALASLRA  109 (112)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHH
Confidence            888888888888765

>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=97.88  E-value=4.1e-05  Score=63.81  Aligned_cols=126  Identities=11%  Similarity=-0.062  Sum_probs=91.4

Q ss_pred             hhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHH
Q 006388          342 VSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDI  421 (647)
Q Consensus       342 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~  421 (647)
                      ..+......+.+.|++.+|+..|.+.+..-  |..           .............        .....+|..+..+
T Consensus        18 ~~~~~~G~~~f~~~~y~~A~~~Y~~al~~~--~~~-----------~~~~~~~~~~~~~--------~~~~~~~~Nla~~   76 (153)
T d2fbna1          18 FDIKEEGNEFFKKNEINEAIVKYKEALDFF--IHT-----------EEWDDQILLDKKK--------NIEISCNLNLATC   76 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTT--TTC-----------TTCCCHHHHHHHH--------HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--cch-----------hhhhhHHHHHhhh--------hHHHHHHhhHHHH
Confidence            456667778888999999999998887631  110           0000000000000        1123467778899


Q ss_pred             HHHcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhh
Q 006388          422 LSRAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIY  488 (647)
Q Consensus       422 ~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  488 (647)
                      |.+.|++++|++.++++ ...| +..+|..++.++...|++++|+..++++++++|+|+.+...+..+.
T Consensus        77 ~~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~n~~~~~~l~~~~  145 (153)
T d2fbna1          77 YNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYELCV  145 (153)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            99999999999999987 4455 5889999999999999999999999999999999988877665543

>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=97.88  E-value=0.00013  Score=61.84  Aligned_cols=63  Identities=10%  Similarity=-0.030  Sum_probs=57.8

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHhC
Q 006388          445 IGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       445 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  507 (647)
                      .+|..+..++.+.|++++|+..++++++++|.+..+|..++.+|...|++++|.+.+++..+.
T Consensus        65 ~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l  127 (168)
T d1kt1a1          65 AAFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV  127 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS
T ss_pred             HHHHhHHHHHHHhhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            345667778899999999999999999999999999999999999999999999999998763

>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=97.86  E-value=0.0085  Score=55.97  Aligned_cols=42  Identities=10%  Similarity=0.114  Sum_probs=22.7

Q ss_pred             cCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHH
Q 006388          457 HGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQL  500 (647)
Q Consensus       457 ~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~  500 (647)
                      .+++......++...+.+  +...+..|..+|...++++.-++.
T Consensus       261 ~~~l~li~p~Le~v~~~n--~~~vn~al~~lyie~~d~~~l~~~  302 (336)
T d1b89a_         261 VKQLPLVKPYLRSVQNHN--NKSVNESLNNLFITEEDYQALRTS  302 (336)
T ss_dssp             TTCTTTTHHHHHHHHTTC--CHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCCcHHHHHHHHHHHHcC--hHHHHHHHHHHHhCcchhHHHHHH
Confidence            334444444444433322  345677777777777776543333

>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=97.83  E-value=5.4e-05  Score=64.75  Aligned_cols=70  Identities=14%  Similarity=0.168  Sum_probs=63.1

Q ss_pred             hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHH-----hCCCccCC
Q 006388          444 AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMR-----EKGVRKDP  513 (647)
Q Consensus       444 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~-----~~g~~~~~  513 (647)
                      ...+..+...+...|++++|...++++++.+|.+...|..++.+|...|++++|.+.|+++.     +.|+.|.+
T Consensus        67 ~~a~~~la~~~~~~g~~~~Al~~~~~al~~~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~  141 (179)
T d2ff4a2          67 VLAHTAKAEAEIACGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGP  141 (179)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCH
T ss_pred             HHHHHHHHHHHHHCCCchHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCH
Confidence            35678889999999999999999999999999999999999999999999999999999884     45886643

>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=97.79  E-value=2.5e-06  Score=87.18  Aligned_cols=130  Identities=9%  Similarity=0.001  Sum_probs=64.7

Q ss_pred             CChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHH
Q 006388          355 GKANETIDLFEKMLSHGLKPD-EVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKS  433 (647)
Q Consensus       355 g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~  433 (647)
                      +.++.|+..+.+...  +.|+ ...+..+...+.+.|+.++|...++....-   .| ...+..+.+++...|++++|..
T Consensus       100 ~~Y~~ai~~l~~~~~--l~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~---~~-~~~~~~LG~l~~~~~~~~~A~~  173 (497)
T d1ya0a1         100 GFYTQLLQELCTVFN--VDLPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSY---IC-QHCLVHLGDIARYRNQTSQAES  173 (497)
T ss_dssp             HHHHHHHHHHTC---------------------------------CCHHHHH---HH-HHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHHHC--CChhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCC---CH-HHHHHHHHHHHHHcccHHHHHH
Confidence            344444444443332  2333 335555566666677777777666554421   11 2456667777777777777777


