Citrus Sinensis ID: 038401

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540--
Protein Sequence
RSVAILDWINEEARYSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQMLSLYGARKDFNMLESLFERLDSDSNINKKELHHVVAGIYERANRLNDASRIMNRMNKRRTFNSSLV
Secondary Structure (PSIPRED)
cHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccccHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHccccccHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEHHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEHHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHccccHHHHHHHHHHHcccccEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccc
Coil and Loop (DISEMBL)
RSVAILDWIneearyspsvFAYNVVLRNVLRAKQWELAHGLFDemrqrgiapdrytySTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRlkssgivpdlVAYNTMINVFGKAKLFKEARLLIEEMREqgvkpdtvsYSTLLNLYVENHKFVEALSVFAEmnevncpldlttcnIMIDVYGQLDMAKDADRLFWSMRkmgidpsvvSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQnrgiepnaiTYSTIIAIWGKAGKLDRAAMLFQKLRssgveidpVLYQTMIVAYERVGLVAHAKRLLHelrqpntiprETAITILARAGRIEEATWVFRQafdagevkdisVFGCMIELFSRNKKYANVIEVFEKMrsagyfpdsHIIALVLNSYgklrefetaDDLYSEMqeegcvfsdQVHFQMLSLYGARKDFNMLESLFERldsdsninkkELHHVVAGIYERANRLNDASRIMNRMnkrrtfnsslv
Flexible Loop (DISEMBL)
rsvaildwineearyspsvFAYNVVLRNVLRAKQWELAHGLfdemrqrgiapDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSrlkssgivpDLVAYNTMINVFGKAKLFKEARLLIEEMreqgvkpdtVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRssgveidpVLYQTMIVAYERVGLVAHAKRLLhelrqpntipreTAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQMLSLYGARKDFNMLESLFERldsdsninKKELHHVVAGIyeranrlndasrimnrmnkrrtfnsslv
Low Complexity Region (SEG)
RSVAILDWINEEARYSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQMLSLYGARKDFNMLESLFERLDSDSNINKKELHHVVAGIYERANRLNDASRIMNRMNKRRTFNSSLV
Disordered region (IsUnstruct)
**VAILDWINEEARYSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKA**L*****NRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQMLSLYGARKDFNMLESLFERLDSDSNINKKELHHVVAGIYERAN***********************
Disordered Region (DISOPRED)
RSVAILDWINEEARYSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQMLSLYGARKDFNMLESLFERLDSDSNINKKELHHVVAGIYERANRLNDASRIMNRMNKRRTFNSSLV
Disordered Region (DISEMBL)
RSVAILDWINEEARYSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQMLSLYGARKDFNMLESLFERLDSDSNINKKELHHVVAGIYERANRLNDASRIMNRMNKR********
Disordered Region (DISPRO)
RSVAILDWINEEARYSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQMLSLYGARKDFNMLESLFERLDSDSNINKKELHHVVAGIYERANRLNDASRIMNRMNKRRTF*****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
RSVAILDWINEEARYSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQMLSLYGARKDFNMLESLFERLDSDSNINKKELHHVVAGIYERANRLNDASRIMNRMNKRRTFNSSLV
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	542	2.2.26 [Sep-21-2011]
Q9FLD8	678	Pentatricopeptide repeat-	yes	no	0.983	0.786	0.827	0.0
Q9LQ14	629	Pentatricopeptide repeat-	no	no	0.791	0.682	0.293	9e-57
Q9LQ16	632	Pentatricopeptide repeat-	no	no	0.813	0.697	0.284	4e-54
Q9CAN0	630	Pentatricopeptide repeat-	no	no	0.797	0.685	0.284	3e-53
Q9LYZ9	819	Pentatricopeptide repeat-	no	no	0.937	0.620	0.265	1e-51
Q9CAM8	629	Pentatricopeptide repeat-	no	no	0.813	0.701	0.270	2e-51
Q9S7Q2	862	Pentatricopeptide repeat-	no	no	0.979	0.616	0.226	1e-49
Q9CAN5	614	Pentatricopeptide repeat-	no	no	0.809	0.714	0.270	1e-49
Q9SXD1	630	Pentatricopeptide repeat-	no	no	0.813	0.7	0.266	5e-49
Q8RWS8	822	Pentatricopeptide repeat-	no	no	0.885	0.583	0.256	2e-48

>sp|Q9FLD8|PP408_ARATH Pentatricopeptide repeat-containing protein At5g39980, chloroplastic OS=Arabidopsis thaliana GN=At5g39980 PE=2 SV=1

 Score =  951 bits (2459), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 442/534 (82%), Positives = 502/534 (94%)

Query: 1   RSVAILDWINEEARYSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTL 60
           RS+A+LDW++EEA+Y+PSVFAYNVVLRNVLRAKQ+++AHGLFDEMRQR +APDRYTYSTL
Sbjct: 137 RSLALLDWVHEEAKYTPSVFAYNVVLRNVLRAKQFDIAHGLFDEMRQRALAPDRYTYSTL 196

Query: 61  ITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGI 120
           IT FGKEGMFDSA+SWLQ+MEQDRVSGDLVLYSNLIEL+R+L DYSKAISIFSRLK SGI
Sbjct: 197 ITSFGKEGMFDSALSWLQKMEQDRVSGDLVLYSNLIELSRRLCDYSKAISIFSRLKRSGI 256

Query: 121 VPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALS 180
            PDLVAYN+MINV+GKAKLF+EARLLI+EM E GV P+TVSYSTLL++YVENHKF+EALS
Sbjct: 257 TPDLVAYNSMINVYGKAKLFREARLLIKEMNEAGVLPNTVSYSTLLSVYVENHKFLEALS 316

Query: 181 VFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYG 240
           VFAEM EVNC LDLTTCNIMIDVYGQLDM K+ADRLFWS+RKM I+P+VVSYNT+LRVYG
Sbjct: 317 VFAEMKEVNCALDLTTCNIMIDVYGQLDMVKEADRLFWSLRKMDIEPNVVSYNTILRVYG 376

Query: 241 EAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAI 300
           EAELFGEAIHLFRLMQRK+IEQNVVTYNTMIKIYGK++EHEKATNL+QEMQ+RGIEPNAI
Sbjct: 377 EAELFGEAIHLFRLMQRKDIEQNVVTYNTMIKIYGKTMEHEKATNLVQEMQSRGIEPNAI 436

Query: 301 TYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHEL 360
           TYSTII+IWGKAGKLDRAA LFQKLRSSGVEID VLYQTMIVAYERVGL+ HAKRLLHEL
Sbjct: 437 TYSTIISIWGKAGKLDRAATLFQKLRSSGVEIDQVLYQTMIVAYERVGLMGHAKRLLHEL 496

Query: 361 RQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVI 420
           + P+ IPRETAITILA+AGR EEATWVFRQAF++GEVKDISVFGCMI L+SRN++Y NVI
Sbjct: 497 KLPDNIPRETAITILAKAGRTEEATWVFRQAFESGEVKDISVFGCMINLYSRNQRYVNVI 556

Query: 421 EVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQMLSLY 480
           EVFEKMR+AGYFPDS++IA+VLN+YGK REFE AD +Y EMQEEGCVF D+VHFQMLSLY
Sbjct: 557 EVFEKMRTAGYFPDSNVIAMVLNAYGKQREFEKADTVYREMQEEGCVFPDEVHFQMLSLY 616

Query: 481 GARKDFNMLESLFERLDSDSNINKKELHHVVAGIYERANRLNDASRIMNRMNKR 534
            ++KDF M+ESLF+RL+SD N+N KELH VVA +YERA++LNDASR+MNRM +R
Sbjct: 617 SSKKDFEMVESLFQRLESDPNVNSKELHLVVAALYERADKLNDASRVMNRMRER 670

Arabidopsis thaliana (taxid: 3702)

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

 Score =  221 bits (564), Expect = 9e-57,   Method: Compositional matrix adjust.
 Identities = 127/433 (29%), Positives = 234/433 (54%), Gaps = 4/433 (0%)

Query: 15  YSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAI 74
           Y P+   +N ++  +    +   A  L D M  RG  PD +TY T++    K G  D A+
Sbjct: 181 YQPNTVTFNTLIHGLFLHNKASEAVALIDRMVARGCQPDLFTYGTVVNGLCKRGDIDLAL 240

Query: 75  SWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVF 134
           S L++ME+ ++  D+V+Y+ +I+      + + A+++F+ + + GI P++V YN++I   
Sbjct: 241 SLLKKMEKGKIEADVVIYTTIIDALCNYKNVNDALNLFTEMDNKGIRPNVVTYNSLIRCL 300

Query: 135 GKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDL 194
                + +A  L+ +M E+ + P+ V++S L++ +V+  K VEA  ++ EM + +   D+
Sbjct: 301 CNYGRWSDASRLLSDMIERKINPNVVTFSALIDAFVKEGKLVEAEKLYDEMIKRSIDPDI 360

Query: 195 TTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRL 254
            T + +I+ +   D   +A  +F  M      P+VV+YNTL++ + +A+   E + LFR 
Sbjct: 361 FTYSSLINGFCMHDRLDEAKHMFELMISKDCFPNVVTYNTLIKGFCKAKRVEEGMELFRE 420

Query: 255 MQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGK 314
           M ++ +  N VTYNT+I+   ++ + + A  + ++M + G+ P+ ITYS ++    K GK
Sbjct: 421 MSQRGLVGNTVTYNTLIQGLFQAGDCDMAQKIFKKMVSDGVPPDIITYSILLDGLCKYGK 480

Query: 315 LDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELR----QPNTIPRET 370
           L++A ++F+ L+ S +E D   Y  MI    + G V     L   L     +PN I   T
Sbjct: 481 LEKALVVFEYLQKSKMEPDIYTYNIMIEGMCKAGKVEDGWDLFCSLSLKGVKPNVIIYTT 540

Query: 371 AITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAG 430
            I+   R G  EEA  +FR+  + G + +   +  +I    R+   A   E+ ++MRS G
Sbjct: 541 MISGFCRKGLKEEADALFREMKEDGTLPNSGTYNTLIRARLRDGDKAASAELIKEMRSCG 600

Query: 431 YFPDSHIIALVLN 443
           +  D+  I++V+N
Sbjct: 601 FVGDASTISMVIN 613

Arabidopsis thaliana (taxid: 3702)

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

 Score =  213 bits (541), Expect = 4e-54,   Method: Compositional matrix adjust.
 Identities = 127/446 (28%), Positives = 234/446 (52%), Gaps = 5/446 (1%)

Query: 2   SVAILDWINEEARYSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLI 61
           +VA++D + E   Y P  F +  ++  +    +   A  L D+M QRG  PD  TY T++
Sbjct: 172 AVALVDQMVEMG-YKPDTFTFTTLIHGLFLHNKASEAVALVDQMVQRGCQPDLVTYGTVV 230

Query: 62  TCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIV 121
               K G  D A+S L++ME+ ++  D+V+Y+ +I+   K      A+++F+ + + GI 
Sbjct: 231 NGLCKRGDIDLALSLLKKMEKGKIEADVVIYNTIIDGLCKYKHMDDALNLFTEMDNKGIR 290

Query: 122 PDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSV 181
           PD+  Y+++I+       + +A  L+ +M E+ + P+ V++S L++ +V+  K VEA  +
Sbjct: 291 PDVFTYSSLISCLCNYGRWSDASRLLSDMIERKINPNVVTFSALIDAFVKEGKLVEAEKL 350

Query: 182 FAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGE 241
           + EM + +   D+ T + +I+ +   D   +A  +F  M      P+VV+Y+TL++ + +
Sbjct: 351 YDEMIKRSIDPDIFTYSSLINGFCMHDRLDEAKHMFELMISKDCFPNVVTYSTLIKGFCK 410

Query: 242 AELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAIT 301
           A+   E + LFR M ++ +  N VTY T+I  + ++ + + A  + ++M + G+ PN +T
Sbjct: 411 AKRVEEGMELFREMSQRGLVGNTVTYTTLIHGFFQARDCDNAQMVFKQMVSVGVHPNILT 470

Query: 302 YSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELR 361
           Y+ ++    K GKL +A ++F+ L+ S +E D   Y  MI    + G V     L   L 
Sbjct: 471 YNILLDGLCKNGKLAKAMVVFEYLQRSTMEPDIYTYNIMIEGMCKAGKVEDGWELFCNLS 530

Query: 362 ----QPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYA 417
                PN I   T I+   R G  EEA  + ++  + G + +   +  +I    R+    
Sbjct: 531 LKGVSPNVIAYNTMISGFCRKGSKEEADSLLKKMKEDGPLPNSGTYNTLIRARLRDGDRE 590

Query: 418 NVIEVFEKMRSAGYFPDSHIIALVLN 443
              E+ ++MRS G+  D+  I LV N
Sbjct: 591 ASAELIKEMRSCGFAGDASTIGLVTN 616

Arabidopsis thaliana (taxid: 3702)

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

 Score =  210 bits (534), Expect = 3e-53,   Method: Compositional matrix adjust.
 Identities = 124/436 (28%), Positives = 226/436 (51%), Gaps = 4/436 (0%)

Query: 12  EARYSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFD 71
           E  Y P  F +N ++  + R  +   A  L D M  +G  PD  TY  ++    K G  D
Sbjct: 179 EMGYQPDSFTFNTLIHGLFRHNRASEAVALVDRMVVKGCQPDLVTYGIVVNGLCKRGDID 238

Query: 72  SAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMI 131
            A+S L++MEQ ++   +V+Y+ +I+      + + A+++F+ + + GI P++V YN++I
Sbjct: 239 LALSLLKKMEQGKIEPGVVIYNTIIDALCNYKNVNDALNLFTEMDNKGIRPNVVTYNSLI 298

Query: 132 NVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCP 191
                   + +A  L+ +M E+ + P+ V++S L++ +V+  K VEA  ++ EM + +  
Sbjct: 299 RCLCNYGRWSDASRLLSDMIERKINPNVVTFSALIDAFVKEGKLVEAEKLYDEMIKRSID 358

Query: 192 LDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHL 251
            D+ T + +I+ +   D   +A  +F  M      P+VV+YNTL++ + +A+   E + L
Sbjct: 359 PDIFTYSSLINGFCMHDRLDEAKHMFELMISKDCFPNVVTYNTLIKGFCKAKRVDEGMEL 418

Query: 252 FRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGK 311
           FR M ++ +  N VTY T+I  + ++ E + A  + ++M + G+ P+ +TYS ++     
Sbjct: 419 FREMSQRGLVGNTVTYTTLIHGFFQARECDNAQIVFKQMVSDGVLPDIMTYSILLDGLCN 478

Query: 312 AGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELR----QPNTIP 367
            GK++ A ++F+ L+ S +E D   Y  MI    + G V     L   L     +PN + 
Sbjct: 479 NGKVETALVVFEYLQRSKMEPDIYTYNIMIEGMCKAGKVEDGWDLFCSLSLKGVKPNVVT 538

Query: 368 RETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMR 427
             T ++   R G  EEA  +FR+  + G + D   +  +I    R+   A   E+  +MR
Sbjct: 539 YTTMMSGFCRKGLKEEADALFREMKEEGPLPDSGTYNTLIRAHLRDGDKAASAELIREMR 598

Query: 428 SAGYFPDSHIIALVLN 443
           S  +  D+  I LV N
Sbjct: 599 SCRFVGDASTIGLVTN 614

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LYZ9|PP362_ARATH Pentatricopeptide repeat-containing protein At5g02860 OS=Arabidopsis thaliana GN=At5g02860 PE=2 SV=1

 Score =  204 bits (520), Expect = 1e-51,   Method: Compositional matrix adjust.
 Identities = 138/519 (26%), Positives = 249/519 (47%), Gaps = 11/519 (2%)

Query: 33  KQWELAHGLFDE-MRQRGIAP--DRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDL 89
           K+++LA   FD  M+Q+      D    + +I+  GKEG   SA +    +++D  S D+
Sbjct: 149 KKFDLALRAFDWFMKQKDYQSMLDNSVVAIIISMLGKEGRVSSAANMFNGLQEDGFSLDV 208

Query: 90  VLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGK-AKLFKEARLLIE 148
             Y++LI        Y +A+++F +++  G  P L+ YN ++NVFGK    + +   L+E
Sbjct: 209 YSYTSLISAFANSGRYREAVNVFKKMEEDGCKPTLITYNVILNVFGKMGTPWNKITSLVE 268

Query: 149 EMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLD 208
           +M+  G+ PD  +Y+TL+          EA  VF EM       D  T N ++DVYG+  
Sbjct: 269 KMKSDGIAPDAYTYNTLITCCKRGSLHQEAAQVFEEMKAAGFSYDKVTYNALLDVYGKSH 328

Query: 209 MAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYN 268
             K+A ++   M   G  PS+V+YN+L+  Y    +  EA+ L   M  K  + +V TY 
Sbjct: 329 RPKEAMKVLNEMVLNGFSPSIVTYNSLISAYARDGMLDEAMELKNQMAEKGTKPDVFTYT 388

Query: 269 TMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSS 328
           T++  + ++ + E A ++ +EM+N G +PN  T++  I ++G  GK      +F ++   
Sbjct: 389 TLLSGFERAGKVESAMSIFEEMRNAGCKPNICTFNAFIKMYGNRGKFTEMMKIFDEINVC 448

Query: 329 GVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIP-RETAITIL---ARAGRIEEA 384
           G+  D V + T++  + + G+ +    +  E+++   +P RET  T++   +R G  E+A
Sbjct: 449 GLSPDIVTWNTLLAVFGQNGMDSEVSGVFKEMKRAGFVPERETFNTLISAYSRCGSFEQA 508

Query: 385 TWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNS 444
             V+R+  DAG   D+S +  ++   +R   +    +V  +M      P+      +L++
Sbjct: 509 MTVYRRMLDAGVTPDLSTYNTVLAALARGGMWEQSEKVLAEMEDGRCKPNELTYCSLLHA 568

Query: 445 YGKLREFETADDLYSEMQEEGCVFSDQVHFQMLSLYGARKD-FNMLESLFERLDSDSNIN 503
           Y   +E      L  E+   G +    V  + L L  ++ D     E  F  L       
Sbjct: 569 YANGKEIGLMHSLAEEVY-SGVIEPRAVLLKTLVLVCSKCDLLPEAERAFSELKERGFSP 627

Query: 504 KKELHHVVAGIYERANRLNDASRIMNRMNKRRTFNSSLV 542
                + +  IY R   +  A+ +++ M K R F  S+ 
Sbjct: 628 DITTLNSMVSIYGRRQMVAKANGVLDYM-KERGFTPSMA 665

Arabidopsis thaliana (taxid: 3702)

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

 Score =  203 bits (517), Expect = 2e-51,   Method: Compositional matrix adjust.
 Identities = 120/443 (27%), Positives = 235/443 (53%), Gaps = 2/443 (0%)

Query: 2   SVAILDWINEEARYSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLI 61
           +VA++D + E   Y P  F +  ++  +    +   A  L D+M QRG  PD  TY T++
Sbjct: 172 AVALVDQMVEMG-YKPDTFTFTTLIHGLFLHNKASEAVALVDQMVQRGCQPDLVTYGTVV 230

Query: 62  TCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIV 121
               K G  D A++ L +ME  R+  ++V+++ +I+   K      A+ +F+ +++ GI 
Sbjct: 231 NGLCKRGDIDLALNLLNKMEAARIKANVVIFNTIIDSLCKYRHVEVAVDLFTEMETKGIR 290

Query: 122 PDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSV 181
           P++V YN++IN       + +A  L+  M E+ + P+ V+++ L++ + +  K VEA  +
Sbjct: 291 PNVVTYNSLINCLCNYGRWSDASRLLSNMLEKKINPNVVTFNALIDAFFKEGKLVEAEKL 350

Query: 182 FAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGE 241
             EM + +   D  T N++I+ +   +   +A ++F  M      P++ +YNTL+  + +
Sbjct: 351 HEEMIQRSIDPDTITYNLLINGFCMHNRLDEAKQMFKFMVSKDCLPNIQTYNTLINGFCK 410

Query: 242 AELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAIT 301
            +   + + LFR M ++ +  N VTY T+I+ + ++ + + A  + ++M +  +  + +T
Sbjct: 411 CKRVEDGVELFREMSQRGLVGNTVTYTTIIQGFFQAGDCDSAQMVFKQMVSNRVPTDIMT 470

Query: 302 YSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELR 361
           YS ++      GKLD A ++F+ L+ S +E++  +Y TMI    + G V  A  L   L 
Sbjct: 471 YSILLHGLCSYGKLDTALVIFKYLQKSEMELNIFIYNTMIEGMCKAGKVGEAWDLFCSLS 530

Query: 362 -QPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVI 420
            +P+ +   T I+ L     ++EA  +FR+  + G + +   +  +I    R+   A   
Sbjct: 531 IKPDVVTYNTMISGLCSKRLLQEADDLFRKMKEDGTLPNSGTYNTLIRANLRDCDRAASA 590

Query: 421 EVFEKMRSAGYFPDSHIIALVLN 443
           E+ ++MRS+G+  D+  I+LV N
Sbjct: 591 ELIKEMRSSGFVGDASTISLVTN 613

Arabidopsis thaliana (taxid: 3702)

>sp|Q9S7Q2|PP124_ARATH Pentatricopeptide repeat-containing protein At1g74850, chloroplastic OS=Arabidopsis thaliana GN=PTAC2 PE=2 SV=1

 Score =  198 bits (503), Expect = 1e-49,   Method: Compositional matrix adjust.
 Identities = 122/539 (22%), Positives = 266/539 (49%), Gaps = 8/539 (1%)

Query: 1   RSVAILDWINEEARYSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTL 60
           RS+ +  ++  +    P+   Y +++  + R    +    +FDEM  +G++   ++Y+ L
Sbjct: 123 RSLRLFKYMQRQIWCKPNEHIYTIMISLLGREGLLDKCLEVFDEMPSQGVSRSVFSYTAL 182

Query: 61  ITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIE-LARKLSDYSKAISIFSRLKSSG 119
           I  +G+ G +++++  L +M+ +++S  ++ Y+ +I   AR   D+   + +F+ ++  G
Sbjct: 183 INAYGRNGRYETSLELLDRMKNEKISPSILTYNTVINACARGGLDWEGLLGLFAEMRHEG 242

Query: 120 IVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEAL 179
           I PD+V YNT+++      L  EA ++   M + G+ PD  +YS L+  + +  +  +  
Sbjct: 243 IQPDIVTYNTLLSACAIRGLGDEAEMVFRTMNDGGIVPDLTTYSHLVETFGKLRRLEKVC 302

Query: 180 SVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVY 239
            +  EM       D+T+ N++++ Y +    K+A  +F  M+  G  P+  +Y+ LL ++
Sbjct: 303 DLLGEMASGGSLPDITSYNVLLEAYAKSGSIKEAMGVFHQMQAAGCTPNANTYSVLLNLF 362

Query: 240 GEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNA 299
           G++  + +   LF  M+    + +  TYN +I+++G+    ++   L  +M    IEP+ 
Sbjct: 363 GQSGRYDDVRQLFLEMKSSNTDPDAATYNILIEVFGEGGYFKEVVTLFHDMVEENIEPDM 422

Query: 300 ITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHE 359
            TY  II   GK G  + A  + Q + ++ +      Y  +I A+ +  L   A    + 
Sbjct: 423 ETYEGIIFACGKGGLHEDARKILQYMTANDIVPSSKAYTGVIEAFGQAALYEEALVAFNT 482

Query: 360 LRQPNTIPR-ETAITIL---ARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKK 415
           + +  + P  ET  ++L   AR G ++E+  +  +  D+G  ++   F   IE + +  K
Sbjct: 483 MHEVGSNPSIETFHSLLYSFARGGLVKESEAILSRLVDSGIPRNRDTFNAQIEAYKQGGK 542

Query: 416 YANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ 475
           +   ++ +  M  +   PD   +  VL+ Y   R  +   + + EM+    + S   +  
Sbjct: 543 FEEAVKTYVDMEKSRCDPDERTLEAVLSVYSFARLVDECREQFEEMKASDILPSIMCYCM 602

Query: 476 MLSLYGARKDFNMLESLFERLDSD--SNINKKELHHVVAGIYERANRLNDASRIMNRMN 532
           ML++YG  + ++ +  L E + S+  SNI++  +  ++ G Y+  +       +++++N
Sbjct: 603 MLAVYGKTERWDDVNELLEEMLSNRVSNIHQV-IGQMIKGDYDDDSNWQIVEYVLDKLN 660

Involved in plastid gene expression.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9CAN5|PPR98_ARATH Pentatricopeptide repeat-containing protein At1g63080, mitochondrial OS=Arabidopsis thaliana GN=At1g63080 PE=2 SV=1

 Score =  197 bits (502), Expect = 1e-49,   Method: Compositional matrix adjust.
 Identities = 120/444 (27%), Positives = 229/444 (51%), Gaps = 5/444 (1%)

Query: 2   SVAILDWINEEARYSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLI 61
           +VA++D + E   Y P    +  ++  + +  +   A  L + M  +G  PD  TY  +I
Sbjct: 154 AVALVDQMVEMG-YQPDTVTFTTLVHGLFQHNKASEAVALVERMVVKGCQPDLVTYGAVI 212

Query: 62  TCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIV 121
               K G  D A++ L +ME+ ++  D+V+YS +I+   K      A+++F+ + + GI 
Sbjct: 213 NGLCKRGEPDLALNLLNKMEKGKIEADVVIYSTVIDSLCKYRHVDDALNLFTEMDNKGIR 272

Query: 122 PDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSV 181
           PD+  Y+++I+       + +A  L+ +M E+ + P+ V++++L++ + +  K +EA  +
Sbjct: 273 PDVFTYSSLISCLCNYGRWSDASRLLSDMLERKINPNVVTFNSLIDAFAKEGKLIEAEKL 332

Query: 182 FAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGE 241
           F EM + +   ++ T N +I+ +   D   +A ++F  M      P VV+YNTL+  + +
Sbjct: 333 FDEMIQRSIDPNIVTYNSLINGFCMHDRLDEAQQIFTLMVSKDCLPDVVTYNTLINGFCK 392

Query: 242 AELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAIT 301
           A+   + + LFR M R+ +  N VTY T+I  + ++ + + A  + ++M + G+ PN +T
Sbjct: 393 AKKVVDGMELFRDMSRRGLVGNTVTYTTLIHGFFQASDCDNAQMVFKQMVSDGVHPNIMT 452

Query: 302 YSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELR 361
           Y+T++    K GKL++A ++F+ L+ S +E D   Y  M     + G V     L   L 
Sbjct: 453 YNTLLDGLCKNGKLEKAMVVFEYLQKSKMEPDIYTYNIMSEGMCKAGKVEDGWDLFCSLS 512

Query: 362 ----QPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYA 417
               +P+ I   T I+   + G  EEA  +F +  + G + D   +  +I    R+   A
Sbjct: 513 LKGVKPDVIAYNTMISGFCKKGLKEEAYTLFIKMKEDGPLPDSGTYNTLIRAHLRDGDKA 572

Query: 418 NVIEVFEKMRSAGYFPDSHIIALV 441
              E+ ++MRS  +  D+    LV
Sbjct: 573 ASAELIKEMRSCRFAGDASTYGLV 596

Arabidopsis thaliana (taxid: 3702)

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

 Score =  196 bits (497), Expect = 5e-49,   Method: Compositional matrix adjust.
 Identities = 119/446 (26%), Positives = 229/446 (51%), Gaps = 5/446 (1%)

Query: 2   SVAILDWINEEARYSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLI 61
           +VA++D +     Y P+   +N ++  +    +   A  L D M  +G  PD  TY  ++
Sbjct: 170 AVALVDQMFVTG-YQPNTVTFNTLIHGLFLHNKASEAMALIDRMVAKGCQPDLVTYGVVV 228

Query: 62  TCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIV 121
               K G  D A + L +MEQ ++   +++Y+ +I+   K      A+++F  +++ GI 
Sbjct: 229 NGLCKRGDTDLAFNLLNKMEQGKLEPGVLIYNTIIDGLCKYKHMDDALNLFKEMETKGIR 288

Query: 122 PDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSV 181
           P++V Y+++I+       + +A  L+ +M E+ + PD  ++S L++ +V+  K VEA  +
Sbjct: 289 PNVVTYSSLISCLCNYGRWSDASRLLSDMIERKINPDVFTFSALIDAFVKEGKLVEAEKL 348

Query: 182 FAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGE 241
           + EM + +    + T + +I+ +   D   +A ++F  M      P VV+YNTL++ + +
Sbjct: 349 YDEMVKRSIDPSIVTYSSLINGFCMHDRLDEAKQMFEFMVSKHCFPDVVTYNTLIKGFCK 408

Query: 242 AELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAIT 301
            +   E + +FR M ++ +  N VTYN +I+   ++ + + A  + +EM + G+ PN +T
Sbjct: 409 YKRVEEGMEVFREMSQRGLVGNTVTYNILIQGLFQAGDCDMAQEIFKEMVSDGVPPNIMT 468

Query: 302 YSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELR 361
           Y+T++    K GKL++A ++F+ L+ S +E     Y  MI    + G V     L   L 
Sbjct: 469 YNTLLDGLCKNGKLEKAMVVFEYLQRSKMEPTIYTYNIMIEGMCKAGKVEDGWDLFCNLS 528

Query: 362 ----QPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYA 417
               +P+ +   T I+   R G  EEA  +F++  + G + +   +  +I    R+    
Sbjct: 529 LKGVKPDVVAYNTMISGFCRKGSKEEADALFKEMKEDGTLPNSGCYNTLIRARLRDGDRE 588

Query: 418 NVIEVFEKMRSAGYFPDSHIIALVLN 443
              E+ ++MRS G+  D+  I LV N
Sbjct: 589 ASAELIKEMRSCGFAGDASTIGLVTN 614

Arabidopsis thaliana (taxid: 3702)

>sp|Q8RWS8|PP199_ARATH Pentatricopeptide repeat-containing protein At2g41720 OS=Arabidopsis thaliana GN=EMB2654 PE=2 SV=1

 Score =  193 bits (491), Expect = 2e-48,   Method: Compositional matrix adjust.
 Identities = 134/523 (25%), Positives = 239/523 (45%), Gaps = 43/523 (8%)

Query: 17  PSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISW 76
           P    Y+ ++    RA QW  A  L D+M +  IAP R TY+ LI   G  G +  A+  
Sbjct: 176 PDAETYDALINAHGRAGQWRWAMNLMDDMLRAAIAPSRSTYNNLINACGSSGNWREALEV 235

Query: 77  LQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGK 136
            ++M  + V  DLV ++ ++   +    YSKA+S F  +K + + PD   +N +I    K
Sbjct: 236 CKKMTDNGVGPDLVTHNIVLSAYKSGRQYSKALSYFELMKGAKVRPDTTTFNIIIYCLSK 295

Query: 137 AKLFKEARLLIEEMRE-------------------------------------QGVKPDT 159
                +A  L   MRE                                     +G+KP+ 
Sbjct: 296 LGQSSQALDLFNSMREKRAECRPDVVTFTSIMHLYSVKGEIENCRAVFEAMVAEGLKPNI 355

Query: 160 VSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWS 219
           VSY+ L+  Y  +     ALSV  ++ +     D+ +   +++ YG+      A  +F  
Sbjct: 356 VSYNALMGAYAVHGMSGTALSVLGDIKQNGIIPDVVSYTCLLNSYGRSRQPGKAKEVFLM 415

Query: 220 MRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLE 279
           MRK    P+VV+YN L+  YG      EA+ +FR M++  I+ NVV+  T++    +S +
Sbjct: 416 MRKERRKPNVVTYNALIDAYGSNGFLAEAVEIFRQMEQDGIKPNVVSVCTLLAACSRSKK 475

Query: 280 HEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQT 339
                 ++   Q+RGI  N   Y++ I  +  A +L++A  L+Q +R   V+ D V +  
Sbjct: 476 KVNVDTVLSAAQSRGINLNTAAYNSAIGSYINAAELEKAIALYQSMRKKKVKADSVTFTI 535

Query: 340 MIVAYERVGLVAHAKRLLHELRQPNTIP--RETAITIL---ARAGRIEEATWVFRQAFDA 394
           +I    R+     A   L E+ +  +IP  +E   ++L   ++ G++ EA  +F Q   A
Sbjct: 536 LISGSCRMSKYPEAISYLKEM-EDLSIPLTKEVYSSVLCAYSKQGQVTEAESIFNQMKMA 594

Query: 395 GEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETA 454
           G   D+  +  M+  ++ ++K+    E+F +M + G  PDS   + ++ ++ K  +    
Sbjct: 595 GCEPDVIAYTSMLHAYNASEKWGKACELFLEMEANGIEPDSIACSALMRAFNKGGQPSNV 654

Query: 455 DDLYSEMQEEGCVFSDQVHFQMLSLYGARKDFNMLESLFERLD 497
             L   M+E+   F+  V F++ S     +++     L + +D
Sbjct: 655 FVLMDLMREKEIPFTGAVFFEIFSACNTLQEWKRAIDLIQMMD 697

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	542
225452658	675	PREDICTED: pentatricopeptide repeat-cont	0.913	0.733	0.867	0.0
224141335	629	predicted protein [Populus trichocarpa]	0.972	0.837	0.866	0.0
255552808	654	pentatricopeptide repeat-containing prot	0.983	0.814	0.863	0.0
15242530	678	pentatricopeptide repeat-containing prot	0.983	0.786	0.827	0.0
297805706	680	pentatricopeptide repeat-containing prot	0.983	0.783	0.829	0.0
449459510	680	PREDICTED: pentatricopeptide repeat-cont	0.926	0.738	0.840	0.0
110740599	546	hypothetical protein [Arabidopsis thalia	0.983	0.976	0.827	0.0
356540087	667	PREDICTED: pentatricopeptide repeat-cont	0.985	0.800	0.822	0.0
356569143	658	PREDICTED: pentatricopeptide repeat-cont	0.985	0.811	0.820	0.0
357462685	684	Pentatricopeptide repeat-containing prot	0.985	0.780	0.764	0.0

>gi|225452658|ref|XP_002276556.1| PREDICTED: pentatricopeptide repeat-containing protein At5g39980, chloroplastic [Vitis vinifera] gi|296087770|emb|CBI35026.3| unnamed protein product [Vitis vinifera]

 Score =  978 bits (2528), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 463/534 (86%), Positives = 504/534 (94%)

Query: 1   RSVAILDWINEEARYSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTL 60
           RS+A+LDWINEEA YSPSVFAYNVV+RNVLRAKQWELAHGLF+EMRQR +APDRYTYSTL
Sbjct: 137 RSLALLDWINEEASYSPSVFAYNVVIRNVLRAKQWELAHGLFEEMRQRALAPDRYTYSTL 196

Query: 61  ITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGI 120
           IT FGKEGMFDSA+SWLQ+MEQDRVSGDLVLYSNLIEL+RKL DYSKAISIFSRLK SGI
Sbjct: 197 ITHFGKEGMFDSALSWLQKMEQDRVSGDLVLYSNLIELSRKLCDYSKAISIFSRLKRSGI 256

Query: 121 VPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALS 180
            PDLVAYN+MINVFGKAKLF+EARLL+ EMR  GV PDTVSYSTLL++YVEN K+VEALS
Sbjct: 257 SPDLVAYNSMINVFGKAKLFREARLLLPEMRAGGVMPDTVSYSTLLSMYVENGKYVEALS 316

Query: 181 VFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYG 240
           VF+EMNEV CPLDLTTCN+MIDVYGQLDMAK+ADRLFWSMRKMGI+P +VSYNTLLRVYG
Sbjct: 317 VFSEMNEVRCPLDLTTCNVMIDVYGQLDMAKEADRLFWSMRKMGIEPGIVSYNTLLRVYG 376

Query: 241 EAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAI 300
           EAELFGEAIHLFRLMQRK+IEQNVVTYNTMIKIYGKSLEHEKATNL+QEMQNRGIEPNAI
Sbjct: 377 EAELFGEAIHLFRLMQRKDIEQNVVTYNTMIKIYGKSLEHEKATNLVQEMQNRGIEPNAI 436

Query: 301 TYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHEL 360
           TYSTII+IW KAGKLDRAAMLFQKLRSSG+EID VLYQTMIVAYER GLVAHAKRLLHEL
Sbjct: 437 TYSTIISIWDKAGKLDRAAMLFQKLRSSGIEIDQVLYQTMIVAYERAGLVAHAKRLLHEL 496

Query: 361 RQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVI 420
           ++P+ IPRETAITILA AGRIEEATWVFRQAFDAGEVKDI+VFGCMI+LFSRN+K+ NVI
Sbjct: 497 KRPDNIPRETAITILAGAGRIEEATWVFRQAFDAGEVKDITVFGCMIDLFSRNRKHTNVI 556

Query: 421 EVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQMLSLY 480
           EVF+KMR AGYFPDS++IALVLN+ GKLREFE AD +Y EM+EEGCVFSD+VHFQMLSLY
Sbjct: 557 EVFDKMRGAGYFPDSNVIALVLNACGKLREFEKADAIYKEMEEEGCVFSDEVHFQMLSLY 616

Query: 481 GARKDFNMLESLFERLDSDSNINKKELHHVVAGIYERANRLNDASRIMNRMNKR 534
           GAR DF M++SLFERLDSD NINKKELH VVA IYERANRLNDAS+IMNRM +R
Sbjct: 617 GARGDFQMVDSLFERLDSDPNINKKELHLVVASIYERANRLNDASQIMNRMRER 670

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224141335|ref|XP_002324029.1| predicted protein [Populus trichocarpa] gi|222867031|gb|EEF04162.1| predicted protein [Populus trichocarpa]

 Score =  974 bits (2517), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 462/533 (86%), Positives = 500/533 (93%)

Query: 1   RSVAILDWINEEARYSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTL 60
           RS+A+LDWIN+ ARYSPSVFAYNVVLRNVLRAKQW+ AHGLFDEMR R +APDRYTYSTL
Sbjct: 89  RSLALLDWINDIARYSPSVFAYNVVLRNVLRAKQWDHAHGLFDEMRNRALAPDRYTYSTL 148

Query: 61  ITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGI 120
           IT FGK GMFD+++ WLQQMEQDRVSGDLVLYSNLIEL+RKL DYSKAISIF RLK SGI
Sbjct: 149 ITHFGKAGMFDASLFWLQQMEQDRVSGDLVLYSNLIELSRKLCDYSKAISIFMRLKRSGI 208

Query: 121 VPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALS 180
           +PDLVAYN+MINVFGKAKLF+EA+LL++EMRE GV PDTVSYSTLL++YVEN KFVEALS
Sbjct: 209 MPDLVAYNSMINVFGKAKLFREAKLLMKEMREVGVMPDTVSYSTLLSVYVENEKFVEALS 268

Query: 181 VFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYG 240
           VFAEMNE  CPLDLTTCN+MIDVYGQLDMAK+ADRLFWSMRKMGI+P+VVSYNTLLRVYG
Sbjct: 269 VFAEMNEAKCPLDLTTCNVMIDVYGQLDMAKEADRLFWSMRKMGIEPNVVSYNTLLRVYG 328

Query: 241 EAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAI 300
           E ELFGEAIHLFRLMQ+K+IEQNVVTYNTMIK+YGKSLEHEKATNLMQEMQNRGIEPNAI
Sbjct: 329 ETELFGEAIHLFRLMQKKDIEQNVVTYNTMIKVYGKSLEHEKATNLMQEMQNRGIEPNAI 388

Query: 301 TYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHEL 360
           TYSTII+IWGKAGKLDRAAMLFQKLRSSGVEID VLYQTMIVAYER GLVAHAKRLLHEL
Sbjct: 389 TYSTIISIWGKAGKLDRAAMLFQKLRSSGVEIDQVLYQTMIVAYERSGLVAHAKRLLHEL 448

Query: 361 RQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVI 420
           + P++IPRETAI ILARAGRIEEATWVFRQAFDAGEVKDISVFGCM++LFSRN+K ANVI
Sbjct: 449 KHPDSIPRETAIKILARAGRIEEATWVFRQAFDAGEVKDISVFGCMVDLFSRNRKPANVI 508

Query: 421 EVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQMLSLY 480
           EVFEKMR AGYFPDS++IALVLN+YGKL EFE AD LY EMQEE CVF D+VHFQMLSLY
Sbjct: 509 EVFEKMRGAGYFPDSNVIALVLNAYGKLHEFEKADALYKEMQEEECVFPDEVHFQMLSLY 568

Query: 481 GARKDFNMLESLFERLDSDSNINKKELHHVVAGIYERANRLNDASRIMNRMNK 533
           GARKDF M+E+LFERLDSD NINKKELH VVA IYER NRLNDASRIMNRM+K
Sbjct: 569 GARKDFMMIEALFERLDSDPNINKKELHLVVASIYERKNRLNDASRIMNRMSK 621

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255552808|ref|XP_002517447.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223543458|gb|EEF44989.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  967 bits (2499), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 460/533 (86%), Positives = 495/533 (92%)

Query: 1   RSVAILDWINEEARYSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTL 60
           RS+A+LDWINE ARYSPSVFAYNVVLRNVLRAK+W+LAHGLFDEMRQR ++PDRYTYSTL
Sbjct: 116 RSLALLDWINEVARYSPSVFAYNVVLRNVLRAKKWDLAHGLFDEMRQRALSPDRYTYSTL 175

Query: 61  ITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGI 120
           IT FGK GMFD ++ WLQQMEQDRVSGDLVLYSNLIEL+RKL DYSKAISIF RLK SGI
Sbjct: 176 ITSFGKAGMFDESLFWLQQMEQDRVSGDLVLYSNLIELSRKLCDYSKAISIFMRLKRSGI 235

Query: 121 VPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALS 180
            PDLVAYN+MINVFGKA+LF+EAR+L+ EMRE GV PDTVSYSTLL++YVEN KFVEALS
Sbjct: 236 TPDLVAYNSMINVFGKARLFREARMLVHEMREVGVLPDTVSYSTLLSVYVENEKFVEALS 295

Query: 181 VFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYG 240
           VFAEMNE NC LDL TCNIMIDVYGQLDM K+ADRLFWSMRKMGI+P+VVSYNTLL+VYG
Sbjct: 296 VFAEMNEANCSLDLMTCNIMIDVYGQLDMVKEADRLFWSMRKMGIEPNVVSYNTLLKVYG 355

Query: 241 EAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAI 300
           EAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNL+QEMQ RGIEPNAI
Sbjct: 356 EAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLVQEMQKRGIEPNAI 415

Query: 301 TYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHEL 360
           TYSTII+IWGKAGKLDRAAMLFQKLRSSGVEID VLYQTMIVAYER GLVAHAKRLLH+L
Sbjct: 416 TYSTIISIWGKAGKLDRAAMLFQKLRSSGVEIDQVLYQTMIVAYERAGLVAHAKRLLHDL 475

Query: 361 RQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVI 420
           + P+ IPR+TAI ILARAGRIEEATWVFRQAFDAGEVKDISVF CMIELFSRNK+ ANV+
Sbjct: 476 KCPDIIPRDTAIKILARAGRIEEATWVFRQAFDAGEVKDISVFRCMIELFSRNKRPANVV 535

Query: 421 EVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQMLSLY 480
           EVFEKMR AGYFPDS +IALVLN+YGKLREFE AD +Y EMQEE CVF D+VHFQMLSLY
Sbjct: 536 EVFEKMRGAGYFPDSDVIALVLNAYGKLREFEKADAVYREMQEEECVFPDEVHFQMLSLY 595

Query: 481 GARKDFNMLESLFERLDSDSNINKKELHHVVAGIYERANRLNDASRIMNRMNK 533
           GARKDF M+ESLFE+LDSD NINKKELH VVA IYER NRLNDASRIMNRM+K
Sbjct: 596 GARKDFIMVESLFEKLDSDPNINKKELHLVVASIYERQNRLNDASRIMNRMSK 648

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15242530|ref|NP_198814.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|75171449|sp|Q9FLD8.1|PP408_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At5g39980, chloroplastic; Flags: Precursor gi|10176990|dbj|BAB10222.1| unnamed protein product [Arabidopsis thaliana] gi|332007115|gb|AED94498.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score =  951 bits (2459), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 442/534 (82%), Positives = 502/534 (94%)

Query: 1   RSVAILDWINEEARYSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTL 60
           RS+A+LDW++EEA+Y+PSVFAYNVVLRNVLRAKQ+++AHGLFDEMRQR +APDRYTYSTL
Sbjct: 137 RSLALLDWVHEEAKYTPSVFAYNVVLRNVLRAKQFDIAHGLFDEMRQRALAPDRYTYSTL 196

Query: 61  ITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGI 120
           IT FGKEGMFDSA+SWLQ+MEQDRVSGDLVLYSNLIEL+R+L DYSKAISIFSRLK SGI
Sbjct: 197 ITSFGKEGMFDSALSWLQKMEQDRVSGDLVLYSNLIELSRRLCDYSKAISIFSRLKRSGI 256

Query: 121 VPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALS 180
            PDLVAYN+MINV+GKAKLF+EARLLI+EM E GV P+TVSYSTLL++YVENHKF+EALS
Sbjct: 257 TPDLVAYNSMINVYGKAKLFREARLLIKEMNEAGVLPNTVSYSTLLSVYVENHKFLEALS 316

Query: 181 VFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYG 240
           VFAEM EVNC LDLTTCNIMIDVYGQLDM K+ADRLFWS+RKM I+P+VVSYNT+LRVYG
Sbjct: 317 VFAEMKEVNCALDLTTCNIMIDVYGQLDMVKEADRLFWSLRKMDIEPNVVSYNTILRVYG 376

Query: 241 EAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAI 300
           EAELFGEAIHLFRLMQRK+IEQNVVTYNTMIKIYGK++EHEKATNL+QEMQ+RGIEPNAI
Sbjct: 377 EAELFGEAIHLFRLMQRKDIEQNVVTYNTMIKIYGKTMEHEKATNLVQEMQSRGIEPNAI 436

Query: 301 TYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHEL 360
           TYSTII+IWGKAGKLDRAA LFQKLRSSGVEID VLYQTMIVAYERVGL+ HAKRLLHEL
Sbjct: 437 TYSTIISIWGKAGKLDRAATLFQKLRSSGVEIDQVLYQTMIVAYERVGLMGHAKRLLHEL 496

Query: 361 RQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVI 420
           + P+ IPRETAITILA+AGR EEATWVFRQAF++GEVKDISVFGCMI L+SRN++Y NVI
Sbjct: 497 KLPDNIPRETAITILAKAGRTEEATWVFRQAFESGEVKDISVFGCMINLYSRNQRYVNVI 556

Query: 421 EVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQMLSLY 480
           EVFEKMR+AGYFPDS++IA+VLN+YGK REFE AD +Y EMQEEGCVF D+VHFQMLSLY
Sbjct: 557 EVFEKMRTAGYFPDSNVIAMVLNAYGKQREFEKADTVYREMQEEGCVFPDEVHFQMLSLY 616

Query: 481 GARKDFNMLESLFERLDSDSNINKKELHHVVAGIYERANRLNDASRIMNRMNKR 534
            ++KDF M+ESLF+RL+SD N+N KELH VVA +YERA++LNDASR+MNRM +R
Sbjct: 617 SSKKDFEMVESLFQRLESDPNVNSKELHLVVAALYERADKLNDASRVMNRMRER 670

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297805706|ref|XP_002870737.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata] gi|297316573|gb|EFH46996.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata]

 Score =  951 bits (2458), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 443/534 (82%), Positives = 500/534 (93%)

Query: 1   RSVAILDWINEEARYSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTL 60
           RS+A+LDW++EEA+Y+PSVFAYNVVLRNVLRAKQ+ +AHGLFDEMRQR +APDRYTYSTL
Sbjct: 139 RSLALLDWVHEEAKYTPSVFAYNVVLRNVLRAKQFGIAHGLFDEMRQRALAPDRYTYSTL 198

Query: 61  ITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGI 120
           IT FGKEGMFDSA+SWLQ+MEQDRVSGDLVLYSNLIEL+R+L DYSKAISIFSRLK SGI
Sbjct: 199 ITSFGKEGMFDSALSWLQKMEQDRVSGDLVLYSNLIELSRRLCDYSKAISIFSRLKRSGI 258

Query: 121 VPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALS 180
            PDLVAYN+MINV+GKAKLFKEAR+LI+EM E GV P+TVSYSTLL++YVENHKF+EALS
Sbjct: 259 TPDLVAYNSMINVYGKAKLFKEARVLIKEMNEAGVSPNTVSYSTLLSVYVENHKFLEALS 318

Query: 181 VFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYG 240
           VFAEM EVNCPLDLTTCNIMIDVYGQLDM K+ADRLFWS+RKM I+P+VVSYNT+LRVYG
Sbjct: 319 VFAEMKEVNCPLDLTTCNIMIDVYGQLDMVKEADRLFWSLRKMDIEPNVVSYNTILRVYG 378

Query: 241 EAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAI 300
           EAELFGEAIHLFRLMQRK+IEQNVVTYNTMIKIYGK++EHEKATNL+QEMQ+RGIEPNAI
Sbjct: 379 EAELFGEAIHLFRLMQRKDIEQNVVTYNTMIKIYGKTMEHEKATNLVQEMQSRGIEPNAI 438

Query: 301 TYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHEL 360
           TYSTII+IWGKAGKLDRAA LFQKLRSSGVEID VLYQTMIVAYERVGL+ HAKRLLHEL
Sbjct: 439 TYSTIISIWGKAGKLDRAATLFQKLRSSGVEIDQVLYQTMIVAYERVGLMGHAKRLLHEL 498

Query: 361 RQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVI 420
           + P+ IPRETAITILA+AG  EEATWVFRQAF++GEVKDISVFGCMI L+SRN++Y NVI
Sbjct: 499 KLPDNIPRETAITILAKAGSTEEATWVFRQAFESGEVKDISVFGCMINLYSRNQRYVNVI 558

Query: 421 EVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQMLSLY 480
           EVFEKMR+AGYFPDS+ IA+VLN+YGK REFE AD +Y EMQEEGCVF D+VHFQMLSLY
Sbjct: 559 EVFEKMRTAGYFPDSNAIAMVLNAYGKQREFEKADTVYREMQEEGCVFPDEVHFQMLSLY 618

Query: 481 GARKDFNMLESLFERLDSDSNINKKELHHVVAGIYERANRLNDASRIMNRMNKR 534
            ++KDF M+ESLFERL+SD N+N KELH VVA +YERA++LNDASR+MNRM +R
Sbjct: 619 SSKKDFEMVESLFERLESDPNVNSKELHLVVAALYERADKLNDASRVMNRMRER 672

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449459510|ref|XP_004147489.1| PREDICTED: pentatricopeptide repeat-containing protein At5g39980, chloroplastic-like [Cucumis sativus] gi|449530101|ref|XP_004172035.1| PREDICTED: pentatricopeptide repeat-containing protein At5g39980, chloroplastic-like [Cucumis sativus]

 Score =  950 bits (2455), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 448/533 (84%), Positives = 494/533 (92%)

Query: 1   RSVAILDWINEEARYSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTL 60
           RS+AILDWINEEA Y+PSV+AYNVVLRNVLRAKQWELAHGLFDEMRQR +A DRYTYSTL
Sbjct: 141 RSLAILDWINEEALYTPSVYAYNVVLRNVLRAKQWELAHGLFDEMRQRALAADRYTYSTL 200

Query: 61  ITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGI 120
           IT FGKEGMFD+A+SWLQ+MEQDRVSGDLVLYSNLIEL+RKL DYSKAISIFSRLK SGI
Sbjct: 201 ITYFGKEGMFDAALSWLQKMEQDRVSGDLVLYSNLIELSRKLCDYSKAISIFSRLKRSGI 260

Query: 121 VPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALS 180
            PD+VAYNTMINVFGKAKLF+EAR L++EMR   V PDTVSYSTLLN++VEN KF+EALS
Sbjct: 261 TPDIVAYNTMINVFGKAKLFREARFLLKEMRAVDVMPDTVSYSTLLNMFVENEKFLEALS 320

Query: 181 VFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYG 240
           V +EM EVNCPLDLTTCNIMIDVYGQLDM K+ADRLFW MRK+GI+P+VVSYNT+LRVYG
Sbjct: 321 VISEMKEVNCPLDLTTCNIMIDVYGQLDMVKEADRLFWRMRKIGIEPNVVSYNTILRVYG 380

Query: 241 EAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAI 300
           EAELFGEAIHLFRLMQRKEI+QNVVTYNTMIKIYGK+LEHEKATNL+Q+MQ RGIEPNAI
Sbjct: 381 EAELFGEAIHLFRLMQRKEIKQNVVTYNTMIKIYGKTLEHEKATNLVQDMQKRGIEPNAI 440

Query: 301 TYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHEL 360
           TYSTII+IWGKAGKLDR+AMLFQKLRSSG EID VLYQTMIVAYE+ GLV HAKRLLHEL
Sbjct: 441 TYSTIISIWGKAGKLDRSAMLFQKLRSSGAEIDQVLYQTMIVAYEKAGLVGHAKRLLHEL 500

Query: 361 RQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVI 420
           +QP+ IPR TAITILA+AGRIEEATWVFRQAFDAGE+KDISVF CMI+LFSRNKK+ NV+
Sbjct: 501 KQPDNIPRTTAITILAKAGRIEEATWVFRQAFDAGELKDISVFECMIDLFSRNKKHKNVL 560

Query: 421 EVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQMLSLY 480
           EVFEKMR+ G+FP+S +IALVLN+YGKLR+F+TAD LY EMQEEGCVF+D+VHFQMLSLY
Sbjct: 561 EVFEKMRNVGHFPNSDVIALVLNAYGKLRDFDTADALYMEMQEEGCVFTDEVHFQMLSLY 620

Query: 481 GARKDFNMLESLFERLDSDSNINKKELHHVVAGIYERANRLNDASRIMNRMNK 533
           GAR D+  LESLFERLDSD NINKKELH VVA IYER NR  DASRI+NRMNK
Sbjct: 621 GARNDYKRLESLFERLDSDPNINKKELHLVVASIYERGNRSKDASRIINRMNK 673

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|110740599|dbj|BAE98404.1| hypothetical protein [Arabidopsis thaliana]

 Score =  948 bits (2451), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 442/534 (82%), Positives = 502/534 (94%)

Query: 1   RSVAILDWINEEARYSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTL 60
           RS+A+LDW++EEA+Y+PSVFAYNVVLRNVLRAKQ+++AHGLFDEMRQR +APDRYTYSTL
Sbjct: 5   RSLALLDWVHEEAKYTPSVFAYNVVLRNVLRAKQFDIAHGLFDEMRQRALAPDRYTYSTL 64

Query: 61  ITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGI 120
           IT FGKEGMFDSA+SWLQ+MEQDRVSGDLVLYSNLIEL+R+L DYSKAISIFSRLK SGI
Sbjct: 65  ITSFGKEGMFDSALSWLQKMEQDRVSGDLVLYSNLIELSRRLCDYSKAISIFSRLKRSGI 124

Query: 121 VPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALS 180
            PDLVAYN+MINV+GKAKLF+EARLLI+EM E GV P+TVSYSTLL++YVENHKF+EALS
Sbjct: 125 TPDLVAYNSMINVYGKAKLFREARLLIKEMNEAGVLPNTVSYSTLLSVYVENHKFLEALS 184

Query: 181 VFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYG 240
           VFAEM EVNC LDLTTCNIMIDVYGQLDM K+ADRLFWS+RKM I+P+VVSYNT+LRVYG
Sbjct: 185 VFAEMKEVNCALDLTTCNIMIDVYGQLDMVKEADRLFWSLRKMDIEPNVVSYNTILRVYG 244

Query: 241 EAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAI 300
           EAELFGEAIHLFRLMQRK+IEQNVVTYNTMIKIYGK++EHEKATNL+QEMQ+RGIEPNAI
Sbjct: 245 EAELFGEAIHLFRLMQRKDIEQNVVTYNTMIKIYGKTMEHEKATNLVQEMQSRGIEPNAI 304

Query: 301 TYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHEL 360
           TYSTII+IWGKAGKLDRAA LFQKLRSSGVEID VLYQTMIVAYERVGL+ HAKRLLHEL
Sbjct: 305 TYSTIISIWGKAGKLDRAATLFQKLRSSGVEIDQVLYQTMIVAYERVGLMGHAKRLLHEL 364

Query: 361 RQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVI 420
           + P+ IPRETAITILA+AGR EEATWVFRQAF++GEVKDISVFGCMI L+SRN++Y NVI
Sbjct: 365 KLPDNIPRETAITILAKAGRTEEATWVFRQAFESGEVKDISVFGCMINLYSRNQRYVNVI 424

Query: 421 EVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQMLSLY 480
           EVFEKMR+AGYFPDS++IA+VLN+YGK REFE AD +Y EMQEEGCVF D+VHFQMLSLY
Sbjct: 425 EVFEKMRTAGYFPDSNVIAMVLNAYGKQREFEKADTVYREMQEEGCVFPDEVHFQMLSLY 484

Query: 481 GARKDFNMLESLFERLDSDSNINKKELHHVVAGIYERANRLNDASRIMNRMNKR 534
            ++KDF M+ESLF+RL+SD N+N KELH VVA +YERA++LNDASR+MNRM +R
Sbjct: 485 SSKKDFEMVESLFQRLESDPNVNSKELHLVVAALYERADKLNDASRVMNRMRER 538

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356540087|ref|XP_003538522.1| PREDICTED: pentatricopeptide repeat-containing protein At5g39980, chloroplastic-like [Glycine max]

 Score =  942 bits (2435), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 439/534 (82%), Positives = 493/534 (92%)

Query: 1   RSVAILDWINEEARYSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTL 60
           R++A+LDWIN++A Y PS+FAYNV+LRNVLRAKQW LAHGLFDEMRQ+G++PDRYTYSTL
Sbjct: 126 RALALLDWINDKALYRPSLFAYNVLLRNVLRAKQWHLAHGLFDEMRQKGLSPDRYTYSTL 185

Query: 61  ITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGI 120
           ITCFGK G+FDS++ WLQQMEQD VSGDLVLYSNLI+LARKLSDYSKAISIFSRLK+S I
Sbjct: 186 ITCFGKHGLFDSSLFWLQQMEQDNVSGDLVLYSNLIDLARKLSDYSKAISIFSRLKASTI 245

Query: 121 VPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALS 180
            PDL+AYN+MINVFGKAKLF+EARLL++EMR+  V+PDTVSYSTLL +YV+N KFVEALS
Sbjct: 246 TPDLIAYNSMINVFGKAKLFREARLLLQEMRDNAVQPDTVSYSTLLAIYVDNQKFVEALS 305

Query: 181 VFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYG 240
           +F+EMNE  CPLDLTTCNIMIDVYGQL M K+ADRLFWSMRKMGI P+V+SYNTLLRVYG
Sbjct: 306 LFSEMNEAKCPLDLTTCNIMIDVYGQLHMPKEADRLFWSMRKMGIQPNVISYNTLLRVYG 365

Query: 241 EAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAI 300
           EA+LFGEAIHLFRLMQ K+++QNVVTYNTMI IYGK+LEHEKATNL+QEM  RGIEPNAI
Sbjct: 366 EADLFGEAIHLFRLMQSKDVQQNVVTYNTMINIYGKTLEHEKATNLIQEMNKRGIEPNAI 425

Query: 301 TYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHEL 360
           TYSTII+IW KAGKLDRAA+LFQKLRSSGV ID VLYQTMIVAYER GLVAHAKRLLHEL
Sbjct: 426 TYSTIISIWEKAGKLDRAAILFQKLRSSGVRIDEVLYQTMIVAYERTGLVAHAKRLLHEL 485

Query: 361 RQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVI 420
           ++P+ IPR+TAI ILARAGRIEEATWVFRQAFDA EVKDISVFGCMI LFS+NKKYANV+
Sbjct: 486 KRPDNIPRDTAIAILARAGRIEEATWVFRQAFDAREVKDISVFGCMINLFSKNKKYANVV 545

Query: 421 EVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQMLSLY 480
           EVFEKMR  GYFPDS +IALVLN++GKLREF+ AD LY +M EEGCVF D+VHFQMLSLY
Sbjct: 546 EVFEKMREVGYFPDSDVIALVLNAFGKLREFDKADALYRQMHEEGCVFPDEVHFQMLSLY 605

Query: 481 GARKDFNMLESLFERLDSDSNINKKELHHVVAGIYERANRLNDASRIMNRMNKR 534
           GARKDF M+ESLFE+LDS+ NINKKELH VVA IYERA+RLNDASRIMNRMNK+
Sbjct: 606 GARKDFVMVESLFEKLDSNPNINKKELHLVVASIYERADRLNDASRIMNRMNKK 659

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356569143|ref|XP_003552765.1| PREDICTED: pentatricopeptide repeat-containing protein At5g39980, chloroplastic-like [Glycine max]

 Score =  935 bits (2416), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 438/534 (82%), Positives = 492/534 (92%)

Query: 1   RSVAILDWINEEARYSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTL 60
           R++A+LDWIN++A YSPS+FAYNV+LRNVLRAKQW LAHGLFDEMRQ+G++PDRYTYSTL
Sbjct: 117 RALALLDWINDKALYSPSLFAYNVLLRNVLRAKQWHLAHGLFDEMRQKGLSPDRYTYSTL 176

Query: 61  ITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGI 120
           IT FGK G+FDS++ WLQQMEQD VSGDLVLYSNLI+LARKLSDYSKAISIFSRLK+S I
Sbjct: 177 ITSFGKHGLFDSSLFWLQQMEQDNVSGDLVLYSNLIDLARKLSDYSKAISIFSRLKASTI 236

Query: 121 VPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALS 180
            PDL+AYN+MINVFGKAKLF+EARLL++EMR+  V+PDTVSYSTLL +YV+N KFVEALS
Sbjct: 237 SPDLIAYNSMINVFGKAKLFREARLLLQEMRDNAVQPDTVSYSTLLAIYVDNQKFVEALS 296

Query: 181 VFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYG 240
           +F EMNE  CPLDLTTCNIMIDVYGQL M K+ADRLFWSMRKMGI P+VVSYNTLLRVYG
Sbjct: 297 LFFEMNEAKCPLDLTTCNIMIDVYGQLHMPKEADRLFWSMRKMGIQPNVVSYNTLLRVYG 356

Query: 241 EAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAI 300
           EA+LFGEAIHLFRLMQ K+++QNVVTYNTMI IYGK+LEHEKATNL+QEM+ RGIEPNAI
Sbjct: 357 EADLFGEAIHLFRLMQSKDVQQNVVTYNTMINIYGKTLEHEKATNLIQEMKKRGIEPNAI 416

Query: 301 TYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHEL 360
           TYSTII+IW KAGKLDRAA+LFQKLRSSGV ID VLYQTMIVAYER GLVAHAKRLLHEL
Sbjct: 417 TYSTIISIWEKAGKLDRAAILFQKLRSSGVRIDEVLYQTMIVAYERAGLVAHAKRLLHEL 476

Query: 361 RQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVI 420
           ++P+ IPR+TAI ILARAGRIEEATWVFRQAFDA EVKDISVFGCMI LFS+NKKY NV+
Sbjct: 477 KRPDNIPRDTAIGILARAGRIEEATWVFRQAFDAREVKDISVFGCMINLFSKNKKYGNVV 536

Query: 421 EVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQMLSLY 480
           EVFEKMR  GYFPDS +IALVLN++GKLREF+ AD LY +M EEGCVF D+VHFQMLSLY
Sbjct: 537 EVFEKMRVVGYFPDSDVIALVLNAFGKLREFDKADALYRQMHEEGCVFPDEVHFQMLSLY 596

Query: 481 GARKDFNMLESLFERLDSDSNINKKELHHVVAGIYERANRLNDASRIMNRMNKR 534
           GARKDF M+ESLFE+LDS+ NINKKELH VVA IYERA+RLNDASRIMNRMN++
Sbjct: 597 GARKDFVMVESLFEKLDSNPNINKKELHLVVASIYERADRLNDASRIMNRMNQK 650

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357462685|ref|XP_003601624.1| Pentatricopeptide repeat-containing protein [Medicago truncatula] gi|355490672|gb|AES71875.1| Pentatricopeptide repeat-containing protein [Medicago truncatula]

 Score =  875 bits (2261), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 409/535 (76%), Positives = 479/535 (89%), Gaps = 1/535 (0%)

Query: 1   RSVAILDWINEEARYSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTL 60
           RS+AILDW+NE A+YSPS+  YNVV+RNVLRAKQW+LAHGLFDEM Q+G++PD+YTYSTL
Sbjct: 142 RSLAILDWMNEIAQYSPSLNVYNVVIRNVLRAKQWQLAHGLFDEMLQKGLSPDKYTYSTL 201

Query: 61  ITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSG- 119
           IT F K+G+FDS+  WLQQME+D VSGDLVLYSNLIEL+RKL DYSKAISIF+ LK SG 
Sbjct: 202 ITHFSKQGLFDSSFFWLQQMERDNVSGDLVLYSNLIELSRKLCDYSKAISIFNALKGSGN 261

Query: 120 IVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEAL 179
           IVPDL+A N MI+V+GKAKLF+EARLL++EMR+ GV P T SYSTLL +YV+N KFVEA+
Sbjct: 262 IVPDLIACNMMISVYGKAKLFREARLLLQEMRDNGVNPSTASYSTLLAIYVDNQKFVEAV 321

Query: 180 SVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVY 239
           S+F+EMNEV CP+DLTTCNIMIDVYGQL M K+AD  FW MRKMGI+P+VVSYNT+LRVY
Sbjct: 322 SLFSEMNEVECPIDLTTCNIMIDVYGQLQMIKEADCFFWGMRKMGIEPNVVSYNTVLRVY 381

Query: 240 GEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNA 299
           GEA LFGEA+HLF LMQ K + QNVVTYNTMI IYGKSLEH+KATNL+QEMQ+RGI+PNA
Sbjct: 382 GEAGLFGEAVHLFSLMQMKGVPQNVVTYNTMISIYGKSLEHDKATNLIQEMQSRGIQPNA 441

Query: 300 ITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHE 359
           ITYSTII+IW KAGKLDRAAMLF KLR+SGV+ID +LYQTMIVAY++ GLVAHAKRLL+E
Sbjct: 442 ITYSTIISIWEKAGKLDRAAMLFHKLRTSGVKIDEILYQTMIVAYQKAGLVAHAKRLLNE 501

Query: 360 LRQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANV 419
           L+QP+ + RETAITILARAG+++EA WVFRQAFDAGEVKDISVFGC+I++FSR +KYA+V
Sbjct: 502 LKQPDNVSRETAITILARAGKVDEAMWVFRQAFDAGEVKDISVFGCIIDIFSRERKYAHV 561

Query: 420 IEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQMLSL 479
           +EVFEKMR  G+FPDS++IALVLN++GKLR+FE AD LY +M EEGCVF D+VHFQML L
Sbjct: 562 VEVFEKMREVGHFPDSNVIALVLNAFGKLRKFERADALYKQMYEEGCVFPDEVHFQMLGL 621

Query: 480 YGARKDFNMLESLFERLDSDSNINKKELHHVVAGIYERANRLNDASRIMNRMNKR 534
           YGAR DFNM+ESLFE+LDS  NINKKELH VVA IYERA+R NDASRIMNRMN +
Sbjct: 622 YGARMDFNMVESLFEKLDSHPNINKKELHFVVANIYERADRFNDASRIMNRMNHK 676

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	542
TAIR|locus:2178037	678	AT5G39980 [Arabidopsis thalian	0.985	0.787	0.827	1.7e-242
TAIR|locus:2151281	819	AT5G02860 [Arabidopsis thalian	0.933	0.617	0.269	1.4e-52
TAIR|locus:2015494	629	RPF3 "RNA processing factor 3"	0.813	0.701	0.291	2.7e-52
TAIR|locus:2027166	862	PTAC2 "plastid transcriptional	0.979	0.616	0.226	2.2e-50
TAIR|locus:2015208	630	AT1G63130 [Arabidopsis thalian	0.797	0.685	0.284	5.2e-49
TAIR|locus:2015213	629	AT1G63150 [Arabidopsis thalian	0.813	0.701	0.270	2.9e-48
TAIR|locus:2015228	614	AT1G63080 [Arabidopsis thalian	0.809	0.714	0.270	3.8e-46
TAIR|locus:2044430	822	AT2G18940 [Arabidopsis thalian	0.979	0.645	0.230	1.1e-45
TAIR|locus:2026192	630	RPF2 "rna processing factor 2"	0.813	0.7	0.266	2.7e-45
TAIR|locus:2157607	709	AT5G42310 [Arabidopsis thalian	0.691	0.528	0.293	4.2e-44

TAIR|locus:2178037 AT5G39980 [Arabidopsis thaliana (taxid:3702)]

 Score = 2337 (827.7 bits), Expect = 1.7e-242, P = 1.7e-242
 Identities = 442/534 (82%), Positives = 502/534 (94%)

Query:     1 RSVAILDWINEEARYSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTL 60
             RS+A+LDW++EEA+Y+PSVFAYNVVLRNVLRAKQ+++AHGLFDEMRQR +APDRYTYSTL
Sbjct:   137 RSLALLDWVHEEAKYTPSVFAYNVVLRNVLRAKQFDIAHGLFDEMRQRALAPDRYTYSTL 196

Query:    61 ITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGI 120
             IT FGKEGMFDSA+SWLQ+MEQDRVSGDLVLYSNLIEL+R+L DYSKAISIFSRLK SGI
Sbjct:   197 ITSFGKEGMFDSALSWLQKMEQDRVSGDLVLYSNLIELSRRLCDYSKAISIFSRLKRSGI 256

Query:   121 VPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALS 180
              PDLVAYN+MINV+GKAKLF+EARLLI+EM E GV P+TVSYSTLL++YVENHKF+EALS
Sbjct:   257 TPDLVAYNSMINVYGKAKLFREARLLIKEMNEAGVLPNTVSYSTLLSVYVENHKFLEALS 316

Query:   181 VFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYG 240
             VFAEM EVNC LDLTTCNIMIDVYGQLDM K+ADRLFWS+RKM I+P+VVSYNT+LRVYG
Sbjct:   317 VFAEMKEVNCALDLTTCNIMIDVYGQLDMVKEADRLFWSLRKMDIEPNVVSYNTILRVYG 376

Query:   241 EAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAI 300
             EAELFGEAIHLFRLMQRK+IEQNVVTYNTMIKIYGK++EHEKATNL+QEMQ+RGIEPNAI
Sbjct:   377 EAELFGEAIHLFRLMQRKDIEQNVVTYNTMIKIYGKTMEHEKATNLVQEMQSRGIEPNAI 436

Query:   301 TYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHEL 360
             TYSTII+IWGKAGKLDRAA LFQKLRSSGVEID VLYQTMIVAYERVGL+ HAKRLLHEL
Sbjct:   437 TYSTIISIWGKAGKLDRAATLFQKLRSSGVEIDQVLYQTMIVAYERVGLMGHAKRLLHEL 496

Query:   361 RQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVI 420
             + P+ IPRETAITILA+AGR EEATWVFRQAF++GEVKDISVFGCMI L+SRN++Y NVI
Sbjct:   497 KLPDNIPRETAITILAKAGRTEEATWVFRQAFESGEVKDISVFGCMINLYSRNQRYVNVI 556

Query:   421 EVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQMLSLY 480
             EVFEKMR+AGYFPDS++IA+VLN+YGK REFE AD +Y EMQEEGCVF D+VHFQMLSLY
Sbjct:   557 EVFEKMRTAGYFPDSNVIAMVLNAYGKQREFEKADTVYREMQEEGCVFPDEVHFQMLSLY 616

Query:   481 GARKDFNMLESLFERLDSDSNINKKELHHVVAGIYERANRLNDASRIMNRMNKR 534
              ++KDF M+ESLF+RL+SD N+N KELH VVA +YERA++LNDASR+MNRM +R
Sbjct:   617 SSKKDFEMVESLFQRLESDPNVNSKELHLVVAALYERADKLNDASRVMNRMRER 670

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2151281 AT5G02860 [Arabidopsis thaliana (taxid:3702)]

 Score = 548 (198.0 bits), Expect = 1.4e-52, P = 1.4e-52
 Identities = 140/519 (26%), Positives = 255/519 (49%)

Query:    33 KQWELAHGLFDE-MRQRGIAP--DRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDL 89
             K+++LA   FD  M+Q+      D    + +I+  GKEG   SA +    +++D  S D+
Sbjct:   149 KKFDLALRAFDWFMKQKDYQSMLDNSVVAIIISMLGKEGRVSSAANMFNGLQEDGFSLDV 208

Query:    90 VLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKL-FKEARLLIE 148
               Y++LI        Y +A+++F +++  G  P L+ YN ++NVFGK    + +   L+E
Sbjct:   209 YSYTSLISAFANSGRYREAVNVFKKMEEDGCKPTLITYNVILNVFGKMGTPWNKITSLVE 268

Query:   149 EMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLD 208
             +M+  G+ PD  +Y+TL+          EA  VF EM       D  T N ++DVYG+  
Sbjct:   269 KMKSDGIAPDAYTYNTLITCCKRGSLHQEAAQVFEEMKAAGFSYDKVTYNALLDVYGKSH 328

Query:   209 MAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYN 268
               K+A ++   M   G  PS+V+YN+L+  Y    +  EA+ L   M  K  + +V TY 
Sbjct:   329 RPKEAMKVLNEMVLNGFSPSIVTYNSLISAYARDGMLDEAMELKNQMAEKGTKPDVFTYT 388

Query:   269 TMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSS 328
             T++  + ++ + E A ++ +EM+N G +PN  T++  I ++G  GK      +F ++   
Sbjct:   389 TLLSGFERAGKVESAMSIFEEMRNAGCKPNICTFNAFIKMYGNRGKFTEMMKIFDEINVC 448

Query:   329 GVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIP-RETAITILA---RAGRIEEA 384
             G+  D V + T++  + + G+ +    +  E+++   +P RET  T+++   R G  E+A
Sbjct:   449 GLSPDIVTWNTLLAVFGQNGMDSEVSGVFKEMKRAGFVPERETFNTLISAYSRCGSFEQA 508

Query:   385 TWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNS 444
               V+R+  DAG   D+S +  ++   +R   +    +V  +M      P+      +L++
Sbjct:   509 MTVYRRMLDAGVTPDLSTYNTVLAALARGGMWEQSEKVLAEMEDGRCKPNELTYCSLLHA 568

Query:   445 YGKLREFETADDLYSEMQEEGCVFSDQVHFQMLSLYGARKDF-NMLESLFERL-DSDSNI 502
             Y   +E      L  E+   G +    V  + L L  ++ D     E  F  L +   + 
Sbjct:   569 YANGKEIGLMHSLAEEVYS-GVIEPRAVLLKTLVLVCSKCDLLPEAERAFSELKERGFSP 627

Query:   503 NKKELHHVVAGIYERANRLNDASRIMNRMNKRRTFNSSL 541
             +   L+ +V+ IY R   +  A+ +++ M K R F  S+
Sbjct:   628 DITTLNSMVS-IYGRRQMVAKANGVLDYM-KERGFTPSM 664

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 542 (195.9 bits), Expect = 2.7e-52, P = 2.7e-52
 Identities = 130/446 (29%), Positives = 241/446 (54%)

Query:     2 SVAILDWINEEARYSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLI 61
             +VA++D +     Y P+   +N ++  +    +   A  L D M  RG  PD +TY T++
Sbjct:   169 AVALVDQMFV-MEYQPNTVTFNTLIHGLFLHNKASEAVALIDRMVARGCQPDLFTYGTVV 227

Query:    62 TCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIV 121
                 K G  D A+S L++ME+ ++  D+V+Y+ +I+      + + A+++F+ + + GI 
Sbjct:   228 NGLCKRGDIDLALSLLKKMEKGKIEADVVIYTTIIDALCNYKNVNDALNLFTEMDNKGIR 287

Query:   122 PDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSV 181
             P++V YN++I        + +A  L+ +M E+ + P+ V++S L++ +V+  K VEA  +
Sbjct:   288 PNVVTYNSLIRCLCNYGRWSDASRLLSDMIERKINPNVVTFSALIDAFVKEGKLVEAEKL 347

Query:   182 FAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGE 241
             + EM + +   D+ T + +I+ +   D   +A  +F  M      P+VV+YNTL++ + +
Sbjct:   348 YDEMIKRSIDPDIFTYSSLINGFCMHDRLDEAKHMFELMISKDCFPNVVTYNTLIKGFCK 407

Query:   242 AELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAIT 301
             A+   E + LFR M ++ +  N VTYNT+I+   ++ + + A  + ++M + G+ P+ IT
Sbjct:   408 AKRVEEGMELFREMSQRGLVGNTVTYNTLIQGLFQAGDCDMAQKIFKKMVSDGVPPDIIT 467

Query:   302 YSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELR 361
             YS ++    K GKL++A ++F+ L+ S +E D   Y  MI    + G V     L   L 
Sbjct:   468 YSILLDGLCKYGKLEKALVVFEYLQKSKMEPDIYTYNIMIEGMCKAGKVEDGWDLFCSLS 527

Query:   362 ----QPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYA 417
                 +PN I   T I+   R G  EEA  +FR+  + G + +   +  +I    R+   A
Sbjct:   528 LKGVKPNVIIYTTMISGFCRKGLKEEADALFREMKEDGTLPNSGTYNTLIRARLRDGDKA 587

Query:   418 NVIEVFEKMRSAGYFPDSHIIALVLN 443
                E+ ++MRS G+  D+  I++V+N
Sbjct:   588 ASAELIKEMRSCGFVGDASTISMVIN 613

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0006397 "mRNA processing" evidence=IMP

TAIR|locus:2027166 PTAC2 "plastid transcriptionally active 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 530 (191.6 bits), Expect = 2.2e-50, P = 2.2e-50
 Identities = 122/539 (22%), Positives = 266/539 (49%)

Query:     1 RSVAILDWINEEARYSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTL 60
             RS+ +  ++  +    P+   Y +++  + R    +    +FDEM  +G++   ++Y+ L
Sbjct:   123 RSLRLFKYMQRQIWCKPNEHIYTIMISLLGREGLLDKCLEVFDEMPSQGVSRSVFSYTAL 182

Query:    61 ITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIEL-ARKLSDYSKAISIFSRLKSSG 119
             I  +G+ G +++++  L +M+ +++S  ++ Y+ +I   AR   D+   + +F+ ++  G
Sbjct:   183 INAYGRNGRYETSLELLDRMKNEKISPSILTYNTVINACARGGLDWEGLLGLFAEMRHEG 242

Query:   120 IVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEAL 179
             I PD+V YNT+++      L  EA ++   M + G+ PD  +YS L+  + +  +  +  
Sbjct:   243 IQPDIVTYNTLLSACAIRGLGDEAEMVFRTMNDGGIVPDLTTYSHLVETFGKLRRLEKVC 302

Query:   180 SVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVY 239
              +  EM       D+T+ N++++ Y +    K+A  +F  M+  G  P+  +Y+ LL ++
Sbjct:   303 DLLGEMASGGSLPDITSYNVLLEAYAKSGSIKEAMGVFHQMQAAGCTPNANTYSVLLNLF 362

Query:   240 GEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNA 299
             G++  + +   LF  M+    + +  TYN +I+++G+    ++   L  +M    IEP+ 
Sbjct:   363 GQSGRYDDVRQLFLEMKSSNTDPDAATYNILIEVFGEGGYFKEVVTLFHDMVEENIEPDM 422

Query:   300 ITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHE 359
              TY  II   GK G  + A  + Q + ++ +      Y  +I A+ +  L   A    + 
Sbjct:   423 ETYEGIIFACGKGGLHEDARKILQYMTANDIVPSSKAYTGVIEAFGQAALYEEALVAFNT 482

Query:   360 LRQPNTIPR-ETAITIL---ARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKK 415
             + +  + P  ET  ++L   AR G ++E+  +  +  D+G  ++   F   IE + +  K
Sbjct:   483 MHEVGSNPSIETFHSLLYSFARGGLVKESEAILSRLVDSGIPRNRDTFNAQIEAYKQGGK 542

Query:   416 YANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ 475
             +   ++ +  M  +   PD   +  VL+ Y   R  +   + + EM+    + S   +  
Sbjct:   543 FEEAVKTYVDMEKSRCDPDERTLEAVLSVYSFARLVDECREQFEEMKASDILPSIMCYCM 602

Query:   476 MLSLYGARKDFNMLESLFERLDSD--SNINKKELHHVVAGIYERANRLNDASRIMNRMN 532
             ML++YG  + ++ +  L E + S+  SNI++  +  ++ G Y+  +       +++++N
Sbjct:   603 MLAVYGKTERWDDVNELLEEMLSNRVSNIHQV-IGQMIKGDYDDDSNWQIVEYVLDKLN 660

GO:0009507 "chloroplast" evidence=IDA

GO:0009295 "nucleoid" evidence=IDA

GO:0009508 "plastid chromosome" evidence=IDA

GO:0042793 "transcription from plastid promoter" evidence=RCA;IMP

GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=RCA;IMP

GO:0006364 "rRNA processing" evidence=RCA

GO:0006399 "tRNA metabolic process" evidence=RCA

GO:0009658 "chloroplast organization" evidence=RCA

GO:0009902 "chloroplast relocation" evidence=RCA

GO:0009965 "leaf morphogenesis" evidence=RCA

GO:0010027 "thylakoid membrane organization" evidence=RCA

GO:0010103 "stomatal complex morphogenesis" evidence=RCA

GO:0010207 "photosystem II assembly" evidence=RCA

GO:0030154 "cell differentiation" evidence=RCA

GO:0034660 "ncRNA metabolic process" evidence=RCA

GO:0035304 "regulation of protein dephosphorylation" evidence=RCA

GO:0045036 "protein targeting to chloroplast" evidence=RCA

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

 Score = 511 (184.9 bits), Expect = 5.2e-49, P = 5.2e-49
 Identities = 124/436 (28%), Positives = 226/436 (51%)

Query:    12 EARYSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFD 71
             E  Y P  F +N ++  + R  +   A  L D M  +G  PD  TY  ++    K G  D
Sbjct:   179 EMGYQPDSFTFNTLIHGLFRHNRASEAVALVDRMVVKGCQPDLVTYGIVVNGLCKRGDID 238

Query:    72 SAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMI 131
              A+S L++MEQ ++   +V+Y+ +I+      + + A+++F+ + + GI P++V YN++I
Sbjct:   239 LALSLLKKMEQGKIEPGVVIYNTIIDALCNYKNVNDALNLFTEMDNKGIRPNVVTYNSLI 298

Query:   132 NVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCP 191
                     + +A  L+ +M E+ + P+ V++S L++ +V+  K VEA  ++ EM + +  
Sbjct:   299 RCLCNYGRWSDASRLLSDMIERKINPNVVTFSALIDAFVKEGKLVEAEKLYDEMIKRSID 358

Query:   192 LDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHL 251
              D+ T + +I+ +   D   +A  +F  M      P+VV+YNTL++ + +A+   E + L
Sbjct:   359 PDIFTYSSLINGFCMHDRLDEAKHMFELMISKDCFPNVVTYNTLIKGFCKAKRVDEGMEL 418

Query:   252 FRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGK 311
             FR M ++ +  N VTY T+I  + ++ E + A  + ++M + G+ P+ +TYS ++     
Sbjct:   419 FREMSQRGLVGNTVTYTTLIHGFFQARECDNAQIVFKQMVSDGVLPDIMTYSILLDGLCN 478

Query:   312 AGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELR----QPNTIP 367
              GK++ A ++F+ L+ S +E D   Y  MI    + G V     L   L     +PN + 
Sbjct:   479 NGKVETALVVFEYLQRSKMEPDIYTYNIMIEGMCKAGKVEDGWDLFCSLSLKGVKPNVVT 538

Query:   368 RETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMR 427
               T ++   R G  EEA  +FR+  + G + D   +  +I    R+   A   E+  +MR
Sbjct:   539 YTTMMSGFCRKGLKEEADALFREMKEEGPLPDSGTYNTLIRAHLRDGDKAASAELIREMR 598

Query:   428 SAGYFPDSHIIALVLN 443
             S  +  D+  I LV N
Sbjct:   599 SCRFVGDASTIGLVTN 614

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 504 (182.5 bits), Expect = 2.9e-48, P = 2.9e-48
 Identities = 120/443 (27%), Positives = 235/443 (53%)

Query:     2 SVAILDWINEEARYSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLI 61
             +VA++D + E   Y P  F +  ++  +    +   A  L D+M QRG  PD  TY T++
Sbjct:   172 AVALVDQMVEMG-YKPDTFTFTTLIHGLFLHNKASEAVALVDQMVQRGCQPDLVTYGTVV 230

Query:    62 TCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIV 121
                 K G  D A++ L +ME  R+  ++V+++ +I+   K      A+ +F+ +++ GI 
Sbjct:   231 NGLCKRGDIDLALNLLNKMEAARIKANVVIFNTIIDSLCKYRHVEVAVDLFTEMETKGIR 290

Query:   122 PDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSV 181
             P++V YN++IN       + +A  L+  M E+ + P+ V+++ L++ + +  K VEA  +
Sbjct:   291 PNVVTYNSLINCLCNYGRWSDASRLLSNMLEKKINPNVVTFNALIDAFFKEGKLVEAEKL 350

Query:   182 FAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGE 241
               EM + +   D  T N++I+ +   +   +A ++F  M      P++ +YNTL+  + +
Sbjct:   351 HEEMIQRSIDPDTITYNLLINGFCMHNRLDEAKQMFKFMVSKDCLPNIQTYNTLINGFCK 410

Query:   242 AELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAIT 301
              +   + + LFR M ++ +  N VTY T+I+ + ++ + + A  + ++M +  +  + +T
Sbjct:   411 CKRVEDGVELFREMSQRGLVGNTVTYTTIIQGFFQAGDCDSAQMVFKQMVSNRVPTDIMT 470

Query:   302 YSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELR 361
             YS ++      GKLD A ++F+ L+ S +E++  +Y TMI    + G V  A  L   L 
Sbjct:   471 YSILLHGLCSYGKLDTALVIFKYLQKSEMELNIFIYNTMIEGMCKAGKVGEAWDLFCSLS 530

Query:   362 -QPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVI 420
              +P+ +   T I+ L     ++EA  +FR+  + G + +   +  +I    R+   A   
Sbjct:   531 IKPDVVTYNTMISGLCSKRLLQEADDLFRKMKEDGTLPNSGTYNTLIRANLRDCDRAASA 590

Query:   421 EVFEKMRSAGYFPDSHIIALVLN 443
             E+ ++MRS+G+  D+  I+LV N
Sbjct:   591 ELIKEMRSSGFVGDASTISLVTN 613

GO:0005739 "mitochondrion" evidence=ISM

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

 Score = 484 (175.4 bits), Expect = 3.8e-46, P = 3.8e-46
 Identities = 120/444 (27%), Positives = 229/444 (51%)

Query:     2 SVAILDWINEEARYSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLI 61
             +VA++D + E   Y P    +  ++  + +  +   A  L + M  +G  PD  TY  +I
Sbjct:   154 AVALVDQMVEMG-YQPDTVTFTTLVHGLFQHNKASEAVALVERMVVKGCQPDLVTYGAVI 212

Query:    62 TCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIV 121
                 K G  D A++ L +ME+ ++  D+V+YS +I+   K      A+++F+ + + GI 
Sbjct:   213 NGLCKRGEPDLALNLLNKMEKGKIEADVVIYSTVIDSLCKYRHVDDALNLFTEMDNKGIR 272

Query:   122 PDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSV 181
             PD+  Y+++I+       + +A  L+ +M E+ + P+ V++++L++ + +  K +EA  +
Sbjct:   273 PDVFTYSSLISCLCNYGRWSDASRLLSDMLERKINPNVVTFNSLIDAFAKEGKLIEAEKL 332

Query:   182 FAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGE 241
             F EM + +   ++ T N +I+ +   D   +A ++F  M      P VV+YNTL+  + +
Sbjct:   333 FDEMIQRSIDPNIVTYNSLINGFCMHDRLDEAQQIFTLMVSKDCLPDVVTYNTLINGFCK 392

Query:   242 AELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAIT 301
             A+   + + LFR M R+ +  N VTY T+I  + ++ + + A  + ++M + G+ PN +T
Sbjct:   393 AKKVVDGMELFRDMSRRGLVGNTVTYTTLIHGFFQASDCDNAQMVFKQMVSDGVHPNIMT 452

Query:   302 YSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELR 361
             Y+T++    K GKL++A ++F+ L+ S +E D   Y  M     + G V     L   L 
Sbjct:   453 YNTLLDGLCKNGKLEKAMVVFEYLQKSKMEPDIYTYNIMSEGMCKAGKVEDGWDLFCSLS 512

Query:   362 ----QPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYA 417
                 +P+ I   T I+   + G  EEA  +F +  + G + D   +  +I    R+   A
Sbjct:   513 LKGVKPDVIAYNTMISGFCKKGLKEEAYTLFIKMKEDGPLPDSGTYNTLIRAHLRDGDKA 572

Query:   418 NVIEVFEKMRSAGYFPDSHIIALV 441
                E+ ++MRS  +  D+    LV
Sbjct:   573 ASAELIKEMRSCRFAGDASTYGLV 596

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2044430 AT2G18940 [Arabidopsis thaliana (taxid:3702)]

 Score = 486 (176.1 bits), Expect = 1.1e-45, P = 1.1e-45
 Identities = 125/543 (23%), Positives = 256/543 (47%)

Query:     1 RSVAILDWINEEARYSPSVFAYNVV---LRNVLRAKQWELAHGLFDEMRQRGIAPDRYTY 57
             R+V + +W+   +        + V+   +R + R  Q+ +A  L D++  +    D   Y
Sbjct:   154 RAVFLFEWLVLSSNSGALKLDHQVIEIFVRILGRESQYSVAAKLLDKIPLQEYLLDVRAY 213

Query:    58 STLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLS-DYSKAISIFSRLK 116
             +T++  + + G ++ AI   ++M++   S  LV Y+ ++++  K+   + K + +   ++
Sbjct:   214 TTILHAYSRTGKYEKAIDLFERMKEMGPSPTLVTYNVILDVFGKMGRSWRKILGVLDEMR 273

Query:   117 SSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFV 176
             S G+  D    +T+++   +  L +EA+    E++  G +P TV+Y+ LL ++ +   + 
Sbjct:   274 SKGLKFDEFTCSTVLSACAREGLLREAKEFFAELKSCGYEPGTVTYNALLQVFGKAGVYT 333

Query:   177 EALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLL 236
             EALSV  EM E +CP D  T N ++  Y +   +K+A  +   M K G+ P+ ++Y T++
Sbjct:   334 EALSVLKEMEENSCPADSVTYNELVAAYVRAGFSKEAAGVIEMMTKKGVMPNAITYTTVI 393

Query:   237 RVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIE 296
               YG+A    EA+ LF  M+      N  TYN ++ + GK     +   ++ +M++ G  
Sbjct:   394 DAYGKAGKEDEALKLFYSMKEAGCVPNTCTYNAVLSLLGKKSRSNEMIKMLCDMKSNGCS 453

Query:   297 PNAITYSTIIAIWGKAGKLDRAA-MLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKR 355
             PN  T++T++A+ G  G +D+    +F++++S G E D   + T+I AY R G    A +
Sbjct:   454 PNRATWNTMLALCGNKG-MDKFVNRVFREMKSCGFEPDRDTFNTLISAYGRCGSEVDASK 512

Query:   356 LLHELRQPN----TIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFS 411
             +  E+ +             +  LAR G       V       G     + +  M++ ++
Sbjct:   513 MYGEMTRAGFNACVTTYNALLNALARKGDWRSGENVISDMKSKGFKPTETSYSLMLQCYA 572

Query:   412 RNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQ 471
             +   Y  +  +  +++    FP   ++  +L +  K R    ++  ++  ++ G    D 
Sbjct:   573 KGGNYLGIERIENRIKEGQIFPSWMLLRTLLLANFKCRALAGSERAFTLFKKHGYK-PDM 631

Query:   472 VHFQ-MLSLYGARKDFNMLESLFERLDSDSNINKKELHHVVAGIYERANRLNDASRIMNR 530
             V F  MLS++     ++  E + E +  D        ++ +  +Y R      A  I+  
Sbjct:   632 VIFNSMLSIFTRNNMYDQAEGILESIREDGLSPDLVTYNSLMDMYVRRGECWKAEEILKT 691

Query:   531 MNK 533
             + K
Sbjct:   692 LEK 694

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 476 (172.6 bits), Expect = 2.7e-45, P = 2.7e-45
 Identities = 119/446 (26%), Positives = 229/446 (51%)

Query:     2 SVAILDWINEEARYSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLI 61
             +VA++D +     Y P+   +N ++  +    +   A  L D M  +G  PD  TY  ++
Sbjct:   170 AVALVDQMFVTG-YQPNTVTFNTLIHGLFLHNKASEAMALIDRMVAKGCQPDLVTYGVVV 228

Query:    62 TCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIV 121
                 K G  D A + L +MEQ ++   +++Y+ +I+   K      A+++F  +++ GI 
Sbjct:   229 NGLCKRGDTDLAFNLLNKMEQGKLEPGVLIYNTIIDGLCKYKHMDDALNLFKEMETKGIR 288

Query:   122 PDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSV 181
             P++V Y+++I+       + +A  L+ +M E+ + PD  ++S L++ +V+  K VEA  +
Sbjct:   289 PNVVTYSSLISCLCNYGRWSDASRLLSDMIERKINPDVFTFSALIDAFVKEGKLVEAEKL 348

Query:   182 FAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGE 241
             + EM + +    + T + +I+ +   D   +A ++F  M      P VV+YNTL++ + +
Sbjct:   349 YDEMVKRSIDPSIVTYSSLINGFCMHDRLDEAKQMFEFMVSKHCFPDVVTYNTLIKGFCK 408

Query:   242 AELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAIT 301
              +   E + +FR M ++ +  N VTYN +I+   ++ + + A  + +EM + G+ PN +T
Sbjct:   409 YKRVEEGMEVFREMSQRGLVGNTVTYNILIQGLFQAGDCDMAQEIFKEMVSDGVPPNIMT 468

Query:   302 YSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELR 361
             Y+T++    K GKL++A ++F+ L+ S +E     Y  MI    + G V     L   L 
Sbjct:   469 YNTLLDGLCKNGKLEKAMVVFEYLQRSKMEPTIYTYNIMIEGMCKAGKVEDGWDLFCNLS 528

Query:   362 ----QPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYA 417
                 +P+ +   T I+   R G  EEA  +F++  + G + +   +  +I    R+    
Sbjct:   529 LKGVKPDVVAYNTMISGFCRKGSKEEADALFKEMKEDGTLPNSGCYNTLIRARLRDGDRE 588

Query:   418 NVIEVFEKMRSAGYFPDSHIIALVLN 443
                E+ ++MRS G+  D+  I LV N
Sbjct:   589 ASAELIKEMRSCGFAGDASTIGLVTN 614

GO:0005739 "mitochondrion" evidence=ISM;IDA

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

GO:0003723 "RNA binding" evidence=IDA

TAIR|locus:2157607 AT5G42310 [Arabidopsis thaliana (taxid:3702)]

 Score = 468 (169.8 bits), Expect = 4.2e-44, P = 4.2e-44
 Identities = 111/378 (29%), Positives = 193/378 (51%)

Query:    11 EEARYS---PSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKE 67
             EE R S   P   AYN +L+  ++    + A  +  EM +RG++PD +TYS LI  +   
Sbjct:   328 EELRQSGIKPRTRAYNALLKGYVKTGPLKDAESMVSEMEKRGVSPDEHTYSLLIDAYVNA 387

Query:    68 GMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAY 127
             G ++SA   L++ME   V  +  ++S L+   R   ++ K   +   +KS G+ PD   Y
Sbjct:   388 GRWESARIVLKEMEAGDVQPNSFVFSRLLAGFRDRGEWQKTFQVLKEMKSIGVKPDRQFY 447

Query:   128 NTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNE 187
             N +I+ FGK      A    + M  +G++PD V+++TL++ + ++ + + A  +F  M  
Sbjct:   448 NVVIDTFGKFNCLDHAMTTFDRMLSEGIEPDRVTWNTLIDCHCKHGRHIVAEEMFEAMER 507

Query:   188 VNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGE 247
               C    TT NIMI+ YG  +   D  RL   M+  GI P+VV++ TL+ VYG++  F +
Sbjct:   508 RGCLPCATTYNIMINSYGDQERWDDMKRLLGKMKSQGILPNVVTHTTLVDVYGKSGRFND 567

Query:   248 AIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIA 307
             AI     M+   ++ +   YN +I  Y +    E+A N  + M + G++P+ +  +++I 
Sbjct:   568 AIECLEEMKSVGLKPSSTMYNALINAYAQRGLSEQAVNAFRVMTSDGLKPSLLALNSLIN 627

Query:   308 IWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIP 367
              +G+  +   A  + Q ++ +GV+ D V Y T++ A  RV        +  E+      P
Sbjct:   628 AFGEDRRDAEAFAVLQYMKENGVKPDVVTYTTLMKALIRVDKFQKVPVVYEEMIMSGCKP 687

Query:   368 RETAITILARAGRIEEAT 385
                A ++L  A R  + T
Sbjct:   688 DRKARSMLRSALRYMKQT 705

GO:0005739 "mitochondrion" evidence=ISM

GO:0009507 "chloroplast" evidence=IDA

---

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)
Q9FLD8	PP408_ARATH	No assigned EC number	0.8277	0.9833	0.7861	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	542
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	3e-24
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	4e-19
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	2e-18
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	4e-17
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	6e-17
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-16
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-16
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	7e-15
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-13
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-13
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-13
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	6e-13
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-11
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-10
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	2e-09
pfam13041	50	pfam13041, PPR_2, PPR repeat family	6e-08
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	2e-07
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	3e-07
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-06
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-06
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	4e-06
pfam12854	34	pfam12854, PPR_1, PPR repeat	7e-06
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	2e-05
pfam12854	34	pfam12854, PPR_1, PPR repeat	2e-05
pfam01535	31	pfam01535, PPR, PPR repeat	3e-05
pfam01535	31	pfam01535, PPR, PPR repeat	6e-05
pfam12854	34	pfam12854, PPR_1, PPR repeat	1e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	2e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	2e-04
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	2e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	4e-04
pfam01535	31	pfam01535, PPR, PPR repeat	9e-04
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	9e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.002
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	0.002
pfam12854	34	pfam12854, PPR_1, PPR repeat	0.003
pfam12854	34	pfam12854, PPR_1, PPR repeat	0.003
pfam01535	31	pfam01535, PPR, PPR repeat	0.003
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.004
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.004
pfam01535	31	pfam01535, PPR, PPR repeat	0.004

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

 Score =  107 bits (268), Expect = 3e-24
 Identities = 72/362 (19%), Positives = 154/362 (42%), Gaps = 37/362 (10%)

Query: 17  PSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISW 76
           P++  +N+++     ++  + A  +   +++ G+  D   Y+TLI+   K G  D+    
Sbjct: 435 PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEV 494

Query: 77  LQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGK 136
             +M    V  ++  +  LI+   +    +KA   +  ++S  + PD V +N +I+  G+
Sbjct: 495 FHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQ 554

Query: 137 AKLFKEARLLIEEMREQG--VKPDTVSYSTL-------------LNLYVENHKF------ 175
           +     A  ++ EM+ +   + PD ++   L               +Y   H++      
Sbjct: 555 SGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTP 614

Query: 176 ---------------VE-ALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWS 219
                           + ALS++ +M +     D    + ++DV G       A  +   
Sbjct: 615 EVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQD 674

Query: 220 MRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLE 279
            RK GI    VSY++L+     A+ + +A+ L+  ++  ++   V T N +I    +  +
Sbjct: 675 ARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQ 734

Query: 280 HEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQT 339
             KA  ++ EM+  G+ PN ITYS ++    +    D    L  + +  G++ + V+ + 
Sbjct: 735 LPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRC 794

Query: 340 MI 341
           + 
Sbjct: 795 IT 796

Length = 1060

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

 Score = 91.1 bits (226), Expect = 4e-19
 Identities = 80/350 (22%), Positives = 154/350 (44%), Gaps = 12/350 (3%)

Query: 41  LFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELAR 100
           +F +M +R    D ++++ L+  + K G FD A+    +M    V  D+  +  ++    
Sbjct: 143 VFGKMPER----DLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCG 198

Query: 101 KLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTV 160
            + D ++   + + +   G   D+   N +I ++ K      ARL+ + M  +    D +
Sbjct: 199 GIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRR----DCI 254

Query: 161 SYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSM 220
           S++ +++ Y EN + +E L +F  M E++   DL T   +I     L   +    +   +
Sbjct: 255 SWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYV 314

Query: 221 RKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEH 280
            K G    V   N+L+++Y     +GEA  +F  M+ K+     V++  MI  Y K+   
Sbjct: 315 VKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDA----VSWTAMISGYEKNGLP 370

Query: 281 EKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTM 340
           +KA      M+   + P+ IT +++++     G LD    L +     G+    V+   +
Sbjct: 371 DKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANAL 430

Query: 341 IVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFRQ 390
           I  Y +   +  A  + H + + + I   + I  L    R  EA   FRQ
Sbjct: 431 IEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQ 480

Length = 857

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

 Score = 88.8 bits (220), Expect = 2e-18
 Identities = 91/434 (20%), Positives = 194/434 (44%), Gaps = 19/434 (4%)

Query: 1   RSVAILDWINEEARYSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTL 60
           R V  + W  E + + P  +  N VL   ++      A  LFDEM +R +     ++ T+
Sbjct: 140 RCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNL----ASWGTI 195

Query: 61  ITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGI 120
           I      G +  A +  ++M +D    +   +  ++  +  L        +   +  +G+
Sbjct: 196 IGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGV 255

Query: 121 VPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALS 180
           V D      +I+++ K    ++AR + + M E+     TV+++++L  Y  +    EAL 
Sbjct: 256 VGDTFVSCALIDMYSKCGDIEDARCVFDGMPEK----TTVAWNSMLAGYALHGYSEEALC 311

Query: 181 VFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYG 240
           ++ EM +    +D  T +IMI ++ +L + + A +    + + G    +V+   L+ +Y 
Sbjct: 312 LYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYS 371

Query: 241 EAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAI 300
           +     +A ++F  M RK    N++++N +I  YG      KA  + + M   G+ PN +
Sbjct: 372 KWGRMEDARNVFDRMPRK----NLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHV 427

Query: 301 TYSTIIAIWGKAGKLDRAAMLFQKL-RSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHE 359
           T+  +++    +G  ++   +FQ +  +  ++   + Y  MI    R GL+  A  +   
Sbjct: 428 TFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAM--- 484

Query: 360 LRQPNTIPRETAITILARAGRIEEATWVFRQAFD---AGEVKDISVFGCMIELFSRNKKY 416
           +R+    P       L  A RI +   + R A +       + ++ +  ++ L++ + + 
Sbjct: 485 IRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLYNSSGRQ 544

Query: 417 ANVIEVFEKMRSAG 430
           A   +V E ++  G
Sbjct: 545 AEAAKVVETLKRKG 558

Length = 697

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

 Score = 84.5 bits (209), Expect = 4e-17
 Identities = 78/355 (21%), Positives = 143/355 (40%), Gaps = 31/355 (8%)

Query: 92  YSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMR 151
           Y  L+E    L       +++  ++SSG  PD    N ++ +  K  +  +AR L +EM 
Sbjct: 126 YDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMP 185

Query: 152 EQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAK 211
           E+ +     S+ T++   V+   + EA ++F EM E     +  T  +M+     L  A+
Sbjct: 186 ERNL----ASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSAR 241

Query: 212 DADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMI 271
              +L   + K G+         L+ +Y +     +A  +F  M  K      V +N+M+
Sbjct: 242 AGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEK----TTVAWNSML 297

Query: 272 KIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVE 331
             Y      E+A  L  EM++ G+  +  T+S +I I+ +   L+ A      L  +G  
Sbjct: 298 AGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFP 357

Query: 332 IDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFRQA 391
           +D V    ++  Y + G +  A+ +   + + N I     I      GR  +A  +F + 
Sbjct: 358 LDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERM 417

Query: 392 FDAGEVKDISVF-----GC-----------MIELFSRNKK-------YANVIEVF 423
              G   +   F      C           + +  S N +       YA +IE+ 
Sbjct: 418 IAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELL 472

Length = 697

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

 Score = 84.2 bits (208), Expect = 6e-17
 Identities = 43/186 (23%), Positives = 85/186 (45%), Gaps = 2/186 (1%)

Query: 16  SPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAIS 75
           +P V  Y + + +  +   W+ A  ++D+M+++G+ PD   +S L+   G  G  D A  
Sbjct: 613 TPEV--YTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFE 670

Query: 76  WLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFG 135
            LQ   +  +    V YS+L+       ++ KA+ ++  +KS  + P +   N +I    
Sbjct: 671 ILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALC 730

Query: 136 KAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLT 195
           +     +A  ++ EM+  G+ P+T++YS LL            L + ++  E     +L 
Sbjct: 731 EGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLV 790

Query: 196 TCNIMI 201
            C  + 
Sbjct: 791 MCRCIT 796

Length = 1060

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

 Score = 83.0 bits (205), Expect = 1e-16
 Identities = 94/445 (21%), Positives = 171/445 (38%), Gaps = 41/445 (9%)

Query: 23  NVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLIT-CFGK----EGMF-----DS 72
           N  LR +    Q E A  L + M++  +  D   Y  L   C  K    EG        S
Sbjct: 55  NSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALS 114

Query: 73  AISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMIN 132
           +   L           + L + ++ +  +  +   A  +F ++       DL ++N ++ 
Sbjct: 115 SHPSL----------GVRLGNAMLSMFVRFGELVHAWYVFGKMPER----DLFSWNVLVG 160

Query: 133 VFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPL 192
            + KA  F EA  L   M   GV+PD  ++  +L              V A +      L
Sbjct: 161 GYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFEL 220

Query: 193 DLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLF 252
           D+   N +I +Y +      A  +F  M +       +S+N ++  Y E     E + LF
Sbjct: 221 DVDVVNALITMYVKCGDVVSARLVFDRMPRRDC----ISWNAMISGYFENGECLEGLELF 276

Query: 253 RLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKA 312
             M+   ++ +++T  ++I       +      +   +   G   +    +++I ++   
Sbjct: 277 FTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSL 336

Query: 313 GKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRE--- 369
           G    A  +F ++ +     D V +  MI  YE+ GL   A      + Q N  P E   
Sbjct: 337 GSWGEAEKVFSRMETK----DAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITI 392

Query: 370 -TAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRS 428
            + ++  A  G ++    +   A   G +  + V   +IE++S+ K     +EVF  +  
Sbjct: 393 ASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPE 452

Query: 429 AGYFPDSHIIA-LVLNSYGKLREFE 452
                 + IIA L LN+    R FE
Sbjct: 453 KDVISWTSIIAGLRLNN----RCFE 473

Length = 857

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

 Score = 82.6 bits (204), Expect = 2e-16
 Identities = 82/443 (18%), Positives = 190/443 (42%), Gaps = 48/443 (10%)

Query: 66  KEGMFDSAISWLQQMEQ-DRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDL 124
           ++G     I  L+ ME+   +  D + ++   +  +K     +A   F++L      P L
Sbjct: 382 RDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFR-FAKLIR---NPTL 437

Query: 125 VAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAE 184
             +N +++V   ++    A  ++  ++E G+K D   Y+TL             +S  A+
Sbjct: 438 STFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTL-------------ISTCAK 484

Query: 185 MNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAEL 244
             +V         + M +V+ ++  A             G++ +V ++  L+     A  
Sbjct: 485 SGKV---------DAMFEVFHEMVNA-------------GVEANVHTFGALIDGCARAGQ 522

Query: 245 FGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEM--QNRGIEPNAITY 302
             +A   + +M+ K ++ + V +N +I   G+S   ++A +++ EM  +   I+P+ IT 
Sbjct: 523 VAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITV 582

Query: 303 STIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQ 362
             ++     AG++DRA  ++Q +    ++  P +Y   + +  + G    A  +  ++++
Sbjct: 583 GALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKK 642

Query: 363 PNTIPRETAITIL----ARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYAN 418
               P E   + L      AG +++A  + + A   G       +  ++   S  K +  
Sbjct: 643 KGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKK 702

Query: 419 VIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQMLS 478
            +E++E ++S    P    +  ++ +  +  +   A ++ SEM+  G +  + + + +L 
Sbjct: 703 ALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLG-LCPNTITYSILL 761

Query: 479 LYGARK-DFNMLESLFERLDSDS 500
           +   RK D ++   L  +   D 
Sbjct: 762 VASERKDDADVGLDLLSQAKEDG 784

Length = 1060

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

 Score = 77.6 bits (191), Expect = 7e-15
 Identities = 97/468 (20%), Positives = 187/468 (39%), Gaps = 53/468 (11%)

Query: 15  YSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAI 74
           ++  V   N +++  L    W  A  +F  M  +    D  +++ +I+ + K G+ D A+
Sbjct: 319 FAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETK----DAVSWTAMISGYEKNGLPDKAL 374

Query: 75  SWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVF 134
                MEQD VS D +  ++++     L D    + +    +  G++  +V  N +I ++
Sbjct: 375 ETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMY 434

Query: 135 GKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEM------NEV 188
            K K   +A  +   + E+    D +S+++++     N++  EAL  F +M      N V
Sbjct: 435 SKCKCIDKALEVFHNIPEK----DVISWTSIIAGLRLNNRCFEALIFFRQMLLTLKPNSV 490

Query: 189 NCPLDLTTCNIMIDVYGQLDMAKD--ADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFG 246
                L+ C  +    G L   K+  A  L   +   G  P     N LL +Y       
Sbjct: 491 TLIAALSACARI----GALMCGKEIHAHVLRTGIGFDGFLP-----NALLDLYVRCGRMN 541

Query: 247 EAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTII 306
            A + F        E++VV++N ++  Y    +   A  L   M   G+ P+ +T+ +++
Sbjct: 542 YAWNQFNSH-----EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLL 596

Query: 307 AIWGKAGKLDRAAMLFQKLRSSGVEIDPVL--YQTMIVAYERVGLVAHAKRLLHELRQPN 364
               ++G + +    F  +      I P L  Y  ++    R G +  A    +      
Sbjct: 597 CACSRSGMVTQGLEYFHSMEEK-YSITPNLKHYACVVDLLGRAGKLTEA----YNFINKM 651

Query: 365 TIPRETAI-TILARAGRIEE--------ATWVFRQAFDAGEVKDISVFGCMIELFSRNKK 415
            I  + A+   L  A RI          A  +F       +   +  +  +  L++   K
Sbjct: 652 PITPDPAVWGALLNACRIHRHVELGELAAQHIFEL-----DPNSVGYYILLCNLYADAGK 706

Query: 416 YANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQE 463
           +  V  V + MR  G   D     + +   GK+  F T D+ + +++E
Sbjct: 707 WDEVARVRKTMRENGLTVDPGCSWVEVK--GKVHAFLTDDESHPQIKE 752

Length = 857

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

 Score = 65.1 bits (160), Expect = 1e-13
 Identities = 19/46 (41%), Positives = 32/46 (69%)

Query: 122 PDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLN 167
           PD+V YNT+I+ + K    +EA  L  EM+++G+KP+  +YS L++
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILID 46

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

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

 Score = 64.3 bits (158), Expect = 2e-13
 Identities = 23/44 (52%), Positives = 30/44 (68%)

Query: 263 NVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTII 306
           +VVTYNT+I  Y K  + E+A  L  EM+ RGI+PN  TYS +I
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILI 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|205222 pfam13041, PPR_2, PPR repeat family

 Score = 64.0 bits (157), Expect = 3e-13
 Identities = 21/50 (42%), Positives = 29/50 (58%)

Query: 17 PSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGK 66
          P V  YN ++    +  + E A  LF+EM++RGI P+ YTYS LI    K
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 = 71.4 bits (175), Expect = 6e-13
 Identities = 59/246 (23%), Positives = 114/246 (46%), Gaps = 7/246 (2%)

Query: 31  RAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLV 90
            A Q + A  ++  + +  I      Y+  +    ++G +D A+S    M++  V  D V
Sbjct: 591 NAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEV 650

Query: 91  LYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEM 150
            +S L+++A    D  KA  I    +  GI    V+Y++++     AK +K+A  L E++
Sbjct: 651 FFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDI 710

Query: 151 REQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVN-CPLDLTTCNIMIDVYGQLDM 209
           +   ++P   + + L+    E ++  +AL V +EM  +  CP +  T +I++    + D 
Sbjct: 711 KSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCP-NTITYSILLVASERKDD 769

Query: 210 AKDADRLFWSMRKMGIDPSVVSYNTL----LRVYGEAELFGEAIHLFRLMQRKEIEQNVV 265
           A     L    ++ GI P++V    +    LR + +A   GE +  F    R +IE    
Sbjct: 770 ADVGLDLLSQAKEDGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDS-GRPQIENKWT 828

Query: 266 TYNTMI 271
           ++  M+
Sbjct: 829 SWALMV 834

Length = 1060

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

 Score = 59.3 bits (145), Expect = 1e-11
 Identities = 19/46 (41%), Positives = 29/46 (63%)

Query: 227 PSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIK 272
           P VV+YNTL+  Y +     EA+ LF  M+++ I+ NV TY+ +I 
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILID 46

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 = 55.1 bits (134), Expect = 3e-10
 Identities = 18/48 (37%), Positives = 29/48 (60%)

Query: 157 PDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVY 204
           PD V+Y+TL++ Y +  K  EAL +F EM +     ++ T +I+ID  
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|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score = 60.2 bits (146), Expect = 2e-09
 Identities = 69/308 (22%), Positives = 127/308 (41%), Gaps = 22/308 (7%)

Query: 165 LLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMG 224
           +L+++V   + V A  VF +M E     DL + N+++  Y +     +A  L+  M   G
Sbjct: 127 MLSMFVRFGELVHAWYVFGKMPE----RDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAG 182

Query: 225 IDPSVVSYNTLLRVYGEAE--LFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEK 282
           + P V ++  +LR  G       G  +H   +    E++ +VV  N +I +Y K  +   
Sbjct: 183 VRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVV--NALITMYVKCGDVVS 240

Query: 283 ATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIV 342
           A  +   M  R      I+++ +I+ + + G+      LF  +R   V+ D +   ++I 
Sbjct: 241 ARLVFDRMPRRDC----ISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVIS 296

Query: 343 AYERVGLVAHAKRLLHELRQPNTIPRETA-----ITILARAGRIEEATWVFRQAFDAGEV 397
           A E +G     + + H          + +     I +    G   EA  VF +     E 
Sbjct: 297 ACELLGDERLGREM-HGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRM----ET 351

Query: 398 KDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDL 457
           KD   +  MI  + +N      +E +  M      PD   IA VL++   L + +    L
Sbjct: 352 KDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKL 411

Query: 458 YSEMQEEG 465
           +   + +G
Sbjct: 412 HELAERKG 419

Length = 857

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

 Score = 48.9 bits (118), Expect = 6e-08
 Identities = 17/47 (36%), Positives = 28/47 (59%)

Query: 193 DLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVY 239
           D+ T N +ID Y +    ++A +LF  M+K GI P+V +Y+ L+   
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 46.7 bits (112), Expect = 2e-07
 Identities = 16/35 (45%), Positives = 24/35 (68%)

Query: 125 VAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDT 159
           V YNT+I+   KA   +EA  L +EM+E+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|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score = 53.0 bits (127), Expect = 3e-07
 Identities = 63/308 (20%), Positives = 129/308 (41%), Gaps = 29/308 (9%)

Query: 36  ELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNL 95
           E A  +FD M ++        +++++  +   G  + A+    +M    VS D   +S +
Sbjct: 276 EDARCVFDGMPEKTTV----AWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIM 331

Query: 96  IELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGV 155
           I +  +L+    A    + L  +G   D+VA   +++++ K    ++AR + + M  + +
Sbjct: 332 IRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNL 391

Query: 156 KPDTVSYSTLLNLYVENHKFVEALSVFAEM-------NEVNCPLDLTTCNIMIDVYGQLD 208
               +S++ L+  Y  + +  +A+ +F  M       N V     L+ C       G  +
Sbjct: 392 ----ISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYS----GLSE 443

Query: 209 MAKDADRLFWSM-RKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTY 267
                  +F SM     I P  + Y  ++ + G   L  EA  + R    K         
Sbjct: 444 QGW---EIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAPFKPTVNMWAAL 500

Query: 268 NTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAI-TYSTIIAIWGKAGKLDRAAMLFQKLR 326
            T  +I+ K+LE  +   L  E +  G+ P  +  Y  ++ ++  +G+   AA + + L+
Sbjct: 501 LTACRIH-KNLELGR---LAAE-KLYGMGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLK 555

Query: 327 SSGVEIDP 334
             G+ + P
Sbjct: 556 RKGLSMHP 563

Length = 697

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

 Score = 44.3 bits (106), Expect = 2e-06
 Identities = 14/45 (31%), Positives = 28/45 (62%)

Query: 297 PNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMI 341
           P+ +TY+T+I  + K GK++ A  LF +++  G++ +   Y  +I
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILI 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|205222 pfam13041, PPR_2, PPR repeat family

 Score = 44.3 bits (106), Expect = 3e-06
 Identities = 18/85 (21%), Positives = 29/85 (34%), Gaps = 35/85 (41%)

Query: 52  PDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISI 111
           PD  TY+TLI  + K+G  + A+    +M                               
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEM------------------------------- 29

Query: 112 FSRLKSSGIVPDLVAYNTMINVFGK 136
               K  GI P++  Y+ +I+   K
Sbjct: 30  ----KKRGIKPNVYTYSILIDGLCK 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 = 49.5 bits (118), Expect = 4e-06
 Identities = 30/128 (23%), Positives = 60/128 (46%), Gaps = 7/128 (5%)

Query: 9   INEEAR---YSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLIT--C 63
           I ++AR         +Y+ ++     AK W+ A  L+++++   + P   T + LIT  C
Sbjct: 671 ILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALC 730

Query: 64  FGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPD 123
            G +     A+  L +M++  +  + + YS L+  + +  D    + + S+ K  GI P+
Sbjct: 731 EGNQ--LPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPN 788

Query: 124 LVAYNTMI 131
           LV    + 
Sbjct: 789 LVMCRCIT 796

Length = 1060

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

 Score = 42.3 bits (101), Expect = 7e-06
 Identities = 14/34 (41%), Positives = 20/34 (58%)

Query: 48 RGIAPDRYTYSTLITCFGKEGMFDSAISWLQQME 81
          +G+ PD  TY+TLI    + G  D A+  L +ME
Sbjct: 1  KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

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

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

 Score = 41.3 bits (98), Expect = 2e-05
 Identities = 17/35 (48%), Positives = 23/35 (65%)

Query: 265 VTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNA 299
           VTYNT+I    K+   E+A  L +EM+ RGIEP+ 
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 = 41.2 bits (98), Expect = 2e-05
 Identities = 14/34 (41%), Positives = 21/34 (61%)

Query: 118 SGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMR 151
            G+ PD+V YNT+I+   +A    EA  L++EM 
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

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

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

 Score = 40.9 bits (97), Expect = 3e-05
 Identities = 14/31 (45%), Positives = 22/31 (70%)

Query: 125 VAYNTMINVFGKAKLFKEARLLIEEMREQGV 155
           V YN++I+ + KA   +EA  L +EM+E+GV
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 = 39.7 bits (94), Expect = 6e-05
 Identities = 13/31 (41%), Positives = 22/31 (70%)

Query: 265 VTYNTMIKIYGKSLEHEKATNLMQEMQNRGI 295
           VTYN++I  Y K+ + E+A  L +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|205109 pfam12854, PPR_1, PPR repeat

 Score = 39.3 bits (93), Expect = 1e-04
 Identities = 11/34 (32%), Positives = 23/34 (67%)

Query: 293 RGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLR 326
           +G++P+ +TY+T+I    +AG++D A  L  ++ 
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

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

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

 Score = 38.6 bits (91), Expect = 2e-04
 Identities = 10/34 (29%), Positives = 18/34 (52%)

Query: 55 YTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGD 88
           TY+TLI    K G  + A+   ++M++  +  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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 38.6 bits (91), Expect = 2e-04
 Identities = 14/34 (41%), Positives = 21/34 (61%)

Query: 20 FAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPD 53
            YN ++  + +A + E A  LF EM++RGI PD
Sbjct: 1  VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34

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

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

 Score = 38.7 bits (91), Expect = 2e-04
 Identities = 12/34 (35%), Positives = 18/34 (52%)

Query: 124 LVAYNTMINVFGKAKLFKEARLLIEEMREQGVKP 157
           L  YN ++    KA     A  ++EEM+  G+KP
Sbjct: 1   LETYNALLLALAKAGDPDLALAVLEEMKASGLKP 34

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

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

 Score = 37.4 bits (88), Expect = 4e-04
 Identities = 14/35 (40%), Positives = 22/35 (62%)

Query: 230 VSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNV 264
           V+YNTL+    +A    EA+ LF+ M+ + IE +V
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 36.7 bits (86), Expect = 9e-04
 Identities = 9/31 (29%), Positives = 19/31 (61%)

Query: 55 YTYSTLITCFGKEGMFDSAISWLQQMEQDRV 85
           TY++LI+ + K G  + A+   ++M++  V
Sbjct: 1  VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 36.4 bits (85), Expect = 9e-04
 Identities = 9/34 (26%), Positives = 21/34 (61%)

Query: 264 VVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEP 297
           + TYN ++    K+ + + A  +++EM+  G++P
Sbjct: 1   LETYNALLLALAKAGDPDLALAVLEEMKASGLKP 34

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

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

 Score = 35.5 bits (83), Expect = 0.002
 Identities = 13/34 (38%), Positives = 24/34 (70%)

Query: 300 ITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEID 333
           +TY+T+I    KAG+++ A  LF++++  G+E 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|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 35.6 bits (83), Expect = 0.002
 Identities = 10/34 (29%), Positives = 19/34 (55%)

Query: 19 VFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAP 52
          +  YN +L  + +A   +LA  + +EM+  G+ P
Sbjct: 1  LETYNALLLALAKAGDPDLALAVLEEMKASGLKP 34

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

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

 Score = 35.0 bits (82), Expect = 0.003
 Identities = 12/33 (36%), Positives = 21/33 (63%)

Query: 153 QGVKPDTVSYSTLLNLYVENHKFVEALSVFAEM 185
           +G+KPD V+Y+TL++      +  EA+ +  EM
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEM 33

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

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

 Score = 35.0 bits (82), Expect = 0.003
 Identities = 13/34 (38%), Positives = 18/34 (52%)

Query: 223 MGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQ 256
            G+ P VV+YNTL+     A    EA+ L   M+
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

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

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

 Score = 35.1 bits (82), Expect = 0.003
 Identities = 12/31 (38%), Positives = 20/31 (64%)

Query: 230 VSYNTLLRVYGEAELFGEAIHLFRLMQRKEI 260
           V+YN+L+  Y +A    EA+ LF+ M+ K +
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 34.7 bits (81), Expect = 0.004
 Identities = 12/34 (35%), Positives = 19/34 (55%)

Query: 160 VSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLD 193
           V+Y+TL++   +  +  EAL +F EM E     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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 34.7 bits (81), Expect = 0.004
 Identities = 7/34 (20%), Positives = 17/34 (50%)

Query: 402 VFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDS 435
            +  +I+   +  +    +E+F++M+  G  PD 
Sbjct: 2   TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 34.7 bits (81), Expect = 0.004
 Identities = 9/30 (30%), Positives = 16/30 (53%)