Q ss_pred             HHHhC-CCCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhh
Q 006388          434 FINKM-PFPPD-AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYAS  490 (647)
Q Consensus       434 ~~~~~-~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  490 (647)
                      .++++ ...|+ ...|+.|+..+...|+..+|...|.+++...|+.+.++.+|..++.+
T Consensus       174 ~y~~A~~l~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~~~~~~a~~nL~~~~~~  232 (497)
T d1ya0a1         174 YYRHAAQLVPSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVKFPFPAASTNLQKALSK  232 (497)
T ss_dssp             HHHHHHHHCTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSSBCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHH
Confidence            77776 44454 56777777777777777777777777777777777777777666644

>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=97.77  E-value=0.013  Score=52.96  Aligned_cols=96  Identities=11%  Similarity=-0.050  Sum_probs=67.8

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhcCCC-CChhHHHHHHHHHHh----cCChhHHHHHHHHHHHCCCCCCHHHHHHHH
Q 006388          208 NVFVGSALVDMYCKCKSIKYAESVFRTMAW-KNVVSWTAMLVGYGQ----NGCSEEAVKIFCNMQRNGIEPDDFTLGSVI  282 (647)
Q Consensus       208 ~~~~~~~li~~y~~~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll  282 (647)
                      |+..+..|...+.+.+++++|.+.|++..+ .|..++..|...|..    ..+...|...+......+. |  .....+.
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~~-~--~a~~~l~   77 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLNY-S--NGCHLLG   77 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC-H--HHHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcchhHHHHHHhhcccccccc-c--chhhccc
Confidence            345667788888899999999999998754 477777778887776    5688889999988887762 2  2222222


Q ss_pred             HHH----hccCChHHHHHHHHHHHHhCC
Q 006388          283 SSC----ANLASLEEGTQFHGRSLVTGL  306 (647)
Q Consensus       283 ~a~----~~~~~~~~a~~~~~~~~~~~~  306 (647)
                      ..+    ....+.+.+...+....+.|.
T Consensus        78 ~~~~~~~~~~~~~~~a~~~~~~a~~~g~  105 (265)
T d1ouva_          78 NLYYSGQGVSQNTNKALQYYSKACDLKY  105 (265)
T ss_dssp             HHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             cccccccccchhhHHHHHHHhhhhhhhh
Confidence            222    234567778888877777653

>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=97.68  E-value=4.5e-05  Score=62.86  Aligned_cols=75  Identities=13%  Similarity=0.138  Sum_probs=49.1

Q ss_pred             HHHHHHHHHhC-CCCCC-hhhHHHHHHHHHhcC-----------ChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCCh
Q 006388          428 LEEAKSFINKM-PFPPD-AIGWATLLSSCRIHG-----------NVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKW  494 (647)
Q Consensus       428 ~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~~-----------~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  494 (647)
                      +++|.+.|+++ .+.|+ ..+|..+..+|...|           +++.|...++++++++|++...+..|...       
T Consensus        57 ~~~Ai~~~~kAl~l~P~~~~a~~~lG~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~l~P~~~~~~~~L~~~-------  129 (145)
T d1zu2a1          57 IQEAITKFEEALLIDPKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVDEQPDNTHYLKSLEMT-------  129 (145)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHH-------
T ss_pred             HHHHHHHHHHHHHhcchhhHHHhhHHHHHHHcccchhhHHHHHHhHHHhhhhhhcccccCCCHHHHHHHHHHH-------
Confidence            34555555554 33343 556666666655433           36889999999999999988777766555       


Q ss_pred             hHHHHHHHHHHhCCC
Q 006388          495 DHVSQLRRTMREKGV  509 (647)
Q Consensus       495 ~~a~~~~~~m~~~g~  509 (647)
                      ..|.+++.+..+.|+
T Consensus       130 ~ka~~~~~e~~k~~~  144 (145)
T d1zu2a1         130 AKAPQLHAEAYKQGL  144 (145)
T ss_dssp             HTHHHHHHHHHHSSS
T ss_pred             HHHHHHHHHHHHHhc
Confidence            356666666666654

>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=97.51  E-value=0.00022  Score=53.49  Aligned_cols=74  Identities=14%  Similarity=0.093  Sum_probs=58.5

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHhC----C----CCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHH
Q 006388          413 DHYTCMIDILSRAGRLEEAKSFINKM----P----FPPD-AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVL  483 (647)
Q Consensus       413 ~~~~~li~~~~~~g~~~~A~~~~~~~----~----~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~  483 (647)
                      +.+-.+...+.+.|++++|...|++.    +    ..++ ..++..|..++.+.|++++|+..++++++++|+++.++..
T Consensus         6 ddc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P~~~~a~~N   85 (95)
T d1tjca_           6 EDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRANGN   85 (95)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCcCCHHHHHH
Confidence            34446677788888888888887765    1    1223 5678899999999999999999999999999999988887