Query: 196 TCNIMIDVYGQLDMAKDADRLFWSMRKMGI 225
           T N +I  Y +    ++A  LF  M++ G+
Sbjct: 2   TYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	542
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
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
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	100.0
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.97
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.96
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.95
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.94
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.94
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.93
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.92
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.92
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.92
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.92
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.9
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.9
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.9
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.9
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.9
PRK14574	822	hmsH outer membrane protein; Provisional	99.89
PRK14574	822	hmsH outer membrane protein; Provisional	99.88
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.87
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.85
KOG2003	840	consensus TPR repeat-containing protein [General f	99.84
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.83
KOG2076	895	consensus RNA polymerase III transcription factor	99.83
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.83
KOG2076	895	consensus RNA polymerase III transcription factor	99.82
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.82
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.81
KOG2003	840	consensus TPR repeat-containing protein [General f	99.78
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.74
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.72
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.72
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.71
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.71
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.7
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.69
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.68
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.68
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.68
KOG1126	638	consensus DNA-binding cell division cycle control	99.68
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.68
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.67
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.67
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.67
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.65
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.65
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.65
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.64
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.62
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.62
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.62
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.6
KOG1126	638	consensus DNA-binding cell division cycle control	99.6
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.58
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.57
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.53
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.52
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.47
KOG1129	478	consensus TPR repeat-containing protein [General f	99.47
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.46
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.46
PRK12370	553	invasion protein regulator; Provisional	99.45
KOG1129	478	consensus TPR repeat-containing protein [General f	99.45
PRK12370	553	invasion protein regulator; Provisional	99.44
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.43
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.4
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.4
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.38
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.37
PRK11189	296	lipoprotein NlpI; Provisional	99.36
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.35
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.33
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.32
PF13041	50	PPR_2: PPR repeat family	99.31
KOG3616	1636	consensus Selective LIM binding factor [Transcript	99.31
KOG4340	459	consensus Uncharacterized conserved protein [Funct	99.3
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.27
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	99.27
PF13041	50	PPR_2: PPR repeat family	99.26
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	99.26
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	99.26
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	99.25
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	99.24
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	99.23
KOG3616	1636	consensus Selective LIM binding factor [Transcript	99.22
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.19
PRK11189	296	lipoprotein NlpI; Provisional	99.18
KOG4340	459	consensus Uncharacterized conserved protein [Funct	99.18
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	99.17
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	99.17
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	99.15
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	99.13
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.11
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.1
KOG1125	579	consensus TPR repeat-containing protein [General f	99.07
PRK04841	903	transcriptional regulator MalT; Provisional	99.05
PRK04841	903	transcriptional regulator MalT; Provisional	99.04
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	99.02
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.97
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.93
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.89
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.89
KOG1125	579	consensus TPR repeat-containing protein [General f	98.88
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.87
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.86
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.85
PLN02789	320	farnesyltranstransferase	98.83
PRK15359	144	type III secretion system chaperone protein SscB;	98.82
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.82
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.81
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.79
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.78
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.78
PLN02789	320	farnesyltranstransferase	98.78
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.75
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.74
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.74
PRK15359	144	type III secretion system chaperone protein SscB;	98.73
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.69
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.67
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.63
PF12854	34	PPR_1: PPR repeat	98.62
PF12854	34	PPR_1: PPR repeat	98.62
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.58
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.57
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.54
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.54
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.52
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.52
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.5
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.5
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.49
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.47
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.45
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.41
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.26
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.24
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.19
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.19
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.18
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.15
KOG0553	304	consensus TPR repeat-containing protein [General f	98.11
KOG0553	304	consensus TPR repeat-containing protein [General f	98.1
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.08
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.07
COG4700	251	Uncharacterized protein conserved in bacteria cont	98.06
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.06
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	98.04
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.04
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.03
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.01
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	98.0
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.99
PF13812	34	PPR_3: Pentatricopeptide repeat domain	97.99
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.99
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.98
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.97
PRK10803	263	tol-pal system protein YbgF; Provisional	97.95
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.94
COG3898	531	Uncharacterized membrane-bound protein [Function u	97.93
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.92
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.9
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.89
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.87
PF12688	120	TPR_5: Tetratrico peptide repeat	97.87
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.86
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.86
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.84
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.82
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.82
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.8
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.77
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.77
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.76
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.75
PF12688	120	TPR_5: Tetratrico peptide repeat	97.74
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.73
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.72
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.72
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.72
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.72
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.72
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	97.71
PRK10803	263	tol-pal system protein YbgF; Provisional	97.71
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.7
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.67
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.66
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.65
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.65
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.65
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.63
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.56
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	97.54
PRK15331	165	chaperone protein SicA; Provisional	97.53
PRK15331	165	chaperone protein SicA; Provisional	97.53
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.48
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.47
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.46
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.44
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	97.44
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.41
PF13371	73	TPR_9: Tetratricopeptide repeat	97.35
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.32
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.31
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	97.27
PF13512	142	TPR_18: Tetratricopeptide repeat	97.25
COG3118	304	Thioredoxin domain-containing protein [Posttransla	97.25
PRK11906	458	transcriptional regulator; Provisional	97.25
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	97.23
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.22
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	97.19
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.13
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	97.12
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.1
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	97.07
KOG2610	491	consensus Uncharacterized conserved protein [Funct	97.06
PF13371	73	TPR_9: Tetratricopeptide repeat	97.05
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	97.02
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.01
KOG1258	577	consensus mRNA processing protein [RNA processing	97.0
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.0
COG3898	531	Uncharacterized membrane-bound protein [Function u	96.95
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.94
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.93
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	96.89
PF13512	142	TPR_18: Tetratricopeptide repeat	96.87
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.86
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.84
KOG4555	175	consensus TPR repeat-containing protein [Function	96.78
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	96.76
PRK11906	458	transcriptional regulator; Provisional	96.76
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.76
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.73
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.69
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.69
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	96.67
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	96.67
COG4105	254	ComL DNA uptake lipoprotein [General function pred	96.53
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.52
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.51
smart00299	140	CLH Clathrin heavy chain repeat homology.	96.39
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.38
KOG2396	568	consensus HAT (Half-A-TPR) repeat-containing prote	96.37
KOG4555	175	consensus TPR repeat-containing protein [Function	96.37
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.28
KOG1258	577	consensus mRNA processing protein [RNA processing	96.26
COG4105	254	ComL DNA uptake lipoprotein [General function pred	96.23
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.2
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	96.18
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	96.17
KOG2610	491	consensus Uncharacterized conserved protein [Funct	96.09
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	95.99
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	95.94
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	95.87
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	95.67
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	95.62
KOG1585	308	consensus Protein required for fusion of vesicles	95.6
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	95.59
PF13431	34	TPR_17: Tetratricopeptide repeat	95.44
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.43
PF13428	44	TPR_14: Tetratricopeptide repeat	95.38
PF13428	44	TPR_14: Tetratricopeptide repeat	95.23
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	95.17
KOG3941	406	consensus Intermediate in Toll signal transduction	95.14
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	95.02
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.02
KOG4234	271	consensus TPR repeat-containing protein [General f	95.01
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	94.99
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	94.99
KOG1585	308	consensus Protein required for fusion of vesicles	94.88
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	94.62
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	94.59
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	94.52
KOG1550	552	consensus Extracellular protein SEL-1 and related	94.46
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	94.33
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	94.31
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	94.29
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	94.28
COG3629	280	DnrI DNA-binding transcriptional activator of the	94.28
KOG1586	288	consensus Protein required for fusion of vesicles	94.26
KOG4234	271	consensus TPR repeat-containing protein [General f	94.21
PF13929	292	mRNA_stabil: mRNA stabilisation	94.12
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	94.09
KOG3941	406	consensus Intermediate in Toll signal transduction	94.03
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	93.93
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	93.86
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	93.7
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	93.69
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	93.58
COG3629	280	DnrI DNA-binding transcriptional activator of the	93.38
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	93.32
PRK11619	644	lytic murein transglycosylase; Provisional	93.29
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	93.15
KOG2471	696	consensus TPR repeat-containing protein [General f	93.1
PF09986	214	DUF2225: Uncharacterized protein conserved in bact	93.01
PF13431	34	TPR_17: Tetratricopeptide repeat	93.0
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	92.9
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	92.81
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	92.7
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	92.67
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	92.64
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	92.03
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	91.79
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	91.75
KOG4648	536	consensus Uncharacterized conserved protein, conta	91.65
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	91.46
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	91.14
COG0457	291	NrfG FOG: TPR repeat [General function prediction	90.92
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	90.85
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	90.81
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	90.72
KOG2062	929	consensus 26S proteasome regulatory complex, subun	90.71
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	90.61
KOG4570	418	consensus Uncharacterized conserved protein [Funct	90.53
KOG4642	284	consensus Chaperone-dependent E3 ubiquitin protein	90.47
KOG2396	568	consensus HAT (Half-A-TPR) repeat-containing prote	90.09
PRK09687	280	putative lyase; Provisional	90.09
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	90.04
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	90.0
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	89.87
KOG4570	418	consensus Uncharacterized conserved protein [Funct	89.72
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	89.7
COG0790	292	FOG: TPR repeat, SEL1 subfamily [General function	89.16
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	88.92
KOG1586	288	consensus Protein required for fusion of vesicles	88.89
KOG3364	149	consensus Membrane protein involved in organellar	88.85
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	88.77
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	88.75
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	88.69
KOG4648	536	consensus Uncharacterized conserved protein, conta	88.53
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	88.4
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	88.27
PF09986	214	DUF2225: Uncharacterized protein conserved in bact	88.25
KOG2471	696	consensus TPR repeat-containing protein [General f	88.1
KOG1550	552	consensus Extracellular protein SEL-1 and related	87.99
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	87.98
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	87.9
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	87.79
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	86.94
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	86.87
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	85.91
PF08424	321	NRDE-2: NRDE-2, necessary for RNA interference; In	85.59
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	85.44
PRK11619	644	lytic murein transglycosylase; Provisional	85.03
PF09670	379	Cas_Cas02710: CRISPR-associated protein (Cas_Cas02	85.02
COG3947	361	Response regulator containing CheY-like receiver a	84.13
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	83.48
PF14561	90	TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S	83.24
PF13929	292	mRNA_stabil: mRNA stabilisation	82.99
KOG0545	329	consensus Aryl-hydrocarbon receptor-interacting pr	82.64
KOG2062	929	consensus 26S proteasome regulatory complex, subun	82.58
COG4455	273	ImpE Protein of avirulence locus involved in tempe	82.42
PF12862	94	Apc5: Anaphase-promoting complex subunit 5	82.24
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	81.79
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	80.98
KOG4642	284	consensus Chaperone-dependent E3 ubiquitin protein	80.4
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	80.39
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	80.06
PRK12798	421	chemotaxis protein; Reviewed	80.05
COG4455	273	ImpE Protein of avirulence locus involved in tempe	80.02

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=1.5e-70  Score=551.07  Aligned_cols=519  Identities=16%  Similarity=0.263  Sum_probs=488.3

Q ss_pred             CCCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCCC-CCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHH
Q 038401           15 YSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGI-APDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYS   93 (542)
Q Consensus        15 ~~~~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~   93 (542)
                      -.++...|..++..+++.|++++|.++|+.|.+.|+ .++..+++.++..|.+.|.+++|..+++.|..    |+..+|+
T Consensus       366 ~~~~~~~~~~~y~~l~r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~----pd~~Tyn  441 (1060)
T PLN03218        366 GKRKSPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRN----PTLSTFN  441 (1060)
T ss_pred             CCCCchHHHHHHHHHHHCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcCC----CCHHHHH
Confidence            456788899999999999999999999999999986 46777888999999999999999999999964    8999999


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCC
Q 038401           94 NLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENH  173 (542)
Q Consensus        94 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g  173 (542)
                      .++.+|++.|+++.|.++|+.|.+.|+.||..+|+.||.+|++.|+++.|.++|++|.+.|+.||..+|+.+|.+|++.|
T Consensus       442 ~LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G  521 (1060)
T PLN03218        442 MLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAG  521 (1060)
T ss_pred             HHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHH--CCCCCChhHHHHHHHHHHhcCcHHHHHHH
Q 038401          174 KFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRK--MGIDPSVVSYNTLLRVYGEAELFGEAIHL  251 (542)
Q Consensus       174 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~ll~~~~~~~~~~~a~~~  251 (542)
                      ++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|..  .|+.||..+|+.++.+|++.|++++|.++
T Consensus       522 ~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~el  601 (1060)
T PLN03218        522 QVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEV  601 (1060)
T ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHH
Confidence            9999999999999999999999999999999999999999999999986  67899999999999999999999999999


Q ss_pred             HHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 038401          252 FRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVE  331 (542)
Q Consensus       252 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  331 (542)
                      |+.|.+.++.|+..+|+.++.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|++++|.++++.|.+.|+.
T Consensus       602 f~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~  681 (1060)
T PLN03218        602 YQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIK  681 (1060)
T ss_pred             HHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHhc----CCCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHH
Q 038401          332 IDPVLYQTMIVAYERVGLVAHAKRLLHELR----QPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMI  407 (542)
Q Consensus       332 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~  407 (542)
                      |+..+|+.++.+|++.|++++|.++|++|.    .++...|+.++.+|++.|++++|.++|++|.+.|..||..+|+.++
T Consensus       682 pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL  761 (1060)
T PLN03218        682 LGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILL  761 (1060)
T ss_pred             CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            999999999999999999999999999995    4778889999999999999999999999999999999999999999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhc----c-------------------CcHHHHHHHHHHHHHc
Q 038401          408 ELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGK----L-------------------REFETADDLYSEMQEE  464 (542)
Q Consensus       408 ~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~-------------------g~~~~A~~~~~~~~~~  464 (542)
                      .+|++.|++++|.+++++|.+.|+.||..+|+.++..|.+    .                   +..++|..+|++|.+.
T Consensus       762 ~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        762 VASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALMVYRETISA  841 (1060)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccchHHHHHHHHHHHHHC
Confidence            9999999999999999999999999999999999876432    1                   2347899999999999


Q ss_pred             CCCCchHHHHH-HHHHHhccCChHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhhcchhhHHHHHHHHHhcCCCCCC
Q 038401          465 GCVFSDQVHFQ-MLSLYGARKDFNMLESLFERLDSDSNINKKELHHVVAGIYERANRLNDASRIMNRMNKRRTFNSS  540 (542)
Q Consensus       465 ~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~  540 (542)
                      | ..|+..++. ++.++...+..+.+..+++.+...+.......|..+++.++.  ..++|..++++|...|+.|+-
T Consensus       842 G-i~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~~~~~~y~~Li~g~~~--~~~~A~~l~~em~~~Gi~p~~  915 (1060)
T PLN03218        842 G-TLPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGFGE--YDPRAFSLLEEAASLGVVPSV  915 (1060)
T ss_pred             C-CCCCHHHHHHHHHHhcccccHHHHHHHHHHhccCCCCcchhhhHHHHHhhcc--ChHHHHHHHHHHHHcCCCCCc
Confidence            8 668888888 778888999999999999998877777677889999998732  236899999999999999974

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=5.1e-70  Score=558.81  Aligned_cols=505  Identities=17%  Similarity=0.255  Sum_probs=369.0

Q ss_pred             CCCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHH
Q 038401           15 YSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSN   94 (542)
Q Consensus        15 ~~~~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~   94 (542)
                      +.||+.+|+.++..|++.|++++|..+|+.|.+    ||..+|+.+|.+|++.|++++|+++|++|.+.|+.||..+|+.
T Consensus       218 ~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~----~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~  293 (857)
T PLN03077        218 FELDVDVVNALITMYVKCGDVVSARLVFDRMPR----RDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITS  293 (857)
T ss_pred             CCcccchHhHHHHHHhcCCCHHHHHHHHhcCCC----CCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHH
Confidence            334444445555555555666666666655543    3555666666666666666666666666666666666666666


Q ss_pred             HHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCC
Q 038401           95 LIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHK  174 (542)
Q Consensus        95 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~  174 (542)
                      ++.+|.+.|+.+.+.+++..+.+.|+.||..+|+.|+.+|++.|++++|.++|++|..    ||..+|++++.+|++.|+
T Consensus       294 ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~----~d~~s~n~li~~~~~~g~  369 (857)
T PLN03077        294 VISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMET----KDAVSWTAMISGYEKNGL  369 (857)
T ss_pred             HHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCC----CCeeeHHHHHHHHHhCCC
Confidence            6666666666666666666666666666666666666666666666666666666642    456666666666666666


Q ss_pred             hHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHH
Q 038401          175 FVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRL  254 (542)
Q Consensus       175 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~  254 (542)
                      +++|+++|++|.+.|+.||..+|+.++.+|++.|+.+.+.++++.+.+.|+.|+..+++.|+.+|++.|++++|.++|+.
T Consensus       370 ~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~  449 (857)
T PLN03077        370 PDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHN  449 (857)
T ss_pred             HHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHh
Confidence            66666666666666666666666666666666666666666666666666666666666666666666666666666666


Q ss_pred             HHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCH
Q 038401          255 MQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDP  334 (542)
Q Consensus       255 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  334 (542)
                      |.+    +|..+|+.++.+|++.|+.++|..+|++|.. ++.||..||+.++.+|++.|+.+.+.+++..+.+.|+.++.
T Consensus       450 m~~----~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~  524 (857)
T PLN03077        450 IPE----KDVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDG  524 (857)
T ss_pred             CCC----CCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccc
Confidence            653    4556666666666666777777777777764 46778888888888888888888888888888887888888


Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcC
Q 038401          335 VLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNK  414 (542)
Q Consensus       335 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  414 (542)
                      .++++++.+|+++|++++|.++|+.+ .++..+|+.++.+|.+.|+.++|+++|++|.+.|..||..+|+.++.+|.+.|
T Consensus       525 ~~~naLi~~y~k~G~~~~A~~~f~~~-~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g  603 (857)
T PLN03077        525 FLPNALLDLYVRCGRMNYAWNQFNSH-EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSG  603 (857)
T ss_pred             eechHHHHHHHHcCCHHHHHHHHHhc-CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcC
Confidence            88888888888888888888888888 77888888888888888888888888888888888888888888888888888


Q ss_pred             CHHHHHHHHHHHH-hCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHH
Q 038401          415 KYANVIEVFEKMR-SAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESL  492 (542)
Q Consensus       415 ~~~~A~~~~~~~~-~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~  492 (542)
                      ++++|.++|+.|. +.|+.|+..+|+.++.+|.+.|++++|.+++++|.    ..|+...|. ++.+|...|+.+.+...
T Consensus       604 ~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~~eA~~~~~~m~----~~pd~~~~~aLl~ac~~~~~~e~~e~~  679 (857)
T PLN03077        604 MVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMP----ITPDPAVWGALLNACRIHRHVELGELA  679 (857)
T ss_pred             hHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCHHHHHHHHHHCC----CCCCHHHHHHHHHHHHHcCChHHHHHH
Confidence            8888888888888 56888888888888888888888888888888873    346666666 78888888888888877


Q ss_pred             HHHH-hcCCCCCchhHHHHHHHHHHhhcchhhHHHHHHHHHhcCCCCC
Q 038401          493 FERL-DSDSNINKKELHHVVAGIYERANRLNDASRIMNRMNKRRTFNS  539 (542)
Q Consensus       493 ~~~~-~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~  539 (542)
                      .+++ ..+|+  +...|..++++|...|+|++|.++.+.|.++|+.++
T Consensus       680 a~~l~~l~p~--~~~~y~ll~n~ya~~g~~~~a~~vr~~M~~~g~~k~  725 (857)
T PLN03077        680 AQHIFELDPN--SVGYYILLCNLYADAGKWDEVARVRKTMRENGLTVD  725 (857)
T ss_pred             HHHHHhhCCC--CcchHHHHHHHHHHCCChHHHHHHHHHHHHcCCCCC
Confidence            7774 34444  557899999999999999999999999999999874

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=1.3e-69  Score=555.95  Aligned_cols=516  Identities=21%  Similarity=0.282  Sum_probs=443.1

Q ss_pred             hhhhhHHHHhhCCCCCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHH
Q 038401            2 SVAILDWINEEARYSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQME   81 (542)
Q Consensus         2 A~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~   81 (542)
                      |.++++.+. ..+..+++..+|.++..|++.|+++.|.++|+.|.+    ||..+|+.+|.+|++.|++++|+++|++|.
T Consensus       105 a~~~~~~~~-~~~~~~~~~~~n~li~~~~~~g~~~~A~~~f~~m~~----~d~~~~n~li~~~~~~g~~~~A~~~f~~M~  179 (857)
T PLN03077        105 GSRVCSRAL-SSHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPE----RDLFSWNVLVGGYAKAGYFDEALCLYHRML  179 (857)
T ss_pred             HHHHHHHHH-HcCCCCCchHHHHHHHHHHhCCChHHHHHHHhcCCC----CCeeEHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence            344555555 345667777788888889999999999999998864    688899999999999999999999999999


Q ss_pred             hCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHH
Q 038401           82 QDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVS  161 (542)
Q Consensus        82 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~  161 (542)
                      ..|+.||..+|+.++.+|...+++..+.+++..+.+.|+.|+..+++.|+.+|++.|+++.|.++|++|..    ||..+
T Consensus       180 ~~g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~----~d~~s  255 (857)
T PLN03077        180 WAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPR----RDCIS  255 (857)
T ss_pred             HcCCCCChhHHHHHHHHhCCccchhhHHHHHHHHHHcCCCcccchHhHHHHHHhcCCCHHHHHHHHhcCCC----CCcch
Confidence            99999999999999999999999999999999999999999999999999999999999999999999974    68899


Q ss_pred             HHHHHHHHHHCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHh
Q 038401          162 YSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGE  241 (542)
Q Consensus       162 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~  241 (542)
                      |++++.+|++.|++++|+++|.+|...|+.||..||+.++.+|++.|+.+.+.+++..+.+.|+.||..+|+.++.+|++
T Consensus       256 ~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k  335 (857)
T PLN03077        256 WNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLS  335 (857)
T ss_pred             hHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 038401          242 AELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAML  321 (542)
Q Consensus       242 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~  321 (542)
                      .|++++|.++|+.|.    .||..+|+.++.+|++.|++++|.++|++|.+.|+.||..||+.++.+|++.|+++.|.++
T Consensus       336 ~g~~~~A~~vf~~m~----~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l  411 (857)
T PLN03077        336 LGSWGEAEKVFSRME----TKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKL  411 (857)
T ss_pred             cCCHHHHHHHHhhCC----CCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHH
Confidence            999999999999986    4688999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHH
Q 038401          322 FQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDIS  401 (542)
Q Consensus       322 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  401 (542)
                      ++.+.+.|+.|+..+++.|+.+|++.|++++|.++|++|.+++..+|+.++.+|.+.|+.++|+.+|++|... ..||..
T Consensus       412 ~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~~-~~pd~~  490 (857)
T PLN03077        412 HELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLLT-LKPNSV  490 (857)
T ss_pred             HHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHCCCHHHHHHHHHHHHhC-CCCCHh
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999763 677777


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCC------------------------------CCCHHHHHHHHHHHhccCcH
Q 038401          402 VFGCMIELFSRNKKYANVIEVFEKMRSAGY------------------------------FPDSHIIALVLNSYGKLREF  451 (542)
Q Consensus       402 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~------------------------------~p~~~~~~~l~~~~~~~g~~  451 (542)
                      +|+.++.+|++.|+.+.+.+++..+.+.|+                              .||..+|+.++.+|.+.|+.
T Consensus       491 t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~~~d~~s~n~lI~~~~~~G~~  570 (857)
T PLN03077        491 TLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHEKDVVSWNILLTGYVAHGKG  570 (857)
T ss_pred             HHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhcCCChhhHHHHHHHHHHcCCH
Confidence            666555544444444444433333333322                              35666777777777777777


Q ss_pred             HHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHHHHHhc-CCCCCchhHHHHHHHHHHhhcchhhHHHHHH
Q 038401          452 ETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLFERLDS-DSNINKKELHHVVAGIYERANRLNDASRIMN  529 (542)
Q Consensus       452 ~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  529 (542)
                      ++|.++|++|.+.+ ..|+..++. ++.+|.+.|++++|.++|+.|.. .+..++...|..++++|++.|++++|.++++
T Consensus       571 ~~A~~lf~~M~~~g-~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~~eA~~~~~  649 (857)
T PLN03077        571 SMAVELFNRMVESG-VNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFIN  649 (857)
T ss_pred             HHHHHHHHHHHHcC-CCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCHHHHHHHHH
Confidence            77777777777766 456666666 77777777777777777777763 3333334677777777777777777777777


Q ss_pred             HHH
Q 038401          530 RMN  532 (542)
Q Consensus       530 ~~~  532 (542)
                      +|+
T Consensus       650 ~m~  652 (857)
T PLN03077        650 KMP  652 (857)
T ss_pred             HCC
Confidence            774

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=2.2e-67  Score=528.27  Aligned_cols=493  Identities=17%  Similarity=0.272  Sum_probs=461.4

Q ss_pred             ChhhhhHHHHhhCCCCCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHH
Q 038401            1 RSVAILDWINEEARYSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQM   80 (542)
Q Consensus         1 ~A~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~   80 (542)
                      +|+++|++|.+..-++++...++.++..|.+.|.+++|..+|+.|..    |+..+|+.++.+|++.|+++.|.++|+.|
T Consensus       388 eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~----pd~~Tyn~LL~a~~k~g~~e~A~~lf~~M  463 (1060)
T PLN03218        388 DCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRN----PTLSTFNMLMSVCASSQDIDGALRVLRLV  463 (1060)
T ss_pred             HHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcCC----CCHHHHHHHHHHHHhCcCHHHHHHHHHHH
Confidence            37899999986654678888999999999999999999999999875    89999999999999999999999999999


Q ss_pred             HhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHH
Q 038401           81 EQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTV  160 (542)
Q Consensus        81 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~  160 (542)
                      .+.|+.||..+|+.++.+|++.|+++.|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..
T Consensus       464 ~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~v  543 (1060)
T PLN03218        464 QEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRV  543 (1060)
T ss_pred             HHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHCCChHHHHHHHHHHHh--cCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHH
Q 038401          161 SYSTLLNLYVENHKFVEALSVFAEMNE--VNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRV  238 (542)
Q Consensus       161 ~~~~l~~~~~~~g~~~~a~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~  238 (542)
                      +|+.++.+|++.|++++|.++|++|..  .++.||..+|+.++.+|++.|++++|.++|+.|.+.|+.|+..+|+.++.+
T Consensus       544 TYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~a  623 (1060)
T PLN03218        544 VFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNS  623 (1060)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHH
Confidence            999999999999999999999999976  578999999999999999999999999999999999999999999999999


Q ss_pred             HHhcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHH
Q 038401          239 YGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRA  318 (542)
Q Consensus       239 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a  318 (542)
                      |++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|++++|.+++++|.+.|+.||..+|+.++.+|++.|++++|
T Consensus       624 y~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA  703 (1060)
T PLN03218        624 CSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKA  703 (1060)
T ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcC----CCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHc
Q 038401          319 AMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQ----PNTIPRETAITILARAGRIEEATWVFRQAFDA  394 (542)
Q Consensus       319 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  394 (542)
                      .++|++|.+.|+.||..+|+.++.+|++.|++++|.++|++|..    |+..++..++.+|.+.|+++.|.+++.+|.+.
T Consensus       704 ~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~a~~k~G~le~A~~l~~~M~k~  783 (1060)
T PLN03218        704 LELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKED  783 (1060)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc
Confidence            99999999999999999999999999999999999999999874    67777899999999999999999999999999


Q ss_pred             CCCcCHHHHHHHHHHHHh-----------------------cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcH
Q 038401          395 GEVKDISVFGCMIELFSR-----------------------NKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREF  451 (542)
Q Consensus       395 ~~~~~~~~~~~l~~~~~~-----------------------~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~  451 (542)
                      |..||..+|+.++..|.+                       .+..++|..+|++|++.|+.||..||+.++.++...+..
T Consensus       784 Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w~~~Al~lf~eM~~~Gi~Pd~~T~~~vL~cl~~~~~~  863 (1060)
T PLN03218        784 GIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALMVYRETISAGTLPTMEVLSQVLGCLQLPHDA  863 (1060)
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccchHHHHHHHHHHHHHCCCCCCHHHHHHHHHHhcccccH
Confidence            999999999999876432                       123467999999999999999999999999888899999


Q ss_pred             HHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHHHHHhcCC
Q 038401          452 ETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLFERLDSDS  500 (542)
Q Consensus       452 ~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~~~~~~  500 (542)
                      +.+..+++.+...+ ..|+..+|. ++..+.+.  .++|..+++.+...+
T Consensus       864 ~~~~~m~~~m~~~~-~~~~~~~y~~Li~g~~~~--~~~A~~l~~em~~~G  910 (1060)
T PLN03218        864 TLRNRLIENLGISA-DSQKQSNLSTLVDGFGEY--DPRAFSLLEEAASLG  910 (1060)
T ss_pred             HHHHHHHHHhccCC-CCcchhhhHHHHHhhccC--hHHHHHHHHHHHHcC
Confidence            99999988887655 456667777 88877432  468999999986543

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

Probab=100.00  E-value=8.1e-65  Score=508.24  Aligned_cols=474  Identities=19%  Similarity=0.267  Sum_probs=449.5

Q ss_pred             CCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCC-CCCCHHhHHHHHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHH
Q 038401           52 PDRYTYSTLITCFGKEGMFDSAISWLQQMEQDR-VSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTM  130 (542)
Q Consensus        52 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  130 (542)
                      ++..+|+.+|.++.+.|++++|+++|+.|...+ +.||..+|+.++.+|.+.++++.+.+++..|.+.|+.||..+|+.+
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            355689999999999999999999999998764 7899999999999999999999999999999999999999999999


Q ss_pred             HHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCH
Q 038401          131 INVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMA  210 (542)
Q Consensus       131 ~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  210 (542)
                      +.+|++.|+++.|.++|++|.+    ||..+|++++.+|++.|++++|.++|++|.+.|+.|+..+|+.++.+|+..|..
T Consensus       165 i~~y~k~g~~~~A~~lf~~m~~----~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~  240 (697)
T PLN03081        165 LLMHVKCGMLIDARRLFDEMPE----RNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSA  240 (697)
T ss_pred             HHHHhcCCCHHHHHHHHhcCCC----CCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcH
Confidence            9999999999999999999974    799999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHH
Q 038401          211 KDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEM  290 (542)
Q Consensus       211 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  290 (542)
                      +.+.+++..+.+.|+.||..+++.|+.+|++.|++++|.++|+.|.    .+|..+|+.++.+|++.|+.++|.++|++|
T Consensus       241 ~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~----~~~~vt~n~li~~y~~~g~~~eA~~lf~~M  316 (697)
T PLN03081        241 RAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMP----EKTTVAWNSMLAGYALHGYSEEALCLYYEM  316 (697)
T ss_pred             HHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCC----CCChhHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999996    468999999999999999999999999999


Q ss_pred             HHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHH
Q 038401          291 QNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRET  370 (542)
Q Consensus       291 ~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  370 (542)
                      .+.|+.||..||+.++.+|++.|+++.|.+++..|.+.|+.||..++++++.+|++.|++++|.++|++|.+++..+|+.
T Consensus       317 ~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~~d~~t~n~  396 (697)
T PLN03081        317 RDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNA  396 (697)
T ss_pred             HHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCCCCeeeHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh-CCCCCCHHHHHHHHHHHhccC
Q 038401          371 AITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRS-AGYFPDSHIIALVLNSYGKLR  449 (542)
Q Consensus       371 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~p~~~~~~~l~~~~~~~g  449 (542)
                      ++.+|++.|+.++|.++|++|.+.|..||..+|+.++.+|.+.|.+++|.++|+.|.+ .|+.|+..+|+.++.+|++.|
T Consensus       397 lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G  476 (697)
T PLN03081        397 LIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREG  476 (697)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcC
Confidence            9999999999999999999999999999999999999999999999999999999986 599999999999999999999


Q ss_pred             cHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhhcchhhHHHHH
Q 038401          450 EFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLFERLDSDSNINKKELHHVVAGIYERANRLNDASRIM  528 (542)
Q Consensus       450 ~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  528 (542)
                      ++++|.++++++.    ..|+...|. ++.+|...|+++.|..+++++... .+.+...|..++++|.+.|+|++|.+++
T Consensus       477 ~~~eA~~~~~~~~----~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~-~p~~~~~y~~L~~~y~~~G~~~~A~~v~  551 (697)
T PLN03081        477 LLDEAYAMIRRAP----FKPTVNMWAALLTACRIHKNLELGRLAAEKLYGM-GPEKLNNYVVLLNLYNSSGRQAEAAKVV  551 (697)
T ss_pred             CHHHHHHHHHHCC----CCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhCC-CCCCCcchHHHHHHHHhCCCHHHHHHHH
Confidence            9999999988763    456777777 999999999999999999996432 2224568999999999999999999999


Q ss_pred             HHHHhcCCCC
Q 038401          529 NRMNKRRTFN  538 (542)
Q Consensus       529 ~~~~~~~~~~  538 (542)
                      ++|+++|+.+
T Consensus       552 ~~m~~~g~~k  561 (697)
T PLN03081        552 ETLKRKGLSM  561 (697)
T ss_pred             HHHHHcCCcc
Confidence            9999999865

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

Probab=100.00  E-value=1.8e-62  Score=491.28  Aligned_cols=507  Identities=15%  Similarity=0.218  Sum_probs=456.1

Q ss_pred             CCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCC-CCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHH
Q 038401           16 SPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRG-IAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSN   94 (542)
Q Consensus        16 ~~~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~   94 (542)
                      .++..+|+.++..+.+.|++++|.++|+.|...+ ..|+..+|+.++.+|.+.++++.+.+++..|.+.|+.||..+|+.
T Consensus        84 ~~~~~~~~~~i~~l~~~g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~  163 (697)
T PLN03081         84 RKSGVSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNR  163 (697)
T ss_pred             CCCceeHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHH
Confidence            4455689999999999999999999999998864 789999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCC
Q 038401           95 LIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHK  174 (542)
Q Consensus        95 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~  174 (542)
                      ++..|.+.|+++.|.++|++|.    .||..+|+.++.+|++.|++++|.++|++|.+.|+.|+..+|+.++.++++.|.
T Consensus       164 Li~~y~k~g~~~~A~~lf~~m~----~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~  239 (697)
T PLN03081        164 VLLMHVKCGMLIDARRLFDEMP----ERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGS  239 (697)
T ss_pred             HHHHHhcCCCHHHHHHHHhcCC----CCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCc
Confidence            9999999999999999999997    589999999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHH
Q 038401          175 FVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRL  254 (542)
Q Consensus       175 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~  254 (542)
                      .+.+.+++..+.+.|+.+|..+++.++.+|++.|++++|.++|+.|.    .+|..+|+.++.+|++.|++++|.++|++
T Consensus       240 ~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~----~~~~vt~n~li~~y~~~g~~~eA~~lf~~  315 (697)
T PLN03081        240 ARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMP----EKTTVAWNSMLAGYALHGYSEEALCLYYE  315 (697)
T ss_pred             HHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCC----CCChhHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999996    57899999999999999999999999999


Q ss_pred             HHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCH
Q 038401          255 MQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDP  334 (542)
Q Consensus       255 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  334 (542)
                      |.+.|+.||..+|+.++.+|++.|++++|.+++..|.+.|+.||..+|+.++.+|++.|++++|.++|++|.+    ||.
T Consensus       316 M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~----~d~  391 (697)
T PLN03081        316 MRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR----KNL  391 (697)
T ss_pred             HHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC----CCe
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999864    688


Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHhcC----CCCCCHHHHHHHHHHhCCHHHHHHHHHHHHH-cCCCcCHHHHHHHHHH
Q 038401          335 VLYQTMIVAYERVGLVAHAKRLLHELRQ----PNTIPRETAITILARAGRIEEATWVFRQAFD-AGEVKDISVFGCMIEL  409 (542)
Q Consensus       335 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~~~~~l~~~  409 (542)
                      .+|+.++.+|++.|+.++|.++|++|..    |+..++..++.+|.+.|..++|.++|+.|.+ .|..|+..+|+.++++
T Consensus       392 ~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~  471 (697)
T PLN03081        392 ISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIEL  471 (697)
T ss_pred             eeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHH
Confidence            9999999999999999999999999874    6777788999999999999999999999986 5889999999999999


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHH
Q 038401          410 FSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNM  488 (542)
Q Consensus       410 ~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~  488 (542)
                      |++.|++++|.+++++|   ++.|+..+|+.++.+|...|+++.|..+++++.+.+  |.+...|. ++.+|.+.|++++
T Consensus       472 l~r~G~~~eA~~~~~~~---~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~~--p~~~~~y~~L~~~y~~~G~~~~  546 (697)
T PLN03081        472 LGREGLLDEAYAMIRRA---PFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMG--PEKLNNYVVLLNLYNSSGRQAE  546 (697)
T ss_pred             HHhcCCHHHHHHHHHHC---CCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhCCC--CCCCcchHHHHHHHHhCCCHHH
Confidence            99999999999998876   578999999999999999999999999999998765  33445666 8999999999999


Q ss_pred             HHHHHHHHhcCCCCC-chhHHHHH---------HHH-H-HhhcchhhHHHHHHHHHhcCCCCC
Q 038401          489 LESLFERLDSDSNIN-KKELHHVV---------AGI-Y-ERANRLNDASRIMNRMNKRRTFNS  539 (542)
Q Consensus       489 A~~~~~~~~~~~~~~-~~~~~~~l---------~~~-~-~~~g~~~~A~~~~~~~~~~~~~~~  539 (542)
                      |.++++.|...+-.. |...|..+         ++. + ....-++...++..+|.+.|-.|+
T Consensus       547 A~~v~~~m~~~g~~k~~g~s~i~~~~~~~~f~~~d~~h~~~~~i~~~l~~l~~~~~~~gy~~~  609 (697)
T PLN03081        547 AAKVVETLKRKGLSMHPACTWIEVKKQDHSFFSGDRLHPQSREIYQKLDELMKEISEYGYVAE  609 (697)
T ss_pred             HHHHHHHHHHcCCccCCCeeEEEECCeEEEEccCCCCCccHHHHHHHHHHHHHHHHHcCCCCC
Confidence            999999987654221 11111100         000 0 001124555678888888887775

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

Probab=100.00  E-value=2.3e-34  Score=303.62  Aligned_cols=514  Identities=13%  Similarity=0.067  Sum_probs=299.0

Q ss_pred             hhhhhHHHHhhCCCCCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHH
Q 038401            2 SVAILDWINEEARYSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQME   81 (542)
Q Consensus         2 A~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~   81 (542)
                      |++.++.+.+.  .+.+...+..+...+.+.|++++|.+.|+.+.+.+. .+...+..+...+...|++++|++.++.+.
T Consensus       348 A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~  424 (899)
T TIGR02917       348 AIATLSPALGL--DPDDPAALSLLGEAYLALGDFEKAAEYLAKATELDP-ENAAARTQLGISKLSQGDPSEAIADLETAA  424 (899)
T ss_pred             HHHHHHHHHhc--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHhCCChHHHHHHHHHHH
Confidence            44555555433  234455666667777777777777777777666532 244555555566666666666666666555


Q ss_pred             hCCC---------------------------------CCCHHhHHHHHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHH
Q 038401           82 QDRV---------------------------------SGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYN  128 (542)
Q Consensus        82 ~~~~---------------------------------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  128 (542)
                      +..+                                 +.+..++..+...+...|++++|.+.|+++.+.. +.+...+.
T Consensus       425 ~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~  503 (899)
T TIGR02917       425 QLDPELGRADLLLILSYLRSGQFDKALAAAKKLEKKQPDNASLHNLLGAIYLGKGDLAKAREAFEKALSIE-PDFFPAAA  503 (899)
T ss_pred             hhCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhC-CCcHHHHH
Confidence            4432                                 2234444445555555555555555555554432 22333444


Q ss_pred             HHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccC
Q 038401          129 TMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLD  208 (542)
Q Consensus       129 ~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  208 (542)
                      .+...+...|++++|.+.++++...+ +.+..++..+...+.+.|+.++|...++++...+ +.+...+..++..+...|
T Consensus       504 ~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~  581 (899)
T TIGR02917       504 NLARIDIQEGNPDDAIQRFEKVLTID-PKNLRAILALAGLYLRTGNEEEAVAWLEKAAELN-PQEIEPALALAQYYLGKG  581 (899)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchhHHHHHHHHHHHCC
Confidence            44455555555555555555554432 2244455555555555555555555555554443 234444555555566666


Q ss_pred             CHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHH
Q 038401          209 MAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQ  288 (542)
Q Consensus       209 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  288 (542)
                      ++++|..+++.+.+.. +.+..+|..+..++...|++++|...++.+.+.. +.+...+..+...+.+.|++++|...++
T Consensus       582 ~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~  659 (899)
T TIGR02917       582 QLKKALAILNEAADAA-PDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLK  659 (899)
T ss_pred             CHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            6666666666655433 3445556666666666666666666666665543 2344555566666666666666666666


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcC--CCCC
Q 038401          289 EMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQ--PNTI  366 (542)
Q Consensus       289 ~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~  366 (542)
                      ++.+.. +.+..++..+...+...|+++.|..+++.+.+.. +.+...+..+...+...|++++|...++.+..  ++..
T Consensus       660 ~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~  737 (899)
T TIGR02917       660 RALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKALKRAPSSQ  737 (899)
T ss_pred             HHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCch
Confidence            665542 2235556666666666666666666666665553 34555566666666666777777766666543  2233


Q ss_pred             CHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHh
Q 038401          367 PRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYG  446 (542)
Q Consensus       367 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~  446 (542)
                      .+..++.++.+.|++++|.+.++++++.. +.+...+..++..|...|++++|.+.|+++.+.. +++...+..++..+.
T Consensus       738 ~~~~l~~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~  815 (899)
T TIGR02917       738 NAIKLHRALLASGNTAEAVKTLEAWLKTH-PNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKA-PDNAVVLNNLAWLYL  815 (899)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            34445566666677777777777766653 3456666667777777777777777777776642 234566666677777


Q ss_pred             ccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHHHHHhc-CCCCCchhHHHHHHHHHHhhcchhhH
Q 038401          447 KLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLFERLDS-DSNINKKELHHVVAGIYERANRLNDA  524 (542)
Q Consensus       447 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~A  524 (542)
                      ..|+ .+|+.+++++.+..+  .+...+. ++.++...|++++|.+.++++.. .|.  +..++..++.+|...|++++|
T Consensus       816 ~~~~-~~A~~~~~~~~~~~~--~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~--~~~~~~~l~~~~~~~g~~~~A  890 (899)
T TIGR02917       816 ELKD-PRALEYAEKALKLAP--NIPAILDTLGWLLVEKGEADRALPLLRKAVNIAPE--AAAIRYHLALALLATGRKAEA  890 (899)
T ss_pred             hcCc-HHHHHHHHHHHhhCC--CCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC--ChHHHHHHHHHHHHcCCHHHH
Confidence            7777 667777777766541  2222222 66677777777777777777433 332  456677777777777777777


Q ss_pred             HHHHHHHH
Q 038401          525 SRIMNRMN  532 (542)
Q Consensus       525 ~~~~~~~~  532 (542)
                      .+++++|.
T Consensus       891 ~~~~~~~~  898 (899)
T TIGR02917       891 RKELDKLL  898 (899)
T ss_pred             HHHHHHHh
Confidence            77777765

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=6.8e-34  Score=300.07  Aligned_cols=517  Identities=12%  Similarity=0.060  Sum_probs=321.2

Q ss_pred             hhhhhHHHHhhCCCCCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHH
Q 038401            2 SVAILDWINEEARYSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQME   81 (542)
Q Consensus         2 A~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~   81 (542)
                      |.+.|+.+.+..  +.+...+..+...+.+.|++++|...++.+...+. .+...+..+...+.+.|++++|.++|+++.
T Consensus       314 A~~~~~~~~~~~--p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  390 (899)
T TIGR02917       314 AYQYLNQILKYA--PNSHQARRLLASIQLRLGRVDEAIATLSPALGLDP-DDPAALSLLGEAYLALGDFEKAAEYLAKAT  390 (899)
T ss_pred             HHHHHHHHHHhC--CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            677788877543  45667788889999999999999999999988753 477889999999999999999999999998


Q ss_pred             hCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHH
Q 038401           82 QDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVS  161 (542)
Q Consensus        82 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~  161 (542)
                      +..+ .+...+..+...+...|++++|.+.++.+.+.. +........++..+.+.|++++|..+++.+... .+++..+
T Consensus       391 ~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~  467 (899)
T TIGR02917       391 ELDP-ENAAARTQLGISKLSQGDPSEAIADLETAAQLD-PELGRADLLLILSYLRSGQFDKALAAAKKLEKK-QPDNASL  467 (899)
T ss_pred             hcCC-CCHHHHHHHHHHHHhCCChHHHHHHHHHHHhhC-CcchhhHHHHHHHHHhcCCHHHHHHHHHHHHHh-CCCCcHH
Confidence            8643 366677778888888888888888888877653 222334444555556666666666666665543 2334455


Q ss_pred             HHHHHHHHHHCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhHHHHHH-----
Q 038401          162 YSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLL-----  236 (542)
Q Consensus       162 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll-----  236 (542)
                      +..+...+...|++++|.+.|+++.+.. +.+...+..+...+...|++++|...++.+...+ +.+..++..+.     
T Consensus       468 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~  545 (899)
T TIGR02917       468 HNLLGAIYLGKGDLAKAREAFEKALSIE-PDFFPAAANLARIDIQEGNPDDAIQRFEKVLTID-PKNLRAILALAGLYLR  545 (899)
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHH
Confidence            5555555555566666665555555432 2233444444555555555555555555554432 23334444444     


Q ss_pred             -----------------------------HHHHhcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHH
Q 038401          237 -----------------------------RVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLM  287 (542)
Q Consensus       237 -----------------------------~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  287 (542)
                                                   ..+...|++++|..+++.+.... +.+...|..+...+...|++++|...+
T Consensus       546 ~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~  624 (899)
T TIGR02917       546 TGNEEEAVAWLEKAAELNPQEIEPALALAQYYLGKGQLKKALAILNEAADAA-PDSPEAWLMLGRAQLAAGDLNKAVSSF  624 (899)
T ss_pred             cCCHHHHHHHHHHHHHhCccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence                                         44444555555555554444332 234445555555555555555555555


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCC---
Q 038401          288 QEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPN---  364 (542)
Q Consensus       288 ~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---  364 (542)
                      +++.+.. +.+...+..+...+...|++++|..+++.+.+.. +.+...+..+...+...|++++|.++++.+....   
T Consensus       625 ~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~  702 (899)
T TIGR02917       625 KKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQHPKA  702 (899)
T ss_pred             HHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCC
Confidence            5554432 2233444555555555555555555555555432 2334555555555555555555555555554322   


Q ss_pred             CCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 038401          365 TIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNS  444 (542)
Q Consensus       365 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~  444 (542)
                      ...+..+...+...|++++|.+.|+++.+..  |+..++..++.++...|++++|.+.++++.+.. +.+...+..++..
T Consensus       703 ~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~  779 (899)
T TIGR02917       703 ALGFELEGDLYLRQKDYPAAIQAYRKALKRA--PSSQNAIKLHRALLASGNTAEAVKTLEAWLKTH-PNDAVLRTALAEL  779 (899)
T ss_pred             hHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            2223334555666677777777777666643  333555566666677777777777777766632 2345666667777


Q ss_pred             HhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHHHHH-hcCCCCCchhHHHHHHHHHHhhcchh
Q 038401          445 YGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLFERL-DSDSNINKKELHHVVAGIYERANRLN  522 (542)
Q Consensus       445 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~g~~~  522 (542)
                      |...|++++|...|+++.+..  |++...+. ++.++...|+ .+|+.++++. ...|+  +...+..++.+|...|+++
T Consensus       780 ~~~~g~~~~A~~~~~~~~~~~--p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~~~--~~~~~~~~~~~~~~~g~~~  854 (899)
T TIGR02917       780 YLAQKDYDKAIKHYRTVVKKA--PDNAVVLNNLAWLYLELKD-PRALEYAEKALKLAPN--IPAILDTLGWLLVEKGEAD  854 (899)
T ss_pred             HHHCcCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhCCC--CcHHHHHHHHHHHHcCCHH
Confidence            777777777777777777765  23333333 6777777777 6677777774 33333  3456777888888889999


Q ss_pred             hHHHHHHHHHhcCCC
Q 038401          523 DASRIMNRMNKRRTF  537 (542)
Q Consensus       523 ~A~~~~~~~~~~~~~  537 (542)
                      +|.++++++.+.+..
T Consensus       855 ~A~~~~~~a~~~~~~  869 (899)
T TIGR02917       855 RALPLLRKAVNIAPE  869 (899)
T ss_pred             HHHHHHHHHHhhCCC
Confidence            999999998887653

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.

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=100.00  E-value=2.4e-26  Score=242.32  Aligned_cols=518  Identities=13%  Similarity=0.053  Sum_probs=337.5

Q ss_pred             hhhhHHHHhhCCCCCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhH----------------HHHHHHHhc
Q 038401            3 VAILDWINEEARYSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTY----------------STLITCFGK   66 (542)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~----------------~~l~~~~~~   66 (542)
                      .+.++.+...  -+.|+..+..++..+.+.|+.++|.+.++++.+..+. +...+                ......+..
T Consensus        48 ~~~l~kl~~~--~p~~p~~~~~~~~~~l~~g~~~~A~~~l~~l~~~~P~-~~~~~~~~~~~~~~~~~~~~~l~~A~ll~~  124 (1157)
T PRK11447         48 RQSLYRLELI--DPNNPDVIAARFRLLLRQGDSDGAQKLLDRLSQLAPD-SNAYRSSRTTMLLSTPEGRQALQQARLLAT  124 (1157)
T ss_pred             HHHHHHHHcc--CCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhhCCC-ChHHHHHHHHHHhcCCchhhHHHHHHHHHh
Confidence            3444444432  2335666777777788888888888888888776422 22222                223345677


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHH-hHHHHHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHH
Q 038401           67 EGMFDSAISWLQQMEQDRVSGDLV-LYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARL  145 (542)
Q Consensus        67 ~g~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  145 (542)
                      .|++++|++.|+.+.+.+++ +.. ....+.......|+.++|.+.++++.+.. +.+...+..+...+...|+.++|+.
T Consensus       125 ~g~~~eA~~~~~~~l~~~p~-~~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~-P~~~~~~~~LA~ll~~~g~~~eAl~  202 (1157)
T PRK11447        125 TGRTEEALASYDKLFNGAPP-ELDLAVEYWRLVAKLPAQRPEAINQLQRLNADY-PGNTGLRNTLALLLFSSGRRDEGFA  202 (1157)
T ss_pred             CCCHHHHHHHHHHHccCCCC-ChHHHHHHHHHHhhCCccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHccCCHHHHHH
Confidence            78888888888887765422 321 11111222234577888888888877763 3456666777777777788888888


Q ss_pred             HHHHHHHcCC------------------C--------------CCHHHH---------------------HHHHHHHHHC
Q 038401          146 LIEEMREQGV------------------K--------------PDTVSY---------------------STLLNLYVEN  172 (542)
Q Consensus       146 ~~~~~~~~g~------------------~--------------~~~~~~---------------------~~l~~~~~~~  172 (542)
                      .++++.....                  .              |+....                     ......+...
T Consensus       203 ~l~~~~~~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~dp~~~~~~~G~~~~~~  282 (1157)
T PRK11447        203 VLEQMAKSPAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLADPAFRARAQGLAAVDS  282 (1157)
T ss_pred             HHHHHhhCCCchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccCcchHHHHHHHHHHHC
Confidence            7777644210                  0              000000                     0112345567


Q ss_pred             CChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCC-ChhHHH------------HHHHHH
Q 038401          173 HKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDP-SVVSYN------------TLLRVY  239 (542)
Q Consensus       173 g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~------------~ll~~~  239 (542)
                      |++++|+..|++..+.. |.+...+..+..++.+.|++++|...|++..+..... ....+.            .....+
T Consensus       283 g~~~~A~~~l~~aL~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~~~g~~~  361 (1157)
T PRK11447        283 GQGGKAIPELQQAVRAN-PKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLIQQGDAA  361 (1157)
T ss_pred             CCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHHHHHHHH
Confidence            88888888888877754 3466777777788888888888888888877653111 111111            123345


Q ss_pred             HhcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHH---------------
Q 038401          240 GEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYST---------------  304 (542)
Q Consensus       240 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~---------------  304 (542)
                      .+.|++++|...|+++.... +.+...+..+...+...|++++|++.|++..+.. +.+...+..               
T Consensus       362 ~~~g~~~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~-p~~~~a~~~L~~l~~~~~~~~A~~  439 (1157)
T PRK11447        362 LKANNLAQAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMD-PGNTNAVRGLANLYRQQSPEKALA  439 (1157)
T ss_pred             HHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCHHHHHH
Confidence            67778888888888777764 3355566667777777888888888877776542 112222211               


Q ss_pred             ---------------------------HHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Q 038401          305 ---------------------------IIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLL  357 (542)
Q Consensus       305 ---------------------------l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  357 (542)
                                                 +...+...|++++|+..|+++++.. +-+...+..+...|.+.|++++|...+
T Consensus       440 ~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~-P~~~~~~~~LA~~~~~~G~~~~A~~~l  518 (1157)
T PRK11447        440 FIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALD-PGSVWLTYRLAQDLRQAGQRSQADALM  518 (1157)
T ss_pred             HHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence                                       2233445678888888888887764 335667777777888888888888888


Q ss_pred             HHhcCCCCCCH---HH--------------------------------------------HHHHHHHhCCHHHHHHHHHH
Q 038401          358 HELRQPNTIPR---ET--------------------------------------------AITILARAGRIEEATWVFRQ  390 (542)
Q Consensus       358 ~~~~~~~~~~~---~~--------------------------------------------l~~~~~~~g~~~~A~~~~~~  390 (542)
                      +++...++...   ..                                            ....+...|+.++|..+++.
T Consensus       519 ~~al~~~P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~  598 (1157)
T PRK11447        519 RRLAQQKPNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQ  598 (1157)
T ss_pred             HHHHHcCCCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHh
Confidence            87654222211   11                                            12233445555566555551


Q ss_pred             HHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCc
Q 038401          391 AFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFS  469 (542)
Q Consensus       391 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~  469 (542)
                           .+.++..+..+...+.+.|++++|+..|+++++.  .| +...+..++..|...|++++|++.++.+.+..  +.
T Consensus       599 -----~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~--~P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~--p~  669 (1157)
T PRK11447        599 -----QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTR--EPGNADARLGLIEVDIAQGDLAAARAQLAKLPATA--ND  669 (1157)
T ss_pred             -----CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccC--CC
Confidence                 3456667778889999999999999999999984  45 56888899999999999999999999988765  12


Q ss_pred             hHH-HHHHHHHHhccCChHHHHHHHHHHhcC-CCCCc----hhHHHHHHHHHHhhcchhhHHHHHHHHHh-cCCCC
Q 038401          470 DQV-HFQMLSLYGARKDFNMLESLFERLDSD-SNINK----KELHHVVAGIYERANRLNDASRIMNRMNK-RRTFN  538 (542)
Q Consensus       470 ~~~-~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~  538 (542)
                      +.. ...++.++...|++++|.+.++++... +...+    ...+..++.++...|++++|+++|+++.. .|+.|
T Consensus       670 ~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al~~~~~~~  745 (1157)
T PRK11447        670 SLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDAMVASGITP  745 (1157)
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhcCCCC
Confidence            222 233888999999999999999996543 22211    24566779999999999999999999753 34443

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.97  E-value=2.8e-24  Score=226.71  Aligned_cols=503  Identities=13%  Similarity=0.042  Sum_probs=335.3

Q ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhH---------
Q 038401           22 YNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLY---------   92 (542)
Q Consensus        22 ~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~---------   92 (542)
                      .-..++.+...++.+.|.+.++++....+. ++..+..++..+.+.|+.++|.+.++++.+..+. +....         
T Consensus        31 Ll~q~~~~~~~~~~d~a~~~l~kl~~~~p~-~p~~~~~~~~~~l~~g~~~~A~~~l~~l~~~~P~-~~~~~~~~~~~~~~  108 (1157)
T PRK11447         31 LLEQVRLGEATHREDLVRQSLYRLELIDPN-NPDVIAARFRLLLRQGDSDGAQKLLDRLSQLAPD-SNAYRSSRTTMLLS  108 (1157)
T ss_pred             HHHHHHHHHhhCChHHHHHHHHHHHccCCC-CHHHHHHHHHHHHhCCCHHHHHHHHHHHHhhCCC-ChHHHHHHHHHHhc
Confidence            455567778899999999999999987543 7888999999999999999999999999987533 32221         


Q ss_pred             -------HHHHHHHHhcCCHHHHHHHHHHhHhCCCCccHh-HHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHH
Q 038401           93 -------SNLIELARKLSDYSKAISIFSRLKSSGIVPDLV-AYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYST  164 (542)
Q Consensus        93 -------~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~  164 (542)
                             ..+...+...|++++|.+.|+.+.+.+ +|+.. ....+.......|+.++|.+.++++.... +.+...+..
T Consensus       109 ~~~~~~~l~~A~ll~~~g~~~eA~~~~~~~l~~~-p~~~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~-P~~~~~~~~  186 (1157)
T PRK11447        109 TPEGRQALQQARLLATTGRTEEALASYDKLFNGA-PPELDLAVEYWRLVAKLPAQRPEAINQLQRLNADY-PGNTGLRNT  186 (1157)
T ss_pred             CCchhhHHHHHHHHHhCCCHHHHHHHHHHHccCC-CCChHHHHHHHHHHhhCCccHHHHHHHHHHHHHhC-CCCHHHHHH
Confidence                   333456888999999999999998764 34432 11112222335699999999999999874 336777888


Q ss_pred             HHHHHHHCCChHHHHHHHHHHHhcCC----------------CCChh---hH----------------------------
Q 038401          165 LLNLYVENHKFVEALSVFAEMNEVNC----------------PLDLT---TC----------------------------  197 (542)
Q Consensus       165 l~~~~~~~g~~~~a~~~~~~~~~~~~----------------~~~~~---~~----------------------------  197 (542)
                      +...+...|+.++|++.++++.....                +++..   .+                            
T Consensus       187 LA~ll~~~g~~~eAl~~l~~~~~~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~  266 (1157)
T PRK11447        187 LALLLFSSGRRDEGFAVLEQMAKSPAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLA  266 (1157)
T ss_pred             HHHHHHccCCHHHHHHHHHHHhhCCCchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhcc
Confidence            99999999999999999998754321                00000   00                            


Q ss_pred             ------HHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCC-cHHHH---
Q 038401          198 ------NIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQ-NVVTY---  267 (542)
Q Consensus       198 ------~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~---  267 (542)
                            ......+...|++++|...|++..+.. +.+...+..+..++.+.|++++|+..|++..+..... ....|   
T Consensus       267 dp~~~~~~~G~~~~~~g~~~~A~~~l~~aL~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~l  345 (1157)
T PRK11447        267 DPAFRARAQGLAAVDSGQGGKAIPELQQAVRAN-PKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESL  345 (1157)
T ss_pred             CcchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHH
Confidence                  011334567789999999999988764 4477788888899999999999999999888764322 11112   


Q ss_pred             ---------HHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHH
Q 038401          268 ---------NTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQ  338 (542)
Q Consensus       268 ---------~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  338 (542)
                               ......+.+.|++++|...|+++.+.. +.+...+..+...+...|++++|.+.|+++.+.. +.+...+.
T Consensus       346 l~~~~~~~~~~~g~~~~~~g~~~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~-p~~~~a~~  423 (1157)
T PRK11447        346 LKVNRYWLLIQQGDAALKANNLAQAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMD-PGNTNAVR  423 (1157)
T ss_pred             HHhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHH
Confidence                     122445678899999999999988763 3355667778888999999999999999988764 22344443


Q ss_pred             HHHHH------------------------------------------HHHcCCHHHHHHHHHHhcCCCCC---CHHHHHH
Q 038401          339 TMIVA------------------------------------------YERVGLVAHAKRLLHELRQPNTI---PRETAIT  373 (542)
Q Consensus       339 ~l~~~------------------------------------------~~~~~~~~~a~~~~~~~~~~~~~---~~~~l~~  373 (542)
                      .+...                                          +...|++++|.+.+++..+.++.   .+..+..
T Consensus       424 ~L~~l~~~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~~~~~~~~LA~  503 (1157)
T PRK11447        424 GLANLYRQQSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDPGSVWLTYRLAQ  503 (1157)
T ss_pred             HHHHHHHhcCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            33333                                          33455566666666555443222   2233455


Q ss_pred             HHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC------------------------
Q 038401          374 ILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSA------------------------  429 (542)
Q Consensus       374 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~------------------------  429 (542)
                      .+.+.|++++|...++++++..+ .++..+..+...+...+++++|+..++++...                        
T Consensus       504 ~~~~~G~~~~A~~~l~~al~~~P-~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~  582 (1157)
T PRK11447        504 DLRQAGQRSQADALMRRLAQQKP-NDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANR  582 (1157)
T ss_pred             HHHHcCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHH
Confidence            55666666666666666655422 23333322222233333333333333221100                        


Q ss_pred             ---------------CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHH
Q 038401          430 ---------------GYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLF  493 (542)
Q Consensus       430 ---------------~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~  493 (542)
                                     ..+++...+..+...+.+.|++++|+..|+++++..  |.+..... ++.++...|++++|++.+
T Consensus       583 l~~~G~~~eA~~~l~~~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~--P~~~~a~~~la~~~~~~g~~~eA~~~l  660 (1157)
T PRK11447        583 LRDSGKEAEAEALLRQQPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTRE--PGNADARLGLIEVDIAQGDLAAARAQL  660 (1157)
T ss_pred             HHHCCCHHHHHHHHHhCCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence                           011233445556677778888888888888888875  22233333 778888888888888888


Q ss_pred             HHHhcCCCCCchhHHHHHHHHHHhhcchhhHHHHHHHHHhcC
Q 038401          494 ERLDSDSNINKKELHHVVAGIYERANRLNDASRIMNRMNKRR  535 (542)
Q Consensus       494 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  535 (542)
                      +++..... .+...+..++.++...|++++|.++++++....
T Consensus       661 ~~ll~~~p-~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~  701 (1157)
T PRK11447        661 AKLPATAN-DSLNTQRRVALAWAALGDTAAAQRTFNRLIPQA  701 (1157)
T ss_pred             HHHhccCC-CChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhC
Confidence            88643321 234566778888888888888888888877653

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.96  E-value=1.9e-22  Score=203.19  Aligned_cols=230  Identities=10%  Similarity=0.004  Sum_probs=173.7

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCC--CCCCHHHHHHHHH
Q 038401          299 AITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQP--NTIPRETAITILA  376 (542)
Q Consensus       299 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~l~~~~~  376 (542)
                      ...|..+..++.. ++.++|...+......  .|+......+...+...|++++|...++++...  ....+..+..++.
T Consensus       477 ~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~--~Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~~p~~~a~~~la~all  553 (987)
T PRK09782        477 AAAWNRLAKCYRD-TLPGVALYAWLQAEQR--QPDAWQHRAVAYQAYQVEDYATALAAWQKISLHDMSNEDLLAAANTAQ  553 (987)
T ss_pred             HHHHHHHHHHHHh-CCcHHHHHHHHHHHHh--CCchHHHHHHHHHHHHCCCHHHHHHHHHHHhccCCCcHHHHHHHHHHH
Confidence            3444555555544 6777788877777665  355444444455556899999999999887653  2223445566778


Q ss_pred             HhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHH
Q 038401          377 RAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADD  456 (542)
Q Consensus       377 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~  456 (542)
                      +.|++++|...++++++.. +.+...+..+.......|++++|+..+++.++  ..|+...+..+..++.+.|++++|+.
T Consensus       554 ~~Gd~~eA~~~l~qAL~l~-P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~--l~P~~~a~~~LA~~l~~lG~~deA~~  630 (987)
T PRK09782        554 AAGNGAARDRWLQQAEQRG-LGDNALYWWLHAQRYIPGQPELALNDLTRSLN--IAPSANAYVARATIYRQRHNVPAAVS  630 (987)
T ss_pred             HCCCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHH--hCCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            8999999999999998864 23344444444445566999999999999998  55788889999999999999999999


Q ss_pred             HHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHHHH-HhcCCCCCchhHHHHHHHHHHhhcchhhHHHHHHHHHhc
Q 038401          457 LYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLFER-LDSDSNINKKELHHVVAGIYERANRLNDASRIMNRMNKR  534 (542)
Q Consensus       457 ~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  534 (542)
                      .++++++..  |.+..... ++.++...|++++|+..+++ +...|+  ...++..++.+|...|++++|+..+++..+.
T Consensus       631 ~l~~AL~l~--Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P~--~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l  706 (987)
T PRK09782        631 DLRAALELE--PNNSNYQAALGYALWDSGDIAQSREMLERAHKGLPD--DPALIRQLAYVNQRLDDMAATQHYARLVIDD  706 (987)
T ss_pred             HHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC--CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            999999987  23333333 88899999999999999999 455555  5678999999999999999999999999876


Q ss_pred             CCCC
Q 038401          535 RTFN  538 (542)
Q Consensus       535 ~~~~  538 (542)
                      ....
T Consensus       707 ~P~~  710 (987)
T PRK09782        707 IDNQ  710 (987)
T ss_pred             CCCC
Confidence            6433

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.95  E-value=1e-21  Score=198.10  Aligned_cols=503  Identities=10%  Similarity=0.040  Sum_probs=339.1

Q ss_pred             hhhhhHHHHhhCCCCCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHH
Q 038401            2 SVAILDWINEEARYSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQME   81 (542)
Q Consensus         2 A~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~   81 (542)
                      |+..|+...+..  +-+..++..+...|.+.|++++|+..+++..+..  |+-..|..++..+   +++++|..+++++.
T Consensus        63 A~~~l~~Al~~d--P~n~~~~~~LA~~yl~~g~~~~A~~~~~kAv~ld--P~n~~~~~~La~i---~~~~kA~~~ye~l~  135 (987)
T PRK09782         63 AIREFEYIHQQV--PDNIPLTLYLAEAYRHFGHDDRARLLLEDQLKRH--PGDARLERSLAAI---PVEVKSVTTVEELL  135 (987)
T ss_pred             HHHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--cccHHHHHHHHHh---ccChhHHHHHHHHH
Confidence            566777776543  3446677888889999999999999999888864  3333333333222   88888889998888


Q ss_pred             hCCCCCCHHhHHHHHHH--------HHhcCCHHHHHHHHHHhHhCCCCccHhHHHHH-HHHHhccCcHHHHHHHHHHHHH
Q 038401           82 QDRVSGDLVLYSNLIEL--------ARKLSDYSKAISIFSRLKSSGIVPDLVAYNTM-INVFGKAKLFKEARLLIEEMRE  152 (542)
Q Consensus        82 ~~~~~~~~~~~~~l~~~--------~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~  152 (542)
                      ...+. +..++..+...        |.+.   ++|.+.++ .......|.+.+.... ...|...+++++|++++.++.+
T Consensus       136 ~~~P~-n~~~~~~la~~~~~~~~l~y~q~---eqAl~AL~-lr~~~~~~~~~vL~L~~~rlY~~l~dw~~Ai~lL~~L~k  210 (987)
T PRK09782        136 AQQKA-CDAVPTLRCRSEVGQNALRLAQL---PVARAQLN-DATFAASPEGKTLRTDLLQRAIYLKQWSQADTLYNEARQ  210 (987)
T ss_pred             HhCCC-ChhHHHHHHHHhhccchhhhhhH---HHHHHHHH-HhhhCCCCCcHHHHHHHHHHHHHHhCHHHHHHHHHHHHh
Confidence            77433 44444444444        4444   44444444 3322223344444444 7788888888888888888887


Q ss_pred             cCCCCCHHHHHHHHHHHHH-CCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCC-CChh
Q 038401          153 QGVKPDTVSYSTLLNLYVE-NHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGID-PSVV  230 (542)
Q Consensus       153 ~g~~~~~~~~~~l~~~~~~-~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~  230 (542)
                      .+. .+..-...|..+|.. .++ +.+..+++.    .++.++..+..++..+.+.|+.++|..+++.+...-.. |...
T Consensus       211 ~~p-l~~~~~~~L~~ay~q~l~~-~~a~al~~~----~lk~d~~l~~ala~~yi~~G~~~~A~~~L~~~~~~~~~~~~~~  284 (987)
T PRK09782        211 QNT-LSAAERRQWFDVLLAGQLD-DRLLALQSQ----GIFTDPQSRITYATALAYRGEKARLQHYLIENKPLFTTDAQEK  284 (987)
T ss_pred             cCC-CCHHHHHHHHHHHHHhhCH-HHHHHHhch----hcccCHHHHHHHHHHHHHCCCHHHHHHHHHhCcccccCCCccH
Confidence            753 234445555566666 355 555555442    22246666777777777777777777776664321000 1100


Q ss_pred             HHH-----------------------------------------------------------------------------
Q 038401          231 SYN-----------------------------------------------------------------------------  233 (542)
Q Consensus       231 ~~~-----------------------------------------------------------------------------  233 (542)
                      ++-                                                                             
T Consensus       285 ~~~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~  364 (987)
T PRK09782        285 SWLYLLSKYSANPVQALANYTVQFADNRQYVVGATLPVLLKEGQYDAAQKLLATLPANEMLEERYAVSVATRNKAEALRL  364 (987)
T ss_pred             HHHHHHHhccCchhhhccchhhhhHHHHHHHHHHHHHHHHhccHHHHHHHHhcCCCcchHHHHHHhhccccCchhHHHHH
Confidence            000                                                                             


Q ss_pred             ----------------HHHHHHHhcCcHHHHHHHHHHHHhc-C-C-----------------------------------
Q 038401          234 ----------------TLLRVYGEAELFGEAIHLFRLMQRK-E-I-----------------------------------  260 (542)
Q Consensus       234 ----------------~ll~~~~~~~~~~~a~~~~~~~~~~-~-~-----------------------------------  260 (542)
                                      .+.-...+.|+.++|.++++..... + .                                   
T Consensus       365 ~~~~y~~~~~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~  444 (987)
T PRK09782        365 ARLLYQQEPANLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPAKVAILSKPLPL  444 (987)
T ss_pred             HHHHHhcCCCCHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchHHHHHhcccccc
Confidence                            0000012334455555555444331 0 0                                   


Q ss_pred             ---------------------------CC--cHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 038401          261 ---------------------------EQ--NVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGK  311 (542)
Q Consensus       261 ---------------------------~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  311 (542)
                                                 ++  +...|..+..++.. ++.++|...+.+....  .|+......+...+..
T Consensus       445 ~~~~~~~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~--~Pd~~~~L~lA~al~~  521 (987)
T PRK09782        445 AEQRQWQSQLPGIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQR--QPDAWQHRAVAYQAYQ  521 (987)
T ss_pred             chhHHHHhhhhhhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHh--CCchHHHHHHHHHHHH
Confidence                                       11  23334444444444 5666788877777665  4665544444555678


Q ss_pred             cCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHh---CCHHHHHHHH
Q 038401          312 AGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARA---GRIEEATWVF  388 (542)
Q Consensus       312 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~---g~~~~A~~~~  388 (542)
                      .|++++|...|+.+...  +|+...+..+..++.+.|+.++|...++.....++.............   |++++|...+
T Consensus       522 ~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~P~~~~l~~~La~~l~~~Gr~~eAl~~~  599 (987)
T PRK09782        522 VEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRGLGDNALYWWLHAQRYIPGQPELALNDL  599 (987)
T ss_pred             CCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHhCCCHHHHHHHH
Confidence            99999999999998665  445555667778889999999999999998876655555444433344   9999999999


Q ss_pred             HHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCC
Q 038401          389 RQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEGCV  467 (542)
Q Consensus       389 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  467 (542)
                      +++++..  |+...+..+..++.+.|++++|+..+++.++.  .| +...+..+..++...|+.++|+..++++++..+ 
T Consensus       600 ~~AL~l~--P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l--~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P-  674 (987)
T PRK09782        600 TRSLNIA--PSANAYVARATIYRQRHNVPAAVSDLRAALEL--EPNNSNYQAALGYALWDSGDIAQSREMLERAHKGLP-  674 (987)
T ss_pred             HHHHHhC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-
Confidence            9999864  56888999999999999999999999999984  46 457788888899999999999999999999872 


Q ss_pred             CchH-HHHHHHHHHhccCChHHHHHHHHHH-hcCCCCCchhHHHHHHHHHHhhcchhhHHHHHHHHHhcC
Q 038401          468 FSDQ-VHFQMLSLYGARKDFNMLESLFERL-DSDSNINKKELHHVVAGIYERANRLNDASRIMNRMNKRR  535 (542)
Q Consensus       468 ~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  535 (542)
                       .+. ..+.++.++...|++++|+..+++. ..+|+  ...+....+.+..+..+++.|.+-+++.-.-+
T Consensus       675 -~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~P~--~a~i~~~~g~~~~~~~~~~~a~~~~~r~~~~~  741 (987)
T PRK09782        675 -DDPALIRQLAYVNQRLDDMAATQHYARLVIDDIDN--QALITPLTPEQNQQRFNFRRLHEEVGRRWTFS  741 (987)
T ss_pred             -CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC--CchhhhhhhHHHHHHHHHHHHHHHHHHHhhcC
Confidence             222 3344999999999999999999994 55554  55778888999999999999999888765543

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

Probab=99.94  E-value=1.4e-21  Score=184.61  Aligned_cols=524  Identities=13%  Similarity=0.130  Sum_probs=317.4

Q ss_pred             hhhhhHHHHhhCCCCCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHH
Q 038401            2 SVAILDWINEEARYSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQME   81 (542)
Q Consensus         2 A~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~   81 (542)
                      |.+-|..+.+..  ++|+-.+---.......|++..|..+|..++...+.--+...-.+..++.+.|+.+.|+..|.+..
T Consensus       149 A~a~F~~Vl~~s--p~Nil~LlGkA~i~ynkkdY~~al~yyk~al~inp~~~aD~rIgig~Cf~kl~~~~~a~~a~~ral  226 (1018)
T KOG2002|consen  149 ADAQFHFVLKQS--PDNILALLGKARIAYNKKDYRGALKYYKKALRINPACKADVRIGIGHCFWKLGMSEKALLAFERAL  226 (1018)
T ss_pred             HHHHHHHHHhhC--CcchHHHHHHHHHHhccccHHHHHHHHHHHHhcCcccCCCccchhhhHHHhccchhhHHHHHHHHH
Confidence            556677777653  556655544455556678999999999997765433223334455577889999999999999998


Q ss_pred             hCCCCCCHHhHHHHHHHHHhcCC---HHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCC--
Q 038401           82 QDRVSGDLVLYSNLIELARKLSD---YSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVK--  156 (542)
Q Consensus        82 ~~~~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~--  156 (542)
                      +.++ .++.++..|...-....+   +..+..++...-... +-++...+.|...|...|++..++.+...+......  
T Consensus       227 qLdp-~~v~alv~L~~~~l~~~d~~s~~~~~~ll~~ay~~n-~~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~  304 (1018)
T KOG2002|consen  227 QLDP-TCVSALVALGEVDLNFNDSDSYKKGVQLLQRAYKEN-NENPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKS  304 (1018)
T ss_pred             hcCh-hhHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhhc-CCCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhH
Confidence            8754 244444444443333333   455666666655543 457788888999999999999999998888765211  


Q ss_pred             CCHHHHHHHHHHHHHCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhHHHHHH
Q 038401          157 PDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLL  236 (542)
Q Consensus       157 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll  236 (542)
                      .-...|..+.++|-..|++++|...|.+..+.+...-...+..+...+.+.|+.+.+...|+.+.+.. +.+..+...|.
T Consensus       305 ~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~~-p~~~etm~iLG  383 (1018)
T KOG2002|consen  305 IKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQL-PNNYETMKILG  383 (1018)
T ss_pred             HHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCccccccchhHHHHHhchHHHHHHHHHHHHHhC-cchHHHHHHHH
Confidence            12456888899999999999999999888775422223445667888889999999999998888764 44556666666


Q ss_pred             HHHHhcC----cHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHH----HHcCCCCCHHHHHHHHHH
Q 038401          237 RVYGEAE----LFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEM----QNRGIEPNAITYSTIIAI  308 (542)
Q Consensus       237 ~~~~~~~----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~----~~~~~~p~~~~~~~l~~~  308 (542)
                      ..|...+    ..+.|..++.+..... +.|...|-.+...+-....+ .++.++...    ...+-.+.+...+.+...
T Consensus       384 ~Lya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~laql~e~~d~~-~sL~~~~~A~d~L~~~~~~ip~E~LNNvasl  461 (1018)
T KOG2002|consen  384 CLYAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELAQLLEQTDPW-ASLDAYGNALDILESKGKQIPPEVLNNVASL  461 (1018)
T ss_pred             hHHHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHHHHHHhcChH-HHHHHHHHHHHHHHHcCCCCCHHHHHhHHHH
Confidence            6666554    4566666666666543 44666666666655443333 335554433    334444566667777777


Q ss_pred             HHhcCCHHHHHHHHHHHHhc---CCCCCH------HHHHHHHHHHHHcCCHHHHHHHHHHhcCCCC--------------
Q 038401          309 WGKAGKLDRAAMLFQKLRSS---GVEIDP------VLYQTMIVAYERVGLVAHAKRLLHELRQPNT--------------  365 (542)
Q Consensus       309 ~~~~~~~~~a~~~~~~~~~~---~~~~~~------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--------------  365 (542)
                      ....|+++.|...|......   ...++.      .+--.+..++...++.+.|.+.+..+....+              
T Consensus       462 hf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilkehp~YId~ylRl~~ma~  541 (1018)
T KOG2002|consen  462 HFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKEHPGYIDAYLRLGCMAR  541 (1018)
T ss_pred             HHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHCchhHHHHHHhhHHHH
Confidence            77777777777777666543   111121      1122233444445555555555555544333              


Q ss_pred             -----------------------CCHHHHHHHHHHhCCHHHHHHHHHHHHHcCC-CcCHHHHHHHHHHHHh---------
Q 038401          366 -----------------------IPRETAITILARAGRIEEATWVFRQAFDAGE-VKDISVFGCMIELFSR---------  412 (542)
Q Consensus       366 -----------------------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~~l~~~~~~---------  412 (542)
                                             ..+..+...+.+...+..|.+-|..+.+.-. .+|+.+.-+|+..|.+         
T Consensus       542 ~k~~~~ea~~~lk~~l~~d~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~  621 (1018)
T KOG2002|consen  542 DKNNLYEASLLLKDALNIDSSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNP  621 (1018)
T ss_pred             hccCcHHHHHHHHHHHhcccCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccCh
Confidence                                   2233333344444444444443333332211 1344555555554432         


Q ss_pred             ---cCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChH
Q 038401          413 ---NKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFN  487 (542)
Q Consensus       413 ---~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~  487 (542)
                         .+..+.|+++|.++++.  .| |...-+.++-.+...|++.+|..+|.+..+..  ......+. ++.+|..+|+|.
T Consensus       622 ek~kk~~~KAlq~y~kvL~~--dpkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~--~~~~dv~lNlah~~~e~~qy~  697 (1018)
T KOG2002|consen  622 EKEKKHQEKALQLYGKVLRN--DPKNMYAANGIGIVLAEKGRFSEARDIFSQVREAT--SDFEDVWLNLAHCYVEQGQYR  697 (1018)
T ss_pred             HHHHHHHHHHHHHHHHHHhc--CcchhhhccchhhhhhhccCchHHHHHHHHHHHHH--hhCCceeeeHHHHHHHHHHHH
Confidence               23355666666666652  23 44555566666666677777777777666643  11222333 677777777777


Q ss_pred             HHHHHHHHH-hcCCCCCchhHHHHHHHHHHhhcchhhHHHHHHHHHhcCC
Q 038401          488 MLESLFERL-DSDSNINKKELHHVVAGIYERANRLNDASRIMNRMNKRRT  536 (542)
Q Consensus       488 ~A~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  536 (542)
                      .|+++++.. .+.......++...|++++.+.|.+.+|.+.+..+....+
T Consensus       698 ~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p  747 (1018)
T KOG2002|consen  698 LAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLAP  747 (1018)
T ss_pred             HHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCC
Confidence            777777763 3333333456666777777777777777776666655443

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

Probab=99.94  E-value=7.8e-23  Score=183.57  Aligned_cols=441  Identities=14%  Similarity=0.131  Sum_probs=349.8

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhc
Q 038401           57 YSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGK  136 (542)
Q Consensus        57 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  136 (542)
                      ...+..-..+.|++.+|.+.-...-+.+ +.+......+-..+.+..+.+.....-....+.. +.-..+|..+...+-.
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~~ke  128 (966)
T KOG4626|consen   51 RLELAHRLYQGGDYKQAEKHCNMVGQED-PTNTERLLLLSAIFFQGSRLDKSSAGSLLAIRKN-PQGAEAYSNLANILKE  128 (966)
T ss_pred             HHHHHHHHHhccCHHHHHHHHhHhhccC-CCcccceeeehhhhhcccchhhhhhhhhhhhhcc-chHHHHHHHHHHHHHH
Confidence            4556666778899999988776665543 2233344444555666667766655544444432 4457899999999999


Q ss_pred             cCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhcCCCCChhhHH-HHHHHHhccCCHHHHHH
Q 038401          137 AKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCN-IMIDVYGQLDMAKDADR  215 (542)
Q Consensus       137 ~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~~~~~~a~~  215 (542)
                      .|+++.|+.+++.+++.. +-....|..+..++...|+.+.|...|.+..+.+  |+..... .+.......|+.++|..
T Consensus       129 rg~~~~al~~y~~aiel~-p~fida~inla~al~~~~~~~~a~~~~~~alqln--P~l~ca~s~lgnLlka~Grl~ea~~  205 (966)
T KOG4626|consen  129 RGQLQDALALYRAAIELK-PKFIDAYINLAAALVTQGDLELAVQCFFEALQLN--PDLYCARSDLGNLLKAEGRLEEAKA  205 (966)
T ss_pred             hchHHHHHHHHHHHHhcC-chhhHHHhhHHHHHHhcCCCcccHHHHHHHHhcC--cchhhhhcchhHHHHhhcccchhHH
Confidence            999999999999999863 2257889999999999999999999999998865  5544433 33344455788999999


Q ss_pred             HHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCC
Q 038401          216 LFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGI  295 (542)
Q Consensus       216 ~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  295 (542)
                      .+.+..... +--...|+.|.-.+-.+|+...|++.|++..+.+ +.-...|-.|...|...+.++.|...+.+....  
T Consensus       206 cYlkAi~~q-p~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkld-P~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~l--  281 (966)
T KOG4626|consen  206 CYLKAIETQ-PCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLD-PNFLDAYINLGNVYKEARIFDRAVSCYLRALNL--  281 (966)
T ss_pred             HHHHHHhhC-CceeeeehhcchHHhhcchHHHHHHHHHHhhcCC-CcchHHHhhHHHHHHHHhcchHHHHHHHHHHhc--
Confidence            888887653 2235678889999999999999999999998864 223567888999999999999999999888765  


Q ss_pred             CCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcC---CCCCCHHHH
Q 038401          296 EPN-AITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQ---PNTIPRETA  371 (542)
Q Consensus       296 ~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l  371 (542)
                      .|+ ...+..+...|...|..+.|+..|++.++.. +.=+..|+.|..++-..|++.+|.+.+.+...   ......+.+
T Consensus       282 rpn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~-P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p~hadam~NL  360 (966)
T KOG4626|consen  282 RPNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQ-PNFPDAYNNLANALKDKGSVTEAVDCYNKALRLCPNHADAMNNL  360 (966)
T ss_pred             CCcchhhccceEEEEeccccHHHHHHHHHHHHhcC-CCchHHHhHHHHHHHhccchHHHHHHHHHHHHhCCccHHHHHHH
Confidence            555 4567777778899999999999999999874 22467899999999999999999999998765   344566778


Q ss_pred             HHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHhccCc
Q 038401          372 ITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDS-HIIALVLNSYGKLRE  450 (542)
Q Consensus       372 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~  450 (542)
                      ...+...|.+++|..+|..+.+-. +.-....+.|...|-++|++++|+..|++.++  +.|+. ..++.++..|-..|+
T Consensus       361 gni~~E~~~~e~A~~ly~~al~v~-p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr--I~P~fAda~~NmGnt~ke~g~  437 (966)
T KOG4626|consen  361 GNIYREQGKIEEATRLYLKALEVF-PEFAAAHNNLASIYKQQGNLDDAIMCYKEALR--IKPTFADALSNMGNTYKEMGD  437 (966)
T ss_pred             HHHHHHhccchHHHHHHHHHHhhC-hhhhhhhhhHHHHHHhcccHHHHHHHHHHHHh--cCchHHHHHHhcchHHHHhhh
Confidence            899999999999999999999852 23366789999999999999999999999998  88975 789999999999999


Q ss_pred             HHHHHHHHHHHHHcCCCCchHH-HHH-HHHHHhccCChHHHHHHHHH-HhcCCCCCchhHHHHHHHHH
Q 038401          451 FETADDLYSEMQEEGCVFSDQV-HFQ-MLSLYGARKDFNMLESLFER-LDSDSNINKKELHHVVAGIY  515 (542)
Q Consensus       451 ~~~A~~~~~~~~~~~~~~~~~~-~~~-l~~~~~~~g~~~~A~~~~~~-~~~~~~~~~~~~~~~l~~~~  515 (542)
                      .+.|++.|.+++..+   |... ... |+.+|-.+|+..+|+..+++ ++.+|+.+  .+|-.++.++
T Consensus       438 v~~A~q~y~rAI~~n---Pt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkPDfp--dA~cNllh~l  500 (966)
T KOG4626|consen  438 VSAAIQCYTRAIQIN---PTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKPDFP--DAYCNLLHCL  500 (966)
T ss_pred             HHHHHHHHHHHHhcC---cHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCCCCc--hhhhHHHHHH
Confidence            999999999999977   5433 333 99999999999999999999 66677754  3554555443

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

Probab=99.93  E-value=9e-22  Score=176.83  Aligned_cols=439  Identities=14%  Similarity=0.117  Sum_probs=358.3

Q ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHh
Q 038401           22 YNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARK  101 (542)
Q Consensus        22 ~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  101 (542)
                      ...|..-..+.|++.+|.+.-+..-..+. .+....-.+-..+.+..+.+.....-....+.. +.-..+|..+...+..
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~~ke  128 (966)
T KOG4626|consen   51 RLELAHRLYQGGDYKQAEKHCNMVGQEDP-TNTERLLLLSAIFFQGSRLDKSSAGSLLAIRKN-PQGAEAYSNLANILKE  128 (966)
T ss_pred             HHHHHHHHHhccCHHHHHHHHhHhhccCC-Ccccceeeehhhhhcccchhhhhhhhhhhhhcc-chHHHHHHHHHHHHHH
Confidence            44566667788999999988776655532 234444455566777777777766655555543 3367799999999999


Q ss_pred             cCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHH-HHHHHHHCCChHHHHH
Q 038401          102 LSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYST-LLNLYVENHKFVEALS  180 (542)
Q Consensus       102 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~-l~~~~~~~g~~~~a~~  180 (542)
                      .|+++.|+.+++.+++.. +.....|..+..++...|+.+.|.+.|.+..+.  .|+.....+ +...+-..|+.++|..
T Consensus       129 rg~~~~al~~y~~aiel~-p~fida~inla~al~~~~~~~~a~~~~~~alql--nP~l~ca~s~lgnLlka~Grl~ea~~  205 (966)
T KOG4626|consen  129 RGQLQDALALYRAAIELK-PKFIDAYINLAAALVTQGDLELAVQCFFEALQL--NPDLYCARSDLGNLLKAEGRLEEAKA  205 (966)
T ss_pred             hchHHHHHHHHHHHHhcC-chhhHHHhhHHHHHHhcCCCcccHHHHHHHHhc--CcchhhhhcchhHHHHhhcccchhHH
Confidence            999999999999999874 446889999999999999999999999998875  466554433 3344455899999999


Q ss_pred             HHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCC
Q 038401          181 VFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEI  260 (542)
Q Consensus       181 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  260 (542)
                      .|.+..+.. +-=...|..+...+-..|+...|+..|++..+.. +.-...|-.|...|...+.+++|...|....... 
T Consensus       206 cYlkAi~~q-p~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkld-P~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lr-  282 (966)
T KOG4626|consen  206 CYLKAIETQ-PCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLD-PNFLDAYINLGNVYKEARIFDRAVSCYLRALNLR-  282 (966)
T ss_pred             HHHHHHhhC-CceeeeehhcchHHhhcchHHHHHHHHHHhhcCC-CcchHHHhhHHHHHHHHhcchHHHHHHHHHHhcC-
Confidence            998888754 2235678889999999999999999999999764 2335678889999999999999999999887763 


Q ss_pred             CCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHH
Q 038401          261 EQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPN-AITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQT  339 (542)
Q Consensus       261 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  339 (542)
                      +.....+..+...|-..|..|.|+..+++..+.  .|+ +..|+.+..++-..|++.+|...|...+... +......+.
T Consensus       283 pn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~--~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~-p~hadam~N  359 (966)
T KOG4626|consen  283 PNHAVAHGNLACIYYEQGLLDLAIDTYKRALEL--QPNFPDAYNNLANALKDKGSVTEAVDCYNKALRLC-PNHADAMNN  359 (966)
T ss_pred             CcchhhccceEEEEeccccHHHHHHHHHHHHhc--CCCchHHHhHHHHHHHhccchHHHHHHHHHHHHhC-CccHHHHHH
Confidence            345677888888899999999999999999886  555 5689999999999999999999999999874 445778888


Q ss_pred             HHHHHHHcCCHHHHHHHHHHhcCCCC---CCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcC-HHHHHHHHHHHHhcCC
Q 038401          340 MIVAYERVGLVAHAKRLLHELRQPNT---IPRETAITILARAGRIEEATWVFRQAFDAGEVKD-ISVFGCMIELFSRNKK  415 (542)
Q Consensus       340 l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~  415 (542)
                      |...|...|.+++|.++|.....-.+   ...+.+...|-++|++++|+..+++++..  .|+ ...|+.++..|-..|+
T Consensus       360 Lgni~~E~~~~e~A~~ly~~al~v~p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI--~P~fAda~~NmGnt~ke~g~  437 (966)
T KOG4626|consen  360 LGNIYREQGKIEEATRLYLKALEVFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALRI--KPTFADALSNMGNTYKEMGD  437 (966)
T ss_pred             HHHHHHHhccchHHHHHHHHHHhhChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhc--CchHHHHHHhcchHHHHhhh
Confidence            99999999999999999998775333   45677899999999999999999999984  554 6789999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH
Q 038401          416 YANVIEVFEKMRSAGYFPDS-HIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ  475 (542)
Q Consensus       416 ~~~A~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  475 (542)
                      .+.|++.+.+++.  +.|.- ...+.|...|-..|...+|++-|+.+++..+..|+.....
T Consensus       438 v~~A~q~y~rAI~--~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkPDfpdA~cNl  496 (966)
T KOG4626|consen  438 VSAAIQCYTRAIQ--INPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKPDFPDAYCNL  496 (966)
T ss_pred             HHHHHHHHHHHHh--cCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCCCCchhhhHH
Confidence            9999999999998  66764 7888999999999999999999999999886556554433

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

Probab=99.92  E-value=5.6e-20  Score=173.91  Aligned_cols=454  Identities=11%  Similarity=0.090  Sum_probs=314.1

Q ss_pred             HHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCC--CCHHhHHHHHHHHHhcCCHHHHHHHHHH
Q 038401           37 LAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVS--GDLVLYSNLIELARKLSDYSKAISIFSR  114 (542)
Q Consensus        37 ~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~  114 (542)
                      .+...+...-.... -++...+.|...+...|++..++.+...+......  .-...|-.+.++|...|++++|..+|.+
T Consensus       254 ~~~~ll~~ay~~n~-~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~  332 (1018)
T KOG2002|consen  254 KGVQLLQRAYKENN-ENPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYME  332 (1018)
T ss_pred             HHHHHHHHHHhhcC-CCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHH
Confidence            34444444333322 25666677777777778888888888777765311  1223466677888888888888888877


Q ss_pred             hHhCCCCccH--hHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCC----ChHHHHHHHHHHHhc
Q 038401          115 LKSSGIVPDL--VAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENH----KFVEALSVFAEMNEV  188 (542)
Q Consensus       115 ~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g----~~~~a~~~~~~~~~~  188 (542)
                      ..+.  .++.  ..+..|.+.+.+.|+++.+...|+.+.... +.+..+...|...|...+    ..+.|..++.+..+.
T Consensus       333 s~k~--~~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~~-p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~  409 (1018)
T KOG2002|consen  333 SLKA--DNDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQL-PNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQ  409 (1018)
T ss_pred             HHcc--CCCCccccccchhHHHHHhchHHHHHHHHHHHHHhC-cchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhc
Confidence            7765  3333  334456777888888888888888877652 335566666666666664    456666777666665


Q ss_pred             CCCCChhhHHHHHHHHhccCCHHHHHHHHHHHH----HCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhc---CCC
Q 038401          189 NCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMR----KMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRK---EIE  261 (542)
Q Consensus       189 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---~~~  261 (542)
                      . +.|...|..+...+-....+.. +..|..+.    ..+..+.+...|.+...+...|+++.|...|......   ...
T Consensus       410 ~-~~d~~a~l~laql~e~~d~~~s-L~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n  487 (1018)
T KOG2002|consen  410 T-PVDSEAWLELAQLLEQTDPWAS-LDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVAN  487 (1018)
T ss_pred             c-cccHHHHHHHHHHHHhcChHHH-HHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcC
Confidence            3 5577777777777766555444 65555443    4455567778888888888888888888888877654   112


Q ss_pred             CcH------HHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCH
Q 038401          262 QNV------VTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAI-TYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDP  334 (542)
Q Consensus       262 ~~~------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  334 (542)
                      ++.      .+-..+...+-..++.+.|.+.+..+...  .|+-. .|..+.......+...+|...+......+ ..++
T Consensus       488 ~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilke--hp~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d-~~np  564 (1018)
T KOG2002|consen  488 KDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKE--HPGYIDAYLRLGCMARDKNNLYEASLLLKDALNID-SSNP  564 (1018)
T ss_pred             ccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHH--CchhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcc-cCCc
Confidence            222      23334555556667888888888888766  44433 34444433334577788888888887654 4466


Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHhcC-----CCCCCHHHHHHHHHH------------hCCHHHHHHHHHHHHHcCCC
Q 038401          335 VLYQTMIVAYERVGLVAHAKRLLHELRQ-----PNTIPRETAITILAR------------AGRIEEATWVFRQAFDAGEV  397 (542)
Q Consensus       335 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~l~~~~~~------------~g~~~~A~~~~~~~~~~~~~  397 (542)
                      ..+..+...+.+...+..|.+-|..+.+     +++.....+...+.+            .+..+.|+++|.++++.. +
T Consensus       565 ~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~d-p  643 (1018)
T KOG2002|consen  565 NARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRND-P  643 (1018)
T ss_pred             HHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcC-c
Confidence            6777777788888888888876665543     233333344454432            356789999999999874 4


Q ss_pred             cCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-H
Q 038401          398 KDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-M  476 (542)
Q Consensus       398 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l  476 (542)
                      .|...-|.++-+++..|++.+|..+|.+..+... .+..+|..++.+|..+|++..|++.|+...+......+..... |
T Consensus       644 kN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~-~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~L  722 (1018)
T KOG2002|consen  644 KNMYAANGIGIVLAEKGRFSEARDIFSQVREATS-DFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYL  722 (1018)
T ss_pred             chhhhccchhhhhhhccCchHHHHHHHHHHHHHh-hCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHH
Confidence            6888888899999999999999999999998542 3557888999999999999999999999998875545555555 9


Q ss_pred             HHHHhccCChHHHHHHHHH-HhcCCC
Q 038401          477 LSLYGARKDFNMLESLFER-LDSDSN  501 (542)
Q Consensus       477 ~~~~~~~g~~~~A~~~~~~-~~~~~~  501 (542)
                      +.++.++|.+.+|.+.+.. +...|.
T Consensus       723 ara~y~~~~~~eak~~ll~a~~~~p~  748 (1018)
T KOG2002|consen  723 ARAWYEAGKLQEAKEALLKARHLAPS  748 (1018)
T ss_pred             HHHHHHhhhHHHHHHHHHHHHHhCCc
Confidence            9999999999999998888 444444

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

Probab=99.92  E-value=6.2e-20  Score=182.17  Aligned_cols=423  Identities=13%  Similarity=0.045  Sum_probs=182.3

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHC
Q 038401           93 SNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVEN  172 (542)
Q Consensus        93 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~  172 (542)
                      ......+.+.|++++|+..|++.+..  .|+...|..+..+|.+.|++++|...++...+.. +.+...+..+..+|...
T Consensus       131 k~~G~~~~~~~~~~~Ai~~y~~al~~--~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~a~a~~~l  207 (615)
T TIGR00990       131 KEKGNKAYRNKDFNKAIKLYSKAIEC--KPDPVYYSNRAACHNALGDWEKVVEDTTAALELD-PDYSKALNRRANAYDGL  207 (615)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHc
Confidence            34455666667777777777776654  4556666666667777777777777777766642 22455666666777777


Q ss_pred             CChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHH
Q 038401          173 HKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLF  252 (542)
Q Consensus       173 g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~  252 (542)
                      |++++|+..|......+. .+......++.....    ..+........+.. +++...+..+.. +...........-+
T Consensus       208 g~~~eA~~~~~~~~~~~~-~~~~~~~~~~~~~l~----~~a~~~~~~~l~~~-~~~~~~~~~~~~-~~~~~~~~~~~~~~  280 (615)
T TIGR00990       208 GKYADALLDLTASCIIDG-FRNEQSAQAVERLLK----KFAESKAKEILETK-PENLPSVTFVGN-YLQSFRPKPRPAGL  280 (615)
T ss_pred             CCHHHHHHHHHHHHHhCC-CccHHHHHHHHHHHH----HHHHHHHHHHHhcC-CCCCCCHHHHHH-HHHHccCCcchhhh
Confidence            777777666655543321 111111111111111    11111111111111 111111111111 11100000000000


Q ss_pred             HHHHhcCCCCc-HHHHHHHHHH---HHccCCHHHHHHHHHHHHHcC-CCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 038401          253 RLMQRKEIEQN-VVTYNTMIKI---YGKSLEHEKATNLMQEMQNRG-IEP-NAITYSTIIAIWGKAGKLDRAAMLFQKLR  326 (542)
Q Consensus       253 ~~~~~~~~~~~-~~~~~~l~~~---~~~~~~~~~a~~~~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  326 (542)
                      ......  .+. ...+..+...   ....+++++|.+.|+...+.+ ..| ....+..+...+...|++++|+..++...
T Consensus       281 ~~~~~~--~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal  358 (615)
T TIGR00990       281 EDSNEL--DEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSI  358 (615)
T ss_pred             hccccc--ccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            000000  000 0000000000   011234455555555544432 112 22334444444445555555555555554


Q ss_pred             hcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCC---CCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHH
Q 038401          327 SSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPN---TIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVF  403 (542)
Q Consensus       327 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~  403 (542)
                      +.. +.....|..+...+...|++++|...++.+...+   +..+..+..++...|++++|+..|+++++.. +.+...+
T Consensus       359 ~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~  436 (615)
T TIGR00990       359 ELD-PRVTQSYIKRASMNLELGDPDKAEEDFDKALKLNSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSH  436 (615)
T ss_pred             HcC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHH
Confidence            432 1123344444445555555555555555443321   2223333444455555555555555555542 2234444


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchH-----HHHH-H
Q 038401          404 GCMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQ-----VHFQ-M  476 (542)
Q Consensus       404 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~-----~~~~-l  476 (542)
                      ..++.++.+.|++++|+..|++.++.  .| +...+..++..+...|++++|+..|+++++.....+..     ..+. .
T Consensus       437 ~~la~~~~~~g~~~eA~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a  514 (615)
T TIGR00990       437 IQLGVTQYKEGSIASSMATFRRCKKN--FPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKA  514 (615)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHH
Confidence            44555555555555555555555542  23 23444555555555555555555555555443110000     0000 1


Q ss_pred             HHHHhccCChHHHHHHHHH-HhcCCCCCchhHHHHHHHHHHhhcchhhHHHHHHHHHh
Q 038401          477 LSLYGARKDFNMLESLFER-LDSDSNINKKELHHVVAGIYERANRLNDASRIMNRMNK  533 (542)
Q Consensus       477 ~~~~~~~g~~~~A~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  533 (542)
                      +..+...|++++|.+++++ +..+|.  +...+..++.++...|++++|+++|++..+
T Consensus       515 ~~~~~~~~~~~eA~~~~~kAl~l~p~--~~~a~~~la~~~~~~g~~~eAi~~~e~A~~  570 (615)
T TIGR00990       515 LALFQWKQDFIEAENLCEKALIIDPE--CDIAVATMAQLLLQQGDVDEALKLFERAAE  570 (615)
T ss_pred             HHHHHHhhhHHHHHHHHHHHHhcCCC--cHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            1122224555555555555 222222  233455555555555555555555555433

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

Probab=99.92  E-value=3.2e-19  Score=177.10  Aligned_cols=428  Identities=13%  Similarity=0.053  Sum_probs=291.6

Q ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHH
Q 038401           21 AYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELAR  100 (542)
Q Consensus        21 ~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  100 (542)
                      .+......+.+.|++++|+..|+..++.  .|++..|..+..+|.+.|++++|++.++..++..+ .+...+..+..++.
T Consensus       129 ~~k~~G~~~~~~~~~~~Ai~~y~~al~~--~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~p-~~~~a~~~~a~a~~  205 (615)
T TIGR00990       129 KLKEKGNKAYRNKDFNKAIKLYSKAIEC--KPDPVYYSNRAACHNALGDWEKVVEDTTAALELDP-DYSKALNRRANAYD  205 (615)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHH
Confidence            3556677888899999999999998875  56778899999999999999999999999988743 35678888999999


Q ss_pred             hcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHHHHH
Q 038401          101 KLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALS  180 (542)
Q Consensus       101 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a~~  180 (542)
                      ..|++++|...|..+...+...+. ....++..+..    ..+........+.. +++...+..+.. |...........
T Consensus       206 ~lg~~~eA~~~~~~~~~~~~~~~~-~~~~~~~~~l~----~~a~~~~~~~l~~~-~~~~~~~~~~~~-~~~~~~~~~~~~  278 (615)
T TIGR00990       206 GLGKYADALLDLTASCIIDGFRNE-QSAQAVERLLK----KFAESKAKEILETK-PENLPSVTFVGN-YLQSFRPKPRPA  278 (615)
T ss_pred             HcCCHHHHHHHHHHHHHhCCCccH-HHHHHHHHHHH----HHHHHHHHHHHhcC-CCCCCCHHHHHH-HHHHccCCcchh
Confidence            999999999888776654311121 11122211111    12222222222221 112222222222 222212222221


Q ss_pred             HHHHHHhcCCCCC-hhhHHHHHHH---HhccCCHHHHHHHHHHHHHCC-C-CCChhHHHHHHHHHHhcCcHHHHHHHHHH
Q 038401          181 VFAEMNEVNCPLD-LTTCNIMIDV---YGQLDMAKDADRLFWSMRKMG-I-DPSVVSYNTLLRVYGEAELFGEAIHLFRL  254 (542)
Q Consensus       181 ~~~~~~~~~~~~~-~~~~~~l~~~---~~~~~~~~~a~~~~~~~~~~~-~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~  254 (542)
                      -+....+.  .+. ...+..+...   ....+.+++|...|+.....+ . +.....+..+...+...|++++|+..++.
T Consensus       279 ~~~~~~~~--~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~k  356 (615)
T TIGR00990       279 GLEDSNEL--DEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSK  356 (615)
T ss_pred             hhhccccc--ccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            12211111  111 1111111111   123467889999999888764 1 23445677777888889999999999998


Q ss_pred             HHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCH
Q 038401          255 MQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDP  334 (542)
Q Consensus       255 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  334 (542)
                      ..... +.....|..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|...|++.++.. +.+.
T Consensus       357 al~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~  433 (615)
T TIGR00990       357 SIELD-PRVTQSYIKRASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFI  433 (615)
T ss_pred             HHHcC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCH
Confidence            88763 2345678888888889999999999999887763 3356788888888889999999999999988874 3456


Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHhcCC---CCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHH------HHHH
Q 038401          335 VLYQTMIVAYERVGLVAHAKRLLHELRQP---NTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDIS------VFGC  405 (542)
Q Consensus       335 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~------~~~~  405 (542)
                      ..+..+..++.+.|++++|+..+++....   ++..+..+..++...|++++|++.|+++++.....+..      .++.
T Consensus       434 ~~~~~la~~~~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~  513 (615)
T TIGR00990       434 FSHIQLGVTQYKEGSIASSMATFRRCKKNFPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINK  513 (615)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHH
Confidence            77777888888999999999999887653   33445667788889999999999999998764322111      1222


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHHHHcC
Q 038401          406 MIELFSRNKKYANVIEVFEKMRSAGYFPDS-HIIALVLNSYGKLREFETADDLYSEMQEEG  465 (542)
Q Consensus       406 l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  465 (542)
                      .+..+...|++++|.+++++.+..  .|+. ..+..++..+.+.|++++|+++|+++.+..
T Consensus       514 a~~~~~~~~~~~eA~~~~~kAl~l--~p~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l~  572 (615)
T TIGR00990       514 ALALFQWKQDFIEAENLCEKALII--DPECDIAVATMAQLLLQQGDVDEALKLFERAAELA  572 (615)
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHh
Confidence            223344569999999999998874  4544 568888999999999999999999998865

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.92  E-value=2.9e-21  Score=182.40  Aligned_cols=303  Identities=16%  Similarity=0.118  Sum_probs=192.2

Q ss_pred             HHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCC---HHhHHHHHHHHHhc
Q 038401           26 LRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGD---LVLYSNLIELARKL  102 (542)
Q Consensus        26 l~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~  102 (542)
                      ...+...|++++|...|+.+.+.+. .+..++..+...+...|++++|..+++.+...+..++   ...+..+...+...
T Consensus        42 g~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~  120 (389)
T PRK11788         42 GLNFLLNEQPDKAIDLFIEMLKVDP-ETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKA  120 (389)
T ss_pred             HHHHHhcCChHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHC
Confidence            3345566777777777777777642 2455677777777777777777777777766432211   23456667777777


Q ss_pred             CCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHHHHCCChHHH
Q 038401          103 SDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPD----TVSYSTLLNLYVENHKFVEA  178 (542)
Q Consensus       103 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~----~~~~~~l~~~~~~~g~~~~a  178 (542)
                      |++++|..+|+++.+.. +++..++..++..+...|++++|.+.++.+.+.+..+.    ...+..+...+...|++++|
T Consensus       121 g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A  199 (389)
T PRK11788        121 GLLDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAA  199 (389)
T ss_pred             CCHHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHH
Confidence            77777777777776542 34566677777777777777777777777766543221    12344556666677777777


Q ss_pred             HHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhc
Q 038401          179 LSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRK  258 (542)
Q Consensus       179 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  258 (542)
                      ...|+++.+.. +.+...+..+...+.+.|++++|.++++++...+......+++.++.+|...|++++|...++.+.+.
T Consensus       200 ~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~  278 (389)
T PRK11788        200 RALLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEE  278 (389)
T ss_pred             HHHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            77777776643 33455566666777777777777777777765432222345666667777777777777777776665


Q ss_pred             CCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh---cCCHHHHHHHHHHHHhcCCCCCHH
Q 038401          259 EIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGK---AGKLDRAAMLFQKLRSSGVEIDPV  335 (542)
Q Consensus       259 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~  335 (542)
                      .  |+...+..++..+.+.|++++|..+++++.+.  .|+..++..++..+..   .|+.+++..+++.+.+.++.|++.
T Consensus       279 ~--p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p~  354 (389)
T PRK11788        279 Y--PGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKPR  354 (389)
T ss_pred             C--CCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCCC
Confidence            3  44445566667777777777777777766655  5666666666655543   346667777777776655554443

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.90  E-value=1.1e-18  Score=176.23  Aligned_cols=400  Identities=9%  Similarity=0.030  Sum_probs=206.5

Q ss_pred             CHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHH
Q 038401           53 DRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMIN  132 (542)
Q Consensus        53 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  132 (542)
                      ++....-.+......|+.++|++++.+..... +.+...+..+..++...|++++|..+|++..+.. +.+...+..+..
T Consensus        14 ~~~~~~d~~~ia~~~g~~~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~   91 (765)
T PRK10049         14 SNNQIADWLQIALWAGQDAEVITVYNRYRVHM-QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLE-PQNDDYQRGLIL   91 (765)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            44445555555666777777777776665522 3344456666667777777777777777766542 334555566666


Q ss_pred             HHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHH
Q 038401          133 VFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKD  212 (542)
Q Consensus       133 ~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  212 (542)
                      .+...|++++|...+++..+.. +.+.. +..+..++...|+.++|+..++++.+.. |.+...+..+...+...+..+.
T Consensus        92 ~l~~~g~~~eA~~~l~~~l~~~-P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~-P~~~~~~~~la~~l~~~~~~e~  168 (765)
T PRK10049         92 TLADAGQYDEALVKAKQLVSGA-PDKAN-LLALAYVYKRAGRHWDELRAMTQALPRA-PQTQQYPTEYVQALRNNRLSAP  168 (765)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhC-CCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCChHH
Confidence            6667777777777777766652 22344 6666666667777777777777766653 2344444555556666666666


Q ss_pred             HHHHHHHHHHCCCCCCh------hHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCH---HHH
Q 038401          213 ADRLFWSMRKMGIDPSV------VSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEH---EKA  283 (542)
Q Consensus       213 a~~~~~~~~~~~~~~~~------~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~---~~a  283 (542)
                      |...++....   .|+.      .....++......+.                              ...+++   ++|
T Consensus       169 Al~~l~~~~~---~p~~~~~l~~~~~~~~~r~~~~~~~------------------------------~~~~r~~~ad~A  215 (765)
T PRK10049        169 ALGAIDDANL---TPAEKRDLEADAAAELVRLSFMPTR------------------------------SEKERYAIADRA  215 (765)
T ss_pred             HHHHHHhCCC---CHHHHHHHHHHHHHHHHHhhccccc------------------------------ChhHHHHHHHHH
Confidence            6666655442   2221      000111111110000                              011112   344


Q ss_pred             HHHHHHHHHc-CCCCCHH-HHH----HHHHHHHhcCCHHHHHHHHHHHHhcCCC-CCHHHHHHHHHHHHHcCCHHHHHHH
Q 038401          284 TNLMQEMQNR-GIEPNAI-TYS----TIIAIWGKAGKLDRAAMLFQKLRSSGVE-IDPVLYQTMIVAYERVGLVAHAKRL  356 (542)
Q Consensus       284 ~~~~~~~~~~-~~~p~~~-~~~----~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~  356 (542)
                      +..++.+.+. ...|+.. .+.    ..+..+...|++++|+..|+.+.+.+.+ |+. ....+..+|...|++++|...
T Consensus       216 l~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~~  294 (765)
T PRK10049        216 LAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQSI  294 (765)
T ss_pred             HHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHHH
Confidence            4444444432 1111110 000    0012223445555555555555544311 111 111123445555555555555


Q ss_pred             HHHhcCCCCCC-------HHHHHHHHHHhCCHHHHHHHHHHHHHcCC-----------CcC---HHHHHHHHHHHHhcCC
Q 038401          357 LHELRQPNTIP-------RETAITILARAGRIEEATWVFRQAFDAGE-----------VKD---ISVFGCMIELFSRNKK  415 (542)
Q Consensus       357 ~~~~~~~~~~~-------~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-----------~~~---~~~~~~l~~~~~~~g~  415 (542)
                      |+++...++..       ...++.++...|++++|.+.++.+.+..+           .|+   ...+..++..+...|+
T Consensus       295 l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~  374 (765)
T PRK10049        295 LTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSND  374 (765)
T ss_pred             HHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCC
Confidence            55543322111       12223344555555555555555554321           112   1234455556666777


Q ss_pred             HHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchH-HHHH-HHHHHhccCChHHHHHH
Q 038401          416 YANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQ-VHFQ-MLSLYGARKDFNMLESL  492 (542)
Q Consensus       416 ~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~-~~~~-l~~~~~~~g~~~~A~~~  492 (542)
                      +++|+++++++...  .| +...+..++..+...|++++|++.++++++..   |+. .... .+.++...|++++|...
T Consensus       375 ~~eA~~~l~~al~~--~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~---Pd~~~l~~~~a~~al~~~~~~~A~~~  449 (765)
T PRK10049        375 LPQAEMRARELAYN--APGNQGLRIDYASVLQARGWPRAAENELKKAEVLE---PRNINLEVEQAWTALDLQEWRQMDVL  449 (765)
T ss_pred             HHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhC---CCChHHHHHHHHHHHHhCCHHHHHHH
Confidence            77777777777653  23 44566666667777777777777777777665   322 2222 55566667777777777


Q ss_pred             HHHH
Q 038401          493 FERL  496 (542)
Q Consensus       493 ~~~~  496 (542)
                      ++++
T Consensus       450 ~~~l  453 (765)
T PRK10049        450 TDDV  453 (765)
T ss_pred             HHHH
Confidence            7774

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.90  E-value=1.8e-20  Score=176.93  Aligned_cols=298  Identities=13%  Similarity=0.138  Sum_probs=172.2

Q ss_pred             HhccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCc---HHHHHHHHHHHHccCCH
Q 038401          204 YGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQN---VVTYNTMIKIYGKSLEH  280 (542)
Q Consensus       204 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~  280 (542)
                      +...|++++|...|.++.+.+ +.+..++..+...+...|++++|..+++.+......++   ...+..+...|.+.|++
T Consensus        45 ~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~  123 (389)
T PRK11788         45 FLLNEQPDKAIDLFIEMLKVD-PETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLL  123 (389)
T ss_pred             HHhcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCH
Confidence            344455555555555555442 22333445555555555555555555555544321111   12344444555555555


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHh
Q 038401          281 EKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHEL  360 (542)
Q Consensus       281 ~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  360 (542)
                      ++|..+|+++.+.. +++..++..++..+...|++++|.+.++.+.+.+..+......                      
T Consensus       124 ~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~----------------------  180 (389)
T PRK11788        124 DRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIA----------------------  180 (389)
T ss_pred             HHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHH----------------------
Confidence            55555555554431 2233444445555555555555555555544432111100000                      


Q ss_pred             cCCCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC--HHHH
Q 038401          361 RQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPD--SHII  438 (542)
Q Consensus       361 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~--~~~~  438 (542)
                           ..+..+...+...|++++|...|+++.+.. +.+...+..++..+.+.|++++|.++++++.+.+  |+  ..++
T Consensus       181 -----~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~--p~~~~~~~  252 (389)
T PRK11788        181 -----HFYCELAQQALARGDLDAARALLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQD--PEYLSEVL  252 (389)
T ss_pred             -----HHHHHHHHHHHhCCCHHHHHHHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC--hhhHHHHH
Confidence                 001223445566777777777777777653 3446677778888888888888888888888643  43  3566


Q ss_pred             HHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHHHHH-hcCCCCCchhHHHHHHHHHH
Q 038401          439 ALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLFERL-DSDSNINKKELHHVVAGIYE  516 (542)
Q Consensus       439 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~~~~l~~~~~  516 (542)
                      ..++.+|...|++++|...++++.+..   |+..... ++.++.+.|++++|..+++++ ...|+   ...+..+...+.
T Consensus       253 ~~l~~~~~~~g~~~~A~~~l~~~~~~~---p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~P~---~~~~~~l~~~~~  326 (389)
T PRK11788        253 PKLMECYQALGDEAEGLEFLRRALEEY---PGADLLLALAQLLEEQEGPEAAQALLREQLRRHPS---LRGFHRLLDYHL  326 (389)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC---CCchHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcC---HHHHHHHHHHhh
Confidence            777888888888888888888888765   3322224 778888888888888888874 33333   234444555544


Q ss_pred             h---hcchhhHHHHHHHHHhcCCCCC
Q 038401          517 R---ANRLNDASRIMNRMNKRRTFNS  539 (542)
Q Consensus       517 ~---~g~~~~A~~~~~~~~~~~~~~~  539 (542)
                      .   .|+.++|+.++++|.++++.|+
T Consensus       327 ~~~~~g~~~~a~~~~~~~~~~~~~~~  352 (389)
T PRK11788        327 AEAEEGRAKESLLLLRDLVGEQLKRK  352 (389)
T ss_pred             hccCCccchhHHHHHHHHHHHHHhCC
Confidence            3   4588888888888888777665

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.90  E-value=6.2e-19  Score=178.16  Aligned_cols=428  Identities=11%  Similarity=0.030  Sum_probs=274.6

Q ss_pred             hhhhHHHHhhCCCCCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 038401            3 VAILDWINEEARYSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQ   82 (542)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~   82 (542)
                      ++.++. ....  +.+..-..-.+......|+.++|++++....... +.+...+..+...+...|++++|.+++++..+
T Consensus         2 ~~~~~~-~~~~--~~~~~~~~d~~~ia~~~g~~~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~   77 (765)
T PRK10049          2 LSWLRQ-ALKS--ALSNNQIADWLQIALWAGQDAEVITVYNRYRVHM-QLPARGYAAVAVAYRNLKQWQNSLTLWQKALS   77 (765)
T ss_pred             chhhhh-hhcc--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            444444 3333  4455555566777889999999999999998732 34566799999999999999999999999988


Q ss_pred             CCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHH
Q 038401           83 DRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSY  162 (542)
Q Consensus        83 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~  162 (542)
                      .. +.+...+..+..++...|++++|...++++.+.. +.+.. +..+..++...|+.++|...++++.+.. +.+...+
T Consensus        78 ~~-P~~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~~-P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~-P~~~~~~  153 (765)
T PRK10049         78 LE-PQNDDYQRGLILTLADAGQYDEALVKAKQLVSGA-PDKAN-LLALAYVYKRAGRHWDELRAMTQALPRA-PQTQQYP  153 (765)
T ss_pred             hC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHH
Confidence            74 3356777888899999999999999999998873 44566 8888899999999999999999999874 2356666


Q ss_pred             HHHHHHHHHCCChHHHHHHHHHHHhcCCCCCh------hhHHHHHHHHh-----ccCCH---HHHHHHHHHHHHC-CCCC
Q 038401          163 STLLNLYVENHKFVEALSVFAEMNEVNCPLDL------TTCNIMIDVYG-----QLDMA---KDADRLFWSMRKM-GIDP  227 (542)
Q Consensus       163 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~------~~~~~l~~~~~-----~~~~~---~~a~~~~~~~~~~-~~~~  227 (542)
                      ..+..++...|..+.|++.++....   .|+.      ......+....     ..+++   ++|...++.+.+. ...|
T Consensus       154 ~~la~~l~~~~~~e~Al~~l~~~~~---~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p  230 (765)
T PRK10049        154 TEYVQALRNNRLSAPALGAIDDANL---TPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNP  230 (765)
T ss_pred             HHHHHHHHHCCChHHHHHHHHhCCC---CHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCC
Confidence            7788888899999999999987654   1221      01111111111     11122   4455555555532 1112


Q ss_pred             Chh-HHH----HHHHHHHhcCcHHHHHHHHHHHHhcCCC-CcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCC---C
Q 038401          228 SVV-SYN----TLLRVYGEAELFGEAIHLFRLMQRKEIE-QNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEP---N  298 (542)
Q Consensus       228 ~~~-~~~----~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p---~  298 (542)
                      +.. .+.    ..+..+...|++++|+..|+.+.+.+.+ |+. ....+...|...|++++|...|+++.......   .
T Consensus       231 ~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~  309 (765)
T PRK10049        231 DATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQSILTELFYHPETIADLS  309 (765)
T ss_pred             ccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCC
Confidence            111 110    0022233445555566655555554321 111 11113445555555555555555554331000   0


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCC---CHHHHHHHH
Q 038401          299 AITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTI---PRETAITIL  375 (542)
Q Consensus       299 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~l~~~~  375 (542)
                      ......+..++...|++++|...++.+.+.. ++....+...      .             ..|+..   ........+
T Consensus       310 ~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~-P~~~~~~~~~------~-------------~~p~~~~~~a~~~~a~~l  369 (765)
T PRK10049        310 DEELADLFYSLLESENYPGALTVTAHTINNS-PPFLRLYGSP------T-------------SIPNDDWLQGQSLLSQVA  369 (765)
T ss_pred             hHHHHHHHHHHHhcccHHHHHHHHHHHhhcC-CceEeecCCC------C-------------CCCCchHHHHHHHHHHHH
Confidence            1223334444455555555555555555432 1111000000      0             000100   112345667


Q ss_pred             HHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHhccCcHHHH
Q 038401          376 ARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPD-SHIIALVLNSYGKLREFETA  454 (542)
Q Consensus       376 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A  454 (542)
                      ...|++++|++.++++.... +.+...+..++..+...|++++|++.++++++  ..|+ ...+...+..+...|++++|
T Consensus       370 ~~~g~~~eA~~~l~~al~~~-P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~--l~Pd~~~l~~~~a~~al~~~~~~~A  446 (765)
T PRK10049        370 KYSNDLPQAEMRARELAYNA-PGNQGLRIDYASVLQARGWPRAAENELKKAEV--LEPRNINLEVEQAWTALDLQEWRQM  446 (765)
T ss_pred             HHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh--hCCCChHHHHHHHHHHHHhCCHHHH
Confidence            78899999999999988763 45688899999999999999999999999998  4575 46666777788899999999


Q ss_pred             HHHHHHHHHcC
Q 038401          455 DDLYSEMQEEG  465 (542)
Q Consensus       455 ~~~~~~~~~~~  465 (542)
                      ...++++++..
T Consensus       447 ~~~~~~ll~~~  457 (765)
T PRK10049        447 DVLTDDVVARE  457 (765)
T ss_pred             HHHHHHHHHhC
Confidence            99999999976

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.90  E-value=2e-19  Score=177.77  Aligned_cols=332  Identities=11%  Similarity=-0.023  Sum_probs=237.4

Q ss_pred             hHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHH
Q 038401          125 VAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVY  204 (542)
Q Consensus       125 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  204 (542)
                      .-...++..+.+.|++++|..+++........ +...+..++.+....|++++|...++++.... |.+...+..+...+
T Consensus        43 ~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~-~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~-P~~~~a~~~la~~l  120 (656)
T PRK15174         43 QNIILFAIACLRKDETDVGLTLLSDRVLTAKN-GRDLLRRWVISPLASSQPDAVLQVVNKLLAVN-VCQPEDVLLVASVL  120 (656)
T ss_pred             cCHHHHHHHHHhcCCcchhHHHhHHHHHhCCC-chhHHHHHhhhHhhcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHH
Confidence            34455667778889999999998888876432 45556666677778899999999999988864 44667788888888


Q ss_pred             hccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHH
Q 038401          205 GQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKAT  284 (542)
Q Consensus       205 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  284 (542)
                      ...|++++|...++++.... +.+...+..+...+...|++++|...++.+...... +...+..+ ..+...|++++|.
T Consensus       121 ~~~g~~~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~-~~~a~~~~-~~l~~~g~~~eA~  197 (656)
T PRK15174        121 LKSKQYATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKELQAISLARTQAQEVPP-RGDMIATC-LSFLNKSRLPEDH  197 (656)
T ss_pred             HHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCC-CHHHHHHH-HHHHHcCCHHHHH
Confidence            88899999999998888763 445667788888888899999999888887765432 33333333 3477788999999


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHH----HHHHHHHh
Q 038401          285 NLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAH----AKRLLHEL  360 (542)
Q Consensus       285 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~----a~~~~~~~  360 (542)
                      ..++.+......++...+..+...+...|++++|...++.+.... +.+...+..+...+...|++++    |...+++.
T Consensus       198 ~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~A  276 (656)
T PRK15174        198 DLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHA  276 (656)
T ss_pred             HHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHH
Confidence            888888766433344455555677788889999999998888764 4467777778888888888875    67777776


Q ss_pred             cCCCCC---CHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH-H
Q 038401          361 RQPNTI---PRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDS-H  436 (542)
Q Consensus       361 ~~~~~~---~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~-~  436 (542)
                      ...++.   .+..+...+...|++++|...++++++.. +.+...+..+..++...|++++|+..|+++...  .|+. .
T Consensus       277 l~l~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~-P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~--~P~~~~  353 (656)
T PRK15174        277 LQFNSDNVRIVTLYADALIRTGQNEKAIPLLQQSLATH-PDLPYVRAMYARALRQVGQYTAASDEFVQLARE--KGVTSK  353 (656)
T ss_pred             HhhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CccchH
Confidence            553333   34455666777777777777777777653 344556666777777777777777777777763  3543 2


Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHHHcC
Q 038401          437 IIALVLNSYGKLREFETADDLYSEMQEEG  465 (542)
Q Consensus       437 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  465 (542)
                      .+..+..++...|+.++|...|+++.+..
T Consensus       354 ~~~~~a~al~~~G~~deA~~~l~~al~~~  382 (656)
T PRK15174        354 WNRYAAAALLQAGKTSEAESVFEHYIQAR  382 (656)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            23334556677777777777777777765

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.90  E-value=4.2e-19  Score=175.45  Aligned_cols=327  Identities=11%  Similarity=0.008  Sum_probs=150.4

Q ss_pred             HHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCH
Q 038401           26 LRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDY  105 (542)
Q Consensus        26 l~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  105 (542)
                      +..+.+.|++++|..+++........ +...+..++.+....|++++|+..++++.+..+ .+...+..+...+...|++
T Consensus        49 ~~~~~~~g~~~~A~~l~~~~l~~~p~-~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~P-~~~~a~~~la~~l~~~g~~  126 (656)
T PRK15174         49 AIACLRKDETDVGLTLLSDRVLTAKN-GRDLLRRWVISPLASSQPDAVLQVVNKLLAVNV-CQPEDVLLVASVLLKSKQY  126 (656)
T ss_pred             HHHHHhcCCcchhHHHhHHHHHhCCC-chhHHHHHhhhHhhcCCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHcCCH
Confidence            34444555555555555555544322 233334444444445555555555555554422 1344444455555555555


Q ss_pred             HHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHHHHHHHHHH
Q 038401          106 SKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEM  185 (542)
Q Consensus       106 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  185 (542)
                      ++|...++++.+.. +.+...+..+...+...|++++|...++.+...... +...+..+ ..+...|++++|...++.+
T Consensus       127 ~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~-~~~a~~~~-~~l~~~g~~~eA~~~~~~~  203 (656)
T PRK15174        127 ATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKELQAISLARTQAQEVPP-RGDMIATC-LSFLNKSRLPEDHDLARAL  203 (656)
T ss_pred             HHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCC-CHHHHHHH-HHHHHcCCHHHHHHHHHHH
Confidence            55555555555432 223444445555555555555555555544433211 11222222 2244455555555555554


Q ss_pred             HhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHH----HHHHHHHHHhcCCC
Q 038401          186 NEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGE----AIHLFRLMQRKEIE  261 (542)
Q Consensus       186 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~----a~~~~~~~~~~~~~  261 (542)
                      .+....++......+...+...|++++|...++.+.... +.+...+..+...+...|++++    |...++...... +
T Consensus       204 l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~-P  281 (656)
T PRK15174        204 LPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFN-S  281 (656)
T ss_pred             HhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhC-C
Confidence            443222222233333444455555555555555555443 2334444445555555555543    455555554432 2


Q ss_pred             CcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 038401          262 QNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMI  341 (542)
Q Consensus       262 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  341 (542)
                      .+...+..+...+.+.|++++|...+++..... +.+...+..+..++...|++++|...++.+...+. .+...+..+.
T Consensus       282 ~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~-P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~P-~~~~~~~~~a  359 (656)
T PRK15174        282 DNVRIVTLYADALIRTGQNEKAIPLLQQSLATH-PDLPYVRAMYARALRQVGQYTAASDEFVQLAREKG-VTSKWNRYAA  359 (656)
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCc-cchHHHHHHH
Confidence            234445555555555555555555555554432 11233344444455555555555555555544321 1112222233


Q ss_pred             HHHHHcCCHHHHHHHHHHhc
Q 038401          342 VAYERVGLVAHAKRLLHELR  361 (542)
Q Consensus       342 ~~~~~~~~~~~a~~~~~~~~  361 (542)
                      .++...|+.++|...|++..
T Consensus       360 ~al~~~G~~deA~~~l~~al  379 (656)
T PRK15174        360 AALLQAGKTSEAESVFEHYI  379 (656)
T ss_pred             HHHHHCCCHHHHHHHHHHHH
Confidence            44445555555555555543

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.89  E-value=3.4e-17  Score=162.27  Aligned_cols=429  Identities=11%  Similarity=0.058  Sum_probs=255.6

Q ss_pred             HHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHH
Q 038401           27 RNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYS  106 (542)
Q Consensus        27 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  106 (542)
                      -...+.|+++.|+..|+...+..+.-.+..+ .++..+...|+.++|+..+++.... ..........+...+...|+++
T Consensus        42 ii~~r~Gd~~~Al~~L~qaL~~~P~~~~av~-dll~l~~~~G~~~~A~~~~eka~~p-~n~~~~~llalA~ly~~~gdyd  119 (822)
T PRK14574         42 IIRARAGDTAPVLDYLQEESKAGPLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQSS-MNISSRGLASAARAYRNEKRWD  119 (822)
T ss_pred             HHHHhCCCHHHHHHHHHHHHhhCccchhhHH-HHHHHHHHcCCcHHHHHHHHHhccC-CCCCHHHHHHHHHHHHHcCCHH
Confidence            3456788888888888888876432112233 7777777788888888888888721 1222333344456777888888


Q ss_pred             HHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHH
Q 038401          107 KAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMN  186 (542)
Q Consensus       107 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  186 (542)
                      +|+++|+++.+.. +.++..+..++..+...++.++|++.++++...  .|+...+..++..+...++..+|++.++++.
T Consensus       120 ~Aiely~kaL~~d-P~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~~AL~~~ekll  196 (822)
T PRK14574        120 QALALWQSSLKKD-PTNPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNYDALQASSEAV  196 (822)
T ss_pred             HHHHHHHHHHhhC-CCCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHHHHHHHHHHHH
Confidence            8888888888764 334666677778888888888888888888775  4555555444444444566656888888888


Q ss_pred             hcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhHH------HHHHHHH---H--hcC---cHHHHHHHH
Q 038401          187 EVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSY------NTLLRVY---G--EAE---LFGEAIHLF  252 (542)
Q Consensus       187 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~------~~ll~~~---~--~~~---~~~~a~~~~  252 (542)
                      +.. |.+...+..+..+..+.|-...|.++...-... +.+....+      ..+++.-   .  ...   -.+.|+.-+
T Consensus       197 ~~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~-f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~  274 (822)
T PRK14574        197 RLA-PTSEEVLKNHLEILQRNRIVEPALRLAKENPNL-VSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKALADY  274 (822)
T ss_pred             HhC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccc-cCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHH
Confidence            865 446777777778888888877777665542211 01111000      0001000   0  011   233444444


Q ss_pred             HHHHhc-CCCCc-HHH----HHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 038401          253 RLMQRK-EIEQN-VVT----YNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLR  326 (542)
Q Consensus       253 ~~~~~~-~~~~~-~~~----~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  326 (542)
                      +.+... +..|. ...    ..-.+-++...+++.++++.++.+...+.+....+-..+..+|...+.+++|..+|+.+.
T Consensus       275 ~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~  354 (822)
T PRK14574        275 QNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLY  354 (822)
T ss_pred             HHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHh
Confidence            444442 11121 111    122344556667777777777777766654445566667777777777777777777765


Q ss_pred             hcC-----CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCC-----------C---H----HHHHHHHHHhCCHHH
Q 038401          327 SSG-----VEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTI-----------P---R----ETAITILARAGRIEE  383 (542)
Q Consensus       327 ~~~-----~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----------~---~----~~l~~~~~~~g~~~~  383 (542)
                      ...     .+++......|.-++...+++++|..+++.+....+.           +   |    ...+..+...|++.+
T Consensus       355 ~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~  434 (822)
T PRK14574        355 YSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPT  434 (822)
T ss_pred             hccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHH
Confidence            532     1223333456666677777777777777776542220           0   1    112444555666666


Q ss_pred             HHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHHH
Q 038401          384 ATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPD-SHIIALVLNSYGKLREFETADDLYSEMQ  462 (542)
Q Consensus       384 A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~  462 (542)
                      |.+.++.+.... |-|......+.+.+...|++.+|++.++.+..  ..|+ ..+....+.++...|++++|..+.+.+.
T Consensus       435 Ae~~le~l~~~a-P~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~--l~P~~~~~~~~~~~~al~l~e~~~A~~~~~~l~  511 (822)
T PRK14574        435 AQKKLEDLSSTA-PANQNLRIALASIYLARDLPRKAEQELKAVES--LAPRSLILERAQAETAMALQEWHQMELLTDDVI  511 (822)
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhh--hCCccHHHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence            666666665542 34566666666666666666666666655554  2343 3444455556666666666666666666


Q ss_pred             HcC
Q 038401          463 EEG  465 (542)
Q Consensus       463 ~~~  465 (542)
                      +..
T Consensus       512 ~~~  514 (822)
T PRK14574        512 SRS  514 (822)
T ss_pred             hhC
Confidence            654

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.88  E-value=6.7e-17  Score=160.17  Aligned_cols=424  Identities=11%  Similarity=0.082  Sum_probs=306.8

Q ss_pred             HHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHH
Q 038401           63 CFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKE  142 (542)
Q Consensus        63 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  142 (542)
                      ...+.|+++.|+..|++..+..+.-....+ .++..+...|+.++|+..+++.... .+........+...+...|++++
T Consensus        43 i~~r~Gd~~~Al~~L~qaL~~~P~~~~av~-dll~l~~~~G~~~~A~~~~eka~~p-~n~~~~~llalA~ly~~~gdyd~  120 (822)
T PRK14574         43 IRARAGDTAPVLDYLQEESKAGPLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQSS-MNISSRGLASAARAYRNEKRWDQ  120 (822)
T ss_pred             HHHhCCCHHHHHHHHHHHHhhCccchhhHH-HHHHHHHHcCCcHHHHHHHHHhccC-CCCCHHHHHHHHHHHHHcCCHHH
Confidence            457899999999999999987533212344 8888888999999999999999821 12233334444668888899999


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHH
Q 038401          143 ARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRK  222 (542)
Q Consensus       143 a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  222 (542)
                      |.++|+++.+... -+...+..++..+...++.++|++.++++....  |+...+..++..+...++..+|...++++.+
T Consensus       121 Aiely~kaL~~dP-~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~d--p~~~~~l~layL~~~~~~~~~AL~~~ekll~  197 (822)
T PRK14574        121 ALALWQSSLKKDP-TNPDLISGMIMTQADAGRGGVVLKQATELAERD--PTVQNYMTLSYLNRATDRNYDALQASSEAVR  197 (822)
T ss_pred             HHHHHHHHHhhCC-CCHHHHHHHHHHHhhcCCHHHHHHHHHHhcccC--cchHHHHHHHHHHHhcchHHHHHHHHHHHHH
Confidence            9999999998742 356777788889999999999999999998764  5555565555555556677679999999998


Q ss_pred             CCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCcHHHH------HHHHHHH-H----ccCC---HHHHHHHHH
Q 038401          223 MGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTY------NTMIKIY-G----KSLE---HEKATNLMQ  288 (542)
Q Consensus       223 ~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~------~~l~~~~-~----~~~~---~~~a~~~~~  288 (542)
                      .. +.+...+..+..++.+.|-...|+++...-... +.+....+      ..+++.- .    ...+   .+.|+.-++
T Consensus       198 ~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~-f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~~  275 (822)
T PRK14574        198 LA-PTSEEVLKNHLEILQRNRIVEPALRLAKENPNL-VSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKALADYQ  275 (822)
T ss_pred             hC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccc-cCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHHH
Confidence            85 556777888889999999998888776653321 11111111      1111110 0    1122   244555555


Q ss_pred             HHHHc-CCCCC-HHHH----HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcC
Q 038401          289 EMQNR-GIEPN-AITY----STIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQ  362 (542)
Q Consensus       289 ~~~~~-~~~p~-~~~~----~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  362 (542)
                      .+... +-.|. ...|    .-.+.++...|+..++++.|+.+...+.+....+-..+.++|...+.+++|..+++.+..
T Consensus       276 ~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~  355 (822)
T PRK14574        276 NLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYY  355 (822)
T ss_pred             HHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhh
Confidence            55542 11232 2222    233456778899999999999999888776777888999999999999999999999865


Q ss_pred             CCC------CC---HHHHHHHHHHhCCHHHHHHHHHHHHHcCC-----------CcC---HHHHHHHHHHHHhcCCHHHH
Q 038401          363 PNT------IP---RETAITILARAGRIEEATWVFRQAFDAGE-----------VKD---ISVFGCMIELFSRNKKYANV  419 (542)
Q Consensus       363 ~~~------~~---~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-----------~~~---~~~~~~l~~~~~~~g~~~~A  419 (542)
                      ..+      ..   ...+..++...+++++|..+++.+.+..+           .|+   ......++..+...|++.+|
T Consensus       356 ~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~A  435 (822)
T PRK14574        356 SDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTA  435 (822)
T ss_pred             ccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHH
Confidence            321      11   24568888999999999999999987422           122   22344566778889999999


Q ss_pred             HHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHH-HH-HHHHHHhccCChHHHHHHHHHH
Q 038401          420 IEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQV-HF-QMLSLYGARKDFNMLESLFERL  496 (542)
Q Consensus       420 ~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~-~~-~l~~~~~~~g~~~~A~~~~~~~  496 (542)
                      ++.++++...  .| |......+...+...|.+.+|++.++.+....   |+.. .. ..+.++...|++++|..+++++
T Consensus       436 e~~le~l~~~--aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l~---P~~~~~~~~~~~~al~l~e~~~A~~~~~~l  510 (822)
T PRK14574        436 QKKLEDLSST--APANQNLRIALASIYLARDLPRKAEQELKAVESLA---PRSLILERAQAETAMALQEWHQMELLTDDV  510 (822)
T ss_pred             HHHHHHHHHh--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhC---CccHHHHHHHHHHHHhhhhHHHHHHHHHHH
Confidence            9999999874  35 77888889999999999999999998887765   4433 22 3788888899999999999885


Q ss_pred             hc
Q 038401          497 DS  498 (542)
Q Consensus       497 ~~  498 (542)
                      ..
T Consensus       511 ~~  512 (822)
T PRK14574        511 IS  512 (822)
T ss_pred             Hh
Confidence            43

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

Probab=99.87  E-value=4.7e-15  Score=134.97  Aligned_cols=496  Identities=11%  Similarity=0.060  Sum_probs=376.4

Q ss_pred             CCCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHH
Q 038401           15 YSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSN   94 (542)
Q Consensus        15 ~~~~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~   94 (542)
                      ++.++..|-..+    ...+.++|..++.+..+. ++.+...|.    ++++..-++.|..++....+. ++.+...|.+
T Consensus       376 iP~sv~LWKaAV----elE~~~darilL~rAvec-cp~s~dLwl----AlarLetYenAkkvLNkaRe~-iptd~~IWit  445 (913)
T KOG0495|consen  376 IPRSVRLWKAAV----ELEEPEDARILLERAVEC-CPQSMDLWL----ALARLETYENAKKVLNKAREI-IPTDREIWIT  445 (913)
T ss_pred             CCchHHHHHHHH----hccChHHHHHHHHHHHHh-ccchHHHHH----HHHHHHHHHHHHHHHHHHHhh-CCCChhHHHH
Confidence            455666665544    335666688888877775 333444444    445566788888888888765 6668888888


Q ss_pred             HHHHHHhcCCHHHHHHHHHHh----HhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCC--CHHHHHHHHHH
Q 038401           95 LIELARKLSDYSKAISIFSRL----KSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKP--DTVSYSTLLNL  168 (542)
Q Consensus        95 l~~~~~~~~~~~~a~~~~~~~----~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~--~~~~~~~l~~~  168 (542)
                      ....--..|+.+...+++++-    ...|+..+...|-.=...|-+.|..-.+..+....+.-|+.-  ...||..-...
T Consensus       446 aa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e~agsv~TcQAIi~avigigvEeed~~~tw~~da~~  525 (913)
T KOG0495|consen  446 AAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEACEDAGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQS  525 (913)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHHhhcCChhhHHHHHHHHHhhccccchhHhHHhhhHHH
Confidence            888888888888888887654    345777788888777778888888888888888888777643  34678888888


Q ss_pred             HHHCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHH
Q 038401          169 YVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEA  248 (542)
Q Consensus       169 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a  248 (542)
                      |.+.+.++-|..+|....+. .+-+...|...+..--..|..++...+|+++...- +.....|......+-..|+...|
T Consensus       526 ~~k~~~~~carAVya~alqv-fp~k~slWlra~~~ek~hgt~Esl~Allqkav~~~-pkae~lwlM~ake~w~agdv~~a  603 (913)
T KOG0495|consen  526 CEKRPAIECARAVYAHALQV-FPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQC-PKAEILWLMYAKEKWKAGDVPAA  603 (913)
T ss_pred             HHhcchHHHHHHHHHHHHhh-ccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHhcCCcHHH
Confidence            88999999999999888875 35567778877777778888999999999988763 44455666667777788999999


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 038401          249 IHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSS  328 (542)
Q Consensus       249 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  328 (542)
                      ..++....+.. +.+...|..-+..-....+++.|..+|.+....  .|+...|..-+...-..++.++|++++++.++.
T Consensus       604 r~il~~af~~~-pnseeiwlaavKle~en~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~  680 (913)
T KOG0495|consen  604 RVILDQAFEAN-PNSEEIWLAAVKLEFENDELERARDLLAKARSI--SGTERVWMKSANLERYLDNVEEALRLLEEALKS  680 (913)
T ss_pred             HHHHHHHHHhC-CCcHHHHHHHHHHhhccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh
Confidence            99999888775 347788888889999999999999999888765  677788877777777788999999999988876


Q ss_pred             CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcC--CC-CCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHH
Q 038401          329 GVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQ--PN-TIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGC  405 (542)
Q Consensus       329 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  405 (542)
                       ++.-...|..+.+.+.+.++.+.|...|..-.+  |+ +..|-.+...--+.|.+..|..++++..-.+ +.+...|-.
T Consensus       681 -fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~cP~~ipLWllLakleEk~~~~~rAR~ildrarlkN-Pk~~~lwle  758 (913)
T KOG0495|consen  681 -FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKKCPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKN-PKNALLWLE  758 (913)
T ss_pred             -CCchHHHHHHHhHHHHHHHHHHHHHHHHHhccccCCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcC-CCcchhHHH
Confidence             343467788888889999999999998887665  33 3346666777778889999999999988764 367888999


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHHHHHHHhccCC
Q 038401          406 MIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQMLSLYGARKD  485 (542)
Q Consensus       406 l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  485 (542)
                      .+.+-.+.|+.+.|..+..++++. ++.+...|..-|...-+.++-..+...+++...     ...+...++..+....+
T Consensus       759 ~Ir~ElR~gn~~~a~~lmakALQe-cp~sg~LWaEaI~le~~~~rkTks~DALkkce~-----dphVllaia~lfw~e~k  832 (913)
T KOG0495|consen  759 SIRMELRAGNKEQAELLMAKALQE-CPSSGLLWAEAIWLEPRPQRKTKSIDALKKCEH-----DPHVLLAIAKLFWSEKK  832 (913)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHh-CCccchhHHHHHHhccCcccchHHHHHHHhccC-----CchhHHHHHHHHHHHHH
Confidence            999999999999999999888874 333446777777777777775555555555432     23344447788888899


Q ss_pred             hHHHHHHHHH-HhcCCCCCchhHHHHHHHHHHhhcchhhHHHHHHHHHhcC
Q 038401          486 FNMLESLFER-LDSDSNINKKELHHVVAGIYERANRLNDASRIMNRMNKRR  535 (542)
Q Consensus       486 ~~~A~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  535 (542)
                      +++|.++|++ +..+|+  ....|..+...+.+.|.-++-.+++++.....
T Consensus       833 ~~kar~Wf~Ravk~d~d--~GD~wa~fykfel~hG~eed~kev~~~c~~~E  881 (913)
T KOG0495|consen  833 IEKAREWFERAVKKDPD--NGDAWAWFYKFELRHGTEEDQKEVLKKCETAE  881 (913)
T ss_pred             HHHHHHHHHHHHccCCc--cchHHHHHHHHHHHhCCHHHHHHHHHHHhccC
Confidence            9999999999 455555  44677777788889998888888888765543

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

Probab=99.85  E-value=4.3e-15  Score=135.22  Aligned_cols=462  Identities=12%  Similarity=0.086  Sum_probs=380.3

Q ss_pred             CCCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHH----HHhCCCCCCHH
Q 038401           15 YSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQ----MEQDRVSGDLV   90 (542)
Q Consensus        15 ~~~~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~----~~~~~~~~~~~   90 (542)
                      ++.++..|.    ++++...|+.|..+++...+. ++.+..+|.+....--.+|+.+...+++.+    +...|+..+..
T Consensus       406 cp~s~dLwl----AlarLetYenAkkvLNkaRe~-iptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rd  480 (913)
T KOG0495|consen  406 CPQSMDLWL----ALARLETYENAKKVLNKAREI-IPTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRD  480 (913)
T ss_pred             ccchHHHHH----HHHHHHHHHHHHHHHHHHHhh-CCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHH
Confidence            344444444    466778899999999999886 677899999988888889999998887765    45568888999


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHhHhCCCCc--cHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 038401           91 LYSNLIELARKLSDYSKAISIFSRLKSSGIVP--DLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNL  168 (542)
Q Consensus        91 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~  168 (542)
                      .|..=...|-..|..-.+..+....+.-|+.-  -..+|..-...|.+.+.++-|..+|....+- .+.+...|......
T Consensus       481 qWl~eAe~~e~agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqv-fp~k~slWlra~~~  559 (913)
T KOG0495|consen  481 QWLKEAEACEDAGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQV-FPCKKSLWLRAAMF  559 (913)
T ss_pred             HHHHHHHHHhhcCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhh-ccchhHHHHHHHHH
Confidence            99998999999999999999999988777553  3568888889999999999999999998875 34467778877777


Q ss_pred             HHHCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHH
Q 038401          169 YVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEA  248 (542)
Q Consensus       169 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a  248 (542)
                      --..|..++...+|++.... +|.....|......+-..|+...|..++....+.. +.+...|-.-+.....+.+++.|
T Consensus       560 ek~hgt~Esl~Allqkav~~-~pkae~lwlM~ake~w~agdv~~ar~il~~af~~~-pnseeiwlaavKle~en~e~era  637 (913)
T KOG0495|consen  560 EKSHGTRESLEALLQKAVEQ-CPKAEILWLMYAKEKWKAGDVPAARVILDQAFEAN-PNSEEIWLAAVKLEFENDELERA  637 (913)
T ss_pred             HHhcCcHHHHHHHHHHHHHh-CCcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhC-CCcHHHHHHHHHHhhccccHHHH
Confidence            77789999999999999886 56677788888888889999999999999999875 44777888889999999999999


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 038401          249 IHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNA-ITYSTIIAIWGKAGKLDRAAMLFQKLRS  327 (542)
Q Consensus       249 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~  327 (542)
                      ..+|.+....  .|+...|.--+..---.++.++|.+++++.++.  .|+. ..|..+.+.+-+.++.+.|.+.|..-.+
T Consensus       638 R~llakar~~--sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~--fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k  713 (913)
T KOG0495|consen  638 RDLLAKARSI--SGTERVWMKSANLERYLDNVEEALRLLEEALKS--FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTK  713 (913)
T ss_pred             HHHHHHHhcc--CCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh--CCchHHHHHHHhHHHHHHHHHHHHHHHHHhccc
Confidence            9999988875  567777777777777789999999999998876  5554 4677778888899999999999887766


Q ss_pred             cCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCC---CCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHH
Q 038401          328 SGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQP---NTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFG  404 (542)
Q Consensus       328 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  404 (542)
                      . ++-.+..|..+...-.+.|.+-+|..+++...-.   +...|-..+.+-.+.|+.+.|..+..++++. .+.+...|.
T Consensus       714 ~-cP~~ipLWllLakleEk~~~~~rAR~ildrarlkNPk~~~lwle~Ir~ElR~gn~~~a~~lmakALQe-cp~sg~LWa  791 (913)
T KOG0495|consen  714 K-CPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKNPKNALLWLESIRMELRAGNKEQAELLMAKALQE-CPSSGLLWA  791 (913)
T ss_pred             c-CCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcCCCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCccchhHH
Confidence            5 4567788888888888999999999999987643   4556778899999999999999999999987 567778888


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhcc
Q 038401          405 CMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGAR  483 (542)
Q Consensus       405 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~  483 (542)
                      .-|....+.++--..+..+++.     .-|.+.+..+...+....+++.|+++|.++++.+  +.....+. +...+.+.
T Consensus       792 EaI~le~~~~rkTks~DALkkc-----e~dphVllaia~lfw~e~k~~kar~Wf~Ravk~d--~d~GD~wa~fykfel~h  864 (913)
T KOG0495|consen  792 EAIWLEPRPQRKTKSIDALKKC-----EHDPHVLLAIAKLFWSEKKIEKAREWFERAVKKD--PDNGDAWAWFYKFELRH  864 (913)
T ss_pred             HHHHhccCcccchHHHHHHHhc-----cCCchhHHHHHHHHHHHHHHHHHHHHHHHHHccC--CccchHHHHHHHHHHHh
Confidence            8888777777755555544433     3577888889999999999999999999999987  44555666 77888899


Q ss_pred             CChHHHHHHHHHHh
Q 038401          484 KDFNMLESLFERLD  497 (542)
Q Consensus       484 g~~~~A~~~~~~~~  497 (542)
                      |.-+.-.+++.+..
T Consensus       865 G~eed~kev~~~c~  878 (913)
T KOG0495|consen  865 GTEEDQKEVLKKCE  878 (913)
T ss_pred             CCHHHHHHHHHHHh
Confidence            98888888888854

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

Probab=99.84  E-value=3.1e-17  Score=142.61  Aligned_cols=451  Identities=14%  Similarity=0.153  Sum_probs=309.1

Q ss_pred             hHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhH-HHHHHHHHhcCCHHHHHHHHHHhHhCCCCcc------HhHHH
Q 038401           56 TYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLY-SNLIELARKLSDYSKAISIFSRLKSSGIVPD------LVAYN  128 (542)
Q Consensus        56 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~------~~~~~  128 (542)
                      +...|..-|..+....+|+..|+-+.+...-|+.... ..+...+.+..++.+|+++++.....  .|+      ....+
T Consensus       203 vl~nlaqqy~~ndm~~ealntyeiivknkmf~nag~lkmnigni~~kkr~fskaikfyrmaldq--vpsink~~rikil~  280 (840)
T KOG2003|consen  203 VLFNLAQQYEANDMTAEALNTYEIIVKNKMFPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQ--VPSINKDMRIKILN  280 (840)
T ss_pred             HHHHHHHHhhhhHHHHHHhhhhhhhhcccccCCCceeeeeecceeeehhhHHHHHHHHHHHHhh--ccccchhhHHHHHh
Confidence            3444555666778889999999998887766765543 34556778889999999999988765  332      23445


Q ss_pred             HHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhcCCCCC------------hhh
Q 038401          129 TMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLD------------LTT  196 (542)
Q Consensus       129 ~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~------------~~~  196 (542)
                      .+...+.+.|.++.|..-|+...+.  .|+..+-..|+-++..-|+-++..+.|.+|......+|            ...
T Consensus       281 nigvtfiq~gqy~dainsfdh~m~~--~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~~l  358 (840)
T KOG2003|consen  281 NIGVTFIQAGQYDDAINSFDHCMEE--APNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDDNL  358 (840)
T ss_pred             hcCeeEEecccchhhHhhHHHHHHh--CccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcchHH
Confidence            5556688999999999999998876  58887777777788889999999999999976433322            222


Q ss_pred             HHHH-----HHHHhccCCHHHHHHHHH---HHHHCCCCCChhH-------------HH--------HHHHHHHhcCcHHH
Q 038401          197 CNIM-----IDVYGQLDMAKDADRLFW---SMRKMGIDPSVVS-------------YN--------TLLRVYGEAELFGE  247 (542)
Q Consensus       197 ~~~l-----~~~~~~~~~~~~a~~~~~---~~~~~~~~~~~~~-------------~~--------~ll~~~~~~~~~~~  247 (542)
                      .+..     +.-+-+.+. ..|++..-   .+..--+.|+-..             +.        .-...+.+.|+++.
T Consensus       359 l~eai~nd~lk~~ek~~k-a~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~d~~~  437 (840)
T KOG2003|consen  359 LNEAIKNDHLKNMEKENK-ADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDLEINKAGELLKNGDIEG  437 (840)
T ss_pred             HHHHHhhHHHHHHHHhhh-hhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhccCHHH
Confidence            2222     222222211 11222211   1111112222110             00        01123678899999


Q ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHH-HH-ccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 038401          248 AIHLFRLMQRKEIEQNVVTYNTMIKI-YG-KSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKL  325 (542)
Q Consensus       248 a~~~~~~~~~~~~~~~~~~~~~l~~~-~~-~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  325 (542)
                      |++++.-+.+..-..-...-+.|-.. |. -..++-.|..+-+...... .-+......-.......|++++|.+.|++.
T Consensus       438 aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d-ryn~~a~~nkgn~~f~ngd~dka~~~ykea  516 (840)
T KOG2003|consen  438 AIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNID-RYNAAALTNKGNIAFANGDLDKAAEFYKEA  516 (840)
T ss_pred             HHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc-ccCHHHhhcCCceeeecCcHHHHHHHHHHH
Confidence            99999888776433223333333222 22 2446667777666655432 223322222223334679999999999999


Q ss_pred             HhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhc---CCCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHH
Q 038401          326 RSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELR---QPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISV  402 (542)
Q Consensus       326 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  402 (542)
                      +..+-......|+ +.-.+...|+.++|+..|-++.   ..+......+...|....+...|++++.++... ++.|+.+
T Consensus       517 l~ndasc~ealfn-iglt~e~~~~ldeald~f~klh~il~nn~evl~qianiye~led~aqaie~~~q~~sl-ip~dp~i  594 (840)
T KOG2003|consen  517 LNNDASCTEALFN-IGLTAEALGNLDEALDCFLKLHAILLNNAEVLVQIANIYELLEDPAQAIELLMQANSL-IPNDPAI  594 (840)
T ss_pred             HcCchHHHHHHHH-hcccHHHhcCHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhccc-CCCCHHH
Confidence            8764333333333 2334778999999999998764   356666777788899999999999999998775 6678999


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH--HHHH
Q 038401          403 FGCMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ--MLSL  479 (542)
Q Consensus       403 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~--l~~~  479 (542)
                      +.-|.+.|-+.|+-..|.+.+-.--+  ..| +..+...+..-|....-+++|+.+|+++.-.   .|+..-|.  ++.+
T Consensus       595 lskl~dlydqegdksqafq~~ydsyr--yfp~nie~iewl~ayyidtqf~ekai~y~ekaali---qp~~~kwqlmiasc  669 (840)
T KOG2003|consen  595 LSKLADLYDQEGDKSQAFQCHYDSYR--YFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALI---QPNQSKWQLMIASC  669 (840)
T ss_pred             HHHHHHHhhcccchhhhhhhhhhccc--ccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhc---CccHHHHHHHHHHH
Confidence            99999999999999999988765544  445 6788888888889999999999999998764   47777666  6688


Q ss_pred             HhccCChHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhhcc
Q 038401          480 YGARKDFNMLESLFERLDSDSNINKKELHHVVAGIYERANR  520 (542)
Q Consensus       480 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  520 (542)
                      +.+.|++++|.++++.+..... .+.+..-.|++++...|.
T Consensus       670 ~rrsgnyqka~d~yk~~hrkfp-edldclkflvri~~dlgl  709 (840)
T KOG2003|consen  670 FRRSGNYQKAFDLYKDIHRKFP-EDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             HHhcccHHHHHHHHHHHHHhCc-cchHHHHHHHHHhccccc
Confidence            8899999999999999754432 245677788888888885

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.83  E-value=7e-15  Score=127.21  Aligned_cols=322  Identities=15%  Similarity=0.149  Sum_probs=163.0

Q ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHH--HhccCCHHH-HHHHHHHHHhCCCCCCHHhHHHH
Q 038401           19 VFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITC--FGKEGMFDS-AISWLQQMEQDRVSGDLVLYSNL   95 (542)
Q Consensus        19 ~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~g~~~~-a~~~~~~~~~~~~~~~~~~~~~l   95 (542)
                      +.+=|.|+.. ...|...++.-+++.|.+.|++.+...-..+++.  |....++.- -++.|-.|...|-. +..+|   
T Consensus       116 V~~E~nL~km-IS~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~-S~~sW---  190 (625)
T KOG4422|consen  116 VETENNLLKM-ISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGED-STSSW---  190 (625)
T ss_pred             hcchhHHHHH-HhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhccccccc-ccccc---
Confidence            4455666654 5668899999999999999988887776666553  223333222 23444445444311 22222   


Q ss_pred             HHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCh
Q 038401           96 IELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKF  175 (542)
Q Consensus        96 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~  175 (542)
                           +.|++.+   ++-+..    +.+..++..||.++++-...+.|.+++++......+.+..+||.+|.+-.-..+ 
T Consensus       191 -----K~G~vAd---L~~E~~----PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~-  257 (625)
T KOG4422|consen  191 -----KSGAVAD---LLFETL----PKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVG-  257 (625)
T ss_pred             -----ccccHHH---HHHhhc----CCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhcc-
Confidence                 2222221   211111    334555555555555555555555555555555445555555555544332211 


Q ss_pred             HHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHH----HHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHH-HHHH
Q 038401          176 VEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKD----ADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFG-EAIH  250 (542)
Q Consensus       176 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~-~a~~  250 (542)
                         .+++.+|....+.||..|+|+++.+..+.|+++.    |.+++.+|++.|+.|...+|..+|..+++.++.. .+..
T Consensus       258 ---K~Lv~EMisqkm~Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~  334 (625)
T KOG4422|consen  258 ---KKLVAEMISQKMTPNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASS  334 (625)
T ss_pred             ---HHHHHHHHHhhcCCchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHH
Confidence               4555555555555566666666655555554433    3344555555555555555555555555554432 2333


Q ss_pred             HHHHHHh----cCCC----CcHHHHHHHHHHHHccCCHHHHHHHHHHHHHc----CCCCC---HHHHHHHHHHHHhcCCH
Q 038401          251 LFRLMQR----KEIE----QNVVTYNTMIKIYGKSLEHEKATNLMQEMQNR----GIEPN---AITYSTIIAIWGKAGKL  315 (542)
Q Consensus       251 ~~~~~~~----~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~p~---~~~~~~l~~~~~~~~~~  315 (542)
                      ++.++..    +.++    .+...|...+..|.+..+.+.|.++..-+...    -+.|+   ..-|..+..+.+.....
T Consensus       335 ~i~dI~N~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~  414 (625)
T KOG4422|consen  335 WINDIQNSLTGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESI  414 (625)
T ss_pred             HHHHHHHhhccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHH
Confidence            3333222    1111    12333444455555555555555544333221    01222   12344455555555555


Q ss_pred             HHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhc
Q 038401          316 DRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELR  361 (542)
Q Consensus       316 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  361 (542)
                      +.....|+.|+-.-+-|+..+...++++..-.+.++-.-+++.++.
T Consensus       415 ~~~~~~Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~  460 (625)
T KOG4422|consen  415 DVTLKWYEDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSK  460 (625)
T ss_pred             HHHHHHHHHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHH
Confidence            5555555555555455555555555555555555555555555443

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

Probab=99.83  E-value=2.8e-14  Score=135.04  Aligned_cols=345  Identities=14%  Similarity=0.145  Sum_probs=258.3

Q ss_pred             CCCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHH
Q 038401           15 YSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSN   94 (542)
Q Consensus        15 ~~~~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~   94 (542)
                      ++|.+...-.....+.-.|+.++|..++.+.++..+. +...|..|...|-..|+.+++...+-..-... +.|...|..
T Consensus       135 l~~~l~~ll~eAN~lfarg~~eeA~~i~~EvIkqdp~-~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~-p~d~e~W~~  212 (895)
T KOG2076|consen  135 LAPELRQLLGEANNLFARGDLEEAEEILMEVIKQDPR-NPIAYYTLGEIYEQRGDIEKALNFWLLAAHLN-PKDYELWKR  212 (895)
T ss_pred             cCHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcc-chhhHHHHHHHHHHcccHHHHHHHHHHHHhcC-CCChHHHHH
Confidence            3444454555555566669999999999999998644 78899999999999999999998876665554 347789999


Q ss_pred             HHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHH----HHHHHHHH
Q 038401           95 LIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSY----STLLNLYV  170 (542)
Q Consensus        95 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~----~~l~~~~~  170 (542)
                      +.....+.|++++|.-+|.+.++.. +++...+---+..|-+.|+...|..-|.++.....+.|..-+    ...+..+.
T Consensus       213 ladls~~~~~i~qA~~cy~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~  291 (895)
T KOG2076|consen  213 LADLSEQLGNINQARYCYSRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFI  291 (895)
T ss_pred             HHHHHHhcccHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999875 555555556677888999999999999999887432232222    23456677


Q ss_pred             HCCChHHHHHHHHHHHhc-CCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCC-------------------------
Q 038401          171 ENHKFVEALSVFAEMNEV-NCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMG-------------------------  224 (542)
Q Consensus       171 ~~g~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-------------------------  224 (542)
                      ..++.+.|.+.+...... +-..+...+++++..+.+...++.+......+....                         
T Consensus       292 ~~~~~e~a~~~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~  371 (895)
T KOG2076|consen  292 THNERERAAKALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVG  371 (895)
T ss_pred             HhhHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCC
Confidence            778888899888887662 223456678888888999889998888777766511                         


Q ss_pred             --CCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcC--CCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHH
Q 038401          225 --IDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKE--IEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAI  300 (542)
Q Consensus       225 --~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~  300 (542)
                        ..++..+ -.++-++...+..+....+........  +.-+...|.-+..+|...|++.+|+.+|..+......-+..
T Consensus       372 ~~~s~~l~v-~rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~  450 (895)
T KOG2076|consen  372 KELSYDLRV-IRLMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAF  450 (895)
T ss_pred             CCCCccchh-HhHhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchh
Confidence              1222222 122233444444455555555555554  33456778889999999999999999999998875455677


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCC
Q 038401          301 TYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPN  364 (542)
Q Consensus       301 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  364 (542)
                      .|-.+..+|...|..+.|.+.|+..+... +.+...-..|...+.+.|+.++|.+.++.+..++
T Consensus       451 vw~~~a~c~~~l~e~e~A~e~y~kvl~~~-p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D  513 (895)
T KOG2076|consen  451 VWYKLARCYMELGEYEEAIEFYEKVLILA-PDNLDARITLASLYQQLGNHEKALETLEQIINPD  513 (895)
T ss_pred             hhHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCC
Confidence            89999999999999999999999998874 3455666677788899999999999999987655

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

Probab=99.83  E-value=1.1e-13  Score=121.59  Aligned_cols=467  Identities=12%  Similarity=0.064  Sum_probs=337.5

Q ss_pred             CcHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHH
Q 038401           17 PSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLI   96 (542)
Q Consensus        17 ~~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~   96 (542)
                      -++..|-...+--..++++..|..+|++.+..... +...|...+.+-.++..++.|..++++....=+. -...|--.+
T Consensus        71 ~~~~~WikYaqwEesq~e~~RARSv~ERALdvd~r-~itLWlkYae~Emknk~vNhARNv~dRAvt~lPR-VdqlWyKY~  148 (677)
T KOG1915|consen   71 LNMQVWIKYAQWEESQKEIQRARSVFERALDVDYR-NITLWLKYAEFEMKNKQVNHARNVWDRAVTILPR-VDQLWYKYI  148 (677)
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHhcccc-cchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcch-HHHHHHHHH
Confidence            34445555555555677888899999999887643 7778888999989999999999999998775322 223555556


Q ss_pred             HHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChH
Q 038401           97 ELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFV  176 (542)
Q Consensus        97 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~  176 (542)
                      ..--..|++..|.++|++-.+-  .|+...|.+.|..-.+-+..+.|..+++...--  .|++.+|......=.+.|+..
T Consensus       149 ymEE~LgNi~gaRqiferW~~w--~P~eqaW~sfI~fElRykeieraR~IYerfV~~--HP~v~~wikyarFE~k~g~~~  224 (677)
T KOG1915|consen  149 YMEEMLGNIAGARQIFERWMEW--EPDEQAWLSFIKFELRYKEIERARSIYERFVLV--HPKVSNWIKYARFEEKHGNVA  224 (677)
T ss_pred             HHHHHhcccHHHHHHHHHHHcC--CCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhee--cccHHHHHHHHHHHHhcCcHH
Confidence            6666789999999999988864  899999999999999999999999999998874  689999999888888999999


Q ss_pred             HHHHHHHHHHhc-C-CCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCC--hhHHHHHHHHHHhcCcHHHHHH--
Q 038401          177 EALSVFAEMNEV-N-CPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPS--VVSYNTLLRVYGEAELFGEAIH--  250 (542)
Q Consensus       177 ~a~~~~~~~~~~-~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~ll~~~~~~~~~~~a~~--  250 (542)
                      .+..+|....+. | -..+...+.+....-.++..++.|.-+|+-.++.- +.+  ...|..+...--+.|+......  
T Consensus       225 ~aR~VyerAie~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~-pk~raeeL~k~~~~fEKqfGd~~gIEd~I  303 (677)
T KOG1915|consen  225 LARSVYERAIEFLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHI-PKGRAEELYKKYTAFEKQFGDKEGIEDAI  303 (677)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc-CcccHHHHHHHHHHHHHHhcchhhhHHHH
Confidence            999999887653 1 11233445555555566778888999998888762 222  3344444444445565443333  


Q ss_pred             ------HHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHH--HHHHHHH--------HHHhcCC
Q 038401          251 ------LFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAI--TYSTIIA--------IWGKAGK  314 (542)
Q Consensus       251 ------~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~--~~~~l~~--------~~~~~~~  314 (542)
                            -|+.+.+.+ +.|-.+|...+..-...|+.+...+++++.... ++|-..  .|...|-        .-....+
T Consensus       304 v~KRk~qYE~~v~~n-p~nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed  381 (677)
T KOG1915|consen  304 VGKRKFQYEKEVSKN-PYNYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAED  381 (677)
T ss_pred             hhhhhhHHHHHHHhC-CCCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence                  234444443 567788888888888889999999999998876 344221  2222221        1235688


Q ss_pred             HHHHHHHHHHHHhcCCCCCHHHHHHHHHHH----HHcCCHHHHHHHHHHhcC--CCCCCHHHHHHHHHHhCCHHHHHHHH
Q 038401          315 LDRAAMLFQKLRSSGVEIDPVLYQTMIVAY----ERVGLVAHAKRLLHELRQ--PNTIPRETAITILARAGRIEEATWVF  388 (542)
Q Consensus       315 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~~~~~~a~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~  388 (542)
                      .+.+.++|+..++. ++....|+..+--.|    .++.+...|.+++.....  |....+...+..-.+.++++.+..++
T Consensus       382 ~ertr~vyq~~l~l-IPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~cPK~KlFk~YIelElqL~efDRcRkLY  460 (677)
T KOG1915|consen  382 VERTRQVYQACLDL-IPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGKCPKDKLFKGYIELELQLREFDRCRKLY  460 (677)
T ss_pred             HHHHHHHHHHHHhh-cCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhccCCchhHHHHHHHHHHHHhhHHHHHHHH
Confidence            99999999998884 455556665554444    467889999999988764  55666777788888899999999999


Q ss_pred             HHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCC
Q 038401          389 RQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAG-YFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCV  467 (542)
Q Consensus       389 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  467 (542)
                      ++.++.+ +.+..+|.-....-...|+.+.|..+|+-+++.. +......|...+.--...|.++.|..+|+++++....
T Consensus       461 Ekfle~~-Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~rt~h  539 (677)
T KOG1915|consen  461 EKFLEFS-PENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDRTQH  539 (677)
T ss_pred             HHHHhcC-hHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHhccc
Confidence            9999974 3578889888888888999999999999988742 1122355666666667889999999999999987622


Q ss_pred             CchHHHHHHHHHHh-----ccC-----------ChHHHHHHHHHH
Q 038401          468 FSDQVHFQMLSLYG-----ARK-----------DFNMLESLFERL  496 (542)
Q Consensus       468 ~~~~~~~~l~~~~~-----~~g-----------~~~~A~~~~~~~  496 (542)
                      .+  ++...+..-.     +.|           ....|..+|++.
T Consensus       540 ~k--vWisFA~fe~s~~~~~~~~~~~~~e~~~~~~~~AR~iferA  582 (677)
T KOG1915|consen  540 VK--VWISFAKFEASASEGQEDEDLAELEITDENIKRARKIFERA  582 (677)
T ss_pred             ch--HHHhHHHHhccccccccccchhhhhcchhHHHHHHHHHHHH
Confidence            22  3333333222     344           566788888873

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

Probab=99.82  E-value=5.4e-14  Score=133.13  Aligned_cols=526  Identities=13%  Similarity=0.068  Sum_probs=292.7

Q ss_pred             ChhhhhHHHHhhCCCCCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHH
Q 038401            1 RSVAILDWINEEARYSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQM   80 (542)
Q Consensus         1 ~A~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~   80 (542)
                      +|.+++..+.+.  .+.+...|.+|...|-..|+.+++...+-.+-..... |...|..+.....+.|+++.|.-.|.+.
T Consensus       157 eA~~i~~EvIkq--dp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~-d~e~W~~ladls~~~~~i~qA~~cy~rA  233 (895)
T KOG2076|consen  157 EAEEILMEVIKQ--DPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPK-DYELWKRLADLSEQLGNINQARYCYSRA  233 (895)
T ss_pred             HHHHHHHHHHHh--CccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCC-ChHHHHHHHHHHHhcccHHHHHHHHHHH
Confidence            366777777765  3667788999999999999999999887666555433 6789999999999999999999999999


Q ss_pred             HhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHH----HHHHHHHhccCcHHHHHHHHHHHHHc-CC
Q 038401           81 EQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAY----NTMINVFGKAKLFKEARLLIEEMREQ-GV  155 (542)
Q Consensus        81 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~----~~l~~~~~~~~~~~~a~~~~~~~~~~-g~  155 (542)
                      ++..++ +....-.-+..|.+.|+...|...|.++.....+.|..-+    -..++.+...++-+.|.+.++..... +-
T Consensus       234 I~~~p~-n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s~~~~  312 (895)
T KOG2076|consen  234 IQANPS-NWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGALSKEKD  312 (895)
T ss_pred             HhcCCc-chHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhccc
Confidence            988543 5555556678899999999999999999887432222222    23456677777778888888887762 22


Q ss_pred             CCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhcC---------------------------CCCChhhHHHHHHHHhccC
Q 038401          156 KPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVN---------------------------CPLDLTTCNIMIDVYGQLD  208 (542)
Q Consensus       156 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~---------------------------~~~~~~~~~~l~~~~~~~~  208 (542)
                      ..+...++.++..+.+...++.+......+....                           ..++...+. +.-++....
T Consensus       313 ~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~r-l~icL~~L~  391 (895)
T KOG2076|consen  313 EASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVIR-LMICLVHLK  391 (895)
T ss_pred             cccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhHh-Hhhhhhccc
Confidence            3355667788888888888888887776665511                           111111111 111222222


Q ss_pred             CHHHHHHHHHHHHHCC--CCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHH
Q 038401          209 MAKDADRLFWSMRKMG--IDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNL  286 (542)
Q Consensus       209 ~~~~a~~~~~~~~~~~--~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  286 (542)
                      ..+....+...+....  +.-+...|.-+..++...|.+.+|+.+|..+.......+...|-.+..+|...|..+.|...
T Consensus       392 ~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A~e~  471 (895)
T KOG2076|consen  392 ERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEEAIEF  471 (895)
T ss_pred             ccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHHHHHH
Confidence            2233333333333332  11223334444445555555555555555444443333344444445555555555555555


Q ss_pred             HHHHHHcCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHH--------hcCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Q 038401          287 MQEMQNRGIEPN-AITYSTIIAIWGKAGKLDRAAMLFQKLR--------SSGVEIDPVLYQTMIVAYERVGLVAHAKRLL  357 (542)
Q Consensus       287 ~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~--------~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  357 (542)
                      ++.....  .|+ ...-..|...+.+.|+.++|.+.+..+.        ..+..|+..........+.+.|+.++-....
T Consensus       472 y~kvl~~--~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~~gk~E~fi~t~  549 (895)
T KOG2076|consen  472 YEKVLIL--APDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQVGKREEFINTA  549 (895)
T ss_pred             HHHHHhc--CCCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHHhhhHHHHHHHH
Confidence            5444433  221 2222333333444444444444444421        1122333322222223333333322211111


Q ss_pred             HHhc-----------------------------------------------------------------CCCCCCH----
Q 038401          358 HELR-----------------------------------------------------------------QPNTIPR----  368 (542)
Q Consensus       358 ~~~~-----------------------------------------------------------------~~~~~~~----  368 (542)
                      ..+.                                                                 .-....|    
T Consensus       550 ~~Lv~~~~~~~~~f~~~~k~r~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~l~d~~~~~~~e~~~Lsiddwfel~  629 (895)
T KOG2076|consen  550 STLVDDFLKKRYIFPRNKKKRRRAIAGTTSKRYSELLKQIIRAREKATDDNVMEKALSDGTEFRAVELRGLSIDDWFELF  629 (895)
T ss_pred             HHHHHHHHHHHHhcchHHHHHHHhhccccccccchhHHHHHHHHhccCchHHhhhcccchhhhhhhhhccCcHHHHHHHH
Confidence            1100                                                                 0000111    


Q ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHcCCC--cCH---HHHHHHHHHHHhcCCHHHHHHHHHHHHhC-CC--CCCH-HHHH
Q 038401          369 ETAITILARAGRIEEATWVFRQAFDAGEV--KDI---SVFGCMIELFSRNKKYANVIEVFEKMRSA-GY--FPDS-HIIA  439 (542)
Q Consensus       369 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~--~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~--~p~~-~~~~  439 (542)
                      ..++..+.+.+++++|+.+...+.+...-  ++.   ..-...+.+.+..+++..|...++.|... +.  .|.. ..|+
T Consensus       630 ~e~i~~L~k~~r~qeAl~vv~~a~~~~~f~~~~~~~k~l~~~~l~~s~~~~d~~~a~~~lR~~i~~~~~~~~~~q~~l~n  709 (895)
T KOG2076|consen  630 RELILSLAKLQRVQEALSVVFTALEAYIFFQDSEIRKELQFLGLKASLYARDPGDAFSYLRSVITQFQFYLDVYQLNLWN  709 (895)
T ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHhhhhhhccHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhhhhhHHHHHHH
Confidence            22355566777777777777776654211  111   12223344555667777777776666543 11  1211 2222


Q ss_pred             HH-----------------------------------HHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhc-
Q 038401          440 LV-----------------------------------LNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGA-  482 (542)
Q Consensus       440 ~l-----------------------------------~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~-  482 (542)
                      ..                                   +.-....+.+.-|++.|-++...++..  +.... ++.++.+ 
T Consensus       710 ~~~s~~~~~~q~v~~~R~~~~~~~~~~~~~~~l~~i~gh~~~~~~s~~~Al~~y~ra~~~~pd~--Pl~nl~lglafih~  787 (895)
T KOG2076|consen  710 LDFSYFSKYGQRVCYLRLIMRLLVKNKDDTPPLALIYGHNLFVNASFKHALQEYMRAFRQNPDS--PLINLCLGLAFIHL  787 (895)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhccCccCCcceeeeechhHhhccchHHHHHHHHHHHHhCCCC--cHHHHHHHHHHHHH
Confidence            11                                   111223467888899888888877222  22222 3333322 


Q ss_pred             -c--------CChHHHHHHHHHHhc-CCCCCchhHHHHHHHHHHhhcchhhHHHHHHHHHhcC
Q 038401          483 -R--------KDFNMLESLFERLDS-DSNINKKELHHVVAGIYERANRLNDASRIMNRMNKRR  535 (542)
Q Consensus       483 -~--------g~~~~A~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  535 (542)
                       .        -..-++..++.+..+ ..+....++.+.++++|-..|-..-|..+|+++++-.
T Consensus       788 a~qr~v~~Rh~~i~qG~afL~RY~~lR~~~~~QEa~YNigRayh~~gl~~LA~~YYekvL~~~  850 (895)
T KOG2076|consen  788 ALQRRVSNRHAQIAQGFAFLKRYKELRRCEEKQEAFYNIGRAYHQIGLVHLAVSYYEKVLEVS  850 (895)
T ss_pred             HHHHHHhhhHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhCCC
Confidence             1        124556666666322 2222345788899999999999999999999998764

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

Probab=99.82  E-value=5.4e-14  Score=123.38  Aligned_cols=449  Identities=10%  Similarity=0.070  Sum_probs=341.3

Q ss_pred             ChhhhhHHHHhhCCCCCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHH
Q 038401            1 RSVAILDWINEEARYSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQM   80 (542)
Q Consensus         1 ~A~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~   80 (542)
                      ||.++|+...+.  -..+...|...+..-.+++++..|..+|++....-+.. ...|-..+..--..|++..|.++|++.
T Consensus        91 RARSv~ERALdv--d~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRV-dqlWyKY~ymEE~LgNi~gaRqiferW  167 (677)
T KOG1915|consen   91 RARSVFERALDV--DYRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRV-DQLWYKYIYMEEMLGNIAGARQIFERW  167 (677)
T ss_pred             HHHHHHHHHHhc--ccccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchH-HHHHHHHHHHHHHhcccHHHHHHHHHH
Confidence            689999999864  47888899999999999999999999999999863222 235666676667789999999999999


Q ss_pred             HhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHc-CC-CCC
Q 038401           81 EQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQ-GV-KPD  158 (542)
Q Consensus        81 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-g~-~~~  158 (542)
                      .+.  +|+...|.+.+..-.+.+..+.|..++++..-.  .|+..+|-.....--+.|....+..+|+...+. |- .-+
T Consensus       168 ~~w--~P~eqaW~sfI~fElRykeieraR~IYerfV~~--HP~v~~wikyarFE~k~g~~~~aR~VyerAie~~~~d~~~  243 (677)
T KOG1915|consen  168 MEW--EPDEQAWLSFIKFELRYKEIERARSIYERFVLV--HPKVSNWIKYARFEEKHGNVALARSVYERAIEFLGDDEEA  243 (677)
T ss_pred             HcC--CCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhee--cccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhhHHHH
Confidence            875  899999999999999999999999999998865  699999999999889999999999999998764 10 012


Q ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHhcCCCCC--hhhHHHHHHHHhccCCHHHHHHH--------HHHHHHCCCCCC
Q 038401          159 TVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLD--LTTCNIMIDVYGQLDMAKDADRL--------FWSMRKMGIDPS  228 (542)
Q Consensus       159 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~--------~~~~~~~~~~~~  228 (542)
                      ...+.+....=.++..++.|.-+|+-..+. +|.+  ...|......--+.|+.....+.        ++.+.+.+ +.|
T Consensus       244 e~lfvaFA~fEe~qkE~ERar~iykyAld~-~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~~n-p~n  321 (677)
T KOG1915|consen  244 EILFVAFAEFEERQKEYERARFIYKYALDH-IPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEVSKN-PYN  321 (677)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-cCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHHHhC-CCC
Confidence            233444444445577888999999888775 3333  44555555555566665544443        34444444 567


Q ss_pred             hhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCcH--HHHHHHHH--------HHHccCCHHHHHHHHHHHHHcCCCCC
Q 038401          229 VVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNV--VTYNTMIK--------IYGKSLEHEKATNLMQEMQNRGIEPN  298 (542)
Q Consensus       229 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~--------~~~~~~~~~~a~~~~~~~~~~~~~p~  298 (542)
                      -.+|--.+......|+.+...++|+..... ++|-.  ..|...|-        .=....+.+.+.++++..++. ++..
T Consensus       322 YDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~l-IPHk  399 (677)
T KOG1915|consen  322 YDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACLDL-IPHK  399 (677)
T ss_pred             chHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh-cCcc
Confidence            778888888888899999999999999876 34422  12222221        113568899999999998884 4556


Q ss_pred             HHHHHHHHHHH----HhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCC---CCCHHHH
Q 038401          299 AITYSTIIAIW----GKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPN---TIPRETA  371 (542)
Q Consensus       299 ~~~~~~l~~~~----~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~l  371 (542)
                      .+||..+--.|    .++.++..|.+++...+..  -|...++...|..-.+.++++.+..++++...-+   ..+|...
T Consensus       400 kFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~--cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~Pe~c~~W~ky  477 (677)
T KOG1915|consen  400 KFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGK--CPKDKLFKGYIELELQLREFDRCRKLYEKFLEFSPENCYAWSKY  477 (677)
T ss_pred             cchHHHHHHHHHHHHHHHcccHHHHHHHHHHhcc--CCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcChHhhHHHHHH
Confidence            66776554444    4678899999999988754  6788999999999999999999999999987644   4456666


Q ss_pred             HHHHHHhCCHHHHHHHHHHHHHcCC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHh----
Q 038401          372 ITILARAGRIEEATWVFRQAFDAGE-VKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYG----  446 (542)
Q Consensus       372 ~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~----  446 (542)
                      ...-...|+.+.|..+|.-++++.. ......|.+.|+.-...|.++.|..+|+++++..  +...+|.++..--.    
T Consensus       478 aElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~rt--~h~kvWisFA~fe~s~~~  555 (677)
T KOG1915|consen  478 AELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDRT--QHVKVWISFAKFEASASE  555 (677)
T ss_pred             HHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHhc--ccchHHHhHHHHhccccc
Confidence            7777889999999999999987621 1235678888888889999999999999999843  55557766654322    


Q ss_pred             -ccC-----------cHHHHHHHHHHHHHc
Q 038401          447 -KLR-----------EFETADDLYSEMQEE  464 (542)
Q Consensus       447 -~~g-----------~~~~A~~~~~~~~~~  464 (542)
                       +.|           ....|..+|+++...
T Consensus       556 ~~~~~~~~~~e~~~~~~~~AR~iferAn~~  585 (677)
T KOG1915|consen  556 GQEDEDLAELEITDENIKRARKIFERANTY  585 (677)
T ss_pred             cccccchhhhhcchhHHHHHHHHHHHHHHH
Confidence             334           567899999987653

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.81  E-value=1.8e-14  Score=124.76  Aligned_cols=323  Identities=15%  Similarity=0.228  Sum_probs=234.5

Q ss_pred             HhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHH---HHHHHhHhCCCCccHhHHHHHH
Q 038401           55 YTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAI---SIFSRLKSSGIVPDLVAYNTMI  131 (542)
Q Consensus        55 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~---~~~~~~~~~~~~~~~~~~~~l~  131 (542)
                      .+=+.++.. ..+|.+..+.-+|+.|.+.|++.+...-..|++..+-.+.-+--.   +.|-.|.+.| ..+..+|    
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-ISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFG-EDSTSSW----  190 (625)
T ss_pred             cchhHHHHH-HhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhccccc-ccccccc----
Confidence            345555554 467889999999999999998888877777776544333222112   2233333333 2233343    


Q ss_pred             HHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHH
Q 038401          132 NVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAK  211 (542)
Q Consensus       132 ~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  211 (542)
                          +.|.+.+  -+++..     +-+..++.++|.+.|+--..+.|.+++++......+.+..+||.+|.+-.-..   
T Consensus       191 ----K~G~vAd--L~~E~~-----PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~---  256 (625)
T KOG4422|consen  191 ----KSGAVAD--LLFETL-----PKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSV---  256 (625)
T ss_pred             ----ccccHHH--HHHhhc-----CCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhc---
Confidence                3444433  333333     33778999999999999999999999999988888899999999997754332   


Q ss_pred             HHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHH----HHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHH-HHHH
Q 038401          212 DADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGE----AIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEK-ATNL  286 (542)
Q Consensus       212 ~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-a~~~  286 (542)
                       ..+++.+|....+.||..|+|+++++..+.|+++.    |.+++.+|.+-|+.|...+|..+|..+.+.++..+ +..+
T Consensus       257 -~K~Lv~EMisqkm~Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~  335 (625)
T KOG4422|consen  257 -GKKLVAEMISQKMTPNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSW  335 (625)
T ss_pred             -cHHHHHHHHHhhcCCchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHH
Confidence             37889999999999999999999999999998765    56788899999999999999999999999888754 5566


Q ss_pred             HHHHHHc----CCCC----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC----CCCC---HHHHHHHHHHHHHcCCHH
Q 038401          287 MQEMQNR----GIEP----NAITYSTIIAIWGKAGKLDRAAMLFQKLRSSG----VEID---PVLYQTMIVAYERVGLVA  351 (542)
Q Consensus       287 ~~~~~~~----~~~p----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~---~~~~~~l~~~~~~~~~~~  351 (542)
                      +.++...    .++|    |...|...+..|.+..+.+.|.++...+....    +.|+   ...|..+..+.++....+
T Consensus       336 i~dI~N~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~  415 (625)
T KOG4422|consen  336 INDIQNSLTGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESID  415 (625)
T ss_pred             HHHHHHhhccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHH
Confidence            6665542    2333    44567778888889999999999887665321    2232   345567778888999999


Q ss_pred             HHHHHHHHhcC----CCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCc
Q 038401          352 HAKRLLHELRQ----PNTIPRETAITILARAGRIEEATWVFRQAFDAGEVK  398 (542)
Q Consensus       352 ~a~~~~~~~~~----~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  398 (542)
                      ....+++.+..    ++......++.+....|+++-.-+++..++..|..-
T Consensus       416 ~~~~~Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~  466 (625)
T KOG4422|consen  416 VTLKWYEDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTF  466 (625)
T ss_pred             HHHHHHHHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhh
Confidence            99999999875    444455556666667777777777777777665433

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

Probab=99.78  E-value=5.3e-15  Score=128.94  Aligned_cols=456  Identities=13%  Similarity=0.087  Sum_probs=305.8

Q ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHH-HHHHHHhccCCHHHHHHHHHHHHhCCCCCCHH----hHHH
Q 038401           20 FAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYS-TLITCFGKEGMFDSAISWLQQMEQDRVSGDLV----LYSN   94 (542)
Q Consensus        20 ~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~----~~~~   94 (542)
                      .....|.+-|..+..+.+|+..++-+.+...-|+..... .+...+.+..++.+|+++|+-.+..-++.+..    ..+.
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            334455666777788889999999888876667765433 45567888999999999999887763333332    3444


Q ss_pred             HHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCC------------CCHHHH
Q 038401           95 LIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVK------------PDTVSY  162 (542)
Q Consensus        95 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~------------~~~~~~  162 (542)
                      +...+.+.|.++.|+..|+...+.  .|+..+--.|+-++...|+-++..+.|.+|+.-...            |+....
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            555678899999999999998876  677665555555666789999999999999864322            222222


Q ss_pred             HHHH-----HHHHHCC--ChHHHHHHHHHHHhcCCCCChhh---H------------------HHHHHHHhccCCHHHHH
Q 038401          163 STLL-----NLYVENH--KFVEALSVFAEMNEVNCPLDLTT---C------------------NIMIDVYGQLDMAKDAD  214 (542)
Q Consensus       163 ~~l~-----~~~~~~g--~~~~a~~~~~~~~~~~~~~~~~~---~------------------~~l~~~~~~~~~~~~a~  214 (542)
                      +.-+     .-.-+.+  +-++++..-.++..--+.|+-..   |                  ..-...+.+.|+++.|.
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            2222     1111111  12223222222222222222111   0                  01122467899999999


Q ss_pred             HHHHHHHHCCCCCChhHHHHHHHHHHh--cCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHH
Q 038401          215 RLFWSMRKMGIDPSVVSYNTLLRVYGE--AELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQN  292 (542)
Q Consensus       215 ~~~~~~~~~~~~~~~~~~~~ll~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  292 (542)
                      ++++-+.+..-+.-...-+.|...+.-  ..++..|.+.-+...... .-+......-.......|++++|.+.+++.+.
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            999988865433333333333333332  345777777666555332 22333222223334467999999999999987


Q ss_pred             cCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcC---CCCCCHH
Q 038401          293 RGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQ---PNTIPRE  369 (542)
Q Consensus       293 ~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~  369 (542)
                      ..-......|+.=+ .+-..|++++|++.|-++... +..+..+...+...|....+..+|++++.+...   .++....
T Consensus       519 ndasc~ealfnigl-t~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~q~~slip~dp~ils  596 (840)
T KOG2003|consen  519 NDASCTEALFNIGL-TAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLMQANSLIPNDPAILS  596 (840)
T ss_pred             CchHHHHHHHHhcc-cHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhcccCCCCHHHHH
Confidence            63222222233222 356789999999999887653 233677778888889999999999999988654   4666677


Q ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH-hcc
Q 038401          370 TAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSY-GKL  448 (542)
Q Consensus       370 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~-~~~  448 (542)
                      .+...|-+.|+-..|.+.+-....- ++.+..+...|..-|....-+++|+.+|++..-  +.|+..-|..++..| .+.
T Consensus       597 kl~dlydqegdksqafq~~ydsyry-fp~nie~iewl~ayyidtqf~ekai~y~ekaal--iqp~~~kwqlmiasc~rrs  673 (840)
T KOG2003|consen  597 KLADLYDQEGDKSQAFQCHYDSYRY-FPCNIETIEWLAAYYIDTQFSEKAINYFEKAAL--IQPNQSKWQLMIASCFRRS  673 (840)
T ss_pred             HHHHHhhcccchhhhhhhhhhcccc-cCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh--cCccHHHHHHHHHHHHHhc
Confidence            8889999999999998876555443 567889999999999999999999999999876  789999998877655 578


Q ss_pred             CcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCC
Q 038401          449 REFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKD  485 (542)
Q Consensus       449 g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~  485 (542)
                      |+++.|...|+...+..  |.+..+.. ++.++...|.
T Consensus       674 gnyqka~d~yk~~hrkf--pedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  674 GNYQKAFDLYKDIHRKF--PEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             ccHHHHHHHHHHHHHhC--ccchHHHHHHHHHhccccc
Confidence            99999999999999876  33444444 7777777664

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.74  E-value=2.1e-14  Score=134.01  Aligned_cols=283  Identities=8%  Similarity=0.018  Sum_probs=173.6

Q ss_pred             CCChHHHHHHHHHHHhcCCCCChhh-HHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhHHH--HHHHHHHhcCcHHHH
Q 038401          172 NHKFVEALSVFAEMNEVNCPLDLTT-CNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYN--TLLRVYGEAELFGEA  248 (542)
Q Consensus       172 ~g~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~ll~~~~~~~~~~~a  248 (542)
                      .|++++|.+.+....+..  +++.. +........+.|+++.+...+.++.+.  .|+.....  .....+...|+++.|
T Consensus        97 eGd~~~A~k~l~~~~~~~--~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~A  172 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHA--EQPVVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAA  172 (398)
T ss_pred             CCCHHHHHHHHHHHHhcc--cchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHH
Confidence            567777766666544432  12222 222234446667777777777776654  34433222  224556667777777


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCH-------HHHHHHHHHHHhcCCHHHHHHH
Q 038401          249 IHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNA-------ITYSTIIAIWGKAGKLDRAAML  321 (542)
Q Consensus       249 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~-------~~~~~l~~~~~~~~~~~~a~~~  321 (542)
                      .+.++.+.+.. +.+......+...|.+.|++++|.+++..+.+.+..++.       .+|..++.......+.+...++
T Consensus       173 l~~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~  251 (398)
T PRK10747        173 RHGVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRW  251 (398)
T ss_pred             HHHHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHH
Confidence            77777776654 335566666677777777777777777777666543222       1222333333334445555566


Q ss_pred             HHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHH
Q 038401          322 FQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDIS  401 (542)
Q Consensus       322 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  401 (542)
                      ++.+.+. .+.++.....+...+...|+.++|.+.+++..+....+.-..+.+....++.+++++..+...+. .+.|+.
T Consensus       252 w~~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~~~~~~l~~l~~~l~~~~~~~al~~~e~~lk~-~P~~~~  329 (398)
T PRK10747        252 WKNQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKRQYDERLVLLIPRLKTNNPEQLEKVLRQQIKQ-HGDTPL  329 (398)
T ss_pred             HHhCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCHHHHHHHhhccCCChHHHHHHHHHHHhh-CCCCHH
Confidence            6555433 24466677777777777777777777777665533333222333334457777777777777765 345666


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHH
Q 038401          402 VFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQE  463 (542)
Q Consensus       402 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  463 (542)
                      .+..++..+...+++++|.+.|+++.+  ..|+...+..+..++.+.|+.++|.++|++...
T Consensus       330 l~l~lgrl~~~~~~~~~A~~~le~al~--~~P~~~~~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        330 LWSTLGQLLMKHGEWQEASLAFRAALK--QRPDAYDYAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHh--cCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            777777778888888888888888877  457777777777778888888888888877655

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

Probab=99.72  E-value=2e-12  Score=113.46  Aligned_cols=156  Identities=17%  Similarity=0.142  Sum_probs=70.8

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHhcCCCC---CCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHh
Q 038401          336 LYQTMIVAYERVGLVAHAKRLLHELRQPNT---IPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSR  412 (542)
Q Consensus       336 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~  412 (542)
                      |...+..-|.-.++.++|...|+...+-|+   ..|..+..-|....+...|.+-++.+++-. +.|-..|-.|+.+|.-
T Consensus       332 TCCiIaNYYSlr~eHEKAv~YFkRALkLNp~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~-p~DyRAWYGLGQaYei  410 (559)
T KOG1155|consen  332 TCCIIANYYSLRSEHEKAVMYFKRALKLNPKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDIN-PRDYRAWYGLGQAYEI  410 (559)
T ss_pred             ceeeehhHHHHHHhHHHHHHHHHHHHhcCcchhHHHHHhhHHHHHhcccHHHHHHHHHHHhcC-chhHHHHhhhhHHHHH
Confidence            333444444444445555555544443222   223334444444455555555555554432 2344445555555555


Q ss_pred             cCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHHHHHHHhccCChHHHHH
Q 038401          413 NKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQMLSLYGARKDFNMLES  491 (542)
Q Consensus       413 ~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  491 (542)
                      .+...-|+-+|+++..  ++| |+..|..|+.+|.+.++.++|++.|.++...+.+ .....+.++.+|.+.++.++|..
T Consensus       411 m~Mh~YaLyYfqkA~~--~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dt-e~~~l~~LakLye~l~d~~eAa~  487 (559)
T KOG1155|consen  411 MKMHFYALYYFQKALE--LKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDT-EGSALVRLAKLYEELKDLNEAAQ  487 (559)
T ss_pred             hcchHHHHHHHHHHHh--cCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcccc-chHHHHHHHHHHHHHHhHHHHHH
Confidence            5555555555555444  333 3444555555555555555555555555444311 11222224455555555555544


Q ss_pred             HHHH
Q 038401          492 LFER  495 (542)
Q Consensus       492 ~~~~  495 (542)
                      .+++
T Consensus       488 ~yek  491 (559)
T KOG1155|consen  488 YYEK  491 (559)
T ss_pred             HHHH
Confidence            4444

>TIGR00540 hemY_coli hemY protein

Probab=99.72  E-value=6.8e-14  Score=131.44  Aligned_cols=286  Identities=7%  Similarity=0.015  Sum_probs=163.4

Q ss_pred             HCCChHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChh--HHHHHHHHHHhcCcHHH
Q 038401          171 ENHKFVEALSVFAEMNEVNCPLD-LTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVV--SYNTLLRVYGEAELFGE  247 (542)
Q Consensus       171 ~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~ll~~~~~~~~~~~  247 (542)
                      ..|+++.|.+.+....+..  |+ ...+.....+....|+.+.+.+.+....+..  |+..  ........+...|+++.
T Consensus        96 ~~g~~~~A~~~l~~~~~~~--~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~--p~~~l~~~~~~a~l~l~~~~~~~  171 (409)
T TIGR00540        96 AEGDYAKAEKLIAKNADHA--AEPVLNLIKAAEAAQQRGDEARANQHLEEAAELA--GNDNILVEIARTRILLAQNELHA  171 (409)
T ss_pred             hCCCHHHHHHHHHHHhhcC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CcCchHHHHHHHHHHHHCCCHHH
Confidence            4566666666666655532  22 2233344455566667777777766665442  3332  22333555666677777


Q ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHH-HHHHH---HHhcCCHHHHHHHHH
Q 038401          248 AIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYS-TIIAI---WGKAGKLDRAAMLFQ  323 (542)
Q Consensus       248 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~-~l~~~---~~~~~~~~~a~~~~~  323 (542)
                      |...++.+.+.. +.+...+..+...+.+.|++++|.+.+..+.+.+..++ ..+. .-..+   ....+..+.+.+.+.
T Consensus       172 Al~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~-~~~~~l~~~a~~~~l~~~~~~~~~~~L~  249 (409)
T TIGR00540       172 ARHGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDD-EEFADLEQKAEIGLLDEAMADEGIDGLL  249 (409)
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCH-HHHHHHHHHHHHHHHHHHHHhcCHHHHH
Confidence            777777766654 33445566666667777777777777777666653322 2221 11111   112222222223333


Q ss_pred             HHHhcCC---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHH---HHHHH--HHHhCCHHHHHHHHHHHHHcC
Q 038401          324 KLRSSGV---EIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRE---TAITI--LARAGRIEEATWVFRQAFDAG  395 (542)
Q Consensus       324 ~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~l~~~--~~~~g~~~~A~~~~~~~~~~~  395 (542)
                      .+.+...   +.++..+..+...+...|+.++|.+.+++..+..+....   ..+..  ....++.+.+.+.+++..+. 
T Consensus       250 ~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~-  328 (409)
T TIGR00540       250 NWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKLGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKN-  328 (409)
T ss_pred             HHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhCCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHh-
Confidence            3333211   136666667777777777777777777776553332221   12221  22345667777777777665 


Q ss_pred             CCcCH--HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHH
Q 038401          396 EVKDI--SVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQE  463 (542)
Q Consensus       396 ~~~~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  463 (542)
                      .+.|+  ....+++..+.+.|++++|.+.|+........|+...+..+...+.+.|+.++|.++|++...
T Consensus       329 ~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~l~  398 (409)
T TIGR00540       329 VDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQDSLG  398 (409)
T ss_pred             CCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            23445  566677777888888888888888433333557777777778888888888888888877654

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.

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=99.71  E-value=9.5e-11  Score=107.31  Aligned_cols=385  Identities=11%  Similarity=0.155  Sum_probs=227.5

Q ss_pred             hHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHC----------------CC------hHHHHHHH
Q 038401          125 VAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVEN----------------HK------FVEALSVF  182 (542)
Q Consensus       125 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~----------------g~------~~~a~~~~  182 (542)
                      ..|.+|.+.|.+.|.+++|..+|++....  ..+...|+.+.++|+.-                |+      ++-....|
T Consensus       249 ~Lw~SLAdYYIr~g~~ekarDvyeeai~~--v~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~  326 (835)
T KOG2047|consen  249 FLWCSLADYYIRSGLFEKARDVYEEAIQT--VMTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARF  326 (835)
T ss_pred             HHHHHHHHHHHHhhhhHHHHHHHHHHHHh--heehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHH
Confidence            45677777778888888888888776654  22333444444444321                11      11222223


Q ss_pred             HHHHhcC-----------CCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCC------ChhHHHHHHHHHHhcCcH
Q 038401          183 AEMNEVN-----------CPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDP------SVVSYNTLLRVYGEAELF  245 (542)
Q Consensus       183 ~~~~~~~-----------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~------~~~~~~~ll~~~~~~~~~  245 (542)
                      +.+.+..           -+-++..|..-+.  ...|+..+-...+.++.+. +.|      -...|..+...|-..|++
T Consensus       327 e~lm~rr~~~lNsVlLRQn~~nV~eW~kRV~--l~e~~~~~~i~tyteAv~~-vdP~ka~Gs~~~Lw~~faklYe~~~~l  403 (835)
T KOG2047|consen  327 ESLMNRRPLLLNSVLLRQNPHNVEEWHKRVK--LYEGNAAEQINTYTEAVKT-VDPKKAVGSPGTLWVEFAKLYENNGDL  403 (835)
T ss_pred             HHHHhccchHHHHHHHhcCCccHHHHHhhhh--hhcCChHHHHHHHHHHHHc-cCcccCCCChhhHHHHHHHHHHhcCcH
Confidence            3332211           1123333333222  2334555666666666543 122      133577788888889999


Q ss_pred             HHHHHHHHHHHhcCCCCc---HHHHHHHHHHHHccCCHHHHHHHHHHHHHcC----------CCC-------CHHHHHHH
Q 038401          246 GEAIHLFRLMQRKEIEQN---VVTYNTMIKIYGKSLEHEKATNLMQEMQNRG----------IEP-------NAITYSTI  305 (542)
Q Consensus       246 ~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----------~~p-------~~~~~~~l  305 (542)
                      +.|..+|++..+-..+.-   ..+|......=.+..+++.|+++++....--          -.|       +...|...
T Consensus       404 ~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y  483 (835)
T KOG2047|consen  404 DDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMY  483 (835)
T ss_pred             HHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHH
Confidence            999999988876533211   2344444455556777888888877654321          111       23345666


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCC--CCC---CHHHHHHHHHH---
Q 038401          306 IAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQP--NTI---PRETAITILAR---  377 (542)
Q Consensus       306 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~---~~~~l~~~~~~---  377 (542)
                      +...-..|-++....+|+.+.+..+- ++.+.......+....-++++.+++++-...  -+.   .|+..+.-+.+   
T Consensus       484 ~DleEs~gtfestk~vYdriidLria-TPqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~ryg  562 (835)
T KOG2047|consen  484 ADLEESLGTFESTKAVYDRIIDLRIA-TPQIIINYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYG  562 (835)
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhc
Confidence            66666778888889999998887654 4444444444556677788888888886642  222   24444443332   


Q ss_pred             hCCHHHHHHHHHHHHHcCCCcCHH--HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH--HHHHHHHHHHhccCcHHH
Q 038401          378 AGRIEEATWVFRQAFDAGEVKDIS--VFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDS--HIIALVLNSYGKLREFET  453 (542)
Q Consensus       378 ~g~~~~A~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~--~~~~~l~~~~~~~g~~~~  453 (542)
                      .-.++.|..+|+++++ |.+|...  .|-.....--..|-...|+.+++++.. ++++..  ..|+..|.--...=-+..
T Consensus       563 g~klEraRdLFEqaL~-~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat~-~v~~a~~l~myni~I~kaae~yGv~~  640 (835)
T KOG2047|consen  563 GTKLERARDLFEQALD-GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERATS-AVKEAQRLDMYNIYIKKAAEIYGVPR  640 (835)
T ss_pred             CCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHHhCCcc
Confidence            2478999999999998 4554322  222222222356888889999999765 354533  566666653333333456


Q ss_pred             HHHHHHHHHHcCCCCchHH--HHH--HHHHHhccCChHHHHHHHHHHhcC-CCCCchhHHHHHHHHHHhhcc
Q 038401          454 ADDLYSEMQEEGCVFSDQV--HFQ--MLSLYGARKDFNMLESLFERLDSD-SNINKKELHHVVAGIYERANR  520 (542)
Q Consensus       454 A~~~~~~~~~~~~~~~~~~--~~~--l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~  520 (542)
                      .+.+|+++++.-   |+..  ...  .+..-.+.|..+.|+.++.--.+- +.....+.|...=..=.+.|+
T Consensus       641 TR~iYekaIe~L---p~~~~r~mclrFAdlEtklGEidRARaIya~~sq~~dPr~~~~fW~twk~FEvrHGn  709 (835)
T KOG2047|consen  641 TREIYEKAIESL---PDSKAREMCLRFADLETKLGEIDRARAIYAHGSQICDPRVTTEFWDTWKEFEVRHGN  709 (835)
T ss_pred             cHHHHHHHHHhC---ChHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhhhcCCCcCChHHHHHHHHHHHhcCC
Confidence            678888888863   4332  222  667778899999999888874332 222345677777777778888

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

Probab=99.71  E-value=7.6e-13  Score=116.02  Aligned_cols=329  Identities=14%  Similarity=0.083  Sum_probs=235.9

Q ss_pred             CCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCc--HHHH
Q 038401          190 CPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQN--VVTY  267 (542)
Q Consensus       190 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~  267 (542)
                      ...|...+......+.+.|....|.+.|......    -+..|.+.+....-..+.+.+..    .... .+.+  ...-
T Consensus       160 ~~~D~fllYL~Gvv~k~~~~~s~A~~sfv~~v~~----~P~~W~AWleL~~lit~~e~~~~----l~~~-l~~~~h~M~~  230 (559)
T KOG1155|consen  160 GEKDEFLLYLYGVVLKELGLLSLAIDSFVEVVNR----YPWFWSAWLELSELITDIEILSI----LVVG-LPSDMHWMKK  230 (559)
T ss_pred             ccchhHHHHHHHHHHHhhchHHHHHHHHHHHHhc----CCcchHHHHHHHHhhchHHHHHH----HHhc-CcccchHHHH
Confidence            3445555555555667788888888888877643    12334443333322223332222    2211 1211  1112


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC--CCHHHHHHHHHHHH
Q 038401          268 NTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVE--IDPVLYQTMIVAYE  345 (542)
Q Consensus       268 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~  345 (542)
                      --+..++......+++..-.......|++-+...-+....+.....|+++|+.+|+++.+.++-  .|..+|+.++-.-.
T Consensus       231 ~F~~~a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~  310 (559)
T KOG1155|consen  231 FFLKKAYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKN  310 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHh
Confidence            2344566666788888888888888887766666666666777889999999999999987421  24566666553322


Q ss_pred             HcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 038401          346 RVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEK  425 (542)
Q Consensus       346 ~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  425 (542)
                      ......---.....+.+-.+.+-..+..-|.-.++.++|...|+++++.++ .....|+.+++-|....+...|++-+++
T Consensus       311 ~~skLs~LA~~v~~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp-~~~~aWTLmGHEyvEmKNt~AAi~sYRr  389 (559)
T KOG1155|consen  311 DKSKLSYLAQNVSNIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLNP-KYLSAWTLMGHEYVEMKNTHAAIESYRR  389 (559)
T ss_pred             hhHHHHHHHHHHHHhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcCc-chhHHHHHhhHHHHHhcccHHHHHHHHH
Confidence            222222212222233344566666778888889999999999999999753 4577899999999999999999999999


Q ss_pred             HHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHHHHHhcCCCCC
Q 038401          426 MRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLFERLDSDSNIN  503 (542)
Q Consensus       426 ~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~~~~~~~~~  503 (542)
                      +++  +.| |-..|-.++.+|.-.+...=|+-+|+++....  |.|...+. |+.+|.+.++.++|++-+.+...-++. 
T Consensus       390 Avd--i~p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~k--PnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dt-  464 (559)
T KOG1155|consen  390 AVD--INPRDYRAWYGLGQAYEIMKMHFYALYYFQKALELK--PNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDT-  464 (559)
T ss_pred             HHh--cCchhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcC--CCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcccc-
Confidence            998  556 77999999999999999999999999999976  45666666 999999999999999999996544443 


Q ss_pred             chhHHHHHHHHHHhhcchhhHHHHHHHHHh
Q 038401          504 KKELHHVVAGIYERANRLNDASRIMNRMNK  533 (542)
Q Consensus       504 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  533 (542)
                      ...++..|+++|.+.++.++|.++|++..+
T Consensus       465 e~~~l~~LakLye~l~d~~eAa~~yek~v~  494 (559)
T KOG1155|consen  465 EGSALVRLAKLYEELKDLNEAAQYYEKYVE  494 (559)
T ss_pred             chHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            457899999999999999999999998665

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

Probab=99.70  E-value=1.7e-16  Score=141.63  Aligned_cols=257  Identities=14%  Similarity=0.164  Sum_probs=101.7

Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHc
Q 038401          269 TMIKIYGKSLEHEKATNLMQEMQNRGIEP-NAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERV  347 (542)
Q Consensus       269 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  347 (542)
                      .+...+.+.|++++|+++++.......+| |...|..+.......++.+.|...++.+...+.. ++..+..++.. ...
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~~   90 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQD   90 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccc-ccc
Confidence            34555666666666666665443332122 3333344444555566677777777766655422 44455555555 566


Q ss_pred             CCHHHHHHHHHHhcC--CCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcC-CCcCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 038401          348 GLVAHAKRLLHELRQ--PNTIPRETAITILARAGRIEEATWVFRQAFDAG-EVKDISVFGCMIELFSRNKKYANVIEVFE  424 (542)
Q Consensus       348 ~~~~~a~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  424 (542)
                      +++++|.+++...-+  +++..+...+..+...++++++.++++.+.... .+.++..|..++..+.+.|+.++|++.++
T Consensus        91 ~~~~~A~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~  170 (280)
T PF13429_consen   91 GDPEEALKLAEKAYERDGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYR  170 (280)
T ss_dssp             ---------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHH
T ss_pred             ccccccccccccccccccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            667777666655432  334445555666677777777777777766432 24577888888999999999999999999


Q ss_pred             HHHhCCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHHHHHh-cCCC
Q 038401          425 KMRSAGYFPD-SHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLFERLD-SDSN  501 (542)
Q Consensus       425 ~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~~~-~~~~  501 (542)
                      ++++  ..|+ ......++..+...|+.+++.++++...+..  ++++..+. ++.++...|++++|..++++.. ..|+
T Consensus       171 ~al~--~~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~--~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p~  246 (280)
T PF13429_consen  171 KALE--LDPDDPDARNALAWLLIDMGDYDEAREALKRLLKAA--PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNPD  246 (280)
T ss_dssp             HHHH--H-TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH---HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHSTT
T ss_pred             HHHH--cCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC--cCHHHHHHHHHHHhcccccccccccccccccccccc
Confidence            9998  4474 6778888899999999999888888887765  22333333 8899999999999999999954 3554


Q ss_pred             CCchhHHHHHHHHHHhhcchhhHHHHHHHHHh
Q 038401          502 INKKELHHVVAGIYERANRLNDASRIMNRMNK  533 (542)
Q Consensus       502 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  533 (542)
                        +......+++++...|+.++|.++++++.+
T Consensus       247 --d~~~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  247 --DPLWLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             ---HHHHHHHHHHHT-----------------
T ss_pred             --cccccccccccccccccccccccccccccc
Confidence              557788899999999999999999887654

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

Probab=99.69  E-value=5.4e-16  Score=138.46  Aligned_cols=261  Identities=15%  Similarity=0.133  Sum_probs=86.8

Q ss_pred             HHHHHHHHhcCHHHHHHHHHHHHhCC-CCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhc
Q 038401           24 VVLRNVLRAKQWELAHGLFDEMRQRG-IAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKL  102 (542)
Q Consensus        24 ~ll~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  102 (542)
                      .+...+.+.|++++|.++++...... .+.+...|..+.......++++.|.+.++++...+.. ++..+..++.. ...
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~~   90 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQD   90 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccc-ccc
Confidence            45666777777777777775443332 2234455555555666677777777777777665433 45555566665 566


Q ss_pred             CCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHHHCCChHHHHHH
Q 038401          103 SDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQG-VKPDTVSYSTLLNLYVENHKFVEALSV  181 (542)
Q Consensus       103 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g-~~~~~~~~~~l~~~~~~~g~~~~a~~~  181 (542)
                      +++++|.++++...+.  .+++..+..++..+...++++++..+++.+.... .+++...|..+...+.+.|+.++|++.
T Consensus        91 ~~~~~A~~~~~~~~~~--~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~  168 (280)
T PF13429_consen   91 GDPEEALKLAEKAYER--DGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRD  168 (280)
T ss_dssp             -----------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHH
T ss_pred             cccccccccccccccc--ccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            7777777777665544  3455556666666777777777777777765432 234556666667777777777777777


Q ss_pred             HHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCC
Q 038401          182 FAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIE  261 (542)
Q Consensus       182 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  261 (542)
                      +++..+.. |.|....+.++..+...|+.+++..++....+.. +.|+..+..+..++...|+.++|+..++...... +
T Consensus       169 ~~~al~~~-P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~-p  245 (280)
T PF13429_consen  169 YRKALELD-PDDPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN-P  245 (280)
T ss_dssp             HHHHHHH--TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS-T
T ss_pred             HHHHHHcC-CCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhcccccccccccccccccccc-c
Confidence            77776654 2346666667777777777777666666666543 4455566666777777777777777777766653 3


Q ss_pred             CcHHHHHHHHHHHHccCCHHHHHHHHHHHH
Q 038401          262 QNVVTYNTMIKIYGKSLEHEKATNLMQEMQ  291 (542)
Q Consensus       262 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  291 (542)
                      .|......+..++...|+.++|..+..+..
T Consensus       246 ~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~  275 (280)
T PF13429_consen  246 DDPLWLLAYADALEQAGRKDEALRLRRQAL  275 (280)
T ss_dssp             T-HHHHHHHHHHHT----------------
T ss_pred             cccccccccccccccccccccccccccccc
Confidence            356666666777777777777776665543

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.68  E-value=5.7e-13  Score=124.49  Aligned_cols=281  Identities=12%  Similarity=0.081  Sum_probs=165.8

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHh-HHHHHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHH--HHHHHHhccCcHHHH
Q 038401           67 EGMFDSAISWLQQMEQDRVSGDLVL-YSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYN--TMINVFGKAKLFKEA  143 (542)
Q Consensus        67 ~g~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~a  143 (542)
                      .|+++.|.+.+....+..  +++.. +.....+..+.|+++.|...+.++.+.  .|+.....  .....+...|+++.|
T Consensus        97 eGd~~~A~k~l~~~~~~~--~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~A  172 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHA--EQPVVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAA  172 (398)
T ss_pred             CCCHHHHHHHHHHHHhcc--cchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHH
Confidence            577777776666554432  12222 222334446677777777777776654  44433222  224566667777777


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhcCCCCCh-------hhHHHHHHHHhccCCHHHHHHH
Q 038401          144 RLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDL-------TTCNIMIDVYGQLDMAKDADRL  216 (542)
Q Consensus       144 ~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~  216 (542)
                      ...++++.+.. +-+......+...|.+.|++++|.+++..+.+.+..++.       .+|..++.......+.+...++
T Consensus       173 l~~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~  251 (398)
T PRK10747        173 RHGVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRW  251 (398)
T ss_pred             HHHHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHH
Confidence            77777776654 224556666677777777777777777777665433211       1233333333334444555555


Q ss_pred             HHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCC
Q 038401          217 FWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIE  296 (542)
Q Consensus       217 ~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  296 (542)
                      ++.+.+. .+.++.....+...+...|+.++|.+++++..+.  +++...  .++.+....++.+++.+.++...+.. +
T Consensus       252 w~~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l--~~l~~~l~~~~~~~al~~~e~~lk~~-P  325 (398)
T PRK10747        252 WKNQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERL--VLLIPRLKTNNPEQLEKVLRQQIKQH-G  325 (398)
T ss_pred             HHhCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHH--HHHHhhccCCChHHHHHHHHHHHhhC-C
Confidence            5544332 1345666666777777777777777777776663  334321  12333344577777777777766552 2


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHh
Q 038401          297 PNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHEL  360 (542)
Q Consensus       297 p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  360 (542)
                      -|+..+..+...+...+++++|.+.|+.+.+.  .|+...+..+..++.+.|+.++|.+++++.
T Consensus       326 ~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~--~P~~~~~~~La~~~~~~g~~~~A~~~~~~~  387 (398)
T PRK10747        326 DTPLLWSTLGQLLMKHGEWQEASLAFRAALKQ--RPDAYDYAWLADALDRLHKPEEAAAMRRDG  387 (398)
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            34445666667777777777777777777765  566677677777777777777777777664

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

Probab=99.68  E-value=1.1e-12  Score=115.85  Aligned_cols=409  Identities=14%  Similarity=0.076  Sum_probs=241.2

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHHhCCCCCC-HHhHHHHHHHHHhcCCHHHHHHHHHHhHhCCCCcc-HhHHHHHHHHH
Q 038401           57 YSTLITCFGKEGMFDSAISWLQQMEQDRVSGD-LVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPD-LVAYNTMINVF  134 (542)
Q Consensus        57 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~  134 (542)
                      +-...+-|.++|++++|+++|.+.+..  .|+ +..|.....+|...|++++..+--.+..+.  .|+ ...+..-.+++
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 LKTKGNKFFRNKKYDEAIKYYTQAIEL--CPDEPIFYSNRAACYESLGDWEKVIEDCTKALEL--NPDYVKALLRRASAH  193 (606)
T ss_pred             HHhhhhhhhhcccHHHHHHHHHHHHhc--CCCCchhhhhHHHHHHHHhhHHHHHHHHHHHhhc--CcHHHHHHHHHHHHH
Confidence            334555677888999999999988875  566 777888888888999999888887777764  444 33445555666


Q ss_pred             hccCcHHHHHHHHHHHHH-cCCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHh-cC--CCCChhhHHHHHHHHhccCCH
Q 038401          135 GKAKLFKEARLLIEEMRE-QGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNE-VN--CPLDLTTCNIMIDVYGQLDMA  210 (542)
Q Consensus       135 ~~~~~~~~a~~~~~~~~~-~g~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~--~~~~~~~~~~l~~~~~~~~~~  210 (542)
                      -..|++++|+.=..-..- .|+. +..+ ..++.--.+    ..+....++-.. .+  +-|+.....+....+...  +
T Consensus       194 E~lg~~~eal~D~tv~ci~~~F~-n~s~-~~~~eR~Lk----k~a~~ka~e~~k~nr~p~lPS~~fi~syf~sF~~~--~  265 (606)
T KOG0547|consen  194 EQLGKFDEALFDVTVLCILEGFQ-NASI-EPMAERVLK----KQAMKKAKEKLKENRPPVLPSATFIASYFGSFHAD--P  265 (606)
T ss_pred             HhhccHHHHHHhhhHHHHhhhcc-cchh-HHHHHHHHH----HHHHHHHHHhhcccCCCCCCcHHHHHHHHhhcccc--c
Confidence            667777766543222211 1111 1111 111111111    111222222222 11  123333333322222110  0


Q ss_pred             HHHHHHHHHHHHCCCCCChhHHHHHHHHH----Hh-cCcHHHHHHHHHHHHhc---CCCC---c------HHHHHHHHHH
Q 038401          211 KDADRLFWSMRKMGIDPSVVSYNTLLRVY----GE-AELFGEAIHLFRLMQRK---EIEQ---N------VVTYNTMIKI  273 (542)
Q Consensus       211 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~----~~-~~~~~~a~~~~~~~~~~---~~~~---~------~~~~~~l~~~  273 (542)
                      .      ..+.    .+.......+..++    .. ...+..|...+.+-...   ....   |      ..+.......
T Consensus       266 ~------~~~~----~~~~ksDa~l~~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~al~~~gtF  335 (606)
T KOG0547|consen  266 K------PLFD----NKSDKSDAALAEALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAELEYMAEALLLRGTF  335 (606)
T ss_pred             c------cccc----CCCccchhhHHHHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhHHHHHHHHHHhhhh
Confidence            0      0000    00011111111111    00 01123333322221110   0000   1      1111112223


Q ss_pred             HHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHH
Q 038401          274 YGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHA  353 (542)
Q Consensus       274 ~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  353 (542)
                      +.-.|+.-.|..-|+..+.....++. .|-.+...|....+.++....|++..+.+ +-++.+|..-.+.+.-.+++++|
T Consensus       336 ~fL~g~~~~a~~d~~~~I~l~~~~~~-lyI~~a~~y~d~~~~~~~~~~F~~A~~ld-p~n~dvYyHRgQm~flL~q~e~A  413 (606)
T KOG0547|consen  336 HFLKGDSLGAQEDFDAAIKLDPAFNS-LYIKRAAAYADENQSEKMWKDFNKAEDLD-PENPDVYYHRGQMRFLLQQYEEA  413 (606)
T ss_pred             hhhcCCchhhhhhHHHHHhcCcccch-HHHHHHHHHhhhhccHHHHHHHHHHHhcC-CCCCchhHhHHHHHHHHHHHHHH
Confidence            34467888888888888876433332 37777778888899999999999988876 44667777777777778889999


Q ss_pred             HHHHHHhcCCCCCC---HHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 038401          354 KRLLHELRQPNTIP---RETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAG  430 (542)
Q Consensus       354 ~~~~~~~~~~~~~~---~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  430 (542)
                      ..-|++....++..   +..+.-+..+.++++++...|+..++. ++..+..|+.....+..+++++.|.+.|+...+  
T Consensus       414 ~aDF~Kai~L~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~--  490 (606)
T KOG0547|consen  414 IADFQKAISLDPENAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIE--  490 (606)
T ss_pred             HHHHHHHhhcChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHh--
Confidence            99898887654443   444455566788999999999999886 667788899999999999999999999998887  


Q ss_pred             CCCC-------HHHH--HHHHHHHhccCcHHHHHHHHHHHHHcCCCCchH-HHHH-HHHHHhccCChHHHHHHHHHH
Q 038401          431 YFPD-------SHII--ALVLNSYGKLREFETADDLYSEMQEEGCVFSDQ-VHFQ-MLSLYGARKDFNMLESLFERL  496 (542)
Q Consensus       431 ~~p~-------~~~~--~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~-~~~~-l~~~~~~~g~~~~A~~~~~~~  496 (542)
                      +.|.       ...+  ..++ .+.-.+++..|.++++++.+.+   |.. ..+. |+....+.|+.++|+++|++.
T Consensus       491 LE~~~~~~~v~~~plV~Ka~l-~~qwk~d~~~a~~Ll~KA~e~D---pkce~A~~tlaq~~lQ~~~i~eAielFEks  563 (606)
T KOG0547|consen  491 LEPREHLIIVNAAPLVHKALL-VLQWKEDINQAENLLRKAIELD---PKCEQAYETLAQFELQRGKIDEAIELFEKS  563 (606)
T ss_pred             hccccccccccchhhhhhhHh-hhchhhhHHHHHHHHHHHHccC---chHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            3343       2222  1122 2223488889999999999876   433 3344 889999999999999999984

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

Probab=99.68  E-value=3.8e-12  Score=112.51  Aligned_cols=218  Identities=14%  Similarity=0.124  Sum_probs=171.7

Q ss_pred             HHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcC---CCCCCHHHHHHHHHHhCCHHHHH
Q 038401          309 WGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQ---PNTIPRETAITILARAGRIEEAT  385 (542)
Q Consensus       309 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~  385 (542)
                      +.-.|+.-.|..-|+..++....+ ...|-.+...|....+.++....|.+...   .++..|..-..+..-.+++++|.
T Consensus       336 ~fL~g~~~~a~~d~~~~I~l~~~~-~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~n~dvYyHRgQm~flL~q~e~A~  414 (606)
T KOG0547|consen  336 HFLKGDSLGAQEDFDAAIKLDPAF-NSLYIKRAAAYADENQSEKMWKDFNKAEDLDPENPDVYYHRGQMRFLLQQYEEAI  414 (606)
T ss_pred             hhhcCCchhhhhhHHHHHhcCccc-chHHHHHHHHHhhhhccHHHHHHHHHHHhcCCCCCchhHhHHHHHHHHHHHHHHH
Confidence            334688889999999998875433 33377777789999999999999998765   45566666777888889999999


Q ss_pred             HHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcC
Q 038401          386 WVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEG  465 (542)
Q Consensus       386 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  465 (542)
                      .-|++.+... +.++..|-.+..+..+.++++++...|++..+. ++-.+..|+.....+...+++++|.+.|+.+++..
T Consensus       415 aDF~Kai~L~-pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE  492 (606)
T KOG0547|consen  415 ADFQKAISLD-PENAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELE  492 (606)
T ss_pred             HHHHHHhhcC-hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhc
Confidence            9999999863 356777888888888999999999999999873 54467899999999999999999999999999976


Q ss_pred             CC------CchHHHHHHHHHHhccCChHHHHHHHHH-HhcCCCCCchhHHHHHHHHHHhhcchhhHHHHHHHH
Q 038401          466 CV------FSDQVHFQMLSLYGARKDFNMLESLFER-LDSDSNINKKELHHVVAGIYERANRLNDASRIMNRM  531 (542)
Q Consensus       466 ~~------~~~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  531 (542)
                      ..      .+.+...--.-++.=.+++++|..++++ +..+|.  ...+|..|+.+-...|+.++|+++|++.
T Consensus       493 ~~~~~~~v~~~plV~Ka~l~~qwk~d~~~a~~Ll~KA~e~Dpk--ce~A~~tlaq~~lQ~~~i~eAielFEks  563 (606)
T KOG0547|consen  493 PREHLIIVNAAPLVHKALLVLQWKEDINQAENLLRKAIELDPK--CEQAYETLAQFELQRGKIDEAIELFEKS  563 (606)
T ss_pred             cccccccccchhhhhhhHhhhchhhhHHHHHHHHHHHHccCch--HHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            22      1111111111122235999999999999 455554  6789999999999999999999999984

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

Probab=99.68  E-value=2.2e-14  Score=131.52  Aligned_cols=287  Identities=13%  Similarity=0.072  Sum_probs=219.6

Q ss_pred             CcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHHHhcCCHHHHHH
Q 038401          243 ELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRG--IEPNAITYSTIIAIWGKAGKLDRAAM  320 (542)
Q Consensus       243 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~a~~  320 (542)
                      -+..+|...|..+..+ +..+......+..+|...+++++|.++|+.+.+..  ..-+...|.+.+--+-+    +-++.
T Consensus       333 y~~~~A~~~~~klp~h-~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~----~v~Ls  407 (638)
T KOG1126|consen  333 YNCREALNLFEKLPSH-HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQD----EVALS  407 (638)
T ss_pred             HHHHHHHHHHHhhHHh-cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHh----hHHHH
Confidence            3467888899885444 34455677788999999999999999999998762  12256677777654322    12222


Q ss_pred             -HHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCC-C--CHHHHHHHHHHhCCHHHHHHHHHHHHHcCC
Q 038401          321 -LFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNT-I--PRETAITILARAGRIEEATWVFRQAFDAGE  396 (542)
Q Consensus       321 -~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~--~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  396 (542)
                       +-+.+.+.. +..+.+|.++..+|.-+++.+.|++.|++..+.++ .  .++.+..-+.....+|.|...|+.++... 
T Consensus       408 ~Laq~Li~~~-~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~-  485 (638)
T KOG1126|consen  408 YLAQDLIDTD-PNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPRFAYAYTLLGHESIATEEFDKAMKSFRKALGVD-  485 (638)
T ss_pred             HHHHHHHhhC-CCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCccchhhhhcCChhhhhHHHHhHHHHHHhhhcCC-
Confidence             333444443 55789999999999999999999999999988665 3  34444555677889999999999997642 


Q ss_pred             CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH
Q 038401          397 VKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ  475 (542)
Q Consensus       397 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  475 (542)
                      +.+...|-.++..|.++++++.|+-.|+++++  +.| +......++..+.+.|+.++|+++++++...+... ...-+.
T Consensus       486 ~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~--INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn-~l~~~~  562 (638)
T KOG1126|consen  486 PRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVE--INPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKN-PLCKYH  562 (638)
T ss_pred             chhhHHHHhhhhheeccchhhHHHHHHHhhhc--CCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCC-chhHHH
Confidence            12344555677889999999999999999998  667 55777788889999999999999999999987221 222333


Q ss_pred             HHHHHhccCChHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhhcchhhHHHHHHHHHhcCCCCCC
Q 038401          476 MLSLYGARKDFNMLESLFERLDSDSNINKKELHHVVAGIYERANRLNDASRIMNRMNKRRTFNSS  540 (542)
Q Consensus       476 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~  540 (542)
                      .+.++...+++++|...+++++.-- ++....+..++.+|-+.|+.+.|+.-|-=|.+-.+++..
T Consensus       563 ~~~il~~~~~~~eal~~LEeLk~~v-P~es~v~~llgki~k~~~~~~~Al~~f~~A~~ldpkg~~  626 (638)
T KOG1126|consen  563 RASILFSLGRYVEALQELEELKELV-PQESSVFALLGKIYKRLGNTDLALLHFSWALDLDPKGAQ  626 (638)
T ss_pred             HHHHHHhhcchHHHHHHHHHHHHhC-cchHHHHHHHHHHHHHHccchHHHHhhHHHhcCCCccch
Confidence            8889999999999999999986532 225678999999999999999999998888776665543

>TIGR00540 hemY_coli hemY protein

Probab=99.68  E-value=5.5e-13  Score=125.32  Aligned_cols=288  Identities=11%  Similarity=0.050  Sum_probs=183.1

Q ss_pred             hccCCHHHHHHHHHHHHhCCCCCC-HHhHHHHHHHHHhcCCHHHHHHHHHHhHhCCCCccH--hHHHHHHHHHhccCcHH
Q 038401           65 GKEGMFDSAISWLQQMEQDRVSGD-LVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDL--VAYNTMINVFGKAKLFK  141 (542)
Q Consensus        65 ~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~  141 (542)
                      ...|+++.|.+.+.+..+..  |+ ...+.....+....|+++.|.+.+.+..+.  .|+.  .........+...|+++
T Consensus        95 ~~~g~~~~A~~~l~~~~~~~--~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~--~p~~~l~~~~~~a~l~l~~~~~~  170 (409)
T TIGR00540        95 LAEGDYAKAEKLIAKNADHA--AEPVLNLIKAAEAAQQRGDEARANQHLEEAAEL--AGNDNILVEIARTRILLAQNELH  170 (409)
T ss_pred             HhCCCHHHHHHHHHHHhhcC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCcCchHHHHHHHHHHHHCCCHH
Confidence            35788888888887776653  33 233344456677778888888888887654  3333  23333466777788888


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhcCCCCChhhHH-HHHHHH---hccCCHHHHHHHH
Q 038401          142 EARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCN-IMIDVY---GQLDMAKDADRLF  217 (542)
Q Consensus       142 ~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~---~~~~~~~~a~~~~  217 (542)
                      .|...++.+.+.+ +-+...+..+...+...|++++|.+.+..+.+.+.. +...+. .-..++   ...+..++..+.+
T Consensus       171 ~Al~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~-~~~~~~~l~~~a~~~~l~~~~~~~~~~~L  248 (409)
T TIGR00540       171 AARHGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLF-DDEEFADLEQKAEIGLLDEAMADEGIDGL  248 (409)
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHHHHHHHHhcCHHHH
Confidence            8888888888764 235567777888888888888888888888777543 222221 111111   2222223333344


Q ss_pred             HHHHHCCC---CCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCcHHH-HHHHHHHHHccCCHHHHHHHHHHHHHc
Q 038401          218 WSMRKMGI---DPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVT-YNTMIKIYGKSLEHEKATNLMQEMQNR  293 (542)
Q Consensus       218 ~~~~~~~~---~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~  293 (542)
                      ..+.....   +.+...+..+...+...|+.++|.+++++..+..+...... ...........++.+.+.+.++...+.
T Consensus       249 ~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~  328 (409)
T TIGR00540       249 LNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKLGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKN  328 (409)
T ss_pred             HHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhCCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHh
Confidence            44443321   13667777778888888888888888888877632221111 111122223456777788877777665


Q ss_pred             CCCCC-H--HHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHh
Q 038401          294 GIEPN-A--ITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHEL  360 (542)
Q Consensus       294 ~~~p~-~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  360 (542)
                        .|+ +  .....+...+.+.|++++|.+.|+........|+...+..+...+.+.|+.++|.+++++.
T Consensus       329 --~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~  396 (409)
T TIGR00540       329 --VDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQDS  396 (409)
T ss_pred             --CCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence              333 3  4455677778888888888888885444334677777778888888888888888888775

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.

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=99.67  E-value=1.1e-10  Score=106.91  Aligned_cols=496  Identities=11%  Similarity=0.137  Sum_probs=302.1

Q ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhC-CCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHH
Q 038401           19 VFAYNVVLRNVLRAKQWELAHGLFDEMRQR-GIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIE   97 (542)
Q Consensus        19 ~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   97 (542)
                      +..|-..+..+.++|+.......|++.+.. .+.....+|...+......|-++-++++|++.++.    ++..-.-.+.
T Consensus       102 pRIwl~Ylq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~----~P~~~eeyie  177 (835)
T KOG2047|consen  102 PRIWLDYLQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKV----APEAREEYIE  177 (835)
T ss_pred             CHHHHHHHHHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhc----CHHHHHHHHH
Confidence            456777788888999999999999888764 23334558999999888999999999999999875    4444667788


Q ss_pred             HHHhcCCHHHHHHHHHHhHhCC------CCccHhHHHHHHHHHhccCcHH---HHHHHHHHHHHcCCCCC--HHHHHHHH
Q 038401           98 LARKLSDYSKAISIFSRLKSSG------IVPDLVAYNTMINVFGKAKLFK---EARLLIEEMREQGVKPD--TVSYSTLL  166 (542)
Q Consensus        98 ~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~~~~~---~a~~~~~~~~~~g~~~~--~~~~~~l~  166 (542)
                      .++..+++++|.+.+..+....      .+.+...|.-+....+++-+.-   ....+++.+...  -+|  ...|++|.
T Consensus       178 ~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~r--ftDq~g~Lw~SLA  255 (835)
T KOG2047|consen  178 YLAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRR--FTDQLGFLWCSLA  255 (835)
T ss_pred             HHHhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhccc--CcHHHHHHHHHHH
Confidence            8889999999999998876431      2445566766666655544332   334445554443  344  35789999


Q ss_pred             HHHHHCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCC----------------------HHHHHHHHHHHHHCC
Q 038401          167 NLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDM----------------------AKDADRLFWSMRKMG  224 (542)
Q Consensus       167 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------------------~~~a~~~~~~~~~~~  224 (542)
                      +.|.+.|.+++|.++|++....-  ....-|..+.++|+.-..                      ++-....|+.+....
T Consensus       256 dYYIr~g~~ekarDvyeeai~~v--~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr  333 (835)
T KOG2047|consen  256 DYYIRSGLFEKARDVYEEAIQTV--MTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRR  333 (835)
T ss_pred             HHHHHhhhhHHHHHHHHHHHHhh--eehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhcc
Confidence            99999999999999999987643  233444444444432211                      111222233332211


Q ss_pred             -----------CCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCC------cHHHHHHHHHHHHccCCHHHHHHHH
Q 038401          225 -----------IDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQ------NVVTYNTMIKIYGKSLEHEKATNLM  287 (542)
Q Consensus       225 -----------~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~------~~~~~~~l~~~~~~~~~~~~a~~~~  287 (542)
                                 -+.++..|..-+.  ...|+..+-...|.+..+. +.|      -...|..+.+.|-..|+.+.|..+|
T Consensus       334 ~~~lNsVlLRQn~~nV~eW~kRV~--l~e~~~~~~i~tyteAv~~-vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvif  410 (835)
T KOG2047|consen  334 PLLLNSVLLRQNPHNVEEWHKRVK--LYEGNAAEQINTYTEAVKT-VDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIF  410 (835)
T ss_pred             chHHHHHHHhcCCccHHHHHhhhh--hhcCChHHHHHHHHHHHHc-cCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHH
Confidence                       0111222222111  2345666777777776654 111      2346777888888888888888888


Q ss_pred             HHHHHcCCCCC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC-----------------CCHHHHHHHHHHHHHc
Q 038401          288 QEMQNRGIEPN---AITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVE-----------------IDPVLYQTMIVAYERV  347 (542)
Q Consensus       288 ~~~~~~~~~p~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----------------~~~~~~~~l~~~~~~~  347 (542)
                      ++...-..+--   ..+|..-...-.++.+++.|+++.+......-.                 .+..+|...++.-...
T Consensus       411 eka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~  490 (835)
T KOG2047|consen  411 EKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESL  490 (835)
T ss_pred             HHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHh
Confidence            88776532211   234555555556777888888888776543111                 1234455555555667


Q ss_pred             CCHHHHHHHHHHhcCCCCCCHHHH---HHHHHHhCCHHHHHHHHHHHHHcCCCcC-HHHHHHHHHHHHh---cCCHHHHH
Q 038401          348 GLVAHAKRLLHELRQPNTIPRETA---ITILARAGRIEEATWVFRQAFDAGEVKD-ISVFGCMIELFSR---NKKYANVI  420 (542)
Q Consensus       348 ~~~~~a~~~~~~~~~~~~~~~~~l---~~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~---~g~~~~A~  420 (542)
                      |-++....+++++......+...+   +..+-...-++++.+++++-+..-..|+ ...|+..+.-+.+   ....+.|.
T Consensus       491 gtfestk~vYdriidLriaTPqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEraR  570 (835)
T KOG2047|consen  491 GTFESTKAVYDRIIDLRIATPQIIINYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERAR  570 (835)
T ss_pred             ccHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHHH
Confidence            777777777777766444443333   3334455667778887777766533444 3467766665543   23577888


Q ss_pred             HHHHHHHhCCCCCCH--HHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHHHHHHHhc-----cCChHHHHHHH
Q 038401          421 EVFEKMRSAGYFPDS--HIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQMLSLYGA-----RKDFNMLESLF  493 (542)
Q Consensus       421 ~~~~~~~~~~~~p~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~-----~g~~~~A~~~~  493 (542)
                      .+|+++++ |.+|..  ..|......-.+.|....|..+|+++...-   +...-+.+.++|.+     -| ...-+.++
T Consensus       571 dLFEqaL~-~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat~~v---~~a~~l~myni~I~kaae~yG-v~~TR~iY  645 (835)
T KOG2047|consen  571 DLFEQALD-GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERATSAV---KEAQRLDMYNIYIKKAAEIYG-VPRTREIY  645 (835)
T ss_pred             HHHHHHHh-cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhcC---CHHHHHHHHHHHHHHHHHHhC-CcccHHHH
Confidence            88888887 555543  223222233345677788888888876643   22222223333332     11 11223344


Q ss_pred             HH-HhcCCCCCchhHHHHHHHHHHhhcchhhHHHHHHH
Q 038401          494 ER-LDSDSNINKKELHHVVAGIYERANRLNDASRIMNR  530 (542)
Q Consensus       494 ~~-~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  530 (542)
                      ++ +..-|+....+.....++.=.+.|..+-|..+|.-
T Consensus       646 ekaIe~Lp~~~~r~mclrFAdlEtklGEidRARaIya~  683 (835)
T KOG2047|consen  646 EKAIESLPDSKAREMCLRFADLETKLGEIDRARAIYAH  683 (835)
T ss_pred             HHHHHhCChHHHHHHHHHHHHHhhhhhhHHHHHHHHHh
Confidence            44 23333333446666777777788888888877765

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

Probab=99.67  E-value=1.1e-12  Score=123.90  Aligned_cols=221  Identities=13%  Similarity=0.161  Sum_probs=147.5

Q ss_pred             hhHHHHhhCCCCCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCC
Q 038401            5 ILDWINEEARYSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDR   84 (542)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~   84 (542)
                      ++..+. ..|+.|+-.+|..+|..|+..|+.+.|- +|.-|..+..+.+...++.++.+....++.+.+.          
T Consensus        12 fla~~e-~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk----------   79 (1088)
T KOG4318|consen   12 FLALHE-ISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK----------   79 (1088)
T ss_pred             HHHHHH-HhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC----------
Confidence            334444 6789999999999999999999999998 8888887766666666777777666666655443          


Q ss_pred             CCCCHHhHHHHHHHHHhcCCHHH---HHHHHHHhHh----CCC-----------------CccHhH----------HHHH
Q 038401           85 VSGDLVLYSNLIELARKLSDYSK---AISIFSRLKS----SGI-----------------VPDLVA----------YNTM  130 (542)
Q Consensus        85 ~~~~~~~~~~l~~~~~~~~~~~~---a~~~~~~~~~----~~~-----------------~~~~~~----------~~~l  130 (542)
                       .|.+.+|..|..+|...||...   +.+.+..+..    .|.                 -||...          |..+
T Consensus        80 -ep~aDtyt~Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaql  158 (1088)
T KOG4318|consen   80 -EPLADTYTNLLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQL  158 (1088)
T ss_pred             -CCchhHHHHHHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHH
Confidence             4566677777777777766543   2221111111    111                 111111          1111


Q ss_pred             HHHH-------------------hc-cCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhcCC
Q 038401          131 INVF-------------------GK-AKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNC  190 (542)
Q Consensus       131 ~~~~-------------------~~-~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  190 (542)
                      +...                   .. ...+++-..+.....+   .|+..+|..++.+-...|+.+.|..++.+|.+.|+
T Consensus       159 lkll~~~Pvsa~~~p~~vfLrqnv~~ntpvekLl~~cksl~e---~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gf  235 (1088)
T KOG4318|consen  159 LKLLAKVPVSAWNAPFQVFLRQNVVDNTPVEKLLNMCKSLVE---APTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGF  235 (1088)
T ss_pred             HHHHhhCCcccccchHHHHHHHhccCCchHHHHHHHHHHhhc---CCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCC
Confidence            1111                   11 1111222222222222   47888999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCc
Q 038401          191 PLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAEL  244 (542)
Q Consensus       191 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~  244 (542)
                      +.+.+-|-.++-+   .++...+..++.-|...|+.|+..|+...+-.+..+|.
T Consensus       236 pir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~  286 (1088)
T KOG4318|consen  236 PIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQ  286 (1088)
T ss_pred             Ccccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchh
Confidence            9888888777765   77888888889999999999999998887777666443

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

Probab=99.67  E-value=1.2e-11  Score=111.58  Aligned_cols=468  Identities=13%  Similarity=0.096  Sum_probs=304.2

Q ss_pred             CcHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHH
Q 038401           17 PSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLI   96 (542)
Q Consensus        17 ~~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~   96 (542)
                      .+..-+..+++-+..+.++.-|.-+-+.....+.  |+..---+.+++.-.|++.+|..+...-.-.  ..|..+.....
T Consensus        14 ~s~~~~~~~~r~~l~q~~y~~a~f~adkV~~l~~--dp~d~~~~aq~l~~~~~y~ra~~lit~~~le--~~d~~cryL~~   89 (611)
T KOG1173|consen   14 LSLEKYRRLVRDALMQHRYKTALFWADKVAGLTN--DPADIYWLAQVLYLGRQYERAAHLITTYKLE--KRDIACRYLAA   89 (611)
T ss_pred             ccHHHHHHHHHHHHHHHhhhHHHHHHHHHHhccC--ChHHHHHHHHHHHhhhHHHHHHHHHHHhhhh--hhhHHHHHHHH
Confidence            3455677777777777888888888777776654  4444455667777788888887776553221  24667777777


Q ss_pred             HHHHhcCCHHHHHHHHHHhHhC--C-----------CCccHhH----HHHHH-------HHHhccCcHHHHHHHHHHHHH
Q 038401           97 ELARKLSDYSKAISIFSRLKSS--G-----------IVPDLVA----YNTMI-------NVFGKAKLFKEARLLIEEMRE  152 (542)
Q Consensus        97 ~~~~~~~~~~~a~~~~~~~~~~--~-----------~~~~~~~----~~~l~-------~~~~~~~~~~~a~~~~~~~~~  152 (542)
                      .++.+..++++|..++......  .           +.++..-    -+.-.       ..|....+.++|...|.+...
T Consensus        90 ~~l~~lk~~~~al~vl~~~~~~~~~f~yy~~~~~~~l~~n~~~~~~~~~~essic~lRgk~y~al~n~~~ar~~Y~~Al~  169 (611)
T KOG1173|consen   90 KCLVKLKEWDQALLVLGRGHVETNPFSYYEKDAANTLELNSAGEDLMINLESSICYLRGKVYVALDNREEARDKYKEALL  169 (611)
T ss_pred             HHHHHHHHHHHHHHHhcccchhhcchhhcchhhhceeccCcccccccccchhceeeeeeehhhhhccHHHHHHHHHHHHh
Confidence            8888888888888887722100  0           0111100    01111       223334455666666666554


Q ss_pred             cCCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhcCC----CCChhhHHHHHHHH-hccCCHHHHHHHHHHHHHCCCCC
Q 038401          153 QGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNC----PLDLTTCNIMIDVY-GQLDMAKDADRLFWSMRKMGIDP  227 (542)
Q Consensus       153 ~g~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~----~~~~~~~~~l~~~~-~~~~~~~~a~~~~~~~~~~~~~~  227 (542)
                      .    |...+..+...-..  ..-.+.+.+..+...+.    ..+......+.... ++..+. .....-.+..-.+...
T Consensus       170 ~----D~~c~Ea~~~lvs~--~mlt~~Ee~~ll~~l~~a~~~~ed~e~l~~lyel~~~k~~n~-~~~~r~~~~sl~~l~~  242 (611)
T KOG1173|consen  170 A----DAKCFEAFEKLVSA--HMLTAQEEFELLESLDLAMLTKEDVERLEILYELKLCKNRNE-ESLTRNEDESLIGLAE  242 (611)
T ss_pred             c----chhhHHHHHHHHHH--HhcchhHHHHHHhcccHHhhhhhHHHHHHHHHHhhhhhhccc-cccccCchhhhhhhhh
Confidence            3    44443333221110  11111122222221110    01111111111111 000000 0000000011112344


Q ss_pred             ChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 038401          228 SVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIA  307 (542)
Q Consensus       228 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  307 (542)
                      +.........-+...+++.+..++.+.+.+.. +++...+..-|.++...|+..+-..+=.++.+.- +..+.+|-.+.-
T Consensus       243 ~~dll~~~ad~~y~~c~f~~c~kit~~lle~d-pfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~y-P~~a~sW~aVg~  320 (611)
T KOG1173|consen  243 NLDLLAEKADRLYYGCRFKECLKITEELLEKD-PFHLPCLPLHIACLYELGKSNKLFLLSHKLVDLY-PSKALSWFAVGC  320 (611)
T ss_pred             cHHHHHHHHHHHHHcChHHHHHHHhHHHHhhC-CCCcchHHHHHHHHHHhcccchHHHHHHHHHHhC-CCCCcchhhHHH
Confidence            56666666777888899999999999988874 5566666666778888999888888888888762 445678888888


Q ss_pred             HHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcC---CCCCCHHHHHHHHHHhCCHHHH
Q 038401          308 IWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQ---PNTIPRETAITILARAGRIEEA  384 (542)
Q Consensus       308 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A  384 (542)
                      -|...|+..+|.+.|.+....+. .=...|..+...|.-.|..++|+..+....+   ....|.-.+..-|.+.++++.|
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 YYLMIGKYSEARRYFSKATTLDP-TFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCHLPSLYLGMEYMRTNNLKLA  399 (611)
T ss_pred             HHHHhcCcHHHHHHHHHHhhcCc-cccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCcchHHHHHHHHHHhccHHHH
Confidence            88888999999999998876532 2356788889999999999999998887654   4455666666778889999999


Q ss_pred             HHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC--CCCC----CHHHHHHHHHHHhccCcHHHHHHHH
Q 038401          385 TWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSA--GYFP----DSHIIALVLNSYGKLREFETADDLY  458 (542)
Q Consensus       385 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~p----~~~~~~~l~~~~~~~g~~~~A~~~~  458 (542)
                      .++|.++... .|.|+...+.++-.....+.+.+|..+|+..+..  .+.+    -..+++.++.+|.+.+++++|+..+
T Consensus       400 e~Ff~~A~ai-~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~  478 (611)
T KOG1173|consen  400 EKFFKQALAI-APSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYY  478 (611)
T ss_pred             HHHHHHHHhc-CCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHH
Confidence            9999999886 4578899999988888899999999999988731  1111    2356888999999999999999999


Q ss_pred             HHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHHHH-HhcCCC
Q 038401          459 SEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLFER-LDSDSN  501 (542)
Q Consensus       459 ~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~-~~~~~~  501 (542)
                      ++++...  +.+..++. ++-+|...|+++.|++.|.+ +-..|+
T Consensus       479 q~aL~l~--~k~~~~~asig~iy~llgnld~Aid~fhKaL~l~p~  521 (611)
T KOG1173|consen  479 QKALLLS--PKDASTHASIGYIYHLLGNLDKAIDHFHKALALKPD  521 (611)
T ss_pred             HHHHHcC--CCchhHHHHHHHHHHHhcChHHHHHHHHHHHhcCCc
Confidence            9999976  23344444 88999999999999999999 555555

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.65  E-value=5.4e-11  Score=101.02  Aligned_cols=441  Identities=12%  Similarity=0.104  Sum_probs=264.6

Q ss_pred             HHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCH
Q 038401           26 LRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDY  105 (542)
Q Consensus        26 l~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  105 (542)
                      +.-+....++..|+.+++.-...+-.-...+-.-+..++.+.|++++|+..|..+... -.++...+..|.-++.-.|.+
T Consensus        29 Ledfls~rDytGAislLefk~~~~~EEE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~-~~~~~el~vnLAcc~FyLg~Y  107 (557)
T KOG3785|consen   29 LEDFLSNRDYTGAISLLEFKLNLDREEEDSLQLWIAHCYFHLGDYEEALNVYTFLMNK-DDAPAELGVNLACCKFYLGQY  107 (557)
T ss_pred             HHHHHhcccchhHHHHHHHhhccchhhhHHHHHHHHHHHHhhccHHHHHHHHHHHhcc-CCCCcccchhHHHHHHHHHHH
Confidence            5667778899999999987765443322223333556778899999999999988775 356777777777777888999


Q ss_pred             HHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHHHHHHHHHH
Q 038401          106 SKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEM  185 (542)
Q Consensus       106 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  185 (542)
                      .+|.++-....     .++-.-..|+....+.++-++-..+.+.+..     ....--+|.......-.+.+|++++...
T Consensus       108 ~eA~~~~~ka~-----k~pL~~RLlfhlahklndEk~~~~fh~~LqD-----~~EdqLSLAsvhYmR~HYQeAIdvYkrv  177 (557)
T KOG3785|consen  108 IEAKSIAEKAP-----KTPLCIRLLFHLAHKLNDEKRILTFHSSLQD-----TLEDQLSLASVHYMRMHYQEAIDVYKRV  177 (557)
T ss_pred             HHHHHHHhhCC-----CChHHHHHHHHHHHHhCcHHHHHHHHHHHhh-----hHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence            99988866643     3445555666777788888888877777765     3344556777777777899999999999


Q ss_pred             HhcCCCCChhhHHHHH-HHHhccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCcH
Q 038401          186 NEVNCPLDLTTCNIMI-DVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNV  264 (542)
Q Consensus       186 ~~~~~~~~~~~~~~l~-~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~  264 (542)
                      ...+  |+-...|..+ -+|.+..-++-+.+++.-..+.- +.++...|..+....+.=+-..|..-...+.+.+...  
T Consensus       178 L~dn--~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q~-pdStiA~NLkacn~fRl~ngr~ae~E~k~ladN~~~~--  252 (557)
T KOG3785|consen  178 LQDN--PEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQF-PDSTIAKNLKACNLFRLINGRTAEDEKKELADNIDQE--  252 (557)
T ss_pred             HhcC--hhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHhC-CCcHHHHHHHHHHHhhhhccchhHHHHHHHHhccccc--
Confidence            8765  5555555544 45677888888888888777652 3333444444433333323333444444444432111  


Q ss_pred             HHHHHHHHHHHc-----cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHH
Q 038401          265 VTYNTMIKIYGK-----SLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQT  339 (542)
Q Consensus       265 ~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  339 (542)
                        | ..+.-+++     -.+-+.|++++-.+.+.  .|.  .-..++--|.+.+++.+|..+.+++.-.  .|-..+...
T Consensus       253 --~-~f~~~l~rHNLVvFrngEgALqVLP~L~~~--IPE--ARlNL~iYyL~q~dVqeA~~L~Kdl~Pt--tP~EyilKg  323 (557)
T KOG3785|consen  253 --Y-PFIEYLCRHNLVVFRNGEGALQVLPSLMKH--IPE--ARLNLIIYYLNQNDVQEAISLCKDLDPT--TPYEYILKG  323 (557)
T ss_pred             --c-hhHHHHHHcCeEEEeCCccHHHhchHHHhh--ChH--hhhhheeeecccccHHHHHHHHhhcCCC--ChHHHHHHH
Confidence              1 11111222     23446677777666654  332  3334455567778888887776655322  232233222


Q ss_pred             HHHHH-----HHcCCHHHHHHHHHHhcC----CCCCC-HHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHH
Q 038401          340 MIVAY-----ERVGLVAHAKRLLHELRQ----PNTIP-RETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIEL  409 (542)
Q Consensus       340 l~~~~-----~~~~~~~~a~~~~~~~~~----~~~~~-~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~  409 (542)
                      ++.+-     .......-|.+.|+-.-.    .+..+ ...+...+.-..++++.+.++..+..--...|...+ .+..+
T Consensus       324 vv~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sYF~NdD~Fn~-N~AQA  402 (557)
T KOG3785|consen  324 VVFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESYFTNDDDFNL-NLAQA  402 (557)
T ss_pred             HHHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcchhhh-HHHHH
Confidence            22221     112234445566655432    23333 344555566667777777777766554222334333 36777