Q ss_pred             HHH
Q 006388          484 LSS  486 (647)
Q Consensus       484 l~~  486 (647)
                      +..
T Consensus        86 l~~   88 (95)
T d1tjca_          86 LKY   88 (95)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            644

>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=97.49  E-value=0.00017  Score=60.13  Aligned_cols=88  Identities=14%  Similarity=-0.008  Sum_probs=65.1

Q ss_pred             HHHHHHcCCHHHHHHHHHhC----CCCCC----------hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCC--------
Q 006388          419 IDILSRAGRLEEAKSFINKM----PFPPD----------AIGWATLLSSCRIHGNVEIGKWAAESLLELDPY--------  476 (647)
Q Consensus       419 i~~~~~~g~~~~A~~~~~~~----~~~p~----------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~--------  476 (647)
                      ...+.+.|++++|++.|++.    +..|+          ...|+.+..++...|++++|...+++++++.|.        
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            34455667777777777665    22222          356778888888899999999888888765331        


Q ss_pred             ---CchhHHHHHHhhhhCCChhHHHHHHHHHHh
Q 006388          477 ---NPASYVLLSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       477 ---~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                         ...++..++.+|...|++++|.+.+++..+
T Consensus        96 ~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          96 GKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence               123578899999999999999999999875

>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=97.42  E-value=4.2e-05  Score=63.02  Aligned_cols=83  Identities=16%  Similarity=0.084  Sum_probs=57.3

Q ss_pred             HcCCHHHHHHHHHhC-CCCC-ChhhHHHHHHHHHh----------cCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhC
Q 006388          424 RAGRLEEAKSFINKM-PFPP-DAIGWATLLSSCRI----------HGNVEIGKWAAESLLELDPYNPASYVLLSSIYASK  491 (647)
Q Consensus       424 ~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~----------~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  491 (647)
                      +.+.+++|.+.|++. ...| ++.+|..+..++..          .+.+++|+..++++++++|+++.+|..++.+|...
T Consensus         9 r~~~fe~A~~~~e~al~~~P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P~~~~a~~~lG~~y~~~   88 (145)
T d1zu2a1           9 RILLFEQIRQDAENTYKSNPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYTSF   88 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             HHccHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcchhhHHHhhHHHHHHHc
Confidence            344455555555544 2233 24444444444432          24467899999999999999999999999999887


Q ss_pred             CC-----------hhHHHHHHHHHHh
Q 006388          492 GK-----------WDHVSQLRRTMRE  506 (647)
Q Consensus       492 g~-----------~~~a~~~~~~m~~  506 (647)
                      |+           +++|.+.|++..+
T Consensus        89 g~~~~~~~~~~~~~~~A~~~~~kal~  114 (145)
T d1zu2a1          89 AFLTPDETEAKHNFDLATQFFQQAVD  114 (145)
T ss_dssp             HHHCCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccchhhHHHHHHhHHHhhhhhhcccc
Confidence            64           5788888887765

>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=97.39  E-value=0.00075  Score=53.79  Aligned_cols=91  Identities=13%  Similarity=0.088  Sum_probs=41.9

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcC-----hHHHHHHHH
Q 006388          346 ALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPI-----HDHYTCMID  420 (647)
Q Consensus       346 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-----~~~~~~li~  420 (647)
                      .+...|.+.|++++|+..|.+.++.. +.+...+..+..+|.+.|++++|...++.+++-..-.+.     ..+|..+..
T Consensus         9 ~~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg~   87 (128)
T d1elra_           9 ELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGN   87 (128)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHH
Confidence            34445555555555555555555531 122334555555555555555555555554431100011     123444444


Q ss_pred             HHHHcCCHHHHHHHHHh
Q 006388          421 ILSRAGRLEEAKSFINK  437 (647)
Q Consensus       421 ~~~~~g~~~~A~~~~~~  437 (647)
                      .+...+++++|.+.|++
T Consensus        88 ~~~~~~~~~~A~~~~~k  104 (128)
T d1elra_          88 SYFKEEKYKDAIHFYNK  104 (128)
T ss_dssp             HHHHTTCHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHH
Confidence            44444555555555443

>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=97.37  E-value=5.8e-05  Score=76.64  Aligned_cols=260  Identities=8%  Similarity=-0.061  Sum_probs=138.7

Q ss_pred             HHHHHHhcCCC--C-ChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHH
Q 006388          227 YAESVFRTMAW--K-NVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLV  303 (647)
Q Consensus       227 ~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~  303 (647)
                      +|.+.|++...  + ...+|..+..+|...|++++|   |+++...  .|+...-..+...+- ...+..+.+.++...+
T Consensus         4 eA~q~~~qA~~l~p~~a~a~~~la~~~~~~~~l~ea---ye~~i~~--dp~~a~~~~~e~~Lw-~~~y~~~ie~~r~~~k   77 (497)
T d1ya0a1           4 QSAQYLRQAEVLKADMTDSKLGPAEVWTSRQALQDL---YQKMLVT--DLEYALDKKVEQDLW-NHAFKNQITTLQGQAK   77 (497)
T ss_dssp             HHHHHHHHHHHHHGGGTCSSSCSSSSHHHHHHHHHH---HHHHHHH--CHHHHHHHTHHHHHH-HHHTHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHcCCCCHHHHhhHHHHHHHHchHHHH---HHHHHHc--ChhhHHHHhHHHHHH-HHHHHHHHHHHHHhcc
Confidence            45566665532  2 345666777788888888776   6666543  332211100110000 1113344555555554