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHH-HHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH--HHHHHhccCCh
Q 038401          410 FSRNKKYANVIEVFEKMRSAGYFPDSHIIA-LVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ--MLSLYGARKDF  486 (542)
Q Consensus       410 ~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~-~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~--l~~~~~~~g~~  486 (542)
                      ++..|++.+|+++|-++..-.++ |..+|. .+.++|.+.++++-|..++   ++.+ .+.+.....  ++..|.+++.+
T Consensus       403 k~atgny~eaEelf~~is~~~ik-n~~~Y~s~LArCyi~nkkP~lAW~~~---lk~~-t~~e~fsLLqlIAn~CYk~~eF  477 (557)
T KOG3785|consen  403 KLATGNYVEAEELFIRISGPEIK-NKILYKSMLARCYIRNKKPQLAWDMM---LKTN-TPSERFSLLQLIANDCYKANEF  477 (557)
T ss_pred             HHHhcChHHHHHHHhhhcChhhh-hhHHHHHHHHHHHHhcCCchHHHHHH---HhcC-CchhHHHHHHHHHHHHHHHHHH
Confidence            78888888888888666542232 334443 4556777888877775554   3333 122222222  55667777777


Q ss_pred             HHHHHHHHHHh
Q 038401          487 NMLESLFERLD  497 (542)
Q Consensus       487 ~~A~~~~~~~~  497 (542)
                      --|.+.|..++
T Consensus       478 yyaaKAFd~lE  488 (557)
T KOG3785|consen  478 YYAAKAFDELE  488 (557)
T ss_pred             HHHHHhhhHHH
Confidence            77777777654

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

Probab=99.65  E-value=1.1e-11  Score=111.72  Aligned_cols=469  Identities=12%  Similarity=0.045  Sum_probs=304.1

Q ss_pred             CHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHH
Q 038401           53 DRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMIN  132 (542)
Q Consensus        53 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  132 (542)
                      +..-+..+++-+..+.++..|.-+-++....+..|+.  ---+.+++.-.|+++.|..+...-.-.  ..|..+......
T Consensus        15 s~~~~~~~~r~~l~q~~y~~a~f~adkV~~l~~dp~d--~~~~aq~l~~~~~y~ra~~lit~~~le--~~d~~cryL~~~   90 (611)
T KOG1173|consen   15 SLEKYRRLVRDALMQHRYKTALFWADKVAGLTNDPAD--IYWLAQVLYLGRQYERAAHLITTYKLE--KRDIACRYLAAK   90 (611)
T ss_pred             cHHHHHHHHHHHHHHHhhhHHHHHHHHHHhccCChHH--HHHHHHHHHhhhHHHHHHHHHHHhhhh--hhhHHHHHHHHH
Confidence            3444556666666677788888888887766544443  334667777788888888877654322  457777888888


Q ss_pred             HHhccCcHHHHHHHHHHH----HHcC---------CCCCHHH-----------HHHHHHHHHHCCChHHHHHHHHHHHhc
Q 038401          133 VFGKAKLFKEARLLIEEM----REQG---------VKPDTVS-----------YSTLLNLYVENHKFVEALSVFAEMNEV  188 (542)
Q Consensus       133 ~~~~~~~~~~a~~~~~~~----~~~g---------~~~~~~~-----------~~~l~~~~~~~g~~~~a~~~~~~~~~~  188 (542)
                      ++.+..++++|..++..-    ..-.         +.++..-           +-.-...|....+.++|...|.+....
T Consensus        91 ~l~~lk~~~~al~vl~~~~~~~~~f~yy~~~~~~~l~~n~~~~~~~~~~essic~lRgk~y~al~n~~~ar~~Y~~Al~~  170 (611)
T KOG1173|consen   91 CLVKLKEWDQALLVLGRGHVETNPFSYYEKDAANTLELNSAGEDLMINLESSICYLRGKVYVALDNREEARDKYKEALLA  170 (611)
T ss_pred             HHHHHHHHHHHHHHhcccchhhcchhhcchhhhceeccCcccccccccchhceeeeeeehhhhhccHHHHHHHHHHHHhc
Confidence            889999999999998822    1100         0111100           000112344445566666666666543


Q ss_pred             CCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHC-CCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCcHHHH
Q 038401          189 NCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKM-GIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTY  267 (542)
Q Consensus       189 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  267 (542)
                      ++. ....+..++....-.  ..+-+.+++.+.-. -...+......+.........-+.....-.+..-.+...+....
T Consensus       171 D~~-c~Ea~~~lvs~~mlt--~~Ee~~ll~~l~~a~~~~ed~e~l~~lyel~~~k~~n~~~~~r~~~~sl~~l~~~~dll  247 (611)
T KOG1173|consen  171 DAK-CFEAFEKLVSAHMLT--AQEEFELLESLDLAMLTKEDVERLEILYELKLCKNRNEESLTRNEDESLIGLAENLDLL  247 (611)
T ss_pred             chh-hHHHHHHHHHHHhcc--hhHHHHHHhcccHHhhhhhHHHHHHHHHHhhhhhhccccccccCchhhhhhhhhcHHHH
Confidence            211 222222222222111  11112222210000 00112222222222110000000000000101111234455666


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHc
Q 038401          268 NTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERV  347 (542)
Q Consensus       268 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  347 (542)
                      ..-.+-+...+++.+..++.+...+.. +++...+..-|.++...|+..+-..+=.++++. .|..+.+|-++.--|...
T Consensus       248 ~~~ad~~y~~c~f~~c~kit~~lle~d-pfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~-yP~~a~sW~aVg~YYl~i  325 (611)
T KOG1173|consen  248 AEKADRLYYGCRFKECLKITEELLEKD-PFHLPCLPLHIACLYELGKSNKLFLLSHKLVDL-YPSKALSWFAVGCYYLMI  325 (611)
T ss_pred             HHHHHHHHHcChHHHHHHHhHHHHhhC-CCCcchHHHHHHHHHHhcccchHHHHHHHHHHh-CCCCCcchhhHHHHHHHh
Confidence            667777888999999999999988763 556666777777888999988888888888876 355788999999999999


Q ss_pred             CCHHHHHHHHHHhcCCC---CCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 038401          348 GLVAHAKRLLHELRQPN---TIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFE  424 (542)
Q Consensus       348 ~~~~~a~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  424 (542)
                      |...+|.+.|.+...-+   ...|-.....+.-.|..+.|+..+..+-+.- +-.-..+--++--|.+.++..-|.+.|.
T Consensus       326 ~k~seARry~SKat~lD~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~-~G~hlP~LYlgmey~~t~n~kLAe~Ff~  404 (611)
T KOG1173|consen  326 GKYSEARRYFSKATTLDPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLM-PGCHLPSLYLGMEYMRTNNLKLAEKFFK  404 (611)
T ss_pred             cCcHHHHHHHHHHhhcCccccHHHHHHhHHhhhcchHHHHHHHHHHHHHhc-cCCcchHHHHHHHHHHhccHHHHHHHHH
Confidence            99999999999876533   3457778888999999999999999887752 2222223334556888999999999999


Q ss_pred             HHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHc----CCCCc-hHHHHH-HHHHHhccCChHHHHHHHHH-H
Q 038401          425 KMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEE----GCVFS-DQVHFQ-MLSLYGARKDFNMLESLFER-L  496 (542)
Q Consensus       425 ~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~~~-~~~~~~-l~~~~~~~g~~~~A~~~~~~-~  496 (542)
                      ++..  +.| |+..++.++-.....+.+.+|..+|+..+..    ....+ ...++. ++.++.+.+.+++|+..+++ +
T Consensus       405 ~A~a--i~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL  482 (611)
T KOG1173|consen  405 QALA--IAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKAL  482 (611)
T ss_pred             HHHh--cCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHH
Confidence            9987  556 5677888888888899999999999998832    11111 223344 99999999999999999999 5


Q ss_pred             hcCCCCCchhHHHHHHHHHHhhcchhhHHHHHHHHHhcC
Q 038401          497 DSDSNINKKELHHVVAGIYERANRLNDASRIMNRMNKRR  535 (542)
Q Consensus       497 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  535 (542)
                      ...|.  +...|..++-+|...|+.+.|++.|.+.+...
T Consensus       483 ~l~~k--~~~~~asig~iy~llgnld~Aid~fhKaL~l~  519 (611)
T KOG1173|consen  483 LLSPK--DASTHASIGYIYHLLGNLDKAIDHFHKALALK  519 (611)
T ss_pred             HcCCC--chhHHHHHHHHHHHhcChHHHHHHHHHHHhcC
Confidence            55554  56789999999999999999999999987655

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

Probab=99.65  E-value=2.7e-12  Score=110.84  Aligned_cols=294  Identities=14%  Similarity=0.083  Sum_probs=153.6

Q ss_pred             cCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHH
Q 038401          137 AKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRL  216 (542)
Q Consensus       137 ~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  216 (542)
                      .|++.+|+++..+-.+.+-. ....|..-+++.-..|+.+.+-.++.+..+..-.++..............|+.+.|..-
T Consensus        97 eG~~~qAEkl~~rnae~~e~-p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~  175 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQ-PVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAAREN  175 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcc-hHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHH
Confidence            45555555555554444322 22233333444445555555555555554442233344444444445555555555555


Q ss_pred             HHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCC
Q 038401          217 FWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIE  296 (542)
Q Consensus       217 ~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  296 (542)
                      +..+.+.+ +.++........+|.+.|++.....++..+.+.+.-.+...-.                            
T Consensus       176 v~~ll~~~-pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~----------------------------  226 (400)
T COG3071         176 VDQLLEMT-PRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAAR----------------------------  226 (400)
T ss_pred             HHHHHHhC-cCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHH----------------------------
Confidence            55555443 3344445555555555555555555555555544332221000                            


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHHHHHHH
Q 038401          297 PNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILA  376 (542)
Q Consensus       297 p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~  376 (542)
                      ....+|..+++-....+..+.-...|+..... .+-++..-.+++.-+.++|+.++|.++..+..+....+.-...-.+.
T Consensus       227 le~~a~~glL~q~~~~~~~~gL~~~W~~~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L~~~~~~l  305 (400)
T COG3071         227 LEQQAWEGLLQQARDDNGSEGLKTWWKNQPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRLCRLIPRL  305 (400)
T ss_pred             HHHHHHHHHHHHHhccccchHHHHHHHhccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhHHHHHhhc
Confidence            00123333444333333333333344433322 12234444455555555555555555555544332222211222233


Q ss_pred             HhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHH
Q 038401          377 RAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADD  456 (542)
Q Consensus       377 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~  456 (542)
                      +-++...-++..++..+. .+.++..+..|+..|.+++.|.+|.+.|+...+  ..|+..+|..+..++.+.|+.++|.+
T Consensus       306 ~~~d~~~l~k~~e~~l~~-h~~~p~L~~tLG~L~~k~~~w~kA~~~leaAl~--~~~s~~~~~~la~~~~~~g~~~~A~~  382 (400)
T COG3071         306 RPGDPEPLIKAAEKWLKQ-HPEDPLLLSTLGRLALKNKLWGKASEALEAALK--LRPSASDYAELADALDQLGEPEEAEQ  382 (400)
T ss_pred             CCCCchHHHHHHHHHHHh-CCCChhHHHHHHHHHHHhhHHHHHHHHHHHHHh--cCCChhhHHHHHHHHHHcCChHHHHH
Confidence            445555555555555554 345667778888888888888888888887777  55888888888888888888888888


Q ss_pred             HHHHHHHc
Q 038401          457 LYSEMQEE  464 (542)
Q Consensus       457 ~~~~~~~~  464 (542)
                      ..++.+..
T Consensus       383 ~r~e~L~~  390 (400)
T COG3071         383 VRREALLL  390 (400)
T ss_pred             HHHHHHHH
Confidence            88877643

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

Probab=99.64  E-value=4e-12  Score=106.42  Aligned_cols=287  Identities=14%  Similarity=0.098  Sum_probs=209.8

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHhHhCCCCcc---HhHHHHHHHHHhccCcHHHH
Q 038401           67 EGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPD---LVAYNTMINVFGKAKLFKEA  143 (542)
Q Consensus        67 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a  143 (542)
                      ..+.++|.+.|-+|.+... .+..+..+|.+.+.+.|..+.|+.+.+.+.++.--+.   ......|..-|...|-+|.|
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            5678899999999988532 2556677888999999999999999999887521111   23445566778889999999


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhcCCCCCh----hhHHHHHHHHhccCCHHHHHHHHHH
Q 038401          144 RLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDL----TTCNIMIDVYGQLDMAKDADRLFWS  219 (542)
Q Consensus       144 ~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~  219 (542)
                      +.+|..+.+.|. --......|+..|-...+|++|+++-.++...+..+..    ..|--+...+....+.+.|..++.+
T Consensus       127 E~~f~~L~de~e-fa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~k  205 (389)
T COG2956         127 EDIFNQLVDEGE-FAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKK  205 (389)
T ss_pred             HHHHHHHhcchh-hhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHH
Confidence            999999988642 24556778899999999999999999988876643332    2244455556667788999999999


Q ss_pred             HHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCH
Q 038401          220 MRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNA  299 (542)
Q Consensus       220 ~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~  299 (542)
                      ..+.+ +.++..--.+.+.....|+++.|.+.++.+.+.+...-..+...|..+|.+.|+.++....+..+.+..  ++.
T Consensus       206 Alqa~-~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~--~g~  282 (389)
T COG2956         206 ALQAD-KKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETN--TGA  282 (389)
T ss_pred             HHhhC-ccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHcc--CCc
Confidence            88775 445555666778888999999999999999988766667788889999999999999999999988773  344


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHc---CCHHHHHHHHHHh
Q 038401          300 ITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERV---GLVAHAKRLLHEL  360 (542)
Q Consensus       300 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~  360 (542)
                      ..-..+..........+.|...+.+-+..  .|+...+..++..-...   |...+....+++|
T Consensus       283 ~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r--~Pt~~gf~rl~~~~l~daeeg~~k~sL~~lr~m  344 (389)
T COG2956         283 DAELMLADLIELQEGIDAAQAYLTRQLRR--KPTMRGFHRLMDYHLADAEEGRAKESLDLLRDM  344 (389)
T ss_pred             cHHHHHHHHHHHhhChHHHHHHHHHHHhh--CCcHHHHHHHHHhhhccccccchhhhHHHHHHH
Confidence            44444444444455566777666665555  68888888888875442   2344444444444

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

Probab=99.62  E-value=5.7e-12  Score=105.52  Aligned_cols=290  Identities=14%  Similarity=0.094  Sum_probs=224.8

Q ss_pred             hcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCC---HHhHHHHHHHHHhcCCHHHH
Q 038401           32 AKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGD---LVLYSNLIELARKLSDYSKA  108 (542)
Q Consensus        32 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a  108 (542)
                      ..+.++|.+.|-+|.+.... +.++.-+|.+.|.+.|..+.|+++.+.+.++.--+.   ......|.+-|...|-++.|
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 SNQPDKAVDLFLEMLQEDPE-TFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRA  126 (389)
T ss_pred             hcCcchHHHHHHHHHhcCch-hhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHH
Confidence            46899999999999986432 566777899999999999999999999987621111   12344567778999999999


Q ss_pred             HHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHHHHCCChHHHHHHHHH
Q 038401          109 ISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPD----TVSYSTLLNLYVENHKFVEALSVFAE  184 (542)
Q Consensus       109 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~----~~~~~~l~~~~~~~g~~~~a~~~~~~  184 (542)
                      ..+|..+.+.+ .--......|+..|-...++++|.++-+++.+.|-.+.    ...|.-|...+....+.+.|..++.+
T Consensus       127 E~~f~~L~de~-efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~k  205 (389)
T COG2956         127 EDIFNQLVDEG-EFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKK  205 (389)
T ss_pred             HHHHHHHhcch-hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHH
Confidence            99999998754 44567788999999999999999999999998765443    23566677777788999999999999


Q ss_pred             HHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCcH
Q 038401          185 MNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNV  264 (542)
Q Consensus       185 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~  264 (542)
                      ..+.+ +..+..--.+.+.....|+++.|.+.++.+.+.+...-+.+...|..+|...|+.++....+..+.+..  +..
T Consensus       206 Alqa~-~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~--~g~  282 (389)
T COG2956         206 ALQAD-KKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETN--TGA  282 (389)
T ss_pred             HHhhC-ccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHcc--CCc
Confidence            98876 335555566778899999999999999999988655566788899999999999999999999988764  333


Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh---cCCHHHHHHHHHHHHhc
Q 038401          265 VTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGK---AGKLDRAAMLFQKLRSS  328 (542)
Q Consensus       265 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~  328 (542)
                      ..-..+...-....-.+.|...+.+-...  +|+...+..++..-..   .|...+-+..+++|...
T Consensus       283 ~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r--~Pt~~gf~rl~~~~l~daeeg~~k~sL~~lr~mvge  347 (389)
T COG2956         283 DAELMLADLIELQEGIDAAQAYLTRQLRR--KPTMRGFHRLMDYHLADAEEGRAKESLDLLRDMVGE  347 (389)
T ss_pred             cHHHHHHHHHHHhhChHHHHHHHHHHHhh--CCcHHHHHHHHHhhhccccccchhhhHHHHHHHHHH
Confidence            34444444444555567777777776666  7999999999986543   33455556666666543

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.62  E-value=4.3e-11  Score=101.64  Aligned_cols=449  Identities=13%  Similarity=0.123  Sum_probs=287.7

Q ss_pred             HHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcH
Q 038401           61 ITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLF  140 (542)
Q Consensus        61 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  140 (542)
                      +.-+....++..|+.+++.-...+-+....+-.-+..++...|++++|...+..+.+.. .++...+..|.-++.-.|.+
T Consensus        29 Ledfls~rDytGAislLefk~~~~~EEE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~~-~~~~el~vnLAcc~FyLg~Y  107 (557)
T KOG3785|consen   29 LEDFLSNRDYTGAISLLEFKLNLDREEEDSLQLWIAHCYFHLGDYEEALNVYTFLMNKD-DAPAELGVNLACCKFYLGQY  107 (557)
T ss_pred             HHHHHhcccchhHHHHHHHhhccchhhhHHHHHHHHHHHHhhccHHHHHHHHHHHhccC-CCCcccchhHHHHHHHHHHH
Confidence            34455677888888888876544322222233334567779999999999999888754 56677777777777778888


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHH
Q 038401          141 KEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSM  220 (542)
Q Consensus       141 ~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  220 (542)
                      .+|..+-....+     +.-.-..++....+.++-++-..+-+.+.+.     ..--.++.......-.+.+|.+++.+.
T Consensus       108 ~eA~~~~~ka~k-----~pL~~RLlfhlahklndEk~~~~fh~~LqD~-----~EdqLSLAsvhYmR~HYQeAIdvYkrv  177 (557)
T KOG3785|consen  108 IEAKSIAEKAPK-----TPLCIRLLFHLAHKLNDEKRILTFHSSLQDT-----LEDQLSLASVHYMRMHYQEAIDVYKRV  177 (557)
T ss_pred             HHHHHHHhhCCC-----ChHHHHHHHHHHHHhCcHHHHHHHHHHHhhh-----HHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence            888887665432     2333344455555677766666655554432     222334444444556789999999999


Q ss_pred             HHCCCCCChhHHHHH-HHHHHhcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCH
Q 038401          221 RKMGIDPSVVSYNTL-LRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNA  299 (542)
Q Consensus       221 ~~~~~~~~~~~~~~l-l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~  299 (542)
                      ...  .|+-...|.- .-+|.+..-++-+.+++.-..+. ++.+....|..+....+.-+-..|..-...+.+.+-..  
T Consensus       178 L~d--n~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q-~pdStiA~NLkacn~fRl~ngr~ae~E~k~ladN~~~~--  252 (557)
T KOG3785|consen  178 LQD--NPEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQ-FPDSTIAKNLKACNLFRLINGRTAEDEKKELADNIDQE--  252 (557)
T ss_pred             Hhc--ChhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHh-CCCcHHHHHHHHHHHhhhhccchhHHHHHHHHhccccc--
Confidence            876  3454444443 34567777788888888877765 34455556655555555444445555555555543211  


Q ss_pred             HHHHHHHHHHHh-----cCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHHHHH
Q 038401          300 ITYSTIIAIWGK-----AGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITI  374 (542)
Q Consensus       300 ~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~  374 (542)
                        |. .+.-+++     -.+-+.|++++-.+.+.  .|.  .-..|+--|.+.+++++|..+..++...  .|+..++.+
T Consensus       253 --~~-f~~~l~rHNLVvFrngEgALqVLP~L~~~--IPE--ARlNL~iYyL~q~dVqeA~~L~Kdl~Pt--tP~EyilKg  323 (557)
T KOG3785|consen  253 --YP-FIEYLCRHNLVVFRNGEGALQVLPSLMKH--IPE--ARLNLIIYYLNQNDVQEAISLCKDLDPT--TPYEYILKG  323 (557)
T ss_pred             --ch-hHHHHHHcCeEEEeCCccHHHhchHHHhh--ChH--hhhhheeeecccccHHHHHHHHhhcCCC--ChHHHHHHH
Confidence              11 1122222     23557888888877764  333  3345666789999999999998887543  344444443


Q ss_pred             H--HHh-------CCHHHHHHHHHHHHHcCCCcC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 038401          375 L--ARA-------GRIEEATWVFRQAFDAGEVKD-ISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNS  444 (542)
Q Consensus       375 ~--~~~-------g~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~  444 (542)
                      .  ...       ....-|.+.|+..-+.+..-| +.--.++..++.-..++++.+.+++.+...=...|...+ .+..+
T Consensus       324 vv~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sYF~NdD~Fn~-N~AQA  402 (557)
T KOG3785|consen  324 VVFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESYFTNDDDFNL-NLAQA  402 (557)
T ss_pred             HHHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcchhhh-HHHHH
Confidence            2  222       345566666666544443322 223345566666677899999999888774222333333 57889


Q ss_pred             HhccCcHHHHHHHHHHHHHcCCCCchHHHHH--HHHHHhccCChHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhhcchh
Q 038401          445 YGKLREFETADDLYSEMQEEGCVFSDQVHFQ--MLSLYGARKDFNMLESLFERLDSDSNINKKELHHVVAGIYERANRLN  522 (542)
Q Consensus       445 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~--l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  522 (542)
                      ++..|.+.+|.++|-++.... + .+...|.  ++.+|.++|+.+-|..++-+......  .-.....++..|++.+.+=
T Consensus       403 k~atgny~eaEelf~~is~~~-i-kn~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t~~e--~fsLLqlIAn~CYk~~eFy  478 (557)
T KOG3785|consen  403 KLATGNYVEAEELFIRISGPE-I-KNKILYKSMLARCYIRNKKPQLAWDMMLKTNTPSE--RFSLLQLIANDCYKANEFY  478 (557)
T ss_pred             HHHhcChHHHHHHHhhhcChh-h-hhhHHHHHHHHHHHHhcCCchHHHHHHHhcCCchh--HHHHHHHHHHHHHHHHHHH
Confidence            999999999999998876533 2 3344444  88999999999999999887653222  2345666788899999988


Q ss_pred             hHHHHHHHHHhcCCCCC
Q 038401          523 DASRIMNRMNKRRTFNS  539 (542)
Q Consensus       523 ~A~~~~~~~~~~~~~~~  539 (542)
                      =|.+.|+..-...+.|.
T Consensus       479 yaaKAFd~lE~lDP~pE  495 (557)
T KOG3785|consen  479 YAAKAFDELEILDPTPE  495 (557)
T ss_pred             HHHHhhhHHHccCCCcc
Confidence            88888888777666654

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=99.62  E-value=1.1e-09  Score=100.83  Aligned_cols=448  Identities=13%  Similarity=0.152  Sum_probs=274.7

Q ss_pred             hhhhHHHHhhCCCCCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 038401            3 VAILDWINEEARYSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQ   82 (542)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~   82 (542)
                      +++.+.+.+..  +-..++.....-.+...|+-++|......-.+.++. +...|+.+.-.+....++++|++.|...+.
T Consensus        27 LK~~~~iL~k~--~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d~~-S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~  103 (700)
T KOG1156|consen   27 LKLIKQILKKF--PEHGESLAMKGLTLNCLGKKEEAYELVRLGLRNDLK-SHVCWHVLGLLQRSDKKYDEAIKCYRNALK  103 (700)
T ss_pred             HHHHHHHHHhC--CccchhHHhccchhhcccchHHHHHHHHHHhccCcc-cchhHHHHHHHHhhhhhHHHHHHHHHHHHh
Confidence            44555566543  333344444444456678888888887777775554 677888888888888888888888888887


Q ss_pred             CCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcC-CCCCHHH
Q 038401           83 DRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQG-VKPDTVS  161 (542)
Q Consensus        83 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g-~~~~~~~  161 (542)
                      .+. .|...+.-+.-.-++.++++........+.+.. +.....|..+..+..-.|+...|..++++..+.. -.|+...
T Consensus       104 ~~~-dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~-~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~  181 (700)
T KOG1156|consen  104 IEK-DNLQILRDLSLLQIQMRDYEGYLETRNQLLQLR-PSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKED  181 (700)
T ss_pred             cCC-CcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhh-hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHH
Confidence            753 366777777777777888888877777777652 3345667777888888888888888888887654 2455555


Q ss_pred             HHHHH------HHHHHCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhHHHHH
Q 038401          162 YSTLL------NLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTL  235 (542)
Q Consensus       162 ~~~l~------~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  235 (542)
                      +.-..      ....+.|.+++|++.+...... +......-..-...+.+.++.++|..++..+...  .||..-|...
T Consensus       182 ~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~-i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~r--nPdn~~Yy~~  258 (700)
T KOG1156|consen  182 YEHSELLLYQNQILIEAGSLQKALEHLLDNEKQ-IVDKLAFEETKADLLMKLGQLEEAVKVYRRLLER--NPDNLDYYEG  258 (700)
T ss_pred             HHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH-HHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhh--CchhHHHHHH
Confidence            43322      3345677788888777665442 1112223344556677888889999998888876  3665555544


Q ss_pred             HH-HHHhcCcHHHHH-HHHHHHHhcCCCCcHHHHHHH-HHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Q 038401          236 LR-VYGEAELFGEAI-HLFRLMQRKEIEQNVVTYNTM-IKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKA  312 (542)
Q Consensus       236 l~-~~~~~~~~~~a~-~~~~~~~~~~~~~~~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  312 (542)
                      +. ++.+..+..++. .+|....+.-  |....-..+ +.......-.+..-.++..+.+.|+++   ++..+...|-..
T Consensus       259 l~~~lgk~~d~~~~lk~ly~~ls~~y--~r~e~p~Rlplsvl~~eel~~~vdkyL~~~l~Kg~p~---vf~dl~SLyk~p  333 (700)
T KOG1156|consen  259 LEKALGKIKDMLEALKALYAILSEKY--PRHECPRRLPLSVLNGEELKEIVDKYLRPLLSKGVPS---VFKDLRSLYKDP  333 (700)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHhhcC--cccccchhccHHHhCcchhHHHHHHHHHHHhhcCCCc---hhhhhHHHHhch
Confidence            43 443333333333 5555554431  111111111 111111222344555666777777654   333444433322


Q ss_pred             CCHHHHHHHHHHHHh----cC----------CCCCHHHH--HHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHH---HH
Q 038401          313 GKLDRAAMLFQKLRS----SG----------VEIDPVLY--QTMIVAYERVGLVAHAKRLLHELRQPNTIPRETA---IT  373 (542)
Q Consensus       313 ~~~~~a~~~~~~~~~----~~----------~~~~~~~~--~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l---~~  373 (542)
                      ...+-..++...+..    .|          -+|+...|  -.+...+-..|+++.|...++......+......   ..
T Consensus       334 ~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~laqh~D~~g~~~~A~~yId~AIdHTPTliEly~~KaR  413 (700)
T KOG1156|consen  334 EKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAIDHTPTLIELYLVKAR  413 (700)
T ss_pred             hHhHHHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCchHHHHHHHHHH
Confidence            222211111111111    10          14555444  4466778889999999999998887666554433   46


Q ss_pred             HHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC--CH----HHHH--HHHHHH
Q 038401          374 ILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP--DS----HIIA--LVLNSY  445 (542)
Q Consensus       374 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p--~~----~~~~--~l~~~~  445 (542)
                      .+...|.+++|...++++.+.+ .+|...-.--+.-..+.++.++|.++.....+.|...  +.    -.|-  .=+.+|
T Consensus       414 I~kH~G~l~eAa~~l~ea~elD-~aDR~INsKcAKYmLrAn~i~eA~~~~skFTr~~~~~~~~L~~mqcmWf~~E~g~ay  492 (700)
T KOG1156|consen  414 IFKHAGLLDEAAAWLDEAQELD-TADRAINSKCAKYMLRANEIEEAEEVLSKFTREGFGAVNNLAEMQCMWFQLEDGEAY  492 (700)
T ss_pred             HHHhcCChHHHHHHHHHHHhcc-chhHHHHHHHHHHHHHccccHHHHHHHHHhhhcccchhhhHHHhhhHHHhHhhhHHH
Confidence            7888899999999999998864 3555544455566678889999999988887766411  11    1121  124577


Q ss_pred             hccCcHHHHHHHHHHHHHc
Q 038401          446 GKLREFETADDLYSEMQEE  464 (542)
Q Consensus       446 ~~~g~~~~A~~~~~~~~~~  464 (542)
                      .+.|++..|++-|..+.+.
T Consensus       493 ~r~~k~g~ALKkfh~i~k~  511 (700)
T KOG1156|consen  493 LRQNKLGLALKKFHEIEKH  511 (700)
T ss_pred             HHHHHHHHHHHHHhhHHHH
Confidence            7888888888877776654

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

Probab=99.60  E-value=2.3e-11  Score=105.26  Aligned_cols=284  Identities=11%  Similarity=0.054  Sum_probs=158.3

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHH
Q 038401           67 EGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLL  146 (542)
Q Consensus        67 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  146 (542)
                      .|++..|.+...+-.+.+.. ....|..-.++..+.||.+.+-.++.+..+..-.++....-+........|+.+.|..-
T Consensus        97 eG~~~qAEkl~~rnae~~e~-p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~  175 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQ-PVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAAREN  175 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcc-hHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHH
Confidence            56666666666665554422 22334444455556666666666666665542234444445555555666666666666


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhcCCCCCh-------hhHHHHHHHHhccCCHHHHHHHHHH
Q 038401          147 IEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDL-------TTCNIMIDVYGQLDMAKDADRLFWS  219 (542)
Q Consensus       147 ~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~  219 (542)
                      ++++.+.+. ..........++|.+.|++.....++..+.+.+.-.++       .+|..+++-....+..+.-...++.
T Consensus       176 v~~ll~~~p-r~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~  254 (400)
T COG3071         176 VDQLLEMTP-RHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKN  254 (400)
T ss_pred             HHHHHHhCc-CChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHh
Confidence            666555432 24445555566666666666666666666665543332       3455555555554444444444444


Q ss_pred             HHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCH
Q 038401          220 MRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNA  299 (542)
Q Consensus       220 ~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~  299 (542)
                      .... .+.++....+++.-+.+.|+.++|.++..+..+++..|+    -...-.+.+.++.+.-++..++-.+.. +-++
T Consensus       255 ~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~----L~~~~~~l~~~d~~~l~k~~e~~l~~h-~~~p  328 (400)
T COG3071         255 QPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR----LCRLIPRLRPGDPEPLIKAAEKWLKQH-PEDP  328 (400)
T ss_pred             ccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh----HHHHHhhcCCCCchHHHHHHHHHHHhC-CCCh
Confidence            4332 134455555666666666777777766666666654444    111223345556555555555543331 2233


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHh
Q 038401          300 ITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHEL  360 (542)
Q Consensus       300 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  360 (542)
                      ..+.++...|.+.+.|.+|...|+...+.  .|+..+|+.+..++.+.|+..+|.++.++.
T Consensus       329 ~L~~tLG~L~~k~~~w~kA~~~leaAl~~--~~s~~~~~~la~~~~~~g~~~~A~~~r~e~  387 (400)
T COG3071         329 LLLSTLGRLALKNKLWGKASEALEAALKL--RPSASDYAELADALDQLGEPEEAEQVRREA  387 (400)
T ss_pred             hHHHHHHHHHHHhhHHHHHHHHHHHHHhc--CCChhhHHHHHHHHHHcCChHHHHHHHHHH
Confidence            55666666666777777777777765554  566666777777777777777666666553

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

Probab=99.60  E-value=6.6e-13  Score=121.97  Aligned_cols=281  Identities=14%  Similarity=0.101  Sum_probs=217.7

Q ss_pred             CHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCC--CCcHHHHHHHHHHHHccCCHHHHHHH
Q 038401          209 MAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEI--EQNVVTYNTMIKIYGKSLEHEKATNL  286 (542)
Q Consensus       209 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~  286 (542)
                      ...+|...|..+..+ +.-+..+...+..+|...+++++|.++|+.+.+...  ..+...|...+-.+-+    +-++..
T Consensus       334 ~~~~A~~~~~klp~h-~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~----~v~Ls~  408 (638)
T KOG1126|consen  334 NCREALNLFEKLPSH-HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQD----EVALSY  408 (638)
T ss_pred             HHHHHHHHHHhhHHh-cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHh----hHHHHH
Confidence            457788888885544 233446677788999999999999999999988632  2366777777765433    223333


Q ss_pred             HH-HHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCC
Q 038401          287 MQ-EMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNT  365 (542)
Q Consensus       287 ~~-~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  365 (542)
                      +. .+.+. -+-.+.+|..+..+|.-.++.+.|++.|++....+ +-...+|+.+..-+....++|.|...|+.....++
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            32 23333 24467899999999999999999999999999864 22678888888888999999999999999998888


Q ss_pred             CCHHHH---HHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHH
Q 038401          366 IPRETA---ITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALV  441 (542)
Q Consensus       366 ~~~~~l---~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l  441 (542)
                      ..|++.   ...|.+.++++.|+-.|+++++.++ .+.+....++..+.+.|+.++|+.+++++...+  | |+..--.-
T Consensus       487 rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~INP-~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld--~kn~l~~~~~  563 (638)
T KOG1126|consen  487 RHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEINP-SNSVILCHIGRIQHQLKRKDKALQLYEKAIHLD--PKNPLCKYHR  563 (638)
T ss_pred             hhhHHHHhhhhheeccchhhHHHHHHHhhhcCCc-cchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcC--CCCchhHHHH
Confidence            777665   6679999999999999999999753 456667778888899999999999999999843  4 44444455


Q ss_pred             HHHHhccCcHHHHHHHHHHHHHcCCCCchHH-HHHHHHHHhccCChHHHHHHHHHH-hcCCC
Q 038401          442 LNSYGKLREFETADDLYSEMQEEGCVFSDQV-HFQMLSLYGARKDFNMLESLFERL-DSDSN  501 (542)
Q Consensus       442 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~  501 (542)
                      +..+...+++++|+..++++.+.-  |.+.. ++.++.+|.+.|+.+.|+..|.-+ ..+|.
T Consensus       564 ~~il~~~~~~~eal~~LEeLk~~v--P~es~v~~llgki~k~~~~~~~Al~~f~~A~~ldpk  623 (638)
T KOG1126|consen  564 ASILFSLGRYVEALQELEELKELV--PQESSVFALLGKIYKRLGNTDLALLHFSWALDLDPK  623 (638)
T ss_pred             HHHHHhhcchHHHHHHHHHHHHhC--cchHHHHHHHHHHHHHHccchHHHHhhHHHhcCCCc
Confidence            667788999999999999999864  33333 333899999999999999999884 44443

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=99.58  E-value=2.5e-09  Score=98.44  Aligned_cols=469  Identities=11%  Similarity=0.083  Sum_probs=241.3

Q ss_pred             HHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHH
Q 038401           29 VLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKA  108 (542)
Q Consensus        29 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  108 (542)
                      +...+++...++..+.+++. .+-...+.....-.+...|+-++|......-.+..+ .+...|..+.-.+....++++|
T Consensus        17 ~yE~kQYkkgLK~~~~iL~k-~~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d~-~S~vCwHv~gl~~R~dK~Y~ea   94 (700)
T KOG1156|consen   17 CYETKQYKKGLKLIKQILKK-FPEHGESLAMKGLTLNCLGKKEEAYELVRLGLRNDL-KSHVCWHVLGLLQRSDKKYDEA   94 (700)
T ss_pred             HHHHHHHHhHHHHHHHHHHh-CCccchhHHhccchhhcccchHHHHHHHHHHhccCc-ccchhHHHHHHHHhhhhhHHHH
Confidence            34557777777777777764 333445555555555667777777777776665433 3666777777777777777788


Q ss_pred             HHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhc
Q 038401          109 ISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEV  188 (542)
Q Consensus       109 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  188 (542)
                      ++.|......+ +.|...+.-+.-.-++.++++........+.+.. +.....|..++.++.-.|++..|..++++..+.
T Consensus        95 iKcy~nAl~~~-~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~-~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t  172 (700)
T KOG1156|consen   95 IKCYRNALKIE-KDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLR-PSQRASWIGFAVAQHLLGEYKMALEILEEFEKT  172 (700)
T ss_pred             HHHHHHHHhcC-CCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhh-hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            88777777654 4456666665555556666666666666555541 224456667777777777777777777776654


Q ss_pred             C-CCCChhhHHHHHHH------HhccCCHHHHHHHHHHHHHCCCCCChhH-HHHHHHHHHhcCcHHHHHHHHHHHHhcCC
Q 038401          189 N-CPLDLTTCNIMIDV------YGQLDMAKDADRLFWSMRKMGIDPSVVS-YNTLLRVYGEAELFGEAIHLFRLMQRKEI  260 (542)
Q Consensus       189 ~-~~~~~~~~~~l~~~------~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  260 (542)
                      . -.|+...+.-....      ....|..+.|.+.+..-...  ..|... -..-...+.+.+++++|..++..+...  
T Consensus       173 ~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~--i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~r--  248 (700)
T KOG1156|consen  173 QNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQ--IVDKLAFEETKADLLMKLGQLEEAVKVYRRLLER--  248 (700)
T ss_pred             hccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH--HHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhh--
Confidence            3 23455444433222      23445555555554443322  112221 223334556667777777777776665  


Q ss_pred             CCcHHHHHHHHHHHH-ccCCHHHHH-HHHHHHHHcCCCCCHHHHHHH-HHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHH
Q 038401          261 EQNVVTYNTMIKIYG-KSLEHEKAT-NLMQEMQNRGIEPNAITYSTI-IAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLY  337 (542)
Q Consensus       261 ~~~~~~~~~l~~~~~-~~~~~~~a~-~~~~~~~~~~~~p~~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  337 (542)
                      .||...|...+..+. +-.+.-++. .+|....+.  .|....-..+ +.......-.+....++..+.+.|+++-   +
T Consensus       249 nPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~--y~r~e~p~Rlplsvl~~eel~~~vdkyL~~~l~Kg~p~v---f  323 (700)
T KOG1156|consen  249 NPDNLDYYEGLEKALGKIKDMLEALKALYAILSEK--YPRHECPRRLPLSVLNGEELKEIVDKYLRPLLSKGVPSV---F  323 (700)
T ss_pred             CchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhc--CcccccchhccHHHhCcchhHHHHHHHHHHHhhcCCCch---h
Confidence            345444444433332 222223333 444444333  2222111111 1111112223334445555556655432   2


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHH--HHHHHHhcCC
Q 038401          338 QTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGC--MIELFSRNKK  415 (542)
Q Consensus       338 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~--l~~~~~~~g~  415 (542)
                      ..+...|-.-.   ..- +++++.           ..|...-.........+.-  .-.+|....|..  ++..+-..|+
T Consensus       324 ~dl~SLyk~p~---k~~-~le~Lv-----------t~y~~~L~~~~~f~~~D~~--~~E~PttllWt~y~laqh~D~~g~  386 (700)
T KOG1156|consen  324 KDLRSLYKDPE---KVA-FLEKLV-----------TSYQHSLSGTGMFNFLDDG--KQEPPTTLLWTLYFLAQHYDKLGD  386 (700)
T ss_pred             hhhHHHHhchh---HhH-HHHHHH-----------HHHHhhcccccCCCccccc--ccCCchHHHHHHHHHHHHHHHccc
Confidence            22322221111   111 222211           0000000000000000000  001344444443  4455666777


Q ss_pred             HHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHH
Q 038401          416 YANVIEVFEKMRSAGYFPDS-HIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLF  493 (542)
Q Consensus       416 ~~~A~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~  493 (542)
                      ++.|..+++.+..  ..|+. ..|..-.+.+...|+.++|..++.++.+.+  .+|..... .+.-..+++..++|.++.
T Consensus       387 ~~~A~~yId~AId--HTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD--~aDR~INsKcAKYmLrAn~i~eA~~~~  462 (700)
T KOG1156|consen  387 YEVALEYIDLAID--HTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELD--TADRAINSKCAKYMLRANEIEEAEEVL  462 (700)
T ss_pred             HHHHHHHHHHHhc--cCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhcc--chhHHHHHHHHHHHHHccccHHHHHHH
Confidence            7777777777766  33554 445555566777777777777777777765  34444333 666667777777777777


Q ss_pred             HHHhcCCCCC-c-----hhHHHHH--HHHHHhhcchhhHHHHHHHH
Q 038401          494 ERLDSDSNIN-K-----KELHHVV--AGIYERANRLNDASRIMNRM  531 (542)
Q Consensus       494 ~~~~~~~~~~-~-----~~~~~~l--~~~~~~~g~~~~A~~~~~~~  531 (542)
                      .+....+... +     ...|+.+  +..|.+.|++-+|++-|..+
T Consensus       463 skFTr~~~~~~~~L~~mqcmWf~~E~g~ay~r~~k~g~ALKkfh~i  508 (700)
T KOG1156|consen  463 SKFTREGFGAVNNLAEMQCMWFQLEDGEAYLRQNKLGLALKKFHEI  508 (700)
T ss_pred             HHhhhcccchhhhHHHhhhHHHhHhhhHHHHHHHHHHHHHHHHhhH
Confidence            7765443210 0     1334333  44667777776666655443

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

Probab=99.57  E-value=2.7e-11  Score=114.81  Aligned_cols=251  Identities=14%  Similarity=0.158  Sum_probs=166.1

Q ss_pred             HHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHhHhCC
Q 038401           40 GLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSG  119 (542)
Q Consensus        40 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  119 (542)
                      .++-.+...|+.|+..||..+|.-|+..|+.+.|- +|.-|.-...+.+...|+.++......++.+.+.          
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk----------   79 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK----------   79 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC----------
Confidence            35566788899999999999999999999999998 9999988888888899999999999988887765          


Q ss_pred             CCccHhHHHHHHHHHhccCcHHH---HHHHHHHHH----HcCCCCCHH--------------HHHHHHHHHHHCCChHHH
Q 038401          120 IVPDLVAYNTMINVFGKAKLFKE---ARLLIEEMR----EQGVKPDTV--------------SYSTLLNLYVENHKFVEA  178 (542)
Q Consensus       120 ~~~~~~~~~~l~~~~~~~~~~~~---a~~~~~~~~----~~g~~~~~~--------------~~~~l~~~~~~~g~~~~a  178 (542)
                       .|.+.+|..|..+|...||...   ..+.+....    ..|+-....              .-...+....-.|-++.+
T Consensus        80 -ep~aDtyt~Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaql  158 (1088)
T KOG4318|consen   80 -EPLADTYTNLLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQL  158 (1088)
T ss_pred             -CCchhHHHHHHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHH
Confidence             6789999999999999999655   333222222    122111110              011223333445556666


Q ss_pred             HHHHHHHHhcCCCCChhhHHHHHHHHhcc-CCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHh
Q 038401          179 LSVFAEMNEVNCPLDLTTCNIMIDVYGQL-DMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQR  257 (542)
Q Consensus       179 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  257 (542)
                      ++++..+....-. .+.  ..+++-+... ..+++...+......   .|++.++..++.+-...|+.+.|..++.+|.+
T Consensus       159 lkll~~~Pvsa~~-~p~--~vfLrqnv~~ntpvekLl~~cksl~e---~~~s~~l~a~l~~alaag~~d~Ak~ll~emke  232 (1088)
T KOG4318|consen  159 LKLLAKVPVSAWN-APF--QVFLRQNVVDNTPVEKLLNMCKSLVE---APTSETLHAVLKRALAAGDVDGAKNLLYEMKE  232 (1088)
T ss_pred             HHHHhhCCccccc-chH--HHHHHHhccCCchHHHHHHHHHHhhc---CCChHHHHHHHHHHHhcCchhhHHHHHHHHHH
Confidence            6666554322100 111  1123333332 233444444433332   47777777777777777888888888888887


Q ss_pred             cCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 038401          258 KEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGK  311 (542)
Q Consensus       258 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  311 (542)
                      .|++.+..-|-.|+-+   .++..-+..++.-|.+.|+.|++.|+...+..+..
T Consensus       233 ~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~  283 (1088)
T KOG4318|consen  233 KGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLS  283 (1088)
T ss_pred             cCCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhc
Confidence            7777777666666655   66677777777777777777777777665555444

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.53  E-value=3.9e-09  Score=99.23  Aligned_cols=402  Identities=11%  Similarity=0.035  Sum_probs=249.4

Q ss_pred             CCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhcCCCC-Chhh
Q 038401          118 SGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPL-DLTT  196 (542)
Q Consensus       118 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~-~~~~  196 (542)
                      ..+.-+...|..|.-++...|+++.+.+.|++....- --..+.|..+...|...|.-..|..+++........| +...
T Consensus       317 ~~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~-~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~  395 (799)
T KOG4162|consen  317 KKFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFS-FGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISV  395 (799)
T ss_pred             hhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhh-hhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchH
Confidence            3345577888888888888899999988888876542 2356778888888888888888888888765543223 3333


Q ss_pred             HHHHHHHHh-ccCCHHHHHHHHHHHHHC--CC--CCChhHHHHHHHHHHhc-----------CcHHHHHHHHHHHHhcCC
Q 038401          197 CNIMIDVYG-QLDMAKDADRLFWSMRKM--GI--DPSVVSYNTLLRVYGEA-----------ELFGEAIHLFRLMQRKEI  260 (542)
Q Consensus       197 ~~~l~~~~~-~~~~~~~a~~~~~~~~~~--~~--~~~~~~~~~ll~~~~~~-----------~~~~~a~~~~~~~~~~~~  260 (542)
                      +...-..|. +.+..+++.+.-.++...  +.  ...+..+-.+.-+|...           ....++++.+++..+.+.
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            333334443 446666666666665541  10  12233333333333211           124566777777776642


Q ss_pred             CCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHH
Q 038401          261 EQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTM  340 (542)
Q Consensus       261 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  340 (542)
                      . |......+.--|+..++.+.|....++..+.+-.-+...|..+.-.+...+++.+|+.+.+...+.- ..+......-
T Consensus       476 ~-dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~-~~N~~l~~~~  553 (799)
T KOG4162|consen  476 T-DPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEF-GDNHVLMDGK  553 (799)
T ss_pred             C-CchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHh-hhhhhhchhh
Confidence            2 3333344455567778889999988888877556677888888888888889999998888776541 1111111111


Q ss_pred             HHHHHHcCCHHHHHHHHHHhcC----------------------------C----CCCCHHHHHHHHHHhC---CHHHHH
Q 038401          341 IVAYERVGLVAHAKRLLHELRQ----------------------------P----NTIPRETAITILARAG---RIEEAT  385 (542)
Q Consensus       341 ~~~~~~~~~~~~a~~~~~~~~~----------------------------~----~~~~~~~l~~~~~~~g---~~~~A~  385 (542)
                      +..-..-++.+++......+..                            .    .+.+...+.......+   .++.. 
T Consensus       554 ~~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~~~~~se~~-  632 (799)
T KOG4162|consen  554 IHIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQLKSAGSELK-  632 (799)
T ss_pred             hhhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhhhhcccccc-
Confidence            1111223344433332222210                            0    0011111111111000   00000 


Q ss_pred             HHHHHHHHcCCCcC------HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHH
Q 038401          386 WVFRQAFDAGEVKD------ISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLY  458 (542)
Q Consensus       386 ~~~~~~~~~~~~~~------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~  458 (542)
                        +...... ..|+      ...|......+...++.++|...+.++..  +.| ....|...+..+...|++++|.+.|
T Consensus       633 --Lp~s~~~-~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~--~~~l~~~~~~~~G~~~~~~~~~~EA~~af  707 (799)
T KOG4162|consen  633 --LPSSTVL-PGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASK--IDPLSASVYYLRGLLLEVKGQLEEAKEAF  707 (799)
T ss_pred             --cCccccc-CCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHh--cchhhHHHHHHhhHHHHHHHhhHHHHHHH
Confidence              0000000 1122      34566677788899999999988888876  445 4566777778888999999999999


Q ss_pred             HHHHHcCCCCchHHHH-H-HHHHHhccCChHHHHH--HHHH-HhcCCCCCchhHHHHHHHHHHhhcchhhHHHHHHHHHh
Q 038401          459 SEMQEEGCVFSDQVHF-Q-MLSLYGARKDFNMLES--LFER-LDSDSNINKKELHHVVAGIYERANRLNDASRIMNRMNK  533 (542)
Q Consensus       459 ~~~~~~~~~~~~~~~~-~-l~~~~~~~g~~~~A~~--~~~~-~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  533 (542)
                      ..+...+   |+.+.. . ++.++.+.|+..-|..  ++.. ++.+|.  +.++|+.++.++...|+.++|.+.|.....
T Consensus       708 ~~Al~ld---P~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~--n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~q  782 (799)
T KOG4162|consen  708 LVALALD---PDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPL--NHEAWYYLGEVFKKLGDSKQAAECFQAALQ  782 (799)
T ss_pred             HHHHhcC---CCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCC--CHHHHHHHHHHHHHccchHHHHHHHHHHHh
Confidence            9999977   444333 3 8999999998777776  7777 455554  678999999999999999999999998654

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

Probab=99.52  E-value=2.5e-09  Score=93.08  Aligned_cols=303  Identities=10%  Similarity=0.049  Sum_probs=214.3

Q ss_pred             CCChhHHHHHHHHH--HhcCcHHHHHHHHHHHHhc-CCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHH-H
Q 038401          226 DPSVVSYNTLLRVY--GEAELFGEAIHLFRLMQRK-EIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAI-T  301 (542)
Q Consensus       226 ~~~~~~~~~ll~~~--~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~-~  301 (542)
                      +|...+....+.++  +-.++...+...+-.+... -++.|+.....+.+.+...|+.++|...|++....  .|+.. .
T Consensus       191 ~~~~dwls~wika~Aq~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~--dpy~i~~  268 (564)
T KOG1174|consen  191 PDHFDWLSKWIKALAQMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCA--NPDNVEA  268 (564)
T ss_pred             CCCccHHHHHHHHHHHHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhC--Chhhhhh
Confidence            44444444444443  3345555555554444333 34567788888999999999999999999887754  33322 2


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHH---HHHHHHh
Q 038401          302 YSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETA---ITILARA  378 (542)
Q Consensus       302 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l---~~~~~~~  378 (542)
                      .....-.+...|+.+....+...+.... .-+...|..-.......+++..|+.+-++.++.++.....+   ..++...
T Consensus       269 MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~~r~~~alilKG~lL~~~  347 (564)
T KOG1174|consen  269 MDLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVEKCIDSEPRNHEALILKGRLLIAL  347 (564)
T ss_pred             HHHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccCcccchHHHhccHHHHhc
Confidence            2222334557888888888888776542 22334444444455667889999999888877555444443   4678889


Q ss_pred             CCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHH-HHH-hccCcHHHHHH
Q 038401          379 GRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVL-NSY-GKLREFETADD  456 (542)
Q Consensus       379 g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~-~~~-~~~g~~~~A~~  456 (542)
                      |+.++|.-.|+.++... +.+...|..|+++|...|++.+|.-.-+...+. +..+..++..++ ..| ....--++|.+
T Consensus       348 ~R~~~A~IaFR~Aq~La-p~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKk  425 (564)
T KOG1174|consen  348 ERHTQAVIAFRTAQMLA-PYRLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKK  425 (564)
T ss_pred             cchHHHHHHHHHHHhcc-hhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHH
Confidence            99999999999998752 357889999999999999999999887776652 334566766663 333 33445688999


Q ss_pred             HHHHHHHcCCCCchHHHHH--HHHHHhccCChHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhhcchhhHHHHHHHHHhc
Q 038401          457 LYSEMQEEGCVFSDQVHFQ--MLSLYGARKDFNMLESLFERLDSDSNINKKELHHVVAGIYERANRLNDASRIMNRMNKR  534 (542)
Q Consensus       457 ~~~~~~~~~~~~~~~~~~~--l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  534 (542)
                      ++++.++.+   |......  ++..+..-|.++.+++++++-..+..  +......|++++...+.+++|.+.|..+.+.
T Consensus       426 f~ek~L~~~---P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~~~--D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~  500 (564)
T KOG1174|consen  426 FAEKSLKIN---PIYTPAVNLIAELCQVEGPTKDIIKLLEKHLIIFP--DVNLHNHLGDIMRAQNEPQKAMEYYYKALRQ  500 (564)
T ss_pred             HHHhhhccC---CccHHHHHHHHHHHHhhCccchHHHHHHHHHhhcc--ccHHHHHHHHHHHHhhhHHHHHHHHHHHHhc
Confidence            999999876   5544333  78999999999999999999433322  3467889999999999999999999999887


Q ss_pred             CCCC
Q 038401          535 RTFN  538 (542)
Q Consensus       535 ~~~~  538 (542)
                      ++..
T Consensus       501 dP~~  504 (564)
T KOG1174|consen  501 DPKS  504 (564)
T ss_pred             Cccc
Confidence            7543

>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=99.47  E-value=8.3e-09  Score=97.53  Aligned_cols=53  Identities=11%  Similarity=0.063  Sum_probs=39.4

Q ss_pred             HHHHhccC-ChHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhhcchhhHHHHHHH
Q 038401          477 LSLYGARK-DFNMLESLFERLDSDSNINKKELHHVVAGIYERANRLNDASRIMNR  530 (542)
Q Consensus       477 ~~~~~~~g-~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  530 (542)
                      +.-+.+.. -.++|.++++-+..... .....|..-.++|.+.|++-.|++.+++
T Consensus       463 GekL~~t~dPLe~A~kfl~pL~~~a~-~~~et~~laFeVy~Rk~K~LLaLqaL~k  516 (517)
T PF12569_consen  463 GEKLLKTEDPLEEAMKFLKPLLELAP-DNIETHLLAFEVYLRKGKYLLALQALKK  516 (517)
T ss_pred             HHHHhcCCcHHHHHHHHHHHHHHhCc-cchhhHHHHhHHHHhcCcHHHHHHHHHh
Confidence            33344444 57889999988754332 3557888999999999999999988765

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 [], [].

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

Probab=99.47  E-value=1.3e-11  Score=103.54  Aligned_cols=231  Identities=12%  Similarity=0.136  Sum_probs=124.6

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHc
Q 038401          268 NTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERV  347 (542)
Q Consensus       268 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  347 (542)
                      +.+.++|.+.|-+.+|.+.|+...+.  .|-+.||..|-..|.+..++..|+.++.+-++. ++.+......+.+.+.. 
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~-fP~~VT~l~g~ARi~ea-  302 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS-FPFDVTYLLGQARIHEA-  302 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc-CCchhhhhhhhHHHHHH-
Confidence            44555666666666666666655554  445555666666666666666666666655554 12222222333334444 


Q ss_pred             CCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 038401          348 GLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMR  427 (542)
Q Consensus       348 ~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  427 (542)
                                                    .++.++|.++++...+.. +.++.....+...|.-.++++-|+.+|++++
T Consensus       303 ------------------------------m~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiL  351 (478)
T KOG1129|consen  303 ------------------------------MEQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRIL  351 (478)
T ss_pred             ------------------------------HHhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHH
Confidence                                          445555555555555542 2344444444455555566666666666666


Q ss_pred             hCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCC--CCchHHHHHHHHHHhccCChHHHHHHHHHH-hcCCCCCc
Q 038401          428 SAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGC--VFSDQVHFQMLSLYGARKDFNMLESLFERL-DSDSNINK  504 (542)
Q Consensus       428 ~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~  504 (542)
                      +.|+ -+...|+.+.-+|.-.++++-++..|++++..-.  .....++|.++.+....|++.-|.+.|+-. ..+++  .
T Consensus       352 qmG~-~speLf~NigLCC~yaqQ~D~~L~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~--h  428 (478)
T KOG1129|consen  352 QMGA-QSPELFCNIGLCCLYAQQIDLVLPSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQ--H  428 (478)
T ss_pred             HhcC-CChHHHhhHHHHHHhhcchhhhHHHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcc--h
Confidence            6554 2445555555566666666666666666554321  111234444666666666666666666653 22222  4


Q ss_pred             hhHHHHHHHHHHhhcchhhHHHHHHHHHhcCC
Q 038401          505 KELHHVVAGIYERANRLNDASRIMNRMNKRRT  536 (542)
Q Consensus       505 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  536 (542)
                      .++++.|+-+-.+.|+.++|..++..+....+
T Consensus       429 ~ealnNLavL~~r~G~i~~Arsll~~A~s~~P  460 (478)
T KOG1129|consen  429 GEALNNLAVLAARSGDILGARSLLNAAKSVMP  460 (478)
T ss_pred             HHHHHhHHHHHhhcCchHHHHHHHHHhhhhCc
Confidence            45666666666666666666666666555443

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.46  E-value=4.7e-09  Score=98.69  Aligned_cols=403  Identities=11%  Similarity=0.029  Sum_probs=260.9

Q ss_pred             CCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCC-CHHH
Q 038401           83 DRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKP-DTVS  161 (542)
Q Consensus        83 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~-~~~~  161 (542)
                      ..+.-+...|..+.-+....|+++.+.+.|++..... ......|..+...+...|.-..|..+++.-......| +...
T Consensus       317 ~~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~-~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~  395 (799)
T KOG4162|consen  317 KKFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFS-FGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISV  395 (799)
T ss_pred             hhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhh-hhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchH
Confidence            3455688888888888999999999999999877532 3456778888888888999889999988876553234 3344


Q ss_pred             HHHHHHHHH-HCCChHHHHHHHHHHHhc--C--CCCChhhHHHHHHHHhcc-----------CCHHHHHHHHHHHHHCCC
Q 038401          162 YSTLLNLYV-ENHKFVEALSVFAEMNEV--N--CPLDLTTCNIMIDVYGQL-----------DMAKDADRLFWSMRKMGI  225 (542)
Q Consensus       162 ~~~l~~~~~-~~g~~~~a~~~~~~~~~~--~--~~~~~~~~~~l~~~~~~~-----------~~~~~a~~~~~~~~~~~~  225 (542)
                      +-..-..|. +.+..++++++-.++...  +  -...+..+..+.-+|...           ....++.+.+++..+.+ 
T Consensus       396 ~Lmasklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d-  474 (799)
T KOG4162|consen  396 LLMASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFD-  474 (799)
T ss_pred             HHHHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcC-
Confidence            444444444 346677777776666551  1  112334444444444321           12345777788877665 


Q ss_pred             CCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHc-CCCCCHHHHHH
Q 038401          226 DPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNR-GIEPNAITYST  304 (542)
Q Consensus       226 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~p~~~~~~~  304 (542)
                      +.|+.+.-.+.--|+..++++.|.+..++..+-+...+...|..+.-.+...+++.+|+.+.+...+. |.  |......
T Consensus       475 ~~dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~--N~~l~~~  552 (799)
T KOG4162|consen  475 PTDPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGD--NHVLMDG  552 (799)
T ss_pred             CCCchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhh--hhhhchh
Confidence            33444444455567778899999999999988866778899999999999999999999998876543 21  1111111


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhc----------------------------CCCCCHHHHHHHHHHHHHcC---CHHHH
Q 038401          305 IIAIWGKAGKLDRAAMLFQKLRSS----------------------------GVEIDPVLYQTMIVAYERVG---LVAHA  353 (542)
Q Consensus       305 l~~~~~~~~~~~~a~~~~~~~~~~----------------------------~~~~~~~~~~~l~~~~~~~~---~~~~a  353 (542)
                      -+..-..-++.++++.....+...                            .......++..+.......+   ..+..
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            111112234444443332222110                            01111222222222111111   01111


Q ss_pred             HHHHHHhcCCCCC-C-------HHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 038401          354 KRLLHELRQPNTI-P-------RETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEK  425 (542)
Q Consensus       354 ~~~~~~~~~~~~~-~-------~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  425 (542)
                      +..+..  .+++. +       |......+.+.++.++|...+.++... .+.....|...+..+...|...+|.+.|..
T Consensus       633 Lp~s~~--~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~-~~l~~~~~~~~G~~~~~~~~~~EA~~af~~  709 (799)
T KOG4162|consen  633 LPSSTV--LPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKI-DPLSASVYYLRGLLLEVKGQLEEAKEAFLV  709 (799)
T ss_pred             cCcccc--cCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhc-chhhHHHHHHhhHHHHHHHhhHHHHHHHHH
Confidence            000000  01111 1       233456678889999999888888775 345677888888889999999999999999


Q ss_pred             HHhCCCCCC-HHHHHHHHHHHhccCcHHHHHH--HHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHHHHH
Q 038401          426 MRSAGYFPD-SHIIALVLNSYGKLREFETADD--LYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLFERL  496 (542)
Q Consensus       426 ~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~--~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~~  496 (542)
                      .+.  +.|+ ..+..+++.++.+.|+..-|..  ++..+++.+  |.++..|. ++.++-+.|+.++|.+.|...
T Consensus       710 Al~--ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~d--p~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa  780 (799)
T KOG4162|consen  710 ALA--LDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLD--PLNHEAWYYLGEVFKKLGDSKQAAECFQAA  780 (799)
T ss_pred             HHh--cCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhC--CCCHHHHHHHHHHHHHccchHHHHHHHHHH
Confidence            988  5575 4778899999999998877777  999999987  34444444 999999999999999999983

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.46  E-value=4.3e-11  Score=104.63  Aligned_cols=196  Identities=15%  Similarity=0.176  Sum_probs=135.2

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHhcCCCC---CCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHH
Q 038401          335 VLYQTMIVAYERVGLVAHAKRLLHELRQPNT---IPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFS  411 (542)
Q Consensus       335 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~  411 (542)
                      ..+..+...+...|++++|...+++....++   ..+..+...+...|++++|.+.++++.+.. +.+...+..+...+.
T Consensus        32 ~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~~  110 (234)
T TIGR02521        32 KIRVQLALGYLEQGDLEVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTFLC  110 (234)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHH
Confidence            3344444444455555555555544433221   122334455666677777777777777653 345667788888889


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHH
Q 038401          412 RNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNML  489 (542)
Q Consensus       412 ~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A  489 (542)
                      ..|++++|.+.++++.+....| ....+..+..++...|++++|...++++.+..+  .+...+. ++.++...|++++|
T Consensus       111 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~--~~~~~~~~la~~~~~~~~~~~A  188 (234)
T TIGR02521       111 QQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDP--QRPESLLELAELYYLRGQYKDA  188 (234)
T ss_pred             HcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc--CChHHHHHHHHHHHHcCCHHHH
Confidence            9999999999999988743222 345677788888999999999999999988762  2233333 88899999999999


Q ss_pred             HHHHHHHhcCCCCCchhHHHHHHHHHHhhcchhhHHHHHHHHHhc
Q 038401          490 ESLFERLDSDSNINKKELHHVVAGIYERANRLNDASRIMNRMNKR  534 (542)
Q Consensus       490 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  534 (542)
                      ...+++..... +.....+..++.++...|+.++|..+.+.+...
T Consensus       189 ~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  232 (234)
T TIGR02521       189 RAYLERYQQTY-NQTAESLWLGIRIARALGDVAAAQRYGAQLQKL  232 (234)
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence            99999854432 224456678889999999999999998887654

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.

>PRK12370 invasion protein regulator; Provisional

Probab=99.45  E-value=2.8e-10  Score=111.39  Aligned_cols=269  Identities=12%  Similarity=-0.001  Sum_probs=184.5

Q ss_pred             CCCHHhHHHHHHHHhc-----cCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHH---------hcCCHHHHHHHHHHhH
Q 038401           51 APDRYTYSTLITCFGK-----EGMFDSAISWLQQMEQDRVSGDLVLYSNLIELAR---------KLSDYSKAISIFSRLK  116 (542)
Q Consensus        51 ~~~~~~~~~l~~~~~~-----~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~---------~~~~~~~a~~~~~~~~  116 (542)
                      ..+...|...+.+...     .+++++|++.|++..+..+. +...|..+..++.         ..+++++|...+++..
T Consensus       253 ~~~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~ldP~-~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al  331 (553)
T PRK12370        253 LNSIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNMSPN-SIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKAT  331 (553)
T ss_pred             CCChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHH
Confidence            3466666666665322     24567899999998876432 4555655555443         2245889999999998


Q ss_pred             hCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhcCCCCChhh
Q 038401          117 SSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTT  196 (542)
Q Consensus       117 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  196 (542)
                      +.+ +.+...+..+...+...|++++|...|++..+.+ +.+...+..+...+...|++++|+..+++..+.+.. +...
T Consensus       332 ~ld-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~-~~~~  408 (553)
T PRK12370        332 ELD-HNNPQALGLLGLINTIHSEYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINECLKLDPT-RAAA  408 (553)
T ss_pred             hcC-CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-Chhh
Confidence            874 4467788888888889999999999999988874 335667888888999999999999999999887522 3333


Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHc
Q 038401          197 CNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGK  276 (542)
Q Consensus       197 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  276 (542)
                      +..++..+...|++++|...++++.....+.+...+..+..++...|+.++|...+..+.... +.+....+.+...|..
T Consensus       409 ~~~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~-~~~~~~~~~l~~~~~~  487 (553)
T PRK12370        409 GITKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQE-ITGLIAVNLLYAEYCQ  487 (553)
T ss_pred             HHHHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhcc-chhHHHHHHHHHHHhc
Confidence            334444566688899999999988765422244556777788889999999999998876552 2344455666667777


Q ss_pred             cCCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 038401          277 SLEHEKATNLMQEMQNR-GIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSG  329 (542)
Q Consensus       277 ~~~~~~a~~~~~~~~~~-~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  329 (542)
                      .|  ++|...++.+.+. ...|....+  +-..+.-.|+.+.+... +++.+.+
T Consensus       488 ~g--~~a~~~l~~ll~~~~~~~~~~~~--~~~~~~~~g~~~~~~~~-~~~~~~~  536 (553)
T PRK12370        488 NS--ERALPTIREFLESEQRIDNNPGL--LPLVLVAHGEAIAEKMW-NKFKNED  536 (553)
T ss_pred             cH--HHHHHHHHHHHHHhhHhhcCchH--HHHHHHHHhhhHHHHHH-HHhhccc
Confidence            77  4777777776543 112222223  33334456676666665 7777654

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

Probab=99.45  E-value=2.2e-11  Score=102.18  Aligned_cols=227  Identities=14%  Similarity=0.102  Sum_probs=169.6

Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHH-HHHHHHHH
Q 038401          232 YNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITY-STIIAIWG  310 (542)
Q Consensus       232 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~-~~l~~~~~  310 (542)
                      -+.+..+|.+.|.+.+|.+.++...+.  .|-+.||..|-++|.+..+++.|+.++.+-.+.  .|-..|| ....+.+.
T Consensus       226 k~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~--fP~~VT~l~g~ARi~e  301 (478)
T KOG1129|consen  226 KQQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS--FPFDVTYLLGQARIHE  301 (478)
T ss_pred             HHHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc--CCchhhhhhhhHHHHH
Confidence            467889999999999999999988876  577789999999999999999999999998876  5555554 55667778


Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCHHHHHHHHHH
Q 038401          311 KAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFRQ  390 (542)
Q Consensus       311 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  390 (542)
                      ..++.++|.++|+...+.. +.+.....++...|                               .-.++++-|+.++++
T Consensus       302 am~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~y-------------------------------fY~~~PE~AlryYRR  349 (478)
T KOG1129|consen  302 AMEQQEDALQLYKLVLKLH-PINVEAIACIAVGY-------------------------------FYDNNPEMALRYYRR  349 (478)
T ss_pred             HHHhHHHHHHHHHHHHhcC-Cccceeeeeeeecc-------------------------------ccCCChHHHHHHHHH
Confidence            8899999999999988764 33444433333333                               344566666666777


Q ss_pred             HHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH--HHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCC
Q 038401          391 AFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDS--HIIALVLNSYGKLREFETADDLYSEMQEEGCVF  468 (542)
Q Consensus       391 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  468 (542)
                      +++.|. .++..|+.+.-+|...+++|-++.-|++.+..--.|+.  ..|-.+.....-.|++.-|.+.|+-++..+  +
T Consensus       350 iLqmG~-~speLf~NigLCC~yaqQ~D~~L~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d--~  426 (478)
T KOG1129|consen  350 ILQMGA-QSPELFCNIGLCCLYAQQIDLVLPSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSD--A  426 (478)
T ss_pred             HHHhcC-CChHHHhhHHHHHHhhcchhhhHHHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccC--c
Confidence            777765 56777888888888888888888888888765444543  567677777777888888888888888765  2


Q ss_pred             chHHHHH-HHHHHhccCChHHHHHHHHHHh
Q 038401          469 SDQVHFQ-MLSLYGARKDFNMLESLFERLD  497 (542)
Q Consensus       469 ~~~~~~~-l~~~~~~~g~~~~A~~~~~~~~  497 (542)
                      .....+. ++-.-.+.|++++|..+++...
T Consensus       427 ~h~ealnNLavL~~r~G~i~~Arsll~~A~  456 (478)
T KOG1129|consen  427 QHGEALNNLAVLAARSGDILGARSLLNAAK  456 (478)
T ss_pred             chHHHHHhHHHHHhhcCchHHHHHHHHHhh
Confidence            3333444 7777778888888888888754

>PRK12370 invasion protein regulator; Provisional

Probab=99.44  E-value=8.1e-11  Score=115.12  Aligned_cols=245  Identities=11%  Similarity=0.052  Sum_probs=143.5

Q ss_pred             CHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHH---------hcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcC
Q 038401          279 EHEKATNLMQEMQNRGIEPN-AITYSTIIAIWG---------KAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVG  348 (542)
Q Consensus       279 ~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~---------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  348 (542)
                      +.++|...|++..+.  .|+ ...|..+..++.         ..+++++|...++++.+.+ +.+...+..+...+...|
T Consensus       276 ~~~~A~~~~~~Al~l--dP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ld-P~~~~a~~~lg~~~~~~g  352 (553)
T PRK12370        276 SLQQALKLLTQCVNM--SPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELD-HNNPQALGLLGLINTIHS  352 (553)
T ss_pred             HHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcc
Confidence            345677777776655  333 333433333322         2234677777777777664 335666666666777777


Q ss_pred             CHHHHHHHHHHhcCCCCC---CHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 038401          349 LVAHAKRLLHELRQPNTI---PRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEK  425 (542)
Q Consensus       349 ~~~~a~~~~~~~~~~~~~---~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  425 (542)
                      ++++|...+++....++.   .+..+..++...|++++|...++++++..+. ++..+..++..+...|++++|+..+++
T Consensus       353 ~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~-~~~~~~~~~~~~~~~g~~eeA~~~~~~  431 (553)
T PRK12370        353 EYIVGSLLFKQANLLSPISADIKYYYGWNLFMAGQLEEALQTINECLKLDPT-RAAAGITKLWITYYHTGIDDAIRLGDE  431 (553)
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-ChhhHHHHHHHHHhccCHHHHHHHHHH
Confidence            777777777776654433   3444566677777888888888887775432 232333344445567778888888877


Q ss_pred             HHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH--HHHHHhccCChHHHHHHHHHHhcCCCC
Q 038401          426 MRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ--MLSLYGARKDFNMLESLFERLDSDSNI  502 (542)
Q Consensus       426 ~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~--l~~~~~~~g~~~~A~~~~~~~~~~~~~  502 (542)
                      +.+.. .| +...+..+..++...|+.++|...+.++....   |......  ++..|...|  ++|...++++......
T Consensus       432 ~l~~~-~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~---~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~~~~  505 (553)
T PRK12370        432 LRSQH-LQDNPILLSMQVMFLSLKGKHELARKLTKEISTQE---ITGLIAVNLLYAEYCQNS--ERALPTIREFLESEQR  505 (553)
T ss_pred             HHHhc-cccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhcc---chhHHHHHHHHHHHhccH--HHHHHHHHHHHHHhhH
Confidence            76532 24 33445666677777888888888887765543   3333222  556666666  4666666664332111


Q ss_pred             CchhHHHHHHHHHHhhcchhhHHHHHHHHHhcC
Q 038401          503 NKKELHHVVAGIYERANRLNDASRIMNRMNKRR  535 (542)
Q Consensus       503 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  535 (542)
                      .+ ........+|.-.|+.+.|..+ +++.+.+
T Consensus       506 ~~-~~~~~~~~~~~~~g~~~~~~~~-~~~~~~~  536 (553)
T PRK12370        506 ID-NNPGLLPLVLVAHGEAIAEKMW-NKFKNED  536 (553)
T ss_pred             hh-cCchHHHHHHHHHhhhHHHHHH-HHhhccc
Confidence            11 1112245566666776666666 6665544

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.43  E-value=6.1e-08  Score=88.62  Aligned_cols=454  Identities=12%  Similarity=0.074  Sum_probs=255.8

Q ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHH
Q 038401           21 AYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELAR  100 (542)
Q Consensus        21 ~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  100 (542)
                      ..-+=++.+...|++++|.+..+.++..+ +-+...+..=+-++.+.+.|++|+.+.+.-...  ..+...+-.-..+..
T Consensus        14 ~l~t~ln~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~--~~~~~~~fEKAYc~Y   90 (652)
T KOG2376|consen   14 ALLTDLNRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKKNGAL--LVINSFFFEKAYCEY   90 (652)
T ss_pred             HHHHHHHHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchh--hhcchhhHHHHHHHH
Confidence            33345666778899999999999999876 446667777777889999999999665543211  111112122234456


Q ss_pred             hcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHHCCChHHHH
Q 038401          101 KLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKP-DTVSYSTLLNLYVENHKFVEAL  179 (542)
Q Consensus       101 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~-~~~~~~~l~~~~~~~g~~~~a~  179 (542)
                      +.+..++|...++-+.    +.+..+...-...+.+.|++++|.++|+.+.+++.+- +...-..++.+-    -.-.+.
T Consensus        91 rlnk~Dealk~~~~~~----~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~----a~l~~~  162 (652)
T KOG2376|consen   91 RLNKLDEALKTLKGLD----RLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVA----AALQVQ  162 (652)
T ss_pred             HcccHHHHHHHHhccc----ccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHH----HhhhHH
Confidence            8899999999988332    2234466666788899999999999999998875321 111111222111    111111


Q ss_pred             HHHHHHHhcCCCCChhhHHH---HHHHHhccCCHHHHHHHHHHHHHCC-------CCCCh-------hHHHHHHHHHHhc
Q 038401          180 SVFAEMNEVNCPLDLTTCNI---MIDVYGQLDMAKDADRLFWSMRKMG-------IDPSV-------VSYNTLLRVYGEA  242 (542)
Q Consensus       180 ~~~~~~~~~~~~~~~~~~~~---l~~~~~~~~~~~~a~~~~~~~~~~~-------~~~~~-------~~~~~ll~~~~~~  242 (542)
                       +   +......| ..+|..   ....+...|++.+|+++++...+.+       -.-+.       .+-..+...+...
T Consensus       163 -~---~q~v~~v~-e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~  237 (652)
T KOG2376|consen  163 -L---LQSVPEVP-EDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQ  237 (652)
T ss_pred             -H---HHhccCCC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHh
Confidence             1   22222222 223333   3455678899999999998883221       01111       1123344566788


Q ss_pred             CcHHHHHHHHHHHHhcCCCCcHHHHHHHHH---HHHccCCH-H-HHHHHHHHHHHcC-------C---CCCHHHH-HHHH
Q 038401          243 ELFGEAIHLFRLMQRKEIEQNVVTYNTMIK---IYGKSLEH-E-KATNLMQEMQNRG-------I---EPNAITY-STII  306 (542)
Q Consensus       243 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~---~~~~~~~~-~-~a~~~~~~~~~~~-------~---~p~~~~~-~~l~  306 (542)
                      |+..+|..+|....+.. .+|........+   ++....++ + .++..++......       +   .-..... +.++
T Consensus       238 Gqt~ea~~iy~~~i~~~-~~D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL  316 (652)
T KOG2376|consen  238 GQTAEASSIYVDIIKRN-PADEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALL  316 (652)
T ss_pred             cchHHHHHHHHHHHHhc-CCCchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999998875 334432222211   12111111 1 1222222111100       0   0001111 1222


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHH--HcCCHHHHHHHHHHhcCCCCCC----HHHHHHHHHHhCC
Q 038401          307 AIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYE--RVGLVAHAKRLLHELRQPNTIP----RETAITILARAGR  380 (542)
Q Consensus       307 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~--~~~~~~~a~~~~~~~~~~~~~~----~~~l~~~~~~~g~  380 (542)
                      ..+  .+..+.+.++-..+-.  ..|. ..+..++..+.  +...+.++..++.......+..    .-..+......|+
T Consensus       317 ~l~--tnk~~q~r~~~a~lp~--~~p~-~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~~p~~s~~v~L~~aQl~is~gn  391 (652)
T KOG2376|consen  317 ALF--TNKMDQVRELSASLPG--MSPE-SLFPILLQEATKVREKKHKKAIELLLQFADGHPEKSKVVLLLRAQLKISQGN  391 (652)
T ss_pred             HHH--hhhHHHHHHHHHhCCc--cCch-HHHHHHHHHHHHHHHHHHhhhHHHHHHHhccCCchhHHHHHHHHHHHHhcCC
Confidence            222  2233333333322211  1222 33344444332  2235777778877776544443    2334566778899


Q ss_pred             HHHHHHHHH--------HHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC--CCCCCHHH----HHHHHHHHh
Q 038401          381 IEEATWVFR--------QAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSA--GYFPDSHI----IALVLNSYG  446 (542)
Q Consensus       381 ~~~A~~~~~--------~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~p~~~~----~~~l~~~~~  446 (542)
                      ++.|++++.        .+.+.+.  .+.+...+...+.+.++-+.|..++...+..  .-.+....    +..++..-.
T Consensus       392 ~~~A~~il~~~~~~~~ss~~~~~~--~P~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~l  469 (652)
T KOG2376|consen  392 PEVALEILSLFLESWKSSILEAKH--LPGTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKL  469 (652)
T ss_pred             HHHHHHHHHHHhhhhhhhhhhhcc--ChhHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHH
Confidence            999999998        5555433  3455566777788888878888888777642  11222222    222333335


Q ss_pred             ccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHHHHHhcCCC
Q 038401          447 KLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLFERLDSDSN  501 (542)
Q Consensus       447 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~~~~~~~  501 (542)
                      +.|.-++|...++++.+.+  +++..... ++.+|++. +.+.|..+-+.+...++
T Consensus       470 r~G~~~ea~s~leel~k~n--~~d~~~l~~lV~a~~~~-d~eka~~l~k~L~p~~~  522 (652)
T KOG2376|consen  470 RHGNEEEASSLLEELVKFN--PNDTDLLVQLVTAYARL-DPEKAESLSKKLPPLKG  522 (652)
T ss_pred             hcCchHHHHHHHHHHHHhC--CchHHHHHHHHHHHHhc-CHHHHHHHhhcCCCccc
Confidence            6799999999999999876  34544444 77777655 47788888777654443

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

Probab=99.40  E-value=8e-08  Score=83.96  Aligned_cols=80  Identities=16%  Similarity=0.172  Sum_probs=48.9

Q ss_pred             HHHHHHHHHHHHcCCCcC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHH
Q 038401          382 EEATWVFRQAFDAGEVKD-ISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSE  460 (542)
Q Consensus       382 ~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~  460 (542)
                      ++|.+++++.+..  .|+ ....+.+...+...|.+.+++.++++.+.  ..||....+.++..+...+.+++|.+.|..
T Consensus       421 EKAKkf~ek~L~~--~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~--~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~  496 (564)
T KOG1174|consen  421 EKAKKFAEKSLKI--NPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLI--IFPDVNLHNHLGDIMRAQNEPQKAMEYYYK  496 (564)
T ss_pred             HHHHHHHHhhhcc--CCccHHHHHHHHHHHHhhCccchHHHHHHHHHh--hccccHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence            5566666665553  233 34455556666666666666666666665  446666666666666666666666666666


Q ss_pred             HHHcC
Q 038401          461 MQEEG  465 (542)
Q Consensus       461 ~~~~~  465 (542)
                      +++.+
T Consensus       497 ALr~d  501 (564)
T KOG1174|consen  497 ALRQD  501 (564)
T ss_pred             HHhcC
Confidence            66655

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.40  E-value=5.6e-10  Score=97.51  Aligned_cols=200  Identities=14%  Similarity=0.075  Sum_probs=117.7

Q ss_pred             HHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHH
Q 038401           54 RYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINV  133 (542)
Q Consensus        54 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  133 (542)
                      ...+..+...+...|++++|.+.+++..+.. +.+...+..+...+...|++++|.+.+++..+.. +.+...+..+...
T Consensus        31 ~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~  108 (234)
T TIGR02521        31 AKIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTF  108 (234)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHH
Confidence            4455555666666666666666666665543 2234555556666666666666666666665543 3344455555666


Q ss_pred             HhccCcHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHH
Q 038401          134 FGKAKLFKEARLLIEEMREQGV-KPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKD  212 (542)
Q Consensus       134 ~~~~~~~~~a~~~~~~~~~~g~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  212 (542)
                      +...|++++|.+.+++...... ......+..+...+...|++++|...+.+..... +.+...+..+...+...|++++
T Consensus       109 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~  187 (234)
T TIGR02521       109 LCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID-PQRPESLLELAELYYLRGQYKD  187 (234)
T ss_pred             HHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHHHcCCHHH
Confidence            6666666666666666654321 1123445556666666777777777776666543 2344556666666667777777


Q ss_pred             HHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHh
Q 038401          213 ADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQR  257 (542)
Q Consensus       213 a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  257 (542)
                      |...+++..... +.+...+..+...+...|+.+.|..+.+.+..
T Consensus       188 A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       188 ARAYLERYQQTY-NQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            777776666552 33445555566666666777777766665543

Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.38  E-value=6e-10  Score=103.75  Aligned_cols=243  Identities=16%  Similarity=0.219  Sum_probs=152.6

Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHHHc-----C-CCCCHHH-HHHHHHHHHhcCCHHHHHHHHHHHHhc-----CC--
Q 038401          265 VTYNTMIKIYGKSLEHEKATNLMQEMQNR-----G-IEPNAIT-YSTIIAIWGKAGKLDRAAMLFQKLRSS-----GV--  330 (542)
Q Consensus       265 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~-~~p~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~--  330 (542)
                      .+...+...|...|+++.|..+++...+.     | ..|...+ ...+...|...+++++|..+|+++...     |-  
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            34444666666666666666666655432     1 1222222 223556677788888888888877542     11  


Q ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcC-HHHHHHHHHH
Q 038401          331 EIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKD-ISVFGCMIEL  409 (542)
Q Consensus       331 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~  409 (542)
                      +--..+++.|..+|.+.|++++|...++.                        |++++++..-. ..|. ...++.++..
T Consensus       280 ~~va~~l~nLa~ly~~~GKf~EA~~~~e~------------------------Al~I~~~~~~~-~~~~v~~~l~~~~~~  334 (508)
T KOG1840|consen  280 PAVAATLNNLAVLYYKQGKFAEAEEYCER------------------------ALEIYEKLLGA-SHPEVAAQLSELAAI  334 (508)
T ss_pred             HHHHHHHHHHHHHHhccCChHHHHHHHHH------------------------HHHHHHHhhcc-ChHHHHHHHHHHHHH
Confidence            11134555566667777777777776543                        44444442211 1122 2345666777


Q ss_pred             HHhcCCHHHHHHHHHHHHhC---CCCCC----HHHHHHHHHHHhccCcHHHHHHHHHHHHHcC----C-CCc--hHHHHH
Q 038401          410 FSRNKKYANVIEVFEKMRSA---GYFPD----SHIIALVLNSYGKLREFETADDLYSEMQEEG----C-VFS--DQVHFQ  475 (542)
Q Consensus       410 ~~~~g~~~~A~~~~~~~~~~---~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~----~-~~~--~~~~~~  475 (542)
                      +...+++++|..++++..+.   -+.++    ..+++.+...|...|++++|.+++++++...    + ..+  ....+.
T Consensus       335 ~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~  414 (508)
T KOG1840|consen  335 LQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQ  414 (508)
T ss_pred             HHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHH
Confidence            88888888888888877542   11222    2678888889999999999999998887642    1 112  122333


Q ss_pred             HHHHHhccCChHHHHHHHHHHh---c--CCCC-CchhHHHHHHHHHHhhcchhhHHHHHHHHH
Q 038401          476 MLSLYGARKDFNMLESLFERLD---S--DSNI-NKKELHHVVAGIYERANRLNDASRIMNRMN  532 (542)
Q Consensus       476 l~~~~~~~g~~~~A~~~~~~~~---~--~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  532 (542)
                      ++..|.+.+++++|..+|.+..   .  .|+. .....|..|+.+|.+.|++++|.++...+.
T Consensus       415 la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  415 LAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             HHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            8888888888888888887721   1  1221 224678889999999999999999888754

>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=99.37  E-value=4.9e-09  Score=99.06  Aligned_cols=304  Identities=13%  Similarity=0.107  Sum_probs=171.4

Q ss_pred             HHHhccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHc-----
Q 038401          202 DVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGK-----  276 (542)
Q Consensus       202 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-----  276 (542)
                      ..+...|++++|++.++.-... +.............+.+.|+.++|..+|..+.+.+ +.+..-|..+..+..-     
T Consensus        12 ~il~e~g~~~~AL~~L~~~~~~-I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN-Pdn~~Yy~~L~~~~g~~~~~~   89 (517)
T PF12569_consen   12 SILEEAGDYEEALEHLEKNEKQ-ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN-PDNYDYYRGLEEALGLQLQLS   89 (517)
T ss_pred             HHHHHCCCHHHHHHHHHhhhhh-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHhhhcccc
Confidence            4455667777777777654433 12223444555666677777777777777777664 2233333344443311     


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCH-HHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHH
Q 038401          277 SLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKL-DRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKR  355 (542)
Q Consensus       277 ~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  355 (542)
                      ..+.+....+++++...  .|.......+.-.+.....+ ..+...+..+...|+|+   ++..+-..|.......-...
T Consensus        90 ~~~~~~~~~~y~~l~~~--yp~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPs---lF~~lk~Ly~d~~K~~~i~~  164 (517)
T PF12569_consen   90 DEDVEKLLELYDELAEK--YPRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVPS---LFSNLKPLYKDPEKAAIIES  164 (517)
T ss_pred             cccHHHHHHHHHHHHHh--CccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCch---HHHHHHHHHcChhHHHHHHH
Confidence            12455666666666554  34443333332222221122 23344455555555432   34444334432222222222


Q ss_pred             HHHHhcCCCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHH--HHHHHHHHhcCCHHHHHHHHHHHHhCCCCC
Q 038401          356 LLHELRQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVF--GCMIELFSRNKKYANVIEVFEKMRSAGYFP  433 (542)
Q Consensus       356 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~--~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p  433 (542)
                      ++.....           .+...+.+....      .....+|....|  .-+...|...|++++|++++++.++  ..|
T Consensus       165 l~~~~~~-----------~l~~~~~~~~~~------~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~--htP  225 (517)
T PF12569_consen  165 LVEEYVN-----------SLESNGSFSNGD------DEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIE--HTP  225 (517)
T ss_pred             HHHHHHH-----------hhcccCCCCCcc------ccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHh--cCC
Confidence            2222110           000000000000      000123444334  4556677888999999999999988  447


Q ss_pred             C-HHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHHHHHhcCCCCCch------
Q 038401          434 D-SHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLFERLDSDSNINKK------  505 (542)
Q Consensus       434 ~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~------  505 (542)
                      + ...|..-++.+-+.|++++|.+.++.+...+  .-|.-... .+..+.++|++++|.+.+..+...+.....      
T Consensus       226 t~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD--~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQ  303 (517)
T PF12569_consen  226 TLVELYMTKARILKHAGDLKEAAEAMDEARELD--LADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQ  303 (517)
T ss_pred             CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCC--hhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHH
Confidence            5 5778888888899999999999999999876  22333333 788888999999999999987654421111      


Q ss_pred             hHH--HHHHHHHHhhcchhhHHHHHHHHHh
Q 038401          506 ELH--HVVAGIYERANRLNDASRIMNRMNK  533 (542)
Q Consensus       506 ~~~--~~l~~~~~~~g~~~~A~~~~~~~~~  533 (542)
                      ..|  ...+.+|.+.|++..|++.|..+.+
T Consensus       304 c~Wf~~e~a~a~~r~~~~~~ALk~~~~v~k  333 (517)
T PF12569_consen  304 CMWFETECAEAYLRQGDYGLALKRFHAVLK  333 (517)
T ss_pred             HHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            233  4467889999999999988877654

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 [], [].

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.36  E-value=3.6e-10  Score=101.08  Aligned_cols=149  Identities=11%  Similarity=0.003  Sum_probs=80.8

Q ss_pred             ccCCHHHHHHHHHHHHHcC-CCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHH
Q 038401          276 KSLEHEKATNLMQEMQNRG-IEPN--AITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAH  352 (542)
Q Consensus       276 ~~~~~~~a~~~~~~~~~~~-~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  352 (542)
                      ..+..+.++.-+.++.... ..|+  ...|..+...+...|+.+.|...|+...+.. +.++..|+.+...+...|++++
T Consensus        38 ~~~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~~  116 (296)
T PRK11189         38 PTLQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFDA  116 (296)
T ss_pred             CchHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHHH
Confidence            3455566666666666432 1222  2345556666667777777777777777654 3356666667667777777777


Q ss_pred             HHHHHHHhcCCCCC---CHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 038401          353 AKRLLHELRQPNTI---PRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMR  427 (542)
Q Consensus       353 a~~~~~~~~~~~~~---~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  427 (542)
                      |...++...+.++.   .+..+..++...|++++|.+.|++.++..+ .++. .......+...+++++|+..|++..
T Consensus       117 A~~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~P-~~~~-~~~~~~l~~~~~~~~~A~~~l~~~~  192 (296)
T PRK11189        117 AYEAFDSVLELDPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQDDP-NDPY-RALWLYLAESKLDPKQAKENLKQRY  192 (296)
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHH-HHHHHHHHHccCCHHHHHHHHHHHH
Confidence            76666665543322   233344445555666666666666655422 1221 1111112233455666666665443

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.35  E-value=1.9e-07  Score=85.56  Aligned_cols=444  Identities=13%  Similarity=0.118  Sum_probs=259.2

Q ss_pred             HHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHH--HHHH--
Q 038401           58 STLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNT--MINV--  133 (542)
Q Consensus        58 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~--l~~~--  133 (542)
                      -+=++.+...|++++|.+...+++..+ +-+...+..-+-+..+.+.+++|+.+.+.-..      ..+++.  +=.+  
T Consensus        16 ~t~ln~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~------~~~~~~~~fEKAYc   88 (652)
T KOG2376|consen   16 LTDLNRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKKNGA------LLVINSFFFEKAYC   88 (652)
T ss_pred             HHHHHHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcch------hhhcchhhHHHHHH
Confidence            334556678899999999999999876 44667777777888899999999865544221      111111  2333  


Q ss_pred             HhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHH-hccCCHHH
Q 038401          134 FGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVY-GQLDMAKD  212 (542)
Q Consensus       134 ~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~~~~~  212 (542)
                      ..+.+..++|+..++-...    .+..+...-...+.+.|++++|+++|+.+.+.+.+ +   +...+.+- ...+....
T Consensus        89 ~Yrlnk~Dealk~~~~~~~----~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~d-d---~d~~~r~nl~a~~a~l~  160 (652)
T KOG2376|consen   89 EYRLNKLDEALKTLKGLDR----LDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSD-D---QDEERRANLLAVAAALQ  160 (652)
T ss_pred             HHHcccHHHHHHHHhcccc----cchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCc-h---HHHHHHHHHHHHHHhhh
Confidence            4478999999998883322    23446666677888999999999999999876533 2   21111111 00000011


Q ss_pred             HHHHHHHHHHCCCCCChhHHHHHHH---HHHhcCcHHHHHHHHHHHHhc-------CCCCcH-------HHHHHHHHHHH
Q 038401          213 ADRLFWSMRKMGIDPSVVSYNTLLR---VYGEAELFGEAIHLFRLMQRK-------EIEQNV-------VTYNTMIKIYG  275 (542)
Q Consensus       213 a~~~~~~~~~~~~~~~~~~~~~ll~---~~~~~~~~~~a~~~~~~~~~~-------~~~~~~-------~~~~~l~~~~~  275 (542)
                      +.    .+......| ..+|..+.+   .+...|++.+|+++++...+.       +-..+.       ..-..+.-++.
T Consensus       161 ~~----~~q~v~~v~-e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ  235 (652)
T KOG2376|consen  161 VQ----LLQSVPEVP-EDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQ  235 (652)
T ss_pred             HH----HHHhccCCC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHH
Confidence            11    122222223 334444433   456789999999999988332       111111       11233455667


Q ss_pred             ccCCHHHHHHHHHHHHHcCCCCCHHHH----HHHHHHHHhcCCHH--HHHHHHHHHHhcC-------C---CCCHHHH-H
Q 038401          276 KSLEHEKATNLMQEMQNRGIEPNAITY----STIIAIWGKAGKLD--RAAMLFQKLRSSG-------V---EIDPVLY-Q  338 (542)
Q Consensus       276 ~~~~~~~a~~~~~~~~~~~~~p~~~~~----~~l~~~~~~~~~~~--~a~~~~~~~~~~~-------~---~~~~~~~-~  338 (542)
                      ..|+.++|..++....... .+|....    |.++. +....++-  .++..++......       +   ....... +
T Consensus       236 ~~Gqt~ea~~iy~~~i~~~-~~D~~~~Av~~NNLva-~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~  313 (652)
T KOG2376|consen  236 LQGQTAEASSIYVDIIKRN-PADEPSLAVAVNNLVA-LSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNN  313 (652)
T ss_pred             HhcchHHHHHHHHHHHHhc-CCCchHHHHHhcchhh-hccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Confidence            8899999999999988875 4454322    23332 22222221  1222222221110       0   0011111 2


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHhcCCCCCC-HHHHHHHH--HHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCC
Q 038401          339 TMIVAYERVGLVAHAKRLLHELRQPNTIP-RETAITIL--ARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKK  415 (542)
Q Consensus       339 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~l~~~~--~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  415 (542)
                      .++..|  .+..+.+.++...+....+.. +..++..+  .+......|.+++...-+..+.....+.-.++......|+
T Consensus       314 ~lL~l~--tnk~~q~r~~~a~lp~~~p~~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~~p~~s~~v~L~~aQl~is~gn  391 (652)
T KOG2376|consen  314 ALLALF--TNKMDQVRELSASLPGMSPESLFPILLQEATKVREKKHKKAIELLLQFADGHPEKSKVVLLLRAQLKISQGN  391 (652)
T ss_pred             HHHHHH--hhhHHHHHHHHHhCCccCchHHHHHHHHHHHHHHHHHHhhhHHHHHHHhccCCchhHHHHHHHHHHHHhcCC
Confidence            222222  344556666655554433222 22232222  2333678888888888776444445666667777889999


Q ss_pred             HHHHHHHHH--------HHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcC---C--CCchHHHHH-HHHHHh
Q 038401          416 YANVIEVFE--------KMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEG---C--VFSDQVHFQ-MLSLYG  481 (542)
Q Consensus       416 ~~~A~~~~~--------~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---~--~~~~~~~~~-l~~~~~  481 (542)
                      ++.|++++.        .+.+.+..|  .+...+...+.+.++.+.|..++..++..-   .  .......+. .+..-.
T Consensus       392 ~~~A~~il~~~~~~~~ss~~~~~~~P--~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~l  469 (652)
T KOG2376|consen  392 PEVALEILSLFLESWKSSILEAKHLP--GTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKL  469 (652)
T ss_pred             HHHHHHHHHHHhhhhhhhhhhhccCh--hHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHH
Confidence            999999999        555544444  455556667777776665666555554421   0  011112222 666677


Q ss_pred             ccCChHHHHHHHHHHhc-CCCCCchhHHHHHHHHHHhhcchhhHHHHHHH
Q 038401          482 ARKDFNMLESLFERLDS-DSNINKKELHHVVAGIYERANRLNDASRIMNR  530 (542)
Q Consensus       482 ~~g~~~~A~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  530 (542)
                      +.|+-++|..+++++-+ +|+  +......++.+|++. +.+.|..+-+.
T Consensus       470 r~G~~~ea~s~leel~k~n~~--d~~~l~~lV~a~~~~-d~eka~~l~k~  516 (652)
T KOG2376|consen  470 RHGNEEEASSLLEELVKFNPN--DTDLLVQLVTAYARL-DPEKAESLSKK  516 (652)
T ss_pred             hcCchHHHHHHHHHHHHhCCc--hHHHHHHHHHHHHhc-CHHHHHHHhhc
Confidence            78999999999999754 555  567788888888766 66777776655

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

Probab=99.33  E-value=1.2e-09  Score=87.69  Aligned_cols=192  Identities=14%  Similarity=0.121  Sum_probs=126.7

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHhcCCCCCC---HHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcC
Q 038401          338 QTMIVAYERVGLVAHAKRLLHELRQPNTIP---RETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNK  414 (542)
Q Consensus       338 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  414 (542)
                      ..|.-.|...|+...|...+++..+.++..   +..+...|.+.|..+.|.+.|++++... +.+..+.|..+..+|.+|
T Consensus        39 lqLal~YL~~gd~~~A~~nlekAL~~DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FLC~qg  117 (250)
T COG3063          39 LQLALGYLQQGDYAQAKKNLEKALEHDPSYYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFLCAQG  117 (250)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHHHhCC
Confidence            344455666666666666666665544433   3344556666777777777777777653 345667777777778888


Q ss_pred             CHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHH
Q 038401          415 KYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESL  492 (542)
Q Consensus       415 ~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~  492 (542)
                      ++++|...|++++....-| -+.+|..++.+..+.|+.+.|...|++.++..  +..+.... ++......|++-.|..+
T Consensus       118 ~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~d--p~~~~~~l~~a~~~~~~~~y~~Ar~~  195 (250)
T COG3063         118 RPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELD--PQFPPALLELARLHYKAGDYAPARLY  195 (250)
T ss_pred             ChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhC--cCCChHHHHHHHHHHhcccchHHHHH
Confidence            8888888888877642222 23677777777778888888888888888776  22233333 77777788888888888


Q ss_pred             HHHHhcCCCCCchhHHHHHHHHHHhhcchhhHHHHHHHHHh
Q 038401          493 FERLDSDSNINKKELHHVVAGIYERANRLNDASRIMNRMNK  533 (542)
Q Consensus       493 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  533 (542)
                      +++.....+ ...+.....+++--+.|+.+.|-++=....+
T Consensus       196 ~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r  235 (250)
T COG3063         196 LERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQR  235 (250)
T ss_pred             HHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            887655444 3445555667777777777777666555544

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.32  E-value=4.4e-09  Score=98.09  Aligned_cols=126  Identities=20%  Similarity=0.197  Sum_probs=69.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhc---CCC----CCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCC-----------
Q 038401          302 YSTIIAIWGKAGKLDRAAMLFQKLRSS---GVE----IDPVLYQTMIVAYERVGLVAHAKRLLHELRQP-----------  363 (542)
Q Consensus       302 ~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----------  363 (542)
                      ++.+...+...++++.|..+++...+.   -+.    .-..+++.|...|...|++++|.++++++...           
T Consensus       328 l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~  407 (508)
T KOG1840|consen  328 LSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYG  407 (508)
T ss_pred             HHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChh
Confidence            334444455555555555555544321   011    11345555666666666666666666554320           


Q ss_pred             CCCCHHHHHHHHHHhCCHHHHHHHHHHHHHc------CCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 038401          364 NTIPRETAITILARAGRIEEATWVFRQAFDA------GEVKDISVFGCMIELFSRNKKYANVIEVFEKMR  427 (542)
Q Consensus       364 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~------~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  427 (542)
                      ...+.+.+...|.+.+++.+|.++|.+....      +.+....+|..|+..|...|+++.|+++.+.+.
T Consensus       408 ~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  408 VGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             hhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            0122344455556666666666665554422      122235678888888888888888888887776

>PF13041 PPR_2: PPR repeat family

Probab=99.31  E-value=8.6e-12  Score=77.51  Aligned_cols=50  Identities=44%  Similarity=0.760  Sum_probs=41.0

Q ss_pred             CcHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhc
Q 038401           17 PSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGK   66 (542)
Q Consensus        17 ~~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~   66 (542)
                      ||+.+||++|++|++.|++++|.++|++|.+.|++||..||+.+|++|++
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLCK   50 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcC
Confidence            77888888888888888888888888888888888888888888887764

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=99.31  E-value=7.4e-08  Score=90.33  Aligned_cols=218  Identities=18%  Similarity=0.209  Sum_probs=134.7

Q ss_pred             HHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHH
Q 038401          274 YGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHA  353 (542)
Q Consensus       274 ~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  353 (542)
                      +...|+++.|+..|-+..         .....+.+......|.+|+.+++.+.+..  .....|..+.+.|...|+++.|
T Consensus       716 l~~~~q~daainhfiea~---------~~~kaieaai~akew~kai~ildniqdqk--~~s~yy~~iadhyan~~dfe~a  784 (1636)
T KOG3616|consen  716 LEQIGQLDAAINHFIEAN---------CLIKAIEAAIGAKEWKKAISILDNIQDQK--TASGYYGEIADHYANKGDFEIA  784 (1636)
T ss_pred             HHHHHhHHHHHHHHHHhh---------hHHHHHHHHhhhhhhhhhHhHHHHhhhhc--cccccchHHHHHhccchhHHHH
Confidence            334455555555443322         11223444556677888888888777653  2344566677778888888888


Q ss_pred             HHHHHHhcCCCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC
Q 038401          354 KRLLHELRQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP  433 (542)
Q Consensus       354 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p  433 (542)
                      .++|.+..     .+...+.+|.+.|+++.|.++-.+..  |+...+..|-+-..-+-.+|++.+|.++|-.+..    |
T Consensus       785 e~lf~e~~-----~~~dai~my~k~~kw~da~kla~e~~--~~e~t~~~yiakaedldehgkf~eaeqlyiti~~----p  853 (1636)
T KOG3616|consen  785 EELFTEAD-----LFKDAIDMYGKAGKWEDAFKLAEECH--GPEATISLYIAKAEDLDEHGKFAEAEQLYITIGE----P  853 (1636)
T ss_pred             HHHHHhcc-----hhHHHHHHHhccccHHHHHHHHHHhc--CchhHHHHHHHhHHhHHhhcchhhhhheeEEccC----c
Confidence            88876643     45566777888888888877766652  2333455566666667778888888877755433    5


Q ss_pred             CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHHHHHHHhccCChHHHHHHHHHHhcCCCCCchhHHHHHHH
Q 038401          434 DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQMLSLYGARKDFNMLESLFERLDSDSNINKKELHHVVAG  513 (542)
Q Consensus       434 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~  513 (542)
                      +.     .+.+|-+.|..++.+++..+-.-..   -...+..++.-|...|+..+|...|-+..         -|-..++
T Consensus       854 ~~-----aiqmydk~~~~ddmirlv~k~h~d~---l~dt~~~f~~e~e~~g~lkaae~~flea~---------d~kaavn  916 (1636)
T KOG3616|consen  854 DK-----AIQMYDKHGLDDDMIRLVEKHHGDH---LHDTHKHFAKELEAEGDLKAAEEHFLEAG---------DFKAAVN  916 (1636)
T ss_pred             hH-----HHHHHHhhCcchHHHHHHHHhChhh---hhHHHHHHHHHHHhccChhHHHHHHHhhh---------hHHHHHH
Confidence            53     3456777787777777666543211   12223336777777888888777665432         2444556


Q ss_pred             HHHhhcchhhHHHHHHH
Q 038401          514 IYERANRLNDASRIMNR  530 (542)
Q Consensus       514 ~~~~~g~~~~A~~~~~~  530 (542)
                      .|-..+.|++|.++.+.
T Consensus       917 myk~s~lw~dayriakt  933 (1636)
T KOG3616|consen  917 MYKASELWEDAYRIAKT  933 (1636)
T ss_pred             HhhhhhhHHHHHHHHhc
Confidence            67677777777666543

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.30  E-value=1e-08  Score=85.43  Aligned_cols=197  Identities=17%  Similarity=0.149  Sum_probs=144.3

Q ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHH-HHHH
Q 038401           20 FAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSN-LIEL   98 (542)
Q Consensus        20 ~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~-l~~~   98 (542)
                      .-+++++..+.+..++++|++++..-.++..+ +....+.+..+|....++..|...|+++-...  |...-|.. -...
T Consensus        11 Geftaviy~lI~d~ry~DaI~~l~s~~Er~p~-~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~--P~~~qYrlY~AQS   87 (459)
T KOG4340|consen   11 GEFTAVVYRLIRDARYADAIQLLGSELERSPR-SRAGLSLLGYCYYRLQEFALAAECYEQLGQLH--PELEQYRLYQAQS   87 (459)
T ss_pred             CchHHHHHHHHHHhhHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC--hHHHHHHHHHHHH
Confidence            34677888889999999999999988887533 77788889999999999999999999997753  33333332 3455


Q ss_pred             HHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHH--HHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChH
Q 038401           99 ARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMIN--VFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFV  176 (542)
Q Consensus        99 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~  176 (542)
                      +.+.+.+..|+.+...|...   |+...-..-+.  .....+++..+..++++....|   +..+.+.......+.|+++
T Consensus        88 LY~A~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en---~Ad~~in~gCllykegqyE  161 (459)
T KOG4340|consen   88 LYKACIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSEN---EADGQINLGCLLYKEGQYE  161 (459)
T ss_pred             HHHhcccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCC---ccchhccchheeeccccHH
Confidence            66788899999998888653   33222222222  2345788888999988887543   4555555556667899999


Q ss_pred             HHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCC
Q 038401          177 EALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGID  226 (542)
Q Consensus       177 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  226 (542)
                      .|.+-|+...+-+--.....|+..+.. .+.++++.|.+...++.+.|++
T Consensus       162 aAvqkFqaAlqvsGyqpllAYniALaH-y~~~qyasALk~iSEIieRG~r  210 (459)
T KOG4340|consen  162 AAVQKFQAALQVSGYQPLLAYNLALAH-YSSRQYASALKHISEIIERGIR  210 (459)
T ss_pred             HHHHHHHHHHhhcCCCchhHHHHHHHH-HhhhhHHHHHHHHHHHHHhhhh
Confidence            999999998876433456677766644 4678899999999998887754

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

Probab=99.27  E-value=1e-08  Score=82.40  Aligned_cols=192  Identities=13%  Similarity=0.085  Sum_probs=88.8

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHc
Q 038401          268 NTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERV  347 (542)
Q Consensus       268 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  347 (542)
                      ..|.-.|.+.|+...|..-+++.+++. +.+..+|..+...|.+.|..+.|.+.|+...+.. +.+..+.|.....+|..
T Consensus        39 lqLal~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FLC~q  116 (250)
T COG3063          39 LQLALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFLCAQ  116 (250)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHHHhC
Confidence            344455556666666666666655552 2233445555555556666666666666655543 22444455555555555


Q ss_pred             CCHHHHHHHHHHhcC-C----CCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHH
Q 038401          348 GLVAHAKRLLHELRQ-P----NTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEV  422 (542)
Q Consensus       348 ~~~~~a~~~~~~~~~-~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  422 (542)
                      |.+++|...|+.... |    ...++..+.-+..+.|+++.|...|++.++... ..+.+...+.......|++-.|...
T Consensus       117 g~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp-~~~~~~l~~a~~~~~~~~y~~Ar~~  195 (250)
T COG3063         117 GRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDP-QFPPALLELARLHYKAGDYAPARLY  195 (250)
T ss_pred             CChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCc-CCChHHHHHHHHHHhcccchHHHHH
Confidence            555555555554432 1    122233333333444444444444444444321 2233333444444444444444444


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHH
Q 038401          423 FEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQE  463 (542)
Q Consensus       423 ~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  463 (542)
                      ++.....+. ++..++...++.--..|+.+.+.++=.++.+
T Consensus       196 ~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r  235 (250)
T COG3063         196 LERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQR  235 (250)
T ss_pred             HHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            444443322 4444444444444444444444444333333

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=99.27  E-value=4.1e-08  Score=95.04  Aligned_cols=471  Identities=12%  Similarity=0.042  Sum_probs=236.9

Q ss_pred             CCCcH-HHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCC-CCCHHhH
Q 038401           15 YSPSV-FAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRV-SGDLVLY   92 (542)
Q Consensus        15 ~~~~~-~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~   92 (542)
                      +.|+. ..|..|...|..-.+..+|.+.|+..-+.+.. +...+......|++..+++.|..+.-..-+... ..-..-|
T Consensus       487 ld~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLDat-daeaaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~nW  565 (1238)
T KOG1127|consen  487 LDVSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELDAT-DAEAAAASADTYAEESTWEEAFEICLRAAQKAPAFACKENW  565 (1238)
T ss_pred             cccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCch-hhhhHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhhh
Confidence            44443 36777777777777777788888777776432 666777777788888888877776333322210 0111223


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHH--HHHHHH
Q 038401           93 SNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYST--LLNLYV  170 (542)
Q Consensus        93 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~--l~~~~~  170 (542)
                      ....-.|...++...+..-|+...... +.|...|..+..+|.+.|++..|.++|.+....  .|+ .+|..  ....-+
T Consensus       566 ~~rG~yyLea~n~h~aV~~fQsALR~d-PkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~L--rP~-s~y~~fk~A~~ec  641 (1238)
T KOG1127|consen  566 VQRGPYYLEAHNLHGAVCEFQSALRTD-PKDYNLWLGLGEAYPESGRYSHALKVFTKASLL--RPL-SKYGRFKEAVMEC  641 (1238)
T ss_pred             hhccccccCccchhhHHHHHHHHhcCC-chhHHHHHHHHHHHHhcCceehHHHhhhhhHhc--CcH-hHHHHHHHHHHHH
Confidence            334445667777777777777776654 446777777777777777777777777776654  222 22222  222345


Q ss_pred             HCCChHHHHHHHHHHHhcC------CCCChhhHHHHHHHHhccCCHHH-------HHHHHHHHHHCCCCCChhHHHHHHH
Q 038401          171 ENHKFVEALSVFAEMNEVN------CPLDLTTCNIMIDVYGQLDMAKD-------ADRLFWSMRKMGIDPSVVSYNTLLR  237 (542)
Q Consensus       171 ~~g~~~~a~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~~~~~~-------a~~~~~~~~~~~~~~~~~~~~~ll~  237 (542)
                      ..|.+.+++..+..+....      ..--..++..+...+...|-...       +.+.|.-...+....+...|-.+-.
T Consensus       642 d~GkYkeald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~l~h~~~~~~~~Wi~asd  721 (1238)
T KOG1127|consen  642 DNGKYKEALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSLIHSLQSDRLQWIVASD  721 (1238)
T ss_pred             HhhhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHhhhhhHHHHHHHhH
Confidence            5677777777666654311      00011122222222222222222       2222222211111111111111111


Q ss_pred             H-----------------------HHhcCcH---H---HHHHHHHHHHhcCCCCcHHHHHHHHHHHHc----cC----CH
Q 038401          238 V-----------------------YGEAELF---G---EAIHLFRLMQRKEIEQNVVTYNTMIKIYGK----SL----EH  280 (542)
Q Consensus       238 ~-----------------------~~~~~~~---~---~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~----~~  280 (542)
                      +                       .-..+..   +   -+.+.+-.-.+  ...+..+|..+...|.+    .+    +.
T Consensus       722 ac~~f~q~e~~~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~hls--l~~~~~~WyNLGinylr~f~~l~et~~~~  799 (1238)
T KOG1127|consen  722 ACYIFSQEEPSIVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIAHLS--LAIHMYPWYNLGINYLRYFLLLGETMKDA  799 (1238)
T ss_pred             HHHHHHHhcccchHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhHHHH--HhhccchHHHHhHHHHHHHHHcCCcchhH
Confidence            1                       1111111   0   00111100000  11123344444433322    11    22


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHh
Q 038401          281 EKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHEL  360 (542)
Q Consensus       281 ~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  360 (542)
                      ..|+..+.+..+.. .-+..+|+.|.-. ...|++.-+...|-...-.. +....+|..+...+.+..+++.|...|...
T Consensus       800 ~~Ai~c~KkaV~L~-ann~~~WnaLGVl-sg~gnva~aQHCfIks~~se-p~~~~~W~NlgvL~l~n~d~E~A~~af~~~  876 (1238)
T KOG1127|consen  800 CTAIRCCKKAVSLC-ANNEGLWNALGVL-SGIGNVACAQHCFIKSRFSE-PTCHCQWLNLGVLVLENQDFEHAEPAFSSV  876 (1238)
T ss_pred             HHHHHHHHHHHHHh-hccHHHHHHHHHh-hccchhhhhhhhhhhhhhcc-ccchhheeccceeEEecccHHHhhHHHHhh
Confidence            35666666655432 2355566665544 55566766666666555442 345666777777777788888888888777


Q ss_pred             cCCCCC---CHHHHHHHHHHhCCHHHHHHHHHHHH----HcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----
Q 038401          361 RQPNTI---PRETAITILARAGRIEEATWVFRQAF----DAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSA----  429 (542)
Q Consensus       361 ~~~~~~---~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----  429 (542)
                      ..-+|.   +|-.........|+.-++..+|...-    ..|..++...|-........+|+.++-+...+++...    
T Consensus       877 qSLdP~nl~~WlG~Ali~eavG~ii~~~~lfaHs~el~~~~gka~~f~Yw~c~te~h~~Ng~~e~~I~t~~ki~sAs~al  956 (1238)
T KOG1127|consen  877 QSLDPLNLVQWLGEALIPEAVGRIIERLILFAHSDELCSKEGKAKKFQYWLCATEIHLQNGNIEESINTARKISSASLAL  956 (1238)
T ss_pred             hhcCchhhHHHHHHHHhHHHHHHHHHHHHHHHhhHHhhccccccchhhHHHHHHHHHHhccchHHHHHHhhhhhhhHHHH
Confidence            654333   33333334455677777777776622    2223344444444444445566655544433333211    


Q ss_pred             -----CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHc---CC-CCchHHHHH-HHHHHhccCChHHHHHHHHH
Q 038401          430 -----GYFPDSHIIALVLNSYGKLREFETADDLYSEMQEE---GC-VFSDQVHFQ-MLSLYGARKDFNMLESLFER  495 (542)
Q Consensus       430 -----~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~-~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~  495 (542)
                           +.+.+...|...+....+.+.+++|.....+.+..   .. ....++.-. ++.++...|.++.|...+..
T Consensus       957 ~~yf~~~p~~~fAy~~~gstlEhL~ey~~a~ela~RliglLe~k~d~sqynvak~~~gRL~lslgefe~A~~a~~~ 1032 (1238)
T KOG1127|consen  957 SYYFLGHPQLCFAYAANGSTLEHLEEYRAALELATRLIGLLELKLDESQYNVAKPDAGRLELSLGEFESAKKASWK 1032 (1238)
T ss_pred             HHHHhcCcchhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhcchhhHhhhhcc
Confidence                 22223456666666666777777777766665432   10 111121222 56666777777766655554

>PF13041 PPR_2: PPR repeat family

Probab=99.26  E-value=1.6e-11  Score=76.26  Aligned_cols=48  Identities=46%  Similarity=0.784  Sum_probs=21.8

Q ss_pred             ccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 038401          122 PDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLY  169 (542)
Q Consensus       122 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~  169 (542)
                      ||..+|+++|.+|++.|++++|.++|++|.+.|++||..||+.++++|
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~   48 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGL   48 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            344444444444444444444444444444444444444444444444

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=99.26  E-value=1.3e-06  Score=83.30  Aligned_cols=471  Identities=15%  Similarity=0.167  Sum_probs=223.4

Q ss_pred             cHHHHHHHHHHHHHhcCHHHHHHHHHHHHhC-C--------CCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCC
Q 038401           18 SVFAYNVVLRNVLRAKQWELAHGLFDEMRQR-G--------IAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGD   88 (542)
Q Consensus        18 ~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~-~--------~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~   88 (542)
                      +-..|..+.+.|.+..+.+-|.-.+-.|... |        -.|+ ..=..........|..++|..+|.+-.+      
T Consensus       756 S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~-e~eakvAvLAieLgMlEeA~~lYr~ckR------  828 (1416)
T KOG3617|consen  756 SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE-EDEAKVAVLAIELGMLEEALILYRQCKR------  828 (1416)
T ss_pred             hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc-chhhHHHHHHHHHhhHHHHHHHHHHHHH------
Confidence            4455666666666666666555554444321 1        0111 1111111222345666666666665543      


Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHH----------HcC----
Q 038401           89 LVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMR----------EQG----  154 (542)
Q Consensus        89 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----------~~g----  154 (542)
                         |..|-..|...|.+++|.++-+.--...   -..||......+-..++.+.|++.|++..          ...    
T Consensus       829 ---~DLlNKlyQs~g~w~eA~eiAE~~DRiH---Lr~Tyy~yA~~Lear~Di~~AleyyEK~~~hafev~rmL~e~p~~~  902 (1416)
T KOG3617|consen  829 ---YDLLNKLYQSQGMWSEAFEIAETKDRIH---LRNTYYNYAKYLEARRDIEAALEYYEKAGVHAFEVFRMLKEYPKQI  902 (1416)
T ss_pred             ---HHHHHHHHHhcccHHHHHHHHhhcccee---hhhhHHHHHHHHHhhccHHHHHHHHHhcCChHHHHHHHHHhChHHH
Confidence               2233445556666666666544322111   12344444444445566666666655321          110    


Q ss_pred             -----CCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCh
Q 038401          155 -----VKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSV  229 (542)
Q Consensus       155 -----~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  229 (542)
                           -..|...|.......-..|+.+.|+.+|....+         |-.+++..|-.|+.++|-++-++      .-|.
T Consensus       903 e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D---------~fs~VrI~C~qGk~~kAa~iA~e------sgd~  967 (1416)
T KOG3617|consen  903 EQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD---------YFSMVRIKCIQGKTDKAARIAEE------SGDK  967 (1416)
T ss_pred             HHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh---------hhhheeeEeeccCchHHHHHHHh------cccH
Confidence                 011233334444444445666666666655433         44455556666666666665543      2355


Q ss_pred             hHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHc-------------cC--CHHHHHHHHHHHHHcC
Q 038401          230 VSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGK-------------SL--EHEKATNLMQEMQNRG  294 (542)
Q Consensus       230 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------------~~--~~~~a~~~~~~~~~~~  294 (542)
                      .....+.+.|-..|++.+|..+|.....         |...|+.|-.             .|  +.-.|-++|++.   |
T Consensus       968 AAcYhlaR~YEn~g~v~~Av~FfTrAqa---------fsnAIRlcKEnd~~d~L~nlal~s~~~d~v~aArYyEe~---g 1035 (1416)
T KOG3617|consen  968 AACYHLARMYENDGDVVKAVKFFTRAQA---------FSNAIRLCKENDMKDRLANLALMSGGSDLVSAARYYEEL---G 1035 (1416)
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHHHH---------HHHHHHHHHhcCHHHHHHHHHhhcCchhHHHHHHHHHHc---c
Confidence            5666777888888888888887766543         2222222211             11  111222233221   1


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHH--------HH--hcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcC--
Q 038401          295 IEPNAITYSTIIAIWGKAGKLDRAAMLFQK--------LR--SSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQ--  362 (542)
Q Consensus       295 ~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~--------~~--~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--  362 (542)
                      .     -+...+..|.+.|.+.+|+++--.        ++  +.....|+...+.-.+.++...++++|..++-..+.  
T Consensus      1036 ~-----~~~~AVmLYHkAGm~~kALelAF~tqQf~aL~lIa~DLd~~sDp~ll~RcadFF~~~~qyekAV~lL~~ar~~~ 1110 (1416)
T KOG3617|consen 1036 G-----YAHKAVMLYHKAGMIGKALELAFRTQQFSALDLIAKDLDAGSDPKLLRRCADFFENNQQYEKAVNLLCLAREFS 1110 (1416)
T ss_pred             h-----hhhHHHHHHHhhcchHHHHHHHHhhcccHHHHHHHHhcCCCCCHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence            0     112233445566666666554211        11  122234566666666666666666666655533220  


Q ss_pred             ------------------------CCCC--------CHHHHHHHHHHhCCHHHHHHHHHHHH----------HcCCCc--
Q 038401          363 ------------------------PNTI--------PRETAITILARAGRIEEATWVFRQAF----------DAGEVK--  398 (542)
Q Consensus       363 ------------------------~~~~--------~~~~l~~~~~~~g~~~~A~~~~~~~~----------~~~~~~--  398 (542)
                                              .+..        ....+...|.++|.+..|-+-|.++=          +.|...  
T Consensus      1111 ~AlqlC~~~nv~vtee~aE~mTp~Kd~~~~e~~R~~vLeqvae~c~qQG~Yh~AtKKfTQAGdKl~AMraLLKSGdt~KI 1190 (1416)
T KOG3617|consen 1111 GALQLCKNRNVRVTEEFAELMTPTKDDMPNEQERKQVLEQVAELCLQQGAYHAATKKFTQAGDKLSAMRALLKSGDTQKI 1190 (1416)
T ss_pred             HHHHHHhcCCCchhHHHHHhcCcCcCCCccHHHHHHHHHHHHHHHHhccchHHHHHHHhhhhhHHHHHHHHHhcCCcceE
Confidence                                    1111        12345667777888777766665542          111100  


Q ss_pred             --------CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHh---------------ccCcHHHHH
Q 038401          399 --------DISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYG---------------KLREFETAD  455 (542)
Q Consensus       399 --------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~---------------~~g~~~~A~  455 (542)
                              ...+| .+..-|.+.-+|+.--++++.+..  +-.....+..|.+-|.               ..|-.++|.
T Consensus      1191 ~FFAn~sRqkEiY-ImAANyLQtlDWq~~pq~mK~I~t--FYTKgqafd~LanFY~~cAqiEiee~q~ydKa~gAl~eA~ 1267 (1416)
T KOG3617|consen 1191 RFFANTSRQKEIY-IMAANYLQTLDWQDNPQTMKDIET--FYTKGQAFDHLANFYKSCAQIEIEELQTYDKAMGALEEAA 1267 (1416)
T ss_pred             EEEeeccccceee-eehhhhhhhcccccChHHHhhhHh--hhhcchhHHHHHHHHHHHHHhhHHHHhhhhHHhHHHHHHH
Confidence                    00011 111122222222222222222221  1111112222222221               124556677


Q ss_pred             HHHHHHHHcCCCCchH----HHHHHHHHHhc-----cCChHHHHHHHHHHhcCCCCC----chhHHHHHHHHHHhhcchh
Q 038401          456 DLYSEMQEEGCVFSDQ----VHFQMLSLYGA-----RKDFNMLESLFERLDSDSNIN----KKELHHVVAGIYERANRLN  522 (542)
Q Consensus       456 ~~~~~~~~~~~~~~~~----~~~~l~~~~~~-----~g~~~~A~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~g~~~  522 (542)
                      +.+.++..++....-.    ..........+     ..+....+...+.+...|..+    ....|..++..|.+..+|.
T Consensus      1268 kCl~ka~~k~~~~t~l~~Lq~~~a~vk~~l~~~q~~~eD~~~~i~qc~~lleep~ld~~Ir~~~~~a~lie~~v~~k~y~ 1347 (1416)
T KOG3617|consen 1268 KCLLKAEQKNMSTTGLDALQEDLAKVKVQLRKLQIMKEDAADGIRQCTTLLEEPILDDIIRCTRLFALLIEDHVSRKNYK 1347 (1416)
T ss_pred             HHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHhhCcCCCCcchhHHHHHHHHHHHHhhhhcc
Confidence            7777776554111100    00011111111     224555555555555555433    2467888999999999999


Q ss_pred             hHHHHHHHHHhcCC
Q 038401          523 DASRIMNRMNKRRT  536 (542)
Q Consensus       523 ~A~~~~~~~~~~~~  536 (542)
                      .|.+.+++|+++-+
T Consensus      1348 ~AyRal~el~~k~p 1361 (1416)
T KOG3617|consen 1348 PAYRALTELQKKVP 1361 (1416)
T ss_pred             HHHHHHHHHhhcCC
Confidence            99999999998753

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=99.26  E-value=2e-06  Score=82.90  Aligned_cols=511  Identities=13%  Similarity=0.096  Sum_probs=276.0

Q ss_pred             hhhhhHHHHhhCCCCCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHH
Q 038401            2 SVAILDWINEEARYSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQME   81 (542)
Q Consensus         2 A~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~   81 (542)
                      |++-.+.+.++++-.+....+..+.  +.|.|..++|..+++.....+.. |..|...+-.+|...++.++|..+|++..
T Consensus        28 al~~~~kllkk~Pn~~~a~vLkaLs--l~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~~~~~Ye~~~  104 (932)
T KOG2053|consen   28 ALAKLGKLLKKHPNALYAKVLKALS--LFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDEAVHLYERAN  104 (932)
T ss_pred             HHHHHHHHHHHCCCcHHHHHHHHHH--HHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhHHHHHHHHHH
Confidence            5666677777654333333343333  56889999999988888776554 77889999999999999999999999998