Q ss_pred             hCCCcchhHH--HHHHHHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHH
Q 006388          304 TGLISFITVS--NALVTFYGKCGNIEDSHRLFNEMN---VRDEVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVT  378 (647)
Q Consensus       304 ~~~~~~~~~~--~~li~~~~~~g~~~~A~~~~~~~~---~~d~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t  378 (647)
                      ..-.++..-.  ..+...+...+.++.|...+....   .++...|..+...+.+.|+.++|...+.+....  .| ..+
T Consensus        78 ~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~~l~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~~-~~~  154 (497)
T d1ya0a1          78 NRANPNRSEVQANLSLFLEAASGFYTQLLQELCTVFNVDLPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSY--IC-QHC  154 (497)
T ss_dssp             CSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC-------------------------------CCHHHHH--HH-HHH
T ss_pred             cccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCChhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCC--CH-HHH
Confidence            4333332221  112223344566777777776654   335667888888899999999999888876542  12 347


Q ss_pred             HHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-C-CCCChhhHHHHHHHHHh
Q 006388          379 LIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-P-FPPDAIGWATLLSSCRI  456 (647)
Q Consensus       379 ~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~ll~~~~~  456 (647)
                      +..+...+...|++++|...|+...+.  .+.+...|+.|..++...|+..+|...|.+. . .+|-..++..|...+.+
T Consensus       155 ~~~LG~l~~~~~~~~~A~~~y~~A~~l--~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~~~~~~a~~nL~~~~~~  232 (497)
T d1ya0a1         155 LVHLGDIARYRNQTSQAESYYRHAAQL--VPSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVKFPFPAASTNLQKALSK  232 (497)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSSBCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHH--CCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHH
Confidence            778888999999999999999999864  2334589999999999999999999999887 3 34568888888887765


Q ss_pred             cCChhHHHHHHHHHhccCCC---CchhHHHHHHhhhhCCChhHHHHHHHHH
Q 006388          457 HGNVEIGKWAAESLLELDPY---NPASYVLLSSIYASKGKWDHVSQLRRTM  504 (647)
Q Consensus       457 ~~~~~~a~~~~~~~~~~~p~---~~~~~~~l~~~~~~~g~~~~a~~~~~~m  504 (647)
                      ..+...+       .+..+.   -...+..+...+...+.+++..++.+++
T Consensus       233 ~~~~~~~-------~~~~~~~~~~~~~f~~~~~~l~~~~~~~~~~~~~~~~  276 (497)
T d1ya0a1         233 ALESRDE-------VKTKWGVSDFIKAFIKFHGHVYLSKSLEKLSPLREKL  276 (497)
T ss_dssp             HTTSCCC-------CCSSCCHHHHHHHHHHHHHHHHHTCCGGGHHHHHHHH
T ss_pred             hhhhhhh-------hccccccchHHHHHHHHHHHHHhCCchhhHHHHHHHH
Confidence            4432111       011111   1234556666666777777766665544

>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=96.99  E-value=0.00028  Score=64.30  Aligned_cols=123  Identities=10%  Similarity=-0.006  Sum_probs=63.7

Q ss_pred             HcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcC-hHHHHHHHHHHHHcCCHHH
Q 006388          353 KFGKANETIDLFEKMLSHGLKPD-EVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPI-HDHYTCMIDILSRAGRLEE  430 (647)
Q Consensus       353 ~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~  430 (647)
                      +.|++++|+..+++.++.  .|+ ...+..+...++..|++++|...++...+.   .|+ ...+..+..++...+..++
T Consensus         8 ~~G~l~eAl~~l~~al~~--~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l---~P~~~~~~~~l~~ll~a~~~~~~   82 (264)
T d1zbpa1           8 SEGQLQQALELLIEAIKA--SPKDASLRSSFIELLCIDGDFERADEQLMQSIKL---FPEYLPGASQLRHLVKAAQARKD   82 (264)
T ss_dssp             TTTCHHHHHHHHHHHHHT--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CGGGHHHHHHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCcHHHHHHHHHHHHhccccHH
Confidence            456677777777776664  343 346666666666677777777666666542   333 2334444444443333333


Q ss_pred             HHHHHHhC--CCCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchh
Q 006388          431 AKSFINKM--PFPPD-AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPAS  480 (647)
Q Consensus       431 A~~~~~~~--~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~  480 (647)
                      +..-....  ..+|+ ...+......+...|+.++|...++++.+..|..+..
T Consensus        83 a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~p~~~~~  135 (264)
T d1zbpa1          83 FAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQEKGFL  135 (264)
T ss_dssp             HTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCCEE
T ss_pred             HHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCCCcc
Confidence            32222211  11221 2222333344555666666666666666666655443

>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=96.98  E-value=0.0025  Score=52.70  Aligned_cols=64  Identities=11%  Similarity=-0.050  Sum_probs=43.0

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHhC--------CCCCC-----hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCC
Q 006388          413 DHYTCMIDILSRAGRLEEAKSFINKM--------PFPPD-----AIGWATLLSSCRIHGNVEIGKWAAESLLELDPY  476 (647)
Q Consensus       413 ~~~~~li~~~~~~g~~~~A~~~~~~~--------~~~p~-----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~  476 (647)
                      ..|+.+..+|...|++++|.+.+++.        ...++     ...+..+..++...|++++|...+++++++.|.
T Consensus        56 ~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l~~~  132 (156)
T d2hr2a1          56 FCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEE  132 (156)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhHH
Confidence            34555666666666666666555543        11222     235677888899999999999999998887654

>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=96.98  E-value=0.00084  Score=61.02  Aligned_cols=120  Identities=13%  Similarity=0.088  Sum_probs=87.5

Q ss_pred             HhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-hhhHHHHHHHHHhcCChhHH
Q 006388          386 CSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEEAKSFINKM-PFPPD-AIGWATLLSSCRIHGNVEIG  463 (647)
Q Consensus       386 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~~~~~~a  463 (647)
                      ..+.|++++|+..++..++.  -+.+...+..+..+|+..|++++|.+.++.. ...|+ ...+..+...+...+..+++
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 ALSEGQLQQALELLIEAIKA--SPKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKAAQARKDF   83 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHHT--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhccccHHH
Confidence            34679999999999999873  4557799999999999999999999999988 45665 55565565555544444333


Q ss_pred             HHHHHHHhc-cCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHhC
Q 006388          464 KWAAESLLE-LDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       464 ~~~~~~~~~-~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  507 (647)
                      ......... .+|++...+...+..+...|+.++|.+.+++..+.
T Consensus        84 ~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          84 AQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             TTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            322222111 23445566677788899999999999999998764

>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=96.95  E-value=0.0075  Score=50.86  Aligned_cols=73  Identities=15%  Similarity=0.106  Sum_probs=54.8

Q ss_pred             hhhHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHH----hcCCCcChHH
Q 006388          341 EVSWTALVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVK----EYGIRPIHDH  414 (647)
Q Consensus       341 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~----~~~~~p~~~~  414 (647)
                      ...+..+...+...|++++|+..++++.+.. +-+...+..++.++...|+..+|++.|+.+.+    +.|+.|...+
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            3456777888888888888888888888742 33455788888888888888888888887643    3578887654

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.85  E-value=0.0022  Score=47.74  Aligned_cols=64  Identities=16%  Similarity=-0.020  Sum_probs=54.3

Q ss_pred             hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCC-------chhHHHHHHhhhhCCChhHHHHHHHHHHhC
Q 006388          444 AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYN-------PASYVLLSSIYASKGKWDHVSQLRRTMREK  507 (647)
Q Consensus       444 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~-------~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  507 (647)
                      +..+-.++..+.+.|+++.|+..+++++++.|.+       ..++..|+.+|.+.|++++|...+++..+.
T Consensus         5 addc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l   75 (95)
T d1tjca_           5 AEDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (95)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh
Confidence            3345578889999999999999999998875543       456889999999999999999999998873

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=96.02  E-value=0.2  Score=37.79  Aligned_cols=141  Identities=9%  Similarity=0.010  Sum_probs=94.6

Q ss_pred             HHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcCCHHH
Q 006388          351 YAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAGRLEE  430 (647)
Q Consensus       351 ~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~  430 (647)
                      +.-.|..++..+++.+...+   .+..-|+-++--....-+-+...+.++.+-+-+.+.              .++++..
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            34457777777777776653   234445555544444445555555555554433332              2444444


Q ss_pred             HHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHHHHHHhCCCc
Q 006388          431 AKSFINKMPFPPDAIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLRRTMREKGVR  510 (647)
Q Consensus       431 A~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~  510 (647)
                      ...-+-.+.  .+....+.-+....++|.-++-.+++..+++.+..+|.....++++|.+.|...++-+++.+.-++|++
T Consensus        75 vv~C~~~~n--~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~~i~~~~llkia~A~kkig~~re~nell~~ACe~G~K  152 (161)
T d1wy6a1          75 VVECGVINN--TLNEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             HHHHHHHTT--CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHhc--chHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhHH
Confidence            444444443  244455667778888899999999999988877778999999999999999999999999999999985