Q ss_pred             hCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccC----------cHHHHHHHHHHHH
Q 038401           82 QDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAK----------LFKEARLLIEEMR  151 (542)
Q Consensus        82 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----------~~~~a~~~~~~~~  151 (542)
                      +.  .|+......++.+|.+.+++.+-.+.--++-+. .+.++..+=++++.....-          -..-|.+.++.+.
T Consensus       105 ~~--~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~-~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA~~m~~~~l  181 (932)
T KOG2053|consen  105 QK--YPSEELLYHLFMAYVREKSYKKQQKAALQLYKN-FPKRAYYFWSVISLILQSIFSENELLDPILLALAEKMVQKLL  181 (932)
T ss_pred             hh--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCcccchHHHHHHHHHHhccCCcccccchhHHHHHHHHHHHh
Confidence            76  456777788888899888877655554444432 2334444444444443221          1335666777776


Q ss_pred             HcC-CCCCHHHHHHHHHHHHHCCChHHHHHHH-HHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCh
Q 038401          152 EQG-VKPDTVSYSTLLNLYVENHKFVEALSVF-AEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSV  229 (542)
Q Consensus       152 ~~g-~~~~~~~~~~l~~~~~~~g~~~~a~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  229 (542)
                      +.+ .--+..-...-...+...|++++|.+++ ....+.-.+.+...-+.-+..+...+++.+..++..++...|  +|.
T Consensus       182 ~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll~k~--~Dd  259 (932)
T KOG2053|consen  182 EKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLLEKG--NDD  259 (932)
T ss_pred             ccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHHHhC--Ccc
Confidence            653 1112222222233455688899999998 344444444455555677788888899999999999998876  332


Q ss_pred             hHHHHHHHHH----------------HhcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHc
Q 038401          230 VSYNTLLRVY----------------GEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNR  293 (542)
Q Consensus       230 ~~~~~ll~~~----------------~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  293 (542)
                        |...+..+                ...+..+...+...+..........-++-.+..-+-.-|+.+++...|-+-  -
T Consensus       260 --y~~~~~sv~klLe~~~~~~a~~~~s~~~~l~~~~ek~~~~i~~~~Rgp~LA~lel~kr~~~~gd~ee~~~~y~~k--f  335 (932)
T KOG2053|consen  260 --YKIYTDSVFKLLELLNKEPAEAAHSLSKSLDECIEKAQKNIGSKSRGPYLARLELDKRYKLIGDSEEMLSYYFKK--F  335 (932)
T ss_pred             --hHHHHHHHHHHHHhcccccchhhhhhhhhHHHHHHHHHHhhcccccCcHHHHHHHHHHhcccCChHHHHHHHHHH--h
Confidence              22222211                111222333333332222211111111222222223457777655444221  1


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHH-------HHHHHHHHHHHcCC-----HHHHHHHHHH--
Q 038401          294 GIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPV-------LYQTMIVAYERVGL-----VAHAKRLLHE--  359 (542)
Q Consensus       294 ~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-------~~~~l~~~~~~~~~-----~~~a~~~~~~--  359 (542)
                      |-.|   .+..=+..|...=..+.-..++.......  ++..       .+...+..-...|.     -+.-..++.+  
T Consensus       336 g~kp---cc~~Dl~~yl~~l~~~q~~~l~~~l~~~~--~~~s~~~k~l~~h~c~l~~~rl~G~~~~l~ad~i~a~~~kl~  410 (932)
T KOG2053|consen  336 GDKP---CCAIDLNHYLGHLNIDQLKSLMSKLVLAD--DDSSGDEKVLQQHLCVLLLLRLLGLYEKLPADSILAYVRKLK  410 (932)
T ss_pred             CCCc---HhHhhHHHhhccCCHHHHHHHHHHhhccC--CcchhhHHHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHH
Confidence            2122   11111112222222222233333332211  1100       01111111111221     1111111111  


Q ss_pred             --hcCC---------CCC---------CHHHHHHHHHHhCCHH---HHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCH
Q 038401          360 --LRQP---------NTI---------PRETAITILARAGRIE---EATWVFRQAFDAGEVKDISVFGCMIELFSRNKKY  416 (542)
Q Consensus       360 --~~~~---------~~~---------~~~~l~~~~~~~g~~~---~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  416 (542)
                        ...+         ...         ..+.++..+.+.++..   +|+-+++...... +.|..+--.+++.|+-.|-+
T Consensus       411 ~~ye~gls~~K~ll~TE~~~g~~~llLav~~Lid~~rktnd~~~l~eaI~LLE~glt~s-~hnf~~KLlLiriY~~lGa~  489 (932)
T KOG2053|consen  411 LTYEKGLSLSKDLLPTEYSFGDELLLLAVNHLIDLWRKTNDLTDLFEAITLLENGLTKS-PHNFQTKLLLIRIYSYLGAF  489 (932)
T ss_pred             HHHhccccccccccccccccHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhcC-CccHHHHHHHHHHHHHhcCC
Confidence              1111         000         1233456666666654   4666666666542 34566666788888888999


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHHHHHHHhccCChHHHHHHHHH-
Q 038401          417 ANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQMLSLYGARKDFNMLESLFER-  495 (542)
Q Consensus       417 ~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~-  495 (542)
                      ..|.++|+.+--..+.-|...+. +..-+.-.|++..+...++...+... .....+..++....+.|.+.+..++..- 
T Consensus       490 p~a~~~y~tLdIK~IQ~DTlgh~-~~~~~~t~g~~~~~s~~~~~~lkfy~-~~~kE~~eyI~~AYr~g~ySkI~em~~fr  567 (932)
T KOG2053|consen  490 PDAYELYKTLDIKNIQTDTLGHL-IFRRAETSGRSSFASNTFNEHLKFYD-SSLKETPEYIALAYRRGAYSKIPEMLAFR  567 (932)
T ss_pred             hhHHHHHHhcchHHhhhccchHH-HHHHHHhcccchhHHHHHHHHHHHHh-hhhhhhHHHHHHHHHcCchhhhHHHHHHH
Confidence            99999998886555655554443 33455677888888888888877541 1222233355555577777776654432 


Q ss_pred             --HhcCCCCCchhHHHHHHHHHHhhcchhhHHHHHHHHH
Q 038401          496 --LDSDSNINKKELHHVVAGIYERANRLNDASRIMNRMN  532 (542)
Q Consensus       496 --~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  532 (542)
                        +.......-...-+...+..+..++.++=...++.|.
T Consensus       568 ~rL~~S~q~~a~~VE~~~l~ll~~~~~~~q~~~~~~~~~  606 (932)
T KOG2053|consen  568 DRLMHSLQKWACRVENLQLSLLCNADRGTQLLKLLESMK  606 (932)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhCCcHHHHHHHHhccc
Confidence              3321111111233445566677778777777777765

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=99.25  E-value=8.3e-08  Score=86.89  Aligned_cols=404  Identities=14%  Similarity=0.105  Sum_probs=215.2

Q ss_pred             HHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHHCCC
Q 038401           96 IELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPD-TVSYSTLLNLYVENHK  174 (542)
Q Consensus        96 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~-~~~~~~l~~~~~~~g~  174 (542)
                      ..+....|+++.|..+|...+... +++...|+.-..+|+..|++++|++=-.+-++.  .|+ ...|+....++.-.|+
T Consensus         9 gnaa~s~~d~~~ai~~~t~ai~l~-p~nhvlySnrsaa~a~~~~~~~al~da~k~~~l--~p~w~kgy~r~Gaa~~~lg~   85 (539)
T KOG0548|consen    9 GNAAFSSGDFETAIRLFTEAIMLS-PTNHVLYSNRSAAYASLGSYEKALKDATKTRRL--NPDWAKGYSRKGAALFGLGD   85 (539)
T ss_pred             HHhhcccccHHHHHHHHHHHHccC-CCccchhcchHHHHHHHhhHHHHHHHHHHHHhc--CCchhhHHHHhHHHHHhccc
Confidence            356678899999999999998875 568888999999999999999998877777765  565 4678888889999999


Q ss_pred             hHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhHHHHHH-----HHHHhcCcHHHHH
Q 038401          175 FVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLL-----RVYGEAELFGEAI  249 (542)
Q Consensus       175 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll-----~~~~~~~~~~~a~  249 (542)
                      +++|+..|.+-++.. +.|...++.+..++.  -+.. +.+.|         .++..|..+.     +.+.....+..-+
T Consensus        86 ~~eA~~ay~~GL~~d-~~n~~L~~gl~~a~~--~~~~-~~~~~---------~~p~~~~~l~~~p~t~~~~~~~~~~~~l  152 (539)
T KOG0548|consen   86 YEEAILAYSEGLEKD-PSNKQLKTGLAQAYL--EDYA-ADQLF---------TKPYFHEKLANLPLTNYSLSDPAYVKIL  152 (539)
T ss_pred             HHHHHHHHHHHhhcC-CchHHHHHhHHHhhh--HHHH-hhhhc---------cCcHHHHHhhcChhhhhhhccHHHHHHH
Confidence            999999999988864 456777777777761  1111 11111         1111111111     1111111111111


Q ss_pred             HHHHHHHhc-CCCCcHHHHHHHHHHHHccC-------------------CHH----HHHHHHHHHHH-cCCCCCHHHHHH
Q 038401          250 HLFRLMQRK-EIEQNVVTYNTMIKIYGKSL-------------------EHE----KATNLMQEMQN-RGIEPNAITYST  304 (542)
Q Consensus       250 ~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~-------------------~~~----~a~~~~~~~~~-~~~~p~~~~~~~  304 (542)
                      +.+..-... +...+   ...++.+.....                   .+.    .......++.+ ....--..-...
T Consensus       153 ~~~~~~p~~l~~~l~---d~r~m~a~~~l~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~d~~ee~~~k~~a~~ek~  229 (539)
T KOG0548|consen  153 EIIQKNPTSLKLYLN---DPRLMKADGQLKGVDELLFYASGIEILASMAEPCKQEHNGFPIIEDNTEERRVKEKAHKEKE  229 (539)
T ss_pred             HHhhcCcHhhhcccc---cHHHHHHHHHHhcCccccccccccccCCCCCCcccccCCCCCccchhHHHHHHHHhhhHHHH
Confidence            111000000 00000   000111100000                   000    00000000000 000001122345


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCH---H-------HHHHH
Q 038401          305 IIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPR---E-------TAITI  374 (542)
Q Consensus       305 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~-------~l~~~  374 (542)
                      +.++..+..+++.+.+-+....+..  -+...++....+|...|.+.+.........+.+...+   +       .+..+
T Consensus       230 lgnaaykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre~rad~klIak~~~r~g~a  307 (539)
T KOG0548|consen  230 LGNAAYKKKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRELRADYKLIAKALARLGNA  307 (539)
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHHHHHHHHHHHHHHHHhhhh
Confidence            5666666677777777777776654  3444445555566666666655555444333222111   1       12334


Q ss_pred             HHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHhccCcHHH
Q 038401          375 LARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDS-HIIALVLNSYGKLREFET  453 (542)
Q Consensus       375 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~  453 (542)
                      +.+.++++.|+..|.+.+.....|+.         ..+....++++...+...-  +.|.. .-...-+..+.+.|++..
T Consensus       308 ~~k~~~~~~ai~~~~kaLte~Rt~~~---------ls~lk~~Ek~~k~~e~~a~--~~pe~A~e~r~kGne~Fk~gdy~~  376 (539)
T KOG0548|consen  308 YTKREDYEGAIKYYQKALTEHRTPDL---------LSKLKEAEKALKEAERKAY--INPEKAEEEREKGNEAFKKGDYPE  376 (539)
T ss_pred             hhhHHhHHHHHHHHHHHhhhhcCHHH---------HHHHHHHHHHHHHHHHHHh--hChhHHHHHHHHHHHHHhccCHHH
Confidence            55667777777777777664333322         1122333444444444333  22432 112223556666677777


Q ss_pred             HHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHHHH-HhcCCCCCchhHHHHHHHHHHhhcchhhHHHHHHHH
Q 038401          454 ADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLFER-LDSDSNINKKELHHVVAGIYERANRLNDASRIMNRM  531 (542)
Q Consensus       454 A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  531 (542)
                      |...|.+++..+  |.+...|. .+.+|.+.|.+..|.+=.++ +..+|.  -...|..-+.++....+|++|.+.|.+.
T Consensus       377 Av~~YteAIkr~--P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~--~~kgy~RKg~al~~mk~ydkAleay~ea  452 (539)
T KOG0548|consen  377 AVKHYTEAIKRD--PEDARLYSNRAACYLKLGEYPEALKDAKKCIELDPN--FIKAYLRKGAALRAMKEYDKALEAYQEA  452 (539)
T ss_pred             HHHHHHHHHhcC--CchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCch--HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            777777776665  34445555 66667777777777666665 344443  3456666666666666777777777666


Q ss_pred             HhcC
Q 038401          532 NKRR  535 (542)
Q Consensus       532 ~~~~  535 (542)
                      ++..
T Consensus       453 le~d  456 (539)
T KOG0548|consen  453 LELD  456 (539)
T ss_pred             HhcC
Confidence            6544

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=99.24  E-value=4.1e-07  Score=82.57  Aligned_cols=443  Identities=13%  Similarity=0.079  Sum_probs=254.5

Q ss_pred             HHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCC-HHhHHHHHHHHHhcCCH
Q 038401           27 RNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGD-LVLYSNLIELARKLSDY  105 (542)
Q Consensus        27 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~  105 (542)
                      .+....|+++.|+..|.+.+...+. |...|+.-..+|+..|++++|++=-.+-.+.  .|+ +.-|.....++.-.|++
T Consensus        10 naa~s~~d~~~ai~~~t~ai~l~p~-nhvlySnrsaa~a~~~~~~~al~da~k~~~l--~p~w~kgy~r~Gaa~~~lg~~   86 (539)
T KOG0548|consen   10 NAAFSSGDFETAIRLFTEAIMLSPT-NHVLYSNRSAAYASLGSYEKALKDATKTRRL--NPDWAKGYSRKGAALFGLGDY   86 (539)
T ss_pred             HhhcccccHHHHHHHHHHHHccCCC-ccchhcchHHHHHHHhhHHHHHHHHHHHHhc--CCchhhHHHHhHHHHHhcccH
Confidence            4556789999999999999887644 8888999999999999999998877766664  444 45788888999999999


Q ss_pred             HHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcH---HHHHHHHHHHHHc---CCCCCHHHHHHHHHHHHHC-------
Q 038401          106 SKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLF---KEARLLIEEMREQ---GVKPDTVSYSTLLNLYVEN-------  172 (542)
Q Consensus       106 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~---~~a~~~~~~~~~~---g~~~~~~~~~~l~~~~~~~-------  172 (542)
                      ++|+..|.+-++.. +.+...++.+..++......   -.--.++..+...   ........|..++..+-+.       
T Consensus        87 ~eA~~ay~~GL~~d-~~n~~L~~gl~~a~~~~~~~~~~~~~p~~~~~l~~~p~t~~~~~~~~~~~~l~~~~~~p~~l~~~  165 (539)
T KOG0548|consen   87 EEAILAYSEGLEKD-PSNKQLKTGLAQAYLEDYAADQLFTKPYFHEKLANLPLTNYSLSDPAYVKILEIIQKNPTSLKLY  165 (539)
T ss_pred             HHHHHHHHHHhhcC-CchHHHHHhHHHhhhHHHHhhhhccCcHHHHHhhcChhhhhhhccHHHHHHHHHhhcCcHhhhcc
Confidence            99999999988763 44566677777766111000   0000011111110   0000111222222221110       


Q ss_pred             CChHHHHHHHHHHHhcCCCCChhhHHHHHHHHh-ccCCHH----HHHHHHHHHHHC-CCCCChhHHHHHHHHHHhcCcHH
Q 038401          173 HKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYG-QLDMAK----DADRLFWSMRKM-GIDPSVVSYNTLLRVYGEAELFG  246 (542)
Q Consensus       173 g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~----~a~~~~~~~~~~-~~~~~~~~~~~ll~~~~~~~~~~  246 (542)
                      .+.+......-.+...+..    .+...-.... ....+.    ............ ....-..-...+.++..+..+++
T Consensus       166 l~d~r~m~a~~~l~~~~~~----~~~~~~~~~~~~~~~p~~~~~~~~~~~~d~~ee~~~k~~a~~ek~lgnaaykkk~f~  241 (539)
T KOG0548|consen  166 LNDPRLMKADGQLKGVDEL----LFYASGIEILASMAEPCKQEHNGFPIIEDNTEERRVKEKAHKEKELGNAAYKKKDFE  241 (539)
T ss_pred             cccHHHHHHHHHHhcCccc----cccccccccCCCCCCcccccCCCCCccchhHHHHHHHHhhhHHHHHHHHHHHhhhHH
Confidence            0001111111111000000    0000000000 000000    000000000000 00001122445667777788888


Q ss_pred             HHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHH-------HHHHHHHHhcCCHHHHH
Q 038401          247 EAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITY-------STIIAIWGKAGKLDRAA  319 (542)
Q Consensus       247 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~-------~~l~~~~~~~~~~~~a~  319 (542)
                      .|.+.+.......  .+..-++....+|...|....+.....+..+.|.. ...-|       ..+..++.+.++++.++
T Consensus       242 ~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre-~rad~klIak~~~r~g~a~~k~~~~~~ai  318 (539)
T KOG0548|consen  242 TAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRE-LRADYKLIAKALARLGNAYTKREDYEGAI  318 (539)
T ss_pred             HHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHH-HHHHHHHHHHHHHHhhhhhhhHHhHHHHH
Confidence            9998888887764  45666677778888888888777777766655422 11222       22334566678888899


Q ss_pred             HHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCC---HHHHHHHHHHhCCHHHHHHHHHHHHHcCC
Q 038401          320 MLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIP---RETAITILARAGRIEEATWVFRQAFDAGE  396 (542)
Q Consensus       320 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  396 (542)
                      ..|.+.+.....|+.         ..+....+++....+...-.++..   ...-...+.+.|++..|+..|.++++.. 
T Consensus       319 ~~~~kaLte~Rt~~~---------ls~lk~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAIkr~-  388 (539)
T KOG0548|consen  319 KYYQKALTEHRTPDL---------LSKLKEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYPEAVKHYTEAIKRD-  388 (539)
T ss_pred             HHHHHHhhhhcCHHH---------HHHHHHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHHHHHHHHHHHHhcC-
Confidence            888887765433332         222334444444444332222221   1112556778899999999999999885 


Q ss_pred             CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH
Q 038401          397 VKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDS-HIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ  475 (542)
Q Consensus       397 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  475 (542)
                      +.|...|....-+|.+.|.+..|+.-.+...+.  .|+. ..|..=+.++....+|++|.+.|++.++.+   |+..-+.
T Consensus       389 P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL--~p~~~kgy~RKg~al~~mk~ydkAleay~eale~d---p~~~e~~  463 (539)
T KOG0548|consen  389 PEDARLYSNRAACYLKLGEYPEALKDAKKCIEL--DPNFIKAYLRKGAALRAMKEYDKALEAYQEALELD---PSNAEAI  463 (539)
T ss_pred             CchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhc--CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC---chhHHHH
Confidence            578889999999999999999999998888884  4543 455555666777788999999999999876   5444333


Q ss_pred             --HHHHHhccCChHHHHHHHHH
Q 038401          476 --MLSLYGARKDFNMLESLFER  495 (542)
Q Consensus       476 --l~~~~~~~g~~~~A~~~~~~  495 (542)
                        +..+...........++.++
T Consensus       464 ~~~~rc~~a~~~~~~~ee~~~r  485 (539)
T KOG0548|consen  464 DGYRRCVEAQRGDETPEETKRR  485 (539)
T ss_pred             HHHHHHHHHhhcCCCHHHHHHh
Confidence              44444432222333344444

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.23  E-value=1.6e-06  Score=84.57  Aligned_cols=125  Identities=12%  Similarity=0.080  Sum_probs=83.2

Q ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHH-----HHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHH
Q 038401           22 YNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYST-----LITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLI   96 (542)
Q Consensus        22 ~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~-----l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~   96 (542)
                      +..+.+.|.+.|-+.+|++.+..+...  + .....+.     -+..|...-.++.+.+.++.|...++..+..+...+.
T Consensus       609 ra~IAqLCEKAGL~qraLehytDl~DI--K-R~vVhth~L~pEwLv~yFg~lsve~s~eclkaml~~NirqNlQi~VQva  685 (1666)
T KOG0985|consen  609 RAEIAQLCEKAGLLQRALEHYTDLYDI--K-RVVVHTHLLNPEWLVNYFGSLSVEDSLECLKAMLSANIRQNLQIVVQVA  685 (1666)
T ss_pred             HHHHHHHHHhcchHHHHHHhcccHHHH--H-HHHHHhccCCHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhhhHHHHHHH
Confidence            667788888888888888777665432  0 0111111     1123344456788888888888887777777777666


Q ss_pred             HHHHhcCCHHHHHHHHHHhHhC-----------CCCccHhHHHHHHHHHhccCcHHHHHHHHHH
Q 038401           97 ELARKLSDYSKAISIFSRLKSS-----------GIVPDLVAYNTMINVFGKAKLFKEARLLIEE  149 (542)
Q Consensus        97 ~~~~~~~~~~~a~~~~~~~~~~-----------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  149 (542)
                      .-|...-..+..+++|+....-           ++..|+...-..|.+.++.|++.+.+++.++
T Consensus       686 tky~eqlg~~~li~lFE~fks~eGL~yfLgSivn~seDpevh~KYIqAA~kt~QikEvERicre  749 (1666)
T KOG0985|consen  686 TKYHEQLGAQALIELFESFKSYEGLYYFLGSIVNFSEDPEVHFKYIQAACKTGQIKEVERICRE  749 (1666)
T ss_pred             HHHHHHhCHHHHHHHHHhhccchhHHHHHHHHhccccCchHHHHHHHHHHhhccHHHHHHHHhc
Confidence            6666666666777777765432           2345666666778888899988888877653

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=99.22  E-value=4e-07  Score=85.63  Aligned_cols=265  Identities=20%  Similarity=0.238  Sum_probs=151.1

Q ss_pred             HHHHHhcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCH
Q 038401          236 LRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKL  315 (542)
Q Consensus       236 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~  315 (542)
                      +.+......+.+|+.+++.+..+.  .-..-|..+.+.|+..|+++.|.++|.+.-         .++-.|..|.+.|+|
T Consensus       739 ieaai~akew~kai~ildniqdqk--~~s~yy~~iadhyan~~dfe~ae~lf~e~~---------~~~dai~my~k~~kw  807 (1636)
T KOG3616|consen  739 IEAAIGAKEWKKAISILDNIQDQK--TASGYYGEIADHYANKGDFEIAEELFTEAD---------LFKDAIDMYGKAGKW  807 (1636)
T ss_pred             HHHHhhhhhhhhhHhHHHHhhhhc--cccccchHHHHHhccchhHHHHHHHHHhcc---------hhHHHHHHHhccccH
Confidence            444556677777777777776653  233446667777888888888877775432         244556777788888


Q ss_pred             HHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcC
Q 038401          316 DRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFRQAFDAG  395 (542)
Q Consensus       316 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  395 (542)
                      +.|.++-.+...  .......|.+-..-+...|++.+|.+++-.+..|+     ..+.+|-+.|..+..+++..+--.. 
T Consensus       808 ~da~kla~e~~~--~e~t~~~yiakaedldehgkf~eaeqlyiti~~p~-----~aiqmydk~~~~ddmirlv~k~h~d-  879 (1636)
T KOG3616|consen  808 EDAFKLAEECHG--PEATISLYIAKAEDLDEHGKFAEAEQLYITIGEPD-----KAIQMYDKHGLDDDMIRLVEKHHGD-  879 (1636)
T ss_pred             HHHHHHHHHhcC--chhHHHHHHHhHHhHHhhcchhhhhheeEEccCch-----HHHHHHHhhCcchHHHHHHHHhChh-
Confidence            887777655432  23344555555555667777777777766554433     3466677777777776666553211 


Q ss_pred             CCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCc-hHHHH
Q 038401          396 EVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFS-DQVHF  474 (542)
Q Consensus       396 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~~~~  474 (542)
                        .-..+-..+..-|-..|+...|..-|-+..+         |.+.+++|...+.|++|.++-+   ..|+... ..+.+
T Consensus       880 --~l~dt~~~f~~e~e~~g~lkaae~~flea~d---------~kaavnmyk~s~lw~dayriak---tegg~n~~k~v~f  945 (1636)
T KOG3616|consen  880 --HLHDTHKHFAKELEAEGDLKAAEEHFLEAGD---------FKAAVNMYKASELWEDAYRIAK---TEGGANAEKHVAF  945 (1636)
T ss_pred             --hhhHHHHHHHHHHHhccChhHHHHHHHhhhh---------HHHHHHHhhhhhhHHHHHHHHh---ccccccHHHHHHH
Confidence              1123344555666677777777776654432         3344556666666666655432   2221100 11111


Q ss_pred             H---------HHHHHhc-------------cCChHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhhcchhhHHHHHHHHH
Q 038401          475 Q---------MLSLYGA-------------RKDFNMLESLFERLDSDSNINKKELHHVVAGIYERANRLNDASRIMNRMN  532 (542)
Q Consensus       475 ~---------l~~~~~~-------------~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  532 (542)
                      .         .+..+-+             .+-++-|.++-+-..++.   ..+....++..+...|++++|.+-|-+..
T Consensus       946 lwaksiggdaavkllnk~gll~~~id~a~d~~afd~afdlari~~k~k---~~~vhlk~a~~ledegk~edaskhyveai 1022 (1636)
T KOG3616|consen  946 LWAKSIGGDAAVKLLNKHGLLEAAIDFAADNCAFDFAFDLARIAAKDK---MGEVHLKLAMFLEDEGKFEDASKHYVEAI 1022 (1636)
T ss_pred             HHHHhhCcHHHHHHHHhhhhHHHHhhhhhcccchhhHHHHHHHhhhcc---CccchhHHhhhhhhccchhhhhHhhHHHh
Confidence            1         0112222             333333333333322111   23566677888888899999987777766


Q ss_pred             hcCC
Q 038401          533 KRRT  536 (542)
Q Consensus       533 ~~~~  536 (542)
                      +.++
T Consensus      1023 klnt 1026 (1636)
T KOG3616|consen 1023 KLNT 1026 (1636)
T ss_pred             hccc
Confidence            5443

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

Probab=99.19  E-value=2.2e-07  Score=86.69  Aligned_cols=197  Identities=10%  Similarity=0.050  Sum_probs=105.1

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHhcCCC---CCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCC-cC--HHHHHHHHHHHHh
Q 038401          339 TMIVAYERVGLVAHAKRLLHELRQPN---TIPRETAITILARAGRIEEATWVFRQAFDAGEV-KD--ISVFGCMIELFSR  412 (542)
Q Consensus       339 ~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~--~~~~~~l~~~~~~  412 (542)
                      .+...+...|++++|...+++....+   ......+..++...|++++|...+++.++.... ++  ...|..+...+..
T Consensus       119 ~~a~~~~~~G~~~~A~~~~~~al~~~p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~  198 (355)
T cd05804         119 MLAFGLEEAGQYDRAEEAARRALELNPDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLE  198 (355)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHH
Confidence            33444555555555555555544321   222333455556666666666666666654221 22  2345567777888


Q ss_pred             cCCHHHHHHHHHHHHhCCC-CCCHHHH-H--HHHHHHhccCcHHHHHHH--H-HHHHHcCCCCchHHH-HHHHHHHhccC
Q 038401          413 NKKYANVIEVFEKMRSAGY-FPDSHII-A--LVLNSYGKLREFETADDL--Y-SEMQEEGCVFSDQVH-FQMLSLYGARK  484 (542)
Q Consensus       413 ~g~~~~A~~~~~~~~~~~~-~p~~~~~-~--~l~~~~~~~g~~~~A~~~--~-~~~~~~~~~~~~~~~-~~l~~~~~~~g  484 (542)
                      .|++++|..+++++..... .+..... +  .++.-+...|....+.++  + .........+..... ...+.++...|
T Consensus       199 ~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~  278 (355)
T cd05804         199 RGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAG  278 (355)
T ss_pred             CCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCC
Confidence            8888888888888764321 1111111 1  223333344433333332  1 111111000001111 12667788899


Q ss_pred             ChHHHHHHHHHHhcCCCC---C-----chhHHHHHHHHHHhhcchhhHHHHHHHHHhcC
Q 038401          485 DFNMLESLFERLDSDSNI---N-----KKELHHVVAGIYERANRLNDASRIMNRMNKRR  535 (542)
Q Consensus       485 ~~~~A~~~~~~~~~~~~~---~-----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  535 (542)
                      +.++|...++.+......   .     ........+-++...|++++|.+.+.......
T Consensus       279 ~~~~a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~~a  337 (355)
T cd05804         279 DKDALDKLLAALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYATALELLGPVRDDL  337 (355)
T ss_pred             CHHHHHHHHHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence            999999998886432211   0     12445566677889999999999998876543

A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been speculated that StaR could be a flavoprotein hydroxylating a tyrosine sidechain. Some family members have been annotated as proteins containing tetratricopeptide (TPR) repeats, which may at least indicate mostly alpha-helical secondary structure.

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.18  E-value=3.1e-08  Score=88.69  Aligned_cols=30  Identities=3%  Similarity=0.076  Sum_probs=20.1

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 038401          400 ISVFGCMIELFSRNKKYANVIEVFEKMRSA  429 (542)
Q Consensus       400 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  429 (542)
                      ...|..++..+.+.|++++|+..|++.++.
T Consensus       236 ~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~  265 (296)
T PRK11189        236 CETYFYLAKYYLSLGDLDEAAALFKLALAN  265 (296)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            445666666777777777777777777663

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.18  E-value=2.9e-07  Score=76.98  Aligned_cols=295  Identities=14%  Similarity=0.122  Sum_probs=203.2

Q ss_pred             HHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHH-HHH
Q 038401           54 RYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNT-MIN  132 (542)
Q Consensus        54 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-l~~  132 (542)
                      ..-+++.+..+.+..+++.|++++....++.+ .+......+..+|....++..|...++++-..  .|...-|.. -..
T Consensus        10 EGeftaviy~lI~d~ry~DaI~~l~s~~Er~p-~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql--~P~~~qYrlY~AQ   86 (459)
T KOG4340|consen   10 EGEFTAVVYRLIRDARYADAIQLLGSELERSP-RSRAGLSLLGYCYYRLQEFALAAECYEQLGQL--HPELEQYRLYQAQ   86 (459)
T ss_pred             CCchHHHHHHHHHHhhHHHHHHHHHHHHhcCc-cchHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--ChHHHHHHHHHHH
Confidence            33467777778888999999999998887743 27778888999999999999999999999875  565555543 245


Q ss_pred             HHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHH--HHHCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCH
Q 038401          133 VFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNL--YVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMA  210 (542)
Q Consensus       133 ~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~--~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  210 (542)
                      .+.+.+.+..|+++...|...   |....-..-+.+  ....+++..+..++++....|   +..+.+.......+.|++
T Consensus        87 SLY~A~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en---~Ad~~in~gCllykegqy  160 (459)
T KOG4340|consen   87 SLYKACIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSEN---EADGQINLGCLLYKEGQY  160 (459)
T ss_pred             HHHHhcccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCC---ccchhccchheeeccccH
Confidence            667789999999999988763   333222222222  235788999999988876543   455566666667899999


Q ss_pred             HHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCC-------------cHH--------HHHH
Q 038401          211 KDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQ-------------NVV--------TYNT  269 (542)
Q Consensus       211 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-------------~~~--------~~~~  269 (542)
                      +.|.+-|....+-+--.....|+..+ +..+.++++.|++...++..+|+..             |+.        .-+.
T Consensus       161 EaAvqkFqaAlqvsGyqpllAYniAL-aHy~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sa  239 (459)
T KOG4340|consen  161 EAAVQKFQAALQVSGYQPLLAYNLAL-AHYSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSA  239 (459)
T ss_pred             HHHHHHHHHHHhhcCCCchhHHHHHH-HHHhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHHH
Confidence            99999999988754333455566544 4567889999999999998876532             111        1122


Q ss_pred             HH-------HHHHccCCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 038401          270 MI-------KIYGKSLEHEKATNLMQEMQNR-GIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMI  341 (542)
Q Consensus       270 l~-------~~~~~~~~~~~a~~~~~~~~~~-~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  341 (542)
                      ++       ..+.+.++++.|.+.+.+|.-+ .-..|+.|...+.-.- ..+++....+-+.-+...+ +....||..++
T Consensus       240 l~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n-~~~~p~~g~~KLqFLL~~n-PfP~ETFANlL  317 (459)
T KOG4340|consen  240 LVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMN-MDARPTEGFEKLQFLLQQN-PFPPETFANLL  317 (459)
T ss_pred             HHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhc-ccCCccccHHHHHHHHhcC-CCChHHHHHHH
Confidence            33       3345678888888888777432 1234666655543322 2344555555555566554 34567888888


Q ss_pred             HHHHHcCCHHHHHHHHHHh
Q 038401          342 VAYERVGLVAHAKRLLHEL  360 (542)
Q Consensus       342 ~~~~~~~~~~~a~~~~~~~  360 (542)
                      -.|++..-++.|-.++.+-
T Consensus       318 llyCKNeyf~lAADvLAEn  336 (459)
T KOG4340|consen  318 LLYCKNEYFDLAADVLAEN  336 (459)
T ss_pred             HHHhhhHHHhHHHHHHhhC
Confidence            8888888888888777653

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=99.17  E-value=8.2e-07  Score=86.43  Aligned_cols=176  Identities=10%  Similarity=-0.051  Sum_probs=101.4

Q ss_pred             HHHHHHHHhcC---CCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 038401          352 HAKRLLHELRQ---PNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRS  428 (542)
Q Consensus       352 ~a~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  428 (542)
                      .|+..+....+   .+...|+.+.-+ ...|++.-|...|-+.... .+....+|..+.-.+.+..+++-|...|.....
T Consensus       801 ~Ai~c~KkaV~L~ann~~~WnaLGVl-sg~gnva~aQHCfIks~~s-ep~~~~~W~NlgvL~l~n~d~E~A~~af~~~qS  878 (1238)
T KOG1127|consen  801 TAIRCCKKAVSLCANNEGLWNALGVL-SGIGNVACAQHCFIKSRFS-EPTCHCQWLNLGVLVLENQDFEHAEPAFSSVQS  878 (1238)
T ss_pred             HHHHHHHHHHHHhhccHHHHHHHHHh-hccchhhhhhhhhhhhhhc-cccchhheeccceeEEecccHHHhhHHHHhhhh
Confidence            45555554432   344445444333 4446666666655555544 234556677777777777888888888887776


Q ss_pred             CCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHH--HHHcC-CCCchHHHHH-HHHHHhccCChHHHHHHHHHHhc-----
Q 038401          429 AGYFP-DSHIIALVLNSYGKLREFETADDLYSE--MQEEG-CVFSDQVHFQ-MLSLYGARKDFNMLESLFERLDS-----  498 (542)
Q Consensus       429 ~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~--~~~~~-~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~~~~-----  498 (542)
                        +.| |...|..........|+.-++..+|..  ....+ +..+.-..+. .......+|++++-+...+++..     
T Consensus       879 --LdP~nl~~WlG~Ali~eavG~ii~~~~lfaHs~el~~~~gka~~f~Yw~c~te~h~~Ng~~e~~I~t~~ki~sAs~al  956 (1238)
T KOG1127|consen  879 --LDPLNLVQWLGEALIPEAVGRIIERLILFAHSDELCSKEGKAKKFQYWLCATEIHLQNGNIEESINTARKISSASLAL  956 (1238)
T ss_pred             --cCchhhHHHHHHHHhHHHHHHHHHHHHHHHhhHHhhccccccchhhHHHHHHHHHHhccchHHHHHHhhhhhhhHHHH
Confidence              445 445565555555667777777777776  22221 1122222222 33445556666655554444321     


Q ss_pred             ----CCCCCchhHHHHHHHHHHhhcchhhHHHHHHHH
Q 038401          499 ----DSNINKKELHHVVAGIYERANRLNDASRIMNRM  531 (542)
Q Consensus       499 ----~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  531 (542)
                          ...+....+|...+....+.+.+.+|..+..+.
T Consensus       957 ~~yf~~~p~~~fAy~~~gstlEhL~ey~~a~ela~Rl  993 (1238)
T KOG1127|consen  957 SYYFLGHPQLCFAYAANGSTLEHLEEYRAALELATRL  993 (1238)
T ss_pred             HHHHhcCcchhHHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence                112224467888888888888888888877763

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=99.17  E-value=2e-06  Score=73.58  Aligned_cols=308  Identities=12%  Similarity=0.048  Sum_probs=148.2

Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHH---HHHHHHHCCChHHHHHHHHHHHhcCCCCChhhHH-HHHH
Q 038401          127 YNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYST---LLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCN-IMID  202 (542)
Q Consensus       127 ~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~---l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~  202 (542)
                      ---+...+...|.+..|+.-|...++.    |+..|.+   -...|...|+-..|+.-+....+.  .||-..-. .-..
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            334445555556666666666555543    2222322   234555566666666555555553  24432211 1123


Q ss_pred             HHhccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHH
Q 038401          203 VYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEK  282 (542)
Q Consensus       203 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  282 (542)
                      .+.+.|.+++|..-|+.+++..  |+..+-   ..+..+.-..++-                ......+..+...|+...
T Consensus       115 vllK~Gele~A~~DF~~vl~~~--~s~~~~---~eaqskl~~~~e~----------------~~l~~ql~s~~~~GD~~~  173 (504)
T KOG0624|consen  115 VLLKQGELEQAEADFDQVLQHE--PSNGLV---LEAQSKLALIQEH----------------WVLVQQLKSASGSGDCQN  173 (504)
T ss_pred             hhhhcccHHHHHHHHHHHHhcC--CCcchh---HHHHHHHHhHHHH----------------HHHHHHHHHHhcCCchhh
Confidence            3455666666666666665542  211100   0000000000000                001111222333444444


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcC
Q 038401          283 ATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQ  362 (542)
Q Consensus       283 a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  362 (542)
                      |+.....+++-. +.|...+..-..+|...|++..|+.=++...+.. ..+...+-.+-..+...|+.+.++...++..+
T Consensus       174 ai~~i~~llEi~-~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLK  251 (504)
T KOG0624|consen  174 AIEMITHLLEIQ-PWDASLRQARAKCYIAEGEPKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAENSLKEIRECLK  251 (504)
T ss_pred             HHHHHHHHHhcC-cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHHHHHHHHHHHHc
Confidence            444444444431 2344444444444445555554444444443332 12333333334444444444444444444433


Q ss_pred             CCCCCHH------H---------HHHHHHHhCCHHHHHHHHHHHHHcCCCcCHH---HHHHHHHHHHhcCCHHHHHHHHH
Q 038401          363 PNTIPRE------T---------AITILARAGRIEEATWVFRQAFDAGEVKDIS---VFGCMIELFSRNKKYANVIEVFE  424 (542)
Q Consensus       363 ~~~~~~~------~---------l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~---~~~~l~~~~~~~g~~~~A~~~~~  424 (542)
                      -++..-.      .         .+......+++.++++..+..++..+.....   .+..+-.++...|++.+|++...
T Consensus       252 ldpdHK~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~  331 (504)
T KOG0624|consen  252 LDPDHKLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCK  331 (504)
T ss_pred             cCcchhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHH
Confidence            2222110      0         0122345577777777777777654332222   23334455666778888888888


Q ss_pred             HHHhCCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHHHHcC
Q 038401          425 KMRSAGYFPD-SHIIALVLNSYGKLREFETADDLYSEMQEEG  465 (542)
Q Consensus       425 ~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  465 (542)
                      ++++  +.|| ..++.--..+|.-...+++|+.-|+.+.+.+
T Consensus       332 evL~--~d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~n  371 (504)
T KOG0624|consen  332 EVLD--IDPDDVQVLCDRAEAYLGDEMYDDAIHDYEKALELN  371 (504)
T ss_pred             HHHh--cCchHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcC
Confidence            7777  5565 5667667777777778888888888887765

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.15  E-value=8.6e-06  Score=79.69  Aligned_cols=416  Identities=13%  Similarity=0.150  Sum_probs=211.7

Q ss_pred             HHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHH-HH---HHHHH------HhCCC----------
Q 038401           26 LRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSA-IS---WLQQM------EQDRV----------   85 (542)
Q Consensus        26 l~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a-~~---~~~~~------~~~~~----------   85 (542)
                      +.-.-+.++..--...++...+.|.. ++.+++++...|...++-.+- ++   .|+..      .++++          
T Consensus       845 v~EvEkRNRLklLlp~LE~~i~eG~~-d~a~hnAlaKIyIDSNNnPE~fLkeN~yYDs~vVGkYCEKRDP~lA~vaYerG  923 (1666)
T KOG0985|consen  845 VEEVEKRNRLKLLLPWLESLIQEGSQ-DPATHNALAKIYIDSNNNPERFLKENPYYDSKVVGKYCEKRDPHLACVAYERG  923 (1666)
T ss_pred             HHHHHhhhhHHHHHHHHHHHHhccCc-chHHHhhhhheeecCCCChHHhcccCCcchhhHHhhhhcccCCceEEEeeccc
Confidence            33344566677777788888888876 888999998888765543321 11   11111      11110          


Q ss_pred             ---------CCCHHhHHHHHHHHHhcCCHHHHH-----------HHHHHhHhCCCC--ccHhHHHHHHHHHhccCcHHHH
Q 038401           86 ---------SGDLVLYSNLIELARKLSDYSKAI-----------SIFSRLKSSGIV--PDLVAYNTMINVFGKAKLFKEA  143 (542)
Q Consensus        86 ---------~~~~~~~~~l~~~~~~~~~~~~a~-----------~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a  143 (542)
                               ......|....+.+....|.+.=.           ++.++..+.+++  .|+...+..+.++...+-..+-
T Consensus       924 qcD~elI~vcNeNSlfK~~aRYlv~R~D~~LW~~VL~e~n~~rRqLiDqVv~tal~E~~dPe~vS~tVkAfMtadLp~eL 1003 (1666)
T KOG0985|consen  924 QCDLELINVCNENSLFKSQARYLVERSDPDLWAKVLNEENPYRRQLIDQVVQTALPETQDPEEVSVTVKAFMTADLPNEL 1003 (1666)
T ss_pred             CCcHHHHHhcCchhHHHHHHHHHHhccChHHHHHHHhccChHHHHHHHHHHHhcCCccCChHHHHHHHHHHHhcCCcHHH
Confidence                     011122333333333333332211           222333332221  2445555566666666666777


Q ss_pred             HHHHHHHHHcC--CCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHH
Q 038401          144 RLLIEEMREQG--VKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMR  221 (542)
Q Consensus       144 ~~~~~~~~~~g--~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  221 (542)
                      .++++++.-.+  +.-+...-+.|+-...+ -+...+.+..+++..-+. |+      +...+...+-+++|+.+|+...
T Consensus      1004 IELLEKIvL~~S~Fse~~nLQnLLiLtAik-ad~trVm~YI~rLdnyDa-~~------ia~iai~~~LyEEAF~ifkkf~ 1075 (1666)
T KOG0985|consen 1004 IELLEKIVLDNSVFSENRNLQNLLILTAIK-ADRTRVMEYINRLDNYDA-PD------IAEIAIENQLYEEAFAIFKKFD 1075 (1666)
T ss_pred             HHHHHHHhcCCcccccchhhhhhHHHHHhh-cChHHHHHHHHHhccCCc-hh------HHHHHhhhhHHHHHHHHHHHhc
Confidence            77776665321  11122222333332222 333445555555443321 11      2333444555666666665542


Q ss_pred             HCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHH
Q 038401          222 KMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAIT  301 (542)
Q Consensus       222 ~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~  301 (542)
                           .+....+.|+.   .-+..++|.++-+...      .+..|+.+..+-.+.|...+|++-|-+.      -|+..
T Consensus      1076 -----~n~~A~~VLie---~i~~ldRA~efAe~~n------~p~vWsqlakAQL~~~~v~dAieSyika------dDps~ 1135 (1666)
T KOG0985|consen 1076 -----MNVSAIQVLIE---NIGSLDRAYEFAERCN------EPAVWSQLAKAQLQGGLVKDAIESYIKA------DDPSN 1135 (1666)
T ss_pred             -----ccHHHHHHHHH---HhhhHHHHHHHHHhhC------ChHHHHHHHHHHHhcCchHHHHHHHHhc------CCcHH
Confidence                 23333333333   2344555554443332      4456777777777777777777655432      25667


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCH
Q 038401          302 YSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRI  381 (542)
Q Consensus       302 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~  381 (542)
                      |..++....+.|.+++-.+.+...++..-.|.  +-..|+-+|++.++..+-.+++   ..++......+.+-|...|.+
T Consensus      1136 y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~--id~eLi~AyAkt~rl~elE~fi---~gpN~A~i~~vGdrcf~~~~y 1210 (1666)
T KOG0985|consen 1136 YLEVIDVASRTGKYEDLVKYLLMARKKVREPY--IDSELIFAYAKTNRLTELEEFI---AGPNVANIQQVGDRCFEEKMY 1210 (1666)
T ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHHhhcCcc--chHHHHHHHHHhchHHHHHHHh---cCCCchhHHHHhHHHhhhhhh
Confidence            77777777778888877777777766544433  3345667777777776655543   234444555555666666666


Q ss_pred             HHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHH
Q 038401          382 EEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEM  461 (542)
Q Consensus       382 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~  461 (542)
                      +.|.-+|...         ..|..|...+...|+++.|...-+++      .+..+|..+..+|...+.+.-|     ++
T Consensus      1211 ~aAkl~y~~v---------SN~a~La~TLV~LgeyQ~AVD~aRKA------ns~ktWK~VcfaCvd~~EFrlA-----Qi 1270 (1666)
T KOG0985|consen 1211 EAAKLLYSNV---------SNFAKLASTLVYLGEYQGAVDAARKA------NSTKTWKEVCFACVDKEEFRLA-----QI 1270 (1666)
T ss_pred             HHHHHHHHHh---------hhHHHHHHHHHHHHHHHHHHHHhhhc------cchhHHHHHHHHHhchhhhhHH-----Hh
Confidence            6665554432         23555555566666666655443332      2345555555555554443322     22


Q ss_pred             HHcCCCCchHHHHHHHHHHhccCChHHHHHHHHH
Q 038401          462 QEEGCVFSDQVHFQMLSLYGARKDFNMLESLFER  495 (542)
Q Consensus       462 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  495 (542)
                      .-.+.+......-.++..|...|-+++.+.+++.
T Consensus      1271 CGL~iivhadeLeeli~~Yq~rGyFeElIsl~Ea 1304 (1666)
T KOG0985|consen 1271 CGLNIIVHADELEELIEYYQDRGYFEELISLLEA 1304 (1666)
T ss_pred             cCceEEEehHhHHHHHHHHHhcCcHHHHHHHHHh
Confidence            2222222222222244555555555555555544

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=99.13  E-value=1.7e-06  Score=82.46  Aligned_cols=409  Identities=14%  Similarity=0.150  Sum_probs=209.2

Q ss_pred             CHHhHHHHHH--HHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHhHhCC---------CC
Q 038401           53 DRYTYSTLIT--CFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSG---------IV  121 (542)
Q Consensus        53 ~~~~~~~l~~--~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---------~~  121 (542)
                      |..|-..+++  .|.-.|+.+.|.+..+.+.      +...|..+.+.|.+..+++-|.-.+-.|....         -.
T Consensus       725 d~~TRkaml~FSfyvtiG~MD~AfksI~~Ik------S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~  798 (1416)
T KOG3617|consen  725 DESTRKAMLDFSFYVTIGSMDAAFKSIQFIK------SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQN  798 (1416)
T ss_pred             CHHHHHhhhceeEEEEeccHHHHHHHHHHHh------hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhC
Confidence            4555555554  3556788888877776654      44678888888888888877776665554321         01


Q ss_pred             ccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhcCCCCChhhHHHHH
Q 038401          122 PDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMI  201 (542)
Q Consensus       122 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~  201 (542)
                      |+ ..-..........|.+++|+.+|++...         |..|=..|-..|.|++|.++-+.--...   =..||....
T Consensus       799 ~~-e~eakvAvLAieLgMlEeA~~lYr~ckR---------~DLlNKlyQs~g~w~eA~eiAE~~DRiH---Lr~Tyy~yA  865 (1416)
T KOG3617|consen  799 GE-EDEAKVAVLAIELGMLEEALILYRQCKR---------YDLLNKLYQSQGMWSEAFEIAETKDRIH---LRNTYYNYA  865 (1416)
T ss_pred             Cc-chhhHHHHHHHHHhhHHHHHHHHHHHHH---------HHHHHHHHHhcccHHHHHHHHhhcccee---hhhhHHHHH
Confidence            21 2222233344567888888888888765         3445556677888888888765432222   123455555


Q ss_pred             HHHhccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHH
Q 038401          202 DVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHE  281 (542)
Q Consensus       202 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  281 (542)
                      ..+-..++.+.|++.|++...    |--.++..|.      .++....++.+.+.      |...|.....-+-..|+.+
T Consensus       866 ~~Lear~Di~~AleyyEK~~~----hafev~rmL~------e~p~~~e~Yv~~~~------d~~L~~WWgqYlES~Gemd  929 (1416)
T KOG3617|consen  866 KYLEARRDIEAALEYYEKAGV----HAFEVFRMLK------EYPKQIEQYVRRKR------DESLYSWWGQYLESVGEMD  929 (1416)
T ss_pred             HHHHhhccHHHHHHHHHhcCC----hHHHHHHHHH------hChHHHHHHHHhcc------chHHHHHHHHHHhcccchH
Confidence            566666777777777765321    1111111111      11222222222221      3344444444455566666


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhc
Q 038401          282 KATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELR  361 (542)
Q Consensus       282 ~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  361 (542)
                      .|+.++....+         |-.+++..|-.|+.++|-++-++-   |   |......+.+.|...|++.+|..+|.+..
T Consensus       930 aAl~~Y~~A~D---------~fs~VrI~C~qGk~~kAa~iA~es---g---d~AAcYhlaR~YEn~g~v~~Av~FfTrAq  994 (1416)
T KOG3617|consen  930 AALSFYSSAKD---------YFSMVRIKCIQGKTDKAARIAEES---G---DKAACYHLARMYENDGDVVKAVKFFTRAQ  994 (1416)
T ss_pred             HHHHHHHHhhh---------hhhheeeEeeccCchHHHHHHHhc---c---cHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence            66666665543         333444455566666666554432   1   34444455666666666666666665543


Q ss_pred             CC--------CCCCHHHHHHHHHHh--CCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHH-------
Q 038401          362 QP--------NTIPRETAITILARA--GRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFE-------  424 (542)
Q Consensus       362 ~~--------~~~~~~~l~~~~~~~--g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~-------  424 (542)
                      .-        ....-..+...+...  .+.-.|-.+|++.   |.     ...--+..|-+.|.+.+|+++--       
T Consensus       995 afsnAIRlcKEnd~~d~L~nlal~s~~~d~v~aArYyEe~---g~-----~~~~AVmLYHkAGm~~kALelAF~tqQf~a 1066 (1416)
T KOG3617|consen  995 AFSNAIRLCKENDMKDRLANLALMSGGSDLVSAARYYEEL---GG-----YAHKAVMLYHKAGMIGKALELAFRTQQFSA 1066 (1416)
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHhhcCchhHHHHHHHHHHc---ch-----hhhHHHHHHHhhcchHHHHHHHHhhcccHH
Confidence            10        000011112221111  1222223333322   10     01112334555566555554411       


Q ss_pred             -HHHhCCCCC--CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHHHHHHHhccCChHHHHHHHHHHhcCCC
Q 038401          425 -KMRSAGYFP--DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQMLSLYGARKDFNMLESLFERLDSDSN  501 (542)
Q Consensus       425 -~~~~~~~~p--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  501 (542)
                       +++..++.|  |+..++....-++...++++|..++-.+.+.          .-+--++...+..--.++-+.|....+
T Consensus      1067 L~lIa~DLd~~sDp~ll~RcadFF~~~~qyekAV~lL~~ar~~----------~~AlqlC~~~nv~vtee~aE~mTp~Kd 1136 (1416)
T KOG3617|consen 1067 LDLIAKDLDAGSDPKLLRRCADFFENNQQYEKAVNLLCLAREF----------SGALQLCKNRNVRVTEEFAELMTPTKD 1136 (1416)
T ss_pred             HHHHHHhcCCCCCHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH----------HHHHHHHhcCCCchhHHHHHhcCcCcC
Confidence             112223333  5566666667777777788777777666542          111112333333334444455422211


Q ss_pred             CCc-----hhHHHHHHHHHHhhcchhhHHHHHH
Q 038401          502 INK-----KELHHVVAGIYERANRLNDASRIMN  529 (542)
Q Consensus       502 ~~~-----~~~~~~l~~~~~~~g~~~~A~~~~~  529 (542)
                      ..+     ......++++|.++|.|..|-+-|-
T Consensus      1137 ~~~~e~~R~~vLeqvae~c~qQG~Yh~AtKKfT 1169 (1416)
T KOG3617|consen 1137 DMPNEQERKQVLEQVAELCLQQGAYHAATKKFT 1169 (1416)
T ss_pred             CCccHHHHHHHHHHHHHHHHhccchHHHHHHHh
Confidence            111     2556677777777777766655443

>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=99.11  E-value=8e-09  Score=90.91  Aligned_cols=245  Identities=13%  Similarity=0.114  Sum_probs=127.0

Q ss_pred             hcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 038401          241 EAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAM  320 (542)
Q Consensus       241 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~  320 (542)
                      -.|++..++.-.+ ........+......+.+++...|+.+.++   .++.... .|.......+...+...++-+.+..
T Consensus        13 y~G~Y~~~i~e~~-~~~~~~~~~~e~~~~~~Rs~iAlg~~~~vl---~ei~~~~-~~~l~av~~la~y~~~~~~~e~~l~   87 (290)
T PF04733_consen   13 YLGNYQQCINEAS-LKSFSPENKLERDFYQYRSYIALGQYDSVL---SEIKKSS-SPELQAVRLLAEYLSSPSDKESALE   87 (290)
T ss_dssp             CTT-HHHHCHHHH-CHTSTCHHHHHHHHHHHHHHHHTT-HHHHH---HHS-TTS-SCCCHHHHHHHHHHCTSTTHHCHHH
T ss_pred             HhhhHHHHHHHhh-ccCCCchhHHHHHHHHHHHHHHcCChhHHH---HHhccCC-ChhHHHHHHHHHHHhCccchHHHHH
Confidence            3455555554333 222211122333444555666666655332   2222222 4444444444433333334444444


Q ss_pred             HHHHHHhcCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcC
Q 038401          321 LFQKLRSSGVEI-DPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKD  399 (542)
Q Consensus       321 ~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~  399 (542)
                      -++......... +..........+...|++++|++++...  .+.......+.++.+.++++.|.+.++.|.+.  ..|
T Consensus        88 ~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~--~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~--~eD  163 (290)
T PF04733_consen   88 ELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG--GSLELLALAVQILLKMNRPDLAEKELKNMQQI--DED  163 (290)
T ss_dssp             HHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT--TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCC--SCC
T ss_pred             HHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc--CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCc
Confidence            444333322221 2222222223345566777776666543  22223333466677777778887777777664  233


Q ss_pred             HHHHHHHHHHHH----hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH
Q 038401          400 ISVFGCMIELFS----RNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ  475 (542)
Q Consensus       400 ~~~~~~l~~~~~----~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  475 (542)
                      .. ...+..++.    ..+.+.+|.-+|+++.+. +.+++.+++.++.++...|++++|.+.++++.+.+  +.++.+..
T Consensus       164 ~~-l~qLa~awv~l~~g~e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~--~~~~d~La  239 (290)
T PF04733_consen  164 SI-LTQLAEAWVNLATGGEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKD--PNDPDTLA  239 (290)
T ss_dssp             HH-HHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC---CCHHHHHH
T ss_pred             HH-HHHHHHHHHHHHhCchhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhc--cCCHHHHH
Confidence            22 223333332    234688888888887653 45777888888888888888888888888887765  33444444


Q ss_pred             -HHHHHhccCCh-HHHHHHHHHHhc
Q 038401          476 -MLSLYGARKDF-NMLESLFERLDS  498 (542)
Q Consensus       476 -l~~~~~~~g~~-~~A~~~~~~~~~  498 (542)
                       ++.+....|+. +.+.++++++..
T Consensus       240 Nliv~~~~~gk~~~~~~~~l~qL~~  264 (290)
T PF04733_consen  240 NLIVCSLHLGKPTEAAERYLSQLKQ  264 (290)
T ss_dssp             HHHHHHHHTT-TCHHHHHHHHHCHH
T ss_pred             HHHHHHHHhCCChhHHHHHHHHHHH
Confidence             77777777776 566778888653

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.

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

Probab=99.10  E-value=1.6e-06  Score=80.97  Aligned_cols=92  Identities=16%  Similarity=0.065  Sum_probs=46.4

Q ss_pred             HHHHHHHHCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCC-CCCh--hHHHHHHHHHH
Q 038401          164 TLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGI-DPSV--VSYNTLLRVYG  240 (542)
Q Consensus       164 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~--~~~~~ll~~~~  240 (542)
                      .+...+...|++++|.+.+++..+.. +.+...+..+...+...|++++|...++....... .++.  ..+..+...+.
T Consensus       119 ~~a~~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~  197 (355)
T cd05804         119 MLAFGLEEAGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYL  197 (355)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHH
Confidence            34445555555555555555555543 22344445555555555555655555555544321 1111  12334455555


Q ss_pred             hcCcHHHHHHHHHHHH
Q 038401          241 EAELFGEAIHLFRLMQ  256 (542)
Q Consensus       241 ~~~~~~~a~~~~~~~~  256 (542)
                      ..|++++|..+++...
T Consensus       198 ~~G~~~~A~~~~~~~~  213 (355)
T cd05804         198 ERGDYEAALAIYDTHI  213 (355)
T ss_pred             HCCCHHHHHHHHHHHh
Confidence            6666666666665553

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.

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.07  E-value=3e-08  Score=90.52  Aligned_cols=249  Identities=11%  Similarity=0.065  Sum_probs=179.9

Q ss_pred             HHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHH
Q 038401          272 KIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVA  351 (542)
Q Consensus       272 ~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  351 (542)
                      .-+.+.|++.+|.-.|+...... +-+...|..|.......++-..|+..+++..+.+ +-+......|.-.|...|.-.
T Consensus       293 ~~lm~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~Ld-P~NleaLmaLAVSytNeg~q~  370 (579)
T KOG1125|consen  293 CNLMKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELD-PTNLEALMALAVSYTNEGLQN  370 (579)
T ss_pred             HHHHhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcC-CccHHHHHHHHHHHhhhhhHH
Confidence            34567888888888888887763 3356678888888888888888999999888875 446777788888888999888


Q ss_pred             HHHHHHHHhcCCCCCCH-HHH---------HHHHHHhCCHHHHHHHHHHH-HHcCCCcCHHHHHHHHHHHHhcCCHHHHH
Q 038401          352 HAKRLLHELRQPNTIPR-ETA---------ITILARAGRIEEATWVFRQA-FDAGEVKDISVFGCMIELFSRNKKYANVI  420 (542)
Q Consensus       352 ~a~~~~~~~~~~~~~~~-~~l---------~~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  420 (542)
                      +|.+.++......+.-. ...         -..+.....+....++|-.+ .+.+...|+.+...|+-.|--.|++++|+
T Consensus       371 ~Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdrai  450 (579)
T KOG1125|consen  371 QALKMLDKWIRNKPKYVHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAV  450 (579)
T ss_pred             HHHHHHHHHHHhCccchhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHH
Confidence            99998888743211100 000         01111222233334444444 44444578999999999999999999999


Q ss_pred             HHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchH--HHHHHHHHHhccCChHHHHHHHHH-H
Q 038401          421 EVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQ--VHFQMLSLYGARKDFNMLESLFER-L  496 (542)
Q Consensus       421 ~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~g~~~~A~~~~~~-~  496 (542)
                      ..|+.++.  ++| |...|+.|+..+....+.++|+..|+++++..   |..  +.|.|+-.|...|.|++|.+.|-. +
T Consensus       451 Dcf~~AL~--v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLq---P~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL  525 (579)
T KOG1125|consen  451 DCFEAALQ--VKPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQ---PGYVRVRYNLGISCMNLGAYKEAVKHLLEAL  525 (579)
T ss_pred             HHHHHHHh--cCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcC---CCeeeeehhhhhhhhhhhhHHHHHHHHHHHH
Confidence            99999998  668 45889999999999999999999999999976   554  345599999999999999988877 2


Q ss_pred             --hcCC------CCCchhHHHHHHHHHHhhcchhhHHHH
Q 038401          497 --DSDS------NINKKELHHVVAGIYERANRLNDASRI  527 (542)
Q Consensus       497 --~~~~------~~~~~~~~~~l~~~~~~~g~~~~A~~~  527 (542)
                        ....      +..+..+|..|=.++.-.++.+-+.+.
T Consensus       526 ~mq~ks~~~~~~~~~se~iw~tLR~als~~~~~D~l~~a  564 (579)
T KOG1125|consen  526 SMQRKSRNHNKAPMASENIWQTLRLALSAMNRSDLLQEA  564 (579)
T ss_pred             HhhhcccccccCCcchHHHHHHHHHHHHHcCCchHHHHh
Confidence              2110      111235777777777777776655443

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.05  E-value=6.3e-06  Score=87.37  Aligned_cols=331  Identities=9%  Similarity=-0.016  Sum_probs=191.0

Q ss_pred             HHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcC--C----CCC--HHHHHHHHHHHH
Q 038401           99 ARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQG--V----KPD--TVSYSTLLNLYV  170 (542)
Q Consensus        99 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g--~----~~~--~~~~~~l~~~~~  170 (542)
                      ....|+++.+...++.+.......++.........+...|+++++...+......-  .    .+.  ......+...+.
T Consensus       384 l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~  463 (903)
T PRK04841        384 LFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAI  463 (903)
T ss_pred             HHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHH
Confidence            34456666666666554211111122223334445566788888888887765421  0    111  112222334556


Q ss_pred             HCCChHHHHHHHHHHHhcCCCCCh----hhHHHHHHHHhccCCHHHHHHHHHHHHHCCC---CCC--hhHHHHHHHHHHh
Q 038401          171 ENHKFVEALSVFAEMNEVNCPLDL----TTCNIMIDVYGQLDMAKDADRLFWSMRKMGI---DPS--VVSYNTLLRVYGE  241 (542)
Q Consensus       171 ~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~--~~~~~~ll~~~~~  241 (542)
                      ..|++++|...+++........+.    ...+.+...+...|++++|...+++.....-   .+.  ..+...+...+..
T Consensus       464 ~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~  543 (903)
T PRK04841        464 NDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFA  543 (903)
T ss_pred             hCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHH
Confidence            788888888888887653111121    2344555666778888888888877764210   111  2334455666778


Q ss_pred             cCcHHHHHHHHHHHHhc----CCC--C-cHHHHHHHHHHHHccCCHHHHHHHHHHHHHc--CCCCC--HHHHHHHHHHHH
Q 038401          242 AELFGEAIHLFRLMQRK----EIE--Q-NVVTYNTMIKIYGKSLEHEKATNLMQEMQNR--GIEPN--AITYSTIIAIWG  310 (542)
Q Consensus       242 ~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~p~--~~~~~~l~~~~~  310 (542)
                      .|+++.|...+++....    +..  + ....+..+...+...|++++|...+.+....  ...+.  ...+..+.....
T Consensus       544 ~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~  623 (903)
T PRK04841        544 QGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISL  623 (903)
T ss_pred             CCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHH
Confidence            88888888887776542    211  1 1223444555666778888888888776542  11121  233444555677


Q ss_pred             hcCCHHHHHHHHHHHHhcC--CCCCHH--HH--HHHHHHHHHcCCHHHHHHHHHHhcCCCCC-C------HHHHHHHHHH
Q 038401          311 KAGKLDRAAMLFQKLRSSG--VEIDPV--LY--QTMIVAYERVGLVAHAKRLLHELRQPNTI-P------RETAITILAR  377 (542)
Q Consensus       311 ~~~~~~~a~~~~~~~~~~~--~~~~~~--~~--~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~------~~~l~~~~~~  377 (542)
                      ..|+++.|...+.......  ......  ..  ...+..+...|+.+.|..++.....+... .      ...+..++..
T Consensus       624 ~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~  703 (903)
T PRK04841        624 ARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQIL  703 (903)
T ss_pred             HcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHH
Confidence            7888888888887765421  111110  00  11223445578888888887776543211 1      1234556777


Q ss_pred             hCCHHHHHHHHHHHHHc----CCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 038401          378 AGRIEEATWVFRQAFDA----GEVK-DISVFGCMIELFSRNKKYANVIEVFEKMRSA  429 (542)
Q Consensus       378 ~g~~~~A~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  429 (542)
                      .|++++|...++++...    +... ...+...+..++...|+.++|...+.++++.
T Consensus       704 ~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~l  760 (903)
T PRK04841        704 LGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALKL  760 (903)
T ss_pred             cCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            88888888888887653    2211 2345666677788888888888888888764

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.04  E-value=5.5e-06  Score=87.84  Aligned_cols=332  Identities=11%  Similarity=-0.002  Sum_probs=195.5

Q ss_pred             HhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhcCC------CCCh--hhHHHHHHHHh
Q 038401          134 FGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNC------PLDL--TTCNIMIDVYG  205 (542)
Q Consensus       134 ~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~------~~~~--~~~~~l~~~~~  205 (542)
                      ....|+++.+...++.+.......+..........+...|+++++...+......--      .+..  .....+...+.
T Consensus       384 l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~  463 (903)
T PRK04841        384 LFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAI  463 (903)
T ss_pred             HHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHH
Confidence            344566666666665542211111222223344455678888988888877654210      1111  11222334456


Q ss_pred             ccCCHHHHHHHHHHHHHCCCCCCh----hHHHHHHHHHHhcCcHHHHHHHHHHHHhc----CC-CCcHHHHHHHHHHHHc
Q 038401          206 QLDMAKDADRLFWSMRKMGIDPSV----VSYNTLLRVYGEAELFGEAIHLFRLMQRK----EI-EQNVVTYNTMIKIYGK  276 (542)
Q Consensus       206 ~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~  276 (542)
                      ..|+++.|...++.....-...+.    ...+.+...+...|++++|...++.....    +. .........+...+..
T Consensus       464 ~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~  543 (903)
T PRK04841        464 NDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFA  543 (903)
T ss_pred             hCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHH
Confidence            788899999888887653111121    23345556667789999998888877643    11 1112344556667788


Q ss_pred             cCCHHHHHHHHHHHHHc----CCC--C-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC--CCC--CHHHHHHHHHHHH
Q 038401          277 SLEHEKATNLMQEMQNR----GIE--P-NAITYSTIIAIWGKAGKLDRAAMLFQKLRSSG--VEI--DPVLYQTMIVAYE  345 (542)
Q Consensus       277 ~~~~~~a~~~~~~~~~~----~~~--p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~--~~~~~~~l~~~~~  345 (542)
                      .|+++.|...+++....    +..  + ....+..+...+...|++++|...+.......  ..+  ....+..+...+.
T Consensus       544 ~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~  623 (903)
T PRK04841        544 QGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISL  623 (903)
T ss_pred             CCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHH
Confidence            89999998888776542    211  1 12234444555667799999988888765421  111  1333444556677


Q ss_pred             HcCCHHHHHHHHHHhcC----CCC-CCHHH-----HHHHHHHhCCHHHHHHHHHHHHHcCCCcC---HHHHHHHHHHHHh
Q 038401          346 RVGLVAHAKRLLHELRQ----PNT-IPRET-----AITILARAGRIEEATWVFRQAFDAGEVKD---ISVFGCMIELFSR  412 (542)
Q Consensus       346 ~~~~~~~a~~~~~~~~~----~~~-~~~~~-----l~~~~~~~g~~~~A~~~~~~~~~~~~~~~---~~~~~~l~~~~~~  412 (542)
                      ..|+.+.|.+.+.....    ... ..+..     ....+...|+.+.|...+...........   ...+..+..++..
T Consensus       624 ~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~  703 (903)
T PRK04841        624 ARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQIL  703 (903)
T ss_pred             HcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHH
Confidence            88999988888777632    111 11111     12334457888888888776544211111   1123456677788


Q ss_pred             cCCHHHHHHHHHHHHhC----CCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHHHHcC
Q 038401          413 NKKYANVIEVFEKMRSA----GYFPD-SHIIALVLNSYGKLREFETADDLYSEMQEEG  465 (542)
Q Consensus       413 ~g~~~~A~~~~~~~~~~----~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  465 (542)
                      .|++++|...++++...    |..++ ..+...+..++...|+.++|...+.++.+..
T Consensus       704 ~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~la  761 (903)
T PRK04841        704 LGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALKLA  761 (903)
T ss_pred             cCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh
Confidence            89999998888887653    32222 2456667778888899999999999888764

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=99.02  E-value=3.8e-08  Score=85.67  Aligned_cols=61  Identities=11%  Similarity=0.068  Sum_probs=50.2

Q ss_pred             HHHHHHhccCChHHHHHHHHHHhc-CCCC-CchhHHHHHHHHHHhhcchhhHHHHHHHHHhcC
Q 038401          475 QMLSLYGARKDFNMLESLFERLDS-DSNI-NKKELHHVVAGIYERANRLNDASRIMNRMNKRR  535 (542)
Q Consensus       475 ~l~~~~~~~g~~~~A~~~~~~~~~-~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  535 (542)
                      .++..+.+.|++++|+..++++.. .|+. ....++..++.+|...|++++|..+++.+..+.
T Consensus       171 ~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~  233 (235)
T TIGR03302       171 YVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANY  233 (235)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            367788899999999999999543 3432 235789999999999999999999999987765

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).

>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=98.97  E-value=9.9e-08  Score=84.06  Aligned_cols=149  Identities=13%  Similarity=0.087  Sum_probs=60.5

Q ss_pred             HHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHh----ccC
Q 038401          133 VFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYG----QLD  208 (542)
Q Consensus       133 ~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~----~~~  208 (542)
                      .+...|++++|++++...      .+.......+..|.+.++++.|.+.++.|.+.+  .| .+...+..++.    ..+
T Consensus       111 i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~~--eD-~~l~qLa~awv~l~~g~e  181 (290)
T PF04733_consen  111 ILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQQID--ED-SILTQLAEAWVNLATGGE  181 (290)
T ss_dssp             HHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCCS--CC-HHHHHHHHHHHHHHHTTT
T ss_pred             HHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--Cc-HHHHHHHHHHHHHHhCch
Confidence            334445555555544332      133444444455555555555555555554432  11 22222222221    122


Q ss_pred             CHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCH-HHHHHHH
Q 038401          209 MAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEH-EKATNLM  287 (542)
Q Consensus       209 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~  287 (542)
                      .+.+|..+|+++.+. ..+++.+.+.+..++...|++++|.+++.+....+ +.+..+...++.+....|+. +.+.+.+
T Consensus       182 ~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~-~~~~d~LaNliv~~~~~gk~~~~~~~~l  259 (290)
T PF04733_consen  182 KYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKD-PNDPDTLANLIVCSLHLGKPTEAAERYL  259 (290)
T ss_dssp             CCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC--CCHHHHHHHHHHHHHHTT-TCHHHHHHH
T ss_pred             hHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhc-cCCHHHHHHHHHHHHHhCCChhHHHHHH
Confidence            344555555554332 23444444444444555555555555554444332 22333333344444444443 3344444


Q ss_pred             HHHHH
Q 038401          288 QEMQN  292 (542)
Q Consensus       288 ~~~~~  292 (542)
                      .++..
T Consensus       260 ~qL~~  264 (290)
T PF04733_consen  260 SQLKQ  264 (290)
T ss_dssp             HHCHH
T ss_pred             HHHHH
Confidence            44443

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.

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.93  E-value=2.9e-07  Score=86.52  Aligned_cols=214  Identities=12%  Similarity=0.089  Sum_probs=171.5

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHH
Q 038401          267 YNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYER  346 (542)
Q Consensus       267 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  346 (542)
                      -..+...+...|-...|..+++++.         .|..++.+|...|+..+|..+.....+.  +||+..|..+.+....
T Consensus       401 q~~laell~slGitksAl~I~Erle---------mw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc~LGDv~~d  469 (777)
T KOG1128|consen  401 QRLLAELLLSLGITKSALVIFERLE---------MWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYCLLGDVLHD  469 (777)
T ss_pred             HHHHHHHHHHcchHHHHHHHHHhHH---------HHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHHHhhhhccC
Confidence            3556677888888899998887764         4677788899999999999998888874  7899999999998888


Q ss_pred             cCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 038401          347 VGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKM  426 (542)
Q Consensus       347 ~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  426 (542)
                      ..-+++|.++.+.....   .-..+.....+.++++++.+.|+...+.. +....+|-.+..+..+.++++.|.+.|...
T Consensus       470 ~s~yEkawElsn~~sar---A~r~~~~~~~~~~~fs~~~~hle~sl~~n-plq~~~wf~~G~~ALqlek~q~av~aF~rc  545 (777)
T KOG1128|consen  470 PSLYEKAWELSNYISAR---AQRSLALLILSNKDFSEADKHLERSLEIN-PLQLGTWFGLGCAALQLEKEQAAVKAFHRC  545 (777)
T ss_pred             hHHHHHHHHHhhhhhHH---HHHhhccccccchhHHHHHHHHHHHhhcC-ccchhHHHhccHHHHHHhhhHHHHHHHHHH
Confidence            88889999988775432   11112222344789999999999998864 356788989999999999999999999999


Q ss_pred             HhCCCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHHHHHHHhccCChHHHHHHHHHHhc
Q 038401          427 RSAGYFPDS-HIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQMLSLYGARKDFNMLESLFERLDS  498 (542)
Q Consensus       427 ~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  498 (542)
                      +.  ..||. ..|+.+..+|.+.|+..+|...++++.+.+ ..+-..+-....+..+.|.+++|++.+.++..
T Consensus       546 vt--L~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~~rll~  615 (777)
T KOG1128|consen  546 VT--LEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRLLD  615 (777)
T ss_pred             hh--cCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHHHHHHHH
Confidence            98  56754 889999999999999999999999999987 33444444466778889999999999998643

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.89  E-value=5.5e-05  Score=69.20  Aligned_cols=407  Identities=11%  Similarity=0.119  Sum_probs=238.9

Q ss_pred             CCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHH
Q 038401           16 SPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNL   95 (542)
Q Consensus        16 ~~~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l   95 (542)
                      +-|+.+|+.||+-+..+ -++++.+.++++... .+-.+..|..-|..-....+++....+|.+.+..  ..+...|...
T Consensus        17 P~di~sw~~lire~qt~-~~~~~R~~YEq~~~~-FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvk--vLnlDLW~lY   92 (656)
T KOG1914|consen   17 PYDIDSWSQLIREAQTQ-PIDKVRETYEQLVNV-FPSSPRAWKLYIERELASKDFESVEKLFSRCLVK--VLNLDLWKLY   92 (656)
T ss_pred             CccHHHHHHHHHHHccC-CHHHHHHHHHHHhcc-CCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH--HhhHhHHHHH
Confidence            56889999999988777 999999999999876 3446779999999999999999999999998776  3456677766


Q ss_pred             HHHHHhc-CCHHH----HHHHHHHhH-hCCCCc-cHhHHHHHHHH---------HhccCcHHHHHHHHHHHHHcCCCCCH
Q 038401           96 IELARKL-SDYSK----AISIFSRLK-SSGIVP-DLVAYNTMINV---------FGKAKLFKEARLLIEEMREQGVKPDT  159 (542)
Q Consensus        96 ~~~~~~~-~~~~~----a~~~~~~~~-~~~~~~-~~~~~~~l~~~---------~~~~~~~~~a~~~~~~~~~~g~~~~~  159 (542)
                      +.-..+. ++...    ..+.|+-.. +.|..+ +-..|+..+..         +..+.+.+...++++++...-+..=.
T Consensus        93 l~YVR~~~~~~~~~r~~m~qAy~f~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqral~tPm~nlE  172 (656)
T KOG1914|consen   93 LSYVRETKGKLFGYREKMVQAYDFALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRALVTPMHNLE  172 (656)
T ss_pred             HHHHHHHccCcchHHHHHHHHHHHHHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHhcCccccHH
Confidence            6544332 22222    233344333 334333 23345544433         23344667778888887754221111


Q ss_pred             H------HHHHHHHHH-------HHCCChHHHHHHHHHHHh--cCCCCChhh---------------HHHHHHHHhccC-
Q 038401          160 V------SYSTLLNLY-------VENHKFVEALSVFAEMNE--VNCPLDLTT---------------CNIMIDVYGQLD-  208 (542)
Q Consensus       160 ~------~~~~l~~~~-------~~~g~~~~a~~~~~~~~~--~~~~~~~~~---------------~~~l~~~~~~~~-  208 (542)
                      .      .|..=++..       -+...+-.|.++++++..  .|...+..+               |..+|..-...+ 
T Consensus       173 kLW~DY~~fE~~IN~~tarK~i~e~s~~Ym~AR~~~qel~~lt~GL~r~~~~vp~~~T~~e~~qv~~W~n~I~wEksNpL  252 (656)
T KOG1914|consen  173 KLWKDYEAFEQEINIITARKFIGERSPEYMNARRVYQELQNLTRGLNRNAPAVPPKGTKDEIQQVELWKNWIKWEKSNPL  252 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCChHHHHHHHHHHHHHHHHhcCCc
Confidence            1      121111111       123456677777777643  122111111               322332211111 


Q ss_pred             -----CH--HHHHHHHHHHH-HCCCCCChhHHH-HHH----HHHHhcCc-------HHHHHHHHHHHHhcCCCCcHHHHH
Q 038401          209 -----MA--KDADRLFWSMR-KMGIDPSVVSYN-TLL----RVYGEAEL-------FGEAIHLFRLMQRKEIEQNVVTYN  268 (542)
Q Consensus       209 -----~~--~~a~~~~~~~~-~~~~~~~~~~~~-~ll----~~~~~~~~-------~~~a~~~~~~~~~~~~~~~~~~~~  268 (542)
                           ..  ....-++++.. -.+..|+..... ..+    +.+...|+       .+++..+++.....-...+..+|.
T Consensus       253 ~t~~~~~~~~Rv~yayeQ~ll~l~~~peiWy~~s~yl~~~s~l~~~~~d~~~a~~~t~e~~~~yEr~I~~l~~~~~~Ly~  332 (656)
T KOG1914|consen  253 RTLDGTMLTRRVMYAYEQCLLYLGYHPEIWYDYSMYLIEISDLLTEKGDVPDAKSLTDEAASIYERAIEGLLKENKLLYF  332 (656)
T ss_pred             ccccccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhhHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                 00  11111222221 123333322111 111    12222333       345555665554432222334444


Q ss_pred             HHHHHHH---ccCCHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC-CHHHHHHHHHH
Q 038401          269 TMIKIYG---KSLEHEKATNLMQEMQNRG-IEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEI-DPVLYQTMIVA  343 (542)
Q Consensus       269 ~l~~~~~---~~~~~~~a~~~~~~~~~~~-~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~  343 (542)
                      .+...--   ..+..+.....+++++..- +.| ..+|..++....+...+..|..+|.++.+.+..+ +..+.++++.-
T Consensus       333 ~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~-tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy  411 (656)
T KOG1914|consen  333 ALADYEESRYDDNKEKKVHEIYNKLLKIEDIDL-TLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEY  411 (656)
T ss_pred             HHHhhHHHhcccchhhhhHHHHHHHHhhhccCC-ceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHH
Confidence            4333211   1123555666666665542 233 3567788888788888999999999998877666 66777777775


Q ss_pred             HHHcCCHHHHHHHHHHhcC---CCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcC--HHHHHHHHHHHHhcCCHHH
Q 038401          344 YERVGLVAHAKRLLHELRQ---PNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKD--ISVFGCMIELFSRNKKYAN  418 (542)
Q Consensus       344 ~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~  418 (542)
                      + ..++..-|.++|+.-.+   ..+.-....+..+...++-..+..+|++++..+..++  ...|..++.--..-|+...
T Consensus       412 ~-cskD~~~AfrIFeLGLkkf~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~s  490 (656)
T KOG1914|consen  412 Y-CSKDKETAFRIFELGLKKFGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNS  490 (656)
T ss_pred             H-hcCChhHHHHHHHHHHHhcCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHH
Confidence            5 46788889999887554   2233344557777888888889999999888755443  5788888888888899888


Q ss_pred             HHHHHHHHHh
Q 038401          419 VIEVFEKMRS  428 (542)
Q Consensus       419 A~~~~~~~~~  428 (542)
                      +.++-+++..
T Consensus       491 i~~lekR~~~  500 (656)
T KOG1914|consen  491 ILKLEKRRFT  500 (656)
T ss_pred             HHHHHHHHHH
Confidence            8888877765

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.89  E-value=2.5e-07  Score=76.88  Aligned_cols=144  Identities=9%  Similarity=0.086  Sum_probs=102.6

Q ss_pred             HHHHHHcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHH
Q 038401          341 IVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVI  420 (542)
Q Consensus       341 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  420 (542)
                      +..|...|+++.+....+.+..+..        -+...++.+++...+++.++.. +.+...|..++..|...|++++|+
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~~~~--------~~~~~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A~   93 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLADPLH--------QFASQQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNAL   93 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhCccc--------cccCchhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHH
Confidence            3457888888887555433322110        1123677788888888888764 467888888888888999999999


Q ss_pred             HHHHHHHhCCCCC-CHHHHHHHHHHH-hccCc--HHHHHHHHHHHHHcCCCCchHHH-HHHHHHHhccCChHHHHHHHHH
Q 038401          421 EVFEKMRSAGYFP-DSHIIALVLNSY-GKLRE--FETADDLYSEMQEEGCVFSDQVH-FQMLSLYGARKDFNMLESLFER  495 (542)
Q Consensus       421 ~~~~~~~~~~~~p-~~~~~~~l~~~~-~~~g~--~~~A~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~g~~~~A~~~~~~  495 (542)
                      ..|++..+.  .| +...+..+..++ ...|+  .++|.++++++++.+  |.+... +.++..+...|++++|+..+++
T Consensus        94 ~a~~~Al~l--~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~d--P~~~~al~~LA~~~~~~g~~~~Ai~~~~~  169 (198)
T PRK10370         94 LAYRQALQL--RGENAELYAALATVLYYQAGQHMTPQTREMIDKALALD--ANEVTALMLLASDAFMQADYAQAIELWQK  169 (198)
T ss_pred             HHHHHHHHh--CCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhC--CCChhHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            999988884  45 556777777764 56676  588999999988877  222233 3388888889999999998888


Q ss_pred             Hh
Q 038401          496 LD  497 (542)
Q Consensus       496 ~~  497 (542)
                      +.
T Consensus       170 aL  171 (198)
T PRK10370        170 VL  171 (198)
T ss_pred             HH
Confidence            53

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.88  E-value=9.8e-07  Score=80.91  Aligned_cols=222  Identities=15%  Similarity=0.061  Sum_probs=139.7

Q ss_pred             HHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHH
Q 038401           27 RNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYS  106 (542)
Q Consensus        27 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  106 (542)
                      ..+.+.|++.+|.-.|+...+.++. +...|..|......+++-..|+..+++..+..+. +......|.-.|...|.-.
T Consensus       293 ~~lm~nG~L~~A~LafEAAVkqdP~-haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~-NleaLmaLAVSytNeg~q~  370 (579)
T KOG1125|consen  293 CNLMKNGDLSEAALAFEAAVKQDPQ-HAEAWQKLGITQAENENEQNAISALRRCLELDPT-NLEALMALAVSYTNEGLQN  370 (579)
T ss_pred             HHHHhcCCchHHHHHHHHHHhhChH-HHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCc-cHHHHHHHHHHHhhhhhHH
Confidence            3456777888888888887777544 6778888888888888888888888887776432 5667777777777777777


Q ss_pred             HHHHHHHHhHhCCCCccHhHHHHHH---------HHHhccCcHHHHHHHHHHHH-HcCCCCCHHHHHHHHHHHHHCCChH
Q 038401          107 KAISIFSRLKSSGIVPDLVAYNTMI---------NVFGKAKLFKEARLLIEEMR-EQGVKPDTVSYSTLLNLYVENHKFV  176 (542)
Q Consensus       107 ~a~~~~~~~~~~~~~~~~~~~~~l~---------~~~~~~~~~~~a~~~~~~~~-~~g~~~~~~~~~~l~~~~~~~g~~~  176 (542)
                      .|...++.-+... +|-  .|...-         ..+.....+....++|-++. ..+..+|......|.-.|.-.|+++
T Consensus       371 ~Al~~L~~Wi~~~-p~y--~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efd  447 (579)
T KOG1125|consen  371 QALKMLDKWIRNK-PKY--VHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFD  447 (579)
T ss_pred             HHHHHHHHHHHhC-ccc--hhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHH
Confidence            7777777665432 110  000000         11222223334444444433 3343456666666666677777777


Q ss_pred             HHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCC-hhHHHHHHHHHHhcCcHHHHHHHHHHH
Q 038401          177 EALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPS-VVSYNTLLRVYGEAELFGEAIHLFRLM  255 (542)
Q Consensus       177 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~~  255 (542)
                      +|.+.|+..+... |-|...||.+...++...+.++|+..|.+.++.  .|+ +.+...|.-+|...|.+++|.+.|-..
T Consensus       448 raiDcf~~AL~v~-Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqL--qP~yVR~RyNlgIS~mNlG~ykEA~~hlL~A  524 (579)
T KOG1125|consen  448 RAVDCFEAALQVK-PNDYLLWNRLGATLANGNRSEEAISAYNRALQL--QPGYVRVRYNLGISCMNLGAYKEAVKHLLEA  524 (579)
T ss_pred             HHHHHHHHHHhcC-CchHHHHHHhhHHhcCCcccHHHHHHHHHHHhc--CCCeeeeehhhhhhhhhhhhHHHHHHHHHHH
Confidence            7777777776653 446666777777777777777777777777765  333 334444555667777777777666544


Q ss_pred             H
Q 038401          256 Q  256 (542)
Q Consensus       256 ~  256 (542)
                      +
T Consensus       525 L  525 (579)
T KOG1125|consen  525 L  525 (579)
T ss_pred             H
Confidence            3

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

Probab=98.87  E-value=1.3e-06  Score=87.95  Aligned_cols=224  Identities=11%  Similarity=0.072  Sum_probs=138.8

Q ss_pred             CChhHHHHHHHHHHhcCcHHHHHHHHHHHHhc-CCCC---cHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHH
Q 038401          227 PSVVSYNTLLRVYGEAELFGEAIHLFRLMQRK-EIEQ---NVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITY  302 (542)
Q Consensus       227 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~  302 (542)
                      -+...|-..|......++.+.|.++.++.+.. ++.-   -.-.|.++++.-..-|.-+...++|+++.+..  -....|
T Consensus      1456 NSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqyc--d~~~V~ 1533 (1710)
T KOG1070|consen 1456 NSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYC--DAYTVH 1533 (1710)
T ss_pred             CcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhc--chHHHH
Confidence            34455666666667777777777777776654 1111   12345666665556666667777777766541  123346


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCC-----CCCCHHHHHHHHHH
Q 038401          303 STIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQP-----NTIPRETAITILAR  377 (542)
Q Consensus       303 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~~l~~~~~~  377 (542)
                      ..|...|.+.+..++|.++++.|.+. +.....+|...+..+.+..+-+.|..++.+..+.     ........+.+-.+
T Consensus      1534 ~~L~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEFk 1612 (1710)
T KOG1070|consen 1534 LKLLGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEFK 1612 (1710)
T ss_pred             HHHHHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHhh
Confidence            66677777777777777777777664 2345667777777777777777777777665431     22223334555667


Q ss_pred             hCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH--HHHHHHHHHHhccCcHHHH
Q 038401          378 AGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDS--HIIALVLNSYGKLREFETA  454 (542)
Q Consensus       378 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~--~~~~~l~~~~~~~g~~~~A  454 (542)
                      .|+.+++..+|+..+.. .+.....|+.+++.-.++|+.+.+..+|+++...++.|-.  ..|..++..--+.|+-+.+
T Consensus      1613 ~GDaeRGRtlfEgll~a-yPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~~v 1690 (1710)
T KOG1070|consen 1613 YGDAERGRTLFEGLLSA-YPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEKNV 1690 (1710)
T ss_pred             cCCchhhHHHHHHHHhh-CccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchhhH
Confidence            77777777777777765 3345667777777777777777777777777776666543  3444444433344444433

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.86  E-value=4.3e-07  Score=79.04  Aligned_cols=183  Identities=13%  Similarity=-0.027  Sum_probs=110.4

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCH---HHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCC------H
Q 038401          298 NAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDP---VLYQTMIVAYERVGLVAHAKRLLHELRQPNTIP------R  368 (542)
Q Consensus       298 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~------~  368 (542)
                      ....+..+...+...|+++.|...++++..... .++   ..+..+..++.+.|++++|...++++.+..+..      +
T Consensus        32 ~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~  110 (235)
T TIGR03302        32 PAEELYEEAKEALDSGDYTEAIKYFEALESRYP-FSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAY  110 (235)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHH
Confidence            445566666777778888888888888776531 122   355666677777777877777777765422211      2


Q ss_pred             HHHHHHHHHh--------CCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHH
Q 038401          369 ETAITILARA--------GRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIAL  440 (542)
Q Consensus       369 ~~l~~~~~~~--------g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~  440 (542)
                      ..+..++...        |+++.|.+.++++++..+ .+...+..+.....    ....      .        ......
T Consensus       111 ~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~a~~~~~~----~~~~------~--------~~~~~~  171 (235)
T TIGR03302       111 YLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYP-NSEYAPDAKKRMDY----LRNR------L--------AGKELY  171 (235)
T ss_pred             HHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHCC-CChhHHHHHHHHHH----HHHH------H--------HHHHHH
Confidence            2223333332        556666666666666422 22222222211100    0000      0        001124


Q ss_pred             HHHHHhccCcHHHHHHHHHHHHHcCCCCch--HHHHHHHHHHhccCChHHHHHHHHHHhcCC
Q 038401          441 VLNSYGKLREFETADDLYSEMQEEGCVFSD--QVHFQMLSLYGARKDFNMLESLFERLDSDS  500 (542)
Q Consensus       441 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  500 (542)
                      +...+.+.|++++|...++++.+..+..|.  ...+.++.++...|++++|.+.++.+..++
T Consensus       172 ~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~  233 (235)
T TIGR03302       172 VARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANY  233 (235)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            566788899999999999999987633232  234448999999999999999999886654

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=98.85  E-value=8.1e-07  Score=83.66  Aligned_cols=220  Identities=13%  Similarity=0.110  Sum_probs=172.6

Q ss_pred             CCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 038401          226 DPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTI  305 (542)
Q Consensus       226 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l  305 (542)
                      +|--..-..+...+.+.|-...|..+++...         .|..++.+|...|+..+|..+..+..++  +|++..|..+
T Consensus       395 pp~Wq~q~~laell~slGitksAl~I~Erle---------mw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc~L  463 (777)
T KOG1128|consen  395 PPIWQLQRLLAELLLSLGITKSALVIFERLE---------MWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYCLL  463 (777)
T ss_pred             CCcchHHHHHHHHHHHcchHHHHHHHHHhHH---------HHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHHHh
Confidence            3333444566778889999999999998665         5778899999999999999999888875  8899999999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCC---CCCHHHHHHHHHHhCCHH
Q 038401          306 IAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPN---TIPRETAITILARAGRIE  382 (542)
Q Consensus       306 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~  382 (542)
                      .+......-+++|.++.+.....       .-..+.....+.++++++.+.|+.-...+   ..+|.....+..+.+++.
T Consensus       464 GDv~~d~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~nplq~~~wf~~G~~ALqlek~q  536 (777)
T KOG1128|consen  464 GDVLHDPSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEINPLQLGTWFGLGCAALQLEKEQ  536 (777)
T ss_pred             hhhccChHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcCccchhHHHhccHHHHHHhhhH
Confidence            88877777788888888765432       12222233345789999999998765543   345666667778999999


Q ss_pred             HHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHH
Q 038401          383 EATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQ  462 (542)
Q Consensus       383 ~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  462 (542)
                      .|.+.|...... .+.+...||.+..+|.+.|+..+|...+++..+.+.. +...|...+-...+.|.+++|.+.++++.
T Consensus       537 ~av~aF~rcvtL-~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~~-~w~iWENymlvsvdvge~eda~~A~~rll  614 (777)
T KOG1128|consen  537 AAVKAFHRCVTL-EPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNYQ-HWQIWENYMLVSVDVGEFEDAIKAYHRLL  614 (777)
T ss_pred             HHHHHHHHHhhc-CCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCCC-CCeeeechhhhhhhcccHHHHHHHHHHHH
Confidence            999999999885 3456889999999999999999999999999987633 34556666666779999999999999988


Q ss_pred             HcC
Q 038401          463 EEG  465 (542)
Q Consensus       463 ~~~  465 (542)
                      ...
T Consensus       615 ~~~  617 (777)
T KOG1128|consen  615 DLR  617 (777)
T ss_pred             Hhh
Confidence            754

>PLN02789 farnesyltranstransferase

Probab=98.83  E-value=1e-05  Score=72.42  Aligned_cols=215  Identities=10%  Similarity=0.111  Sum_probs=140.1

Q ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccC-CHHHHHHHHHHHHhCCCCCCHHhHHHHHHHH
Q 038401           21 AYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEG-MFDSAISWLQQMEQDRVSGDLVLYSNLIELA   99 (542)
Q Consensus        21 ~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   99 (542)
                      ++..+-..+...++.++|+.+.+.+++..+. +..+|+....++...| ++++++..++++.+.+++ +..+|+.....+
T Consensus        39 a~~~~ra~l~~~e~serAL~lt~~aI~lnP~-~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npk-nyqaW~~R~~~l  116 (320)
T PLN02789         39 AMDYFRAVYASDERSPRALDLTADVIRLNPG-NYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPK-NYQIWHHRRWLA  116 (320)
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCc-chHHhHHHHHHH
Confidence            4555556666778888899998888886433 5556776666666666 578888888888877544 555676665556


Q ss_pred             HhcCCH--HHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHC---CC
Q 038401          100 RKLSDY--SKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVEN---HK  174 (542)
Q Consensus       100 ~~~~~~--~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~---g~  174 (542)
                      .+.|+.  +.+..+++++.+.. +.+..+|+....++...|+++++++.++++++.+.. +...|+.....+.+.   |.
T Consensus       117 ~~l~~~~~~~el~~~~kal~~d-pkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~-N~sAW~~R~~vl~~~~~l~~  194 (320)
T PLN02789        117 EKLGPDAANKELEFTRKILSLD-AKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVR-NNSAWNQRYFVITRSPLLGG  194 (320)
T ss_pred             HHcCchhhHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCC-chhHHHHHHHHHHhcccccc
Confidence            666653  56777887777664 456777887777777888888888888888876533 556666655554443   22


Q ss_pred             h----HHHHHHHHHHHhcCCCCChhhHHHHHHHHhcc----CCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHh
Q 038401          175 F----VEALSVFAEMNEVNCPLDLTTCNIMIDVYGQL----DMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGE  241 (542)
Q Consensus       175 ~----~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~  241 (542)
                      .    ++.++...++.... |-|...|+-+...+...    +...++...+.+....+ +.+......|+..|+.
T Consensus       195 ~~~~~e~el~y~~~aI~~~-P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~-~~s~~al~~l~d~~~~  267 (320)
T PLN02789        195 LEAMRDSELKYTIDAILAN-PRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKD-SNHVFALSDLLDLLCE  267 (320)
T ss_pred             ccccHHHHHHHHHHHHHhC-CCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhccc-CCcHHHHHHHHHHHHh
Confidence            2    35566665655543 44666676666666552    23345666666655543 3445556666666653

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.82  E-value=3.9e-07  Score=71.59  Aligned_cols=121  Identities=10%  Similarity=0.039  Sum_probs=88.5

Q ss_pred             HHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHH
Q 038401          385 TWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQE  463 (542)
Q Consensus       385 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  463 (542)
                      ...++++++.  .|+  .+..+...+...|++++|...|++++..  .| +...+..++.++...|++++|...|+++.+
T Consensus        13 ~~~~~~al~~--~p~--~~~~~g~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~   86 (144)
T PRK15359         13 EDILKQLLSV--DPE--TVYASGYASWQEGDYSRAVIDFSWLVMA--QPWSWRAHIALAGTWMMLKEYTTAINFYGHALM   86 (144)
T ss_pred             HHHHHHHHHc--CHH--HHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            4556666653  233  3556777888899999999999998874  45 567888888899999999999999999998


Q ss_pred             cCCCCchHHHHH-HHHHHhccCChHHHHHHHHH-HhcCCCCCchhHHHHHHHHH
Q 038401          464 EGCVFSDQVHFQ-MLSLYGARKDFNMLESLFER-LDSDSNINKKELHHVVAGIY  515 (542)
Q Consensus       464 ~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~-~~~~~~~~~~~~~~~l~~~~  515 (542)
                      .+  |.+...+. ++.++...|++++|+..+++ +...|+  ....|...+.+.
T Consensus        87 l~--p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~~p~--~~~~~~~~~~~~  136 (144)
T PRK15359         87 LD--ASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKMSYA--DASWSEIRQNAQ  136 (144)
T ss_pred             cC--CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC--ChHHHHHHHHHH
Confidence            76  23333333 88889999999999999999 444554  345565555544

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.82  E-value=2.2e-06  Score=70.89  Aligned_cols=159  Identities=15%  Similarity=0.088  Sum_probs=121.8

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCC---CHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHH
Q 038401          333 DPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTI---PRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIEL  409 (542)
Q Consensus       333 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~  409 (542)
                      |..+ ..+-..+...|+-+....+.......++.   .....+....+.|++..|...++++... -++|...|+.+.-+
T Consensus        66 d~~i-~~~a~a~~~~G~a~~~l~~~~~~~~~~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l-~p~d~~~~~~lgaa  143 (257)
T COG5010          66 DLSI-AKLATALYLRGDADSSLAVLQKSAIAYPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARL-APTDWEAWNLLGAA  143 (257)
T ss_pred             hHHH-HHHHHHHHhcccccchHHHHhhhhccCcccHHHHHHHHHHHHHhcchHHHHHHHHHHhcc-CCCChhhhhHHHHH
Confidence            3444 45556666777777777777665432222   2333567778889999999999998876 45889999999999


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChH
Q 038401          410 FSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFN  487 (542)
Q Consensus       410 ~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~  487 (542)
                      |.+.|++++|..-|.+..+  +.| +....+.+...+.-.|+.+.|..++.......  +.+..... ++.+....|+++
T Consensus       144 ldq~Gr~~~Ar~ay~qAl~--L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~--~ad~~v~~NLAl~~~~~g~~~  219 (257)
T COG5010         144 LDQLGRFDEARRAYRQALE--LAPNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSP--AADSRVRQNLALVVGLQGDFR  219 (257)
T ss_pred             HHHccChhHHHHHHHHHHH--hccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCC--CCchHHHHHHHHHHhhcCChH
Confidence            9999999999999999998  445 45778888888999999999999999998865  22333333 889999999999


Q ss_pred             HHHHHHHHHh
Q 038401          488 MLESLFERLD  497 (542)
Q Consensus       488 ~A~~~~~~~~  497 (542)
                      +|......-.
T Consensus       220 ~A~~i~~~e~  229 (257)
T COG5010         220 EAEDIAVQEL  229 (257)
T ss_pred             HHHhhccccc
Confidence            9999888744

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.81  E-value=6.4e-05  Score=64.71  Aligned_cols=304  Identities=12%  Similarity=0.039  Sum_probs=203.9

Q ss_pred             CcHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHh-HHHH
Q 038401           17 PSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVL-YSNL   95 (542)
Q Consensus        17 ~~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~-~~~l   95 (542)
                      .++.----+...+...|++.+|+.-|....+-++. +-.++-.-...|...|+-..|+.-+.+.++.  +||-.. -..-
T Consensus        36 advekhlElGk~lla~~Q~sDALt~yHaAve~dp~-~Y~aifrRaT~yLAmGksk~al~Dl~rVlel--KpDF~~ARiQR  112 (504)
T KOG0624|consen   36 ADVEKHLELGKELLARGQLSDALTHYHAAVEGDPN-NYQAIFRRATVYLAMGKSKAALQDLSRVLEL--KPDFMAARIQR  112 (504)
T ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCch-hHHHHHHHHHHHhhhcCCccchhhHHHHHhc--CccHHHHHHHh
Confidence            34444555677788889999999988888775211 2233344445778888888888888888775  555322 2223


Q ss_pred             HHHHHhcCCHHHHHHHHHHhHhCCCCc--cHhH------------HHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHH
Q 038401           96 IELARKLSDYSKAISIFSRLKSSGIVP--DLVA------------YNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVS  161 (542)
Q Consensus        96 ~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~------------~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~  161 (542)
                      ...+.+.|.++.|..=|+.+++.....  ....            ....+..+...|+...|+..+..+.+.. +-|...
T Consensus       113 g~vllK~Gele~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~-~Wda~l  191 (504)
T KOG0624|consen  113 GVVLLKQGELEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQ-PWDASL  191 (504)
T ss_pred             chhhhhcccHHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcC-cchhHH
Confidence            345778999999999999998763211  1111            1223445667889999999999988863 347888


Q ss_pred             HHHHHHHHHHCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhHHHHH------
Q 038401          162 YSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTL------  235 (542)
Q Consensus       162 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l------  235 (542)
                      +..-..+|...|++..|+.-++...+.. ..++.++..+-..+...|+.+.++...++.++.  .||...+-..      
T Consensus       192 ~~~Rakc~i~~~e~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKl--dpdHK~Cf~~YKklkK  268 (504)
T KOG0624|consen  192 RQARAKCYIAEGEPKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAENSLKEIRECLKL--DPDHKLCFPFYKKLKK  268 (504)
T ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHHHHHHHHHHHHcc--CcchhhHHHHHHHHHH
Confidence            8888999999999999988888776653 346677777788888899999998888888876  4554322111      


Q ss_pred             -------HHHHHhcCcHHHHHHHHHHHHhcCCCCcH---HHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCC-HHHHHH
Q 038401          236 -------LRVYGEAELFGEAIHLFRLMQRKEIEQNV---VTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPN-AITYST  304 (542)
Q Consensus       236 -------l~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~-~~~~~~  304 (542)
                             +......+++.++++..+...+..+....   ..+..+-.++...+++.+|++...+.++.  .|+ ..++.-
T Consensus       269 v~K~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~--d~~dv~~l~d  346 (504)
T KOG0624|consen  269 VVKSLESAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDI--DPDDVQVLCD  346 (504)
T ss_pred             HHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHHHHHhc--CchHHHHHHH
Confidence                   11224456666666666666655332122   22334455566677777787777777654  343 667777


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcC
Q 038401          305 IIAIWGKAGKLDRAAMLFQKLRSSG  329 (542)
Q Consensus       305 l~~~~~~~~~~~~a~~~~~~~~~~~  329 (542)
                      -..+|.-...++.|+.-|+...+.+
T Consensus       347 RAeA~l~dE~YD~AI~dye~A~e~n  371 (504)
T KOG0624|consen  347 RAEAYLGDEMYDDAIHDYEKALELN  371 (504)
T ss_pred             HHHHHhhhHHHHHHHHHHHHHHhcC
Confidence            7777777777788887777777653

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.79  E-value=1.8e-06  Score=77.84  Aligned_cols=140  Identities=15%  Similarity=0.073  Sum_probs=101.0

Q ss_pred             HHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHhccCcH
Q 038401          373 TILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPD-SHIIALVLNSYGKLREF  451 (542)
Q Consensus       373 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~  451 (542)
                      ......|.++.|+..++.++.. .+.|+..+....+.+...++..+|.+.+++++.  ..|+ ......+..+|.+.|++
T Consensus       314 ~~~~~~~~~d~A~~~l~~L~~~-~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~--l~P~~~~l~~~~a~all~~g~~  390 (484)
T COG4783         314 LQTYLAGQYDEALKLLQPLIAA-QPDNPYYLELAGDILLEANKAKEAIERLKKALA--LDPNSPLLQLNLAQALLKGGKP  390 (484)
T ss_pred             HHHHHhcccchHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHh--cCCCccHHHHHHHHHHHhcCCh
Confidence            3455668888888888888776 446677777777888888888888888888887  4576 45566777888888888


Q ss_pred             HHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhhcchhhHHHHHHH
Q 038401          452 ETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLFERLDSDSNINKKELHHVVAGIYERANRLNDASRIMNR  530 (542)
Q Consensus       452 ~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  530 (542)
                      ++|+.+++......  |.++..|. |+.+|...|+..+|....                  +..|...|+|++|+..+++
T Consensus       391 ~eai~~L~~~~~~~--p~dp~~w~~LAqay~~~g~~~~a~~A~------------------AE~~~~~G~~~~A~~~l~~  450 (484)
T COG4783         391 QEAIRILNRYLFND--PEDPNGWDLLAQAYAELGNRAEALLAR------------------AEGYALAGRLEQAIIFLMR  450 (484)
T ss_pred             HHHHHHHHHHhhcC--CCCchHHHHHHHHHHHhCchHHHHHHH------------------HHHHHhCCCHHHHHHHHHH
Confidence            88888888888776  44555666 788888888776665433                  3345556677777777766


Q ss_pred             HHhcC
Q 038401          531 MNKRR  535 (542)
Q Consensus       531 ~~~~~  535 (542)
                      ..++.
T Consensus       451 A~~~~  455 (484)
T COG4783         451 ASQQV  455 (484)
T ss_pred             HHHhc
Confidence            66543

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

Probab=98.78  E-value=1.2e-06  Score=88.18  Aligned_cols=198  Identities=13%  Similarity=0.138  Sum_probs=105.6

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHhcC-C-------CCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHH
Q 038401          333 DPVLYQTMIVAYERVGLVAHAKRLLHELRQ-P-------NTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFG  404 (542)
Q Consensus       333 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~-------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  404 (542)
                      +...|...|......++.++|.++.++... .       ....|.+++.....-|.-+...++|+++.+-  -.....|.
T Consensus      1457 SSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqy--cd~~~V~~ 1534 (1710)
T KOG1070|consen 1457 SSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQY--CDAYTVHL 1534 (1710)
T ss_pred             cchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHh--cchHHHHH
Confidence            344455555555555555555555555432 0       1122444444444455555556666666553  22334455


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCch--HHHHH--HHHHH
Q 038401          405 CMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSD--QVHFQ--MLSLY  480 (542)
Q Consensus       405 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~--~~~~~--l~~~~  480 (542)
                      .|...|.+.+.+++|.++++.|.+. +.-....|..++..+.+..+-+.|..+++++++.-   |.  ++-+.  .+..-
T Consensus      1535 ~L~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~l---Pk~eHv~~IskfAqLE 1610 (1710)
T KOG1070|consen 1535 KLLGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKSL---PKQEHVEFISKFAQLE 1610 (1710)
T ss_pred             HHHHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhc---chhhhHHHHHHHHHHH
Confidence            5666666666666666666666553 22344556666666666666666666666666543   32  22121  44455


Q ss_pred             hccCChHHHHHHHHHH-hcCCCCCchhHHHHHHHHHHhhcchhhHHHHHHHHHhcCCCC
Q 038401          481 GARKDFNMLESLFERL-DSDSNINKKELHHVVAGIYERANRLNDASRIMNRMNKRRTFN  538 (542)
Q Consensus       481 ~~~g~~~~A~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  538 (542)
                      .+.|+.+.++.+|+.+ ...|.  ....|...++.=.+.|..+.++.+|+++...++.+
T Consensus      1611 Fk~GDaeRGRtlfEgll~ayPK--RtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~ 1667 (1710)
T KOG1070|consen 1611 FKYGDAERGRTLFEGLLSAYPK--RTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSI 1667 (1710)
T ss_pred             hhcCCchhhHHHHHHHHhhCcc--chhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCCh
Confidence            5566666666666663 32332  23456655665556666666666666666655554

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.78  E-value=1.3e-06  Score=86.25  Aligned_cols=129  Identities=14%  Similarity=0.101  Sum_probs=62.0

Q ss_pred             cCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHH-HHH
Q 038401          398 KDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDS-HIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQV-HFQ  475 (542)
Q Consensus       398 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~-~~~  475 (542)
                      .+...+-.|.....+.|++++|..+++.+.+  +.|+. .....++..+.+.+++++|+..++++....   |+.. ...
T Consensus        84 ~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~--~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~---p~~~~~~~  158 (694)
T PRK15179         84 HTELFQVLVARALEAAHRSDEGLAVWRGIHQ--RFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGG---SSSAREIL  158 (694)
T ss_pred             ccHHHHHHHHHHHHHcCCcHHHHHHHHHHHh--hCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC---CCCHHHHH
Confidence            3344455555555555555555555555554  33432 333444445555555555555555555544   2221 111


Q ss_pred             -HHHHHhccCChHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhhcchhhHHHHHHHHH
Q 038401          476 -MLSLYGARKDFNMLESLFERLDSDSNINKKELHHVVAGIYERANRLNDASRIMNRMN  532 (542)
Q Consensus       476 -l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  532 (542)
                       ++.++.+.|++++|..+|+++.. +++.+..++..++.++...|+.++|...|++..
T Consensus       159 ~~a~~l~~~g~~~~A~~~y~~~~~-~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~  215 (694)
T PRK15179        159 LEAKSWDEIGQSEQADACFERLSR-QHPEFENGYVGWAQSLTRRGALWRARDVLQAGL  215 (694)
T ss_pred             HHHHHHHHhcchHHHHHHHHHHHh-cCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence             44555555555555555555432 222234455555555555555555555555543

>PLN02789 farnesyltranstransferase

Probab=98.78  E-value=8e-06  Score=73.12  Aligned_cols=200  Identities=7%  Similarity=-0.007  Sum_probs=105.1

Q ss_pred             CCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcC-CHHHHHHHHHHhcCCCCCC---HHHHHHHHHHhCC--HHHHHH
Q 038401          313 GKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVG-LVAHAKRLLHELRQPNTIP---RETAITILARAGR--IEEATW  386 (542)
Q Consensus       313 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~---~~~l~~~~~~~g~--~~~A~~  386 (542)
                      +..++|+..+.+++..+ +-+..+|+....++...| ++++++..++++...++..   |..-..++.+.|+  .++++.
T Consensus        51 e~serAL~lt~~aI~ln-P~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npknyqaW~~R~~~l~~l~~~~~~~el~  129 (320)
T PLN02789         51 ERSPRALDLTADVIRLN-PGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPKNYQIWHHRRWLAEKLGPDAANKELE  129 (320)
T ss_pred             CCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCcchHHhHHHHHHHHHcCchhhHHHHH
Confidence            34444444444444432 112233333333333333 3455555555444322222   2222222333343  255667


Q ss_pred             HHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcc---Cc----HHHHHHHHH
Q 038401          387 VFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKL---RE----FETADDLYS  459 (542)
Q Consensus       387 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~---g~----~~~A~~~~~  459 (542)
                      +++++++.. +.+..+|+....++...|+++++++.++++++.+. -|...|+.....+.+.   |.    .++++.+..
T Consensus       130 ~~~kal~~d-pkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~-~N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y~~  207 (320)
T PLN02789        130 FTRKILSLD-AKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDV-RNNSAWNQRYFVITRSPLLGGLEAMRDSELKYTI  207 (320)
T ss_pred             HHHHHHHhC-cccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCC-CchhHHHHHHHHHHhccccccccccHHHHHHHHH
Confidence            777777653 35677777777777777788888888888877542 2445566555544443   22    245677776


Q ss_pred             HHHHcCCCCchHHHHH-HHHHHhc----cCChHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhh
Q 038401          460 EMQEEGCVFSDQVHFQ-MLSLYGA----RKDFNMLESLFERLDSDSNINKKELHHVVAGIYERA  518 (542)
Q Consensus       460 ~~~~~~~~~~~~~~~~-l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  518 (542)
                      +++...  |.+...+. +..++..    .+...+|.+.+.++.. .++....+...|+++|+..
T Consensus       208 ~aI~~~--P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~-~~~~s~~al~~l~d~~~~~  268 (320)
T PLN02789        208 DAILAN--PRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLS-KDSNHVFALSDLLDLLCEG  268 (320)
T ss_pred             HHHHhC--CCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhc-ccCCcHHHHHHHHHHHHhh
Confidence            777665  23333333 5555555    2344567777766433 2223456677777887753

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.75  E-value=6.4e-07  Score=70.79  Aligned_cols=124  Identities=7%  Similarity=0.130  Sum_probs=94.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchH---HHH
Q 038401          402 VFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDS----HIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQ---VHF  474 (542)
Q Consensus       402 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~---~~~  474 (542)
                      .|..++..+ ..++...+...++.+.+..  |+.    .....+...+...|++++|...|+.+.... ..|..   ..+
T Consensus        14 ~y~~~~~~~-~~~~~~~~~~~~~~l~~~~--~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~-~d~~l~~~a~l   89 (145)
T PF09976_consen   14 LYEQALQAL-QAGDPAKAEAAAEQLAKDY--PSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANA-PDPELKPLARL   89 (145)
T ss_pred             HHHHHHHHH-HCCCHHHHHHHHHHHHHHC--CCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC-CCHHHHHHHHH
Confidence            344444444 4788899999999998753  433    344456788889999999999999999976 22221   222


Q ss_pred             HHHHHHhccCChHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhhcchhhHHHHHHHH
Q 038401          475 QMLSLYGARKDFNMLESLFERLDSDSNINKKELHHVVAGIYERANRLNDASRIMNRM  531 (542)
Q Consensus       475 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  531 (542)
                      .++.++...|++++|...++.+...+.  ....+...+++|.+.|++++|+..|++.
T Consensus        90 ~LA~~~~~~~~~d~Al~~L~~~~~~~~--~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen   90 RLARILLQQGQYDEALATLQQIPDEAF--KALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHHHHcCCHHHHHHHHHhccCcch--HHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            388999999999999999988654333  4567889999999999999999999875

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.74  E-value=2.6e-06  Score=70.89  Aligned_cols=95  Identities=9%  Similarity=0.133  Sum_probs=41.2

Q ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHH-HhcCC--HHHHHHHHHHHHhCCCCC-CHHHHHHHHH
Q 038401          368 RETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELF-SRNKK--YANVIEVFEKMRSAGYFP-DSHIIALVLN  443 (542)
Q Consensus       368 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~g~--~~~A~~~~~~~~~~~~~p-~~~~~~~l~~  443 (542)
                      |..+...+...|++++|...|+++.+.. +.+...+..+..++ ...|+  .++|.+++++.++.  .| +...+..++.
T Consensus        76 w~~Lg~~~~~~g~~~~A~~a~~~Al~l~-P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~--dP~~~~al~~LA~  152 (198)
T PRK10370         76 WALLGEYYLWRNDYDNALLAYRQALQLR-GENAELYAALATVLYYQAGQHMTPQTREMIDKALAL--DANEVTALMLLAS  152 (198)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHh--CCCChhHHHHHHH
Confidence            3334444444444444444444444432 12344444444432 33333  24444444444442  12 2344444444


Q ss_pred             HHhccCcHHHHHHHHHHHHHcC
Q 038401          444 SYGKLREFETADDLYSEMQEEG  465 (542)
Q Consensus       444 ~~~~~g~~~~A~~~~~~~~~~~  465 (542)
                      .+.+.|++++|+..|+++++..
T Consensus       153 ~~~~~g~~~~Ai~~~~~aL~l~  174 (198)
T PRK10370        153 DAFMQADYAQAIELWQKVLDLN  174 (198)
T ss_pred             HHHHcCCHHHHHHHHHHHHhhC
Confidence            4444444444444444444443

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.74  E-value=3.3e-05  Score=64.11  Aligned_cols=245  Identities=12%  Similarity=0.092  Sum_probs=139.0

Q ss_pred             hcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 038401          241 EAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAM  320 (542)
Q Consensus       241 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~  320 (542)
                      -.|++..++..-......  +.+...-..+.++|...|.+.....   ++.... .|....+..+......-++.+.-..
T Consensus        20 Y~Gnyq~~ine~~~~~~~--~~~~e~d~y~~raylAlg~~~~~~~---eI~~~~-~~~lqAvr~~a~~~~~e~~~~~~~~   93 (299)
T KOG3081|consen   20 YLGNYQQCINEAEKFSSS--KTDVELDVYMYRAYLALGQYQIVIS---EIKEGK-ATPLQAVRLLAEYLELESNKKSILA   93 (299)
T ss_pred             HhhHHHHHHHHHHhhccc--cchhHHHHHHHHHHHHccccccccc---cccccc-CChHHHHHHHHHHhhCcchhHHHHH
Confidence            345555554444333322  1233333344455555555433221   222211 3333333333333333444333333


Q ss_pred             H-HHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcC
Q 038401          321 L-FQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKD  399 (542)
Q Consensus       321 ~-~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~  399 (542)
                      - .+.+......-+......-...|...|++++|.+.++...  +......-...+.+..+++-|.+.+++|.+.   .+
T Consensus        94 ~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~--~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~i---de  168 (299)
T KOG3081|consen   94 SLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGE--NLEAAALNVQILLKMHRFDLAEKELKKMQQI---DE  168 (299)
T ss_pred             HHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccc--hHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc---ch
Confidence            3 3333333222222222333345677778888877776622  2222222245567778888888888888763   34


Q ss_pred             HHHHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH
Q 038401          400 ISVFGCMIELFSR----NKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ  475 (542)
Q Consensus       400 ~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  475 (542)
                      ..+.+.|..++.+    .+.+.+|.-+|++|-+. ..|+..+.+..+.++...|++++|..+++.++.+..  .++.+..
T Consensus       169 d~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~--~dpetL~  245 (299)
T KOG3081|consen  169 DATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDA--KDPETLA  245 (299)
T ss_pred             HHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccC--CCHHHHH
Confidence            5566666666653    45688899999998763 568889999999999999999999999999998763  3344444


Q ss_pred             -HHHHHhccCChHHH-HHHHHHHhcC
Q 038401          476 -MLSLYGARKDFNML-ESLFERLDSD  499 (542)
Q Consensus       476 -l~~~~~~~g~~~~A-~~~~~~~~~~  499 (542)
                       ++.+-...|...++ .+.+.++...
T Consensus       246 Nliv~a~~~Gkd~~~~~r~l~QLk~~  271 (299)
T KOG3081|consen  246 NLIVLALHLGKDAEVTERNLSQLKLS  271 (299)
T ss_pred             HHHHHHHHhCCChHHHHHHHHHHHhc
Confidence             55555566666555 4777776544

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.73  E-value=5.7e-07  Score=70.65  Aligned_cols=95  Identities=9%  Similarity=-0.049  Sum_probs=79.4

Q ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHh
Q 038401          368 RETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYG  446 (542)
Q Consensus       368 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~  446 (542)
                      +......+...|++++|...|+.++... +.+...|..++.++...|++++|+..|+++...  .| +...+..++.++.
T Consensus        27 ~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l--~p~~~~a~~~lg~~l~  103 (144)
T PRK15359         27 VYASGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALML--DASHPEPVYQTGVCLK  103 (144)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc--CCCCcHHHHHHHHHHH
Confidence            4445566778888888888888888864 457888899999999999999999999999984  35 5688888888999


Q ss_pred             ccCcHHHHHHHHHHHHHcC
Q 038401          447 KLREFETADDLYSEMQEEG  465 (542)
Q Consensus       447 ~~g~~~~A~~~~~~~~~~~  465 (542)
                      ..|+.++|+..|+++++..
T Consensus       104 ~~g~~~eAi~~~~~Al~~~  122 (144)
T PRK15359        104 MMGEPGLAREAFQTAIKMS  122 (144)
T ss_pred             HcCCHHHHHHHHHHHHHhC
Confidence            9999999999999999876

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.69  E-value=0.00027  Score=64.94  Aligned_cols=134  Identities=14%  Similarity=0.139  Sum_probs=88.8

Q ss_pred             CCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHH
Q 038401           51 APDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTM  130 (542)
Q Consensus        51 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  130 (542)
                      +-|..+|+.||+-+..+ .++++.+.++++... ++-.+..|..-+..-....+++....+|.+....  ..+...|...
T Consensus        17 P~di~sw~~lire~qt~-~~~~~R~~YEq~~~~-FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvk--vLnlDLW~lY   92 (656)
T KOG1914|consen   17 PYDIDSWSQLIREAQTQ-PIDKVRETYEQLVNV-FPSSPRAWKLYIERELASKDFESVEKLFSRCLVK--VLNLDLWKLY   92 (656)
T ss_pred             CccHHHHHHHHHHHccC-CHHHHHHHHHHHhcc-CCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH--HhhHhHHHHH
Confidence            34889999999987666 999999999999876 4557788999999999999999999999998865  3456667666


Q ss_pred             HHHHhc-cCcHH----HHHHHHHHHH-HcCCCC-CHHHHHHHHHH---------HHHCCChHHHHHHHHHHHhc
Q 038401          131 INVFGK-AKLFK----EARLLIEEMR-EQGVKP-DTVSYSTLLNL---------YVENHKFVEALSVFAEMNEV  188 (542)
Q Consensus       131 ~~~~~~-~~~~~----~a~~~~~~~~-~~g~~~-~~~~~~~l~~~---------~~~~g~~~~a~~~~~~~~~~  188 (542)
                      ++.-.+ .++..    ...+.|+-.. +.|+.+ +...|+..+..         |..+.+.+...+++.++...
T Consensus        93 l~YVR~~~~~~~~~r~~m~qAy~f~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqral~t  166 (656)
T KOG1914|consen   93 LSYVRETKGKLFGYREKMVQAYDFALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRALVT  166 (656)
T ss_pred             HHHHHHHccCcchHHHHHHHHHHHHHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHhcC
Confidence            654332 22222    2233344333 334333 22334444332         33344556677777777654

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.67  E-value=5.4e-05  Score=62.36  Aligned_cols=184  Identities=15%  Similarity=0.154  Sum_probs=125.7

Q ss_pred             CCHHHHHHHHHHHHHc---C-CCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHH
Q 038401          278 LEHEKATNLMQEMQNR---G-IEPNAI-TYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAH  352 (542)
Q Consensus       278 ~~~~~a~~~~~~~~~~---~-~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  352 (542)
                      .+.++..+++.++...   | ..++.. .|..++.+....|+.+.|...++.+... ++.+..+-..-...+...|.+++
T Consensus        26 rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~-fp~S~RV~~lkam~lEa~~~~~~  104 (289)
T KOG3060|consen   26 RNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDR-FPGSKRVGKLKAMLLEATGNYKE  104 (289)
T ss_pred             cCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHh-CCCChhHHHHHHHHHHHhhchhh
Confidence            4566666666666432   3 445544 3556666667778888888888887765 24344443333334566788888


Q ss_pred             HHHHHHHhcCCCCCCH---HHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 038401          353 AKRLLHELRQPNTIPR---ETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSA  429 (542)
Q Consensus       353 a~~~~~~~~~~~~~~~---~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  429 (542)
                      |.++++.+.+.++...   ..=+-+....|+.-+|++-+....+. +..|...|..+.+.|...|++..|.-.+++++- 
T Consensus       105 A~e~y~~lL~ddpt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll-  182 (289)
T KOG3060|consen  105 AIEYYESLLEDDPTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEELLL-  182 (289)
T ss_pred             HHHHHHHHhccCcchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHH-
Confidence            8888888776554332   22244455667777888877777776 668999999999999999999999999999987 


Q ss_pred             CCCCC-HHHHHHHHHHHhc---cCcHHHHHHHHHHHHHcC
Q 038401          430 GYFPD-SHIIALVLNSYGK---LREFETADDLYSEMQEEG  465 (542)
Q Consensus       430 ~~~p~-~~~~~~l~~~~~~---~g~~~~A~~~~~~~~~~~  465 (542)
                       +.|. +..+..+...+.-   ..+.+-|+++|.++++..
T Consensus       183 -~~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~  221 (289)
T KOG3060|consen  183 -IQPFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLN  221 (289)
T ss_pred             -cCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhC
Confidence             5574 4455556655543   335778999999999876

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.63  E-value=7.1e-05  Score=62.19  Aligned_cols=133  Identities=15%  Similarity=0.210  Sum_probs=68.6

Q ss_pred             HHHHHHHCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHh---
Q 038401          165 LLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGE---  241 (542)
Q Consensus       165 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~---  241 (542)
                      -...|++.|++++|++.++...      +......=+..+.+..+++-|.+.++.|.+.   .+..|.+.|..++.+   
T Consensus       114 aa~i~~~~~~~deAl~~~~~~~------~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~i---ded~tLtQLA~awv~la~  184 (299)
T KOG3081|consen  114 AAIIYMHDGDFDEALKALHLGE------NLEAAALNVQILLKMHRFDLAEKELKKMQQI---DEDATLTQLAQAWVKLAT  184 (299)
T ss_pred             hhHHhhcCCChHHHHHHHhccc------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc---chHHHHHHHHHHHHHHhc
Confidence            3445566666666666655411      2222222233344555566666666666543   244455555554432   


Q ss_pred             -cCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 038401          242 -AELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAI  308 (542)
Q Consensus       242 -~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~  308 (542)
                       .+.+.+|.-+|++|.++ .+|+..+.+....++...|++++|..+++...... .-++.+...++.+
T Consensus       185 ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd-~~dpetL~Nliv~  250 (299)
T KOG3081|consen  185 GGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKD-AKDPETLANLIVL  250 (299)
T ss_pred             cchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhcc-CCCHHHHHHHHHH
Confidence             23455666666666553 24555566666666666666666666666665543 2234444444333

>PF12854 PPR_1: PPR repeat

Probab=98.62  E-value=5.6e-08  Score=53.87  Aligned_cols=32  Identities=34%  Similarity=0.548  Sum_probs=23.0