>d1qsaa1 a.118.5.1 (A:1-450) 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Bacterial muramidases
family: Bacterial muramidases
domain: 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain
species: Escherichia coli [TaxId: 562]

Probab=95.87  E-value=0.87  Score=44.03  Aligned_cols=55  Identities=13%  Similarity=-0.009  Sum_probs=32.7

Q ss_pred             HHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCC
Q 006388          215 LVDMYCKCKSIKYAESVFRTMAWKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNG  270 (647)
Q Consensus       215 li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  270 (647)
                      .+..+.+.++++.....+..-+ .++..-.....+....|+.++|...+..+-..|
T Consensus        78 ~l~~L~~~~~w~~~~~~~~~~p-~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~  132 (450)
T d1qsaa1          78 FVNELARREDWRGLLAFSPEKP-GTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTG  132 (450)
T ss_dssp             HHHHHHHTTCHHHHHHHCCSCC-SSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCS
T ss_pred             HHHHHHhccCHHHHHHhccCCC-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC
Confidence            3455666677766555554322 244444556666777777777777776665554

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.97  E-value=0.15  Score=38.95  Aligned_cols=64  Identities=8%  Similarity=-0.022  Sum_probs=39.3

Q ss_pred             ChhhHHHHHHHHHhc---CChhHHHHHHHHHhccCCCCc-hhHHHHHHhhhhCCChhHHHHHHHHHHh
Q 006388          443 DAIGWATLLSSCRIH---GNVEIGKWAAESLLELDPYNP-ASYVLLSSIYASKGKWDHVSQLRRTMRE  506 (647)
Q Consensus       443 ~~~~~~~ll~~~~~~---~~~~~a~~~~~~~~~~~p~~~-~~~~~l~~~~~~~g~~~~a~~~~~~m~~  506 (647)
                      .+.+.-....++.+.   .+.++|+.+++.+.+.+|.+. ..+..|+-+|.+.|++++|.+.++++.+
T Consensus        34 s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~  101 (124)
T d2pqrb1          34 TIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  101 (124)
T ss_dssp             CHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             CcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHc
Confidence            344444445555443   344567777777766666543 4566677777777777777777777665

>d1qsaa1 a.118.5.1 (A:1-450) 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Bacterial muramidases
family: Bacterial muramidases
domain: 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain
species: Escherichia coli [TaxId: 562]

Probab=93.78  E-value=3.1  Score=39.86  Aligned_cols=348  Identities=9%  Similarity=0.006  Sum_probs=163.7

Q ss_pred             HHHHHhcCChHHHHHHhhcCCCCCeehHHHHHHHHHhCCChhHHHHHHHHHHHCC-CCCChhhHHHHHHHHhcCCChHHH
Q 006388          115 ITGLLRRGLVEESRRLFRGMKDKDSISWTTMITGLMQNGLEREAIDLFREMRLEG-LAMDQFTFGSVLTACGGLLALEEG  193 (647)
Q Consensus       115 i~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~pd~~t~~~ll~~~~~~~~~~~a  193 (647)
                      +..+.+.+++......+..-+ .+...-.....+..+.|+.++|...+...-..| ..|+.  .                
T Consensus        79 l~~L~~~~~w~~~~~~~~~~p-~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~~~~p~~--c----------------  139 (450)
T d1qsaa1          79 VNELARREDWRGLLAFSPEKP-GTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGKSQPNA--C----------------  139 (450)
T ss_dssp             HHHHHHTTCHHHHHHHCCSCC-SSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSSCCCTH--H----------------
T ss_pred             HHHHHhccCHHHHHHhccCCC-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCchH--H----------------
Confidence            445555666666555544322 133334456667777888888887777765544 22322  1                


Q ss_pred             HHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCC
Q 006388          194 KQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYAESVFRTMAWKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEP  273 (647)
Q Consensus       194 ~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  273 (647)
                      ..++..+.+.|. .+...+-.-+......|+...|..+...+...........+.....-   ..+....   ..  ..+
T Consensus       140 ~~l~~~~~~~~~-lt~~~~~~R~~~~l~~~~~~~a~~l~~~l~~~~~~~~~a~~~l~~~p---~~~~~~~---~~--~~~  210 (450)
T d1qsaa1         140 DKLFSVWRASGK-QDPLAYLERIRLAMKAGNTGLVTVLAGQMPADYQTIASAIISLANNP---NTVLTFA---RT--TGA  210 (450)
T ss_dssp             HHHHHHHHHTTC-SCHHHHHHHHHHHHHTTCHHHHHHHHHTCCGGGHHHHHHHHHHHHCG---GGHHHHH---HH--SCC
T ss_pred             HHHHHHHHhcCC-CCHHHHHHHHHHHHHcCChhhHHHHHhhCChhHHHHHHHHHHHHhCh---HhHHHHH---hc--CCC
Confidence            223333334332 22333333445555667777777777766654444444444433221   2221111   11  122


Q ss_pred             CHHHHHHHHHHHhc--cCChHHHHHHHHHHHHhCCCcchhH---HHHHHHHHHhcCCHHHHHHHHhhcC--CCChhhHHH
Q 006388          274 DDFTLGSVISSCAN--LASLEEGTQFHGRSLVTGLISFITV---SNALVTFYGKCGNIEDSHRLFNEMN--VRDEVSWTA  346 (647)
Q Consensus       274 ~~~t~~~ll~a~~~--~~~~~~a~~~~~~~~~~~~~~~~~~---~~~li~~~~~~g~~~~A~~~~~~~~--~~d~~~~~~  346 (647)
                      +......+..+..+  ..+.+.+..++..............   ...+...+...+..+.+...+....  ..+.....-
T Consensus       211 ~~~~~~~~~~~l~rla~~d~~~a~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~w  290 (450)
T d1qsaa1         211 TDFTRQMAAVAFASVARQDAENARLMIPSLAQAQQLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRSQSTSLIER  290 (450)
T ss_dssp             CHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTCCCHHHHHH
T ss_pred             ChhhhHHHHHHHHHHhccChhHHHHHHHhhhhcccccHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhcccccchHHHHH
Confidence            22222222222222  2345555555555544322211111   1111222223344555555554433  222222222


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHHHHHHcC
Q 006388          347 LVSGYAKFGKANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMIDILSRAG  426 (647)
Q Consensus       347 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g  426 (647)
                      .+......+++..+...+..|.... .-...-.--+..+....|+.++|..+|.....    .++  -|.-|..  .+.|
T Consensus       291 ~~~~al~~~~~~~~~~~~~~l~~~~-~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~----~~~--fYG~LAa--~~Lg  361 (450)
T d1qsaa1         291 RVRMALGTGDRRGLNTWLARLPMEA-KEKDEWRYWQADLLLERGREAEAKEILHQLMQ----QRG--FYPMVAA--QRIG  361 (450)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHSCTTG-GGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT----SCS--HHHHHHH--HHTT
T ss_pred             HHHHHHHcCChHHHHHHHHhcCccc-ccHHHHHHHHHHHHHHcCChhhHHHHHHHHhc----CCC--hHHHHHH--HHcC
Confidence            3344455667777777776654321 11122222344666777777777777776642    232  3433321  1222


Q ss_pred             CHHHHHHHH-HhCCCCCChh-h---HHHHHHHHHhcCChhHHHHHHHHHhccCCCCchhHHHHHHhhhhCCChhHHHHHH
Q 006388          427 RLEEAKSFI-NKMPFPPDAI-G---WATLLSSCRIHGNVEIGKWAAESLLELDPYNPASYVLLSSIYASKGKWDHVSQLR  501 (647)
Q Consensus       427 ~~~~A~~~~-~~~~~~p~~~-~---~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~  501 (647)
                      ..-   .+- ...+..++.. .   -..-+..+...|....|...+..+.+..  ++.-...++....+.|.++.|....
T Consensus       362 ~~~---~~~~~~~~~~~~~~~~~~~~~~ra~~L~~~g~~~~A~~e~~~l~~~~--~~~~~~~la~lA~~~g~~~~aI~a~  436 (450)
T d1qsaa1         362 EEY---ELKIDKAPQNVDSALTQGPEMARVRELMYWNLDNTARSEWANLVKSK--SKTEQAQLARYAFNNQWWDLSVQAT  436 (450)
T ss_dssp             CCC---CCCCCCCCSCCCCHHHHSHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--CHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CCC---CCCcCCCCccHHHhhhcChHHHHHHHHHHcCCchHHHHHHHHHHhCC--CHHHHHHHHHHHHHCCChhHHHHHH
Confidence            100   000 0001111110 0   1122344567788888888877766433  3456667778888888888888766


Q ss_pred             HHH
Q 006388          502 RTM  504 (647)
Q Consensus       502 ~~m  504 (647)
                      .+.
T Consensus       437 ~~~  439 (450)
T d1qsaa1         437 IAG  439 (450)
T ss_dssp             HHT
T ss_pred             HHH
Confidence            654

>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=93.37  E-value=0.29  Score=38.13  Aligned_cols=50  Identities=6%  Similarity=-0.037  Sum_probs=34.3

Q ss_pred             CChhHHHHHHHHHhccCCCCchhHHHHHHhhhh----CCChhHHHHHHHHHHhCCC
Q 006388          458 GNVEIGKWAAESLLELDPYNPASYVLLSSIYAS----KGKWDHVSQLRRTMREKGV  509 (647)
Q Consensus       458 ~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~a~~~~~~m~~~g~  509 (647)
                      .|.++|.+.++++.+.+  ++.....|+.+|..    ..+.++|.+++++..+.|.
T Consensus        73 ~d~~~A~~~~~~aa~~g--~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G~  126 (133)
T d1klxa_          73 KDLRKAAQYYSKACGLN--DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  126 (133)
T ss_dssp             CCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             hhhHHHHHHHhhhhccC--cchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCCC
Confidence            35667777777766654  45566677777765    4577888888888777765