Q ss_pred             CCCCcHHHHHHHHHHHHHhcCHHHHHHHHHHH
Q 038401           14 RYSPSVFAYNVVLRNVLRAKQWELAHGLFDEM   45 (542)
Q Consensus        14 ~~~~~~~~~~~ll~~~~~~~~~~~A~~~~~~~   45 (542)
                      |+.||+.+|+++|.++++.|++++|.++|++|
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            56677777777777777777777777777766

>PF12854 PPR_1: PPR repeat

Probab=98.62  E-value=5.7e-08  Score=53.84  Aligned_cols=32  Identities=41%  Similarity=0.650  Sum_probs=22.8

Q ss_pred             CCCCCHHhHHHHHHHHhccCCHHHHHHHHHHH
Q 038401           49 GIAPDRYTYSTLITCFGKEGMFDSAISWLQQM   80 (542)
Q Consensus        49 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~   80 (542)
                      |+.||..+|+.+|.+|++.|++++|.++|++|
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            56677777777777777777777777777666

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.58  E-value=1.4e-05  Score=66.26  Aligned_cols=157  Identities=16%  Similarity=0.109  Sum_probs=127.4

Q ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcc
Q 038401          369 ETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKL  448 (542)
Q Consensus       369 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  448 (542)
                      ......+...|+-+.+..+..+.... .+.|......++....+.|++..|+..++++... -++|...|+.+.-+|.+.
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~-~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l-~p~d~~~~~~lgaaldq~  147 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIA-YPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARL-APTDWEAWNLLGAALDQL  147 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhcc-CcccHHHHHHHHHHHHHhcchHHHHHHHHHHhcc-CCCChhhhhHHHHHHHHc
Confidence            34456677788888888888886554 4567778888999999999999999999999883 245789999999999999


Q ss_pred             CcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhhcchhhHHHH
Q 038401          449 REFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLFERLDSDSNINKKELHHVVAGIYERANRLNDASRI  527 (542)
Q Consensus       449 g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  527 (542)
                      |+.++|..-|.++.+..+  .++.... ++-.+.-.|+++.|..++......+.. +..+-..++.+....|++++|..+
T Consensus       148 Gr~~~Ar~ay~qAl~L~~--~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~a-d~~v~~NLAl~~~~~g~~~~A~~i  224 (257)
T COG5010         148 GRFDEARRAYRQALELAP--NEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAA-DSRVRQNLALVVGLQGDFREAEDI  224 (257)
T ss_pred             cChhHHHHHHHHHHHhcc--CCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCC-chHHHHHHHHHHhhcCChHHHHhh
Confidence            999999999999999862  3333444 888888999999999999997666543 346677888899999999999887


Q ss_pred             HHH
Q 038401          528 MNR  530 (542)
Q Consensus       528 ~~~  530 (542)
                      ...
T Consensus       225 ~~~  227 (257)
T COG5010         225 AVQ  227 (257)
T ss_pred             ccc
Confidence            654

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.57  E-value=0.001  Score=65.11  Aligned_cols=478  Identities=12%  Similarity=0.127  Sum_probs=262.0

Q ss_pred             HHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHH--HhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHH
Q 038401           29 VLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITC--FGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYS  106 (542)
Q Consensus        29 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  106 (542)
                      ....+++..|.+-.+.+.++.  |+. .|..++.+  +.+.|+.++|..+++.....+.. |..|...+-..|...+..+
T Consensus        19 ~ld~~qfkkal~~~~kllkk~--Pn~-~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d   94 (932)
T KOG2053|consen   19 LLDSSQFKKALAKLGKLLKKH--PNA-LYAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLD   94 (932)
T ss_pred             HhhhHHHHHHHHHHHHHHHHC--CCc-HHHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhh
Confidence            345678999999998888763  343 23444443  45789999999888888766555 8889999999999999999


Q ss_pred             HHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCC-C---------hH
Q 038401          107 KAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENH-K---------FV  176 (542)
Q Consensus       107 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g-~---------~~  176 (542)
                      +|..+|++....  .|+......+..+|.+.+++.+-.+.--++-+. .+-+...+=++++.+...- .         ..
T Consensus        95 ~~~~~Ye~~~~~--~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~-~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~  171 (932)
T KOG2053|consen   95 EAVHLYERANQK--YPSEELLYHLFMAYVREKSYKKQQKAALQLYKN-FPKRAYYFWSVISLILQSIFSENELLDPILLA  171 (932)
T ss_pred             HHHHHHHHHHhh--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCcccchHHHHHHHHHHhccCCcccccchhHH
Confidence            999999999876  677777788888888888876554444443332 1223333333444433321 1         22


Q ss_pred             HHHHHHHHHHhcC-CCCChhhHHHHHHHHhccCCHHHHHHHHHHH-HHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHH
Q 038401          177 EALSVFAEMNEVN-CPLDLTTCNIMIDVYGQLDMAKDADRLFWSM-RKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRL  254 (542)
Q Consensus       177 ~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~  254 (542)
                      -|.+.++.+.+.+ .-.+..-...........|++++|.+++..- .+.-...+...-+.-+..+...+++.+..++-.+
T Consensus       172 LA~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~  251 (932)
T KOG2053|consen  172 LAEKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSR  251 (932)
T ss_pred             HHHHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHH
Confidence            3555666665543 1112222223334455678899999988433 3332233444455667777888899999888888


Q ss_pred             HHhcCCCCcHHHHHHHHHHHH----------------ccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHH
Q 038401          255 MQRKEIEQNVVTYNTMIKIYG----------------KSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRA  318 (542)
Q Consensus       255 ~~~~~~~~~~~~~~~l~~~~~----------------~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a  318 (542)
                      +...+.  |.  |...++.+.                ..+..+...+...+.......-.....--+..-+..-|+.+++
T Consensus       252 Ll~k~~--Dd--y~~~~~sv~klLe~~~~~~a~~~~s~~~~l~~~~ek~~~~i~~~~Rgp~LA~lel~kr~~~~gd~ee~  327 (932)
T KOG2053|consen  252 LLEKGN--DD--YKIYTDSVFKLLELLNKEPAEAAHSLSKSLDECIEKAQKNIGSKSRGPYLARLELDKRYKLIGDSEEM  327 (932)
T ss_pred             HHHhCC--cc--hHHHHHHHHHHHHhcccccchhhhhhhhhHHHHHHHHHHhhcccccCcHHHHHHHHHHhcccCChHHH
Confidence            888752  32  322222111                1122223333333322221111111122222223355777776


Q ss_pred             HHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCH---------HHHHHHHHHhCCH-----HHH
Q 038401          319 AMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPR---------ETAITILARAGRI-----EEA  384 (542)
Q Consensus       319 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---------~~l~~~~~~~g~~-----~~A  384 (542)
                      .-.|-+-...  .|   .+..=+..|...=..++-..++......+....         ...+......|.+     +.-
T Consensus       328 ~~~y~~kfg~--kp---cc~~Dl~~yl~~l~~~q~~~l~~~l~~~~~~~s~~~k~l~~h~c~l~~~rl~G~~~~l~ad~i  402 (932)
T KOG2053|consen  328 LSYYFKKFGD--KP---CCAIDLNHYLGHLNIDQLKSLMSKLVLADDDSSGDEKVLQQHLCVLLLLRLLGLYEKLPADSI  402 (932)
T ss_pred             HHHHHHHhCC--Cc---HhHhhHHHhhccCCHHHHHHHHHHhhccCCcchhhHHHHHHHHHHHHHHHHhhccccCChHHH
Confidence            5544332211  11   111112222222223333333333322111110         0111111222321     222


Q ss_pred             HHHHHHHH---HcC------CCcC---------HHHHHHHHHHHHhcCCHH---HHHHHHHHHHhCCCCC-CHHHHHHHH
Q 038401          385 TWVFRQAF---DAG------EVKD---------ISVFGCMIELFSRNKKYA---NVIEVFEKMRSAGYFP-DSHIIALVL  442 (542)
Q Consensus       385 ~~~~~~~~---~~~------~~~~---------~~~~~~l~~~~~~~g~~~---~A~~~~~~~~~~~~~p-~~~~~~~l~  442 (542)
                      ..++++..   +.|      .-|+         ..+-+.|++.+.+.++..   +|+-+++.....  .| |..+-..++
T Consensus       403 ~a~~~kl~~~ye~gls~~K~ll~TE~~~g~~~llLav~~Lid~~rktnd~~~l~eaI~LLE~glt~--s~hnf~~KLlLi  480 (932)
T KOG2053|consen  403 LAYVRKLKLTYEKGLSLSKDLLPTEYSFGDELLLLAVNHLIDLWRKTNDLTDLFEAITLLENGLTK--SPHNFQTKLLLI  480 (932)
T ss_pred             HHHHHHHHHHHhccccccccccccccccHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhc--CCccHHHHHHHH
Confidence            23332222   222      1111         124566777888777644   566666666653  34 445556788


Q ss_pred             HHHhccCcHHHHHHHHHHHHHcCCCCchHHHHHHHHHHhccCChHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhhcchh
Q 038401          443 NSYGKLREFETADDLYSEMQEEGCVFSDQVHFQMLSLYGARKDFNMLESLFERLDSDSNINKKELHHVVAGIYERANRLN  522 (542)
Q Consensus       443 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  522 (542)
                      +.|.-.|-...|.+.|..+--++ +..+...+.+...+...|++.-+...+....+-.+..-.+.-..++.+| +.|.|.
T Consensus       481 riY~~lGa~p~a~~~y~tLdIK~-IQ~DTlgh~~~~~~~t~g~~~~~s~~~~~~lkfy~~~~kE~~eyI~~AY-r~g~yS  558 (932)
T KOG2053|consen  481 RIYSYLGAFPDAYELYKTLDIKN-IQTDTLGHLIFRRAETSGRSSFASNTFNEHLKFYDSSLKETPEYIALAY-RRGAYS  558 (932)
T ss_pred             HHHHHhcCChhHHHHHHhcchHH-hhhccchHHHHHHHHhcccchhHHHHHHHHHHHHhhhhhhhHHHHHHHH-HcCchh
Confidence            88888899999999998876555 4456666667777888889999998888843333322223333334444 666665


Q ss_pred             hHHH
Q 038401          523 DASR  526 (542)
Q Consensus       523 ~A~~  526 (542)
                      +-.+
T Consensus       559 kI~e  562 (932)
T KOG2053|consen  559 KIPE  562 (932)
T ss_pred             hhHH
Confidence            5443

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.54  E-value=2e-06  Score=67.39  Aligned_cols=113  Identities=10%  Similarity=0.056  Sum_probs=79.5

Q ss_pred             HHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcC
Q 038401          386 WVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEG  465 (542)
Q Consensus       386 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  465 (542)
                      +.+++++... +.+......++..+...|++++|...|+++...+ +.+...+..+..++...|++++|..+++++.+.+
T Consensus         4 ~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~   81 (135)
T TIGR02552         4 ATLKDLLGLD-SEQLEQIYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD   81 (135)
T ss_pred             hhHHHHHcCC-hhhHHHHHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            3566666642 2345556677777888888888888888887743 2256777788888888888888888888888766


Q ss_pred             CCCchHHHHHHHHHHhccCChHHHHHHHHHH-hcCCC
Q 038401          466 CVFSDQVHFQMLSLYGARKDFNMLESLFERL-DSDSN  501 (542)
Q Consensus       466 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~  501 (542)
                      + .+....+.++.++...|++++|...+++. ...|+
T Consensus        82 p-~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~  117 (135)
T TIGR02552        82 P-DDPRPYFHAAECLLALGEPESALKALDLAIEICGE  117 (135)
T ss_pred             C-CChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccc
Confidence            1 12233333788888888888888888884 43443

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.54  E-value=0.00014  Score=73.16  Aligned_cols=219  Identities=9%  Similarity=0.098  Sum_probs=110.6

Q ss_pred             CHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHH
Q 038401           53 DRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMIN  132 (542)
Q Consensus        53 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  132 (542)
                      +...|..|+..+...+++++|.++.+...+..+. ....|-.+...+.+.++.+.+..+                 .++.
T Consensus        30 n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~P~-~i~~yy~~G~l~~q~~~~~~~~lv-----------------~~l~   91 (906)
T PRK14720         30 KFKELDDLIDAYKSENLTDEAKDICEEHLKEHKK-SISALYISGILSLSRRPLNDSNLL-----------------NLID   91 (906)
T ss_pred             hHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCc-ceehHHHHHHHHHhhcchhhhhhh-----------------hhhh
Confidence            3456666666666677777777776655554211 222333333344444443333222                 2223


Q ss_pred             HHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHH
Q 038401          133 VFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKD  212 (542)
Q Consensus       133 ~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  212 (542)
                      ......++.-...+...+...  .-+...+..+..+|-+.|+.+++..+++++.+.+ +-|+.+.|-+...|... +.++
T Consensus        92 ~~~~~~~~~~ve~~~~~i~~~--~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~K  167 (906)
T PRK14720         92 SFSQNLKWAIVEHICDKILLY--GENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEK  167 (906)
T ss_pred             hcccccchhHHHHHHHHHHhh--hhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHH
Confidence            333333333333333344432  1233455666666666666667766666666665 44666666666666666 6666


Q ss_pred             HHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhc-------------------CCCCcHHHHHHHHHH
Q 038401          213 ADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRK-------------------EIEQNVVTYNTMIKI  273 (542)
Q Consensus       213 a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-------------------~~~~~~~~~~~l~~~  273 (542)
                      |..++.+....               +...+++..+.++|.++...                   +...-..++-.+...
T Consensus       168 A~~m~~KAV~~---------------~i~~kq~~~~~e~W~k~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~  232 (906)
T PRK14720        168 AITYLKKAIYR---------------FIKKKQYVGIEEIWSKLVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEP  232 (906)
T ss_pred             HHHHHHHHHHH---------------HHhhhcchHHHHHHHHHHhcCcccchHHHHHHHHHHhhhccchhHHHHHHHHHH
Confidence            66666655532               33333444444444444433                   112223334444455


Q ss_pred             HHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 038401          274 YGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIW  309 (542)
Q Consensus       274 ~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  309 (542)
                      |-..++++++..+++.+.+.. +-|.....-++.+|
T Consensus       233 y~~~~~~~~~i~iLK~iL~~~-~~n~~a~~~l~~~y  267 (906)
T PRK14720        233 YKALEDWDEVIYILKKILEHD-NKNNKAREELIRFY  267 (906)
T ss_pred             HhhhhhhhHHHHHHHHHHhcC-CcchhhHHHHHHHH
Confidence            555566666666666666552 22334444444444

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.52  E-value=0.00048  Score=62.72  Aligned_cols=139  Identities=19%  Similarity=0.171  Sum_probs=95.5

Q ss_pred             HHHhcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCCHH
Q 038401          238 VYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPN-AITYSTIIAIWGKAGKLD  316 (542)
Q Consensus       238 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~  316 (542)
                      .+...|++++|+..++.+.... +.|...+......+.+.|+.++|.+.++++...  .|+ ....-.+..++.+.|++.
T Consensus       315 ~~~~~~~~d~A~~~l~~L~~~~-P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all~~g~~~  391 (484)
T COG4783         315 QTYLAGQYDEALKLLQPLIAAQ-PDNPYYLELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALLKGGKPQ  391 (484)
T ss_pred             HHHHhcccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHHhcCChH
Confidence            3446677777777777776652 345555666667777777777777777777766  455 445556667777777777


Q ss_pred             HHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHc
Q 038401          317 RAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFRQAFDA  394 (542)
Q Consensus       317 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  394 (542)
                      +|..+++...... +.|+..|..|.++|...|+..++.....              ..+...|+++.|...+..+.+.
T Consensus       392 eai~~L~~~~~~~-p~dp~~w~~LAqay~~~g~~~~a~~A~A--------------E~~~~~G~~~~A~~~l~~A~~~  454 (484)
T COG4783         392 EAIRILNRYLFND-PEDPNGWDLLAQAYAELGNRAEALLARA--------------EGYALAGRLEQAIIFLMRASQQ  454 (484)
T ss_pred             HHHHHHHHHhhcC-CCCchHHHHHHHHHHHhCchHHHHHHHH--------------HHHHhCCCHHHHHHHHHHHHHh
Confidence            7777777776653 5577777777777777777777765443              3456677777777777777665

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.52  E-value=9.5e-05  Score=74.29  Aligned_cols=233  Identities=10%  Similarity=0.037  Sum_probs=119.1

Q ss_pred             CcHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCH-HhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHH
Q 038401           17 PSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDR-YTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNL   95 (542)
Q Consensus        17 ~~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l   95 (542)
                      .+...+..|+..+.+.+++++|.++.+...+..  |+. ..|-.+...+.+.++.+.+.-+  .+...            
T Consensus        29 ~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~--P~~i~~yy~~G~l~~q~~~~~~~~lv--~~l~~------------   92 (906)
T PRK14720         29 SKFKELDDLIDAYKSENLTDEAKDICEEHLKEH--KKSISALYISGILSLSRRPLNDSNLL--NLIDS------------   92 (906)
T ss_pred             chHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC--CcceehHHHHHHHHHhhcchhhhhhh--hhhhh------------
Confidence            345689999999999999999999999777753  333 3444444466677776666555  33222            


Q ss_pred             HHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCh
Q 038401           96 IELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKF  175 (542)
Q Consensus        96 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~  175 (542)
                         .....++.....+...+...  .-+...+..+..+|-+.|+.+++..+++++.+.. +-+....+.+...|... +.
T Consensus        93 ---~~~~~~~~~ve~~~~~i~~~--~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL  165 (906)
T PRK14720         93 ---FSQNLKWAIVEHICDKILLY--GENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DK  165 (906)
T ss_pred             ---cccccchhHHHHHHHHHHhh--hhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hH
Confidence               11111221111122222221  1122344444444445555555555555544443 22444444444444444 44


Q ss_pred             HHHHHHHHHHHhcCCCCChhhHHHHHHHH-----hccCCHHHHHHHHHHHHHC-CCCCChhHHHHHHHHHHhcCcHHHHH
Q 038401          176 VEALSVFAEMNEVNCPLDLTTCNIMIDVY-----GQLDMAKDADRLFWSMRKM-GIDPSVVSYNTLLRVYGEAELFGEAI  249 (542)
Q Consensus       176 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~-----~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~ll~~~~~~~~~~~a~  249 (542)
                      ++|.+++.+....-+  +..-|+.+...+     ....+.+.-..+.+.+... |...-..++-.+-..|...++++++.
T Consensus       166 ~KA~~m~~KAV~~~i--~~kq~~~~~e~W~k~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i  243 (906)
T PRK14720        166 EKAITYLKKAIYRFI--KKKQYVGIEEIWSKLVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDEVI  243 (906)
T ss_pred             HHHHHHHHHHHHHHH--hhhcchHHHHHHHHHHhcCcccchHHHHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHHH
Confidence            555444444433210  011111111100     1112233333444444432 33334455666667777788888888


Q ss_pred             HHHHHHHhcCCCCcHHHHHHHHHHHH
Q 038401          250 HLFRLMQRKEIEQNVVTYNTMIKIYG  275 (542)
Q Consensus       250 ~~~~~~~~~~~~~~~~~~~~l~~~~~  275 (542)
                      .+++.+.+.. +.|......++.+|.
T Consensus       244 ~iLK~iL~~~-~~n~~a~~~l~~~y~  268 (906)
T PRK14720        244 YILKKILEHD-NKNNKAREELIRFYK  268 (906)
T ss_pred             HHHHHHHhcC-CcchhhHHHHHHHHH
Confidence            8888888775 335566666766664

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.50  E-value=5e-05  Score=62.58  Aligned_cols=183  Identities=15%  Similarity=0.182  Sum_probs=137.0

Q ss_pred             hcCCHHHHHHHHHHHHh---cC-CCCCHH-HHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHH--H-HHHHHHhCCHH
Q 038401          311 KAGKLDRAAMLFQKLRS---SG-VEIDPV-LYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRET--A-ITILARAGRIE  382 (542)
Q Consensus       311 ~~~~~~~a~~~~~~~~~---~~-~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--l-~~~~~~~g~~~  382 (542)
                      ...+.++..+++..+..   .| ..++.. ++..++-+....|+.+.|...++.+...-+.+...  + ...+-..|+++
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            45688999999988864   23 444543 34455666778899999999999987644433332  2 34456789999


Q ss_pred             HHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHH
Q 038401          383 EATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQ  462 (542)
Q Consensus       383 ~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  462 (542)
                      +|+++++..++.+ +.|..++..-+-..-.+|+.-+|++-+...++. +..|...|..+...|...|++++|.-++++++
T Consensus       104 ~A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~l  181 (289)
T KOG3060|consen  104 EAIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEELL  181 (289)
T ss_pred             hHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHH
Confidence            9999999999875 467777777777777888888999988888873 55688999999999999999999999999999


Q ss_pred             HcCCCCchHHHHH-HHHHHhccC---ChHHHHHHHHHHh
Q 038401          463 EEGCVFSDQVHFQ-MLSLYGARK---DFNMLESLFERLD  497 (542)
Q Consensus       463 ~~~~~~~~~~~~~-l~~~~~~~g---~~~~A~~~~~~~~  497 (542)
                      -..  |-++..+. ++.++.-.|   +..-|.+++.+..
T Consensus       182 l~~--P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~al  218 (289)
T KOG3060|consen  182 LIQ--PFNPLYFQRLAEVLYTQGGAENLELARKYYERAL  218 (289)
T ss_pred             HcC--CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence            865  33444444 776665544   5777888998843

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=98.50  E-value=3.9e-07  Score=64.18  Aligned_cols=82  Identities=13%  Similarity=0.255  Sum_probs=52.8

Q ss_pred             cCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhhcchhhHHH
Q 038401          448 LREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLFERLDSDSNINKKELHHVVAGIYERANRLNDASR  526 (542)
Q Consensus       448 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  526 (542)
                      .|++++|+.+++++.+..+..++...+. ++.++.+.|++++|+.++++...++.  +......++.+|...|++++|++
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~~~~~~~--~~~~~~l~a~~~~~l~~y~eAi~   79 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQKLKLDPS--NPDIHYLLARCLLKLGKYEEAIK   79 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHCHTHHHC--HHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHHhCCCCC--CHHHHHHHHHHHHHhCCHHHHHH
Confidence            4677888888888877652222333333 67888888888888888877333332  33444456888888888888888


Q ss_pred             HHHHH
Q 038401          527 IMNRM  531 (542)
Q Consensus       527 ~~~~~  531 (542)
                      .+++.
T Consensus        80 ~l~~~   84 (84)
T PF12895_consen   80 ALEKA   84 (84)
T ss_dssp             HHHHH
T ss_pred             HHhcC
Confidence            87763

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.49  E-value=9.7e-06  Score=63.47  Aligned_cols=91  Identities=16%  Similarity=0.051  Sum_probs=42.6

Q ss_pred             HHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHH
Q 038401          373 TILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFE  452 (542)
Q Consensus       373 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~  452 (542)
                      ..+...|++++|.+.++.+.+.+ +.+...|..+..++...|++++|...+++..+.+ +.+...+..+..++...|+++
T Consensus        25 ~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~g~~~  102 (135)
T TIGR02552        25 YNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAECLLALGEPE  102 (135)
T ss_pred             HHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHHcCCHH
Confidence            33444455555555555554432 2344444445555555555555555555544422 112344444444555555555


Q ss_pred             HHHHHHHHHHHcC
Q 038401          453 TADDLYSEMQEEG  465 (542)
Q Consensus       453 ~A~~~~~~~~~~~  465 (542)
                      +|...|+++++..
T Consensus       103 ~A~~~~~~al~~~  115 (135)
T TIGR02552       103 SALKALDLAIEIC  115 (135)
T ss_pred             HHHHHHHHHHHhc
Confidence            5555555555443

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.47  E-value=3.5e-05  Score=76.40  Aligned_cols=133  Identities=11%  Similarity=0.005  Sum_probs=89.1

Q ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCC---HHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHH
Q 038401          330 VEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIP---RETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCM  406 (542)
Q Consensus       330 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l  406 (542)
                      .+.+...+..|.....+.|.+++|..+++...+..+..   ...++..+.+.+++++|+..+++.++.. +.+......+
T Consensus        82 ~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~-p~~~~~~~~~  160 (694)
T PRK15179         82 YPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGG-SSSAREILLE  160 (694)
T ss_pred             ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC-CCCHHHHHHH
Confidence            34456777777777777777777777777766533332   3345666777777777777777777653 3456666667


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHHHHcC
Q 038401          407 IELFSRNKKYANVIEVFEKMRSAGYFPD-SHIIALVLNSYGKLREFETADDLYSEMQEEG  465 (542)
Q Consensus       407 ~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  465 (542)
                      ..++.+.|++++|..+|+++...  .|+ ..++..+..++...|+.++|...|+++.+..
T Consensus       161 a~~l~~~g~~~~A~~~y~~~~~~--~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~  218 (694)
T PRK15179        161 AKSWDEIGQSEQADACFERLSRQ--HPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAI  218 (694)
T ss_pred             HHHHHHhcchHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhh
Confidence            77777777777777777777762  243 4666677777777777777777777777654

>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=98.45  E-value=8.3e-06  Score=74.47  Aligned_cols=122  Identities=18%  Similarity=0.186  Sum_probs=83.8

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHH
Q 038401          338 QTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYA  417 (542)
Q Consensus       338 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  417 (542)
                      ..++..+...++++.|..+++++.+.++.....++..+...++-.+|.+++.+.++. .+.+...+..-...+...++++
T Consensus       173 ~~Ll~~l~~t~~~~~ai~lle~L~~~~pev~~~LA~v~l~~~~E~~AI~ll~~aL~~-~p~d~~LL~~Qa~fLl~k~~~~  251 (395)
T PF09295_consen  173 DTLLKYLSLTQRYDEAIELLEKLRERDPEVAVLLARVYLLMNEEVEAIRLLNEALKE-NPQDSELLNLQAEFLLSKKKYE  251 (395)
T ss_pred             HHHHHHHhhcccHHHHHHHHHHHHhcCCcHHHHHHHHHHhcCcHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHhcCCHH
Confidence            344445555666666666666666666665555666666666677777777777765 3345666666677777788888


Q ss_pred             HHHHHHHHHHhCCCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHHH
Q 038401          418 NVIEVFEKMRSAGYFPDS-HIIALVLNSYGKLREFETADDLYSEMQ  462 (542)
Q Consensus       418 ~A~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~  462 (542)
                      .|+++.+++.+  ..|+. .+|..|..+|.+.|++++|+..++.+.
T Consensus       252 lAL~iAk~av~--lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  252 LALEIAKKAVE--LSPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             HHHHHHHHHHH--hCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            88888888877  44644 677788888888888888887777655

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=98.41  E-value=1.6e-05  Score=72.70  Aligned_cols=120  Identities=18%  Similarity=0.267  Sum_probs=57.9

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhcc
Q 038401          405 CMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGAR  483 (542)
Q Consensus       405 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~  483 (542)
                      .|+..+...++++.|+.+|+++.+..  |+.  ...+++.+...++-.+|.+++++.+...  |.+..... -+..+...
T Consensus       174 ~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  174 TLLKYLSLTQRYDEAIELLEKLRERD--PEV--AVLLARVYLLMNEEVEAIRLLNEALKEN--PQDSELLNLQAEFLLSK  247 (395)
T ss_pred             HHHHHHhhcccHHHHHHHHHHHHhcC--CcH--HHHHHHHHHhcCcHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHhc
Confidence            33444444555555555555555532  332  2224444444555555555555555443  11222222 34445555


Q ss_pred             CChHHHHHHHHHH-hcCCCCCchhHHHHHHHHHHhhcchhhHHHHHHHHH
Q 038401          484 KDFNMLESLFERL-DSDSNINKKELHHVVAGIYERANRLNDASRIMNRMN  532 (542)
Q Consensus       484 g~~~~A~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  532 (542)
                      |+++.|.++.++. ...|+  .-..|..|+.+|...|++++|+..+..++
T Consensus       248 ~~~~lAL~iAk~av~lsP~--~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  248 KKYELALEIAKKAVELSPS--EFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             CCHHHHHHHHHHHHHhCch--hHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            5555555555553 22222  33455555555555555555555555544

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.26  E-value=2.7e-05  Score=59.39  Aligned_cols=91  Identities=10%  Similarity=0.093  Sum_probs=41.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCch--HHHHHH
Q 038401          403 FGCMIELFSRNKKYANVIEVFEKMRSAGYFPD----SHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSD--QVHFQM  476 (542)
Q Consensus       403 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~--~~~~~l  476 (542)
                      +..++..+...|++++|.+.|+++.+..  |+    ...+..++.++.+.|++++|...|+.+....+..+.  ...+.+
T Consensus         5 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~   82 (119)
T TIGR02795         5 YYDAALLVLKAGDYADAIQAFQAFLKKY--PKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKL   82 (119)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHH
Confidence            3344444555555555555555554421  21    123334445555555555555555555543311111  112224


Q ss_pred             HHHHhccCChHHHHHHHHH
Q 038401          477 LSLYGARKDFNMLESLFER  495 (542)
Q Consensus       477 ~~~~~~~g~~~~A~~~~~~  495 (542)
                      +.++.+.|++++|...+++
T Consensus        83 ~~~~~~~~~~~~A~~~~~~  101 (119)
T TIGR02795        83 GMSLQELGDKEKAKATLQQ  101 (119)
T ss_pred             HHHHHHhCChHHHHHHHHH
Confidence            4555555555555555555

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=98.24  E-value=8.7e-05  Score=58.63  Aligned_cols=115  Identities=11%  Similarity=0.085  Sum_probs=75.0

Q ss_pred             HhCCHHHHHHHHHHHHHcCCCcC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH--HHHHHHHHHHhccCcH
Q 038401          377 RAGRIEEATWVFRQAFDAGEVKD---ISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDS--HIIALVLNSYGKLREF  451 (542)
Q Consensus       377 ~~g~~~~A~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~--~~~~~l~~~~~~~g~~  451 (542)
                      ..++...+...++.+.+... .+   ....-.+...+...|++++|...|+.+......|+.  .....+...+...|++
T Consensus        23 ~~~~~~~~~~~~~~l~~~~~-~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~  101 (145)
T PF09976_consen   23 QAGDPAKAEAAAEQLAKDYP-SSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQY  101 (145)
T ss_pred             HCCCHHHHHHHHHHHHHHCC-CChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCH
Confidence            46777777777777776532 22   223334556677888888888888888875522221  2344567777888888


Q ss_pred             HHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHHHH
Q 038401          452 ETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLFER  495 (542)
Q Consensus       452 ~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~  495 (542)
                      ++|+..++......   ....... .+.++.+.|++++|+..+++
T Consensus       102 d~Al~~L~~~~~~~---~~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen  102 DEALATLQQIPDEA---FKALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHHHHhccCcc---hHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            88888886643221   2222333 77888888888888888775

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=98.19  E-value=4.1e-06  Score=58.92  Aligned_cols=81  Identities=16%  Similarity=0.227  Sum_probs=44.8

Q ss_pred             cCCHHHHHHHHHHHHhCCC-CCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHHHHHHHhccCChHHHHH
Q 038401          413 NKKYANVIEVFEKMRSAGY-FPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQMLSLYGARKDFNMLES  491 (542)
Q Consensus       413 ~g~~~~A~~~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  491 (542)
                      .|+++.|+.+++++.+... .|+...+..++.+|.+.|++++|..++++ .+.+ ..+....+.++.++.+.|++++|++
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~-~~~~~~~~l~a~~~~~l~~y~eAi~   79 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLD-PSNPDIHYLLARCLLKLGKYEEAIK   79 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHH-HCHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCC-CCCHHHHHHHHHHHHHhCCHHHHHH
Confidence            4666777777777766321 11334444466677777777777777766 3222 1112233335667777777777777


Q ss_pred             HHHH
Q 038401          492 LFER  495 (542)
Q Consensus       492 ~~~~  495 (542)
                      .+++
T Consensus        80 ~l~~   83 (84)
T PF12895_consen   80 ALEK   83 (84)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            6654

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.19  E-value=4.3e-05  Score=58.99  Aligned_cols=95  Identities=8%  Similarity=0.035  Sum_probs=71.3

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchH-HHHHHH
Q 038401          400 ISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQ-VHFQML  477 (542)
Q Consensus       400 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~-~~~~l~  477 (542)
                      ....-.+...+...|++++|..+|+.+..  +.| +..-|..|.-++...|++++|+..|.++....+  .++ ..+.++
T Consensus        35 l~~lY~~A~~ly~~G~l~~A~~~f~~L~~--~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~--ddp~~~~~ag  110 (157)
T PRK15363         35 LNTLYRYAMQLMEVKEFAGAARLFQLLTI--YDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKI--DAPQAPWAAA  110 (157)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC--CCchHHHHHH
Confidence            33344455666788999999999988887  446 446677788888888999999999999888772  333 333488


Q ss_pred             HHHhccCChHHHHHHHHHHhc
Q 038401          478 SLYGARKDFNMLESLFERLDS  498 (542)
Q Consensus       478 ~~~~~~g~~~~A~~~~~~~~~  498 (542)
                      .++...|+.+.|++.|+....
T Consensus       111 ~c~L~lG~~~~A~~aF~~Ai~  131 (157)
T PRK15363        111 ECYLACDNVCYAIKALKAVVR  131 (157)
T ss_pred             HHHHHcCCHHHHHHHHHHHHH
Confidence            888899999999998888543

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.18  E-value=7.1e-05  Score=57.78  Aligned_cols=98  Identities=9%  Similarity=-0.029  Sum_probs=79.7

Q ss_pred             HHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCc
Q 038401          371 AITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLRE  450 (542)
Q Consensus       371 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  450 (542)
                      +...+...|++++|..+|+.....+ +.+..-|-.|..++-..|++.+|+..|..+...+. -|+..+-.+..++...|+
T Consensus        41 ~A~~ly~~G~l~~A~~~f~~L~~~D-p~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~-ddp~~~~~ag~c~L~lG~  118 (157)
T PRK15363         41 YAMQLMEVKEFAGAARLFQLLTIYD-AWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKI-DAPQAPWAAAECYLACDN  118 (157)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCchHHHHHHHHHHHcCC
Confidence            3455677899999999999988764 35677888899999999999999999999998542 256788888999999999


Q ss_pred             HHHHHHHHHHHHHcCCCCch
Q 038401          451 FETADDLYSEMQEEGCVFSD  470 (542)
Q Consensus       451 ~~~A~~~~~~~~~~~~~~~~  470 (542)
                      .+.|++.|+.++......|.
T Consensus       119 ~~~A~~aF~~Ai~~~~~~~~  138 (157)
T PRK15363        119 VCYAIKALKAVVRICGEVSE  138 (157)
T ss_pred             HHHHHHHHHHHHHHhccChh
Confidence            99999999999886533343

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.15  E-value=4.2e-06  Score=46.89  Aligned_cols=33  Identities=39%  Similarity=0.692  Sum_probs=24.5

Q ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCC
Q 038401           20 FAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAP   52 (542)
Q Consensus        20 ~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~   52 (542)
                      .+|+.++.++++.|+++.|.++|+.|.+.|++|
T Consensus         2 ~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    2 HTYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             cHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            467777777777777777777777777777665

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.11  E-value=1.4e-05  Score=67.62  Aligned_cols=92  Identities=15%  Similarity=0.194  Sum_probs=70.6

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCch-HHHHH-HHHHHhc
Q 038401          406 MIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSD-QVHFQ-MLSLYGA  482 (542)
Q Consensus       406 l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~-~~~~~-l~~~~~~  482 (542)
                      =+.-+.+.++|++|+..|.++++  +.| |...|..=..+|.+.|.++.|++-.+.++..+   |. ...|. |+.+|..
T Consensus        87 eGN~~m~~~~Y~eAv~kY~~AI~--l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iD---p~yskay~RLG~A~~~  161 (304)
T KOG0553|consen   87 EGNKLMKNKDYQEAVDKYTEAIE--LDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSID---PHYSKAYGRLGLAYLA  161 (304)
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHh--cCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcC---hHHHHHHHHHHHHHHc
Confidence            35556778888899988888888  556 45666777778888899999988888888876   43 33444 8888888


Q ss_pred             cCChHHHHHHHHH-HhcCCCC
Q 038401          483 RKDFNMLESLFER-LDSDSNI  502 (542)
Q Consensus       483 ~g~~~~A~~~~~~-~~~~~~~  502 (542)
                      .|++++|++.|++ +..+|..
T Consensus       162 ~gk~~~A~~aykKaLeldP~N  182 (304)
T KOG0553|consen  162 LGKYEEAIEAYKKALELDPDN  182 (304)
T ss_pred             cCcHHHHHHHHHhhhccCCCc
Confidence            8999999888888 5666663

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.10  E-value=3.8e-05  Score=65.16  Aligned_cols=88  Identities=17%  Similarity=0.189  Sum_probs=53.9

Q ss_pred             HHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHhccCcHHH
Q 038401          375 LARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDS-HIIALVLNSYGKLREFET  453 (542)
Q Consensus       375 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~  453 (542)
                      +.+.+++.+|+..|.++++.. +.|++.|..-..+|.+.|.++.|++-.+..+.  +.|.. .+|..|..+|...|++++
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 LMKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALS--IDPHYSKAYGRLGLAYLALGKYEE  167 (304)
T ss_pred             HHHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHh--cChHHHHHHHHHHHHHHccCcHHH
Confidence            344566666666666666652 34555566666666666666666666666665  44533 566666666666666666


Q ss_pred             HHHHHHHHHHcC
Q 038401          454 ADDLYSEMQEEG  465 (542)
Q Consensus       454 A~~~~~~~~~~~  465 (542)
                      |++.|+++++..
T Consensus       168 A~~aykKaLeld  179 (304)
T KOG0553|consen  168 AIEAYKKALELD  179 (304)
T ss_pred             HHHHHHhhhccC
Confidence            666666666654

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.08  E-value=6.9e-06  Score=46.42  Aligned_cols=33  Identities=42%  Similarity=0.678  Sum_probs=24.5

Q ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCC
Q 038401           21 AYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPD   53 (542)
Q Consensus        21 ~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~   53 (542)
                      +||++|.+|++.|++++|.++|+.|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            577777777777777777777777777777765

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.

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=98.07  E-value=6.1e-05  Score=54.71  Aligned_cols=92  Identities=13%  Similarity=0.145  Sum_probs=50.3

Q ss_pred             HHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHHHHHHHhccCChHHHHHHHHHHhc-CCCCCchhHHHHHHHHHHhh
Q 038401          440 LVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQMLSLYGARKDFNMLESLFERLDS-DSNINKKELHHVVAGIYERA  518 (542)
Q Consensus       440 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~  518 (542)
                      .++..+...|++++|...++++.+..+. .....+.++.++...|++++|.+.+++... .+.  ....+..++.++...
T Consensus         5 ~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~~~~~~~~   81 (100)
T cd00189           5 NLGNLYYKLGDYDEALEYYEKALELDPD-NADAYYNLAAAYYKLGKYEEALEDYEKALELDPD--NAKAYYNLGLAYYKL   81 (100)
T ss_pred             HHHHHHHHHhcHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCc--chhHHHHHHHHHHHH
Confidence            3444555566666666666666554411 111222255666666666666666666332 222  224566666666666


Q ss_pred             cchhhHHHHHHHHHhc
Q 038401          519 NRLNDASRIMNRMNKR  534 (542)
Q Consensus       519 g~~~~A~~~~~~~~~~  534 (542)
                      |++++|...+.+..+.
T Consensus        82 ~~~~~a~~~~~~~~~~   97 (100)
T cd00189          82 GKYEEALEAYEKALEL   97 (100)
T ss_pred             HhHHHHHHHHHHHHcc
Confidence            6666666666665543

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=98.06  E-value=0.0017  Score=51.06  Aligned_cols=126  Identities=12%  Similarity=0.096  Sum_probs=84.6

Q ss_pred             CCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC---CHHHHHHH
Q 038401          365 TIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP---DSHIIALV  441 (542)
Q Consensus       365 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p---~~~~~~~l  441 (542)
                      ....-.+...+...|+..+|...|++...--...|+...-.+..+....+++.+|...++++.+..  |   ++.+-..+
T Consensus        89 vqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~--pa~r~pd~~Ll~  166 (251)
T COG4700          89 VQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYN--PAFRSPDGHLLF  166 (251)
T ss_pred             HHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcC--CccCCCCchHHH
Confidence            333445677777788888888888887765555677777777777777788888888888777642  2   22344456


Q ss_pred             HHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHHHH
Q 038401          442 LNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLFER  495 (542)
Q Consensus       442 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~  495 (542)
                      .+.+...|++++|+..|+.+....   |...... ....+.++|+.++|..-+..
T Consensus       167 aR~laa~g~~a~Aesafe~a~~~y---pg~~ar~~Y~e~La~qgr~~ea~aq~~~  218 (251)
T COG4700         167 ARTLAAQGKYADAESAFEVAISYY---PGPQARIYYAEMLAKQGRLREANAQYVA  218 (251)
T ss_pred             HHHHHhcCCchhHHHHHHHHHHhC---CCHHHHHHHHHHHHHhcchhHHHHHHHH
Confidence            677777788888888888877765   4444444 56666677766666544433

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.06  E-value=0.00011  Score=67.53  Aligned_cols=121  Identities=15%  Similarity=0.112  Sum_probs=66.2

Q ss_pred             CCChhhHHHHHHHHhccCCHHHHHHHHHHHHHC--CCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCcHHHHH
Q 038401          191 PLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKM--GIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYN  268 (542)
Q Consensus       191 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  268 (542)
                      +.+......++..+....+.+.+..++.+....  ....-..|..++++.|...|..+.++.++..=...|+.||..+++
T Consensus        63 ~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n  142 (429)
T PF10037_consen   63 PVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFN  142 (429)
T ss_pred             CCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHH
Confidence            344445555555555555555555555555543  111122333456666666666666666666666666666666666


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 038401          269 TMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGK  311 (542)
Q Consensus       269 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  311 (542)
                      .|+..+.+.|++..|.++...|..++...+..|+...+.+|.+
T Consensus       143 ~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~  185 (429)
T PF10037_consen  143 LLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYK  185 (429)
T ss_pred             HHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHH
Confidence            6666666666666666666665555544455555444444443

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of small ribosomal proteins possessing one of three conserved sequence blocks found in proteins that stimulate the dissociation of guanine nucleotides from G-proteins. This leaves open the possibility that they may be functional partners of GTP-binding ribosomal proteins [].

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=98.04  E-value=0.0029  Score=56.40  Aligned_cols=89  Identities=12%  Similarity=0.095  Sum_probs=61.8

Q ss_pred             HHHhCCHHHHHHHHHHHHHcCC---CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHhccCc
Q 038401          375 LARAGRIEEATWVFRQAFDAGE---VKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDS-HIIALVLNSYGKLRE  450 (542)
Q Consensus       375 ~~~~g~~~~A~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~  450 (542)
                      ..+.|++..|.+.|..++...+   .++...|.....+..+.|+.++|+.-.+..++  +.|.. ..+..-..++...++
T Consensus       259 ~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~--iD~syikall~ra~c~l~le~  336 (486)
T KOG0550|consen  259 AFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALK--IDSSYIKALLRRANCHLALEK  336 (486)
T ss_pred             HhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhh--cCHHHHHHHHHHHHHHHHHHH
Confidence            4567888888888888876432   34455666666777788888888888888877  33322 333344456667788


Q ss_pred             HHHHHHHHHHHHHcC
Q 038401          451 FETADDLYSEMQEEG  465 (542)
Q Consensus       451 ~~~A~~~~~~~~~~~  465 (542)
                      |++|.+.|+++.+..
T Consensus       337 ~e~AV~d~~~a~q~~  351 (486)
T KOG0550|consen  337 WEEAVEDYEKAMQLE  351 (486)
T ss_pred             HHHHHHHHHHHHhhc
Confidence            888888888887765

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.04  E-value=0.00014  Score=55.35  Aligned_cols=95  Identities=16%  Similarity=0.130  Sum_probs=71.7

Q ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHcCCC--cCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC----HHHHHHHH
Q 038401          369 ETAITILARAGRIEEATWVFRQAFDAGEV--KDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPD----SHIIALVL  442 (542)
Q Consensus       369 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~----~~~~~~l~  442 (542)
                      ...+..+.+.|++++|.+.|+++++....  .....+..++.++...|+++.|...|+.+....  |+    ...+..+.
T Consensus         6 ~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~~~   83 (119)
T TIGR02795         6 YDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKY--PKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHC--CCCCcccHHHHHHH
Confidence            34455667778888888888888765321  124566678888889999999999999888742  33    45677778


Q ss_pred             HHHhccCcHHHHHHHHHHHHHcC
Q 038401          443 NSYGKLREFETADDLYSEMQEEG  465 (542)
Q Consensus       443 ~~~~~~g~~~~A~~~~~~~~~~~  465 (542)
                      .++.+.|++++|.+.++++.+..
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~~  106 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKRY  106 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHHC
Confidence            88888999999999999998876

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.

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.03  E-value=1e-05  Score=45.68  Aligned_cols=33  Identities=45%  Similarity=0.659  Sum_probs=17.2

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCC
Q 038401          126 AYNTMINVFGKAKLFKEARLLIEEMREQGVKPD  158 (542)
Q Consensus       126 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~  158 (542)
                      +|+.+|.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            345555555555555555555555555555444

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.

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.01  E-value=0.0002  Score=65.94  Aligned_cols=118  Identities=12%  Similarity=0.093  Sum_probs=59.3

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHhHhC--CCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 038401           88 DLVLYSNLIELARKLSDYSKAISIFSRLKSS--GIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTL  165 (542)
Q Consensus        88 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l  165 (542)
                      +......++..+....+++.+..++-+....  ....-+.|..++++.|...|..+.+..+++.=..-|+-||..+++.|
T Consensus        65 S~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n~L  144 (429)
T PF10037_consen   65 SSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFNLL  144 (429)
T ss_pred             cHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHHHH
Confidence            3444444444444445555555555555433  11112333445555555555555555555555555555555555555


Q ss_pred             HHHHHHCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHh
Q 038401          166 LNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYG  205 (542)
Q Consensus       166 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  205 (542)
                      ++.+.+.|++..|.++...|...+...+..|+...+.+|.
T Consensus       145 md~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~  184 (429)
T PF10037_consen  145 MDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCY  184 (429)
T ss_pred             HHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHH
Confidence            5555555555555555555544444444444444444433

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of small ribosomal proteins possessing one of three conserved sequence blocks found in proteins that stimulate the dissociation of guanine nucleotides from G-proteins. This leaves open the possibility that they may be functional partners of GTP-binding ribosomal proteins [].

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=98.00  E-value=0.0015  Score=58.16  Aligned_cols=87  Identities=10%  Similarity=-0.014  Sum_probs=67.4

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhC---CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH--HHHHHh
Q 038401          407 IELFSRNKKYANVIEVFEKMRSA---GYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ--MLSLYG  481 (542)
Q Consensus       407 ~~~~~~~g~~~~A~~~~~~~~~~---~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~--l~~~~~  481 (542)
                      ..-..+.|++..|.+.|.+.+..   +..|+...|........+.|+.++|+.-.+.+++.+   |......  -+.++.
T Consensus       256 gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD---~syikall~ra~c~l  332 (486)
T KOG0550|consen  256 GNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKID---SSYIKALLRRANCHL  332 (486)
T ss_pred             hhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcC---HHHHHHHHHHHHHHH
Confidence            44456889999999999999873   233445667777777889999999999999999865   4444333  567788


Q ss_pred             ccCChHHHHHHHHHH
Q 038401          482 ARKDFNMLESLFERL  496 (542)
Q Consensus       482 ~~g~~~~A~~~~~~~  496 (542)
                      ..+++++|.+-+++.
T Consensus       333 ~le~~e~AV~d~~~a  347 (486)
T KOG0550|consen  333 ALEKWEEAVEDYEKA  347 (486)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            899999999999994

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.99  E-value=0.0048  Score=53.29  Aligned_cols=58  Identities=19%  Similarity=0.114  Sum_probs=34.7

Q ss_pred             HHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhH---HHHHHHHHhcCCHHHHHHHHHHhHhC
Q 038401           60 LITCFGKEGMFDSAISWLQQMEQDRVSGDLVLY---SNLIELARKLSDYSKAISIFSRLKSS  118 (542)
Q Consensus        60 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~---~~l~~~~~~~~~~~~a~~~~~~~~~~  118 (542)
                      ....+...|++++|++.|+.+....+.+ ...-   -.++.++.+.+++++|...+++..+.
T Consensus        38 ~A~~~~~~g~y~~Ai~~f~~l~~~yP~s-~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~   98 (243)
T PRK10866         38 TAQQKLQDGNWKQAITQLEALDNRYPFG-PYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRL   98 (243)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCCC-hHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence            3344455677777777777776653322 2221   33456666777777777777777665

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=97.99  E-value=1.2e-05  Score=44.94  Aligned_cols=32  Identities=44%  Similarity=0.622  Sum_probs=15.5

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHHHcCCCC
Q 038401          126 AYNTMINVFGKAKLFKEARLLIEEMREQGVKP  157 (542)
Q Consensus       126 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~  157 (542)
                      +|+.++.+|++.|+++.|.++|+.|.+.|++|
T Consensus         3 ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    3 TYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            44444444444444444444444444444443

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.99  E-value=7e-05  Score=68.92  Aligned_cols=104  Identities=10%  Similarity=0.051  Sum_probs=80.9

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhc
Q 038401          405 CMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGA  482 (542)
Q Consensus       405 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~  482 (542)
                      ..+..+...|++++|+..|+++++.  .| +...|..+..+|.+.|++++|+..++++++..  +.....+. ++.+|..
T Consensus         7 ~~a~~a~~~~~~~~Ai~~~~~Al~~--~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~--P~~~~a~~~lg~~~~~   82 (356)
T PLN03088          7 DKAKEAFVDDDFALAVDLYTQAIDL--DPNNAELYADRAQANIKLGNFTEAVADANKAIELD--PSLAKAYLRKGTACMK   82 (356)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--cCCHHHHHHHHHHHHH
Confidence            3456677889999999999999984  45 56788888999999999999999999999987  22333344 8999999


Q ss_pred             cCChHHHHHHHHH-HhcCCCCCchhHHHHHHHH
Q 038401          483 RKDFNMLESLFER-LDSDSNINKKELHHVVAGI  514 (542)
Q Consensus       483 ~g~~~~A~~~~~~-~~~~~~~~~~~~~~~l~~~  514 (542)
                      .|++++|+..+++ +...|+  .......+..+
T Consensus        83 lg~~~eA~~~~~~al~l~P~--~~~~~~~l~~~  113 (356)
T PLN03088         83 LEEYQTAKAALEKGASLAPG--DSRFTKLIKEC  113 (356)
T ss_pred             hCCHHHHHHHHHHHHHhCCC--CHHHHHHHHHH
Confidence            9999999999999 455555  33444444443

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.98  E-value=3.7e-05  Score=50.91  Aligned_cols=59  Identities=14%  Similarity=0.144  Sum_probs=37.7

Q ss_pred             HHHHHhccCChHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhhcchhhHHHHHHHHHhcC
Q 038401          476 MLSLYGARKDFNMLESLFERLDSDSNINKKELHHVVAGIYERANRLNDASRIMNRMNKRR  535 (542)
Q Consensus       476 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  535 (542)
                      ++..+...|++++|++.++++.... +....++..++.++...|++++|..+|+++.+..
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~   61 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQD-PDNPEAWYLLGRILYQQGRYDEALAYYERALELD   61 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCS-TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            4556667777777777777743322 2255667777777777777777777777766544

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.97  E-value=0.00022  Score=58.31  Aligned_cols=89  Identities=17%  Similarity=0.110  Sum_probs=56.3

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-H
Q 038401          400 ISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPD--SHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-M  476 (542)
Q Consensus       400 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l  476 (542)
                      ...+..++..+...|++++|...|++.++....+.  ...+..++.++.+.|++++|...++++++..  +.+...+. +
T Consensus        35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l  112 (172)
T PRK02603         35 AFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELN--PKQPSALNNI  112 (172)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--cccHHHHHHH
Confidence            44566667777777888888888887776432221  3566677777777888888888888777764  11222222 6


Q ss_pred             HHHHhccCChHHHH
Q 038401          477 LSLYGARKDFNMLE  490 (542)
Q Consensus       477 ~~~~~~~g~~~~A~  490 (542)
                      +.++...|+...+.
T Consensus       113 g~~~~~~g~~~~a~  126 (172)
T PRK02603        113 AVIYHKRGEKAEEA  126 (172)
T ss_pred             HHHHHHcCChHhHh
Confidence            66676666544444

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.95  E-value=0.00018  Score=62.45  Aligned_cols=84  Identities=8%  Similarity=0.110  Sum_probs=40.3

Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchH-HHH-HHHHHHhccC
Q 038401          411 SRNKKYANVIEVFEKMRSAGYFPDS----HIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQ-VHF-QMLSLYGARK  484 (542)
Q Consensus       411 ~~~g~~~~A~~~~~~~~~~~~~p~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~-~~~-~l~~~~~~~g  484 (542)
                      .+.|++++|+..|+.+++.  .|+.    ..+..++.+|...|++++|...|+.+++..+..|.. ..+ .++.++...|
T Consensus       154 ~~~~~y~~Ai~af~~fl~~--yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~~~~~~g  231 (263)
T PRK10803        154 QDKSRQDDAIVAFQNFVKK--YPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQDKG  231 (263)
T ss_pred             HhcCCHHHHHHHHHHHHHH--CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHHHHHHcC
Confidence            4445555555555555542  2322    234445555555555555555555555544222211 111 1445555555


Q ss_pred             ChHHHHHHHHHH
Q 038401          485 DFNMLESLFERL  496 (542)
Q Consensus       485 ~~~~A~~~~~~~  496 (542)
                      +.++|.+.++++
T Consensus       232 ~~~~A~~~~~~v  243 (263)
T PRK10803        232 DTAKAKAVYQQV  243 (263)
T ss_pred             CHHHHHHHHHHH
Confidence            555555555553

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.94  E-value=0.00031  Score=64.73  Aligned_cols=92  Identities=12%  Similarity=0.034  Sum_probs=81.4

Q ss_pred             HHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccC
Q 038401          371 AITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLR  449 (542)
Q Consensus       371 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g  449 (542)
                      -...+...|+++.|++.|+++++.. +.+...|..+..+|...|++++|+..++++++.  .| +...|..++.+|...|
T Consensus         8 ~a~~a~~~~~~~~Ai~~~~~Al~~~-P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l--~P~~~~a~~~lg~~~~~lg   84 (356)
T PLN03088          8 KAKEAFVDDDFALAVDLYTQAIDLD-PNNAELYADRAQANIKLGNFTEAVADANKAIEL--DPSLAKAYLRKGTACMKLE   84 (356)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHhC
Confidence            3556778899999999999999974 357888999999999999999999999999984  46 5678888999999999


Q ss_pred             cHHHHHHHHHHHHHcC
Q 038401          450 EFETADDLYSEMQEEG  465 (542)
Q Consensus       450 ~~~~A~~~~~~~~~~~  465 (542)
                      ++++|+..|+++++.+
T Consensus        85 ~~~eA~~~~~~al~l~  100 (356)
T PLN03088         85 EYQTAKAALEKGASLA  100 (356)
T ss_pred             CHHHHHHHHHHHHHhC
Confidence            9999999999999987

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=97.93  E-value=0.013  Score=52.01  Aligned_cols=276  Identities=14%  Similarity=0.132  Sum_probs=141.2

Q ss_pred             ccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHH--HHhcCcHHHHHHHHHHHHhcCCCCcHHH--HHHHHHHHHccCCHH
Q 038401          206 QLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRV--YGEAELFGEAIHLFRLMQRKEIEQNVVT--YNTMIKIYGKSLEHE  281 (542)
Q Consensus       206 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~~~~~  281 (542)
                      -.|+-..|.++-.+..+. +..|....-.++.+  -.-.|+++.|.+-|+.|...   |....  ...|.-.-.+.|..+
T Consensus        96 gAGda~lARkmt~~~~~l-lssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~d---PEtRllGLRgLyleAqr~Gare  171 (531)
T COG3898          96 GAGDASLARKMTARASKL-LSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDD---PETRLLGLRGLYLEAQRLGARE  171 (531)
T ss_pred             ccCchHHHHHHHHHHHhh-hhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcC---hHHHHHhHHHHHHHHHhcccHH
Confidence            456666676665554422 13344444444433  33467888888888888752   22221  222222334567777


Q ss_pred             HHHHHHHHHHHcCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC-CCCCHHHH--HHHHHHHH---HcCCHHHHH
Q 038401          282 KATNLMQEMQNRGIEP-NAITYSTIIAIWGKAGKLDRAAMLFQKLRSSG-VEIDPVLY--QTMIVAYE---RVGLVAHAK  354 (542)
Q Consensus       282 ~a~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~--~~l~~~~~---~~~~~~~a~  354 (542)
                      .|..+-+..-..  .| -...+...+...+..|+|+.|+++++.-.... +.++..--  ..|+.+-.   -..+...|.
T Consensus       172 aAr~yAe~Aa~~--Ap~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar  249 (531)
T COG3898         172 AARHYAERAAEK--APQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASAR  249 (531)
T ss_pred             HHHHHHHHHHhh--ccCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHH
Confidence            777777666544  23 23556677777777888888888877655432 22222111  11221111   122344454


Q ss_pred             HHHHHhcC--CCCCCHHH-HHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-C
Q 038401          355 RLLHELRQ--PNTIPRET-AITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSA-G  430 (542)
Q Consensus       355 ~~~~~~~~--~~~~~~~~-l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~  430 (542)
                      ..-.+..+  ++..+-.. ...++.+.|+..++-.+++.+-+..  |.+..+..++  +.+.|  +.++.-+++..+. .
T Consensus       250 ~~A~~a~KL~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~e--PHP~ia~lY~--~ar~g--dta~dRlkRa~~L~s  323 (531)
T COG3898         250 DDALEANKLAPDLVPAAVVAARALFRDGNLRKGSKILETAWKAE--PHPDIALLYV--RARSG--DTALDRLKRAKKLES  323 (531)
T ss_pred             HHHHHHhhcCCccchHHHHHHHHHHhccchhhhhhHHHHHHhcC--CChHHHHHHH--HhcCC--CcHHHHHHHHHHHHh
Confidence            44444333  33333222 2455666677777777776666643  3333322211  22333  3333333333321 2


Q ss_pred             CCCCH-HHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhc-cCChHHHHHHHHHH
Q 038401          431 YFPDS-HIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGA-RKDFNMLESLFERL  496 (542)
Q Consensus       431 ~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~-~g~~~~A~~~~~~~  496 (542)
                      ++||. .+...+..+-...|++..|..--+.+.+..   |....|. ++.+-.. .|+-.++..++-+.
T Consensus       324 lk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r~~---pres~~lLlAdIeeAetGDqg~vR~wlAqa  389 (531)
T COG3898         324 LKPNNAESSLAVAEAALDAGEFSAARAKAEAAAREA---PRESAYLLLADIEEAETGDQGKVRQWLAQA  389 (531)
T ss_pred             cCccchHHHHHHHHHHHhccchHHHHHHHHHHhhhC---chhhHHHHHHHHHhhccCchHHHHHHHHHH
Confidence            44533 455556666666666666666666665543   5555554 5555443 36666666666664

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.92  E-value=0.0041  Score=53.71  Aligned_cols=58  Identities=10%  Similarity=0.231  Sum_probs=44.9

Q ss_pred             HHHHHHhccCChHHHHHHHHHHhcC-CCCC-chhHHHHHHHHHHhhcchhhHHHHHHHHH
Q 038401          475 QMLSLYGARKDFNMLESLFERLDSD-SNIN-KKELHHVVAGIYERANRLNDASRIMNRMN  532 (542)
Q Consensus       475 ~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  532 (542)
                      .++..|.+.|.+..|+.-++.+..+ |+.. ..++...++..|...|..++|.+......
T Consensus       180 ~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        180 SVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             HHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence            3778899999999999888886443 3322 24778889999999999999988876654

>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=97.90  E-value=0.00028  Score=51.07  Aligned_cols=88  Identities=18%  Similarity=0.257  Sum_probs=39.2

Q ss_pred             HHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHH
Q 038401          374 ILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFET  453 (542)
Q Consensus       374 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~  453 (542)
                      .+...|++++|...++++.+.. +.+...+..++.++...|++++|.+.+++..+.. +.+..++..++..+...|++++
T Consensus         9 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~   86 (100)
T cd00189           9 LYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYKLGKYEE   86 (100)
T ss_pred             HHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHHHHhHHH
Confidence            3344445555555555444432 1223344444444445555555555555544421 1122344444444444555555


Q ss_pred             HHHHHHHHHH
Q 038401          454 ADDLYSEMQE  463 (542)
Q Consensus       454 A~~~~~~~~~  463 (542)
                      |...+....+
T Consensus        87 a~~~~~~~~~   96 (100)
T cd00189          87 ALEAYEKALE   96 (100)
T ss_pred             HHHHHHHHHc
Confidence            5555544443

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.89  E-value=0.00063  Score=60.36  Aligned_cols=131  Identities=16%  Similarity=0.162  Sum_probs=96.4

Q ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHH-HhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHH
Q 038401           20 FAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITC-FGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIEL   98 (542)
Q Consensus        20 ~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   98 (542)
                      .+|..+++..-|.+..+.|..+|.+..+.+. .+..+|...... +...++.+.|.++|+...+. +..+...|...+..
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 LVWIQYMRFMRRTEGIEAARKVFKRARKDKR-CTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC-S-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCCC-CCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHH
Confidence            4688888999999999999999999986532 244455544444 33356777799999998876 55678888888898


Q ss_pred             HHhcCCHHHHHHHHHHhHhCCCCccH---hHHHHHHHHHhccCcHHHHHHHHHHHHHc
Q 038401           99 ARKLSDYSKAISIFSRLKSSGIVPDL---VAYNTMINVFGKAKLFKEARLLIEEMREQ  153 (542)
Q Consensus        99 ~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  153 (542)
                      +...++.+.|..+|++.... +.++.   ..|...+..-.+.|+.+.+.++.+++.+.
T Consensus        80 l~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~  136 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL  136 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            99999999999999998866 33332   47888888888888888888888888775

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.

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.87  E-value=0.0034  Score=55.99  Aligned_cols=199  Identities=18%  Similarity=0.236  Sum_probs=103.8

Q ss_pred             HHHHHccCCHHHHHHHHHHHHHcCC---CCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHH
Q 038401          271 IKIYGKSLEHEKATNLMQEMQNRGI---EPN--AITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYE  345 (542)
Q Consensus       271 ~~~~~~~~~~~~a~~~~~~~~~~~~---~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  345 (542)
                      ...|-..+++++|.+.|.+..+...   .+.  ...|.....++.+ .+++.|...++..               +..|.
T Consensus        42 a~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k~-~~~~~Ai~~~~~A---------------~~~y~  105 (282)
T PF14938_consen   42 ANCFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYKK-GDPDEAIECYEKA---------------IEIYR  105 (282)
T ss_dssp             HHHHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHH-TTHHHHHHHHHHH---------------HHHHH
T ss_pred             HHHHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh-hCHHHHHHHHHHH---------------HHHHH
Confidence            3345556666666666655432200   000  1122222233322 2555555544443               34566


Q ss_pred             HcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHh-CCHHHHHHHHHHHHHcCC---Cc--CHHHHHHHHHHHHhcCCHHHH
Q 038401          346 RVGLVAHAKRLLHELRQPNTIPRETAITILARA-GRIEEATWVFRQAFDAGE---VK--DISVFGCMIELFSRNKKYANV  419 (542)
Q Consensus       346 ~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~~~---~~--~~~~~~~l~~~~~~~g~~~~A  419 (542)
                      ..|++..|-+.+..+           ...|... |+++.|++.|+++.+.-.   .+  -...+..++..+.+.|++++|
T Consensus       106 ~~G~~~~aA~~~~~l-----------A~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A  174 (282)
T PF14938_consen  106 EAGRFSQAAKCLKEL-----------AEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEA  174 (282)
T ss_dssp             HCT-HHHHHHHHHHH-----------HHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHH
T ss_pred             hcCcHHHHHHHHHHH-----------HHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHH
Confidence            777777777666553           3455555 778888888877764311   11  134556677778888899999


Q ss_pred             HHHHHHHHhCCCC-----CCH-HHHHHHHHHHhccCcHHHHHHHHHHHHHcCCC--CchHHHHH--HHHHHhc--cCChH
Q 038401          420 IEVFEKMRSAGYF-----PDS-HIIALVLNSYGKLREFETADDLYSEMQEEGCV--FSDQVHFQ--MLSLYGA--RKDFN  487 (542)
Q Consensus       420 ~~~~~~~~~~~~~-----p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~--~~~~~~~~--l~~~~~~--~g~~~  487 (542)
                      +++|+++......     .+. ..+...+-++...|+...|.+.+++.....+.  .+....+.  ++.++-.  ...++
T Consensus       175 ~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~~~D~e~f~  254 (282)
T PF14938_consen  175 IEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAYEEGDVEAFT  254 (282)
T ss_dssp             HHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHHTT-CCCHH
T ss_pred             HHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHhCCHHHHH
Confidence            9998888764221     112 22333344666778888888888888765421  12212222  5555543  33455


Q ss_pred             HHHHHHHHH
Q 038401          488 MLESLFERL  496 (542)
Q Consensus       488 ~A~~~~~~~  496 (542)
                      +|+.-|+.+
T Consensus       255 ~av~~~d~~  263 (282)
T PF14938_consen  255 EAVAEYDSI  263 (282)
T ss_dssp             HHCHHHTTS
T ss_pred             HHHHHHccc
Confidence            555555554

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.87  E-value=0.00088  Score=49.99  Aligned_cols=91  Identities=10%  Similarity=0.003  Sum_probs=61.0

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCc-h-HHHHHHHHHHh
Q 038401          406 MIELFSRNKKYANVIEVFEKMRSAGYFPD--SHIIALVLNSYGKLREFETADDLYSEMQEEGCVFS-D-QVHFQMLSLYG  481 (542)
Q Consensus       406 l~~~~~~~g~~~~A~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~-~-~~~~~l~~~~~  481 (542)
                      +..++-..|+.++|+.+|++....|....  ...+..+..++...|++++|..+++......+..+ + .....++-++.
T Consensus         7 ~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L~   86 (120)
T PF12688_consen    7 LAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALALY   86 (120)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHH
Confidence            45566777888888888888887765543  24566677778888888888888888777642111 1 22222556777


Q ss_pred             ccCChHHHHHHHHHH
Q 038401          482 ARKDFNMLESLFERL  496 (542)
Q Consensus       482 ~~g~~~~A~~~~~~~  496 (542)
                      ..|+.++|++++-..
T Consensus        87 ~~gr~~eAl~~~l~~  101 (120)
T PF12688_consen   87 NLGRPKEALEWLLEA  101 (120)
T ss_pred             HCCCHHHHHHHHHHH
Confidence            788888888777653

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.86  E-value=0.004  Score=55.56  Aligned_cols=181  Identities=19%  Similarity=0.288  Sum_probs=95.8

Q ss_pred             CHHHHHHHHHHHHh-----cCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCHHHHHHHH
Q 038401          314 KLDRAAMLFQKLRS-----SGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVF  388 (542)
Q Consensus       314 ~~~~a~~~~~~~~~-----~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  388 (542)
                      +++.|...|.+.-.     .....-...|.....++.+.++...|-..+..+           ..+ .+.+++++|.+.+
T Consensus        30 ~~e~Aa~~y~~Aa~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~A-----------a~~-~k~~~~~~Ai~~~   97 (282)
T PF14938_consen   30 DYEEAADLYEKAANCFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEA-----------ANC-YKKGDPDEAIECY   97 (282)
T ss_dssp             HHHHHHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHH-----------HHH-HHHTTHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHH-----------HHH-HHhhCHHHHHHHH
Confidence            56666666655422     111112334444455555555555554444332           222 3334777777777


Q ss_pred             HHHHHc----CCCcC--HHHHHHHHHHHHhc-CCHHHHHHHHHHHHhC----CCCCC--HHHHHHHHHHHhccCcHHHHH
Q 038401          389 RQAFDA----GEVKD--ISVFGCMIELFSRN-KKYANVIEVFEKMRSA----GYFPD--SHIIALVLNSYGKLREFETAD  455 (542)
Q Consensus       389 ~~~~~~----~~~~~--~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~----~~~p~--~~~~~~l~~~~~~~g~~~~A~  455 (542)
                      +++.+.    |. ++  ...+..+...|... |++++|++.|+++.+.    + .+.  ...+..++..+.+.|++++|.
T Consensus        98 ~~A~~~y~~~G~-~~~aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~~~~a~~~~~~~A~l~~~l~~y~~A~  175 (282)
T PF14938_consen   98 EKAIEIYREAGR-FSQAAKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEG-SPHSAAECLLKAADLYARLGRYEEAI  175 (282)
T ss_dssp             HHHHHHHHHCT--HHHHHHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             HHHHHHHHhcCc-HHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCC-ChhhHHHHHHHHHHHHHHhCCHHHHH
Confidence            776542    21 22  33556666677676 7888888888777642    2 121  245566677777788888888


Q ss_pred             HHHHHHHHcCCCCc----hH-HHHH-HHHHHhccCChHHHHHHHHHH-hcCCCCCchhHH
Q 038401          456 DLYSEMQEEGCVFS----DQ-VHFQ-MLSLYGARKDFNMLESLFERL-DSDSNINKKELH  508 (542)
Q Consensus       456 ~~~~~~~~~~~~~~----~~-~~~~-l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~~  508 (542)
                      ++|+++.......+    .. ..+. .+-++...|+.-.|...+++. ..+|....+.-+
T Consensus       176 ~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~  235 (282)
T PF14938_consen  176 EIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREY  235 (282)
T ss_dssp             HHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHH
T ss_pred             HHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHH
Confidence            88887776432111    11 1222 344566677888888888874 344555555333

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.86  E-value=0.0082  Score=47.38  Aligned_cols=123  Identities=15%  Similarity=0.109  Sum_probs=71.8

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCC-----CCCCHHH
Q 038401          296 EPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQP-----NTIPRET  370 (542)
Q Consensus       296 ~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~~  370 (542)
                      .|+...-..|..++...|+..+|...|++...--+-.|......+.++....+++..|...++++.+-     .+.+.-.
T Consensus        86 ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~Ll  165 (251)
T COG4700          86 APTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGHLL  165 (251)
T ss_pred             chhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCchHH
Confidence            56666666677777777888888777777776555567777777777777777777777777766542     2222333


Q ss_pred             HHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHH
Q 038401          371 AITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVI  420 (542)
Q Consensus       371 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  420 (542)
                      +...+...|++..|...|+.++..  -|++..-......+.++|+.+++.
T Consensus       166 ~aR~laa~g~~a~Aesafe~a~~~--ypg~~ar~~Y~e~La~qgr~~ea~  213 (251)
T COG4700         166 FARTLAAQGKYADAESAFEVAISY--YPGPQARIYYAEMLAKQGRLREAN  213 (251)
T ss_pred             HHHHHHhcCCchhHHHHHHHHHHh--CCCHHHHHHHHHHHHHhcchhHHH
Confidence            344455555555555555555543  233333333334444455444443

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.84  E-value=0.00036  Score=49.85  Aligned_cols=75  Identities=20%  Similarity=0.414  Sum_probs=42.1

Q ss_pred             HHHHHhcCCHHHHHHHHHHhHhCCC-CccHhHHHHHHHHHhccC--------cHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 038401           96 IELARKLSDYSKAISIFSRLKSSGI-VPDLVAYNTMINVFGKAK--------LFKEARLLIEEMREQGVKPDTVSYSTLL  166 (542)
Q Consensus        96 ~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~--------~~~~a~~~~~~~~~~g~~~~~~~~~~l~  166 (542)
                      |..+...+++...-.+|+.++..|+ .|+..+|+.++.+.++..        +.-..+.+++.|...+++|+..+|+.++
T Consensus        32 I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYnivl  111 (120)
T PF08579_consen   32 INSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNIVL  111 (120)
T ss_pred             HHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHHHH
Confidence            3444444555566666666666555 556666666555544322        2334555666666666666666666666


Q ss_pred             HHHH
Q 038401          167 NLYV  170 (542)
Q Consensus       167 ~~~~  170 (542)
                      ..+.
T Consensus       112 ~~Ll  115 (120)
T PF08579_consen  112 GSLL  115 (120)
T ss_pred             HHHH
Confidence            5554

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 [, , ].

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.82  E-value=0.0013  Score=63.43  Aligned_cols=57  Identities=7%  Similarity=0.068  Sum_probs=29.1

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHHHH
Q 038401          436 HIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLFER  495 (542)
Q Consensus       436 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~  495 (542)
                      ..+..+.-.+...|++++|...++++++.+   |+...+. ++.++...|+.++|.+.+++
T Consensus       421 ~~~~ala~~~~~~g~~~~A~~~l~rAl~L~---ps~~a~~~lG~~~~~~G~~~eA~~~~~~  478 (517)
T PRK10153        421 RIYEILAVQALVKGKTDEAYQAINKAIDLE---MSWLNYVLLGKVYELKGDNRLAADAYST  478 (517)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcC---CCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            444444444444555555555555555554   2222233 55555555555555555555

>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=97.82  E-value=0.00016  Score=48.56  Aligned_cols=65  Identities=18%  Similarity=0.251  Sum_probs=42.9

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHhccC-cHHHHHHHHHHHHHcC
Q 038401          399 DISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPD-SHIIALVLNSYGKLR-EFETADDLYSEMQEEG  465 (542)
Q Consensus       399 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~~  465 (542)
                      ++..|..++..+...|++++|+..|++.++.  .|+ ...|..+..+|...| ++++|++.++++++.+
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~--~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l~   68 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIEL--DPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKLD   68 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHH--STTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHcC
Confidence            3456666677777777777777777777763  353 356666666777777 5777777777766644

...

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.80  E-value=0.0015  Score=53.42  Aligned_cols=88  Identities=14%  Similarity=0.166  Sum_probs=55.4

Q ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCC--HHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHH
Q 038401           20 FAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPD--RYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIE   97 (542)
Q Consensus        20 ~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   97 (542)
                      ..+..+...+.+.|++++|...|++..+.+..+.  ...+..+...+.+.|++++|+..+++..+..+ .+...+..+..
T Consensus        36 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~  114 (172)
T PRK02603         36 FVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNP-KQPSALNNIAV  114 (172)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-ccHHHHHHHHH
Confidence            3456666667777777777777777766433222  34666777777777777777777777766532 24455555666


Q ss_pred             HHHhcCCHHHH
Q 038401           98 LARKLSDYSKA  108 (542)
Q Consensus        98 ~~~~~~~~~~a  108 (542)
                      ++...|+...+
T Consensus       115 ~~~~~g~~~~a  125 (172)
T PRK02603        115 IYHKRGEKAEE  125 (172)
T ss_pred             HHHHcCChHhH
Confidence            66666654443

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.77  E-value=0.0014  Score=58.23  Aligned_cols=128  Identities=11%  Similarity=0.118  Sum_probs=66.9

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHH---HHHHHH-hCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHH
Q 038401          336 LYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETA---ITILAR-AGRIEEATWVFRQAFDAGEVKDISVFGCMIELFS  411 (542)
Q Consensus       336 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l---~~~~~~-~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~  411 (542)
                      +|..+++...+.+..+.|..+|.+..+.....+...   +..-.+ .++.+.|..+|+..++. .+.+...|...++.+.
T Consensus         3 v~i~~m~~~~r~~g~~~aR~vF~~a~~~~~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~l~   81 (280)
T PF05843_consen    3 VWIQYMRFMRRTEGIEAARKVFKRARKDKRCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDFLI   81 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHH
Confidence            344444444444445555555554443322222221   122122 34444466666666655 4456666777777777


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCH---HHHHHHHHHHhccCcHHHHHHHHHHHHHcC
Q 038401          412 RNKKYANVIEVFEKMRSAGYFPDS---HIIALVLNSYGKLREFETADDLYSEMQEEG  465 (542)
Q Consensus       412 ~~g~~~~A~~~~~~~~~~~~~p~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  465 (542)
                      ..|+.+.|..+|++.+.. +.++.   ..|...+.-=.+.|+.+...++.+++.+..
T Consensus        82 ~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~~  137 (280)
T PF05843_consen   82 KLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEELF  137 (280)
T ss_dssp             HTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHT
T ss_pred             HhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh
Confidence            777777777777777653 22221   366666666666677777777777766653

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=97.77  E-value=0.0012  Score=56.67  Aligned_cols=114  Identities=6%  Similarity=0.006  Sum_probs=83.1

Q ss_pred             CHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcc---CcHHHHHH
Q 038401          380 RIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKL---REFETADD  456 (542)
Q Consensus       380 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~---g~~~~A~~  456 (542)
                      ..+....-++.-+..+ +.|...|-.|...|...|+++.|...|.+..+.. .++...+..+..++..+   ....++..
T Consensus       137 ~~~~l~a~Le~~L~~n-P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~-g~n~~~~~g~aeaL~~~a~~~~ta~a~~  214 (287)
T COG4235         137 EMEALIARLETHLQQN-PGDAEGWDLLGRAYMALGRASDALLAYRNALRLA-GDNPEILLGLAEALYYQAGQQMTAKARA  214 (287)
T ss_pred             cHHHHHHHHHHHHHhC-CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCcccHHHHH
Confidence            4555566666666653 4688889999999999999999999999988732 13556677777666432   34678889


Q ss_pred             HHHHHHHcCCCCchHHHHH--HHHHHhccCChHHHHHHHHHHhc
Q 038401          457 LYSEMQEEGCVFSDQVHFQ--MLSLYGARKDFNMLESLFERLDS  498 (542)
Q Consensus       457 ~~~~~~~~~~~~~~~~~~~--l~~~~~~~g~~~~A~~~~~~~~~  498 (542)
                      .++++++.+   |+++...  ++..+...|++.+|...++.|..
T Consensus       215 ll~~al~~D---~~~iral~lLA~~afe~g~~~~A~~~Wq~lL~  255 (287)
T COG4235         215 LLRQALALD---PANIRALSLLAFAAFEQGDYAEAAAAWQMLLD  255 (287)
T ss_pred             HHHHHHhcC---CccHHHHHHHHHHHHHcccHHHHHHHHHHHHh
Confidence            999998876   4443333  77888899999999999998644

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.76  E-value=0.044  Score=52.67  Aligned_cols=26  Identities=19%  Similarity=0.322  Sum_probs=13.9

Q ss_pred             CChhhHHHHHHHHhccCCHHHHHHHH
Q 038401          192 LDLTTCNIMIDVYGQLDMAKDADRLF  217 (542)
Q Consensus       192 ~~~~~~~~l~~~~~~~~~~~~a~~~~  217 (542)
                      .+....-.+...+...|.-++|.+.+
T Consensus       850 e~s~llp~~a~mf~svGMC~qAV~a~  875 (1189)
T KOG2041|consen  850 EDSELLPVMADMFTSVGMCDQAVEAY  875 (1189)
T ss_pred             cccchHHHHHHHHHhhchHHHHHHHH
Confidence            34444555555555556555555544

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.75  E-value=0.045  Score=52.62  Aligned_cols=205  Identities=11%  Similarity=0.112  Sum_probs=111.7

Q ss_pred             CccHhHHHHHHHHHhccCcHHHHHHHHHHHHHc-CCCC--------CHHHHHHHHHHHHHCCChHHHHHHHHHHHhcCCC
Q 038401          121 VPDLVAYNTMINVFGKAKLFKEARLLIEEMREQ-GVKP--------DTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCP  191 (542)
Q Consensus       121 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-g~~~--------~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  191 (542)
                      .|.+..|..+.......-.++.|+..|-+...- |++.        +...-.+=+.  .--|++++|.++|-++-.++  
T Consensus       689 nPHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY~Gik~vkrl~~i~s~~~q~aei~--~~~g~feeaek~yld~drrD--  764 (1189)
T KOG2041|consen  689 NPHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRAEIS--AFYGEFEEAEKLYLDADRRD--  764 (1189)
T ss_pred             CCchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhHhHh--hhhcchhHhhhhhhccchhh--
Confidence            577788888887777777777777766554431 2210        0011111122  22478888888887775543  


Q ss_pred             CChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCC----hhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCcHHHH
Q 038401          192 LDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPS----VVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTY  267 (542)
Q Consensus       192 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  267 (542)
                             ..+..+.+.|++-...++++.-   |-..|    ...|+.+...+.....+++|.+.|..-...         
T Consensus       765 -------LAielr~klgDwfrV~qL~r~g---~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~~~---------  825 (1189)
T KOG2041|consen  765 -------LAIELRKKLGDWFRVYQLIRNG---GSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCGDT---------  825 (1189)
T ss_pred             -------hhHHHHHhhhhHHHHHHHHHcc---CCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccch---------
Confidence                   2345566667776655554321   11111    235666666666666677776666543211         


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHc
Q 038401          268 NTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERV  347 (542)
Q Consensus       268 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  347 (542)
                      ...+.++.+..++++...+...+     +-++...-.+..++.+.|--++|.+.|-+..   . |     .+.+..|...
T Consensus       826 e~~~ecly~le~f~~LE~la~~L-----pe~s~llp~~a~mf~svGMC~qAV~a~Lr~s---~-p-----kaAv~tCv~L  891 (1189)
T KOG2041|consen  826 ENQIECLYRLELFGELEVLARTL-----PEDSELLPVMADMFTSVGMCDQAVEAYLRRS---L-P-----KAAVHTCVEL  891 (1189)
T ss_pred             HhHHHHHHHHHhhhhHHHHHHhc-----CcccchHHHHHHHHHhhchHHHHHHHHHhcc---C-c-----HHHHHHHHHH
Confidence            12344555544454444333332     3345556666677777777777766653321   1 1     2345566667


Q ss_pred             CCHHHHHHHHHHhcC
Q 038401          348 GLVAHAKRLLHELRQ  362 (542)
Q Consensus       348 ~~~~~a~~~~~~~~~  362 (542)
                      ++|.+|.++-+...-
T Consensus       892 nQW~~avelaq~~~l  906 (1189)
T KOG2041|consen  892 NQWGEAVELAQRFQL  906 (1189)
T ss_pred             HHHHHHHHHHHhccc
Confidence            777777776665543

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.74  E-value=0.00097  Score=49.78  Aligned_cols=94  Identities=15%  Similarity=0.054  Sum_probs=71.0

Q ss_pred             HHHHHHhccCcHHHHHHHHHHHHHcCCCCchHH-HHH-HHHHHhccCChHHHHHHHHHHhcC-CCCC-chhHHHHHHHHH
Q 038401          440 LVLNSYGKLREFETADDLYSEMQEEGCVFSDQV-HFQ-MLSLYGARKDFNMLESLFERLDSD-SNIN-KKELHHVVAGIY  515 (542)
Q Consensus       440 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~-~~~-l~~~~~~~g~~~~A~~~~~~~~~~-~~~~-~~~~~~~l~~~~  515 (542)
                      ....++-..|+.++|+.+|+++...+...+... .+. ++..+...|++++|..++++.... |+.. +......++.++
T Consensus         6 ~~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L   85 (120)
T PF12688_consen    6 ELAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALAL   85 (120)
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHH
Confidence            456788899999999999999999874444322 223 889999999999999999995433 4311 234455567788


Q ss_pred             HhhcchhhHHHHHHHHHh
Q 038401          516 ERANRLNDASRIMNRMNK  533 (542)
Q Consensus       516 ~~~g~~~~A~~~~~~~~~  533 (542)
                      ...|+.++|++.+-....
T Consensus        86 ~~~gr~~eAl~~~l~~la  103 (120)
T PF12688_consen   86 YNLGRPKEALEWLLEALA  103 (120)
T ss_pred             HHCCCHHHHHHHHHHHHH
Confidence            999999999998876543

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.73  E-value=0.0014  Score=53.30  Aligned_cols=94  Identities=15%  Similarity=0.065  Sum_probs=58.5

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHHHH
Q 038401          400 ISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP--DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQML  477 (542)
Q Consensus       400 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~  477 (542)
                      ...|..++..+...|++++|+..|++.+.....|  ...++..+..++...|++++|+..++++.+.....+ .....++
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~~~-~~~~~la  113 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPFLP-QALNNMA  113 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcH-HHHHHHH
Confidence            4556666777777788888888888887642222  124677777788888888888888888877642111 1122255


Q ss_pred             HHHh-------ccCChHHHHHHHH
Q 038401          478 SLYG-------ARKDFNMLESLFE  494 (542)
Q Consensus       478 ~~~~-------~~g~~~~A~~~~~  494 (542)
                      .++.       ..|++++|...++
T Consensus       114 ~i~~~~~~~~~~~g~~~~A~~~~~  137 (168)
T CHL00033        114 VICHYRGEQAIEQGDSEIAEAWFD  137 (168)
T ss_pred             HHHHHhhHHHHHcccHHHHHHHHH
Confidence            5555       6677665544443

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.72  E-value=0.00024  Score=46.96  Aligned_cols=56  Identities=16%  Similarity=0.219  Sum_probs=27.7

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcC
Q 038401          408 ELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEG  465 (542)
Q Consensus       408 ~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  465 (542)
                      ..+...|++++|+..|+++++..  | +...+..++.++...|++++|...|+++++..
T Consensus         5 ~~~~~~g~~~~A~~~~~~~l~~~--P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~   61 (65)
T PF13432_consen    5 RALYQQGDYDEAIAAFEQALKQD--PDNPEAWYLLGRILYQQGRYDEALAYYERALELD   61 (65)
T ss_dssp             HHHHHCTHHHHHHHHHHHHHCCS--TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            34445555555555555555432  3 23444455555555555555555555555443

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.72  E-value=0.00067  Score=55.25  Aligned_cols=113  Identities=9%  Similarity=-0.015  Sum_probs=75.9

Q ss_pred             HHHHHHHHHHHHhC-CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchH--HHHHHHHHHhccCChHHHHHH
Q 038401          416 YANVIEVFEKMRSA-GYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQ--VHFQMLSLYGARKDFNMLESL  492 (542)
Q Consensus       416 ~~~A~~~~~~~~~~-~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~g~~~~A~~~  492 (542)
                      +..+...+..+.+. +..-....+..++..+...|++++|...|+++......++..  .+..++.++...|++++|+..
T Consensus        15 ~~~~~~~l~~~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~   94 (168)
T CHL00033         15 FTIVADILLRILPTTSGEKEAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEY   94 (168)
T ss_pred             cccchhhhhHhccCCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHH
Confidence            34444444444322 211124567778888889999999999999998875322222  233389999999999999999


Q ss_pred             HHHHh-cCCCCCchhHHHHHHHHHH-------hhcchhhHHHHHHH
Q 038401          493 FERLD-SDSNINKKELHHVVAGIYE-------RANRLNDASRIMNR  530 (542)
Q Consensus       493 ~~~~~-~~~~~~~~~~~~~l~~~~~-------~~g~~~~A~~~~~~  530 (542)
                      +++.. ..|.  ....+..++.+|.       ..|++++|...+++
T Consensus        95 ~~~Al~~~~~--~~~~~~~la~i~~~~~~~~~~~g~~~~A~~~~~~  138 (168)
T CHL00033         95 YFQALERNPF--LPQALNNMAVICHYRGEQAIEQGDSEIAEAWFDQ  138 (168)
T ss_pred             HHHHHHhCcC--cHHHHHHHHHHHHHhhHHHHHcccHHHHHHHHHH
Confidence            99954 3333  3455667777776       88888766555554

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.72  E-value=0.01  Score=49.96  Aligned_cols=75  Identities=13%  Similarity=0.138  Sum_probs=46.0

Q ss_pred             ccCcHHHHHHHHHHHHHcCCCCchHHHHHHHHHHhccCChHHHHHHHHHHhcC-CCCCc-hhHHHHHHHHHHhhcchhhH
Q 038401          447 KLREFETADDLYSEMQEEGCVFSDQVHFQMLSLYGARKDFNMLESLFERLDSD-SNINK-KELHHVVAGIYERANRLNDA  524 (542)
Q Consensus       447 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~-~~~~~~l~~~~~~~g~~~~A  524 (542)
                      ......+|...+..+.+.    -....+.++..|.+.|.+..|..-++.+..+ |+... ..+...++..|.+.|..+.|
T Consensus       122 ~S~y~~~A~~~l~~l~~~----la~~e~~ia~~Y~~~~~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a  197 (203)
T PF13525_consen  122 NSEYAEEAKKRLAELRNR----LAEHELYIARFYYKRGKYKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAA  197 (203)
T ss_dssp             TSTTHHHHHHHHHHHHHH----HHHHHHHHHHHHHCTT-HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHH
T ss_pred             CchHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHH
Confidence            334444554444444331    1112333788899999999999999996444 44322 36788899999999988754


Q ss_pred             H
Q 038401          525 S  525 (542)
Q Consensus       525 ~  525 (542)
                      .
T Consensus       198 ~  198 (203)
T PF13525_consen  198 D  198 (203)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=97.72  E-value=0.00023  Score=47.75  Aligned_cols=56  Identities=18%  Similarity=0.246  Sum_probs=28.0

Q ss_pred             HHHHHhccCChHHHHHHHHH-HhcCCCCCchhHHHHHHHHHHhhc-chhhHHHHHHHHHh
Q 038401          476 MLSLYGARKDFNMLESLFER-LDSDSNINKKELHHVVAGIYERAN-RLNDASRIMNRMNK  533 (542)
Q Consensus       476 l~~~~~~~g~~~~A~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~  533 (542)
                      ++..+...|++++|+..|++ +..+|+  ...+|..++.+|...| ++++|++.+++..+
T Consensus         9 ~g~~~~~~~~~~~A~~~~~~ai~~~p~--~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    9 LGQIYFQQGDYEEAIEYFEKAIELDPN--NAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             HHHHHHHTTHHHHHHHHHHHHHHHSTT--HHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCC--CHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            44555555555555555555 333332  3445555555555555 45555555555443

...

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.72  E-value=0.00071  Score=48.42  Aligned_cols=76  Identities=11%  Similarity=0.296  Sum_probs=42.2

Q ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHhCCC-CCCHHhHHHHHHHHhccC--------CHHHHHHHHHHHHhCCCCCCHHhHH
Q 038401           23 NVVLRNVLRAKQWELAHGLFDEMRQRGI-APDRYTYSTLITCFGKEG--------MFDSAISWLQQMEQDRVSGDLVLYS   93 (542)
Q Consensus        23 ~~ll~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g--------~~~~a~~~~~~~~~~~~~~~~~~~~   93 (542)
                      ...|..+...+++...-.+|+.+++.|+ -|+..+|+.++.+.++..        ..-..+.+|+.|+..+++|+..+|+
T Consensus        29 i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYn  108 (120)
T PF08579_consen   29 IDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYN  108 (120)
T ss_pred             HHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHH
Confidence            3445555556777777777777777776 667777777776655422        1223334444444444444444444


Q ss_pred             HHHHH
Q 038401           94 NLIEL   98 (542)
Q Consensus        94 ~l~~~   98 (542)
                      .++..
T Consensus       109 ivl~~  113 (120)
T PF08579_consen  109 IVLGS  113 (120)
T ss_pred             HHHHH
Confidence            44443

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 [, , ].

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=97.71  E-value=0.036  Score=50.36  Aligned_cols=131  Identities=15%  Similarity=0.135  Sum_probs=95.2

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH--HH
Q 038401          401 SVFGCMIELFSRNKKYANVIEVFEKMRSAG-YFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ--ML  477 (542)
Q Consensus       401 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~--l~  477 (542)
                      .+|..++....+....+.|..+|-++.+.+ +.++..++++++.- ...|+...|-.+|+.-....   |+...+.  .+
T Consensus       398 ~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         398 FVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEY-YATGDRATAYNIFELGLLKF---PDSTLYKEKYL  473 (660)
T ss_pred             hHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHH-HhcCCcchHHHHHHHHHHhC---CCchHHHHHHH
Confidence            456667777777788899999999998887 45677777777754 45688899999999888765   4444444  77


Q ss_pred             HHHhccCChHHHHHHHHH-HhcCCCCCchhHHHHHHHHHHhhcchhhHHHHHHHHHhcC
Q 038401          478 SLYGARKDFNMLESLFER-LDSDSNINKKELHHVVAGIYERANRLNDASRIMNRMNKRR  535 (542)
Q Consensus       478 ~~~~~~g~~~~A~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  535 (542)
                      ..+.+-++-+.|..+|++ ++.-....-..+|-.+++-=..-|+.+.+..+-++|.+.-
T Consensus       474 ~fLi~inde~naraLFetsv~r~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~~  532 (660)
T COG5107         474 LFLIRINDEENARALFETSVERLEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRELV  532 (660)
T ss_pred             HHHHHhCcHHHHHHHHHHhHHHHHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHHc
Confidence            788888999999999995 2221111234678777777677788888888888776643

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.71  E-value=0.00061  Score=59.23  Aligned_cols=90  Identities=8%  Similarity=-0.003  Sum_probs=46.3

Q ss_pred             hccCcHHHHHHHHHHHHHcCCCCc--hHHHHHHHHHHhccCChHHHHHHHHHHhc-CCCCC-chhHHHHHHHHHHhhcch
Q 038401          446 GKLREFETADDLYSEMQEEGCVFS--DQVHFQMLSLYGARKDFNMLESLFERLDS-DSNIN-KKELHHVVAGIYERANRL  521 (542)
Q Consensus       446 ~~~g~~~~A~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~-~~~~~~~l~~~~~~~g~~  521 (542)
                      .+.|++++|...|+.+++..+..+  ....+.++.+|...|++++|...|+++.. .|+.. ...++..++.+|...|++
T Consensus       154 ~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~~~~~~g~~  233 (263)
T PRK10803        154 QDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQDKGDT  233 (263)
T ss_pred             HhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHHHHHHcCCH
Confidence            444566666666666665542211  12333355666666666666666666432 22211 134455555666666666


Q ss_pred             hhHHHHHHHHHhcC
Q 038401          522 NDASRIMNRMNKRR  535 (542)
Q Consensus       522 ~~A~~~~~~~~~~~  535 (542)
                      ++|.++|+++.+..
T Consensus       234 ~~A~~~~~~vi~~y  247 (263)
T PRK10803        234 AKAKAVYQQVIKKY  247 (263)
T ss_pred             HHHHHHHHHHHHHC
Confidence            66666666555544

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.70  E-value=0.0039  Score=60.25  Aligned_cols=86  Identities=9%  Similarity=-0.107  Sum_probs=67.2

Q ss_pred             HHHHHHHHHHHHc-CCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHH
Q 038401          382 EEATWVFRQAFDA-GEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSE  460 (542)
Q Consensus       382 ~~A~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~  460 (542)
                      ..+.+..++.... ..+.++..+..+.......|++++|...++++++  ..|+...|..++..+...|+.++|...|++
T Consensus       401 ~~a~~~~~~a~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~--L~ps~~a~~~lG~~~~~~G~~~eA~~~~~~  478 (517)
T PRK10153        401 AALSTELDNIVALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAID--LEMSWLNYVLLGKVYELKGDNRLAADAYST  478 (517)
T ss_pred             HHHHHHHHHhhhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHH--cCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            4444445554442 1334567788887777788999999999999998  448888999999999999999999999999


Q ss_pred             HHHcCCCCc
Q 038401          461 MQEEGCVFS  469 (542)
Q Consensus       461 ~~~~~~~~~  469 (542)
                      +.+.++..|
T Consensus       479 A~~L~P~~p  487 (517)
T PRK10153        479 AFNLRPGEN  487 (517)
T ss_pred             HHhcCCCCc
Confidence            999884444

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.67  E-value=0.0016  Score=56.00  Aligned_cols=107  Identities=10%  Similarity=0.072  Sum_probs=84.7

Q ss_pred             CCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhc---CCHHHHHHHHHHHHhCCCCC-CHHHH
Q 038401          363 PNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRN---KKYANVIEVFEKMRSAGYFP-DSHII  438 (542)
Q Consensus       363 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---g~~~~A~~~~~~~~~~~~~p-~~~~~  438 (542)
                      .+...|..+...|...|+++.|...|.++.+. .++++..+..+..++..+   ....++..+|++++..  +| |..+.
T Consensus       154 ~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL-~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~--D~~~iral  230 (287)
T COG4235         154 GDAEGWDLLGRAYMALGRASDALLAYRNALRL-AGDNPEILLGLAEALYYQAGQQMTAKARALLRQALAL--DPANIRAL  230 (287)
T ss_pred             CCchhHHHHHHHHHHhcchhHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhc--CCccHHHH
Confidence            46667888888888889999999999999886 346788888888887644   3466888999999984  46 55777


Q ss_pred             HHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHH
Q 038401          439 ALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHF  474 (542)
Q Consensus       439 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  474 (542)
                      ..+...+...|++.+|...|+.|++..  +|+....
T Consensus       231 ~lLA~~afe~g~~~~A~~~Wq~lL~~l--p~~~~rr  264 (287)
T COG4235         231 SLLAFAAFEQGDYAEAAAAWQMLLDLL--PADDPRR  264 (287)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcC--CCCCchH
Confidence            788889999999999999999999986  4444443

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.66  E-value=0.00039  Score=61.62  Aligned_cols=132  Identities=13%  Similarity=0.108  Sum_probs=80.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHH----hCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHc----CC-CCchH
Q 038401          402 VFGCMIELFSRNKKYANVIEVFEKMR----SAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEE----GC-VFSDQ  471 (542)
Q Consensus       402 ~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~-~~~~~  471 (542)
                      .|..|...|.-.|+++.|+...+.=+    +.|-+. ....+..+.+++.-.|+++.|.+.|+.....    +. .....
T Consensus       197 a~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEAQ  276 (639)
T KOG1130|consen  197 AYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEAQ  276 (639)
T ss_pred             hhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHHH
Confidence            45566666666778888876654322    223222 2245667777788888888888888765432    21 12233


Q ss_pred             HHHHHHHHHhccCChHHHHHHHHH-H--hcC--CCCCchhHHHHHHHHHHhhcchhhHHHHHHHHHh
Q 038401          472 VHFQMLSLYGARKDFNMLESLFER-L--DSD--SNINKKELHHVVAGIYERANRLNDASRIMNRMNK  533 (542)
Q Consensus       472 ~~~~l~~~~~~~g~~~~A~~~~~~-~--~~~--~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  533 (542)
                      ..|.++..|.-...+++|+.++++ +  ...  .-....-++..|+..|-..|.-++|+.+.+.-.+
T Consensus       277 scYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~  343 (639)
T KOG1130|consen  277 SCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLR  343 (639)
T ss_pred             HHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            455577888778888888887777 2  111  0111234566788888888888888777666443

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.65  E-value=7.4e-05  Score=40.61  Aligned_cols=29  Identities=41%  Similarity=0.692  Sum_probs=19.9

Q ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHhCC
Q 038401           21 AYNVVLRNVLRAKQWELAHGLFDEMRQRG   49 (542)
Q Consensus        21 ~~~~ll~~~~~~~~~~~A~~~~~~~~~~~   49 (542)
                      +|+.++++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            56677777777777777777777776655

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.

>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=97.65  E-value=0.00024  Score=47.47  Aligned_cols=49  Identities=18%  Similarity=0.302  Sum_probs=24.3

Q ss_pred             ccCcHHHHHHHHHHHHHcCCCCchHHHHHHHHHHhccCChHHHHHHHHHH
Q 038401          447 KLREFETADDLYSEMQEEGCVFSDQVHFQMLSLYGARKDFNMLESLFERL  496 (542)
Q Consensus       447 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  496 (542)
                      +.|++++|++.|+++....+ ......+.++.+|.+.|++++|.+.++++
T Consensus         3 ~~~~~~~A~~~~~~~l~~~p-~~~~~~~~la~~~~~~g~~~~A~~~l~~~   51 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRNP-DNPEARLLLAQCYLKQGQYDEAEELLERL   51 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHTT-TSHHHHHHHHHHHHHTT-HHHHHHHHHCC
T ss_pred             hccCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            34555666666666555541 11112222555666666666666666653

...

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.65  E-value=8e-05  Score=40.49  Aligned_cols=29  Identities=41%  Similarity=0.690  Sum_probs=14.3

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHHHcC
Q 038401          126 AYNTMINVFGKAKLFKEARLLIEEMREQG  154 (542)
Q Consensus       126 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~g  154 (542)
                      +|+.++++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            34455555555555555555555554443

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.

>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=97.63  E-value=0.00027  Score=47.22  Aligned_cols=51  Identities=14%  Similarity=0.272  Sum_probs=24.4

Q ss_pred             HhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 038401          377 RAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRS  428 (542)
Q Consensus       377 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  428 (542)
                      ..|++++|++.|+++.+.. +.+...+..++.+|.+.|++++|.++++++..
T Consensus         3 ~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~   53 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRN-PDNPEARLLLAQCYLKQGQYDEAEELLERLLK   53 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHT-TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHG
T ss_pred             hccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3445555555555554442 22444444455555555555555555555544

...

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.56  E-value=0.019  Score=48.28  Aligned_cols=180  Identities=14%  Similarity=0.151  Sum_probs=88.6

Q ss_pred             HHHHHHHHhcCHHHHHHHHHHHHhCCCC--CCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHh
Q 038401           24 VVLRNVLRAKQWELAHGLFDEMRQRGIA--PDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARK  101 (542)
Q Consensus        24 ~ll~~~~~~~~~~~A~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  101 (542)
                      .....+...|++.+|+..|+.+....+.  --....-.++.++.+.|+++.|...++.+.+.-+......+...+.+.+.
T Consensus        10 ~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~~g~~~   89 (203)
T PF13525_consen   10 QKALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYMLGLSY   89 (203)
T ss_dssp             HHHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHH
Confidence            4555667788899999999888875322  12345667777888889999999888888776333222223222222221


Q ss_pred             cCCHHHHHHHHHHhHhCCCC---ccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHHH
Q 038401          102 LSDYSKAISIFSRLKSSGIV---PDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEA  178 (542)
Q Consensus       102 ~~~~~~a~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a  178 (542)
                      .......   +  ....+..   .-...+..++.-|-.+....+|...+..+.+.    =...--.+...|.+.|.+..|
T Consensus        90 ~~~~~~~---~--~~~~D~~~~~~A~~~~~~li~~yP~S~y~~~A~~~l~~l~~~----la~~e~~ia~~Y~~~~~y~aA  160 (203)
T PF13525_consen   90 YKQIPGI---L--RSDRDQTSTRKAIEEFEELIKRYPNSEYAEEAKKRLAELRNR----LAEHELYIARFYYKRGKYKAA  160 (203)
T ss_dssp             HHHHHHH---H---TT---HHHHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHH----HHHHHHHHHHHHHCTT-HHHH
T ss_pred             HHhCccc---h--hcccChHHHHHHHHHHHHHHHHCcCchHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHcccHHHH
Confidence            1111100   0  0000000   01223444445555555555555555544432    111122345666777777777


Q ss_pred             HHHHHHHHhcC--CCCChhhHHHHHHHHhccCCHHH
Q 038401          179 LSVFAEMNEVN--CPLDLTTCNIMIDVYGQLDMAKD  212 (542)
Q Consensus       179 ~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~  212 (542)
                      ..-++.+.+.=  .+........++.++.+.|..+.
T Consensus       161 ~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~  196 (203)
T PF13525_consen  161 IIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQA  196 (203)
T ss_dssp             HHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHH
T ss_pred             HHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHH
Confidence            77777766642  11112334555566666666553

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=97.54  E-value=0.0047  Score=59.17  Aligned_cols=119  Identities=16%  Similarity=0.180  Sum_probs=81.4

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHH-HHHHHhccCcHHHHHHHHHHHHHcCCCCch--HH-HHHHHHHHhccCChHH
Q 038401          413 NKKYANVIEVFEKMRSAGYFPDSHIIAL-VLNSYGKLREFETADDLYSEMQEEGCVFSD--QV-HFQMLSLYGARKDFNM  488 (542)
Q Consensus       413 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~-l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~--~~-~~~l~~~~~~~g~~~~  488 (542)
                      ..+.+.|.++++.+.+  .-|+...|.. -.+.+...|+.++|++.|+++.......+.  .. .+.+++++.-.+++++
T Consensus       246 ~~~~~~a~~lL~~~~~--~yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~  323 (468)
T PF10300_consen  246 DVPLEEAEELLEEMLK--RYPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEE  323 (468)
T ss_pred             CCCHHHHHHHHHHHHH--hCCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHH
Confidence            4567778888888877  3476655543 345666788888888888876642211121  12 2237788888888888


Q ss_pred             HHHHHHHHhcCCCCCchhHHHHHHHHHHhhcch-------hhHHHHHHHHHh
Q 038401          489 LESLFERLDSDSNINKKELHHVVAGIYERANRL-------NDASRIMNRMNK  533 (542)
Q Consensus       489 A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-------~~A~~~~~~~~~  533 (542)
                      |...+..+......+....++..+-++...|+.       ++|.+++++++.
T Consensus       324 A~~~f~~L~~~s~WSka~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  324 AAEYFLRLLKESKWSKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHHHHHHHHhccccHHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHHH
Confidence            888888877665555556666667777778887       888888888665

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.

>PRK15331 chaperone protein SicA; Provisional

Probab=97.53  E-value=0.001  Score=51.85  Aligned_cols=93  Identities=11%  Similarity=-0.008  Sum_probs=71.7

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHHHHHHHhccCCh
Q 038401          407 IELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQMLSLYGARKDF  486 (542)
Q Consensus       407 ~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  486 (542)
                      ..-+...|++++|..+|+-+.-.+. -+..-|..|..++-..+++++|+..|..+.......| .+.+..+.++...|+.
T Consensus        44 Ay~~y~~Gk~~eA~~~F~~L~~~d~-~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~dp-~p~f~agqC~l~l~~~  121 (165)
T PRK15331         44 AYEFYNQGRLDEAETFFRFLCIYDF-YNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKNDY-RPVFFTGQCQLLMRKA  121 (165)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCc-CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCC-CccchHHHHHHHhCCH
Confidence            3345688999999999998877432 2566778888888889999999999999887653222 2355589999999999


Q ss_pred             HHHHHHHHHHhcCCC
Q 038401          487 NMLESLFERLDSDSN  501 (542)
Q Consensus       487 ~~A~~~~~~~~~~~~  501 (542)
                      ++|+..|+.....|.
T Consensus       122 ~~A~~~f~~a~~~~~  136 (165)
T PRK15331        122 AKARQCFELVNERTE  136 (165)
T ss_pred             HHHHHHHHHHHhCcc
Confidence            999999999766543

>PRK15331 chaperone protein SicA; Provisional

Probab=97.53  E-value=0.0041  Score=48.51  Aligned_cols=88  Identities=13%  Similarity=0.087  Sum_probs=55.5

Q ss_pred             HHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHH
Q 038401          375 LARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETA  454 (542)
Q Consensus       375 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A  454 (542)
                      +...|++++|..+|+-+.-.++ -+...|..|..++-..+++++|+..|......+. -|+...-....+|...|+.+.|
T Consensus        47 ~y~~Gk~~eA~~~F~~L~~~d~-~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~-~dp~p~f~agqC~l~l~~~~~A  124 (165)
T PRK15331         47 FYNQGRLDEAETFFRFLCIYDF-YNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK-NDYRPVFFTGQCQLLMRKAAKA  124 (165)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCc-CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-CCCCccchHHHHHHHhCCHHHH
Confidence            3456777777777777665433 4555666666667777777777777776654321 1233334456677777777777


Q ss_pred             HHHHHHHHHc
Q 038401          455 DDLYSEMQEE  464 (542)
Q Consensus       455 ~~~~~~~~~~  464 (542)
                      +..|+.+.+.
T Consensus       125 ~~~f~~a~~~  134 (165)
T PRK15331        125 RQCFELVNER  134 (165)
T ss_pred             HHHHHHHHhC
Confidence            7777777763

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.48  E-value=0.017  Score=54.73  Aligned_cols=214  Identities=17%  Similarity=0.177  Sum_probs=106.9

Q ss_pred             HHHHHHHHccCCHH--HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC----CCCHHHHHHHH
Q 038401          268 NTMIKIYGKSLEHE--KATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGV----EIDPVLYQTMI  341 (542)
Q Consensus       268 ~~l~~~~~~~~~~~--~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~~~~~l~  341 (542)
                      +..-++|.+-.+..  +.+.-++++.++|-.|+....   ...++-.|.+.+|.++|.+--..+-    -.|...| -..
T Consensus       602 ~~ARkAY~rVRdl~~L~li~EL~~~k~rge~P~~iLl---A~~~Ay~gKF~EAAklFk~~G~enRAlEmyTDlRMF-D~a  677 (1081)
T KOG1538|consen  602 ETARKAYIRVRDLRYLELISELEERKKRGETPNDLLL---ADVFAYQGKFHEAAKLFKRSGHENRALEMYTDLRMF-DYA  677 (1081)
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHhcCCCchHHHH---HHHHHhhhhHHHHHHHHHHcCchhhHHHHHHHHHHH-HHH
Confidence            33334454443332  333445666677766765432   2233444555555555543211100    0000001 112


Q ss_pred             HHHHHcCCHHHHHHHHHHhcC--CCCCCHHHHHHHHHHhCCHHHHHHHHH------HHHHcCC---CcCHHHHHHHHHHH
Q 038401          342 VAYERVGLVAHAKRLLHELRQ--PNTIPRETAITILARAGRIEEATWVFR------QAFDAGE---VKDISVFGCMIELF  410 (542)
Q Consensus       342 ~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~------~~~~~~~---~~~~~~~~~l~~~~  410 (542)
                      +-+...|..++-..+.++-..  .+.........++...|+.++|..+.-      .+++.+.   ..+..+...+..-+
T Consensus       678 QE~~~~g~~~eKKmL~RKRA~WAr~~kePkaAAEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkld~~ere~l~~~a~yl  757 (1081)
T KOG1538|consen  678 QEFLGSGDPKEKKMLIRKRADWARNIKEPKAAAEMLISAGEHVKAIEICGDHGWVDMLIDIARKLDKAEREPLLLCATYL  757 (1081)
T ss_pred             HHHhhcCChHHHHHHHHHHHHHhhhcCCcHHHHHHhhcccchhhhhhhhhcccHHHHHHHHHhhcchhhhhHHHHHHHHH
Confidence            233444444443333322111  222333445566666777766665421      1222111   12344555555555


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-------------HH
Q 038401          411 SRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-------------ML  477 (542)
Q Consensus       411 ~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-------------l~  477 (542)
                      .+...+.-|.++|.+|-+         ..+++......++|.+|..+-++..+.-   |+ +++.             .-
T Consensus       758 k~l~~~gLAaeIF~k~gD---------~ksiVqlHve~~~W~eAFalAe~hPe~~---~d-Vy~pyaqwLAE~DrFeEAq  824 (1081)
T KOG1538|consen  758 KKLDSPGLAAEIFLKMGD---------LKSLVQLHVETQRWDEAFALAEKHPEFK---DD-VYMPYAQWLAENDRFEEAQ  824 (1081)
T ss_pred             hhccccchHHHHHHHhcc---------HHHHhhheeecccchHhHhhhhhCcccc---cc-ccchHHHHhhhhhhHHHHH
Confidence            566777788888887754         1246667788999999998887776642   21 1111             22


Q ss_pred             HHHhccCChHHHHHHHHHHhc
Q 038401          478 SLYGARKDFNMLESLFERLDS  498 (542)
Q Consensus       478 ~~~~~~g~~~~A~~~~~~~~~  498 (542)
                      .+|.++|+-.||..+++++..
T Consensus       825 kAfhkAGr~~EA~~vLeQLtn  845 (1081)
T KOG1538|consen  825 KAFHKAGRQREAVQVLEQLTN  845 (1081)
T ss_pred             HHHHHhcchHHHHHHHHHhhh
Confidence            456677777777777777654

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=97.47  E-value=0.0049  Score=50.34  Aligned_cols=35  Identities=29%  Similarity=0.610  Sum_probs=24.0

Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC
Q 038401          279 EHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAG  313 (542)
Q Consensus       279 ~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~  313 (542)
                      +-+-|++++++|...|+.||..++..++..+.+.+
T Consensus       118 Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s  152 (228)
T PF06239_consen  118 QQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKS  152 (228)
T ss_pred             HHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhcccc
Confidence            34566777777777777777777777777765444

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.46  E-value=0.085  Score=48.19  Aligned_cols=442  Identities=13%  Similarity=0.128  Sum_probs=224.3

Q ss_pred             HHHhcCHHHHHHHHHHHHhCCCCCCHH------hHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHH--HHH
Q 038401           29 VLRAKQWELAHGLFDEMRQRGIAPDRY------TYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIE--LAR  100 (542)
Q Consensus        29 ~~~~~~~~~A~~~~~~~~~~~~~~~~~------~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~--~~~  100 (542)
                      +-+++++.+|.++|-++...- ..++.      .-+.++++|. ..+.+.....+..+.+..  | ...|..+..  .+.
T Consensus        16 Lqkq~~~~esEkifskI~~e~-~~~~f~lkeEvl~grilnAff-l~nld~Me~~l~~l~~~~--~-~s~~l~LF~~L~~Y   90 (549)
T PF07079_consen   16 LQKQKKFQESEKIFSKIYDEK-ESSPFLLKEEVLGGRILNAFF-LNNLDLMEKQLMELRQQF--G-KSAYLPLFKALVAY   90 (549)
T ss_pred             HHHHhhhhHHHHHHHHHHHHh-hcchHHHHHHHHhhHHHHHHH-HhhHHHHHHHHHHHHHhc--C-CchHHHHHHHHHHH
Confidence            457889999999998886642 21222      3345666665 345666666666665542  2 223333333  345


Q ss_pred             hcCCHHHHHHHHHHhHhC--CCCc------------cHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCC----CCCHHHH
Q 038401          101 KLSDYSKAISIFSRLKSS--GIVP------------DLVAYNTMINVFGKAKLFKEARLLIEEMREQGV----KPDTVSY  162 (542)
Q Consensus       101 ~~~~~~~a~~~~~~~~~~--~~~~------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~----~~~~~~~  162 (542)
                      +.+.+.+|.+.+..-.+.  +..|            |-..=+..+.++...|++.++..+++++...=.    .-+..+|
T Consensus        91 ~~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~y  170 (549)
T PF07079_consen   91 KQKEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMY  170 (549)
T ss_pred             HhhhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHH
Confidence            778899998888766544  2222            112224556778889999999999988876533    3577788


Q ss_pred             HHHHHHHHHCCChHHHHHHHHHHHhc-CCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHh
Q 038401          163 STLLNLYVENHKFVEALSVFAEMNEV-NCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGE  241 (542)
Q Consensus       163 ~~l~~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~  241 (542)
                      +.++-.+.+        ..|-++.+. ....-+. |..++-.|.+.=      ..++.-.-..+.|.......++....-
T Consensus       171 d~~vlmlsr--------SYfLEl~e~~s~dl~pd-yYemilfY~kki------~~~d~~~Y~k~~peeeL~s~imqhlfi  235 (549)
T PF07079_consen  171 DRAVLMLSR--------SYFLELKESMSSDLYPD-YYEMILFYLKKI------HAFDQRPYEKFIPEEELFSTIMQHLFI  235 (549)
T ss_pred             HHHHHHHhH--------HHHHHHHHhcccccChH-HHHHHHHHHHHH------HHHhhchHHhhCcHHHHHHHHHHHHHh
Confidence            776655543        223333221 1111112 222333332211      111111111123444444444433322


Q ss_pred             c--CcHHHHHHHHHHHHhcCCCCcHH-HHHHHHHHHHccCCHHHHHHHHHHHHHcCCCC----CHHHHHHHHHHHHhcCC
Q 038401          242 A--ELFGEAIHLFRLMQRKEIEQNVV-TYNTMIKIYGKSLEHEKATNLMQEMQNRGIEP----NAITYSTIIAIWGKAGK  314 (542)
Q Consensus       242 ~--~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p----~~~~~~~l~~~~~~~~~  314 (542)
                      .  ....--.++++.....-+.|+.. ....+...+.+  +.+++..+.+.+....+.+    =..+|..++....+.++
T Consensus       236 ~p~e~l~~~mq~l~~We~~yv~p~~~LVi~~L~~~f~~--~~e~~~~~ce~ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~  313 (549)
T PF07079_consen  236 VPKERLPPLMQILENWENFYVHPNYDLVIEPLKQQFMS--DPEQVGHFCEAIASSKIEKLKEELIDRFGNLLSFKVKQVQ  313 (549)
T ss_pred             CCHhhccHHHHHHHHHHhhccCCchhHHHHHHHHHHhc--ChHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            1  11222233333333333334322 22333333333  4455555444443321111    12456677777777777


Q ss_pred             HHHHHHHHHHHHhcCCCCCHHHHHHH-------HHHHH-H---cCCHHHHHHHHHHhcCCCCCCH---HHH---HHHHHH
Q 038401          315 LDRAAMLFQKLRSSGVEIDPVLYQTM-------IVAYE-R---VGLVAHAKRLLHELRQPNTIPR---ETA---ITILAR  377 (542)
Q Consensus       315 ~~~a~~~~~~~~~~~~~~~~~~~~~l-------~~~~~-~---~~~~~~a~~~~~~~~~~~~~~~---~~l---~~~~~~  377 (542)
                      ...|.+.+..+...+  |+...-..+       .+..+ .   ..+...-+.+++.+...+...-   ..+   +.-+-+
T Consensus       314 T~~a~q~l~lL~~ld--p~~svs~Kllls~~~lq~Iv~~DD~~~Tklr~yL~lwe~~qs~DiDrqQLvh~L~~~Ak~lW~  391 (549)
T PF07079_consen  314 TEEAKQYLALLKILD--PRISVSEKLLLSPKVLQDIVCEDDESYTKLRDYLNLWEEIQSYDIDRQQLVHYLVFGAKHLWE  391 (549)
T ss_pred             HHHHHHHHHHHHhcC--CcchhhhhhhcCHHHHHHHHhcchHHHHHHHHHHHHHHHHHhhcccHHHHHHHHHHHHHHHHh
Confidence            777777777665542  222211111       11111 0   1111222333333333222211   111   222334


Q ss_pred             hCC-HHHHHHHHHHHHHcCCCcCHHHHHHHHH----HHHh---cCCHHHHHHHHHHHHhCCCCCC----HHHHHHHHH--
Q 038401          378 AGR-IEEATWVFRQAFDAGEVKDISVFGCMIE----LFSR---NKKYANVIEVFEKMRSAGYFPD----SHIIALVLN--  443 (542)
Q Consensus       378 ~g~-~~~A~~~~~~~~~~~~~~~~~~~~~l~~----~~~~---~g~~~~A~~~~~~~~~~~~~p~----~~~~~~l~~--  443 (542)
                      .|. -++|+.+++.+++- .+-|...-|.+..    +|.+   .....+-+.+-+-+.+.|+.|-    ...-+.+.+  
T Consensus       392 ~g~~dekalnLLk~il~f-t~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~~i~i~e~eian~LaDAE  470 (549)
T PF07079_consen  392 IGQCDEKALNLLKLILQF-TNYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLTPITISEEEIANFLADAE  470 (549)
T ss_pred             cCCccHHHHHHHHHHHHh-ccccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCcccccHHHHHHHHHHHH
Confidence            454 78889999988875 2345554444332    2222   2233333444444456677773    233444443  


Q ss_pred             HHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHHHHHhc
Q 038401          444 SYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLFERLDS  498 (542)
Q Consensus       444 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~~~~  498 (542)
                      -+...|++.++.-+-..+.+-.   |.+..+. ++-++....++++|...+..++.
T Consensus       471 yLysqgey~kc~~ys~WL~~ia---PS~~~~RLlGl~l~e~k~Y~eA~~~l~~LP~  523 (549)
T PF07079_consen  471 YLYSQGEYHKCYLYSSWLTKIA---PSPQAYRLLGLCLMENKRYQEAWEYLQKLPP  523 (549)
T ss_pred             HHHhcccHHHHHHHHHHHHHhC---CcHHHHHHHHHHHHHHhhHHHHHHHHHhCCC
Confidence            3457899999888777777744   6666676 77888889999999999998865

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.44  E-value=0.0012  Score=58.67  Aligned_cols=96  Identities=13%  Similarity=0.039  Sum_probs=67.4

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHHHH----cCCCCchHHHHH-HHHHHhccCChHHHHHHHHHH---h-cCCCC-Cch
Q 038401          436 HIIALVLNSYGKLREFETADDLYSEMQE----EGCVFSDQVHFQ-MLSLYGARKDFNMLESLFERL---D-SDSNI-NKK  505 (542)
Q Consensus       436 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~~---~-~~~~~-~~~  505 (542)
                      ..|..+.+.|.-.|+++.|+..-+.-++    .|........+. ++.++.-.|+++.|.+.+++.   . .-++. ...
T Consensus       196 Ra~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEA  275 (639)
T KOG1130|consen  196 RAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEA  275 (639)
T ss_pred             chhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHH
Confidence            4577778888888999999988765433    221111222333 889999999999999999882   1 11111 123


Q ss_pred             hHHHHHHHHHHhhcchhhHHHHHHHH
Q 038401          506 ELHHVVAGIYERANRLNDASRIMNRM  531 (542)
Q Consensus       506 ~~~~~l~~~~~~~g~~~~A~~~~~~~  531 (542)
                      ...+.|+..|.-...+++|+.++.+=
T Consensus       276 QscYSLgNtytll~e~~kAI~Yh~rH  301 (639)
T KOG1130|consen  276 QSCYSLGNTYTLLKEVQKAITYHQRH  301 (639)
T ss_pred             HHHHHhhhHHHHHHHHHHHHHHHHHH
Confidence            55678999999999999999999873

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=97.44  E-value=0.089  Score=47.98  Aligned_cols=426  Identities=14%  Similarity=0.136  Sum_probs=233.0

Q ss_pred             hhHHHHhhCCCCCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCC
Q 038401            5 ILDWINEEARYSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDR   84 (542)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~   84 (542)
                      +-+.+.+.   +.|+.+|-.|++.+..+|..++..+++++|... .+--+.+|...+.+-....++.....+|.+.+...
T Consensus        31 LRerIkdN---PtnI~S~fqLiq~~~tq~s~~~~re~yeq~~~p-fp~~~~aw~ly~s~ELA~~df~svE~lf~rCL~k~  106 (660)
T COG5107          31 LRERIKDN---PTNILSYFQLIQYLETQESMDAEREMYEQLSSP-FPIMEHAWRLYMSGELARKDFRSVESLFGRCLKKS  106 (660)
T ss_pred             HHHHhhcC---chhHHHHHHHHHHHhhhhhHHHHHHHHHHhcCC-CccccHHHHHHhcchhhhhhHHHHHHHHHHHHhhh
Confidence            34455432   567789999999999999999999999999874 33345688888888778889999999999988764


Q ss_pred             CCCCHHhHHHHHHHHHhcCCHH------HHHHHHHHhHh-CCCCc-cHhHHHHHHHH---HhccC------cHHHHHHHH
Q 038401           85 VSGDLVLYSNLIELARKLSDYS------KAISIFSRLKS-SGIVP-DLVAYNTMINV---FGKAK------LFKEARLLI  147 (542)
Q Consensus        85 ~~~~~~~~~~l~~~~~~~~~~~------~a~~~~~~~~~-~~~~~-~~~~~~~l~~~---~~~~~------~~~~a~~~~  147 (542)
                        .+...|...+.-..+.+..-      ...+.|+-... .++.| +...|+..+..   .-..|      +.+.....+
T Consensus       107 --l~ldLW~lYl~YIRr~n~~~tGq~r~~i~~ayefv~~~~~~e~~s~~~W~ey~~fle~~~~~~kwEeQqrid~iR~~Y  184 (660)
T COG5107         107 --LNLDLWMLYLEYIRRVNNLITGQKRFKIYEAYEFVLGCAIFEPQSENYWDEYGLFLEYIEELGKWEEQQRIDKIRNGY  184 (660)
T ss_pred             --ccHhHHHHHHHHHHhhCcccccchhhhhHHHHHHHHhcccccccccchHHHHHHHHHhccccccHHHHHHHHHHHHHH
Confidence              34666666666544443211      12233443333 23333 22334433322   22223      345555566


Q ss_pred             HHHHHcCCCCCHHHHH------HHHHHHH-H--CC----ChHHHHHHHHHHHh--cCC----CCChhhHHH---------
Q 038401          148 EEMREQGVKPDTVSYS------TLLNLYV-E--NH----KFVEALSVFAEMNE--VNC----PLDLTTCNI---------  199 (542)
Q Consensus       148 ~~~~~~g~~~~~~~~~------~l~~~~~-~--~g----~~~~a~~~~~~~~~--~~~----~~~~~~~~~---------  199 (542)
                      .++....+..-...|.      .=+.-.. +  .|    -+-.|...++++..  .|.    +.+..+++.         
T Consensus       185 ~ral~tP~~nleklW~dy~~fE~e~N~~TarKfvge~sp~ym~ar~~yqe~~nlt~Gl~v~~~~~~Rt~nK~~r~s~S~W  264 (660)
T COG5107         185 MRALQTPMGNLEKLWKDYENFELELNKITARKFVGETSPIYMSARQRYQEIQNLTRGLSVKNPINLRTANKAARTSDSNW  264 (660)
T ss_pred             HHHHcCccccHHHHHHHHHHHHHHHHHHHHHHHhcccCHHHHHHHHHHHHHHHHhccccccCchhhhhhccccccccchh
Confidence            6665431111111111      1111000 0  11    13345555555532  121    112222222         