>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=92.52  E-value=1.2  Score=34.26  Aligned_cols=46  Identities=7%  Similarity=-0.073  Sum_probs=22.5

Q ss_pred             ChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhC
Q 006388          255 CSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTG  305 (647)
Q Consensus       255 ~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~  305 (647)
                      ++++|+++|++..+.|. |.  ....+  +.....+.++|...+....+.|
T Consensus         8 d~~~A~~~~~kaa~~g~-~~--a~~~l--~~~~~~~~~~a~~~~~~aa~~g   53 (133)
T d1klxa_           8 DLKKAIQYYVKACELNE-MF--GCLSL--VSNSQINKQKLFQYLSKACELN   53 (133)
T ss_dssp             HHHHHHHHHHHHHHTTC-TT--HHHHH--HTCTTSCHHHHHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHHHCCC-hh--hhhhh--ccccccCHHHHHHHHhhhhccc
Confidence            45667777777666652 11  11111  1122345555555555555544

>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=91.44  E-value=0.71  Score=34.95  Aligned_cols=71  Identities=11%  Similarity=0.015  Sum_probs=47.0

Q ss_pred             cChHHHHHHHHHHHHcC---CHHHHHHHHHhC-CCCC-C-hhhHHHHHHHHHhcCChhHHHHHHHHHhccCCCCchh
Q 006388          410 PIHDHYTCMIDILSRAG---RLEEAKSFINKM-PFPP-D-AIGWATLLSSCRIHGNVEIGKWAAESLLELDPYNPAS  480 (647)
Q Consensus       410 p~~~~~~~li~~~~~~g---~~~~A~~~~~~~-~~~p-~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~p~~~~~  480 (647)
                      |+..+--.+.-++.++.   +.++++.++++. ...| + ...|-.|.-+|.+.|+++.|...++++++++|+|..+
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ieP~n~qA  109 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQV  109 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHH
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccCCCcHHH
Confidence            44444444555555543   345666666655 2233 2 3566777888889999999999999999999987644

>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=90.50  E-value=2.6  Score=31.59  Aligned_cols=141  Identities=11%  Similarity=0.018  Sum_probs=82.0

Q ss_pred             HHhCCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHhcCCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHH
Q 006388          149 LMQNGLEREAIDLFREMRLEGLAMDQFTFGSVLTACGGLLALEEGKQIHAFIIRNDHKDNVFVGSALVDMYCKCKSIKYA  228 (647)
Q Consensus       149 ~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A  228 (647)
                      +.-.|..++..++..+.....   +..-|+.++--....-+-+...++++.+-+   -.|          ..+|+++...
T Consensus        12 ~ildG~ve~Gveii~k~~~ss---~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~---~FD----------ls~C~Nlk~v   75 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITKSS---TKSEYNWFICNLLESIDCRYMFQVLDKIGS---YFD----------LDKCQNLKSV   75 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS---CHHHHTHHHHHHHHHCCHHHHHHHHHHHGG---GSC----------GGGCSCTHHH
T ss_pred             HHHhhhHHhHHHHHHHHcccC---CccccceeeeecccccchHHHHHHHHHHhh---hcC----------chhhhcHHHH
Confidence            344566666677666665431   333455554443333333333333332211   111          1233444444


Q ss_pred             HHHHhcCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHhCCC
Q 006388          229 ESVFRTMAWKNVVSWTAMLVGYGQNGCSEEAVKIFCNMQRNGIEPDDFTLGSVISSCANLASLEEGTQFHGRSLVTGLI  307 (647)
Q Consensus       229 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~  307 (647)
                      ...|-.+. .+....+.-++...++|+-++-.++++.+.+.+ +|++.....+..||-+.|+..++.+++.++-+.|+.
T Consensus        76 v~C~~~~n-~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~G~K  152 (161)
T d1wy6a1          76 VECGVINN-TLNEHVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             HHHHHHTT-CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHhc-chHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhHH
Confidence            44333332 233445666778888888888888888876654 677777888888888899988888888888777753

>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=84.48  E-value=2.1  Score=30.42  Aligned_cols=63  Identities=19%  Similarity=0.293  Sum_probs=48.8

Q ss_pred             ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCcChHHHHHHHH
Q 006388          356 KANETIDLFEKMLSHGLKPDEVTLIGVLSACSRAGLVEKGRHYFEIMVKEYGIRPIHDHYTCMID  420 (647)
Q Consensus       356 ~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~  420 (647)
                      +.-++.+-+..+....+.|+.....+.|.||.+..++..|.++|+....+  ..++...|..+++
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K--~~~~k~~y~yilq   83 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK--AGPHKEIYPYVIQ   83 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--TTTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH--hcCcHHHHHHHHH
Confidence            34456666777777778999999999999999999999999999988754  3344557776654