Q ss_pred             --HHHHHhcc-----CC-H-HHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCcHHHHHHH
Q 038401          200 --MIDVYGQL-----DM-A-KDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTM  270 (542)
Q Consensus       200 --l~~~~~~~-----~~-~-~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  270 (542)
                        .|..-...     ++ . ...--++++.... +.....+|----.-+...++-+.|++..+.-...  .|+.  ...+
T Consensus       265 lNwIkwE~en~l~L~~~~~~qRi~y~~~q~~~y-~~~~~evw~dys~Y~~~isd~q~al~tv~rg~~~--spsL--~~~l  339 (660)
T COG5107         265 LNWIKWEMENGLKLGGRPHEQRIHYIHNQILDY-FYYAEEVWFDYSEYLIGISDKQKALKTVERGIEM--SPSL--TMFL  339 (660)
T ss_pred             hhHhhHhhcCCcccCCCcHHHHHHHHHHHHHHH-hhhhHHHHHHHHHHHhhccHHHHHHHHHHhcccC--CCch--heeH
Confidence              22211111     11 1 1122223332221 1223333433333444556666666555433321  1221  1111


Q ss_pred             HHHHHccCCHHHHHHHHHHHHH--------------cCC---------------CCCHHHHHHHHHHHHhcCCHHHHHHH
Q 038401          271 IKIYGKSLEHEKATNLMQEMQN--------------RGI---------------EPNAITYSTIIAIWGKAGKLDRAAML  321 (542)
Q Consensus       271 ~~~~~~~~~~~~a~~~~~~~~~--------------~~~---------------~p~~~~~~~l~~~~~~~~~~~~a~~~  321 (542)
                      ...|--.++.+.....|+...+              .+.               .-=...|...+....+...++.|..+
T Consensus       340 se~yel~nd~e~v~~~fdk~~q~L~r~ys~~~s~~~s~~D~N~e~~~Ell~kr~~k~t~v~C~~~N~v~r~~Gl~aaR~~  419 (660)
T COG5107         340 SEYYELVNDEEAVYGCFDKCTQDLKRKYSMGESESASKVDNNFEYSKELLLKRINKLTFVFCVHLNYVLRKRGLEAARKL  419 (660)
T ss_pred             HHHHhhcccHHHHhhhHHHHHHHHHHHHhhhhhhhhccccCCccccHHHHHHHHhhhhhHHHHHHHHHHHHhhHHHHHHH
Confidence            1112222222222222211100              000               01234566777777788889999999


Q ss_pred             HHHHHhcC-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcC--CCCCC-HHHHHHHHHHhCCHHHHHHHHHHHHHcCCC
Q 038401          322 FQKLRSSG-VEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQ--PNTIP-RETAITILARAGRIEEATWVFRQAFDAGEV  397 (542)
Q Consensus       322 ~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~-~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  397 (542)
                      |.++.+.+ ..++..++++++..+ ..|+...|.++|+.-..  ++... ....+..+...++-+.|..+|+..++. +.
T Consensus       420 F~k~rk~~~~~h~vyi~~A~~E~~-~~~d~~ta~~ifelGl~~f~d~~~y~~kyl~fLi~inde~naraLFetsv~r-~~  497 (660)
T COG5107         420 FIKLRKEGIVGHHVYIYCAFIEYY-ATGDRATAYNIFELGLLKFPDSTLYKEKYLLFLIRINDEENARALFETSVER-LE  497 (660)
T ss_pred             HHHHhccCCCCcceeeeHHHHHHH-hcCCcchHHHHHHHHHHhCCCchHHHHHHHHHHHHhCcHHHHHHHHHHhHHH-HH
Confidence            99999988 567888888888765 57888899999987543  33322 344567778899999999999977654 22


Q ss_pred             cC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 038401          398 KD--ISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSY  445 (542)
Q Consensus       398 ~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~  445 (542)
                      .+  ...|..++.--..-|+...+..+-+++..  +.|...+.......|
T Consensus       498 ~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e--~~pQen~~evF~Sry  545 (660)
T COG5107         498 KTQLKRIYDKMIEYESMVGSLNNVYSLEERFRE--LVPQENLIEVFTSRY  545 (660)
T ss_pred             HhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHH--HcCcHhHHHHHHHHH
Confidence            33  56788888888888999999988888887  446554444444333

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.41  E-value=0.023  Score=51.51  Aligned_cols=163  Identities=14%  Similarity=0.083  Sum_probs=98.6

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHhcCCC-------CCCHHHHHHHHHH---hCCHHHHHHHHHHHHHcCCCcCHHHHH
Q 038401          335 VLYQTMIVAYERVGLVAHAKRLLHELRQPN-------TIPRETAITILAR---AGRIEEATWVFRQAFDAGEVKDISVFG  404 (542)
Q Consensus       335 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-------~~~~~~l~~~~~~---~g~~~~A~~~~~~~~~~~~~~~~~~~~  404 (542)
                      .+...++-+|....+++..+++.+.+....       +..-...+-++.+   .|+.++|++++..++.....+++.+|.
T Consensus       142 div~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~g  221 (374)
T PF13281_consen  142 DIVINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLG  221 (374)
T ss_pred             hHHHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHH
Confidence            334455556777777777777777776531       1111123445555   788888888888866666678888888


Q ss_pred             HHHHHHHh---------cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCc----HHHHHHHH----HHHHHcCCC
Q 038401          405 CMIELFSR---------NKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLRE----FETADDLY----SEMQEEGCV  467 (542)
Q Consensus       405 ~l~~~~~~---------~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~----~~~A~~~~----~~~~~~~~~  467 (542)
                      .++..|-.         ....++|+..|.+.-+  +.|+..+-..++..+...|.    ..+..++-    ..+.+++..
T Consensus       222 L~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe--~~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~  299 (374)
T PF13281_consen  222 LLGRIYKDLFLESNFTDRESLDKAIEWYRKGFE--IEPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSL  299 (374)
T ss_pred             HHHHHHHHHHHHcCccchHHHHHHHHHHHHHHc--CCccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhccc
Confidence            88876632         2246778888887776  44655333333333333332    22333333    223344444


Q ss_pred             CchHHHHH---HHHHHhccCChHHHHHHHHHHhcC
Q 038401          468 FSDQVHFQ---MLSLYGARKDFNMLESLFERLDSD  499 (542)
Q Consensus       468 ~~~~~~~~---l~~~~~~~g~~~~A~~~~~~~~~~  499 (542)
                      .+...+|.   ++.+..-.|++++|.+..+++...
T Consensus       300 ~~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l  334 (374)
T PF13281_consen  300 EKMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKL  334 (374)
T ss_pred             cccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Confidence            44444444   677888899999999999996543

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.35  E-value=0.00084  Score=45.61  Aligned_cols=52  Identities=13%  Similarity=0.048  Sum_probs=33.8

Q ss_pred             HHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHHHHH
Q 038401          443 NSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLFERL  496 (542)
Q Consensus       443 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~~  496 (542)
                      ..|.+.+++++|.+++++++..+  |.+...+. .+.++.+.|++++|.+.+++.
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~   55 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELD--PDDPELWLQRARCLFQLGRYEEALEDLERA   55 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhC--cccchhhHHHHHHHHHhccHHHHHHHHHHH
Confidence            45667777777777777777765  22222333 677777777777777777773

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.32  E-value=0.058  Score=51.41  Aligned_cols=37  Identities=27%  Similarity=0.484  Sum_probs=20.6

Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHHHHHHHHH
Q 038401          145 LLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAE  184 (542)
Q Consensus       145 ~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  184 (542)
                      .-++++.++|-.|+...   +...++-.|++.+|-++|.+
T Consensus       621 ~EL~~~k~rge~P~~iL---lA~~~Ay~gKF~EAAklFk~  657 (1081)
T KOG1538|consen  621 SELEERKKRGETPNDLL---LADVFAYQGKFHEAAKLFKR  657 (1081)
T ss_pred             HHHHHHHhcCCCchHHH---HHHHHHhhhhHHHHHHHHHH
Confidence            33455666666566543   33444556666666666654

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=97.31  E-value=0.0077  Score=49.20  Aligned_cols=88  Identities=17%  Similarity=0.331  Sum_probs=46.5

Q ss_pred             ccHhHHHHHHHHHhc-----cCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHC----------------CChHHHHH
Q 038401          122 PDLVAYNTMINVFGK-----AKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVEN----------------HKFVEALS  180 (542)
Q Consensus       122 ~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~----------------g~~~~a~~  180 (542)
                      .+-.+|..++..|.+     .|..+-....+..|.+-|+.-|..+|+.|++.+=+.                .+.+-|++
T Consensus        45 k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i~  124 (228)
T PF06239_consen   45 KDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAID  124 (228)
T ss_pred             ccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHHH
Confidence            344555555555432     345555555666666666666666666666554321                12334555


Q ss_pred             HHHHHHhcCCCCChhhHHHHHHHHhccCC
Q 038401          181 VFAEMNEVNCPLDLTTCNIMIDVYGQLDM  209 (542)
Q Consensus       181 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  209 (542)
                      ++++|...|+-||..++..++..+.+.+.
T Consensus       125 lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  125 LLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             HHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence            55555555555555555555555544443

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=97.27  E-value=0.0029  Score=53.68  Aligned_cols=95  Identities=8%  Similarity=0.130  Sum_probs=60.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchH-HHHH-
Q 038401          402 VFGCMIELFSRNKKYANVIEVFEKMRSAGYFPD----SHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQ-VHFQ-  475 (542)
Q Consensus       402 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~-~~~~-  475 (542)
                      .|+.-+. +.+.|++.+|...|...++..  |+    ...+-.|+.++...|++++|..+|..+.+..+..|.. .... 
T Consensus       144 ~Y~~A~~-~~ksgdy~~A~~~F~~fi~~Y--P~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallK  220 (262)
T COG1729         144 LYNAALD-LYKSGDYAEAEQAFQAFIKKY--PNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLK  220 (262)
T ss_pred             HHHHHHH-HHHcCCHHHHHHHHHHHHHcC--CCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHH
Confidence            4555444 345666777777777777642  22    1334456777777777777777777777766444433 3333 


Q ss_pred             HHHHHhccCChHHHHHHHHHHhcC
Q 038401          476 MLSLYGARKDFNMLESLFERLDSD  499 (542)
Q Consensus       476 l~~~~~~~g~~~~A~~~~~~~~~~  499 (542)
                      ++.+..+.|+.++|...++++.+.
T Consensus       221 lg~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         221 LGVSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHH
Confidence            777777777777777777775443

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=97.25  E-value=0.016  Score=44.27  Aligned_cols=67  Identities=12%  Similarity=0.082  Sum_probs=43.0

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCC-CCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHH
Q 038401          406 MIELFSRNKKYANVIEVFEKMRSAG-YFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQV  472 (542)
Q Consensus       406 l~~~~~~~g~~~~A~~~~~~~~~~~-~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  472 (542)
                      -+....+.|++++|++.|+.+...- ..| ....-..++.+|.+.|++++|...+++.++.++..|+..
T Consensus        16 ~a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vd   84 (142)
T PF13512_consen   16 EAQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVD   84 (142)
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCcc
Confidence            3444556777788877777776641 111 224455677777777777777777777777775555433

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=97.25  E-value=0.033  Score=47.91  Aligned_cols=153  Identities=11%  Similarity=0.045  Sum_probs=103.1

Q ss_pred             HHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHH
Q 038401          374 ILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFET  453 (542)
Q Consensus       374 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~  453 (542)
                      .....|++.+|...|+.+.+... .+...--.++++|...|+.+.|..++..+....-.........-+..+.+.....+
T Consensus       143 ~~~~~e~~~~a~~~~~~al~~~~-~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~~  221 (304)
T COG3118         143 ELIEAEDFGEAAPLLKQALQAAP-ENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATPE  221 (304)
T ss_pred             hhhhccchhhHHHHHHHHHHhCc-ccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCCC
Confidence            35667888899999998887643 34556667889999999999999999887643211222222233444555555555


Q ss_pred             HHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHHHH-HhcCCCCCchhHHHHHHHHHHhhcchhhHHHHHHH
Q 038401          454 ADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLFER-LDSDSNINKKELHHVVAGIYERANRLNDASRIMNR  530 (542)
Q Consensus       454 A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  530 (542)
                      ...+-++.-. +  |.+..... ++..+...|+.++|.+.+-. ++.+-+..+...--.++.++...|..+.+...+++
T Consensus       222 ~~~l~~~~aa-d--Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~lle~f~~~g~~Dp~~~~~RR  297 (304)
T COG3118         222 IQDLQRRLAA-D--PDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKTLLELFEAFGPADPLVLAYRR  297 (304)
T ss_pred             HHHHHHHHHh-C--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHHHHHHHHhcCCCCHHHHHHHH
Confidence            5554444443 2  22333333 88999999999999877766 66666666778888899999888877765554444

>PRK11906 transcriptional regulator; Provisional

Probab=97.25  E-value=0.024  Score=52.35  Aligned_cols=111  Identities=9%  Similarity=0.106  Sum_probs=53.7

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchH-HHHHHHHHHhccCChHHHHHHHH
Q 038401          416 YANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQ-VHFQMLSLYGARKDFNMLESLFE  494 (542)
Q Consensus       416 ~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~  494 (542)
                      ..+|.++.++.++.+ +-|......++.+....|+.+.|...|+++...+  |... .++..+.++.-+|+.++|.+.++
T Consensus       320 ~~~a~~~A~rAveld-~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~--Pn~A~~~~~~~~~~~~~G~~~~a~~~i~  396 (458)
T PRK11906        320 AQKALELLDYVSDIT-TVDGKILAIMGLITGLSGQAKVSHILFEQAKIHS--TDIASLYYYRALVHFHNEKIEEARICID  396 (458)
T ss_pred             HHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHhhcchhhHHHHHHHHhhcC--CccHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            334455555555532 1144444445555555555666666666666655  1111 22225555555666666666666


Q ss_pred             H-HhcCCCCCchhHHHHHHHHHHhhcchhhHHHHHHH
Q 038401          495 R-LDSDSNINKKELHHVVAGIYERANRLNDASRIMNR  530 (542)
Q Consensus       495 ~-~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  530 (542)
                      + +..+|..-...+.-..++.|+.. ..++|+++|-+
T Consensus       397 ~alrLsP~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~  432 (458)
T PRK11906        397 KSLQLEPRRRKAVVIKECVDMYVPN-PLKNNIKLYYK  432 (458)
T ss_pred             HHhccCchhhHHHHHHHHHHHHcCC-chhhhHHHHhh
Confidence            6 44444433333333344455444 33555555443

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=97.23  E-value=0.18  Score=51.99  Aligned_cols=157  Identities=13%  Similarity=0.192  Sum_probs=96.3

Q ss_pred             cCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 038401          347 VGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKM  426 (542)
Q Consensus       347 ~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  426 (542)
                      .++++.|+.-+..+.   ...+........+.|-+.+|+.++..-.+    .-...|.+....+...+.+++|.-.|+..
T Consensus       893 L~ry~~AL~hLs~~~---~~~~~e~~n~I~kh~Ly~~aL~ly~~~~e----~~k~i~~~ya~hL~~~~~~~~Aal~Ye~~  965 (1265)
T KOG1920|consen  893 LKRYEDALSHLSECG---ETYFPECKNYIKKHGLYDEALALYKPDSE----KQKVIYEAYADHLREELMSDEAALMYERC  965 (1265)
T ss_pred             HHHHHHHHHHHHHcC---ccccHHHHHHHHhcccchhhhheeccCHH----HHHHHHHHHHHHHHHhccccHHHHHHHHh
Confidence            455666666555543   33455555666667777777766442211    12334555556666778888888887766


Q ss_pred             HhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHH---HHHHHHHhccCChHHHHHHHHHHhcCCCCC
Q 038401          427 RSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVH---FQMLSLYGARKDFNMLESLFERLDSDSNIN  503 (542)
Q Consensus       427 ~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~---~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  503 (542)
                      -+         ....+.+|..+|+|.+|..+..++...    -+...   ..|..-+...++.-+|.++....-.++   
T Consensus       966 Gk---------lekAl~a~~~~~dWr~~l~~a~ql~~~----~de~~~~a~~L~s~L~e~~kh~eAa~il~e~~sd~--- 1029 (1265)
T KOG1920|consen  966 GK---------LEKALKAYKECGDWREALSLAAQLSEG----KDELVILAEELVSRLVEQRKHYEAAKILLEYLSDP--- 1029 (1265)
T ss_pred             cc---------HHHHHHHHHHhccHHHHHHHHHhhcCC----HHHHHHHHHHHHHHHHHcccchhHHHHHHHHhcCH---
Confidence            43         123455777888888888887776542    22222   227777788888888887777654432   


Q ss_pred             chhHHHHHHHHHHhhcchhhHHHHHHHH
Q 038401          504 KKELHHVVAGIYERANRLNDASRIMNRM  531 (542)
Q Consensus       504 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~  531 (542)
                       ..+    ..+|+++-.|++|++.....
T Consensus      1030 -~~a----v~ll~ka~~~~eAlrva~~~ 1052 (1265)
T KOG1920|consen 1030 -EEA----VALLCKAKEWEEALRVASKA 1052 (1265)
T ss_pred             -HHH----HHHHhhHhHHHHHHHHHHhc
Confidence             223    34666677788887765543

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.22  E-value=0.041  Score=46.27  Aligned_cols=118  Identities=6%  Similarity=-0.051  Sum_probs=58.3

Q ss_pred             HhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-----HHHHHHHHHHHhccCcH
Q 038401          377 RAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPD-----SHIIALVLNSYGKLREF  451 (542)
Q Consensus       377 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-----~~~~~~l~~~~~~~g~~  451 (542)
                      -.|.+.-....+.+.++...+.++.....|++.-.+.|+.+.|...|++..+..-..|     ..........|.-++++
T Consensus       189 G~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a~i~lg~nn~  268 (366)
T KOG2796|consen  189 GMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSAFLHLGQNNF  268 (366)
T ss_pred             cchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhhhheecccch
Confidence            3455555556666666655445555566666666666666666666665443211111     12222222333445556


Q ss_pred             HHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHHHHH
Q 038401          452 ETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLFERL  496 (542)
Q Consensus       452 ~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~~  496 (542)
                      .+|...+.++.+.+.  .+..... -+-++.-.|+...|++.++.+
T Consensus       269 a~a~r~~~~i~~~D~--~~~~a~NnKALcllYlg~l~DAiK~~e~~  312 (366)
T KOG2796|consen  269 AEAHRFFTEILRMDP--RNAVANNNKALCLLYLGKLKDALKQLEAM  312 (366)
T ss_pred             HHHHHHHhhccccCC--CchhhhchHHHHHHHHHHHHHHHHHHHHH
Confidence            666666666655441  1112211 333333455566666666664

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.19  E-value=0.26  Score=48.14  Aligned_cols=341  Identities=12%  Similarity=0.096  Sum_probs=174.3

Q ss_pred             cCCCCCHHHHHH-----HHHHHHHCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCC---HHHHHHHHHHHHHCC
Q 038401          153 QGVKPDTVSYST-----LLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDM---AKDADRLFWSMRKMG  224 (542)
Q Consensus       153 ~g~~~~~~~~~~-----l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~  224 (542)
                      -|++.+..-|..     +++-+...+.+..|+++-..+...-.. +...|......+.+..+   .+.+..+-+++... 
T Consensus       426 ~gIplT~~qy~~l~~~~vi~Rl~~r~~Y~vaIQva~~l~~p~~~-~~~Vl~~Wa~~kI~~~d~~d~~vld~I~~kls~~-  503 (829)
T KOG2280|consen  426 IGIPLTHEQYRHLSEEVVIDRLVDRHLYSVAIQVAKLLNLPESQ-GDRVLLEWARRKIKQSDKMDEEVLDKIDEKLSAK-  503 (829)
T ss_pred             cCccccHHHHhhhchhhhhHHHHhcchhHHHHHHHHHhCCcccc-ccHHHHHHHHHHHhccCccchHHHHHHHHHhccc-
Confidence            366666655544     466677778888888877666432111 14556666666655532   22233333333322 


Q ss_pred             CCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCC----CcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHH
Q 038401          225 IDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIE----QNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAI  300 (542)
Q Consensus       225 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~  300 (542)
                      . ....+|..+.......|+.+-|..+++.-...+..    .+..-+...+.-+.+.|+.+....++-.+..+   .+..
T Consensus       504 ~-~~~iSy~~iA~~Ay~~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllhlk~~---~~~s  579 (829)
T KOG2280|consen  504 L-TPGISYAAIARRAYQEGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHLKNK---LNRS  579 (829)
T ss_pred             C-CCceeHHHHHHHHHhcCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHHHHH---HHHH
Confidence            2 33455777777777888888888777543222110    01122333444455556666655555555432   1111


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHh-c-----CCCCCCHHHHHHH
Q 038401          301 TYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHEL-R-----QPNTIPRETAITI  374 (542)
Q Consensus       301 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~-----~~~~~~~~~l~~~  374 (542)
                      .+...+      .+.-.|..+|.+..+..   +..   .+-+.|.+..+....-.+.-+- .     .............
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------RNQPLALSLYRQFMRHQ---DRA---TLYDFYNQDDNHQALASFHLQASYAAETIEGRIPALKTAANA  647 (829)
T ss_pred             HHHHHH------HhchhhhHHHHHHHHhh---chh---hhhhhhhcccchhhhhhhhhhhhhhhhhhcccchhHHHHHHH
Confidence            111111      22334445555444321   110   1111122222222211111110 0     0111112223333


Q ss_pred             HHHhCCHH---HH-------HHHHHHHHH-cCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 038401          375 LARAGRIE---EA-------TWVFRQAFD-AGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLN  443 (542)
Q Consensus       375 ~~~~g~~~---~A-------~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~  443 (542)
                      +.+.....   +|       +.+.+.... .+..-.--+.+--+.-+...|+..+|.++-.+..-    ||...|..-+.
T Consensus       648 ~a~sk~~s~e~ka~ed~~kLl~lQ~~Le~q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fki----pdKr~~wLk~~  723 (829)
T KOG2280|consen  648 FAKSKEKSFEAKALEDQMKLLKLQRTLEDQFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFKI----PDKRLWWLKLT  723 (829)
T ss_pred             HhhhhhhhhHHHHHHHHHHHHHHHHHHHHHhccccccCcHHHHHHHHHHccchHHHHHHHHhcCC----cchhhHHHHHH
Confidence            33332211   11       111222211 11112222344455567778888888887776653    78888888888


Q ss_pred             HHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhhcchh
Q 038401          444 SYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLFERLDSDSNINKKELHHVVAGIYERANRLN  522 (542)
Q Consensus       444 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  522 (542)
                      ++...++|++-+++-+...      + +..|. ...+|.+.|+.+||.+++.++...+         ..+..|.+.|++.
T Consensus       724 aLa~~~kweeLekfAkskk------s-PIGy~PFVe~c~~~~n~~EA~KYiprv~~l~---------ekv~ay~~~~~~~  787 (829)
T KOG2280|consen  724 ALADIKKWEELEKFAKSKK------S-PIGYLPFVEACLKQGNKDEAKKYIPRVGGLQ---------EKVKAYLRVGDVK  787 (829)
T ss_pred             HHHhhhhHHHHHHHHhccC------C-CCCchhHHHHHHhcccHHHHhhhhhccCChH---------HHHHHHHHhccHH
Confidence            8888899887766644432      1 34555 7888889999999999888765321         4566778888888


Q ss_pred             hHHHHHHHH
Q 038401          523 DASRIMNRM  531 (542)
Q Consensus       523 ~A~~~~~~~  531 (542)
                      +|.++.-+-
T Consensus       788 eAad~A~~~  796 (829)
T KOG2280|consen  788 EAADLAAEH  796 (829)
T ss_pred             HHHHHHHHh
Confidence            888765543

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.13  E-value=0.1  Score=47.54  Aligned_cols=163  Identities=9%  Similarity=0.002  Sum_probs=107.6

Q ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHcC---CCcCHHHHHHHHHHHHh---cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 038401          370 TAITILARAGRIEEATWVFRQAFDAG---EVKDISVFGCMIELFSR---NKKYANVIEVFEKMRSAGYFPDSHIIALVLN  443 (542)
Q Consensus       370 ~l~~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~~~~~l~~~~~~---~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~  443 (542)
                      .++-+|....+++.-+++.+.+...-   ......+-..++.++-+   .|+.++|+.++..++...-.+++.++..+++
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            44556778889999999999987641   11123333345566667   8999999999999776666688889988887


Q ss_pred             HHh----c-----cCcHHHHHHHHHHHHHcCCCCchHHH-HHHHHHHhccCChH----HHHHHH---HH-HhcCCC---C
Q 038401          444 SYG----K-----LREFETADDLYSEMQEEGCVFSDQVH-FQMLSLYGARKDFN----MLESLF---ER-LDSDSN---I  502 (542)
Q Consensus       444 ~~~----~-----~g~~~~A~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~g~~~----~A~~~~---~~-~~~~~~---~  502 (542)
                      .|-    .     ....++|+..|.+..+..   |+.-. ..++.++...|.-.    +..++-   .. +...+.   .
T Consensus       226 IyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~~---~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~~~  302 (374)
T PF13281_consen  226 IYKDLFLESNFTDRESLDKAIEWYRKGFEIE---PDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLEKM  302 (374)
T ss_pred             HHHHHHHHcCccchHHHHHHHHHHHHHHcCC---ccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhcccccc
Confidence            762    2     234789999999998875   33222 22455555555422    222222   11 112221   1


Q ss_pred             CchhHHHHHHHHHHhhcchhhHHHHHHHHHhcC
Q 038401          503 NKKELHHVVAGIYERANRLNDASRIMNRMNKRR  535 (542)
Q Consensus       503 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  535 (542)
                      .+.-.+..++.++.-.|++++|.+.+++|.+..
T Consensus       303 ~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~  335 (374)
T PF13281_consen  303 QDYWDVATLLEASVLAGDYEKAIQAAEKAFKLK  335 (374)
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcC
Confidence            233556678888889999999999999998765

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=97.12  E-value=0.084  Score=43.08  Aligned_cols=162  Identities=12%  Similarity=0.081  Sum_probs=76.4

Q ss_pred             CHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCCHHHHHHHHHHH
Q 038401          367 PRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGY-FPDSHIIALVLNSY  445 (542)
Q Consensus       367 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~p~~~~~~~l~~~~  445 (542)
                      .++.+.--+...|+++.|.+.|+...+.++..+....|.-+ ++.-.|++.-|.+-+.+.-+.+. .|-...|..+.   
T Consensus       101 vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi-~~YY~gR~~LAq~d~~~fYQ~D~~DPfR~LWLYl~---  176 (297)
T COG4785         101 VFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGI-ALYYGGRYKLAQDDLLAFYQDDPNDPFRSLWLYLN---  176 (297)
T ss_pred             HHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhccce-eeeecCchHhhHHHHHHHHhcCCCChHHHHHHHHH---
Confidence            34444455566677777777777776654433433333322 23345677777666665554321 11112222222   


Q ss_pred             hccCcHHHHHHHHHHHHHcCCCCchHHHHHHHHHHhccCChHHHHHHHHHHhcCCCCC----chhHHHHHHHHHHhhcch
Q 038401          446 GKLREFETADDLYSEMQEEGCVFSDQVHFQMLSLYGARKDFNMLESLFERLDSDSNIN----KKELHHVVAGIYERANRL  521 (542)
Q Consensus       446 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~g~~  521 (542)
                      .+.-++.+|..-+.+-.+..  ..+...+.++..|...=..+.+.+-+.....+ +..    -.+.|+.+++.|...|..
T Consensus       177 E~k~dP~~A~tnL~qR~~~~--d~e~WG~~iV~~yLgkiS~e~l~~~~~a~a~~-n~~~Ae~LTEtyFYL~K~~l~~G~~  253 (297)
T COG4785         177 EQKLDPKQAKTNLKQRAEKS--DKEQWGWNIVEFYLGKISEETLMERLKADATD-NTSLAEHLTETYFYLGKYYLSLGDL  253 (297)
T ss_pred             HhhCCHHHHHHHHHHHHHhc--cHhhhhHHHHHHHHhhccHHHHHHHHHhhccc-hHHHHHHHHHHHHHHHHHHhccccH
Confidence            23345555554443322211  12222223444443322222222222221110 000    125677777777777777


Q ss_pred             hhHHHHHHHHHhcC
Q 038401          522 NDASRIMNRMNKRR  535 (542)
Q Consensus       522 ~~A~~~~~~~~~~~  535 (542)
                      ++|..+|+-....+
T Consensus       254 ~~A~~LfKLaiann  267 (297)
T COG4785         254 DEATALFKLAVANN  267 (297)
T ss_pred             HHHHHHHHHHHHHh
Confidence            77777777665544

>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=97.10  E-value=0.0016  Score=44.91  Aligned_cols=63  Identities=14%  Similarity=0.336  Sum_probs=38.8

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhC--CCCC---C-HHHHHHHHHHHhccCcHHHHHHHHHHHHH
Q 038401          401 SVFGCMIELFSRNKKYANVIEVFEKMRSA--GYFP---D-SHIIALVLNSYGKLREFETADDLYSEMQE  463 (542)
Q Consensus       401 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~p---~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  463 (542)
                      .+++.+..+|...|++++|+..|++.++.  ...+   + ..++..++.+|...|++++|+++++++.+
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            45666777777777777777777776542  1111   1 24556666677777777777777776654

...

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=97.07  E-value=0.02  Score=51.41  Aligned_cols=96  Identities=10%  Similarity=0.146  Sum_probs=61.7

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHHHHHHHhccCChHHHHHHHHHH-hcCCCCCchhHHHHHHHHH
Q 038401          437 IIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQMLSLYGARKDFNMLESLFERL-DSDSNINKKELHHVVAGIY  515 (542)
Q Consensus       437 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~~~~l~~~~  515 (542)
                      ++..+..+|.+.+++.+|++..++.++.+ ....-..|.-+.++...|+++.|+..|+++ ..+|.  +..+-..++.+-
T Consensus       259 ~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~P~--Nka~~~el~~l~  335 (397)
T KOG0543|consen  259 CHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKALYRRGQALLALGEYDLARDDFQKALKLEPS--NKAARAELIKLK  335 (397)
T ss_pred             HhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhCCC--cHHHHHHHHHHH
Confidence            45556667778888888888888888766 112223444777888888888888888884 44554  455666666655


Q ss_pred             Hhhcchhh-HHHHHHHHHhcC
Q 038401          516 ERANRLND-ASRIMNRMNKRR  535 (542)
Q Consensus       516 ~~~g~~~~-A~~~~~~~~~~~  535 (542)
                      .+...+++ ..++|..|-.+-
T Consensus       336 ~k~~~~~~kekk~y~~mF~k~  356 (397)
T KOG0543|consen  336 QKIREYEEKEKKMYANMFAKL  356 (397)
T ss_pred             HHHHHHHHHHHHHHHHHhhcc
Confidence            55544433 366777776543

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.06  E-value=0.017  Score=50.21  Aligned_cols=112  Identities=8%  Similarity=-0.047  Sum_probs=44.9

Q ss_pred             cCCHHHHHHHHHHhcCCC---CCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCH----HHHHHHHHHHHhcCCHHHH
Q 038401          347 VGLVAHAKRLLHELRQPN---TIPRETAITILARAGRIEEATWVFRQAFDAGEVKDI----SVFGCMIELFSRNKKYANV  419 (542)
Q Consensus       347 ~~~~~~a~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~g~~~~A  419 (542)
                      .|...+|...++++.+..   ...+...-.++...|+.+.-...+++++.. ..++.    .+-..+..++...|-+++|
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            344444444444444322   222223334444455555555555554432 11221    1112222333344555555


Q ss_pred             HHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHH
Q 038401          420 IEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEM  461 (542)
Q Consensus       420 ~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~  461 (542)
                      ++.-++..+  +.| |.-....+...+...|+.+++.++.++-
T Consensus       195 Ek~A~ralq--iN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~t  235 (491)
T KOG2610|consen  195 EKQADRALQ--INRFDCWASHAKAHVLEMNGRHKEGKEFMYKT  235 (491)
T ss_pred             HHHHHhhcc--CCCcchHHHHHHHHHHHhcchhhhHHHHHHhc
Confidence            555554444  222 2222223333334445555555554443

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.05  E-value=0.0052  Score=41.64  Aligned_cols=55  Identities=18%  Similarity=0.254  Sum_probs=30.7

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcC
Q 038401          409 LFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEG  465 (542)
Q Consensus       409 ~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  465 (542)
                      .|.+.+++++|++++++++..  .| +...+...+.++.+.|++++|.+.++++.+..
T Consensus         4 ~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~   59 (73)
T PF13371_consen    4 IYLQQEDYEEALEVLERALEL--DPDDPELWLQRARCLFQLGRYEEALEDLERALELS   59 (73)
T ss_pred             HHHhCCCHHHHHHHHHHHHHh--CcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHC
Confidence            455556666666666666552  23 33444555555566666666666666666554

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=97.02  E-value=0.0078  Score=51.17  Aligned_cols=89  Identities=13%  Similarity=0.144  Sum_probs=38.1

Q ss_pred             HhCCHHHHHHHHHHHHHcCCCc--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-CCCC-CHHHHHHHHHHHhccCcHH
Q 038401          377 RAGRIEEATWVFRQAFDAGEVK--DISVFGCMIELFSRNKKYANVIEVFEKMRSA-GYFP-DSHIIALVLNSYGKLREFE  452 (542)
Q Consensus       377 ~~g~~~~A~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~  452 (542)
                      +.|++..|...|...++..+..  .+..+-.|+.++...|++++|..+|..+.+. +-.| -+..+.-+..+..+.|+.+
T Consensus       153 ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~~d  232 (262)
T COG1729         153 KSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGNTD  232 (262)
T ss_pred             HcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcCHH
Confidence            3444555555555554442211  1222333444444555555555555444432 1111 1234444444444455555


Q ss_pred             HHHHHHHHHHHcC
Q 038401          453 TADDLYSEMQEEG  465 (542)
Q Consensus       453 ~A~~~~~~~~~~~  465 (542)
                      +|...|+++.+..
T Consensus       233 ~A~atl~qv~k~Y  245 (262)
T COG1729         233 EACATLQQVIKRY  245 (262)
T ss_pred             HHHHHHHHHHHHC
Confidence            5555555554443

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=97.01  E-value=0.058  Score=42.62  Aligned_cols=69  Identities=22%  Similarity=0.297  Sum_probs=37.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHH-----cCCCCCHHH
Q 038401           92 YSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMRE-----QGVKPDTVS  161 (542)
Q Consensus        92 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~g~~~~~~~  161 (542)
                      ...++..+...|+++.|..+.+.+.... +-+...|..+|.++...|+...|.+.|+.+..     .|+.|+..+
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            3445555666666667766666666553 44566666666666667776666666666542     356565544

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=97.00  E-value=0.35  Score=46.20  Aligned_cols=410  Identities=10%  Similarity=0.079  Sum_probs=216.6

Q ss_pred             cHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCH-HhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHH
Q 038401           18 SVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDR-YTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLI   96 (542)
Q Consensus        18 ~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~   96 (542)
                      +...|+.++.---+..+.+.+..+++.++..  -|.. .-|......-.+.|..+.+.++|++-... ++.+...|....
T Consensus        44 ~f~~wt~li~~~~~~~~~~~~r~~y~~fL~k--yPl~~gyW~kfA~~E~klg~~~~s~~Vfergv~a-ip~SvdlW~~Y~  120 (577)
T KOG1258|consen   44 DFDAWTTLIQENDSIEDVDALREVYDIFLSK--YPLCYGYWKKFADYEYKLGNAENSVKVFERGVQA-IPLSVDLWLSYL  120 (577)
T ss_pred             cccchHHHHhccCchhHHHHHHHHHHHHHhh--CccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-hhhHHHHHHHHH
Confidence            3455666666555555666777777777754  2333 35556666666788888888888887764 566777776665


Q ss_pred             HHHH-hcCCHHHHHHHHHHhHhC-CCC-ccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH--
Q 038401           97 ELAR-KLSDYSKAISIFSRLKSS-GIV-PDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVE--  171 (542)
Q Consensus        97 ~~~~-~~~~~~~a~~~~~~~~~~-~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~--  171 (542)
                      ..+. ..|+.+.....|+..... |.. .+...|...|..-...+++.....++++..+.    ....++....-|.+  
T Consensus       121 ~f~~n~~~d~~~lr~~fe~A~~~vG~dF~S~~lWdkyie~en~qks~k~v~~iyeRilei----P~~~~~~~f~~f~~~l  196 (577)
T KOG1258|consen  121 AFLKNNNGDPETLRDLFERAKSYVGLDFLSDPLWDKYIEFENGQKSWKRVANIYERILEI----PLHQLNRHFDRFKQLL  196 (577)
T ss_pred             HHHhccCCCHHHHHHHHHHHHHhcccchhccHHHHHHHHHHhccccHHHHHHHHHHHHhh----hhhHhHHHHHHHHHHH
Confidence            5444 456777777888877653 221 24556777777777788888888888888874    23333333332221  


Q ss_pred             -CC------ChHHHHHHHHHHHhc-C---CCCChhhHHHHHHHHhc-cCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHH
Q 038401          172 -NH------KFVEALSVFAEMNEV-N---CPLDLTTCNIMIDVYGQ-LDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVY  239 (542)
Q Consensus       172 -~g------~~~~a~~~~~~~~~~-~---~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~  239 (542)
                       ..      ..+++.++-...... .   ..+....+..-+.-... .+..+.+..++.+..           ..--.++
T Consensus       197 ~~~~~~~l~~~d~~~~l~~~~~~~~~~~~~~~~~e~~~~~v~~~~~~s~~l~~~~~~l~~~~-----------~~~~~~~  265 (577)
T KOG1258|consen  197 NQNEEKILLSIDELIQLRSDVAERSKITHSQEPLEELEIGVKDSTDPSKSLTEEKTILKRIV-----------SIHEKVY  265 (577)
T ss_pred             hcCChhhhcCHHHHHHHhhhHHhhhhcccccChhHHHHHHHhhccCccchhhHHHHHHHHHH-----------HHHHHHH
Confidence             11      122222222111110 0   00000011111100000 000111111111000           0001112


Q ss_pred             HhcCcHHHHHHHHHHHHhc---CC----CCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Q 038401          240 GEAELFGEAIHLFRLMQRK---EI----EQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKA  312 (542)
Q Consensus       240 ~~~~~~~~a~~~~~~~~~~---~~----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  312 (542)
                      ...-........++.-...   .+    .++..+|...+..-...|+.+.+.-+++...-- +..=...|-..+.-....
T Consensus       266 ~~s~~~~~kr~~fE~~IkrpYfhvkpl~~aql~nw~~yLdf~i~~g~~~~~~~l~ercli~-cA~Y~efWiky~~~m~~~  344 (577)
T KOG1258|consen  266 QKSEEEEEKRWGFEEGIKRPYFHVKPLDQAQLKNWRYYLDFEITLGDFSRVFILFERCLIP-CALYDEFWIKYARWMESS  344 (577)
T ss_pred             HhhHhHHHHHHhhhhhccccccccCcccHHHHHHHHHHhhhhhhcccHHHHHHHHHHHHhH-HhhhHHHHHHHHHHHHHc
Confidence            2222223333333333332   11    234567888888888889999888888876532 111223444445545556


Q ss_pred             CCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHH---HHHHHHHHhCCHHHHH---H
Q 038401          313 GKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRE---TAITILARAGRIEEAT---W  386 (542)
Q Consensus       313 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~l~~~~~~~g~~~~A~---~  386 (542)
                      |+.+.|..++....+...+..+.+-..-.......|++..|..+++.+...-+....   .-+....+.|+.+.+.   +
T Consensus       345 ~~~~~~~~~~~~~~~i~~k~~~~i~L~~a~f~e~~~n~~~A~~~lq~i~~e~pg~v~~~l~~~~~e~r~~~~~~~~~~~~  424 (577)
T KOG1258|consen  345 GDVSLANNVLARACKIHVKKTPIIHLLEARFEESNGNFDDAKVILQRIESEYPGLVEVVLRKINWERRKGNLEDANYKNE  424 (577)
T ss_pred             CchhHHHHHHHhhhhhcCCCCcHHHHHHHHHHHhhccHHHHHHHHHHHHhhCCchhhhHHHHHhHHHHhcchhhhhHHHH
Confidence            888888888877766544433333322223344578899999998888753322222   1245567778888877   4


Q ss_pred             HHHHHHHcCCCcCHHHHHHHHHH-----HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccC
Q 038401          387 VFRQAFDAGEVKDISVFGCMIEL-----FSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLR  449 (542)
Q Consensus       387 ~~~~~~~~~~~~~~~~~~~l~~~-----~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g  449 (542)
                      ++....+.  ..+....+.+.--     +.-.++.+.|..++.++.+. ++++...|..+++.+...+
T Consensus       425 l~s~~~~~--~~~~~i~~~l~~~~~r~~~~i~~d~~~a~~~l~~~~~~-~~~~k~~~~~~~~~~~~~~  489 (577)
T KOG1258|consen  425 LYSSIYEG--KENNGILEKLYVKFARLRYKIREDADLARIILLEANDI-LPDCKVLYLELIRFELIQP  489 (577)
T ss_pred             HHHHhccc--ccCcchhHHHHHHHHHHHHHHhcCHHHHHHHHHHhhhc-CCccHHHHHHHHHHHHhCC
Confidence            44444332  1222222222211     23457888888888888873 3445566666666554443

>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=97.00  E-value=0.0031  Score=43.43  Aligned_cols=57  Identities=9%  Similarity=0.114  Sum_probs=27.3

Q ss_pred             HHHHHhccCChHHHHHHHHHHh----cCCCCC--chhHHHHHHHHHHhhcchhhHHHHHHHHH
Q 038401          476 MLSLYGARKDFNMLESLFERLD----SDSNIN--KKELHHVVAGIYERANRLNDASRIMNRMN  532 (542)
Q Consensus       476 l~~~~~~~g~~~~A~~~~~~~~----~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  532 (542)
                      ++.+|...|++++|+..+++..    ..++..  ....+..++.+|...|++++|++++++..
T Consensus        11 la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al   73 (78)
T PF13424_consen   11 LARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKAL   73 (78)
T ss_dssp             HHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4455555555555555555421    111111  12445556666666666666666666543

...

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=96.95  E-value=0.27  Score=44.15  Aligned_cols=218  Identities=11%  Similarity=0.013  Sum_probs=111.0

Q ss_pred             hcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcC-CCCCHHH--HHHHHHHH---HhcCC
Q 038401          241 EAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRG-IEPNAIT--YSTIIAIW---GKAGK  314 (542)
Q Consensus       241 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~p~~~~--~~~l~~~~---~~~~~  314 (542)
                      +.|..+.|.++-+.....- +.-...+...+...+..|+++.|+++++.-+... +.++..-  -..|+.+-   .-.-+
T Consensus       166 r~GareaAr~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldad  244 (531)
T COG3898         166 RLGAREAARHYAERAAEKA-PQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDAD  244 (531)
T ss_pred             hcccHHHHHHHHHHHHhhc-cCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCC
Confidence            4444454444444443321 1122344455555555555555555554433321 1222211  11111110   01223


Q ss_pred             HHHHHHHHHHHHhcCCCCCHHH-HHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCHHHHHHHHHHHH-
Q 038401          315 LDRAAMLFQKLRSSGVEIDPVL-YQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFRQAF-  392 (542)
Q Consensus       315 ~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-  392 (542)
                      ...|...-.+..+.  .||..- ...-..++.+.|+..++-.+++.+-+..+.+-........+.|+.  ++.-++++. 
T Consensus       245 p~~Ar~~A~~a~KL--~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~ePHP~ia~lY~~ar~gdt--a~dRlkRa~~  320 (531)
T COG3898         245 PASARDDALEANKL--APDLVPAAVVAARALFRDGNLRKGSKILETAWKAEPHPDIALLYVRARSGDT--ALDRLKRAKK  320 (531)
T ss_pred             hHHHHHHHHHHhhc--CCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCCChHHHHHHHHhcCCCc--HHHHHHHHHH
Confidence            44455444444443  233211 122234566777777777777776555444444333334444433  222222222 


Q ss_pred             -HcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHh-ccCcHHHHHHHHHHHHHcC
Q 038401          393 -DAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYG-KLREFETADDLYSEMQEEG  465 (542)
Q Consensus       393 -~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~-~~g~~~~A~~~~~~~~~~~  465 (542)
                       +.-.+.+......+..+....|++..|..--+....  ..|....|..+.+.-. ..|+-.++..++.+.++..
T Consensus       321 L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r--~~pres~~lLlAdIeeAetGDqg~vR~wlAqav~AP  393 (531)
T COG3898         321 LESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAAR--EAPRESAYLLLADIEEAETGDQGKVRQWLAQAVKAP  393 (531)
T ss_pred             HHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHhh--hCchhhHHHHHHHHHhhccCchHHHHHHHHHHhcCC
Confidence             221234566666777777788888888877777766  5577777777776554 4588888888888888753

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=96.94  E-value=0.29  Score=44.22  Aligned_cols=56  Identities=14%  Similarity=0.102  Sum_probs=25.6

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCHHHHHHHHHH
Q 038401          333 DPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFRQ  390 (542)
Q Consensus       333 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  390 (542)
                      +...|...+.+++..++|++-.++...  +..|..+...+..|.+.|+..+|..+..+
T Consensus       207 dkrfw~lki~aLa~~~~w~eL~~fa~s--kKsPIGyepFv~~~~~~~~~~eA~~yI~k  262 (319)
T PF04840_consen  207 DKRFWWLKIKALAENKDWDELEKFAKS--KKSPIGYEPFVEACLKYGNKKEASKYIPK  262 (319)
T ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHhC--CCCCCChHHHHHHHHHCCCHHHHHHHHHh
Confidence            444444444444444444444443322  23444444455555555555444444443

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

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.93  E-value=0.2  Score=42.32  Aligned_cols=127  Identities=9%  Similarity=0.069  Sum_probs=79.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcC----CCCCCHHH-----HH
Q 038401          302 YSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQ----PNTIPRET-----AI  372 (542)
Q Consensus       302 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~-----l~  372 (542)
                      ...++..+...|.+.-....+.+.++...+.++.....+++.-.+.|+.+.|...|++..+    -+......     ..
T Consensus       180 my~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a  259 (366)
T KOG2796|consen  180 MYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSA  259 (366)
T ss_pred             HHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhh
Confidence            3455556666777777777777777776666777777788777788888888777775542    11111111     12


Q ss_pred             HHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 038401          373 TILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSA  429 (542)
Q Consensus       373 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  429 (542)
                      ..+.-.+++..|...+.+++..+ +.++...|.-.-+..-.|+..+|++.++.|+..
T Consensus       260 ~i~lg~nn~a~a~r~~~~i~~~D-~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~  315 (366)
T KOG2796|consen  260 FLHLGQNNFAEAHRFFTEILRMD-PRNAVANNNKALCLLYLGKLKDALKQLEAMVQQ  315 (366)
T ss_pred             hheecccchHHHHHHHhhccccC-CCchhhhchHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            33444566666666676666653 245555555555555667777777777777763

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=96.89  E-value=0.35  Score=44.43  Aligned_cols=433  Identities=13%  Similarity=0.139  Sum_probs=223.9

Q ss_pred             hhhhhHHHHhhCCCCCcH----HHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHH--HhccCCHHHHHH
Q 038401            2 SVAILDWINEEARYSPSV----FAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITC--FGKEGMFDSAIS   75 (542)
Q Consensus         2 A~~~~~~~~~~~~~~~~~----~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~g~~~~a~~   75 (542)
                      |-++|..+.++.--.|..    ..-+.++++|... +.+.....+....+..  | ...|-.+..+  +.+.+.++.|++
T Consensus        25 sEkifskI~~e~~~~~f~lkeEvl~grilnAffl~-nld~Me~~l~~l~~~~--~-~s~~l~LF~~L~~Y~~k~~~kal~  100 (549)
T PF07079_consen   25 SEKIFSKIYDEKESSPFLLKEEVLGGRILNAFFLN-NLDLMEKQLMELRQQF--G-KSAYLPLFKALVAYKQKEYRKALQ  100 (549)
T ss_pred             HHHHHHHHHHHhhcchHHHHHHHHhhHHHHHHHHh-hHHHHHHHHHHHHHhc--C-CchHHHHHHHHHHHHhhhHHHHHH
Confidence            445666665543223322    2345667777654 5555555555555542  2 2234444443  357899999999


Q ss_pred             HHHHHHhC--CCCC------------CHHhHHHHHHHHHhcCCHHHHHHHHHHhHhCC----CCccHhHHHHHHHHHhcc
Q 038401           76 WLQQMEQD--RVSG------------DLVLYSNLIELARKLSDYSKAISIFSRLKSSG----IVPDLVAYNTMINVFGKA  137 (542)
Q Consensus        76 ~~~~~~~~--~~~~------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~~~~~l~~~~~~~  137 (542)
                      .+......  +..+            |...-+..+..+...|++.++..+++++...=    ..-+..+|+.++-.++++
T Consensus       101 ~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~~vlmlsrS  180 (549)
T PF07079_consen  101 ALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDRAVLMLSRS  180 (549)
T ss_pred             HHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHHHHHHHhHH
Confidence            88776554  2221            22223456678889999999999999887542    235778888866655542


Q ss_pred             CcHHHHHHHHHHHHHc---CCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccC--CHHH
Q 038401          138 KLFKEARLLIEEMREQ---GVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLD--MAKD  212 (542)
Q Consensus       138 ~~~~~a~~~~~~~~~~---g~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~  212 (542)
                              .|-++.+.   .+-|+   |.-++-.|.+.=+      .++.-.-..+-|.......++....-..  ...-
T Consensus       181 --------YfLEl~e~~s~dl~pd---yYemilfY~kki~------~~d~~~Y~k~~peeeL~s~imqhlfi~p~e~l~~  243 (549)
T PF07079_consen  181 --------YFLELKESMSSDLYPD---YYEMILFYLKKIH------AFDQRPYEKFIPEEELFSTIMQHLFIVPKERLPP  243 (549)
T ss_pred             --------HHHHHHHhcccccChH---HHHHHHHHHHHHH------HHhhchHHhhCcHHHHHHHHHHHHHhCCHhhccH
Confidence                    33333221   12222   2233333332111      0111000011222222333332222111  1112


Q ss_pred             HHHHHHHHHHCCCCCChh-HHHHHHHHHHhcCcHHHHHHHHHHHHhcCCC----CcHHHHHHHHHHHHccCCHHHHHHHH
Q 038401          213 ADRLFWSMRKMGIDPSVV-SYNTLLRVYGEAELFGEAIHLFRLMQRKEIE----QNVVTYNTMIKIYGKSLEHEKATNLM  287 (542)
Q Consensus       213 a~~~~~~~~~~~~~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~  287 (542)
                      -.++++.-...-+.|+-. +...+...+.+  +.+++..+.+.+....+.    .=..+|..++....+.++...|...+
T Consensus       244 ~mq~l~~We~~yv~p~~~LVi~~L~~~f~~--~~e~~~~~ce~ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l  321 (549)
T PF07079_consen  244 LMQILENWENFYVHPNYDLVIEPLKQQFMS--DPEQVGHFCEAIASSKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYL  321 (549)
T ss_pred             HHHHHHHHHhhccCCchhHHHHHHHHHHhc--ChHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Confidence            223333333333344422 22233333332  444444444444332111    12346777777778888888888877


Q ss_pred             HHHHHcCCCCCHHHHHHH-------HHHHH----hcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHH---HHHcCC-HHH
Q 038401          288 QEMQNRGIEPNAITYSTI-------IAIWG----KAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVA---YERVGL-VAH  352 (542)
Q Consensus       288 ~~~~~~~~~p~~~~~~~l-------~~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~---~~~~~~-~~~  352 (542)
                      .-+...  .|+...-..+       .+..+    ..-+...-+.+|+.....++. .......|+.+   +-+.|. -++
T Consensus       322 ~lL~~l--dp~~svs~Kllls~~~lq~Iv~~DD~~~Tklr~yL~lwe~~qs~DiD-rqQLvh~L~~~Ak~lW~~g~~dek  398 (549)
T PF07079_consen  322 ALLKIL--DPRISVSEKLLLSPKVLQDIVCEDDESYTKLRDYLNLWEEIQSYDID-RQQLVHYLVFGAKHLWEIGQCDEK  398 (549)
T ss_pred             HHHHhc--CCcchhhhhhhcCHHHHHHHHhcchHHHHHHHHHHHHHHHHHhhccc-HHHHHHHHHHHHHHHHhcCCccHH
Confidence            766654  3433321111       11111    111233345556666555432 12222223322   344554 778


Q ss_pred             HHHHHHHhcCCCCCCH---HHHH----HHH---HHhCCHHHHHHHHHHHHHcCCCc----CHHHHHHHHHH--HHhcCCH
Q 038401          353 AKRLLHELRQPNTIPR---ETAI----TIL---ARAGRIEEATWVFRQAFDAGEVK----DISVFGCMIEL--FSRNKKY  416 (542)
Q Consensus       353 a~~~~~~~~~~~~~~~---~~l~----~~~---~~~g~~~~A~~~~~~~~~~~~~~----~~~~~~~l~~~--~~~~g~~  416 (542)
                      |+++++.+.+-.....   +.+.    ..|   .....+.+-+.+-.-+.+.|.+|    +...-|.|.++  +..+|++
T Consensus       399 alnLLk~il~ft~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~~i~i~e~eian~LaDAEyLysqgey  478 (549)
T PF07079_consen  399 ALNLLKLILQFTNYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLTPITISEEEIANFLADAEYLYSQGEY  478 (549)
T ss_pred             HHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCcccccHHHHHHHHHHHHHHHhcccH
Confidence            8888888765322221   1111    111   12234444444545555667665    34455666655  4578999


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHH
Q 038401          417 ANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQ  462 (542)
Q Consensus       417 ~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  462 (542)
                      .++.-.-.-+.+  +.|++.+|..++-++....++++|..++..+.
T Consensus       479 ~kc~~ys~WL~~--iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~~LP  522 (549)
T PF07079_consen  479 HKCYLYSSWLTK--IAPSPQAYRLLGLCLMENKRYQEAWEYLQKLP  522 (549)
T ss_pred             HHHHHHHHHHHH--hCCcHHHHHHHHHHHHHHhhHHHHHHHHHhCC
Confidence            999888777777  77999999999999999999999999998764

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=96.87  E-value=0.048  Score=41.70  Aligned_cols=50  Identities=10%  Similarity=0.082  Sum_probs=22.1

Q ss_pred             hccCcHHHHHHHHHHHHHcCCCCchHH--HHHHHHHHhccCChHHHHHHHHH
Q 038401          446 GKLREFETADDLYSEMQEEGCVFSDQV--HFQMLSLYGARKDFNMLESLFER  495 (542)
Q Consensus       446 ~~~g~~~~A~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~g~~~~A~~~~~~  495 (542)
                      .+.|++++|.+.|+.+....+..+-..  ...++.+|.+.|++++|+..+++
T Consensus        21 l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~r   72 (142)
T PF13512_consen   21 LQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDR   72 (142)
T ss_pred             HHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            344555555555555554432222111  11144455555555555555555

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.86  E-value=0.071  Score=51.28  Aligned_cols=116  Identities=13%  Similarity=0.082  Sum_probs=69.3

Q ss_pred             hCCHHHHHHHHHHHHHcCCCcCHHHHH-HHHHHHHhcCCHHHHHHHHHHHHhCC-CCC--CHHHHHHHHHHHhccCcHHH
Q 038401          378 AGRIEEATWVFRQAFDAGEVKDISVFG-CMIELFSRNKKYANVIEVFEKMRSAG-YFP--DSHIIALVLNSYGKLREFET  453 (542)
Q Consensus       378 ~g~~~~A~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~g~~~~A~~~~~~~~~~~-~~p--~~~~~~~l~~~~~~~g~~~~  453 (542)
                      ..+.+.|.++++.+.+. . |+...|. .-.+.+...|+.++|++.|+++.... -.|  ....+--++..+.-.++|++
T Consensus       246 ~~~~~~a~~lL~~~~~~-y-P~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~  323 (468)
T PF10300_consen  246 DVPLEEAEELLEEMLKR-Y-PNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEE  323 (468)
T ss_pred             CCCHHHHHHHHHHHHHh-C-CCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHH
Confidence            34566777777777765 2 3433332 33455666778888888877665311 111  12233345566677778888


Q ss_pred             HHHHHHHHHHcCCCCchHHHHH--HHHHHhccCCh-------HHHHHHHHHHh
Q 038401          454 ADDLYSEMQEEGCVFSDQVHFQ--MLSLYGARKDF-------NMLESLFERLD  497 (542)
Q Consensus       454 A~~~~~~~~~~~~~~~~~~~~~--l~~~~~~~g~~-------~~A~~~~~~~~  497 (542)
                      |...|.++.+.+  ......|.  .+.++...|+.       ++|.++|++++
T Consensus       324 A~~~f~~L~~~s--~WSka~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp  374 (468)
T PF10300_consen  324 AAEYFLRLLKES--KWSKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVP  374 (468)
T ss_pred             HHHHHHHHHhcc--ccHHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHH
Confidence            888888887765  12233333  55666677777       77777777753

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.

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=96.84  E-value=0.14  Score=45.30  Aligned_cols=54  Identities=17%  Similarity=0.156  Sum_probs=24.0

Q ss_pred             HHHHHhCCHHHHHHHHHHHHHcCC-----CcCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 038401          373 TILARAGRIEEATWVFRQAFDAGE-----VKDISVFGCMIELFSRNKKYANVIEVFEKM  426 (542)
Q Consensus       373 ~~~~~~g~~~~A~~~~~~~~~~~~-----~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  426 (542)
                      .+....+.++++++.|+.+.+-..     .....++-.|...|.+..++++|.-+..++
T Consensus       130 ~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~~Kal~f~~kA  188 (518)
T KOG1941|consen  130 NAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDYEKALFFPCKA  188 (518)
T ss_pred             HHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhhhHHhhhhHhH
Confidence            334444445555555554443110     011234445555555555555555444443

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=96.78  E-value=0.036  Score=40.99  Aligned_cols=91  Identities=15%  Similarity=0.100  Sum_probs=55.8

Q ss_pred             HHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH---HHHHHHHHHHhccCc
Q 038401          374 ILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDS---HIIALVLNSYGKLRE  450 (542)
Q Consensus       374 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~---~~~~~l~~~~~~~g~  450 (542)
                      ++...|+.+.|++.|.+.+.. .+..+..||.-..++.-+|+.++|++-+++.++..-....   ..|..-...|...|+
T Consensus        52 alaE~g~Ld~AlE~F~qal~l-~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~  130 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCL-APERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGN  130 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHh-cccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCc
Confidence            345567777777777777665 3345667777777777777777777777777664111111   223333345556677


Q ss_pred             HHHHHHHHHHHHHcC
Q 038401          451 FETADDLYSEMQEEG  465 (542)
Q Consensus       451 ~~~A~~~~~~~~~~~  465 (542)
                      .+.|+.-|+.+.+.|
T Consensus       131 dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  131 DDAARADFEAAAQLG  145 (175)
T ss_pred             hHHHHHhHHHHHHhC
Confidence            777777777766665

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.76  E-value=0.11  Score=41.73  Aligned_cols=117  Identities=8%  Similarity=0.016  Sum_probs=78.5

Q ss_pred             HHHHHHHHHHhCCCCCCHHH--HHHHHHHHhccCcHHHHHHHHHHHHHcCCCCc-hHH-HHHHHHHHhccCChHHHHHHH
Q 038401          418 NVIEVFEKMRSAGYFPDSHI--IALVLNSYGKLREFETADDLYSEMQEEGCVFS-DQV-HFQMLSLYGARKDFNMLESLF  493 (542)
Q Consensus       418 ~A~~~~~~~~~~~~~p~~~~--~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~~-~~~l~~~~~~~g~~~~A~~~~  493 (542)
                      +.....+++....-......  -..+...+...|++++|...++..+....... ... ...++.+....|.+|+|...+
T Consensus        70 ~~~~~~ekf~~~n~~t~Ya~laaL~lAk~~ve~~~~d~A~aqL~~~l~~t~De~lk~l~~lRLArvq~q~~k~D~AL~~L  149 (207)
T COG2976          70 KSIAAAEKFVQANGKTIYAVLAALELAKAEVEANNLDKAEAQLKQALAQTKDENLKALAALRLARVQLQQKKADAALKTL  149 (207)
T ss_pred             hhHHHHHHHHhhccccHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccchhHHHHHHHHHHHHHHHHHhhhHHHHHHHH
Confidence            44455556655321111122  22355677889999999999998886431101 111 222788899999999999999


Q ss_pred             HHHhcCCCCCchhHHHHHHHHHHhhcchhhHHHHHHHHHhcCC
Q 038401          494 ERLDSDSNINKKELHHVVAGIYERANRLNDASRIMNRMNKRRT  536 (542)
Q Consensus       494 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  536 (542)
                      +.......  .+..-..-++++...|+.++|+.-|++.+..+.
T Consensus       150 ~t~~~~~w--~~~~~elrGDill~kg~k~~Ar~ay~kAl~~~~  190 (207)
T COG2976         150 DTIKEESW--AAIVAELRGDILLAKGDKQEARAAYEKALESDA  190 (207)
T ss_pred             hccccccH--HHHHHHHhhhHHHHcCchHHHHHHHHHHHHccC
Confidence            98764432  233456778999999999999999999988763

>PRK11906 transcriptional regulator; Provisional

Probab=96.76  E-value=0.094  Score=48.61  Aligned_cols=110  Identities=10%  Similarity=-0.033  Sum_probs=85.2

Q ss_pred             CCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHhccCcHHHHHHH
Q 038401          379 GRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDS-HIIALVLNSYGKLREFETADDL  457 (542)
Q Consensus       379 g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~  457 (542)
                      ....+|.+..+++++.+ +.|+.....++.+....++++.|...|++...  +.||. .+|......+.-.|+.++|.+.
T Consensus       318 ~~~~~a~~~A~rAveld-~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~--L~Pn~A~~~~~~~~~~~~~G~~~~a~~~  394 (458)
T PRK11906        318 LAAQKALELLDYVSDIT-TVDGKILAIMGLITGLSGQAKVSHILFEQAKI--HSTDIASLYYYRALVHFHNEKIEEARIC  394 (458)
T ss_pred             HHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHhhcchhhHHHHHHHHhh--cCCccHHHHHHHHHHHHHcCCHHHHHHH
Confidence            34567888888888875 47888888899888888999999999999998  55865 6676777777889999999999


Q ss_pred             HHHHHHcCCCCchHHHHH----HHHHHhccCChHHHHHHHHH
Q 038401          458 YSEMQEEGCVFSDQVHFQ----MLSLYGARKDFNMLESLFER  495 (542)
Q Consensus       458 ~~~~~~~~~~~~~~~~~~----l~~~~~~~g~~~~A~~~~~~  495 (542)
                      ++++.+..   |......    .+..|+..+ .+.|++++-+
T Consensus       395 i~~alrLs---P~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~  432 (458)
T PRK11906        395 IDKSLQLE---PRRRKAVVIKECVDMYVPNP-LKNNIKLYYK  432 (458)
T ss_pred             HHHHhccC---chhhHHHHHHHHHHHHcCCc-hhhhHHHHhh
Confidence            99999976   5443333    334555554 6777777765

>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=96.76  E-value=0.02  Score=45.32  Aligned_cols=73  Identities=18%  Similarity=0.222  Sum_probs=48.5

Q ss_pred             HhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHhHh-----CCCCccHhHHH
Q 038401           55 YTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKS-----SGIVPDLVAYN  128 (542)
Q Consensus        55 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~  128 (542)
                      .+...++..+...|++++|.++.+.+.... +.+...|..+|.++...|+...|.+.|+.+..     .|+.|++.+-.
T Consensus        63 ~~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~~  140 (146)
T PF03704_consen   63 DALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETRA  140 (146)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHHH
T ss_pred             HHHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHHH
Confidence            356667777777888888888888887764 33777888888888888888888888877643     47777766543

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=96.73  E-value=0.42  Score=43.19  Aligned_cols=108  Identities=17%  Similarity=0.242  Sum_probs=70.0

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHH
Q 038401          266 TYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYE  345 (542)
Q Consensus       266 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  345 (542)
                      +.+..+.-+...|+...|.++-.+..    .|+...|...+.+++..++|++-..+...      .-++.-|..++.+|.
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~  248 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACL  248 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHH
Confidence            34445566666777777776655553    46777777777777777777766554321      123456777777777


Q ss_pred             HcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCHHHHHHHHH
Q 038401          346 RVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFR  389 (542)
Q Consensus       346 ~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  389 (542)
                      +.|...+|..++..+      +...-+..|.++|.+.+|.+.--
T Consensus       249 ~~~~~~eA~~yI~k~------~~~~rv~~y~~~~~~~~A~~~A~  286 (319)
T PF04840_consen  249 KYGNKKEASKYIPKI------PDEERVEMYLKCGDYKEAAQEAF  286 (319)
T ss_pred             HCCCHHHHHHHHHhC------ChHHHHHHHHHCCCHHHHHHHHH
Confidence            777777777777662      23556677777777777765533

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

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.69  E-value=0.0097  Score=54.73  Aligned_cols=93  Identities=13%  Similarity=0.100  Sum_probs=63.5

Q ss_pred             CHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcC-H---HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 038401          367 PRETAITILARAGRIEEATWVFRQAFDAGEVKD-I---SVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVL  442 (542)
Q Consensus       367 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~-~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~  442 (542)
                      .+..+..+|.+.|++++|+..|+++++..  |+ .   .+|..+..+|...|+.++|+..++++++.+ .|   .|..+.
T Consensus        77 a~~NLG~AL~~lGryeEAIa~f~rALeL~--Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALels-n~---~f~~i~  150 (453)
T PLN03098         77 DAVNLGLSLFSKGRVKDALAQFETALELN--PNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRDY-NL---KFSTIL  150 (453)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhc-ch---hHHHHH
Confidence            35667788889999999999999998864  43 3   358888999999999999999999998842 12   222111


Q ss_pred             H--HHhccCcHHHHHHHHHHHHHcC
Q 038401          443 N--SYGKLREFETADDLYSEMQEEG  465 (542)
Q Consensus       443 ~--~~~~~g~~~~A~~~~~~~~~~~  465 (542)
                      .  .+....+.++..++++.+.+-+
T Consensus       151 ~DpdL~plR~~pef~eLlee~rk~G  175 (453)
T PLN03098        151 NDPDLAPFRASPEFKELQEEARKGG  175 (453)
T ss_pred             hCcchhhhcccHHHHHHHHHHHHhC
Confidence            1  1112234446666666666655

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.69  E-value=0.094  Score=45.25  Aligned_cols=124  Identities=14%  Similarity=0.156  Sum_probs=96.0

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccC
Q 038401          407 IELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARK  484 (542)
Q Consensus       407 ~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g  484 (542)
                      .......|++.+|..+|+......  | +......++.+|...|+.+.|..++..+..... ........ -+..+.+..
T Consensus       141 ~~~~~~~e~~~~a~~~~~~al~~~--~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~-~~~~~~l~a~i~ll~qaa  217 (304)
T COG3118         141 AKELIEAEDFGEAAPLLKQALQAA--PENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQ-DKAAHGLQAQIELLEQAA  217 (304)
T ss_pred             hhhhhhccchhhHHHHHHHHHHhC--cccchHHHHHHHHHHHcCChHHHHHHHHhCcccch-hhHHHHHHHHHHHHHHHh
Confidence            334567899999999999998843  4 456677889999999999999999999876541 11112211 456777888


Q ss_pred             ChHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhhcchhhHHHHHHHHHhcC
Q 038401          485 DFNMLESLFERLDSDSNINKKELHHVVAGIYERANRLNDASRIMNRMNKRR  535 (542)
Q Consensus       485 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  535 (542)
                      ...+...+-+++..+|+  +...-+.++..|...|+.++|.+.+-.+.+++
T Consensus       218 ~~~~~~~l~~~~aadPd--d~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d  266 (304)
T COG3118         218 ATPEIQDLQRRLAADPD--DVEAALALADQLHLVGRNEAALEHLLALLRRD  266 (304)
T ss_pred             cCCCHHHHHHHHHhCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhc
Confidence            88888888888888886  55678899999999999999999988877653

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=96.67  E-value=0.55  Score=43.93  Aligned_cols=97  Identities=18%  Similarity=0.160  Sum_probs=60.2

Q ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHcCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH--HHHHHHHHHH
Q 038401          369 ETAITILARAGRIEEATWVFRQAFDAGEVK-DISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDS--HIIALVLNSY  445 (542)
Q Consensus       369 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~--~~~~~l~~~~  445 (542)
                      ..+..++.+.|+.++|++.++++.+..+.. +..+...|+.++...+.+.++..++.+--+... |.+  ..|+..+--+
T Consensus       263 rRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~l-pkSAti~YTaALLka  341 (539)
T PF04184_consen  263 RRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISL-PKSATICYTAALLKA  341 (539)
T ss_pred             HHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccC-CchHHHHHHHHHHHH
Confidence            345666677788888888888887653322 344566788888888888888888887654322 433  3344433222


Q ss_pred             hccCc---------------HHHHHHHHHHHHHcCC
Q 038401          446 GKLRE---------------FETADDLYSEMQEEGC  466 (542)
Q Consensus       446 ~~~g~---------------~~~A~~~~~~~~~~~~  466 (542)
                      ...++               -..|.+.+.++.+.++
T Consensus       342 Rav~d~fs~e~a~rRGls~ae~~aveAi~RAvefNP  377 (539)
T PF04184_consen  342 RAVGDKFSPEAASRRGLSPAEMNAVEAIHRAVEFNP  377 (539)
T ss_pred             HhhccccCchhhhhcCCChhHHHHHHHHHHHHHhCC
Confidence            22222               1246677888887763

The molecular function of this protein is uncertain.

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.67  E-value=0.15  Score=40.10  Aligned_cols=123  Identities=13%  Similarity=0.112  Sum_probs=64.0

Q ss_pred             HHHhCCHHHHHHHHHHHHHcCCCcCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH-HHH--HHHHHHhccCc
Q 038401          375 LARAGRIEEATWVFRQAFDAGEVKDIS-VFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSH-IIA--LVLNSYGKLRE  450 (542)
Q Consensus       375 ~~~~g~~~~A~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~-~~~--~l~~~~~~~g~  450 (542)
                      +.+.+..++|+.-|..+.+.|...-+. ..........+.|+...|...|.++-...-.|-.. -..  .-...+...|-
T Consensus        68 lA~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlraa~lLvD~gs  147 (221)
T COG4649          68 LAQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRAAYLLVDNGS  147 (221)
T ss_pred             HHHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHHHHHHhcccc
Confidence            345566777777777776655432221 11222333456677777777777766533233221 111  11223445666


Q ss_pred             HHHHHHHHHHHHHcCCCCchHHHHH--HHHHHhccCChHHHHHHHHHHhcC
Q 038401          451 FETADDLYSEMQEEGCVFSDQVHFQ--MLSLYGARKDFNMLESLFERLDSD  499 (542)
Q Consensus       451 ~~~A~~~~~~~~~~~~~~~~~~~~~--l~~~~~~~g~~~~A~~~~~~~~~~  499 (542)
                      +++...-.+.+...+  .|-.+...  |+.+-.+.|++..|.++|..+..+
T Consensus       148 y~dV~srvepLa~d~--n~mR~sArEALglAa~kagd~a~A~~~F~qia~D  196 (221)
T COG4649         148 YDDVSSRVEPLAGDG--NPMRHSAREALGLAAYKAGDFAKAKSWFVQIAND  196 (221)
T ss_pred             HHHHHHHhhhccCCC--ChhHHHHHHHHhHHHHhccchHHHHHHHHHHHcc
Confidence            666666655554433  12222222  556666677777777777776544

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=96.53  E-value=0.42  Score=40.60  Aligned_cols=57  Identities=18%  Similarity=0.281  Sum_probs=32.4

Q ss_pred             HHHHHHHCCChHHHHHHHHHHHhcCCCCC---hhhHHHHHHHHhccCCHHHHHHHHHHHHH
Q 038401          165 LLNLYVENHKFVEALSVFAEMNEVNCPLD---LTTCNIMIDVYGQLDMAKDADRLFWSMRK  222 (542)
Q Consensus       165 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  222 (542)
                      +.+.|.+.|.+..|..-++.|.+. .+-.   ...+-.+..+|...|-.++|.+.-.-+..
T Consensus       173 IaryY~kr~~~~AA~nR~~~v~e~-y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~  232 (254)
T COG4105         173 IARYYLKRGAYVAAINRFEEVLEN-YPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGA  232 (254)
T ss_pred             HHHHHHHhcChHHHHHHHHHHHhc-cccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHh
Confidence            455666777777777777777664 2222   22344455566666666666655544443

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.52  E-value=0.027  Score=51.89  Aligned_cols=66  Identities=12%  Similarity=-0.020  Sum_probs=57.4

Q ss_pred             CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHhccCcHHHHHHHHHHHHHc
Q 038401          397 VKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDS----HIIALVLNSYGKLREFETADDLYSEMQEE  464 (542)
Q Consensus       397 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  464 (542)
                      +.+...++.+..+|...|++++|+..|++.++  +.|+.    .+|..+..+|...|+.++|+..++++++.
T Consensus        72 P~~a~a~~NLG~AL~~lGryeEAIa~f~rALe--L~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         72 VKTAEDAVNLGLSLFSKGRVKDALAQFETALE--LNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--hCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            45688899999999999999999999999998  55764    35888999999999999999999999986

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=96.51  E-value=0.037  Score=41.87  Aligned_cols=53  Identities=15%  Similarity=0.135  Sum_probs=33.3

Q ss_pred             CCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHH
Q 038401          118 SGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQ-GVKPDTVSYSTLLNLYV  170 (542)
Q Consensus       118 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-g~~~~~~~~~~l~~~~~  170 (542)
                      ..+.|+..+..+++.+|+..+++..|.++++...+. +++.+..+|..|+.-..
T Consensus        46 spl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~   99 (126)
T PF12921_consen   46 SPLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAY   99 (126)
T ss_pred             CCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            345566667777777777777777777777666543 45555666666665443

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=96.39  E-value=0.21  Score=39.09  Aligned_cols=131  Identities=15%  Similarity=0.186  Sum_probs=90.6

Q ss_pred             CCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 038401          364 NTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLN  443 (542)
Q Consensus       364 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~  443 (542)
                      +......++..+...+.......+++.++..+. .++...+.++..|++.+. .+..+.++.  .    ++......+++
T Consensus         6 ~~~~~~~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~~~-~~ll~~l~~--~----~~~yd~~~~~~   77 (140)
T smart00299        6 DPIDVSEVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKYDP-QKEIERLDN--K----SNHYDIEKVGK   77 (140)
T ss_pred             CcCCHHHHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHHCH-HHHHHHHHh--c----cccCCHHHHHH
Confidence            445566777888888889999999999988764 678889999999987643 444454442  1    23333445778


Q ss_pred             HHhccCcHHHHHHHHHHHHHcCCCCchHHHHHHHHHHhcc-CChHHHHHHHHHHhcCCCCCchhHHHHHHHHHHh
Q 038401          444 SYGKLREFETADDLYSEMQEEGCVFSDQVHFQMLSLYGAR-KDFNMLESLFERLDSDSNINKKELHHVVAGIYER  517 (542)
Q Consensus       444 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~  517 (542)
                      .|.+.+.++++..++.++-..     .    ..+..+... ++++.|++++++..      +.+.|..++..+..
T Consensus        78 ~c~~~~l~~~~~~l~~k~~~~-----~----~Al~~~l~~~~d~~~a~~~~~~~~------~~~lw~~~~~~~l~  137 (140)
T smart00299       78 LCEKAKLYEEAVELYKKDGNF-----K----DAIVTLIEHLGNYEKAIEYFVKQN------NPELWAEVLKALLD  137 (140)
T ss_pred             HHHHcCcHHHHHHHHHhhcCH-----H----HHHHHHHHcccCHHHHHHHHHhCC------CHHHHHHHHHHHHc
Confidence            888999999999999876431     1    123333333 88999999988632      34577777766643

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=96.38  E-value=0.086  Score=39.93  Aligned_cols=82  Identities=13%  Similarity=0.168  Sum_probs=46.1

Q ss_pred             cHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCC---------------CCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 038401           18 SVFAYNVVLRNVLRAKQWELAHGLFDEMRQRG---------------IAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQ   82 (542)
Q Consensus        18 ~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~---------------~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~   82 (542)
                      |..++..++.++++.|+.+....+++..-..+               ..|+..+..+++.+|+.+|++..|+++.+...+
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~WgI~~~~~~~~~~~~~~spl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~   80 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVWGIDVNGKKKEGDYPPSSPLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSR   80 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhcCCCCCCccccCccCCCCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            34667788888888888888888776553211               224445555555555555555555555554433


Q ss_pred             C-CCCCCHHhHHHHHHHH
Q 038401           83 D-RVSGDLVLYSNLIELA   99 (542)
Q Consensus        83 ~-~~~~~~~~~~~l~~~~   99 (542)
                      . +++.+..+|..|+.-+
T Consensus        81 ~Y~I~i~~~~W~~Ll~W~   98 (126)
T PF12921_consen   81 KYPIPIPKEFWRRLLEWA   98 (126)
T ss_pred             HcCCCCCHHHHHHHHHHH
Confidence            2 3444444555444443

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>KOG2396 consensus HAT (Half-A-TPR) repeat-containing protein [General function prediction only]

Probab=96.37  E-value=0.88  Score=42.55  Aligned_cols=69  Identities=10%  Similarity=0.039  Sum_probs=41.6

Q ss_pred             CCCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHH-HhccCCHHHHHHHHHHHHhCC
Q 038401           15 YSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITC-FGKEGMFDSAISWLQQMEQDR   84 (542)
Q Consensus        15 ~~~~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~g~~~~a~~~~~~~~~~~   84 (542)
                      +..|+..|...+..+.+.+.+.+...+|..|...++. ++..|-....- |-.+.+++.|..+|..-++.+
T Consensus       101 f~~D~~lW~~yi~f~kk~~~~~~v~ki~~~~l~~Hp~-~~dLWI~aA~wefe~n~ni~saRalflrgLR~n  170 (568)
T KOG2396|consen  101 FNGDVKLWLSYIAFCKKKKTYGEVKKIFAAMLAKHPN-NPDLWIYAAKWEFEINLNIESARALFLRGLRFN  170 (568)
T ss_pred             cCCCHHHHHHHHHHHHHhcchhHHHHHHHHHHHhCCC-CchhHHhhhhhHHhhccchHHHHHHHHHHhhcC
Confidence            4567777777777777777777777777777765322 44444433332 223334777777776666653

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=96.37  E-value=0.066  Score=39.64  Aligned_cols=91  Identities=13%  Similarity=0.017  Sum_probs=72.4

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHH--HHH-HHHHHhc
Q 038401          407 IELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQV--HFQ-MLSLYGA  482 (542)
Q Consensus       407 ~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~--~~~-l~~~~~~  482 (542)
                      .-++...|+.+.|++.|.+.+.  +-| ....|+.-..++.-+|+.++|+.-++++++..+......  .+. -+.+|..
T Consensus        50 ~valaE~g~Ld~AlE~F~qal~--l~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl  127 (175)
T KOG4555|consen   50 AIALAEAGDLDGALELFGQALC--LAPERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRL  127 (175)
T ss_pred             HHHHHhccchHHHHHHHHHHHH--hcccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHH
Confidence            3456788999999999999998  444 568899999999999999999999999999754433222  222 5678888


Q ss_pred             cCChHHHHHHHHHHhcC
Q 038401          483 RKDFNMLESLFERLDSD  499 (542)
Q Consensus       483 ~g~~~~A~~~~~~~~~~  499 (542)
                      .|+-+.|..-|+....-
T Consensus       128 ~g~dd~AR~DFe~AA~L  144 (175)
T KOG4555|consen  128 LGNDDAARADFEAAAQL  144 (175)
T ss_pred             hCchHHHHHhHHHHHHh
Confidence            99999999999886443

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.28  E-value=0.088  Score=47.53  Aligned_cols=62  Identities=10%  Similarity=0.054  Sum_probs=33.3

Q ss_pred             HHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH
Q 038401          371 AITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDS  435 (542)
Q Consensus       371 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~  435 (542)
                      +.-++.+.+++..|++...+.++.+ ++|...+-.-..++...|+++.|+..|+++++  +.|+.
T Consensus       263 lA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k--~~P~N  324 (397)
T KOG0543|consen  263 LAACYLKLKEYKEAIESCNKVLELD-PNNVKALYRRGQALLALGEYDLARDDFQKALK--LEPSN  324 (397)
T ss_pred             HHHHHHhhhhHHHHHHHHHHHHhcC-CCchhHHHHHHHHHHhhccHHHHHHHHHHHHH--hCCCc
Confidence            3444555555555555555555543 24455444555555555666666666665555  44543

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=96.26  E-value=1.2  Score=42.83  Aligned_cols=393  Identities=11%  Similarity=0.058  Sum_probs=212.3

Q ss_pred             hhhHHHHhhCCCCCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHh-ccCCHHHHHHHHHHHHh
Q 038401            4 AILDWINEEARYSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFG-KEGMFDSAISWLQQMEQ   82 (542)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~g~~~~a~~~~~~~~~   82 (542)
                      .+++.+..++  |---..|-.....-.+.|..+.+.++|++-+.. ++.+...|......+. ..|+.+...+.|+....
T Consensus        66 ~~y~~fL~ky--Pl~~gyW~kfA~~E~klg~~~~s~~Vfergv~a-ip~SvdlW~~Y~~f~~n~~~d~~~lr~~fe~A~~  142 (577)
T KOG1258|consen   66 EVYDIFLSKY--PLCYGYWKKFADYEYKLGNAENSVKVFERGVQA-IPLSVDLWLSYLAFLKNNNGDPETLRDLFERAKS  142 (577)
T ss_pred             HHHHHHHhhC--ccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-hhhHHHHHHHHHHHHhccCCCHHHHHHHHHHHHH
Confidence            3444454332  222335666666777889999999999998874 6677888888776554 47888888888988876


Q ss_pred             C-CCC-CCHHhHHHHHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhc-----cCcHHHHHHHHHHHHHc--
Q 038401           83 D-RVS-GDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGK-----AKLFKEARLLIEEMREQ--  153 (542)
Q Consensus        83 ~-~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~--  153 (542)
                      . |.. .+...|...|..-..++++.....+++++++.....-...|.......-.     ....+++.++-......  
T Consensus       143 ~vG~dF~S~~lWdkyie~en~qks~k~v~~iyeRileiP~~~~~~~f~~f~~~l~~~~~~~l~~~d~~~~l~~~~~~~~~  222 (577)
T KOG1258|consen  143 YVGLDFLSDPLWDKYIEFENGQKSWKRVANIYERILEIPLHQLNRHFDRFKQLLNQNEEKILLSIDELIQLRSDVAERSK  222 (577)
T ss_pred             hcccchhccHHHHHHHHHHhccccHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhcCChhhhcCHHHHHHHhhhHHhhhh
Confidence            4 321 25567888888888889999999999999874211111112221111111     12233333332222211  


Q ss_pred             -C-CCCCHHHHHHHHHHHH-HCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCC---C--
Q 038401          154 -G-VKPDTVSYSTLLNLYV-ENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMG---I--  225 (542)
Q Consensus       154 -g-~~~~~~~~~~l~~~~~-~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~--  225 (542)
                       + ..+....+..-+.--. ..+..+++...+.+...           ..-..+............++.-.+..   +  
T Consensus       223 ~~~~~~~~e~~~~~v~~~~~~s~~l~~~~~~l~~~~~-----------~~~~~~~~s~~~~~kr~~fE~~IkrpYfhvkp  291 (577)
T KOG1258|consen  223 ITHSQEPLEELEIGVKDSTDPSKSLTEEKTILKRIVS-----------IHEKVYQKSEEEEEKRWGFEEGIKRPYFHVKP  291 (577)
T ss_pred             cccccChhHHHHHHHhhccCccchhhHHHHHHHHHHH-----------HHHHHHHhhHhHHHHHHhhhhhccccccccCc
Confidence             0 0001111111111000 01111122211111111           01111222222233333333333211   1  


Q ss_pred             --CCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHH
Q 038401          226 --DPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYS  303 (542)
Q Consensus       226 --~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~  303 (542)
                        .++..+|..-+.--...|+.+.+.-+|+...-. +..-...|-..+.-....|+.+-|..++....+-.++-.+.+.-
T Consensus       292 l~~aql~nw~~yLdf~i~~g~~~~~~~l~ercli~-cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~~~~i~L  370 (577)
T KOG1258|consen  292 LDQAQLKNWRYYLDFEITLGDFSRVFILFERCLIP-CALYDEFWIKYARWMESSGDVSLANNVLARACKIHVKKTPIIHL  370 (577)
T ss_pred             ccHHHHHHHHHHhhhhhhcccHHHHHHHHHHHHhH-HhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCCCCcHHHH
Confidence              234567777778788889998888888876532 11223345555555555688888887776655543332222222


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHH-HHHHHHHHHHHcCCHHHHH---HHHHHhcC--CCCCCHHHHHH----
Q 038401          304 TIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPV-LYQTMIVAYERVGLVAHAK---RLLHELRQ--PNTIPRETAIT----  373 (542)
Q Consensus       304 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~---~~~~~~~~--~~~~~~~~l~~----  373 (542)
                      .-....-..|+++.|..+++.+.+.-  |+.. .-..-+....+.|..+.+.   .++.....  .+......+.-    
T Consensus       371 ~~a~f~e~~~n~~~A~~~lq~i~~e~--pg~v~~~l~~~~~e~r~~~~~~~~~~~~l~s~~~~~~~~~~i~~~l~~~~~r  448 (577)
T KOG1258|consen  371 LEARFEESNGNFDDAKVILQRIESEY--PGLVEVVLRKINWERRKGNLEDANYKNELYSSIYEGKENNGILEKLYVKFAR  448 (577)
T ss_pred             HHHHHHHhhccHHHHHHHHHHHHhhC--CchhhhHHHHHhHHHHhcchhhhhHHHHHHHHhcccccCcchhHHHHHHHHH
Confidence            12222335689999999999988763  4422 2223334455677777776   33333322  12222222221    


Q ss_pred             -HHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcC
Q 038401          374 -ILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNK  414 (542)
Q Consensus       374 -~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  414 (542)
                       .+.-.++.+.|..++.++.+. .+++...|..+++....++
T Consensus       449 ~~~~i~~d~~~a~~~l~~~~~~-~~~~k~~~~~~~~~~~~~~  489 (577)
T KOG1258|consen  449 LRYKIREDADLARIILLEANDI-LPDCKVLYLELIRFELIQP  489 (577)
T ss_pred             HHHHHhcCHHHHHHHHHHhhhc-CCccHHHHHHHHHHHHhCC
Confidence             123458899999999999887 5577788888887766554

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=96.23  E-value=0.64  Score=39.55  Aligned_cols=59  Identities=15%  Similarity=0.026  Sum_probs=28.6

Q ss_pred             HHHHHhccCcHHHHHHHHHHHHHcCCCCchH--HHHHHHHHHhccCChHHHHHHHHHHhcC
Q 038401          441 VLNSYGKLREFETADDLYSEMQEEGCVFSDQ--VHFQMLSLYGARKDFNMLESLFERLDSD  499 (542)
Q Consensus       441 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~g~~~~A~~~~~~~~~~  499 (542)
                      +.+-|.+.|.+..|..-++.+++.....+..  ....+..+|.+.|..++|...-+-+..+
T Consensus       173 IaryY~kr~~~~AA~nR~~~v~e~y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~N  233 (254)
T COG4105         173 IARYYLKRGAYVAAINRFEEVLENYPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGAN  233 (254)
T ss_pred             HHHHHHHhcChHHHHHHHHHHHhccccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHhc
Confidence            3344555555666666666665553221111  1111445555566666555555554433

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=96.20  E-value=0.86  Score=40.68  Aligned_cols=57  Identities=12%  Similarity=0.092  Sum_probs=30.1

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHh----CCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHHHH
Q 038401          407 IELFSRNKKYANVIEVFEKMRS----AGYFPD-SHIIALVLNSYGKLREFETADDLYSEMQE  463 (542)
Q Consensus       407 ~~~~~~~g~~~~A~~~~~~~~~----~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  463 (542)
                      .-++...|+..+|.+..++..+    .|-+|. ......+.+.|...|+.+.|..-|+.+..
T Consensus       213 aValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR~~gd~e~af~rYe~Am~  274 (518)
T KOG1941|consen  213 AVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYRSRGDLERAFRRYEQAMG  274 (518)
T ss_pred             HHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHhcccHhHHHHHHHHHHH
Confidence            3345555666666666555433    232221 23344555666666666666666665543

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=96.18  E-value=0.22  Score=47.28  Aligned_cols=155  Identities=15%  Similarity=0.148  Sum_probs=96.2

Q ss_pred             HHHhcCHHHHHHHHH--HHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHH
Q 038401           29 VLRAKQWELAHGLFD--EMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYS  106 (542)
Q Consensus        29 ~~~~~~~~~A~~~~~--~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  106 (542)
                      ..-+|+++.+.+..+  .+.. .+  +....+.++.-+.+.|..+.|+++...         +.   .-.....+.|+++
T Consensus       271 av~~~d~~~v~~~i~~~~ll~-~i--~~~~~~~i~~fL~~~G~~e~AL~~~~D---------~~---~rFeLAl~lg~L~  335 (443)
T PF04053_consen  271 AVLRGDFEEVLRMIAASNLLP-NI--PKDQGQSIARFLEKKGYPELALQFVTD---------PD---HRFELALQLGNLD  335 (443)
T ss_dssp             HHHTT-HHH-----HHHHTGG-G----HHHHHHHHHHHHHTT-HHHHHHHSS----------HH---HHHHHHHHCT-HH
T ss_pred             HHHcCChhhhhhhhhhhhhcc-cC--ChhHHHHHHHHHHHCCCHHHHHhhcCC---------hH---HHhHHHHhcCCHH
Confidence            445678888766664  2221 12  244577888888888888888877433         21   2345566788888


Q ss_pred             HHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHH
Q 038401          107 KAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMN  186 (542)
Q Consensus       107 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  186 (542)
                      .|.++.+++      ++...|..|.....+.|+++-|++.|.+..+         +..|+-.|.-.|+.+...++.+...
T Consensus       336 ~A~~~a~~~------~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~  400 (443)
T PF04053_consen  336 IALEIAKEL------DDPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAE  400 (443)
T ss_dssp             HHHHHCCCC------STHHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHhc------CcHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHH
Confidence            887764443      3677888888888888888888888887654         5667777788888877777777766


Q ss_pred             hcCCCCChhhHHHHHHHHhccCCHHHHHHHHHH
Q 038401          187 EVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWS  219 (542)
Q Consensus       187 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  219 (542)
                      ..|      -++....++.-.|+.++..+++..
T Consensus       401 ~~~------~~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  401 ERG------DINIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             HTT-------HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             Hcc------CHHHHHHHHHHcCCHHHHHHHHHH
Confidence            654      245555556666777777766644

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.

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.17  E-value=1.6  Score=43.63  Aligned_cols=177  Identities=15%  Similarity=0.134  Sum_probs=80.1

Q ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCH--HhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHH
Q 038401           23 NVVLRNVLRAKQWELAHGLFDEMRQRGIAPDR--YTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELAR  100 (542)
Q Consensus        23 ~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  100 (542)
                      ..-+..+.+...++-|+.+-+   ..+..++.  .........+.+.|++++|...|-+-... +.|.     .++.-+.
T Consensus       338 e~kL~iL~kK~ly~~Ai~LAk---~~~~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~s-----~Vi~kfL  408 (933)
T KOG2114|consen  338 ETKLDILFKKNLYKVAINLAK---SQHLDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEPS-----EVIKKFL  408 (933)
T ss_pred             HHHHHHHHHhhhHHHHHHHHH---hcCCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CChH-----HHHHHhc
Confidence            344455555555555555432   22222111  12223333444567777776666555432 1221     2333344


Q ss_pred             hcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHHHHH
Q 038401          101 KLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALS  180 (542)
Q Consensus       101 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a~~  180 (542)
                      ...+..+...+++.+.+.|+. +...-..|+.+|.+.++.++-.+..+... .|..  ..-....+..+.+.+-.++|.-
T Consensus       409 daq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI~~~~-~g~~--~fd~e~al~Ilr~snyl~~a~~  484 (933)
T KOG2114|consen  409 DAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFISKCD-KGEW--FFDVETALEILRKSNYLDEAEL  484 (933)
T ss_pred             CHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHHhcCC-Ccce--eeeHHHHHHHHHHhChHHHHHH
Confidence            444455555566666666543 34444566666666666666555544433 2211  1112334444444454455443


Q ss_pred             HHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHH
Q 038401          181 VFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSM  220 (542)
Q Consensus       181 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  220 (542)
                      +-.....     +......++   -..+++++|.+.+..+
T Consensus       485 LA~k~~~-----he~vl~ill---e~~~ny~eAl~yi~sl  516 (933)
T KOG2114|consen  485 LATKFKK-----HEWVLDILL---EDLHNYEEALRYISSL  516 (933)
T ss_pred             HHHHhcc-----CHHHHHHHH---HHhcCHHHHHHHHhcC
Confidence            3332211     222222222   2345566666655543

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.09  E-value=0.11  Score=45.54  Aligned_cols=159  Identities=11%  Similarity=0.014  Sum_probs=120.1

Q ss_pred             HHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH----HHHHHHHHHhccCc
Q 038401          375 LARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSH----IIALVLNSYGKLRE  450 (542)
Q Consensus       375 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~----~~~~l~~~~~~~g~  450 (542)
                      +--.|+..+|-..++++++. .|.|...++..-++|...|+...-...++++... ..|+..    .-..+..++...|-
T Consensus       113 ~~~~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~-wn~dlp~~sYv~GmyaFgL~E~g~  190 (491)
T KOG2610|consen  113 LWGRGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK-WNADLPCYSYVHGMYAFGLEECGI  190 (491)
T ss_pred             hhccccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccc-cCCCCcHHHHHHHHHHhhHHHhcc
Confidence            34568888898999999886 5678888888889999999999999999988753 234432    22344456678999


Q ss_pred             HHHHHHHHHHHHHcCCCCchHHHHH--HHHHHhccCChHHHHHHHHHHhcCCCC---CchhHHHHHHHHHHhhcchhhHH
Q 038401          451 FETADDLYSEMQEEGCVFSDQVHFQ--MLSLYGARKDFNMLESLFERLDSDSNI---NKKELHHVVAGIYERANRLNDAS  525 (542)
Q Consensus       451 ~~~A~~~~~~~~~~~~~~~~~~~~~--l~~~~~~~g~~~~A~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~  525 (542)
                      +++|.+.-+++.+.+   +...+..  ...++.-.|++.++.++..+-..+=..   .-...|-+.+-.+...+.++.|+
T Consensus       191 y~dAEk~A~ralqiN---~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~al  267 (491)
T KOG2610|consen  191 YDDAEKQADRALQIN---RFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKAL  267 (491)
T ss_pred             chhHHHHHHhhccCC---CcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHH
Confidence            999999999999987   4444333  888999999999999999986543221   11355777888888889999999


Q ss_pred             HHHHHHHhcCCCC
Q 038401          526 RIMNRMNKRRTFN  538 (542)
Q Consensus       526 ~~~~~~~~~~~~~  538 (542)
                      ++|++=.-+....
T Consensus       268 eIyD~ei~k~l~k  280 (491)
T KOG2610|consen  268 EIYDREIWKRLEK  280 (491)
T ss_pred             HHHHHHHHHHhhc
Confidence            9999844433333

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=95.99  E-value=0.5  Score=44.91  Aligned_cols=154  Identities=12%  Similarity=0.092  Sum_probs=74.7

Q ss_pred             HHhcCcHHHHHHHHH--HHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHH
Q 038401          239 YGEAELFGEAIHLFR--LMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLD  316 (542)
Q Consensus       239 ~~~~~~~~~a~~~~~--~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~  316 (542)
                      ..-.++++.+.++.+  .+.. .+  +....+.++..+.+.|-.+.|+.+..+-..            -.....+.|+++
T Consensus       271 av~~~d~~~v~~~i~~~~ll~-~i--~~~~~~~i~~fL~~~G~~e~AL~~~~D~~~------------rFeLAl~lg~L~  335 (443)
T PF04053_consen  271 AVLRGDFEEVLRMIAASNLLP-NI--PKDQGQSIARFLEKKGYPELALQFVTDPDH------------RFELALQLGNLD  335 (443)
T ss_dssp             HHHTT-HHH-----HHHHTGG-G----HHHHHHHHHHHHHTT-HHHHHHHSS-HHH------------HHHHHHHCT-HH
T ss_pred             HHHcCChhhhhhhhhhhhhcc-cC--ChhHHHHHHHHHHHCCCHHHHHhhcCChHH------------HhHHHHhcCCHH
Confidence            344566666555553  1111 11  133355666666666766666665433211            122334567776


Q ss_pred             HHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCC
Q 038401          317 RAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFRQAFDAGE  396 (542)
Q Consensus       317 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  396 (542)
                      .|.++.+.      ..+...|..|.+...+.|+++-|.+.+.+..     .+..+.-.|...|+.+.-.++.+.+...|.
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 IALEIAKE------LDDPEKWKQLGDEALRQGNIELAEECYQKAK-----DFSGLLLLYSSTGDREKLSKLAKIAEERGD  404 (443)
T ss_dssp             HHHHHCCC------CSTHHHHHHHHHHHHHTTBHHHHHHHHHHCT------HHHHHHHHHHCT-HHHHHHHHHHHHHTT-
T ss_pred             HHHHHHHh------cCcHHHHHHHHHHHHHcCCHHHHHHHHHhhc-----CccccHHHHHHhCCHHHHHHHHHHHHHccC
Confidence            66655432      2255677777777777777777777776654     345555555666666555555555554432


Q ss_pred             CcCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 038401          397 VKDISVFGCMIELFSRNKKYANVIEVFE  424 (542)
Q Consensus       397 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~  424 (542)
                            ++....++...|+.++..+++.
T Consensus       405 ------~n~af~~~~~lgd~~~cv~lL~  426 (443)
T PF04053_consen  405 ------INIAFQAALLLGDVEECVDLLI  426 (443)
T ss_dssp             ------HHHHHHHHHHHT-HHHHHHHHH
T ss_pred             ------HHHHHHHHHHcCCHHHHHHHHH
Confidence                  3333444444555555555444

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.

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=95.94  E-value=0.8  Score=42.92  Aligned_cols=60  Identities=10%  Similarity=0.146  Sum_probs=39.8

Q ss_pred             HHHHHHHhccCcHHHHHHHHHHHHHcCCCC-chHHHHHHHHHHhccCChHHHHHHHHHHhc
Q 038401          439 ALVLNSYGKLREFETADDLYSEMQEEGCVF-SDQVHFQMLSLYGARKDFNMLESLFERLDS  498 (542)
Q Consensus       439 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  498 (542)
                      ..+..++.+.|+.++|++.+..+.+..+.. .-.+.+.|+.++...+.+.++..++.+-..
T Consensus       263 rRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdD  323 (539)
T PF04184_consen  263 RRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDD  323 (539)
T ss_pred             HHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhcc
Confidence            346666677788888888888877654221 122344477778888888888888777643

The molecular function of this protein is uncertain.

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=95.87  E-value=0.0085  Score=33.65  Aligned_cols=27  Identities=11%  Similarity=0.133  Sum_probs=20.6

Q ss_pred             HHHHHHHHHHhhcchhhHHHHHHHHHh
Q 038401          507 LHHVVAGIYERANRLNDASRIMNRMNK  533 (542)
Q Consensus       507 ~~~~l~~~~~~~g~~~~A~~~~~~~~~  533 (542)
                      +|..|+.+|.+.|+|++|+++|++...
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL~   27 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQALA   27 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            366788888888888888888888543

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.67  E-value=2.5  Score=41.79  Aligned_cols=361  Identities=13%  Similarity=0.090  Sum_probs=182.5

Q ss_pred             HhccCCHHHHHHHHHHH--------HhCCCCCCHHhHHH-----HHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHH
Q 038401           64 FGKEGMFDSAISWLQQM--------EQDRVSGDLVLYSN-----LIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTM  130 (542)
Q Consensus        64 ~~~~g~~~~a~~~~~~~--------~~~~~~~~~~~~~~-----l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  130 (542)
                      +.+.-++++-..+.+.+        ...|++.+..-|..     ++.-+...+.+..|+++-..+...-... ...|...
T Consensus       399 ~l~~~~~d~~~~v~~~lrVln~~r~~~~gIplT~~qy~~l~~~~vi~Rl~~r~~Y~vaIQva~~l~~p~~~~-~~Vl~~W  477 (829)
T KOG2280|consen  399 SLRTPNPDEYMRVCRELRVLNALRDVRIGIPLTHEQYRHLSEEVVIDRLVDRHLYSVAIQVAKLLNLPESQG-DRVLLEW  477 (829)
T ss_pred             ccccCChHHHHHHHHHHHHHhhhcccccCccccHHHHhhhchhhhhHHHHhcchhHHHHHHHHHhCCccccc-cHHHHHH
Confidence            34455666655554433        23466666665554     4555667788888888877765322122 4556666


Q ss_pred             HHHHhccCc---HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhcCCC----CChhhHHHHHHH
Q 038401          131 INVFGKAKL---FKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCP----LDLTTCNIMIDV  203 (542)
Q Consensus       131 ~~~~~~~~~---~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~----~~~~~~~~l~~~  203 (542)
                      ...+.+..+   -+.+..+-+++... . .+..+|..+.+.....|+.+-|..+++.=...+..    .+..-+...+.-
T Consensus       478 a~~kI~~~d~~d~~vld~I~~kls~~-~-~~~iSy~~iA~~Ay~~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~k  555 (829)
T KOG2280|consen  478 ARRKIKQSDKMDEEVLDKIDEKLSAK-L-TPGISYAAIARRAYQEGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKK  555 (829)
T ss_pred             HHHHHhccCccchHHHHHHHHHhccc-C-CCceeHHHHHHHHHhcCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHH
Confidence            666655432   22233333333322 2 34556777888788889998888877543222110    112223334444


Q ss_pred             HhccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHH
Q 038401          204 YGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKA  283 (542)
Q Consensus       204 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  283 (542)
                      +...|+.+-...++-.+...   -+...+.      ....+...|..+|.+..++.   +..   .+-..|-...+...+
T Consensus       556 aies~d~~Li~~Vllhlk~~---~~~s~l~------~~l~~~p~a~~lY~~~~r~~---~~~---~l~d~y~q~dn~~~~  620 (829)
T KOG2280|consen  556 AIESGDTDLIIQVLLHLKNK---LNRSSLF------MTLRNQPLALSLYRQFMRHQ---DRA---TLYDFYNQDDNHQAL  620 (829)
T ss_pred             HHhcCCchhHHHHHHHHHHH---HHHHHHH------HHHHhchhhhHHHHHHHHhh---chh---hhhhhhhcccchhhh
Confidence            45555555555555444432   1111111      11123345555555554421   111   111222222222221


Q ss_pred             HHH-HHHHH----HcCCCCCHHHHHHHHHHHHhcCCHH---HH-------HHHHHHHHh-cCCCCCHHHHHHHHHHHHHc
Q 038401          284 TNL-MQEMQ----NRGIEPNAITYSTIIAIWGKAGKLD---RA-------AMLFQKLRS-SGVEIDPVLYQTMIVAYERV  347 (542)
Q Consensus       284 ~~~-~~~~~----~~~~~p~~~~~~~l~~~~~~~~~~~---~a-------~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~  347 (542)
                      -.+ ++...    ..|..|+.   ......+.+.....   +|       +.+.+.+.. .+......+.+--+.-+...
T Consensus       621 a~~~~q~~~~~~~~~~r~~~l---k~~a~~~a~sk~~s~e~ka~ed~~kLl~lQ~~Le~q~~~~f~dlSl~dTv~~li~~  697 (829)
T KOG2280|consen  621 ASFHLQASYAAETIEGRIPAL---KTAANAFAKSKEKSFEAKALEDQMKLLKLQRTLEDQFGGSFVDLSLHDTVTTLILI  697 (829)
T ss_pred             hhhhhhhhhhhhhhcccchhH---HHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHHHHhccccccCcHHHHHHHHHHc
Confidence            111 11100    11223332   22233333332211   11       111222211 12223334445555566677


Q ss_pred             CCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 038401          348 GLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMR  427 (542)
Q Consensus       348 ~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  427 (542)
                      |+-.+|.++-.+.+-++-..|-.-+.++...+++++-+++-+..      .++.-|.-.+.+|.+.|+.++|.+++-+..
T Consensus       698 g~~k~a~ql~~~FkipdKr~~wLk~~aLa~~~kweeLekfAksk------ksPIGy~PFVe~c~~~~n~~EA~KYiprv~  771 (829)
T KOG2280|consen  698 GQNKRAEQLKSDFKIPDKRLWWLKLTALADIKKWEELEKFAKSK------KSPIGYLPFVEACLKQGNKDEAKKYIPRVG  771 (829)
T ss_pred             cchHHHHHHHHhcCCcchhhHHHHHHHHHhhhhHHHHHHHHhcc------CCCCCchhHHHHHHhcccHHHHhhhhhccC
Confidence            88888888888777777777776777778888877665554432      224456667778888888888888776653


Q ss_pred             hCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHH
Q 038401          428 SAGYFPDSHIIALVLNSYGKLREFETADDLYSE  460 (542)
Q Consensus       428 ~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~  460 (542)
                      .     ..    -...+|.+.|++.+|.+.--+
T Consensus       772 ~-----l~----ekv~ay~~~~~~~eAad~A~~  795 (829)
T KOG2280|consen  772 G-----LQ----EKVKAYLRVGDVKEAADLAAE  795 (829)
T ss_pred             C-----hH----HHHHHHHHhccHHHHHHHHHH
Confidence            2     11    345567777888777766443

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.62  E-value=0.85  Score=36.05  Aligned_cols=120  Identities=15%  Similarity=0.155  Sum_probs=57.5

Q ss_pred             HcCCHHHHHHHHHHhcCCCCCCHHHH-----HHHHHHhCCHHHHHHHHHHHHHcCCCcCHHH-HHHH--HHHHHhcCCHH
Q 038401          346 RVGLVAHAKRLLHELRQPNTIPRETA-----ITILARAGRIEEATWVFRQAFDAGEVKDISV-FGCM--IELFSRNKKYA  417 (542)
Q Consensus       346 ~~~~~~~a~~~~~~~~~~~~~~~~~l-----~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~-~~~l--~~~~~~~g~~~  417 (542)
                      +.+..++|+.-|..+.+.+...|..+     .......|+...|...|+++-.-...|-+.- .-.|  ...+..+|.++
T Consensus        70 ~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlraa~lLvD~gsy~  149 (221)
T COG4649          70 QENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRAAYLLVDNGSYD  149 (221)
T ss_pred             HcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHHHHHHhccccHH
Confidence            34444444444444444333333322     2234445555666666665544322222210 0011  12234566676


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcC
Q 038401          418 NVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEG  465 (542)
Q Consensus       418 ~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  465 (542)
                      ......+-+-..+-+.-...-..|.-+-.+.|++.+|.++|..+....
T Consensus       150 dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~Da  197 (221)
T COG4649         150 DVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIANDA  197 (221)
T ss_pred             HHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHccc
Confidence            666665555433221122333455556667777777777777776644

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.60  E-value=1.2  Score=37.53  Aligned_cols=205  Identities=13%  Similarity=0.144  Sum_probs=104.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCC--CCCHHHHHHHHHHh
Q 038401          301 TYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPN--TIPRETAITILARA  378 (542)
Q Consensus       301 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~l~~~~~~~  378 (542)
                      .|.....+|....++++|...+.+..+. ...+...|.       ..+.++.|.-+.+++..-+  ...++....+|..+
T Consensus        33 ~yekAAvafRnAk~feKakdcLlkA~~~-yEnnrslfh-------AAKayEqaamLake~~klsEvvdl~eKAs~lY~E~  104 (308)
T KOG1585|consen   33 LYEKAAVAFRNAKKFEKAKDCLLKASKG-YENNRSLFH-------AAKAYEQAAMLAKELSKLSEVVDLYEKASELYVEC  104 (308)
T ss_pred             HHHHHHHHHHhhccHHHHHHHHHHHHHH-HHhcccHHH-------HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHh
Confidence            4555555666667777776666555542 122222111       1122333333333332211  01122223444444


Q ss_pred             CCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC---CC--CCCHHHHHHHHHHHhccCcHHH
Q 038401          379 GRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSA---GY--FPDSHIIALVLNSYGKLREFET  453 (542)
Q Consensus       379 g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~--~p~~~~~~~l~~~~~~~g~~~~  453 (542)
                      |..+.|-..++++-+                .....++++|+++|++....   +-  +.-...+..+.+.+.+..++.+
T Consensus       105 GspdtAAmaleKAak----------------~lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl~kf~E  168 (308)
T KOG1585|consen  105 GSPDTAAMALEKAAK----------------ALENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRLEKFTE  168 (308)
T ss_pred             CCcchHHHHHHHHHH----------------HhhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhhHHhhH
Confidence            544444444443322                23456778888888876542   10  1112445566677778888888


Q ss_pred             HHHHHHHHHHcC----CC-CchHHHHHHHHHHhccCChHHHHHHHHHHhcCCCCCc---hhHHHHHHHHHHhhcchhhHH
Q 038401          454 ADDLYSEMQEEG----CV-FSDQVHFQMLSLYGARKDFNMLESLFERLDSDSNINK---KELHHVVAGIYERANRLNDAS  525 (542)
Q Consensus       454 A~~~~~~~~~~~----~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~  525 (542)
                      |-..+.+-....    .. .+-..+...+-++....++..|.+.++.--..|+...   ......|+..| ..|+.+++.
T Consensus       169 aa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ay-d~gD~E~~~  247 (308)
T KOG1585|consen  169 AATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAY-DEGDIEEIK  247 (308)
T ss_pred             HHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHh-ccCCHHHHH
Confidence            777666543221    00 1111122255666778899999999998544444433   34555666666 567766666


Q ss_pred             HHHHH
Q 038401          526 RIMNR  530 (542)
Q Consensus       526 ~~~~~  530 (542)
                      .++..
T Consensus       248 kvl~s  252 (308)
T KOG1585|consen  248 KVLSS  252 (308)
T ss_pred             HHHcC
Confidence            55543

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=95.59  E-value=3.1  Score=43.59  Aligned_cols=102  Identities=18%  Similarity=0.136  Sum_probs=46.2

Q ss_pred             HHcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHH--HHHHHHHHHhcCCHHHHHHH
Q 038401          345 ERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISV--FGCMIELFSRNKKYANVIEV  422 (542)
Q Consensus       345 ~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~g~~~~A~~~  422 (542)
                      ...+.+++|.-.|+..-     .....+.++..+|++.+|+.+..++..   ..+...  -..|+.-+...+++-+|-++
T Consensus       950 ~~~~~~~~Aal~Ye~~G-----klekAl~a~~~~~dWr~~l~~a~ql~~---~~de~~~~a~~L~s~L~e~~kh~eAa~i 1021 (1265)
T KOG1920|consen  950 REELMSDEAALMYERCG-----KLEKALKAYKECGDWREALSLAAQLSE---GKDELVILAEELVSRLVEQRKHYEAAKI 1021 (1265)
T ss_pred             HHhccccHHHHHHHHhc-----cHHHHHHHHHHhccHHHHHHHHHhhcC---CHHHHHHHHHHHHHHHHHcccchhHHHH
Confidence            34455555555544432     122334445555555555555444421   111111  13444455555666666655


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHH
Q 038401          423 FEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQ  462 (542)
Q Consensus       423 ~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  462 (542)
                      ..+....   |.     ..+..|++...|++|.++.....
T Consensus      1022 l~e~~sd---~~-----~av~ll~ka~~~~eAlrva~~~~ 1053 (1265)
T KOG1920|consen 1022 LLEYLSD---PE-----EAVALLCKAKEWEEALRVASKAK 1053 (1265)
T ss_pred             HHHHhcC---HH-----HHHHHHhhHhHHHHHHHHHHhcc
Confidence            5555431   11     12223445556666666554443

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=95.44  E-value=0.015  Score=32.05  Aligned_cols=28  Identities=18%  Similarity=0.313  Sum_probs=20.4

Q ss_pred             HhcCCCCCchhHHHHHHHHHHhhcchhhHH
Q 038401          496 LDSDSNINKKELHHVVAGIYERANRLNDAS  525 (542)
Q Consensus       496 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  525 (542)
                      +..+|+  +..+|+.++.+|...|++++|+
T Consensus         6 ie~~P~--n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    6 IELNPN--NAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             HHHCCC--CHHHHHHHHHHHHHCcCHHhhc
Confidence            444555  5678888888888888888875

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.43  E-value=0.95  Score=35.34  Aligned_cols=42  Identities=12%  Similarity=0.056  Sum_probs=18.9

Q ss_pred             HHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhc
Q 038401           24 VVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGK   66 (542)
Q Consensus        24 ~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~   66 (542)
                      .++..+.+.+.+......++.+...+. .++..++.++..|++
T Consensus        12 ~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~   53 (140)
T smart00299       12 EVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAK   53 (140)
T ss_pred             HHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHH
Confidence            344444444444445554444444432 244444444444443

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=95.38  E-value=0.062  Score=31.81  Aligned_cols=26  Identities=4%  Similarity=0.109  Sum_probs=12.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHh
Q 038401          403 FGCMIELFSRNKKYANVIEVFEKMRS  428 (542)
Q Consensus       403 ~~~l~~~~~~~g~~~~A~~~~~~~~~  428 (542)
                      +..+..+|...|++++|+++|+++++
T Consensus         4 ~~~la~~~~~~G~~~~A~~~~~~~l~   29 (44)
T PF13428_consen    4 WLALARAYRRLGQPDEAERLLRRALA   29 (44)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            33444444444444444444444444

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=95.23  E-value=0.085  Score=31.21  Aligned_cols=39  Identities=21%  Similarity=0.133  Sum_probs=22.2

Q ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHH
Q 038401           21 AYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTL   60 (542)
Q Consensus        21 ~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l   60 (542)
                      ++..+...+.+.|++++|+++|+++.+..+. |...|..+
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~-~~~a~~~L   41 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRALALDPD-DPEAWRAL   41 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC-CHHHHHHh
Confidence            4555666666666666666666666665332 44444433

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.17  E-value=4  Score=41.05  Aligned_cols=146  Identities=18%  Similarity=0.233  Sum_probs=100.4

Q ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHh
Q 038401           22 YNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARK  101 (542)
Q Consensus        22 ~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  101 (542)
                      .-...+.+.+.|++++|...+-+-... +.|     ..+|.-|....+...-..+++.+.+.|.. +...-..|+.+|.+
T Consensus       371 ~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~-----s~Vi~kfLdaq~IknLt~YLe~L~~~gla-~~dhttlLLncYiK  443 (933)
T KOG2114|consen  371 HRKYGDYLYGKGDFDEATDQYIETIGF-LEP-----SEVIKKFLDAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIK  443 (933)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHccc-CCh-----HHHHHHhcCHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHH
Confidence            444455667899999999988665543 233     34566667777778888899999999876 66666789999999


Q ss_pred             cCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHHHHHH
Q 038401          102 LSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSV  181 (542)
Q Consensus       102 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a~~~  181 (542)
                      .++.++..+..+... .|..  ..-....+..+.+.+-.++|.-+-.....     .......+   +-..+++++|++.
T Consensus       444 lkd~~kL~efI~~~~-~g~~--~fd~e~al~Ilr~snyl~~a~~LA~k~~~-----he~vl~il---le~~~ny~eAl~y  512 (933)
T KOG2114|consen  444 LKDVEKLTEFISKCD-KGEW--FFDVETALEILRKSNYLDEAELLATKFKK-----HEWVLDIL---LEDLHNYEEALRY  512 (933)
T ss_pred             hcchHHHHHHHhcCC-Ccce--eeeHHHHHHHHHHhChHHHHHHHHHHhcc-----CHHHHHHH---HHHhcCHHHHHHH
Confidence            999998877766654 2211  11244566777777777777776665543     23333333   3457889999998


Q ss_pred             HHHH
Q 038401          182 FAEM  185 (542)
Q Consensus       182 ~~~~  185 (542)
                      +..+
T Consensus       513 i~sl  516 (933)
T KOG2114|consen  513 ISSL  516 (933)
T ss_pred             HhcC
Confidence            8776

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=95.14  E-value=0.27  Score=42.08  Aligned_cols=104  Identities=13%  Similarity=0.251  Sum_probs=61.1

Q ss_pred             CChhhHHHHHHHHh-----ccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCcHHH
Q 038401          192 LDLTTCNIMIDVYG-----QLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVT  266 (542)
Q Consensus       192 ~~~~~~~~l~~~~~-----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  266 (542)
                      -|..+|...+..+.     +.+.++-....++.|.+.|+..|..+|+.|+..+-+..-.                |. ..
T Consensus        65 RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfi----------------P~-nv  127 (406)
T KOG3941|consen   65 RDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFI----------------PQ-NV  127 (406)
T ss_pred             ccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccc----------------cH-HH
Confidence            34555555555443     2344555555666666666666666666666654332211                11 11


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC
Q 038401          267 YNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGK  314 (542)
Q Consensus       267 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~  314 (542)
                      +....-.|-  .+-+-+++++++|..+|+.||..+-..+++++.+.+-
T Consensus       128 fQ~~F~HYP--~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  128 FQKVFLHYP--QQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNF  173 (406)
T ss_pred             HHHHHhhCc--hhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhccccc
Confidence            111111121  2335578899999999999999999999998877664

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=95.02  E-value=0.062  Score=29.47  Aligned_cols=30  Identities=10%  Similarity=0.102  Sum_probs=23.3

Q ss_pred             hHHHHHHHHHHhhcchhhHHHHHHHHHhcC
Q 038401          506 ELHHVVAGIYERANRLNDASRIMNRMNKRR  535 (542)
Q Consensus       506 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  535 (542)
                      ..|..++.+|...|++++|++.+++..+..
T Consensus         2 ~~~~~lg~~~~~~~~~~~A~~~~~~al~l~   31 (34)
T PF07719_consen    2 EAWYYLGQAYYQLGNYEEAIEYFEKALELD   31 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHHC
Confidence            467788888888888888888888877654

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 ....

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=95.02  E-value=2.1  Score=36.92  Aligned_cols=197  Identities=18%  Similarity=0.137  Sum_probs=119.3

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhc-CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCC---HHHHHH-
Q 038401          299 AITYSTIIAIWGKAGKLDRAAMLFQKLRSS-GVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIP---RETAIT-  373 (542)
Q Consensus       299 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~l~~-  373 (542)
                      ...+......+...+.+..+...+...... ........+......+...+.+..+...+..........   ...... 
T Consensus        59 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  138 (291)
T COG0457          59 AGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDPDLAEALLALG  138 (291)
T ss_pred             hHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCcchHHHHHHHH
Confidence            344455555555666666666666655531 123344455555555566666666666666655422221   222222 


Q ss_pred             HHHHhCCHHHHHHHHHHHHHcCC--CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHhccC
Q 038401          374 ILARAGRIEEATWVFRQAFDAGE--VKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPD--SHIIALVLNSYGKLR  449 (542)
Q Consensus       374 ~~~~~g~~~~A~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g  449 (542)
                      .+...|+++.|...+.++.....  ......+......+...++.+.+...+.+....  .|+  ...+..+...+...+
T Consensus       139 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~  216 (291)
T COG0457         139 ALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKL--NPDDDAEALLNLGLLYLKLG  216 (291)
T ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhh--CcccchHHHHHhhHHHHHcc
Confidence            56777888888888888765321  123334444444466778888888888888873  233  566777777888888


Q ss_pred             cHHHHHHHHHHHHHcCCCCchHHHHHHHHHHhccCChHHHHHHHHHHhc
Q 038401          450 EFETADDLYSEMQEEGCVFSDQVHFQMLSLYGARKDFNMLESLFERLDS  498 (542)
Q Consensus       450 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  498 (542)
                      ++++|...+..+...... .......+...+...|.++++...+.+...
T Consensus       217 ~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  264 (291)
T COG0457         217 KYEEALEYYEKALELDPD-NAEALYNLALLLLELGRYEEALEALEKALE  264 (291)
T ss_pred             cHHHHHHHHHHHHhhCcc-cHHHHhhHHHHHHHcCCHHHHHHHHHHHHH
Confidence            888888888888886511 012233355555567778888888888543

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=95.01  E-value=0.42  Score=38.65  Aligned_cols=93  Identities=14%  Similarity=0.104  Sum_probs=70.0

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH-----HHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH--HH
Q 038401          405 CMIELFSRNKKYANVIEVFEKMRSAGYFPDS-----HIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ--ML  477 (542)
Q Consensus       405 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~-----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~--l~  477 (542)
                      .=+.-+...|++.+|..-|..++... +|.+     ..|..-..++.+.+.++.|+.-..++++.+   |...-..  -+
T Consensus       100 ~EGN~~F~ngdyeeA~skY~~Ale~c-p~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~---pty~kAl~RRA  175 (271)
T KOG4234|consen  100 KEGNELFKNGDYEEANSKYQEALESC-PSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELN---PTYEKALERRA  175 (271)
T ss_pred             HHHHHhhhcccHHHHHHHHHHHHHhC-ccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcC---chhHHHHHHHH
Confidence            34566788999999999999999853 2322     234444567789999999999999999987   5443333  57


Q ss_pred             HHHhccCChHHHHHHHHHH-hcCCC
Q 038401          478 SLYGARKDFNMLESLFERL-DSDSN  501 (542)
Q Consensus       478 ~~~~~~g~~~~A~~~~~~~-~~~~~  501 (542)
                      .+|.+..++++|+.=++++ ..+|.
T Consensus       176 eayek~ek~eealeDyKki~E~dPs  200 (271)
T KOG4234|consen  176 EAYEKMEKYEEALEDYKKILESDPS  200 (271)
T ss_pred             HHHHhhhhHHHHHHHHHHHHHhCcc
Confidence            8899999999999999996 44554

>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=94.99  E-value=2.5  Score=37.71  Aligned_cols=147  Identities=14%  Similarity=0.046  Sum_probs=69.2

Q ss_pred             HHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH---hccCcHHHHHHHHH
Q 038401          383 EATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSY---GKLREFETADDLYS  459 (542)
Q Consensus       383 ~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~---~~~g~~~~A~~~~~  459 (542)
                      +|..+++.+... .+..+.++-.-+..+.+.++.+++.+.+.+|+..-..+ ...+..++..+   .... ...|...+.
T Consensus       105 ka~~~l~~l~~e-~~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~~~~-e~~~~~~l~~i~~l~~~~-~~~a~~~ld  181 (278)
T PF08631_consen  105 KALNALRLLESE-YGNKPEVFLLKLEILLKSFDEEEYEEILMRMIRSVDHS-ESNFDSILHHIKQLAEKS-PELAAFCLD  181 (278)
T ss_pred             HHHHHHHHHHHh-CCCCcHHHHHHHHHHhccCChhHHHHHHHHHHHhcccc-cchHHHHHHHHHHHHhhC-cHHHHHHHH
Confidence            445555555443 22234444445566666777788888888887642112 22333333332   3322 345555555


Q ss_pred             HHHHcCCCCchHHHHH--HH-HHHh--ccCC------hHHHHHHHHHHhcC---CCCCch-----hHHHHHHHHHHhhcc
Q 038401          460 EMQEEGCVFSDQVHFQ--ML-SLYG--ARKD------FNMLESLFERLDSD---SNINKK-----ELHHVVAGIYERANR  520 (542)
Q Consensus       460 ~~~~~~~~~~~~~~~~--l~-~~~~--~~g~------~~~A~~~~~~~~~~---~~~~~~-----~~~~~l~~~~~~~g~  520 (542)
                      .++.....++...+..  ++ ..+.  ..++      .+...++++.+...   +-....     .....-+..++++++
T Consensus       182 ~~l~~r~~~~~~~~~e~~vl~~~~~~~~~~~~~~~~~i~~l~~~~~~v~~~~~~~ls~~~~~a~~~LLW~~~~~~~~~k~  261 (278)
T PF08631_consen  182 YLLLNRFKSSEDQWLEKLVLTRVLLTTQSKDLSSSEKIESLEELLSIVEHSLGKQLSAEAASAIHTLLWNKGKKHYKAKN  261 (278)
T ss_pred             HHHHHHhCCChhHHHHHHHHHHHHHHcCCccccchhHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHhhcC
Confidence            5554432323221111  11 2222  2111      34444445543221   111111     122234556778999


Q ss_pred             hhhHHHHHHHHH
Q 038401          521 LNDASRIMNRMN  532 (542)
Q Consensus       521 ~~~A~~~~~~~~  532 (542)
                      |++|...|+-..
T Consensus       262 y~~A~~w~~~al  273 (278)
T PF08631_consen  262 YDEAIEWYELAL  273 (278)
T ss_pred             HHHHHHHHHHHH
Confidence            999999998644

It is also involved in sporulation [].

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=94.99  E-value=0.058  Score=29.33  Aligned_cols=30  Identities=20%  Similarity=0.223  Sum_probs=24.3

Q ss_pred             HHHHHHHHHHhhcchhhHHHHHHHHHhcCC
Q 038401          507 LHHVVAGIYERANRLNDASRIMNRMNKRRT  536 (542)
Q Consensus       507 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  536 (542)
                      +++.++.+|.+.|++++|.+.|+++.++.+
T Consensus         2 a~~~~a~~~~~~g~~~~A~~~~~~~~~~~P   31 (33)
T PF13174_consen    2 ALYRLARCYYKLGDYDEAIEYFQRLIKRYP   31 (33)
T ss_dssp             HHHHHHHHHHHHCHHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHHCc
Confidence            466788888888888888888888887663

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.88  E-value=2  Score=36.18  Aligned_cols=207  Identities=16%  Similarity=0.242  Sum_probs=106.5

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHH
Q 038401          266 TYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYE  345 (542)
Q Consensus       266 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  345 (542)
                      .|..-..+|...+++++|...+.+..+. ..-|...|       -....++.|..+.+++.+.  +--...+..-...|.
T Consensus        33 ~yekAAvafRnAk~feKakdcLlkA~~~-yEnnrslf-------hAAKayEqaamLake~~kl--sEvvdl~eKAs~lY~  102 (308)
T KOG1585|consen   33 LYEKAAVAFRNAKKFEKAKDCLLKASKG-YENNRSLF-------HAAKAYEQAAMLAKELSKL--SEVVDLYEKASELYV  102 (308)
T ss_pred             HHHHHHHHHHhhccHHHHHHHHHHHHHH-HHhcccHH-------HHHHHHHHHHHHHHHHHHh--HHHHHHHHHHHHHHH
Confidence            3444555666677777777766655421 01111111       1123345555555555443  222344555566677


Q ss_pred             HcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHc---CC--CcCHHHHHHHHHHHHhcCCHHHHH
Q 038401          346 RVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFRQAFDA---GE--VKDISVFGCMIELFSRNKKYANVI  420 (542)
Q Consensus       346 ~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~--~~~~~~~~~l~~~~~~~g~~~~A~  420 (542)
                      .+|..+.|-..+++.-+            ....-+++.|++++++...-   +.  +.-...+......+.+...+.+|.
T Consensus       103 E~GspdtAAmaleKAak------------~lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl~kf~Eaa  170 (308)
T KOG1585|consen  103 ECGSPDTAAMALEKAAK------------ALENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRLEKFTEAA  170 (308)
T ss_pred             HhCCcchHHHHHHHHHH------------HhhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhhHHhhHHH
Confidence            77777766665555321            22345666777777665432   11  011234455556666777777776


Q ss_pred             HHHHHHHhC----CCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHHHHcCCC-CchHHH-HH-HHHHHhccCChHHHHHH
Q 038401          421 EVFEKMRSA----GYFPDS-HIIALVLNSYGKLREFETADDLYSEMQEEGCV-FSDQVH-FQ-MLSLYGARKDFNMLESL  492 (542)
Q Consensus       421 ~~~~~~~~~----~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~-~~-l~~~~~~~g~~~~A~~~  492 (542)
                      ..+.+-...    .--|+. ..+...+-.+.-..++..|.+.++...+.+.. .|+... .. |+.+| ..|+.+++.++
T Consensus       171 ~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ay-d~gD~E~~~kv  249 (308)
T KOG1585|consen  171 TAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAY-DEGDIEEIKKV  249 (308)
T ss_pred             HHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHh-ccCCHHHHHHH
Confidence            655543221    111222 33445555666677888888888776554322 222222 22 44444 46677776665


Q ss_pred             HHH
Q 038401          493 FER  495 (542)
Q Consensus       493 ~~~  495 (542)
                      +..
T Consensus       250 l~s  252 (308)
T KOG1585|consen  250 LSS  252 (308)
T ss_pred             HcC
Confidence            554

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=94.62  E-value=0.093  Score=28.80  Aligned_cols=30  Identities=13%  Similarity=0.067  Sum_probs=23.9

Q ss_pred             hHHHHHHHHHHhhcchhhHHHHHHHHHhcC
Q 038401          506 ELHHVVAGIYERANRLNDASRIMNRMNKRR  535 (542)
Q Consensus       506 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  535 (542)
                      ..|..++.+|...|++++|+..++++.+..
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~   31 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALELD   31 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHC
Confidence            467888888999999999999998887754

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 ....

>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=94.59  E-value=1.8  Score=34.13  Aligned_cols=49  Identities=6%  Similarity=-0.016  Sum_probs=22.3

Q ss_pred             hCCHHHHHHHHHHHHHcCCCcC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 038401          378 AGRIEEATWVFRQAFDAGEVKD-ISVFGCMIELFSRNKKYANVIEVFEKMRS  428 (542)
Q Consensus       378 ~g~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  428 (542)
                      .++.+++..++..+.-.  +|. +..-..-+..+...|++.+|+.+|+.+..
T Consensus        23 ~~~~~D~e~lL~ALrvL--RP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~   72 (160)
T PF09613_consen   23 LGDPDDAEALLDALRVL--RPEFPELDLFDGWLHIVRGDWDDALRLLRELEE   72 (160)
T ss_pred             cCChHHHHHHHHHHHHh--CCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhc
Confidence            34555555555554442  222 11111222334555666666666666544

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=94.52  E-value=0.54  Score=38.37  Aligned_cols=101  Identities=10%  Similarity=0.016  Sum_probs=72.5

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH--HHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHH--H
Q 038401          400 ISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDS--HIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHF--Q  475 (542)
Q Consensus       400 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~--~  475 (542)
                      ...+..++..|.+.|+.++|++.|.++.+....|..  ..+..+++.....|++..+...+.++...-....+....  .
T Consensus        36 r~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrl  115 (177)
T PF10602_consen   36 RMALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRL  115 (177)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHH
Confidence            346778899999999999999999999886554543  566778888889999999999988877643111111111  1


Q ss_pred             ---HHHHHhccCChHHHHHHHHHHhcCC
Q 038401          476 ---MLSLYGARKDFNMLESLFERLDSDS  500 (542)
Q Consensus       476 ---l~~~~~~~g~~~~A~~~~~~~~~~~  500 (542)
                         -+-.+...+++.+|.+.|-......
T Consensus       116 k~~~gL~~l~~r~f~~AA~~fl~~~~t~  143 (177)
T PF10602_consen  116 KVYEGLANLAQRDFKEAAELFLDSLSTF  143 (177)
T ss_pred             HHHHHHHHHHhchHHHHHHHHHccCcCC
Confidence               2334556899999998888865443

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.

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=94.46  E-value=5.8  Score=39.51  Aligned_cols=145  Identities=15%  Similarity=0.203  Sum_probs=62.6

Q ss_pred             CHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH---Hhc----cCcHH
Q 038401          380 RIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNS---YGK----LREFE  452 (542)
Q Consensus       380 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~---~~~----~g~~~  452 (542)
                      +.+.|..+++++.+.|.+...... ..+..+.. ++++.+.-.+..+.+.|..-....-..+...   ...    ..+.+
T Consensus       379 ~~~~A~~~~k~aA~~g~~~A~~~~-~~~~~~g~-~~~~~~~~~~~~~a~~g~~~~q~~a~~l~~~~~~~~~~~~~~~~~~  456 (552)
T KOG1550|consen  379 NLELAFAYYKKAAEKGNPSAAYLL-GAFYEYGV-GRYDTALALYLYLAELGYEVAQSNAAYLLDQSEEDLFSRGVISTLE  456 (552)
T ss_pred             CHHHHHHHHHHHHHccChhhHHHH-HHHHHHcc-ccccHHHHHHHHHHHhhhhHHhhHHHHHHHhccccccccccccchh
Confidence            556666666666665521111111 11222222 5555555555555544332111110011110   111    12455


Q ss_pred             HHHHHHHHHHHcCCCCchHHHHHHHHHHhcc----CChHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhh-c--chhhHH
Q 038401          453 TADDLYSEMQEEGCVFSDQVHFQMLSLYGAR----KDFNMLESLFERLDSDSNINKKELHHVVAGIYERA-N--RLNDAS  525 (542)
Q Consensus       453 ~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g--~~~~A~  525 (542)
                      .+...|.+....+   +......++..|...    .+++.|...+.....++    ....+.++..+... |  .+..|.
T Consensus       457 ~~~~~~~~a~~~g---~~~a~~~lgd~y~~g~g~~~d~~~a~~~y~~a~~~~----~~~~~nlg~~~e~g~g~~~~~~a~  529 (552)
T KOG1550|consen  457 RAFSLYSRAAAQG---NADAILKLGDYYYYGLGTGRDPEKAAAQYARASEQG----AQALFNLGYMHEHGEGIKVLHLAK  529 (552)
T ss_pred             HHHHHHHHHHhcc---CHHHHhhhcceeeecCCCCCChHHHHHHHHHHHHhh----hHHHhhhhhHHhcCcCcchhHHHH
Confidence            6666666666655   222222244444332    23666666666644333    22333444444321 1  145666


Q ss_pred             HHHHHHHh
Q 038401          526 RIMNRMNK  533 (542)
Q Consensus       526 ~~~~~~~~  533 (542)
                      +++++...
T Consensus       530 ~~~~~~~~  537 (552)
T KOG1550|consen  530 RYYDQASE  537 (552)
T ss_pred             HHHHHHHh
Confidence            66666544

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=94.33  E-value=0.12  Score=28.34  Aligned_cols=27  Identities=26%  Similarity=0.283  Sum_probs=11.8

Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHHHHc
Q 038401          438 IALVLNSYGKLREFETADDLYSEMQEE  464 (542)
Q Consensus       438 ~~~l~~~~~~~g~~~~A~~~~~~~~~~  464 (542)
                      |..++.+|...|++++|+..|+++++.
T Consensus         4 ~~~~g~~~~~~~~~~~A~~~~~~al~~   30 (34)
T PF00515_consen    4 YYNLGNAYFQLGDYEEALEYYQRALEL   30 (34)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCchHHHHHHHHHHHH
Confidence            334444444444444444444444443

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 ....

>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=94.31  E-value=2.2  Score=34.08  Aligned_cols=30  Identities=13%  Similarity=0.242  Sum_probs=15.5

Q ss_pred             HHHHHhcCCCCcHHHHHHHHHHHHccCCHH
Q 038401          252 FRLMQRKEIEQNVVTYNTMIKIYGKSLEHE  281 (542)
Q Consensus       252 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  281 (542)
                      ++.+.+.+++|+...+..+++.+.+.|++.
T Consensus        17 irSl~~~~i~~~~~L~~lli~lLi~~~~~~   46 (167)
T PF07035_consen   17 IRSLNQHNIPVQHELYELLIDLLIRNGQFS   46 (167)
T ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHHcCCHH
Confidence            333444455555555555555555555543

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=94.29  E-value=0.12  Score=28.92  Aligned_cols=22  Identities=18%  Similarity=0.317  Sum_probs=10.0

Q ss_pred             HHHHHHHhccCcHHHHHHHHHH
Q 038401          439 ALVLNSYGKLREFETADDLYSE  460 (542)
Q Consensus       439 ~~l~~~~~~~g~~~~A~~~~~~  460 (542)
                      ..+...|.+.|++++|+++|++
T Consensus         3 ~~Lg~~~~~~g~~~~Ai~~y~~   24 (36)
T PF13176_consen    3 NNLGRIYRQQGDYEKAIEYYEQ   24 (36)
T ss_dssp             HHHHHHHHHCT-HHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHH
Confidence            3444444444444444444444

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=94.28  E-value=3.8  Score=36.70  Aligned_cols=133  Identities=8%  Similarity=0.181  Sum_probs=78.8

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHh--cC----CHHHHHHHHHHhHhCCC---CccHhHHHHHHHHHhccCc-
Q 038401           70 FDSAISWLQQMEQDRVSGDLVLYSNLIELARK--LS----DYSKAISIFSRLKSSGI---VPDLVAYNTMINVFGKAKL-  139 (542)
Q Consensus        70 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~----~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~-  139 (542)
                      +++.+.+++.|.+.|+..+..+|.+.......  ..    ....+..+++.|++...   .++...+..++..  ..++ 
T Consensus        78 ~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~  155 (297)
T PF13170_consen   78 FKEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDV  155 (297)
T ss_pred             HHHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccH
Confidence            44556778888888888777666654443333  12    24577888888887631   2334445555433  3333 


Q ss_pred             ---HHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHHHC-CC--hHHHHHHHHHHHhcCCCCChhhHHHHHHHH
Q 038401          140 ---FKEARLLIEEMREQGVKPDTV-SYSTLLNLYVEN-HK--FVEALSVFAEMNEVNCPLDLTTCNIMIDVY  204 (542)
Q Consensus       140 ---~~~a~~~~~~~~~~g~~~~~~-~~~~l~~~~~~~-g~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  204 (542)
                         .+.++.+|+.+.+.|+..+.. .+.+-+-++... .+  ..++.++++.+.+.++++....|..+.-..
T Consensus       156 e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lGlLa  227 (297)
T PF13170_consen  156 EELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLGLLA  227 (297)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHHHHH
Confidence               356778888888877665433 222222222222 11  346778888888888887777766554433

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=94.28  E-value=0.67  Score=40.47  Aligned_cols=79  Identities=22%  Similarity=0.151  Sum_probs=51.2

Q ss_pred             HHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHhHh-----CCCCccHhHHH
Q 038401           54 RYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKS-----SGIVPDLVAYN  128 (542)
Q Consensus        54 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~  128 (542)
                      ..++..++..+...|+++.+...++++....+ -+...|..++.+|.+.|+...|+..|+.+.+     .|+.|.+.+..
T Consensus       153 ~~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp-~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~  231 (280)
T COG3629         153 IKALTKLAEALIACGRADAVIEHLERLIELDP-YDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRA  231 (280)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHhcCc-cchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHH
Confidence            34566666666667777777777777666542 2666677777777777777777776666554     46667666666


Q ss_pred             HHHHH
Q 038401          129 TMINV  133 (542)
Q Consensus       129 ~l~~~  133 (542)
                      .....
T Consensus       232 ~y~~~  236 (280)
T COG3629         232 LYEEI  236 (280)
T ss_pred             HHHHH
Confidence            55555

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.26  E-value=2.8  Score=35.13  Aligned_cols=146  Identities=14%  Similarity=0.140  Sum_probs=80.5

Q ss_pred             HHHcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhc-CCHHHHHHH
Q 038401          344 YERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRN-KKYANVIEV  422 (542)
Q Consensus       344 ~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~A~~~  422 (542)
                      |.+.+++++|...++.           .+..|...|++..|-.....               +...|-.. .+++.|+..
T Consensus        83 cykk~~~~eAv~cL~~-----------aieIyt~~Grf~~aAk~~~~---------------iaEiyEsdl~d~ekaI~~  136 (288)
T KOG1586|consen   83 CYKKVDPEEAVNCLEK-----------AIEIYTDMGRFTMAAKHHIE---------------IAEIYESDLQDFEKAIAH  136 (288)
T ss_pred             HhhccChHHHHHHHHH-----------HHHHHHhhhHHHHHHhhhhh---------------HHHHHhhhHHHHHHHHHH
Confidence            3455577777766554           24556666666665443332               23333322 456666666


Q ss_pred             HHHHHhC--CCCCC---HHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHH-----HHH-HHHHHhccCChHHHHH
Q 038401          423 FEKMRSA--GYFPD---SHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQV-----HFQ-MLSLYGARKDFNMLES  491 (542)
Q Consensus       423 ~~~~~~~--~~~p~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~-----~~~-l~~~~~~~g~~~~A~~  491 (542)
                      |++.-+.  |-..+   ...+.-+...-...|++.+|+.+|++..+.....+..-     ++. .+-++.-..+.=.+..
T Consensus       137 YE~Aae~yk~ees~ssANKC~lKvA~yaa~leqY~~Ai~iyeqva~~s~~n~LLKys~KdyflkAgLChl~~~D~v~a~~  216 (288)
T KOG1586|consen  137 YEQAAEYYKGEESVSSANKCLLKVAQYAAQLEQYSKAIDIYEQVARSSLDNNLLKYSAKDYFLKAGLCHLCKADEVNAQR  216 (288)
T ss_pred             HHHHHHHHcchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccchHHHhHHHHHHHHHHHHhHhcccHHHHHH
Confidence            6666542  11111   12333444444678999999999999988653223221     111 2223333467667777


Q ss_pred             HHHHH-hcCCCCCchhHHHHHHHHH
Q 038401          492 LFERL-DSDSNINKKELHHVVAGIY  515 (542)
Q Consensus       492 ~~~~~-~~~~~~~~~~~~~~l~~~~  515 (542)
                      .+++- ..+|...++--+..|-+++
T Consensus       217 ALeky~~~dP~F~dsREckflk~L~  241 (288)
T KOG1586|consen  217 ALEKYQELDPAFTDSRECKFLKDLL  241 (288)
T ss_pred             HHHHHHhcCCcccccHHHHHHHHHH
Confidence            77774 4567766665555555544

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=94.21  E-value=1.4  Score=35.76  Aligned_cols=92  Identities=18%  Similarity=0.260  Sum_probs=71.8

Q ss_pred             HHHHHHhCCHHHHHHHHHHHHHcCCCcC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHh
Q 038401          372 ITILARAGRIEEATWVFRQAFDAGEVKD----ISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDS-HIIALVLNSYG  446 (542)
Q Consensus       372 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~-~~~~~l~~~~~  446 (542)
                      ..-+...|++++|..-|..+++.-+...    ...|..-..++.+.+.++.|+.-..+.++  +.|+. ..+..-..+|.
T Consensus       102 GN~~F~ngdyeeA~skY~~Ale~cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaie--l~pty~kAl~RRAeaye  179 (271)
T KOG4234|consen  102 GNELFKNGDYEEANSKYQEALESCPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIE--LNPTYEKALERRAEAYE  179 (271)
T ss_pred             HHHhhhcccHHHHHHHHHHHHHhCccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHh--cCchhHHHHHHHHHHHH
Confidence            4457788999999999999998733222    33455566778899999999999999988  44643 44444567889


Q ss_pred             ccCcHHHHHHHHHHHHHcC
Q 038401          447 KLREFETADDLYSEMQEEG  465 (542)
Q Consensus       447 ~~g~~~~A~~~~~~~~~~~  465 (542)
                      +..++++|+.-|+++++..
T Consensus       180 k~ek~eealeDyKki~E~d  198 (271)
T KOG4234|consen  180 KMEKYEEALEDYKKILESD  198 (271)
T ss_pred             hhhhHHHHHHHHHHHHHhC
Confidence            9999999999999999976

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=94.12  E-value=1.6  Score=38.12  Aligned_cols=84  Identities=14%  Similarity=0.153  Sum_probs=47.9

Q ss_pred             CCCCHHhHHHHHHHHHhcCCHHHHHHHHHHhHhC-CCCccHhHHHHHHHHHhccCcHHHHHHHHHH-----HHHcCCCCC
Q 038401           85 VSGDLVLYSNLIELARKLSDYSKAISIFSRLKSS-GIVPDLVAYNTMINVFGKAKLFKEARLLIEE-----MREQGVKPD  158 (542)
Q Consensus        85 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-----~~~~g~~~~  158 (542)
                      -.++..+....+..++..+++.+-.++++..... +...|...|..+|......|+..-..++.++     +...|+..+
T Consensus       198 ~~l~~~vi~~Il~~L~~~~dW~kl~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~GhLLwikR~~V~v~  277 (292)
T PF13929_consen  198 KSLTRNVIISILEILAESRDWNKLFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDDGHLLWIKRNNVDVT  277 (292)
T ss_pred             cCCChhHHHHHHHHHHhcccHHHHHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhCCCeEEeeecCCcCC
Confidence            3455566666666667777777766666665543 3344666666777777777766555555443     122344444


Q ss_pred             HHHHHHHHHH
Q 038401          159 TVSYSTLLNL  168 (542)
Q Consensus       159 ~~~~~~l~~~  168 (542)
                      ...-..+-+.
T Consensus       278 ~~L~~~L~~L  287 (292)
T PF13929_consen  278 DELRSQLSEL  287 (292)
T ss_pred             HHHHHHHHHH
Confidence            4444444333

>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=94.09  E-value=1.9  Score=32.45  Aligned_cols=62  Identities=13%  Similarity=0.168  Sum_probs=29.5

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcC
Q 038401          197 CNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKE  259 (542)
Q Consensus       197 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  259 (542)
                      ....+......|.-++..+++..+.+.+ .+++...-.+..+|.+.|+..++.+++.+.-+.|
T Consensus        89 vD~ALd~lv~~~kkDqLdki~~~l~kn~-~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG  150 (161)
T PF09205_consen   89 VDLALDILVKQGKKDQLDKIYNELKKNE-EINPEFLVKIANAYKKLGNTREANELLKEACEKG  150 (161)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHhhcc-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhc
Confidence            3444445555555555555555554432 4555555555555555555555555555555554

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=94.03  E-value=0.72  Score=39.58  Aligned_cols=117  Identities=15%  Similarity=0.259  Sum_probs=68.5

Q ss_pred             CCcHHHHHHHHHHHHHh-----cCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHH
Q 038401           16 SPSVFAYNVVLRNVLRA-----KQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLV   90 (542)
Q Consensus        16 ~~~~~~~~~ll~~~~~~-----~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~   90 (542)
                      ..|-.+|-..+..+...     +.++=.-..+..|.+.|+.-|..+|+.|++.+-+..-                -|. .
T Consensus        64 ~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkf----------------iP~-n  126 (406)
T KOG3941|consen   64 KRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKF----------------IPQ-N  126 (406)
T ss_pred             cccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCccccc----------------ccH-H
Confidence            34555566666555432     3444455556667777777777777777765533221                111 1


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcH-HHHHHHHHHHH
Q 038401           91 LYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLF-KEARLLIEEMR  151 (542)
Q Consensus        91 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~  151 (542)
                      .+...+-.|-+  +-+-++.++++|...|+.||-.+-..|++++.+.+-. .+..++.--|.
T Consensus       127 vfQ~~F~HYP~--QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p~~K~~Rm~yWmP  186 (406)
T KOG3941|consen  127 VFQKVFLHYPQ--QQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNFPTKKVKRMLYWMP  186 (406)
T ss_pred             HHHHHHhhCch--hhhHHHHHHHHHHHcCCCCchHHHHHHHHHhccccccHHHHHHHHHhhh
Confidence            11112212222  2345788999999999999999999999999887763 33444444443

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=93.93  E-value=5.4  Score=37.13  Aligned_cols=53  Identities=15%  Similarity=0.270  Sum_probs=31.6

Q ss_pred             HHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 038401          271 IKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRS  327 (542)
Q Consensus       271 ~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  327 (542)
                      ..+.-+.|+++...+........  .++...+..+...  ..++++++....+.+..
T Consensus         5 ~eaaWrl~~Wd~l~~~~~~~~~~--~~~~~~~~al~~l--~~~~~~~~~~~i~~~r~   57 (352)
T PF02259_consen    5 AEAAWRLGDWDLLEEYLSQSNED--SPEYSFYRALLAL--RQGDYDEAKKYIEKARQ   57 (352)
T ss_pred             HHHHHhcCChhhHHHHHhhccCC--ChhHHHHHHHHHH--hCccHHHHHHHHHHHHH
Confidence            45666778888755555444432  2344444444433  77888888877776654

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>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=93.86  E-value=2.8  Score=33.55  Aligned_cols=101  Identities=14%  Similarity=0.153  Sum_probs=43.5

Q ss_pred             HHHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcC
Q 038401          180 SVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKE  259 (542)
Q Consensus       180 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  259 (542)
                      +.++.+.+.+++|+...+..++..+.+.|++...    ..+...++-+|.......+-.+..  ....+.++=-+|..+ 
T Consensus        15 EYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L----~qllq~~Vi~DSk~lA~~LLs~~~--~~~~~~Ql~lDMLkR-   87 (167)
T PF07035_consen   15 EYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQL----HQLLQYHVIPDSKPLACQLLSLGN--QYPPAYQLGLDMLKR-   87 (167)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHH----HHHHhhcccCCcHHHHHHHHHhHc--cChHHHHHHHHHHHH-
Confidence            3344444455555555555566666555554432    223333334444333333222211  122233333333321 


Q ss_pred             CCCcHHHHHHHHHHHHccCCHHHHHHHHHHH
Q 038401          260 IEQNVVTYNTMIKIYGKSLEHEKATNLMQEM  290 (542)
Q Consensus       260 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  290 (542)
                         =...+..++..+...|++-+|.++.+..
T Consensus        88 ---L~~~~~~iievLL~~g~vl~ALr~ar~~  115 (167)
T PF07035_consen   88 ---LGTAYEEIIEVLLSKGQVLEALRYARQY  115 (167)
T ss_pred             ---hhhhHHHHHHHHHhCCCHHHHHHHHHHc
Confidence               0012344455555566666666555443

>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=93.70  E-value=4.9  Score=35.87  Aligned_cols=122  Identities=16%  Similarity=0.203  Sum_probs=61.3

Q ss_pred             HHhcCHHHHHHHHHHHHhCC--CCCCHH------hHHHHHHHHhccC-CHHHHHHHHHHHHhC--------CCCCCH---
Q 038401           30 LRAKQWELAHGLFDEMRQRG--IAPDRY------TYSTLITCFGKEG-MFDSAISWLQQMEQD--------RVSGDL---   89 (542)
Q Consensus        30 ~~~~~~~~A~~~~~~~~~~~--~~~~~~------~~~~l~~~~~~~g-~~~~a~~~~~~~~~~--------~~~~~~---   89 (542)
                      .+.|+.+.|...+.+....-  ..|+..      .|+.-.. ....+ +++.|..++++..+.        ...++.   
T Consensus         4 ~~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~~-l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~el   82 (278)
T PF08631_consen    4 WKQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGKS-LLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSEL   82 (278)
T ss_pred             hhhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHHH-HHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHH
Confidence            46788888888887776542  122211      2222222 23344 777777776665332        112222   


Q ss_pred             --HhHHHHHHHHHhcCCHH---HHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHc
Q 038401           90 --VLYSNLIELARKLSDYS---KAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQ  153 (542)
Q Consensus        90 --~~~~~l~~~~~~~~~~~---~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  153 (542)
                        .++..++.++...+..+   +|..+++.+.+.. +..+..+-.-+..+.+.++.+.+.+++.+|+..
T Consensus        83 r~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~-~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~  150 (278)
T PF08631_consen   83 RLSILRLLANAYLEWDTYESVEKALNALRLLESEY-GNKPEVFLLKLEILLKSFDEEEYEEILMRMIRS  150 (278)
T ss_pred             HHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhC-CCCcHHHHHHHHHHhccCChhHHHHHHHHHHHh
Confidence              23444555555555433   3344444443321 212334444455555566666666666666654

It is also involved in sporulation [].

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=93.69  E-value=9.2  Score=39.03  Aligned_cols=159  Identities=10%  Similarity=-0.005  Sum_probs=72.2

Q ss_pred             HHhCCHHHHHHHHHHHHHcC----CCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH---HHHHHHH--HHHh
Q 038401          376 ARAGRIEEATWVFRQAFDAG----EVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDS---HIIALVL--NSYG  446 (542)
Q Consensus       376 ~~~g~~~~A~~~~~~~~~~~----~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~---~~~~~l~--~~~~  446 (542)
                      ...|+++.|.++.+.....-    ..+....+..+..+..-.|++++|..+..+..+..-.-+.   ..|..+.  ..+.
T Consensus       469 l~~~~~e~a~~lar~al~~L~~~~~~~r~~~~sv~~~a~~~~G~~~~Al~~~~~a~~~a~~~~~~~l~~~~~~~~s~il~  548 (894)
T COG2909         469 LNRGDPEEAEDLARLALVQLPEAAYRSRIVALSVLGEAAHIRGELTQALALMQQAEQMARQHDVYHLALWSLLQQSEILE  548 (894)
T ss_pred             HhcCCHHHHHHHHHHHHHhcccccchhhhhhhhhhhHHHHHhchHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHH
Confidence            44567777777766666431    1223455556666666677777777766655442111122   2222221  2334


Q ss_pred             ccCc--HHHHHHHHHHHHHcCC-CCch----HHHHH-HHHHHhc-cCChHHHHHHHHHHhcC-CCC-CchhHHHHHHHHH
Q 038401          447 KLRE--FETADDLYSEMQEEGC-VFSD----QVHFQ-MLSLYGA-RKDFNMLESLFERLDSD-SNI-NKKELHHVVAGIY  515 (542)
Q Consensus       447 ~~g~--~~~A~~~~~~~~~~~~-~~~~----~~~~~-l~~~~~~-~g~~~~A~~~~~~~~~~-~~~-~~~~~~~~l~~~~  515 (542)
                      ..|+  +++....+........ ..|-    ..... +.+++.+ .+.-.+|...++-.... +.. .....+..|+.++
T Consensus       549 ~qGq~~~a~~~~~~~~~~~q~l~q~~~~~f~~~~r~~ll~~~~r~~~~~~ear~~~~~~~~~~~~~~~~~~~~~~LA~l~  628 (894)
T COG2909         549 AQGQVARAEQEKAFNLIREQHLEQKPRHEFLVRIRAQLLRAWLRLDLAEAEARLGIEVGSVYTPQPLLSRLALSMLAELE  628 (894)
T ss_pred             HhhHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHHHHHHHHHHHhhhhHHhhhcchhhhhcccchhHHHHHHHHHHHHH
Confidence            5552  3333333333332210 0111    11111 3333333 22233333333332211 111 1112234667777


Q ss_pred             HhhcchhhHHHHHHHHHhc
Q 038401          516 ERANRLNDASRIMNRMNKR  534 (542)
Q Consensus       516 ~~~g~~~~A~~~~~~~~~~  534 (542)
                      ...|+.++|...+.++...
T Consensus       629 ~~~Gdl~~A~~~l~~~~~l  647 (894)
T COG2909         629 FLRGDLDKALAQLDELERL  647 (894)
T ss_pred             HhcCCHHHHHHHHHHHHHH
Confidence            7777777777777776553

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=93.58  E-value=0.2  Score=27.35  Aligned_cols=27  Identities=19%  Similarity=0.240  Sum_probs=12.7

Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHHHHc
Q 038401          438 IALVLNSYGKLREFETADDLYSEMQEE  464 (542)
Q Consensus       438 ~~~l~~~~~~~g~~~~A~~~~~~~~~~  464 (542)
                      +..++..+...|++++|++.|+++++.
T Consensus         4 ~~~lg~~~~~~~~~~~A~~~~~~al~l   30 (34)
T PF07719_consen    4 WYYLGQAYYQLGNYEEAIEYFEKALEL   30 (34)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            334444455555555555555555443

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 ....

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=93.38  E-value=1.2  Score=39.07  Aligned_cols=75  Identities=15%  Similarity=0.223  Sum_probs=56.5

Q ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh-----CCCCCCHHHHHHHHH
Q 038401          369 ETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRS-----AGYFPDSHIIALVLN  443 (542)
Q Consensus       369 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~~p~~~~~~~l~~  443 (542)
                      ..++..+...|+++.+.+.+++.+... +-+...|..++.+|.+.|+...|+..|+++.+     .|+.|...+......
T Consensus       157 ~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~y~~  235 (280)
T COG3629         157 TKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRALYEE  235 (280)
T ss_pred             HHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHHHHH
Confidence            345566777788888888888888763 46788888889999999999999888888765     377777666655444


Q ss_pred             H
Q 038401          444 S  444 (542)
Q Consensus       444 ~  444 (542)
                      .
T Consensus       236 ~  236 (280)
T COG3629         236 I  236 (280)
T ss_pred             H
Confidence            3

>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=93.32  E-value=0.21  Score=27.30  Aligned_cols=30  Identities=17%  Similarity=0.193  Sum_probs=25.6

Q ss_pred             hHHHHHHHHHHhhcchhhHHHHHHHHHhcC
Q 038401          506 ELHHVVAGIYERANRLNDASRIMNRMNKRR  535 (542)
Q Consensus       506 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  535 (542)
                      ..|..++.+|...|++++|...|++..+..
T Consensus         2 ~~~~~lg~~y~~~~~~~~A~~~~~~a~~~~   31 (34)
T PF13181_consen    2 EAYYNLGKIYEQLGDYEEALEYFEKALELN   31 (34)
T ss_dssp             HHHHHHHHHHHHTTSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            468889999999999999999999987644

...

>PRK11619 lytic murein transglycosylase; Provisional

Probab=93.29  E-value=10  Score=38.40  Aligned_cols=117  Identities=8%  Similarity=-0.044  Sum_probs=72.1

Q ss_pred             hCCHHHHHHHHHHHHHcC-CCcC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHH
Q 038401          378 AGRIEEATWVFRQAFDAG-EVKD--ISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETA  454 (542)
Q Consensus       378 ~g~~~~A~~~~~~~~~~~-~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A  454 (542)
                      ..+.+.|...+....... ..+.  ..++..++......+...+|...+.......  .+......-+......++++.+
T Consensus       254 r~d~~~A~~~~~~~~~~~~~~~~~~~~~~~~lA~~~a~~~~~~~a~~w~~~~~~~~--~~~~~~e~r~r~Al~~~dw~~~  331 (644)
T PRK11619        254 RQDAENARLMIPSLVRAQKLNEDQRQELRDIVAWRLMGNDVTDEQAKWRDDVIMRS--QSTSLLERRVRMALGTGDRRGL  331 (644)
T ss_pred             HhCHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhccCCHHHHHHHHhccccc--CCcHHHHHHHHHHHHccCHHHH
Confidence            456688888888765443 2221  2334444444444433566666666554322  2444455555555688899988


Q ss_pred             HHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHHHHHhc
Q 038401          455 DDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLFERLDS  498 (542)
Q Consensus       455 ~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~~~~  498 (542)
                      ...+..|....  .....+.. ++.++...|+.++|...++++..
T Consensus       332 ~~~i~~L~~~~--~~~~rw~YW~aRa~~~~g~~~~A~~~~~~~a~  374 (644)
T PRK11619        332 NTWLARLPMEA--KEKDEWRYWQADLLLEQGRKAEAEEILRQLMQ  374 (644)
T ss_pred             HHHHHhcCHhh--ccCHhhHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            88888875543  12333444 78887788999999999999753

>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=93.15  E-value=1.6  Score=35.01  Aligned_cols=54  Identities=20%  Similarity=0.369  Sum_probs=27.7

Q ss_pred             HHHHHHHHHHHhCCCCCCH-HHHHHHHHHHhccC-----------cHHHHHHHHHHHHHcCCCCchHHHHH
Q 038401          417 ANVIEVFEKMRSAGYFPDS-HIIALVLNSYGKLR-----------EFETADDLYSEMQEEGCVFSDQVHFQ  475 (542)
Q Consensus       417 ~~A~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g-----------~~~~A~~~~~~~~~~~~~~~~~~~~~  475 (542)
                      ++|+.-|++++.  +.|+. .++..++.+|...+           .+++|..+|+++.+..   |+...|.
T Consensus        52 edAisK~eeAL~--I~P~~hdAlw~lGnA~ts~A~l~~d~~~A~~~F~kA~~~FqkAv~~~---P~ne~Y~  117 (186)
T PF06552_consen   52 EDAISKFEEALK--INPNKHDALWCLGNAYTSLAFLTPDTAEAEEYFEKATEYFQKAVDED---PNNELYR  117 (186)
T ss_dssp             HHHHHHHHHHHH--H-TT-HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHH----TT-HHHH
T ss_pred             HHHHHHHHHHHh--cCCchHHHHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHhcC---CCcHHHH
Confidence            344444555555  55654 55666666665433           2556666666666654   5555554

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.

>KOG2471 consensus TPR repeat-containing protein [General function prediction only]

Probab=93.10  E-value=7.9  Score=36.49  Aligned_cols=64  Identities=9%  Similarity=0.017  Sum_probs=44.6

Q ss_pred             HHHHHHhccCChHHHHHHHHHH-hcCCCCCchhHHHHHHHHHHhhcchhhHHHHHHHHHhcCCCC
Q 038401          475 QMLSLYGARKDFNMLESLFERL-DSDSNINKKELHHVVAGIYERANRLNDASRIMNRMNKRRTFN  538 (542)
Q Consensus       475 ~l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  538 (542)
                      .++.+++-+|++++|..++... ...+...+..+......+=...|+...|...+++-+--...|
T Consensus       624 nLa~a~alq~~~dqAk~ll~~aatl~hs~v~~~A~~lavyidL~~G~~q~al~~lk~~~~~~~v~  688 (696)
T KOG2471|consen  624 NLAAALALQGHHDQAKSLLTHAATLLHSLVNVQATVLAVYIDLMLGRSQDALARLKQCTHVSFVP  688 (696)
T ss_pred             HHHHHHHHhcccHHHHHHHHHHHHhhhccccHHHHHHHHHHHHhcCCCcchHHHHHhcccccccC
Confidence            3889999999999999999652 222322244444444445567899999999999866554444

>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function

Probab=93.01  E-value=1.9  Score=36.45  Aligned_cols=94  Identities=16%  Similarity=0.172  Sum_probs=59.5

Q ss_pred             HhcCCHHHHHHHHHHHHh----CCCCCC--HHHHHHHHHHHhccCcHH-------HHHHHHHHHHHcCCCC-----chHH
Q 038401          411 SRNKKYANVIEVFEKMRS----AGYFPD--SHIIALVLNSYGKLREFE-------TADDLYSEMQEEGCVF-----SDQV  472 (542)
Q Consensus       411 ~~~g~~~~A~~~~~~~~~----~~~~p~--~~~~~~l~~~~~~~g~~~-------~A~~~~~~~~~~~~~~-----~~~~  472 (542)
                      .....+++|++.|.-++-    .+.+|.  ...+..+.+.|...|+.+       .|.+.|.++.+....+     ....
T Consensus        88 ~~~Rt~~~ai~~YkLAll~~~~~~~~~s~~A~l~LrlAWlyR~~~~~~~E~~fl~~Al~~y~~a~~~e~~~~~~~~~~~l  167 (214)
T PF09986_consen   88 SGERTLEEAIESYKLALLCAQIKKEKPSKKAGLCLRLAWLYRDLGDEENEKRFLRKALEFYEEAYENEDFPIEGMDEATL  167 (214)
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhccCCHHHHHHHHHHHHHHHHHHHHhCcCCCCCchHHHH
Confidence            344566667666665432    133343  255667778888888744       5666666666544221     1233


Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHhcCCCCCc
Q 038401          473 HFQMLSLYGARKDFNMLESLFERLDSDSNINK  504 (542)
Q Consensus       473 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~  504 (542)
                      .|.++.+..+.|++++|.++|.++...++.+.
T Consensus       168 ~YLigeL~rrlg~~~eA~~~fs~vi~~~~~s~  199 (214)
T PF09986_consen  168 LYLIGELNRRLGNYDEAKRWFSRVIGSKKASK  199 (214)
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHcCCCCCC
Confidence            44478888899999999999999877766543

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=93.00  E-value=0.18  Score=27.70  Aligned_cols=31  Identities=13%  Similarity=0.399  Sum_probs=17.5

Q ss_pred             HHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHH
Q 038401          389 RQAFDAGEVKDISVFGCMIELFSRNKKYANVI  420 (542)
Q Consensus       389 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  420 (542)
                      +++++.. |.+...|+.+...|...|++++|+
T Consensus         3 ~kAie~~-P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    3 KKAIELN-PNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             HHHHHHC-CCCHHHHHHHHHHHHHCcCHHhhc
Confidence            3444432 345666666666666666666654

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=92.90  E-value=2.4  Score=34.61  Aligned_cols=96  Identities=13%  Similarity=0.098  Sum_probs=66.7

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHH---HHHHHHHHhccCChHHHHHHHHHHhcCCCCC-ch----hH
Q 038401          436 HIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQV---HFQMLSLYGARKDFNMLESLFERLDSDSNIN-KK----EL  507 (542)
Q Consensus       436 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~-~~----~~  507 (542)
                      ..+..++.-|.+.|+.++|.+.|.++.+.. ..+...   .+.++.+....|++..+...+.+....+... +.    ..
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~-~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrl  115 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRARDYC-TSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRL  115 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhhc-CCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHH
Confidence            567788999999999999999999988865 334333   2237788888999999999999864332211 11    11


Q ss_pred             HHHHHHHHHhhcchhhHHHHHHHHH
Q 038401          508 HHVVAGIYERANRLNDASRIMNRMN  532 (542)
Q Consensus       508 ~~~l~~~~~~~g~~~~A~~~~~~~~  532 (542)
                      -..-+-.+...|++.+|.+.|-...
T Consensus       116 k~~~gL~~l~~r~f~~AA~~fl~~~  140 (177)
T PF10602_consen  116 KVYEGLANLAQRDFKEAAELFLDSL  140 (177)
T ss_pred             HHHHHHHHHHhchHHHHHHHHHccC
Confidence            1122334456788999988887643

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=92.81  E-value=7  Score=35.09  Aligned_cols=131  Identities=19%  Similarity=0.324  Sum_probs=69.4

Q ss_pred             HHHHHHHHHHHHCCCCCChhHHHHHHHHHHh--c----CcHHHHHHHHHHHHhcCCC---CcHHHHHHHHHHHHccCCH-
Q 038401          211 KDADRLFWSMRKMGIDPSVVSYNTLLRVYGE--A----ELFGEAIHLFRLMQRKEIE---QNVVTYNTMIKIYGKSLEH-  280 (542)
Q Consensus       211 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~--~----~~~~~a~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~-  280 (542)
                      ++...+++.+.+.|+..+..++-+.......  .    ....++..+|+.|.+..+.   ++...+..++..  ..++. 
T Consensus        79 ~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~e  156 (297)
T PF13170_consen   79 KEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDVE  156 (297)
T ss_pred             HHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccHH
Confidence            3455666777777766666555443222222  1    1245677777777776432   233344444333  33333 


Q ss_pred             ---HHHHHHHHHHHHcCCCCCH--HHHHHHHHHHHhcCC--HHHHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 038401          281 ---EKATNLMQEMQNRGIEPNA--ITYSTIIAIWGKAGK--LDRAAMLFQKLRSSGVEIDPVLYQTMIVA  343 (542)
Q Consensus       281 ---~~a~~~~~~~~~~~~~p~~--~~~~~l~~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  343 (542)
                         +.+..+++.+.+.|+..+-  ...+.++..+.....  ..++.++++.+.+.++++....|..+.-.
T Consensus       157 ~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lGlL  226 (297)
T PF13170_consen  157 ELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLGLL  226 (297)
T ss_pred             HHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHHHH
Confidence               3455666666666655432  233344433322222  34677777788888777777666655433

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=92.70  E-value=12  Score=37.74  Aligned_cols=43  Identities=23%  Similarity=0.264  Sum_probs=25.4

Q ss_pred             HHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHC
Q 038401          129 TMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVEN  172 (542)
Q Consensus       129 ~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~  172 (542)
                      .+|-.|.++|++++|.++....... .......+...+..|...
T Consensus       116 a~Iyy~LR~G~~~~A~~~~~~~~~~-~~~~~~~f~~~l~~~~~s  158 (613)
T PF04097_consen  116 ALIYYCLRCGDYDEALEVANENRNQ-FQKIERSFPTYLKAYASS  158 (613)
T ss_dssp             HHHHHHHTTT-HHHHHHHHHHTGGG-S-TTTTHHHHHHHHCTTT
T ss_pred             HHHHHHHhcCCHHHHHHHHHHhhhh-hcchhHHHHHHHHHHHhC
Confidence            4455677788888888877554433 333445566666666654

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.

>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=92.67  E-value=3.4  Score=31.16  Aligned_cols=64  Identities=16%  Similarity=0.331  Sum_probs=37.5

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcC
Q 038401          401 SVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEG  465 (542)
Q Consensus       401 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  465 (542)
                      ......+..+..+|+-+.-.+++..+.+ +-.|++..+..+..+|.+.|+..++.+++.++.+.|
T Consensus        87 e~vD~ALd~lv~~~kkDqLdki~~~l~k-n~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG  150 (161)
T PF09205_consen   87 EYVDLALDILVKQGKKDQLDKIYNELKK-NEEINPEFLVKIANAYKKLGNTREANELLKEACEKG  150 (161)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHhh-ccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhc
Confidence            3344445566666776666666666654 234666666677777777777777777777777766

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=92.64  E-value=2.6  Score=33.18  Aligned_cols=82  Identities=15%  Similarity=0.040  Sum_probs=53.6

Q ss_pred             HHHHHHHHHH---HHhcCCHHHHHHHHHHHHhCCCCCCHHHH-HHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH
Q 038401          400 ISVFGCMIEL---FSRNKKYANVIEVFEKMRSAGYFPDSHII-ALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ  475 (542)
Q Consensus       400 ~~~~~~l~~~---~~~~g~~~~A~~~~~~~~~~~~~p~~~~~-~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  475 (542)
                      ..+.+.|+..   -...++.+++..++..+.-  ++|..... ..-...+...|+|.+|+.+++.+.+..  +..+..-.
T Consensus         7 ~~iv~gLie~~~~al~~~~~~D~e~lL~ALrv--LRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~--~~~p~~kA   82 (160)
T PF09613_consen    7 DEIVGGLIEVLSVALRLGDPDDAEALLDALRV--LRPEFPELDLFDGWLHIVRGDWDDALRLLRELEERA--PGFPYAKA   82 (160)
T ss_pred             HHHHHHHHHHHHHHHccCChHHHHHHHHHHHH--hCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccC--CCChHHHH
Confidence            3445555544   4578899999999999987  56765332 233456778999999999999987765  12222223


Q ss_pred             -HHHHHhccCC
Q 038401          476 -MLSLYGARKD  485 (542)
Q Consensus       476 -l~~~~~~~g~  485 (542)
                       ++.++...|+
T Consensus        83 LlA~CL~~~~D   93 (160)
T PF09613_consen   83 LLALCLYALGD   93 (160)
T ss_pred             HHHHHHHHcCC
Confidence             4455545554

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.03  E-value=3  Score=40.20  Aligned_cols=159  Identities=14%  Similarity=0.120  Sum_probs=98.5

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCC
Q 038401          336 LYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKK  415 (542)
Q Consensus       336 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  415 (542)
                      ..+.+...+.+.|-.++|+.+-..        ...-.....+.|+++.|.++..+.      .+..-|..|.++....|+
T Consensus       616 ~rt~va~Fle~~g~~e~AL~~s~D--------~d~rFelal~lgrl~iA~~la~e~------~s~~Kw~~Lg~~al~~~~  681 (794)
T KOG0276|consen  616 IRTKVAHFLESQGMKEQALELSTD--------PDQRFELALKLGRLDIAFDLAVEA------NSEVKWRQLGDAALSAGE  681 (794)
T ss_pred             hhhhHHhHhhhccchHhhhhcCCC--------hhhhhhhhhhcCcHHHHHHHHHhh------cchHHHHHHHHHHhhccc
Confidence            445566666777777777654221        112234556778888888776654      456778899999999999


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHHHHHHHhccCChHHHHHHHHH
Q 038401          416 YANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQMLSLYGARKDFNMLESLFER  495 (542)
Q Consensus       416 ~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  495 (542)
                      +..|.+.|.+...         |..|+-.+...|+.+.-..+-+...+.+  ..+.    ...+|...|+++++.+++.+
T Consensus       682 l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~~la~~~~~~g--~~N~----AF~~~~l~g~~~~C~~lLi~  746 (794)
T KOG0276|consen  682 LPLASECFLRARD---------LGSLLLLYTSSGNAEGLAVLASLAKKQG--KNNL----AFLAYFLSGDYEECLELLIS  746 (794)
T ss_pred             chhHHHHHHhhcc---------hhhhhhhhhhcCChhHHHHHHHHHHhhc--ccch----HHHHHHHcCCHHHHHHHHHh
Confidence            9999988887765         3345556666777666555555565555  1121    23456678999999888876


Q ss_pred             HhcCCCCCchhHHHHHHHHHHhhcchhhHHHHHHH
Q 038401          496 LDSDSNINKKELHHVVAGIYERANRLNDASRIMNR  530 (542)
Q Consensus       496 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  530 (542)
                      -..-|.    .+  .+++.|+. .+..+-..++++
T Consensus       747 t~r~pe----Aa--l~ArtYlp-s~vs~iv~~wk~  774 (794)
T KOG0276|consen  747 TQRLPE----AA--LFARTYLP-SQVSRIVELWKE  774 (794)
T ss_pred             cCcCcH----HH--HHHhhhCh-HHHHHHHHHHHH
Confidence            533221    22  34555554 234444444443

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=91.79  E-value=4.5  Score=31.35  Aligned_cols=49  Identities=8%  Similarity=0.118  Sum_probs=22.0

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCH---HHHHHHHHHHhccCcHHHHHHHHHHHHHcC
Q 038401          413 NKKYANVIEVFEKMRSAGYFPDS---HIIALVLNSYGKLREFETADDLYSEMQEEG  465 (542)
Q Consensus       413 ~g~~~~A~~~~~~~~~~~~~p~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  465 (542)
                      .++.+++..++..|.-  ++|+.   .++.  ...+...|+|.+|.++++...+..
T Consensus        23 ~~d~~D~e~lLdALrv--LrP~~~e~d~~d--g~l~i~rg~w~eA~rvlr~l~~~~   74 (153)
T TIGR02561        23 SADPYDAQAMLDALRV--LRPNLKELDMFD--GWLLIARGNYDEAARILRELLSSA   74 (153)
T ss_pred             cCCHHHHHHHHHHHHH--hCCCccccchhH--HHHHHHcCCHHHHHHHHHhhhccC
Confidence            4555555555555544  33332   1221  223344555555555555555443

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=91.75  E-value=6.3  Score=32.20  Aligned_cols=56  Identities=11%  Similarity=0.154  Sum_probs=26.1

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcC
Q 038401          408 ELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEG  465 (542)
Q Consensus       408 ~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  465 (542)
                      +.....|.+++|+..++.....+.  .+.....-++.+...|+.++|+.-|+++++.+
T Consensus       134 rvq~q~~k~D~AL~~L~t~~~~~w--~~~~~elrGDill~kg~k~~Ar~ay~kAl~~~  189 (207)
T COG2976         134 RVQLQQKKADAALKTLDTIKEESW--AAIVAELRGDILLAKGDKQEARAAYEKALESD  189 (207)
T ss_pred             HHHHHhhhHHHHHHHHhccccccH--HHHHHHHhhhHHHHcCchHHHHHHHHHHHHcc
Confidence            344455555555555554443221  11222233445555555555555555555543

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=91.65  E-value=0.37  Score=42.46  Aligned_cols=93  Identities=11%  Similarity=0.069  Sum_probs=61.8

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhc
Q 038401          405 CMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGA  482 (542)
Q Consensus       405 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~  482 (542)
                      .-+.-|.++|.+++|+..|.+...  +.| |.+++..-..+|.+..++..|..-...++..+.  .-.-.|. -+.+-..
T Consensus       102 E~GN~yFKQgKy~EAIDCYs~~ia--~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd~--~Y~KAYSRR~~AR~~  177 (536)
T KOG4648|consen  102 ERGNTYFKQGKYEEAIDCYSTAIA--VYPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALDK--LYVKAYSRRMQARES  177 (536)
T ss_pred             HhhhhhhhccchhHHHHHhhhhhc--cCCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhhH--HHHHHHHHHHHHHHH
Confidence            346678889999999999988887  456 778887778889999888888888887776540  1111111 3333334


Q ss_pred             cCChHHHHHHHHH-HhcCCC
Q 038401          483 RKDFNMLESLFER-LDSDSN  501 (542)
Q Consensus       483 ~g~~~~A~~~~~~-~~~~~~  501 (542)
                      .|+..+|.+-.+. +...|.
T Consensus       178 Lg~~~EAKkD~E~vL~LEP~  197 (536)
T KOG4648|consen  178 LGNNMEAKKDCETVLALEPK  197 (536)
T ss_pred             HhhHHHHHHhHHHHHhhCcc
Confidence            5666666666666 344443

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=91.46  E-value=7.3  Score=32.39  Aligned_cols=160  Identities=14%  Similarity=0.090  Sum_probs=80.6

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHHHHHHH--
Q 038401          299 AITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILA--  376 (542)
Q Consensus       299 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~--  376 (542)
                      +..|+.+.--+...|+++.|.+.|+...+.+..-+-...|.-+. +.-.|+++-|.+-+...-+.++......+..|.  
T Consensus        99 ~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi~-~YY~gR~~LAq~d~~~fYQ~D~~DPfR~LWLYl~E  177 (297)
T COG4785          99 PEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIA-LYYGGRYKLAQDDLLAFYQDDPNDPFRSLWLYLNE  177 (297)
T ss_pred             HHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhcccee-eeecCchHhhHHHHHHHHhcCCCChHHHHHHHHHH
Confidence            34566666666677777777777777777643333333333222 223566777766665555444433333333332  


Q ss_pred             HhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-------HHHHHHHHHHHhccC
Q 038401          377 RAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPD-------SHIIALVLNSYGKLR  449 (542)
Q Consensus       377 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-------~~~~~~l~~~~~~~g  449 (542)
                      ..-++.+|..-+.+--+   ..|..-|...+-.|.- |+.. ...+++++... -..+       ..||-.+..-+...|
T Consensus       178 ~k~dP~~A~tnL~qR~~---~~d~e~WG~~iV~~yL-gkiS-~e~l~~~~~a~-a~~n~~~Ae~LTEtyFYL~K~~l~~G  251 (297)
T COG4785         178 QKLDPKQAKTNLKQRAE---KSDKEQWGWNIVEFYL-GKIS-EETLMERLKAD-ATDNTSLAEHLTETYFYLGKYYLSLG  251 (297)
T ss_pred             hhCCHHHHHHHHHHHHH---hccHhhhhHHHHHHHH-hhcc-HHHHHHHHHhh-ccchHHHHHHHHHHHHHHHHHHhccc
Confidence            22345555443332221   2344444443333221 2211 12334444431 1111       245666677777778


Q ss_pred             cHHHHHHHHHHHHHcC
Q 038401          450 EFETADDLYSEMQEEG  465 (542)
Q Consensus       450 ~~~~A~~~~~~~~~~~  465 (542)
                      +.++|..+|+-++..+
T Consensus       252 ~~~~A~~LfKLaiann  267 (297)
T COG4785         252 DLDEATALFKLAVANN  267 (297)
T ss_pred             cHHHHHHHHHHHHHHh
Confidence            8888888887777654

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=91.14  E-value=5.3  Score=30.99  Aligned_cols=85  Identities=13%  Similarity=0.051  Sum_probs=57.7

Q ss_pred             hccCcHHHHHHHHHHHHHcCCCCchHHHHH--HHHHHhccCChHHHHHHHHHHhcCCCCCc--------------hhHHH
Q 038401          446 GKLREFETADDLYSEMQEEGCVFSDQVHFQ--MLSLYGARKDFNMLESLFERLDSDSNINK--------------KELHH  509 (542)
Q Consensus       446 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~--l~~~~~~~g~~~~A~~~~~~~~~~~~~~~--------------~~~~~  509 (542)
                      ...++.+++..++..+.-..   |......  -+..+...|++++|..+|+.+...+...+              +..|.
T Consensus        21 L~~~d~~D~e~lLdALrvLr---P~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~~~~p~~kAL~A~CL~al~Dp~Wr   97 (153)
T TIGR02561        21 LRSADPYDAQAMLDALRVLR---PNLKELDMFDGWLLIARGNYDEAARILRELLSSAGAPPYGKALLALCLNAKGDAEWH   97 (153)
T ss_pred             HhcCCHHHHHHHHHHHHHhC---CCccccchhHHHHHHHcCCHHHHHHHHHhhhccCCCchHHHHHHHHHHHhcCChHHH
Confidence            45899999999999998876   4333332  56788899999999999999887664432              12344


Q ss_pred             HHHHHHHhhcchhhHHHHHHHHHh
Q 038401          510 VVAGIYERANRLNDASRIMNRMNK  533 (542)
Q Consensus       510 ~l~~~~~~~g~~~~A~~~~~~~~~  533 (542)
                      ..+......|.-.+|..+.+.+..
T Consensus        98 ~~A~~~le~~~~~~a~~Lv~al~g  121 (153)
T TIGR02561        98 VHADEVLARDADADAVALVRALLG  121 (153)
T ss_pred             HHHHHHHHhCCCHhHHHHHHHHhc
Confidence            444444445555566666665553

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=90.92  E-value=9.4  Score=32.64  Aligned_cols=201  Identities=14%  Similarity=0.056  Sum_probs=86.1

Q ss_pred             hHHHHHHHHHhccCcHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhcCCCCChhhHHHHHH-
Q 038401          125 VAYNTMINVFGKAKLFKEARLLIEEMREQ-GVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMID-  202 (542)
Q Consensus       125 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-g~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~-  202 (542)
                      ..+......+...+.+..+...+...... ........+......+...+++..+.+.+.........+ ......... 
T Consensus        60 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~  138 (291)
T COG0457          60 GLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDP-DLAEALLALG  138 (291)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCc-chHHHHHHHH
Confidence            44444445555555555555555554431 112233444444455555555555555555555432221 111111112 


Q ss_pred             HHhccCCHHHHHHHHHHHHHCCC--CCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCH
Q 038401          203 VYGQLDMAKDADRLFWSMRKMGI--DPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEH  280 (542)
Q Consensus       203 ~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  280 (542)
                      .+...|+++.+...+........  ......+......+...++.+.+...+..............+..+...+...++.
T Consensus       139 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  218 (291)
T COG0457         139 ALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLGLLYLKLGKY  218 (291)
T ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhCcccchHHHHHhhHHHHHcccH
Confidence            45555555555555555533110  0111222222222344555555555555555432111234444444455555555


Q ss_pred             HHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 038401          281 EKATNLMQEMQNRGIEPN-AITYSTIIAIWGKAGKLDRAAMLFQKLRSS  328 (542)
Q Consensus       281 ~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  328 (542)
                      +.+...+......  .|+ ...+..+...+...+..+.+...+......
T Consensus       219 ~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  265 (291)
T COG0457         219 EEALEYYEKALEL--DPDNAEALYNLALLLLELGRYEEALEALEKALEL  265 (291)
T ss_pred             HHHHHHHHHHHhh--CcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            5555555555443  222 222222222222344455555555444443

>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed

Probab=90.85  E-value=2.8  Score=34.48  Aligned_cols=72  Identities=17%  Similarity=0.223  Sum_probs=36.8

Q ss_pred             HHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC---CCCCCHHHHHHHHHHHhccCcHHHH
Q 038401          382 EEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSA---GYFPDSHIIALVLNSYGKLREFETA  454 (542)
Q Consensus       382 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~p~~~~~~~l~~~~~~~g~~~~A  454 (542)
                      +.|.+.|-++...+.-.++...-.|+..|. ..+.++++.++.++++.   +-.+|+..+.+|+..+.+.|+++.|
T Consensus       123 ~~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~A  197 (203)
T PF11207_consen  123 QEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQA  197 (203)
T ss_pred             HHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhh
Confidence            344455555544443344444444444333 44556666666555542   2234555666666666666665555

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=90.81  E-value=0.5  Score=27.25  Aligned_cols=28  Identities=14%  Similarity=0.253  Sum_probs=21.8

Q ss_pred             hHHHHHHHHHHhhcchhhHHHHHHHHHh
Q 038401          506 ELHHVVAGIYERANRLNDASRIMNRMNK  533 (542)
Q Consensus       506 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~  533 (542)
                      ..+..++.+|...|++++|..++++...
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            3567888888889999999998888654

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=90.72  E-value=0.41  Score=25.78  Aligned_cols=24  Identities=17%  Similarity=0.430  Sum_probs=11.8

Q ss_pred             HHHHHhccCcHHHHHHHHHHHHHc
Q 038401          441 VLNSYGKLREFETADDLYSEMQEE  464 (542)
Q Consensus       441 l~~~~~~~g~~~~A~~~~~~~~~~  464 (542)
                      ++.++.+.|++++|.+.|+++++.
T Consensus         6 ~a~~~~~~g~~~~A~~~~~~~~~~   29 (33)
T PF13174_consen    6 LARCYYKLGDYDEAIEYFQRLIKR   29 (33)
T ss_dssp             HHHHHHHHCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHccCHHHHHHHHHHHHHH
Confidence            344444455555555555555444

>KOG2062 consensus 26S proteasome regulatory complex, subunit RPN2/PSMD1 [Posttranslational modification, protein turnover, chaperones]

Probab=90.71  E-value=20  Score=35.98  Aligned_cols=120  Identities=9%  Similarity=-0.000  Sum_probs=58.9

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHH--HHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH--HHHHHhccC
Q 038401          409 LFSRNKKYANVIEVFEKMRSAGYFPDSH--IIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ--MLSLYGARK  484 (542)
Q Consensus       409 ~~~~~g~~~~A~~~~~~~~~~~~~p~~~--~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~--l~~~~~~~g  484 (542)
                      ++..-|+-++|..+.++|.... .|-..  -.-.++.+|+-.|+..-..+++.-++...   .+.+-..  ++-.+.-..
T Consensus       510 aL~~ygrqe~Ad~lI~el~~dk-dpilR~~Gm~t~alAy~GTgnnkair~lLh~aVsD~---nDDVrRaAVialGFVl~~  585 (929)
T KOG2062|consen  510 ALVVYGRQEDADPLIKELLRDK-DPILRYGGMYTLALAYVGTGNNKAIRRLLHVAVSDV---NDDVRRAAVIALGFVLFR  585 (929)
T ss_pred             HHHHhhhhhhhHHHHHHHhcCC-chhhhhhhHHHHHHHHhccCchhhHHHhhccccccc---chHHHHHHHHHheeeEec
Confidence            3445566666666777666532 22111  11133445666666666666665555432   2332222  344455556


Q ss_pred             ChHHHHHHHHHHhcCCCCCc-hhHHHHHHHHHHhhcchhhHHHHHHHHHh
Q 038401          485 DFNMLESLFERLDSDSNINK-KELHHVVAGIYERANRLNDASRIMNRMNK  533 (542)
Q Consensus       485 ~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  533 (542)
                      +.+......+-+....++.- ..+-..|+=+|.-.|. .+|+.+++-|..
T Consensus       586 dp~~~~s~V~lLses~N~HVRyGaA~ALGIaCAGtG~-~eAi~lLepl~~  634 (929)
T KOG2062|consen  586 DPEQLPSTVSLLSESYNPHVRYGAAMALGIACAGTGL-KEAINLLEPLTS  634 (929)
T ss_pred             ChhhchHHHHHHhhhcChhhhhhHHHHHhhhhcCCCc-HHHHHHHhhhhc
Confidence            66666666666554443222 1223334444444443 566666666554

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=90.61  E-value=18  Score=35.32  Aligned_cols=134  Identities=16%  Similarity=0.169  Sum_probs=87.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCC
Q 038401          301 TYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARAGR  380 (542)
Q Consensus       301 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~  380 (542)
                      ..+.+++.+.+.|-.++|+++         .+|+...   .....+.|+++.|.++..+.  .+..-|..+..+..+.|+
T Consensus       616 ~rt~va~Fle~~g~~e~AL~~---------s~D~d~r---Felal~lgrl~iA~~la~e~--~s~~Kw~~Lg~~al~~~~  681 (794)
T KOG0276|consen  616 IRTKVAHFLESQGMKEQALEL---------STDPDQR---FELALKLGRLDIAFDLAVEA--NSEVKWRQLGDAALSAGE  681 (794)
T ss_pred             hhhhHHhHhhhccchHhhhhc---------CCChhhh---hhhhhhcCcHHHHHHHHHhh--cchHHHHHHHHHHhhccc
Confidence            445556666666666655532         3343332   23345778888888877654  356678888999999999


Q ss_pred             HHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHH
Q 038401          381 IEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSE  460 (542)
Q Consensus       381 ~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~  460 (542)
                      +..|.+.|.++.+         |..|+-.+...|+-+....+-....+.|.  +...    ..+|...|+++++.+++.+
T Consensus       682 l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~~la~~~~~~g~--~N~A----F~~~~l~g~~~~C~~lLi~  746 (794)
T KOG0276|consen  682 LPLASECFLRARD---------LGSLLLLYTSSGNAEGLAVLASLAKKQGK--NNLA----FLAYFLSGDYEECLELLIS  746 (794)
T ss_pred             chhHHHHHHhhcc---------hhhhhhhhhhcCChhHHHHHHHHHHhhcc--cchH----HHHHHHcCCHHHHHHHHHh
Confidence            9999988887754         45666677777877666666555555542  2222    2366778999988887765


Q ss_pred             HHH
Q 038401          461 MQE  463 (542)
Q Consensus       461 ~~~  463 (542)
                      -.+
T Consensus       747 t~r  749 (794)
T KOG0276|consen  747 TQR  749 (794)
T ss_pred             cCc
Confidence            543

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=90.53  E-value=8.1  Score=34.15  Aligned_cols=103  Identities=16%  Similarity=0.135  Sum_probs=58.8

Q ss_pred             CCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCC---CCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCcHH
Q 038401          189 NCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMG---IDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVV  265 (542)
Q Consensus       189 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  265 (542)
                      |.+....+....+..-....+++.+...+-.+....   ..|+...+ ..++.+ -.-+.++++.++..=+..|+.||..
T Consensus        59 g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~-~~irll-lky~pq~~i~~l~npIqYGiF~dqf  136 (418)
T KOG4570|consen   59 GLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIH-TWIRLL-LKYDPQKAIYTLVNPIQYGIFPDQF  136 (418)
T ss_pred             CCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHH-HHHHHH-HccChHHHHHHHhCcchhccccchh
Confidence            444455555555555555566666666665554321   11111111 122222 2235557777776666777777777


Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHHc
Q 038401          266 TYNTMIKIYGKSLEHEKATNLMQEMQNR  293 (542)
Q Consensus       266 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~  293 (542)
                      +++.+++.+.+.+++.+|..+...|...
T Consensus       137 ~~c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  137 TFCLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             hHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            7777777777777777777776666544

>KOG4642 consensus Chaperone-dependent E3 ubiquitin protein ligase (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]

Probab=90.47  E-value=6.5  Score=33.23  Aligned_cols=81  Identities=11%  Similarity=0.043  Sum_probs=40.9

Q ss_pred             hCCHHHHHHHHHHHHHcCCCcCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHhccCcHHHHH
Q 038401          378 AGRIEEATWVFRQAFDAGEVKDI-SVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSH-IIALVLNSYGKLREFETAD  455 (542)
Q Consensus       378 ~g~~~~A~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~g~~~~A~  455 (542)
                      ..+++.|+..|.+++..  .|+. ..|..-+.++.+..+++.+..--.+.++  +.||.. ..-.+...+.....+++|+
T Consensus        23 ~k~y~~ai~~y~raI~~--nP~~~~Y~tnralchlk~~~~~~v~~dcrralq--l~~N~vk~h~flg~~~l~s~~~~eaI   98 (284)
T KOG4642|consen   23 PKRYDDAIDCYSRAICI--NPTVASYYTNRALCHLKLKHWEPVEEDCRRALQ--LDPNLVKAHYFLGQWLLQSKGYDEAI   98 (284)
T ss_pred             hhhhchHHHHHHHHHhc--CCCcchhhhhHHHHHHHhhhhhhhhhhHHHHHh--cChHHHHHHHHHHHHHHhhccccHHH
Confidence            34555555555555553  2332 3444455555555666655555555555  445442 2223344444555556666


Q ss_pred             HHHHHHH
Q 038401          456 DLYSEMQ  462 (542)
Q Consensus       456 ~~~~~~~  462 (542)
                      ..++++.
T Consensus        99 ~~Lqra~  105 (284)
T KOG4642|consen   99 KVLQRAY  105 (284)
T ss_pred             HHHHHHH
Confidence            6666553

>KOG2396 consensus HAT (Half-A-TPR) repeat-containing protein [General function prediction only]

Probab=90.09  E-value=18  Score=34.48  Aligned_cols=89  Identities=13%  Similarity=0.101  Sum_probs=47.0

Q ss_pred             HHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHH---HhccCChHHHHHHHHHHhcCCCCCchhHHHHHHHHH
Q 038401          440 LVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSL---YGARKDFNMLESLFERLDSDSNINKKELHHVVAGIY  515 (542)
Q Consensus       440 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~---~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~  515 (542)
                      .+++-+.+.|-.++|+..|..+....  ||....+. ++..   ...+| ...++.+++.+....+ .++..|.-....=
T Consensus       465 ~~l~~~~e~~~~~~ark~y~~l~~lp--p~sl~l~r~miq~e~~~~sc~-l~~~r~~yd~a~~~fg-~d~~lw~~y~~~e  540 (568)
T KOG2396|consen  465 KYLDWAYESGGYKKARKVYKSLQELP--PFSLDLFRKMIQFEKEQESCN-LANIREYYDRALREFG-ADSDLWMDYMKEE  540 (568)
T ss_pred             HHHHHHHHhcchHHHHHHHHHHHhCC--CccHHHHHHHHHHHhhHhhcC-chHHHHHHHHHHHHhC-CChHHHHHHHHhh
Confidence            34555556666777777777766653  23333333 3322   22344 5556666666554444 2334444433333


Q ss_pred             HhhcchhhHHHHHHHHH
Q 038401          516 ERANRLNDASRIMNRMN  532 (542)
Q Consensus       516 ~~~g~~~~A~~~~~~~~  532 (542)
                      ...|+.+.+-.++.++.
T Consensus       541 ~~~g~~en~~~~~~ra~  557 (568)
T KOG2396|consen  541 LPLGRPENCGQIYWRAM  557 (568)
T ss_pred             ccCCCcccccHHHHHHH
Confidence            45666666666666644

>PRK09687 putative lyase; Provisional

Probab=90.09  E-value=13  Score=33.08  Aligned_cols=22  Identities=14%  Similarity=0.202  Sum_probs=9.8

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHh
Q 038401          406 MIELFSRNKKYANVIEVFEKMRS  428 (542)
Q Consensus       406 l~~~~~~~g~~~~A~~~~~~~~~  428 (542)
                      .+.++...|.. +|+..+.++.+
T Consensus       241 a~~ALg~ig~~-~a~p~L~~l~~  262 (280)
T PRK09687        241 IIEAAGELGDK-TLLPVLDTLLY  262 (280)
T ss_pred             HHHHHHhcCCH-hHHHHHHHHHh
Confidence            34444444443 34444444443

>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=90.04  E-value=0.61  Score=25.38  Aligned_cols=26  Identities=19%  Similarity=0.386  Sum_probs=12.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHh
Q 038401          403 FGCMIELFSRNKKYANVIEVFEKMRS  428 (542)
Q Consensus       403 ~~~l~~~~~~~g~~~~A~~~~~~~~~  428 (542)
                      |..+...|...|++++|...|++.++
T Consensus         4 ~~~lg~~y~~~~~~~~A~~~~~~a~~   29 (34)
T PF13181_consen    4 YYNLGKIYEQLGDYEEALEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHTTSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            34444445555555555555555444

...

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=90.00  E-value=24  Score=35.87  Aligned_cols=182  Identities=12%  Similarity=0.084  Sum_probs=90.2

Q ss_pred             HHHHHHHHHh-CCCCCCH--HhHHHHHHHHh-ccCCHHHHHHHHHHHHhCCCCCCHH-----hHHHHHHHHHhcCCHHHH
Q 038401           38 AHGLFDEMRQ-RGIAPDR--YTYSTLITCFG-KEGMFDSAISWLQQMEQDRVSGDLV-----LYSNLIELARKLSDYSKA  108 (542)
Q Consensus        38 A~~~~~~~~~-~~~~~~~--~~~~~l~~~~~-~~g~~~~a~~~~~~~~~~~~~~~~~-----~~~~l~~~~~~~~~~~~a  108 (542)
                      |+..++.+.+ ..++|..  .++-.+...+. ...+++.|...+++.....-.++..     .-..+++.+.+.+... |
T Consensus        40 ai~CL~~~~~~~~l~p~~ea~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~~~~~~~d~k~~~~~ll~~i~~~~~~~~-a  118 (608)
T PF10345_consen   40 AIKCLEAVLKQFKLSPRQEARVRLRLASILLEETENLDLAETYLEKAILLCERHRLTDLKFRCQFLLARIYFKTNPKA-A  118 (608)
T ss_pred             HHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHHhcCHHH-H
Confidence            4455555553 2333322  24445555554 5677888888887664432222211     1223445555555444 7


Q ss_pred             HHHHHHhHhC----CCCccHhHHHHH-HHHHhccCcHHHHHHHHHHHHHcC---CCCCHHHHHHHHHHHH--HCCChHHH
Q 038401          109 ISIFSRLKSS----GIVPDLVAYNTM-INVFGKAKLFKEARLLIEEMREQG---VKPDTVSYSTLLNLYV--ENHKFVEA  178 (542)
Q Consensus       109 ~~~~~~~~~~----~~~~~~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~g---~~~~~~~~~~l~~~~~--~~g~~~~a  178 (542)
                      ...+++.++.    +..+-...|..+ +..+...+++..|.+.++.+...-   ..|-...+..++.+..  +.+..+.+
T Consensus       119 ~~~l~~~I~~~~~~~~~~w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~~~~v~~~l~~~~l~l~~~~~~d~  198 (608)
T PF10345_consen  119 LKNLDKAIEDSETYGHSAWYYAFRLLKIQLALQHKDYNAALENLQSIAQLANQRGDPAVFVLASLSEALLHLRRGSPDDV  198 (608)
T ss_pred             HHHHHHHHHHHhccCchhHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHhcCCCchhH
Confidence            7777765543    111223333333 233333367888888777765431   2233444444444443  34545666


Q ss_pred             HHHHHHHHhcC---------CCCChhhHHHHHHHHh--ccCCHHHHHHHHHHH
Q 038401          179 LSVFAEMNEVN---------CPLDLTTCNIMIDVYG--QLDMAKDADRLFWSM  220 (542)
Q Consensus       179 ~~~~~~~~~~~---------~~~~~~~~~~l~~~~~--~~~~~~~a~~~~~~~  220 (542)
                      .+.++.+....         .+|...+|..+++.++  ..|+++.+...++.+
T Consensus       199 ~~~l~~~~~~~~~~q~~~~~~~~qL~~~~lll~l~~~l~~~~~~~~~~~L~~l  251 (608)
T PF10345_consen  199 LELLQRAIAQARSLQLDPSVHIPQLKALFLLLDLCCSLQQGDVKNSKQKLKQL  251 (608)
T ss_pred             HHHHHHHHHHHhhcccCCCCCcHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            66666553211         1234555666655543  455555555554444

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 [].

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=89.87  E-value=3  Score=29.38  Aligned_cols=45  Identities=13%  Similarity=0.214  Sum_probs=25.0

Q ss_pred             HHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHhH
Q 038401           72 SAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLK  116 (542)
Q Consensus        72 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  116 (542)
                      ++.+.++.+......|++....+.+++|.+.+|+..|.++|+.++
T Consensus        25 e~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK   69 (103)
T cd00923          25 ELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIK   69 (103)
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            344444555555555555555555555555566666655555554

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=89.72  E-value=9.3  Score=33.79  Aligned_cols=103  Identities=18%  Similarity=0.233  Sum_probs=74.5

Q ss_pred             CCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcC---CCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHH
Q 038401          224 GIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKE---IEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAI  300 (542)
Q Consensus       224 ~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~  300 (542)
                      |.+....+...++..-....+++.+...+-++...-   ..++.. -...++.+.+ -++++++.++..=..-|+-||.+
T Consensus        59 g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~-~~~~irlllk-y~pq~~i~~l~npIqYGiF~dqf  136 (418)
T KOG4570|consen   59 GLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWT-IHTWIRLLLK-YDPQKAIYTLVNPIQYGIFPDQF  136 (418)
T ss_pred             CCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhcccc-HHHHHHHHHc-cChHHHHHHHhCcchhccccchh
Confidence            445556666666666666788899988887776541   112211 1223333333 36778998888888899999999


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 038401          301 TYSTIIAIWGKAGKLDRAAMLFQKLRSS  328 (542)
Q Consensus       301 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~  328 (542)
                      +++.++..+.+.+++..|..+...|...
T Consensus       137 ~~c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  137 TFCLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             hHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            9999999999999999999988877654

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=89.70  E-value=0.83  Score=26.27  Aligned_cols=28  Identities=25%  Similarity=0.323  Sum_probs=18.6

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHHHH
Q 038401          436 HIIALVLNSYGKLREFETADDLYSEMQE  463 (542)
Q Consensus       436 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~  463 (542)
                      .+++.+...|...|++++|..+++++.+
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            4566677777777777777777777655

>COG0790 FOG: TPR repeat, SEL1 subfamily [General function prediction only]

Probab=89.16  E-value=16  Score=32.82  Aligned_cols=18  Identities=11%  Similarity=0.067  Sum_probs=12.3

Q ss_pred             hcCCHHHHHHHHHHHHhc
Q 038401          311 KAGKLDRAAMLFQKLRSS  328 (542)
Q Consensus       311 ~~~~~~~a~~~~~~~~~~  328 (542)
                      ..+++..+...+......
T Consensus        53 ~~~~~~~a~~~~~~a~~~   70 (292)
T COG0790          53 YPPDYAKALKSYEKAAEL   70 (292)
T ss_pred             ccccHHHHHHHHHHhhhc
Confidence            456677777777777664

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=88.92  E-value=20  Score=33.37  Aligned_cols=64  Identities=20%  Similarity=0.116  Sum_probs=37.8

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC---CHHHHHHHHHHHHHcCCHHHHHHHHHHhc
Q 038401          298 NAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEI---DPVLYQTMIVAYERVGLVAHAKRLLHELR  361 (542)
Q Consensus       298 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  361 (542)
                      ...+|..+...+.+.|.++.|...+..+...+...   ++.+...-....-..|+..+|...++...
T Consensus       145 ~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~  211 (352)
T PF02259_consen  145 LAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELL  211 (352)
T ss_pred             HHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            34456666777777777777777777766543111   23333444455556667777776666544

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=88.89  E-value=13  Score=31.39  Aligned_cols=145  Identities=17%  Similarity=0.112  Sum_probs=77.6

Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHH-hCCHHHHHHHHH
Q 038401          311 KAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILAR-AGRIEEATWVFR  389 (542)
Q Consensus       311 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~-~g~~~~A~~~~~  389 (542)
                      +.+++++|...++..               +..|...|++..|-+...+           +...|-. ..+++.|+..|+
T Consensus        85 kk~~~~eAv~cL~~a---------------ieIyt~~Grf~~aAk~~~~-----------iaEiyEsdl~d~ekaI~~YE  138 (288)
T KOG1586|consen   85 KKVDPEEAVNCLEKA---------------IEIYTDMGRFTMAAKHHIE-----------IAEIYESDLQDFEKAIAHYE  138 (288)
T ss_pred             hccChHHHHHHHHHH---------------HHHHHhhhHHHHHHhhhhh-----------HHHHHhhhHHHHHHHHHHHH
Confidence            444666665555444               4456677777776654333           2233332 256677777777


Q ss_pred             HHHHc--CCCcCHHH---HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHH------HHHHHHhccCcHHHHHHHH
Q 038401          390 QAFDA--GEVKDISV---FGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIA------LVLNSYGKLREFETADDLY  458 (542)
Q Consensus       390 ~~~~~--~~~~~~~~---~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~------~l~~~~~~~g~~~~A~~~~  458 (542)
                      ++-+-  |...+...   +--....-...+++.+|+.+|++.....+..+..-|.      ..+-++.-..+.-.+...+
T Consensus       139 ~Aae~yk~ees~ssANKC~lKvA~yaa~leqY~~Ai~iyeqva~~s~~n~LLKys~KdyflkAgLChl~~~D~v~a~~AL  218 (288)
T KOG1586|consen  139 QAAEYYKGEESVSSANKCLLKVAQYAAQLEQYSKAIDIYEQVARSSLDNNLLKYSAKDYFLKAGLCHLCKADEVNAQRAL  218 (288)
T ss_pred             HHHHHHcchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccchHHHhHHHHHHHHHHHHhHhcccHHHHHHHH
Confidence            76542  11122222   2222333456799999999999998765443332222      1111222336776777778


Q ss_pred             HHHHHcCCCCchHHHHHHHHHHh
Q 038401          459 SEMQEEGCVFSDQVHFQMLSLYG  481 (542)
Q Consensus       459 ~~~~~~~~~~~~~~~~~l~~~~~  481 (542)
                      ++-.+..+...+..-..++.-+.
T Consensus       219 eky~~~dP~F~dsREckflk~L~  241 (288)
T KOG1586|consen  219 EKYQELDPAFTDSRECKFLKDLL  241 (288)
T ss_pred             HHHHhcCCcccccHHHHHHHHHH
Confidence            88877764333433333443333

>KOG3364 consensus Membrane protein involved in organellar division [Cell wall/membrane/envelope biogenesis]

Probab=88.85  E-value=8.7  Score=29.22  Aligned_cols=70  Identities=6%  Similarity=-0.023  Sum_probs=44.3

Q ss_pred             CCCHHHHHHHHHHHhccC---cHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHHHHH-hcCCC
Q 038401          432 FPDSHIIALVLNSYGKLR---EFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLFERL-DSDSN  501 (542)
Q Consensus       432 ~p~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~~-~~~~~  501 (542)
                      .++..+--.+.+++.+..   +.++.+.+++.+.+...+.....+.. ++-.+.+.|+++++.++++.+ ..+|+
T Consensus        29 ~~s~~s~f~lAwaLV~S~~~~dv~~GI~iLe~l~~~~~~~~rRe~lyYLAvg~yRlkeY~~s~~yvd~ll~~e~~  103 (149)
T KOG3364|consen   29 DVSKQSQFNLAWALVRSRDTEDVQEGIVILEDLLKSAHPERRRECLYYLAVGHYRLKEYSKSLRYVDALLETEPN  103 (149)
T ss_pred             cchHHHHHHHHHHHHcccchHHHHHhHHHHHHHhhhcCcccchhhhhhhHHHHHHHhhHHHHHHHHHHHHhhCCC
Confidence            456666666777776554   46677888888876321111222222 777888888888888888884 44444

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=88.77  E-value=6.9  Score=27.98  Aligned_cols=44  Identities=14%  Similarity=0.221  Sum_probs=21.3

Q ss_pred             HHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHhH
Q 038401           73 AISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLK  116 (542)
Q Consensus        73 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  116 (542)
                      ..+.++.+......|++....+.+++|.+.+++..|.++|+.++
T Consensus        29 ~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK   72 (108)
T PF02284_consen   29 LRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIK   72 (108)
T ss_dssp             HHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            33444444444455555555555555555555555555555554

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 ....

>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins

Probab=88.75  E-value=11  Score=30.39  Aligned_cols=75  Identities=19%  Similarity=0.295  Sum_probs=46.0

Q ss_pred             HHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCC-----------HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCc
Q 038401          382 EEATWVFRQAFDAGEVKDISVFGCMIELFSRNKK-----------YANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLRE  450 (542)
Q Consensus       382 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-----------~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  450 (542)
                      ++|+.-|++++...+ ....++..++.+|...+.           +++|.+.|+++..  .+|+...|..-+...     
T Consensus        52 edAisK~eeAL~I~P-~~hdAlw~lGnA~ts~A~l~~d~~~A~~~F~kA~~~FqkAv~--~~P~ne~Y~ksLe~~-----  123 (186)
T PF06552_consen   52 EDAISKFEEALKINP-NKHDALWCLGNAYTSLAFLTPDTAEAEEYFEKATEYFQKAVD--EDPNNELYRKSLEMA-----  123 (186)
T ss_dssp             HHHHHHHHHHHHH-T-T-HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHH--H-TT-HHHHHHHHHH-----
T ss_pred             HHHHHHHHHHHhcCC-chHHHHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHh--cCCCcHHHHHHHHHH-----
Confidence            556667777776432 234566666766654332           6667777777776  669999988766654     


Q ss_pred             HHHHHHHHHHHHHcC
Q 038401          451 FETADDLYSEMQEEG  465 (542)
Q Consensus       451 ~~~A~~~~~~~~~~~  465 (542)
                       .+|-++..++.+++
T Consensus       124 -~kap~lh~e~~~~~  137 (186)
T PF06552_consen  124 -AKAPELHMEIHKQG  137 (186)
T ss_dssp             -HTHHHHHHHHHHSS
T ss_pred             -HhhHHHHHHHHHHH
Confidence             34666777776654

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.

>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=88.69  E-value=0.66  Score=23.53  Aligned_cols=22  Identities=14%  Similarity=0.206  Sum_probs=12.7

Q ss_pred             HHHHHHHHHhhcchhhHHHHHH
Q 038401          508 HHVVAGIYERANRLNDASRIMN  529 (542)
Q Consensus       508 ~~~l~~~~~~~g~~~~A~~~~~  529 (542)
                      ...++.++...|++++|.+.++
T Consensus         4 ~~~la~~~~~~G~~~eA~~~l~   25 (26)
T PF07721_consen    4 RLALARALLAQGDPDEAERLLR   25 (26)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHh
Confidence            3455566666666666665553

The tetratricopeptide repeat (TPR) motif is a protein-protein interaction module found in multiple copies in a number of functionally different proteins that facilitates specific interactions with a partner protein(s) [].; GO: 0042802 identical protein binding

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=88.53  E-value=3.2  Score=36.90  Aligned_cols=93  Identities=12%  Similarity=-0.018  Sum_probs=70.5

Q ss_pred             HHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCc
Q 038401          371 AITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLRE  450 (542)
Q Consensus       371 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  450 (542)
                      -..-|.++|.+++|+..|...+... +.+++++..-..+|.+..++..|..-.+.++..+- .-...|..-+.+-...|.
T Consensus       103 ~GN~yFKQgKy~EAIDCYs~~ia~~-P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd~-~Y~KAYSRR~~AR~~Lg~  180 (536)
T KOG4648|consen  103 RGNTYFKQGKYEEAIDCYSTAIAVY-PHNPVYHINRALAYLKQKSFAQAEEDCEAAIALDK-LYVKAYSRRMQARESLGN  180 (536)
T ss_pred             hhhhhhhccchhHHHHHhhhhhccC-CCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhhH-HHHHHHHHHHHHHHHHhh
Confidence            3567899999999999999998863 34888888889999999999999988888876320 112344444445556678


Q ss_pred             HHHHHHHHHHHHHcC
Q 038401          451 FETADDLYSEMQEEG  465 (542)
Q Consensus       451 ~~~A~~~~~~~~~~~  465 (542)
                      .++|.+-++.+++..
T Consensus       181 ~~EAKkD~E~vL~LE  195 (536)
T KOG4648|consen  181 NMEAKKDCETVLALE  195 (536)
T ss_pred             HHHHHHhHHHHHhhC
Confidence            888888888888865

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=88.40  E-value=4.1  Score=28.75  Aligned_cols=62  Identities=8%  Similarity=0.140  Sum_probs=48.0

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHH
Q 038401           34 QWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLI   96 (542)
Q Consensus        34 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~   96 (542)
                      +.=++.+-++.+...++-|++....+.+++|.+.+++..|.++|+..... +..+...|..++
T Consensus        22 D~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K-~~~~~~~y~~~l   83 (103)
T cd00923          22 DGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDK-CGAHKEIYPYIL   83 (103)
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-ccCchhhHHHHH
Confidence            44467788888888889999999999999999999999999999987633 122344555544

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.

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=88.27  E-value=7.5  Score=27.80  Aligned_cols=76  Identities=7%  Similarity=0.185  Sum_probs=49.0

Q ss_pred             HHHHHHHHHHHhcCHH--HHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHH
Q 038401           21 AYNVVLRNVLRAKQWE--LAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIE   97 (542)
Q Consensus        21 ~~~~ll~~~~~~~~~~--~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   97 (542)
                      .|..--..+....+.+  +..+-++.+...++-|++.+..+.+++|.+.+++..|.++|+-.... +.+....|..+++
T Consensus        10 eF~ary~~~F~~~~iD~we~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K-~~~~~~~Y~~~lq   87 (108)
T PF02284_consen   10 EFDARYEKYFNRPDIDGWELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDK-CGNKKEIYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHHH-TT--HHHHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TTT-TTHHHHHHH
T ss_pred             HHHHHHHHHhCCccccHHHHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-ccChHHHHHHHHH
Confidence            3444444444444333  67778888888889999999999999999999999999999988654 2222225665553

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 ....

>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function

Probab=88.25  E-value=7.6  Score=32.87  Aligned_cols=94  Identities=14%  Similarity=0.153  Sum_probs=59.4

Q ss_pred             HhccCcHHHHHHHHHHHHHcC---CCCchH--HHHH-HHHHHhccCCh-------HHHHHHHHHH-hcCCC----CCchh
Q 038401          445 YGKLREFETADDLYSEMQEEG---CVFSDQ--VHFQ-MLSLYGARKDF-------NMLESLFERL-DSDSN----INKKE  506 (542)
Q Consensus       445 ~~~~g~~~~A~~~~~~~~~~~---~~~~~~--~~~~-l~~~~~~~g~~-------~~A~~~~~~~-~~~~~----~~~~~  506 (542)
                      +.....+++|++.|..++-..   ..+|..  ..+. ++++|...|+-       ..|.+.|++. .....    .+...
T Consensus        87 ~~~~Rt~~~ai~~YkLAll~~~~~~~~~s~~A~l~LrlAWlyR~~~~~~~E~~fl~~Al~~y~~a~~~e~~~~~~~~~~~  166 (214)
T PF09986_consen   87 FSGERTLEEAIESYKLALLCAQIKKEKPSKKAGLCLRLAWLYRDLGDEENEKRFLRKALEFYEEAYENEDFPIEGMDEAT  166 (214)
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhccCCHHHHHHHHHHHHHHHHHHHHhCcCCCCCchHHH
Confidence            344556677777666654321   112322  2233 88999998884       4555555553 22211    12236


Q ss_pred             HHHHHHHHHHhhcchhhHHHHHHHHHhcCCCC
Q 038401          507 LHHVVAGIYERANRLNDASRIMNRMNKRRTFN  538 (542)
Q Consensus       507 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  538 (542)
                      ..+.+|.++.+.|++++|.+.|.++...+-.+
T Consensus       167 l~YLigeL~rrlg~~~eA~~~fs~vi~~~~~s  198 (214)
T PF09986_consen  167 LLYLIGELNRRLGNYDEAKRWFSRVIGSKKAS  198 (214)
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHcCCCCC
Confidence            67789999999999999999999988766444

>KOG2471 consensus TPR repeat-containing protein [General function prediction only]

Probab=88.10  E-value=24  Score=33.47  Aligned_cols=101  Identities=14%  Similarity=0.092  Sum_probs=56.3

Q ss_pred             HHHcCCHHHHHHHHHHhcC---CC-C--------CCHHHHHHHHHHhCCHHHHHHHHHHHHH-------cCCCcC-----
Q 038401          344 YERVGLVAHAKRLLHELRQ---PN-T--------IPRETAITILARAGRIEEATWVFRQAFD-------AGEVKD-----  399 (542)
Q Consensus       344 ~~~~~~~~~a~~~~~~~~~---~~-~--------~~~~~l~~~~~~~g~~~~A~~~~~~~~~-------~~~~~~-----  399 (542)
                      +...|++.+|.+++.....   ++ .        ..|+.+.-...+.|.+..+..+|.++++       .|.+|.     
T Consensus       250 eY~~gn~~kA~KlL~~sni~~~~g~~~T~q~~~cif~NNlGcIh~~~~~y~~~~~~F~kAL~N~c~qL~~g~~~~~~~tl  329 (696)
T KOG2471|consen  250 EYAHGNHPKAMKLLLVSNIHKEAGGTITPQLSSCIFNNNLGCIHYQLGCYQASSVLFLKALRNSCSQLRNGLKPAKTFTL  329 (696)
T ss_pred             HHHhcchHHHHHHHHhcccccccCccccchhhhheeecCcceEeeehhhHHHHHHHHHHHHHHHHHHHhccCCCCcceeh
Confidence            4456677777776655421   11 1        1123333344455666666666655553       333331     


Q ss_pred             ------HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHh
Q 038401          400 ------ISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYG  446 (542)
Q Consensus       400 ------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~  446 (542)
                            ..+|| .+-.|...|++-.|.+.|.+.+.. +..++..|..+..+|.
T Consensus       330 s~nks~eilYN-cG~~~Lh~grPl~AfqCf~~av~v-fh~nPrlWLRlAEcCi  380 (696)
T KOG2471|consen  330 SQNKSMEILYN-CGLLYLHSGRPLLAFQCFQKAVHV-FHRNPRLWLRLAECCI  380 (696)
T ss_pred             hcccchhhHHh-hhHHHHhcCCcHHHHHHHHHHHHH-HhcCcHHHHHHHHHHH
Confidence                  12333 234566778888888888777653 4557777877777775

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=87.99  E-value=31  Score=34.53  Aligned_cols=149  Identities=15%  Similarity=0.099  Sum_probs=68.9

Q ss_pred             HHHHHHHHHHhHhCCCCccHhHHHHHHH--H-HhccCcHHHHHHHHHHHHH-------cCCCCCHHHHHHHHHHHHHCC-
Q 038401          105 YSKAISIFSRLKSSGIVPDLVAYNTMIN--V-FGKAKLFKEARLLIEEMRE-------QGVKPDTVSYSTLLNLYVENH-  173 (542)
Q Consensus       105 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~--~-~~~~~~~~~a~~~~~~~~~-------~g~~~~~~~~~~l~~~~~~~g-  173 (542)
                      ...+.++++...+.| .........++-  + +....+.+.|...|+...+       .|   ......-+..+|.+.. 
T Consensus       228 ~~~a~~~~~~~a~~g-~~~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g~~  303 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLG-HSEAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQGLG  303 (552)
T ss_pred             hhHHHHHHHHHHhhc-chHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcCCC
Confidence            456777777766655 112222222222  2 3355677777777777765       33   2223344455554432 


Q ss_pred             ----ChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhc-cCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHH--hcCcHH
Q 038401          174 ----KFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQ-LDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYG--EAELFG  246 (542)
Q Consensus       174 ----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~--~~~~~~  246 (542)
                          +.+.|..++....+.|. |+.......+..... ..+...|.++|....+.|. +....+..++....  ...+..
T Consensus       304 ~~~~d~~~A~~~~~~aA~~g~-~~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~-~~A~~~la~~y~~G~gv~r~~~  381 (552)
T KOG1550|consen  304 VEKIDYEKALKLYTKAAELGN-PDAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGH-ILAIYRLALCYELGLGVERNLE  381 (552)
T ss_pred             CccccHHHHHHHHHHHHhcCC-chHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCC-hHHHHHHHHHHHhCCCcCCCHH
Confidence                44556666666666552 222222222221111 2345566666666666552 22211111111111  223455


Q ss_pred             HHHHHHHHHHhcC
Q 038401          247 EAIHLFRLMQRKE  259 (542)
Q Consensus       247 ~a~~~~~~~~~~~  259 (542)
                      .|..++.+....|
T Consensus       382 ~A~~~~k~aA~~g  394 (552)
T KOG1550|consen  382 LAFAYYKKAAEKG  394 (552)
T ss_pred             HHHHHHHHHHHcc
Confidence            6666666665554

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=87.98  E-value=33  Score=34.88  Aligned_cols=184  Identities=14%  Similarity=0.115  Sum_probs=111.2

Q ss_pred             hhhhhHHHHhhCCCCCcHH--HHHHHHHHHH-HhcCHHHHHHHHHHHHhCCCCCCHH-----hHHHHHHHHhccCCHHHH
Q 038401            2 SVAILDWINEEARYSPSVF--AYNVVLRNVL-RAKQWELAHGLFDEMRQRGIAPDRY-----TYSTLITCFGKEGMFDSA   73 (542)
Q Consensus         2 A~~~~~~~~~~~~~~~~~~--~~~~ll~~~~-~~~~~~~A~~~~~~~~~~~~~~~~~-----~~~~l~~~~~~~g~~~~a   73 (542)
                      |++.++.+.+...++|..+  ++-.+...+. ...+++.|...+++.....-.++..     ....++..+.+.+... |
T Consensus        40 ai~CL~~~~~~~~l~p~~ea~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~~~~~~~d~k~~~~~ll~~i~~~~~~~~-a  118 (608)
T PF10345_consen   40 AIKCLEAVLKQFKLSPRQEARVRLRLASILLEETENLDLAETYLEKAILLCERHRLTDLKFRCQFLLARIYFKTNPKA-A  118 (608)
T ss_pred             HHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHHhcCHHH-H
Confidence            4666777776666666654  4556666666 6789999999999775543222222     2335566666666555 8


Q ss_pred             HHHHHHHHhCC----CCCCHHhHHHH-HHHHHhcCCHHHHHHHHHHhHhCC---CCccHhHHHHHHHHHh--ccCcHHHH
Q 038401           74 ISWLQQMEQDR----VSGDLVLYSNL-IELARKLSDYSKAISIFSRLKSSG---IVPDLVAYNTMINVFG--KAKLFKEA  143 (542)
Q Consensus        74 ~~~~~~~~~~~----~~~~~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~--~~~~~~~a  143 (542)
                      ...+++..+.-    ..+-...|..+ +..+...+++..|.+.++.+....   ..|-..++-.++.+..  +.+..+.+
T Consensus       119 ~~~l~~~I~~~~~~~~~~w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~~~~v~~~l~~~~l~l~~~~~~d~  198 (608)
T PF10345_consen  119 LKNLDKAIEDSETYGHSAWYYAFRLLKIQLALQHKDYNAALENLQSIAQLANQRGDPAVFVLASLSEALLHLRRGSPDDV  198 (608)
T ss_pred             HHHHHHHHHHHhccCchhHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHhcCCCchhH
Confidence            88888866541    11222333333 333334479999999998877532   2444455555554443  45656777


Q ss_pred             HHHHHHHHHcC---------CCCCHHHHHHHHHHHH--HCCChHHHHHHHHHHH
Q 038401          144 RLLIEEMREQG---------VKPDTVSYSTLLNLYV--ENHKFVEALSVFAEMN  186 (542)
Q Consensus       144 ~~~~~~~~~~g---------~~~~~~~~~~l~~~~~--~~g~~~~a~~~~~~~~  186 (542)
                      .+.++.+....         ..|...+|..+++.++  ..|+++.+...++++.
T Consensus       199 ~~~l~~~~~~~~~~q~~~~~~~~qL~~~~lll~l~~~l~~~~~~~~~~~L~~lq  252 (608)
T PF10345_consen  199 LELLQRAIAQARSLQLDPSVHIPQLKALFLLLDLCCSLQQGDVKNSKQKLKQLQ  252 (608)
T ss_pred             HHHHHHHHHHHhhcccCCCCCcHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            77777664321         1345666777766554  5778777777666653

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 [].

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=87.90  E-value=0.75  Score=27.05  Aligned_cols=23  Identities=17%  Similarity=0.182  Sum_probs=15.9

Q ss_pred             HHHHHhccCChHHHHHHHHHHhc
Q 038401          476 MLSLYGARKDFNMLESLFERLDS  498 (542)
Q Consensus       476 l~~~~~~~g~~~~A~~~~~~~~~  498 (542)
                      ++.+|...|+.+.|+++++.+..
T Consensus         5 LA~ayie~Gd~e~Ar~lL~evl~   27 (44)
T TIGR03504         5 LARAYIEMGDLEGARELLEEVIE   27 (44)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHH
Confidence            66677777777777777777553

This protein is found at the extreme C-terminus of FimV from Pseudomonas aeruginosa, and of TspA of Neisseria meningitidis. Disruption of the former blocks twitching motility from type IV pili; Semmler, et al. suggest a role in peptidoglycan layer remodelling required by type IV fimbrial systems.

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=87.79  E-value=6.9  Score=33.95  Aligned_cols=85  Identities=14%  Similarity=0.177  Sum_probs=43.1

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhC--CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcC--CCCchHHHHH---HHHH
Q 038401          407 IELFSRNKKYANVIEVFEKMRSA--GYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEG--CVFSDQVHFQ---MLSL  479 (542)
Q Consensus       407 ~~~~~~~g~~~~A~~~~~~~~~~--~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~~---l~~~  479 (542)
                      |.+++..+++.++....-+--+.  .++  ..+...-|-.|.+.|....+.++-...+...  ...|+.....   +..+
T Consensus        90 IQALAEmnrWreVLsWvlqyYq~pEklP--pkIleLCILLysKv~Ep~amlev~~~WL~~p~Nq~lp~y~~vaELyLl~V  167 (309)
T PF07163_consen   90 IQALAEMNRWREVLSWVLQYYQVPEKLP--PKILELCILLYSKVQEPAAMLEVASAWLQDPSNQSLPEYGTVAELYLLHV  167 (309)
T ss_pred             HHHHHHHhhHHHHHHHHHHHhcCcccCC--HHHHHHHHHHHHHhcCHHHHHHHHHHHHhCcccCCchhhHHHHHHHHHHH
Confidence            45666667777666544333221  122  2334444445667777666666666655432  1122211111   3445


Q ss_pred             HhccCChHHHHHHH
Q 038401          480 YGARKDFNMLESLF  493 (542)
Q Consensus       480 ~~~~g~~~~A~~~~  493 (542)
                      +.-.|.+++|++++
T Consensus       168 LlPLG~~~eAeelv  181 (309)
T PF07163_consen  168 LLPLGHFSEAEELV  181 (309)
T ss_pred             HhccccHHHHHHHH
Confidence            55567777777666

Pex26 is a type II peroxisomal membrane protein that recruits Pex6-Pex1 complexes to peroxisomes []. Mutations in Pex26 can lead to human disorders [].; GO: 0032403 protein complex binding, 0045046 protein import into peroxisome membrane, 0005779 integral to peroxisomal membrane

>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed

Probab=86.94  E-value=13  Score=30.71  Aligned_cols=79  Identities=10%  Similarity=0.084  Sum_probs=51.6

Q ss_pred             HhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhc---CCCCChhhHHHHHHHHhccCCH
Q 038401          134 FGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEV---NCPLDLTTCNIMIDVYGQLDMA  210 (542)
Q Consensus       134 ~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~  210 (542)
                      +.+.|+ +.|.+.|-.+...+.--++.....|...|. ..+.++++.++....+.   +-.+|+..+..|+..+.+.+++
T Consensus       117 Wsr~~d-~~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~  194 (203)
T PF11207_consen  117 WSRFGD-QEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNY  194 (203)
T ss_pred             hhccCc-HHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcch
Confidence            344444 556677777766655555555555555554 67777787777776553   2256777888888888888887


Q ss_pred             HHHH
Q 038401          211 KDAD  214 (542)
Q Consensus       211 ~~a~  214 (542)
                      +.|-
T Consensus       195 e~AY  198 (203)
T PF11207_consen  195 EQAY  198 (203)
T ss_pred             hhhh
Confidence            7763

>PF10579 Rapsyn_N: Rapsyn N-terminal myristoylation and linker region; InterPro: IPR019568 Neuromuscular junction formation relies upon the clustering of acetylcholine receptors and other proteins in the muscle membrane

Probab=86.87  E-value=2.5  Score=28.51  Aligned_cols=46  Identities=2%  Similarity=0.083  Sum_probs=20.2

Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCH--HHHHHHHHHHhccCcHHHHHHH
Q 038401          412 RNKKYANVIEVFEKMRSAGYFPDS--HIIALVLNSYGKLREFETADDL  457 (542)
Q Consensus       412 ~~g~~~~A~~~~~~~~~~~~~p~~--~~~~~l~~~~~~~g~~~~A~~~  457 (542)
                      ...+.++|+..|+..++.-..|..  .++..++.+|+..|++++++.+
T Consensus        18 ~~~~~~~Al~~W~~aL~k~~~~~~rf~~lG~l~qA~~e~Gkyr~~L~f   65 (80)
T PF10579_consen   18 HQNETQQALQKWRKALEKITDREDRFRVLGYLIQAHMEWGKYREMLAF   65 (80)
T ss_pred             ccchHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334445555555555443222111  3344444555555555544443

Rapsyn is a peripheral membrane protein that is selectively concentrated at the neuromuscular junction and is essential for the formation of synaptic acetylcholine receptor aggregates. Acetylcholine receptors fail to aggregate beneath nerve terminals in mice where rapsyn has been knocked out. The N-terminal six amino acids of rapsyn are its myristoylation site, and myristoylation is necessary for the targeting of the protein to the membrane []. ; GO: 0008270 zinc ion binding, 0033130 acetylcholine receptor binding, 0007268 synaptic transmission, 0005856 cytoskeleton, 0030054 cell junction, 0045211 postsynaptic membrane

>smart00028 TPR Tetratricopeptide repeats

Probab=85.91  E-value=1.8  Score=22.49  Aligned_cols=28  Identities=7%  Similarity=0.057  Sum_probs=22.3

Q ss_pred             HHHHHHHHHHhhcchhhHHHHHHHHHhc
Q 038401          507 LHHVVAGIYERANRLNDASRIMNRMNKR  534 (542)
Q Consensus       507 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~  534 (542)
                      .|..++.+|...|++++|...+++..+.
T Consensus         3 ~~~~~a~~~~~~~~~~~a~~~~~~~~~~   30 (34)
T smart00028        3 ALYNLGNAYLKLGDYDEALEYYEKALEL   30 (34)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHcc
Confidence            5677888888888888888888877654

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.

>PF08424 NRDE-2: NRDE-2, necessary for RNA interference; InterPro: IPR013633 This is domain is found in eukaryotic proteins of unknown function

Probab=85.59  E-value=29  Score=31.80  Aligned_cols=79  Identities=10%  Similarity=0.087  Sum_probs=43.8

Q ss_pred             HHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhc---cCcHHHHHHH
Q 038401          382 EEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGK---LREFETADDL  457 (542)
Q Consensus       382 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~---~g~~~~A~~~  457 (542)
                      +.-+.+++++++.+ +.+...+..++..+.+..+.++..+-+++++...  | +...|...+.....   .-.+++....
T Consensus        48 E~klsilerAL~~n-p~~~~L~l~~l~~~~~~~~~~~l~~~we~~l~~~--~~~~~LW~~yL~~~q~~~~~f~v~~~~~~  124 (321)
T PF08424_consen   48 ERKLSILERALKHN-PDSERLLLGYLEEGEKVWDSEKLAKKWEELLFKN--PGSPELWREYLDFRQSNFASFTVSDVRDV  124 (321)
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHC--CCChHHHHHHHHHHHHHhccCcHHHHHHH
Confidence            44556666666663 2556666666666666666666666677776632  3 34555555543322   2234555555


Q ss_pred             HHHHHH
Q 038401          458 YSEMQE  463 (542)
Q Consensus       458 ~~~~~~  463 (542)
                      |.+.++
T Consensus       125 y~~~l~  130 (321)
T PF08424_consen  125 YEKCLR  130 (321)
T ss_pred             HHHHHH
Confidence            555443

>PF10579 Rapsyn_N: Rapsyn N-terminal myristoylation and linker region; InterPro: IPR019568 Neuromuscular junction formation relies upon the clustering of acetylcholine receptors and other proteins in the muscle membrane

Probab=85.44  E-value=2.7  Score=28.35  Aligned_cols=49  Identities=8%  Similarity=0.011  Sum_probs=31.5

Q ss_pred             ccCcHHHHHHHHHHHHHcCCCCchHHHHH--HHHHHhccCChHHHHHHHHH
Q 038401          447 KLREFETADDLYSEMQEEGCVFSDQVHFQ--MLSLYGARKDFNMLESLFER  495 (542)
Q Consensus       447 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~--l~~~~~~~g~~~~A~~~~~~  495 (542)
                      ..++.++|+..|.++++....+|+.....  +..+|+..|++.+++++.-.
T Consensus        18 ~~~~~~~Al~~W~~aL~k~~~~~~rf~~lG~l~qA~~e~Gkyr~~L~fA~~   68 (80)
T PF10579_consen   18 HQNETQQALQKWRKALEKITDREDRFRVLGYLIQAHMEWGKYREMLAFALQ   68 (80)
T ss_pred             ccchHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            66777888888888877654444322222  56777777877777655443

Rapsyn is a peripheral membrane protein that is selectively concentrated at the neuromuscular junction and is essential for the formation of synaptic acetylcholine receptor aggregates. Acetylcholine receptors fail to aggregate beneath nerve terminals in mice where rapsyn has been knocked out. The N-terminal six amino acids of rapsyn are its myristoylation site, and myristoylation is necessary for the targeting of the protein to the membrane []. ; GO: 0008270 zinc ion binding, 0033130 acetylcholine receptor binding, 0007268 synaptic transmission, 0005856 cytoskeleton, 0030054 cell junction, 0045211 postsynaptic membrane

>PRK11619 lytic murein transglycosylase; Provisional

Probab=85.03  E-value=48  Score=33.84  Aligned_cols=452  Identities=9%  Similarity=0.000  Sum_probs=219.0

Q ss_pred             HHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHh--cCCHHHHHHHHHHhHhCCCCccHhHHHHHH
Q 038401           54 RYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARK--LSDYSKAISIFSRLKSSGIVPDLVAYNTMI  131 (542)
Q Consensus        54 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  131 (542)
                      ...|.....+ .+.|++..+.++...+...  +.  ..|.........  ...+++....+++-..  .+.....-...+
T Consensus        34 r~~f~~A~~a-~~~g~~~~~~~~~~~l~d~--pL--~~yl~y~~L~~~l~~~~~~ev~~Fl~~~~~--~P~~~~Lr~~~l  106 (644)
T PRK11619         34 RQRYQQIKQA-WDNRQMDVVEQLMPTLKDY--PL--YPYLEYRQLTQDLMNQPAVQVTNFIRANPT--LPPARSLQSRFV  106 (644)
T ss_pred             HHHHHHHHHH-HHCCCHHHHHHHHHhccCC--Cc--HhHHHHHHHHhccccCCHHHHHHHHHHCCC--CchHHHHHHHHH
Confidence            3445555544 4677788877777766432  11  222222222222  2245544444444322  122333334455


Q ss_pred             HHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHH
Q 038401          132 NVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAK  211 (542)
Q Consensus       132 ~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  211 (542)
                      ..+.+.+++......+..     .+.+...-.....+....|+.++|......+-..| ...+..++.++..+.+.|...
T Consensus       107 ~~La~~~~w~~~~~~~~~-----~p~~~~~~c~~~~A~~~~G~~~~A~~~a~~lW~~g-~~~p~~cd~l~~~~~~~g~lt  180 (644)
T PRK11619        107 NELARREDWRGLLAFSPE-----KPKPVEARCNYYYAKWATGQQQEAWQGAKELWLTG-KSLPNACDKLFSVWQQSGKQD  180 (644)
T ss_pred             HHHHHccCHHHHHHhcCC-----CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC-CCCChHHHHHHHHHHHcCCCC
Confidence            566677777766652211     13466666777888888899887877776664444 335667777777777555432


Q ss_pred             --HHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhc---------CCCCcHHHHHHHHHHHH--ccC
Q 038401          212 --DADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRK---------EIEQNVVTYNTMIKIYG--KSL  278 (542)
Q Consensus       212 --~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---------~~~~~~~~~~~l~~~~~--~~~  278 (542)
                        ...+-+..+...|   +...-..+...+.  .+.....+.+..+...         .++++...-..++.++.  ...
T Consensus       181 ~~d~w~R~~~al~~~---~~~lA~~l~~~l~--~~~~~~a~a~~al~~~p~~~~~~~~~~~~~~~~~~~~~~~l~Rlar~  255 (644)
T PRK11619        181 PLAYLERIRLAMKAG---NTGLVTYLAKQLP--ADYQTIASALIKLQNDPNTVETFARTTGPTDFTRQMAAVAFASVARQ  255 (644)
T ss_pred             HHHHHHHHHHHHHCC---CHHHHHHHHHhcC--hhHHHHHHHHHHHHHCHHHHHHHhhccCCChhhHHHHHHHHHHHHHh
Confidence              3333334444333   2222333333221  1111111111111111         11122211111222222  234


Q ss_pred             CHHHHHHHHHHHHHcC-CCCCH--HHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHH
Q 038401          279 EHEKATNLMQEMQNRG-IEPNA--ITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKR  355 (542)
Q Consensus       279 ~~~~a~~~~~~~~~~~-~~p~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  355 (542)
                      +.+.|...+....... +.+..  ..+..+.......+....+...+.......  .+......-++.-.+.++++.+..
T Consensus       256 d~~~A~~~~~~~~~~~~~~~~~~~~~~~~lA~~~a~~~~~~~a~~w~~~~~~~~--~~~~~~e~r~r~Al~~~dw~~~~~  333 (644)
T PRK11619        256 DAENARLMIPSLVRAQKLNEDQRQELRDIVAWRLMGNDVTDEQAKWRDDVIMRS--QSTSLLERRVRMALGTGDRRGLNT  333 (644)
T ss_pred             CHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhccCCHHHHHHHHhccccc--CCcHHHHHHHHHHHHccCHHHHHH
Confidence            5577777777664432 22222  122333333333322445555555443321  234444444555557888888877


Q ss_pred             HHHHhcCCC---CCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHH-HHHH-HHHHhCC
Q 038401          356 LLHELRQPN---TIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANV-IEVF-EKMRSAG  430 (542)
Q Consensus       356 ~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A-~~~~-~~~~~~~  430 (542)
                      .+..|....   ..-.--+..++...|+.++|...|+++...   .+  .|..|...  +.|..-.- .... .....  
T Consensus       334 ~i~~L~~~~~~~~rw~YW~aRa~~~~g~~~~A~~~~~~~a~~---~~--fYG~LAa~--~Lg~~~~~~~~~~~~~~~~--  404 (644)
T PRK11619        334 WLARLPMEAKEKDEWRYWQADLLLEQGRKAEAEEILRQLMQQ---RG--FYPMVAAQ--RLGEEYPLKIDKAPKPDSA--  404 (644)
T ss_pred             HHHhcCHhhccCHhhHHHHHHHHHHcCCHHHHHHHHHHHhcC---CC--cHHHHHHH--HcCCCCCCCCCCCCchhhh--
Confidence            777765321   111223456666678888888888887431   22  23332221  12221000 0000 00000  


Q ss_pred             CCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHHHHHHHhccCChHHHHHHHHHHhcCCCC--CchhHH
Q 038401          431 YFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQMLSLYGARKDFNMLESLFERLDSDSNI--NKKELH  508 (542)
Q Consensus       431 ~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~--~~~~~~  508 (542)
                      + +... ...-+..+...|+..+|...|..+.+..   ++.....++....+.|.++.++....+.......  .-...|
T Consensus       405 ~-~~~~-~~~ra~~L~~~g~~~~a~~ew~~~~~~~---~~~~~~~la~~A~~~g~~~~ai~~~~~~~~~~~~~~rfp~~~  479 (644)
T PRK11619        405 L-TQGP-EMARVRELMYWNMDNTARSEWANLVASR---SKTEQAQLARYAFNQQWWDLSVQATIAGKLWDHLEERFPLAW  479 (644)
T ss_pred             h-ccCh-HHHHHHHHHHCCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHHCCCHHHHHHHHhhchhHHHHHHhCCcch
Confidence            0 0001 1223445667899999999999888753   3333444777777889988888766543211000  001134


Q ss_pred             HHHHHHHHhhcchhhHHHHHHHHHhcCCCCC
Q 038401          509 HVVAGIYERANRLNDASRIMNRMNKRRTFNS  539 (542)
Q Consensus       509 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~  539 (542)
                      ...+..+...-..+.++-+--..++.+..|+
T Consensus       480 ~~~~~~~a~~~~v~~~lv~ai~rqES~f~p~  510 (644)
T PRK11619        480 NDEFRRYTSGKGIPQSYAMAIARQESAWNPK  510 (644)
T ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHhcCCCCC
Confidence            4455555555566777666666666666664

>PF09670 Cas_Cas02710: CRISPR-associated protein (Cas_Cas02710)

Probab=85.02  E-value=13  Score=34.86  Aligned_cols=51  Identities=8%  Similarity=0.087  Sum_probs=24.0

Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHH--HHHHHHHHH--hccCcHHHHHHHHHHHHH
Q 038401          412 RNKKYANVIEVFEKMRSAGYFPDSH--IIALVLNSY--GKLREFETADDLYSEMQE  463 (542)
Q Consensus       412 ~~g~~~~A~~~~~~~~~~~~~p~~~--~~~~l~~~~--~~~g~~~~A~~~~~~~~~  463 (542)
                      ..+++..|.++++.+... ++++..  .+..+..+|  ...-++++|.+.++....
T Consensus       143 n~~~y~aA~~~l~~l~~r-l~~~~~~~~~~~l~~~y~~WD~fd~~~A~~~l~~~~~  197 (379)
T PF09670_consen  143 NRYDYGAAARILEELLRR-LPGREEYQRYKDLCEGYDAWDRFDHKEALEYLEKLLK  197 (379)
T ss_pred             hcCCHHHHHHHHHHHHHh-CCchhhHHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            455555555555555543 333322  222333333  344455555555555544

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=84.13  E-value=29  Score=30.57  Aligned_cols=70  Identities=16%  Similarity=0.110  Sum_probs=50.3

Q ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHH-----cCCCCCHHH
Q 038401          231 SYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQN-----RGIEPNAIT  301 (542)
Q Consensus       231 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~p~~~~  301 (542)
                      +++.....|..+|.+.+|.++.+.....+ +.+...+-.++..++..|+--.+.+-++.+.+     .|+..+...
T Consensus       281 llgkva~~yle~g~~neAi~l~qr~ltld-pL~e~~nk~lm~~la~~gD~is~~khyerya~vleaelgi~vddsi  355 (361)
T COG3947         281 LLGKVARAYLEAGKPNEAIQLHQRALTLD-PLSEQDNKGLMASLATLGDEISAIKHYERYAEVLEAELGIDVDDSI  355 (361)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHhhcC-hhhhHHHHHHHHHHHHhccchhhhhHHHHHHHHHHHHhCCCcchhH
Confidence            34555677888888888888888887765 55777788888888888887777777766543     365555443

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=83.48  E-value=42  Score=31.89  Aligned_cols=86  Identities=13%  Similarity=0.111  Sum_probs=39.6

Q ss_pred             hccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHH
Q 038401           65 GKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEAR  144 (542)
Q Consensus        65 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  144 (542)
                      ...|.++.+.+.+....+. +-....+...+++...+.|+++.|..+-+-|....+. ++.....-....-..|-++++.
T Consensus       334 ~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~l~r~~~a~s~a~~~l~~eie-~~ei~~iaa~sa~~l~~~d~~~  411 (831)
T PRK15180        334 SHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHGLARWREALSTAEMMLSNEIE-DEEVLTVAAGSADALQLFDKSY  411 (831)
T ss_pred             HHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhchhhHHHHHHHHHHHhccccC-ChhheeeecccHHHHhHHHHHH
Confidence            3455555555555444332 1223344455555555555666665555555544332 2222222222223344455555


Q ss_pred             HHHHHHHH
Q 038401          145 LLIEEMRE  152 (542)
Q Consensus       145 ~~~~~~~~  152 (542)
                      -.++++..
T Consensus       412 ~~wk~~~~  419 (831)
T PRK15180        412 HYWKRVLL  419 (831)
T ss_pred             HHHHHHhc
Confidence            55555443

>PF14561 TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S_A 3QDN_B

Probab=83.24  E-value=14  Score=26.12  Aligned_cols=49  Identities=10%  Similarity=0.097  Sum_probs=31.7

Q ss_pred             HHHHHHhccCChHHHHHHHHH-HhcCCCCCchhHHHHHHHHHHhhcchhh
Q 038401          475 QMLSLYGARKDFNMLESLFER-LDSDSNINKKELHHVVAGIYERANRLND  523 (542)
Q Consensus       475 ~l~~~~~~~g~~~~A~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~g~~~~  523 (542)
                      .++..+...|++++|.+.+-. +..+++.....+-..++.++...|.-+.
T Consensus        27 ~lA~~~~~~g~~e~Al~~Ll~~v~~dr~~~~~~ar~~ll~~f~~lg~~~p   76 (90)
T PF14561_consen   27 ALADALLAAGDYEEALDQLLELVRRDRDYEDDAARKRLLDIFELLGPGDP   76 (90)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHHHCC-TTCCCCHHHHHHHHHHHHH-TT-H
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCccccccHHHHHHHHHHHHcCCCCh
Confidence            378888888888888877666 4555555556666777777777776543

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=82.99  E-value=33  Score=30.33  Aligned_cols=63  Identities=8%  Similarity=0.108  Sum_probs=32.1

Q ss_pred             CCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 038401          261 EQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNR-GIEPNAITYSTIIAIWGKAGKLDRAAMLFQ  323 (542)
Q Consensus       261 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~  323 (542)
                      .++..+...++..++..+++.+-.++++..... +..-|...|..+|......|+..-...+.+
T Consensus       199 ~l~~~vi~~Il~~L~~~~dW~kl~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~  262 (292)
T PF13929_consen  199 SLTRNVIISILEILAESRDWNKLFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIID  262 (292)
T ss_pred             CCChhHHHHHHHHHHhcccHHHHHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhh
Confidence            344445555555555555555555555554333 233345555555555555555544444443

>KOG0545 consensus Aryl-hydrocarbon receptor-interacting protein [Posttranslational modification, protein turnover, chaperones]

Probab=82.64  E-value=7.2  Score=33.07  Aligned_cols=98  Identities=12%  Similarity=0.050  Sum_probs=56.9

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHh------CCCCCCHHH-----------HHHHHHHHhccCcHHHHHHHHHHHH
Q 038401          400 ISVFGCMIELFSRNKKYANVIEVFEKMRS------AGYFPDSHI-----------IALVLNSYGKLREFETADDLYSEMQ  462 (542)
Q Consensus       400 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~------~~~~p~~~~-----------~~~l~~~~~~~g~~~~A~~~~~~~~  462 (542)
                      ..+...-++-+.+.|++.+|..-|..++.      ..-+|-..-           +..+..++...|++-++++....++
T Consensus       178 v~~l~q~GN~lfk~~~ykEA~~~YreAi~~l~~L~lkEkP~e~eW~eLdk~~tpLllNy~QC~L~~~e~yevleh~seiL  257 (329)
T KOG0545|consen  178 VPVLHQEGNRLFKLGRYKEASSKYREAIICLRNLQLKEKPGEPEWLELDKMITPLLLNYCQCLLKKEEYYEVLEHCSEIL  257 (329)
T ss_pred             hHHHHHhhhhhhhhccHHHHHHHHHHHHHHHHHHHhccCCCChHHHHHHHhhhHHHHhHHHHHhhHHHHHHHHHHHHHHH
Confidence            34455556667788888888888887642      112332222           2233345556677777777777777


Q ss_pred             HcCCCCchHH--HHHHHHHHhccCChHHHHHHHHH-HhcCC
Q 038401          463 EEGCVFSDQV--HFQMLSLYGARKDFNMLESLFER-LDSDS  500 (542)
Q Consensus       463 ~~~~~~~~~~--~~~l~~~~~~~g~~~~A~~~~~~-~~~~~  500 (542)
                      +..   |..+  .+.-+.+....=+.++|..=|.+ +..+|
T Consensus       258 ~~~---~~nvKA~frRakAhaa~Wn~~eA~~D~~~vL~ldp  295 (329)
T KOG0545|consen  258 RHH---PGNVKAYFRRAKAHAAVWNEAEAKADLQKVLELDP  295 (329)
T ss_pred             hcC---CchHHHHHHHHHHHHhhcCHHHHHHHHHHHHhcCh
Confidence            765   3332  22255555556666677666666 34444

>KOG2062 consensus 26S proteasome regulatory complex, subunit RPN2/PSMD1 [Posttranslational modification, protein turnover, chaperones]

Probab=82.58  E-value=58  Score=32.93  Aligned_cols=470  Identities=13%  Similarity=0.065  Sum_probs=202.6

Q ss_pred             HHHHHHHHHhCCCCCCHHhH-HHHHHHHhccCCHHHHHHHHHHHH-hCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHh
Q 038401           38 AHGLFDEMRQRGIAPDRYTY-STLITCFGKEGMFDSAISWLQQME-QDRVSGDLVLYSNLIELARKLSDYSKAISIFSRL  115 (542)
Q Consensus        38 A~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~g~~~~a~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  115 (542)
                      .+...+.+.+..-.|+..+- -.+-..|...|++++|+++--..- ...+.++...+..++.-|... -.+++.+.++.-
T Consensus        42 ~l~~IE~lyed~~F~er~~AaL~~SKVyy~Lgeye~Al~yAL~ag~~F~Vd~~S~y~etivak~id~-yi~~~~~~~~~~  120 (929)
T KOG2062|consen   42 SLPKIESLYEDETFPERQLAALLASKVYYYLGEYEDALEYALRAGDDFDVDENSDYVETIVAKCIDM-YIETASETYKNP  120 (929)
T ss_pred             hHHHHHHHhccCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHcCCccccccCccchhhHHHHHHHHH-HHHHHHHHhcCc
Confidence            34444444444434443333 333457788899999887754432 223555666666655444321 112233333211


Q ss_pred             H-hCCCCcc-HhHHHHHHHHHhccCcHHHHHH---------HHHHH-HHcCCCCCHHHHHHHHHHHHHCCC-hHHHHHHH
Q 038401          116 K-SSGIVPD-LVAYNTMINVFGKAKLFKEARL---------LIEEM-REQGVKPDTVSYSTLLNLYVENHK-FVEALSVF  182 (542)
Q Consensus       116 ~-~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~---------~~~~~-~~~g~~~~~~~~~~l~~~~~~~g~-~~~a~~~~  182 (542)
                      . ..++.+. ......++..|...+++..++.         ++++. .+..  .+....+.++..+....+ -+--.+++
T Consensus       121 ~~~~~iD~rL~~iv~rmi~kcl~d~e~~~aiGia~E~~rld~ie~Ail~~d--~~~~~~~yll~l~~s~v~~~efR~~vl  198 (929)
T KOG2062|consen  121 EQKSPIDQRLRDIVERMIQKCLDDNEYKQAIGIAFETRRLDIIEEAILKSD--SVIGNLTYLLELLISLVNNREFRNKVL  198 (929)
T ss_pred             cccCCCCHHHHHHHHHHHHHhhhhhHHHHHHhHHhhhhhHHHHHHHhcccc--ccchHHHHHHHHHHHHHhhHHHHHHHH
Confidence            1 1112221 1223444444444444443332         23331 1111  122233334443333222 22233344


Q ss_pred             HHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhc---C
Q 038401          183 AEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRK---E  259 (542)
Q Consensus       183 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---~  259 (542)
                      +.+.+.=.+....-|..+..++....+.+.+.++++.+.+..  .....|..-...+....+ +--..+.+.+...   +
T Consensus       199 r~lv~~y~~~~~PDy~~vc~c~v~Ldd~~~va~ll~kL~~e~--~~llayQIAFDL~esasQ-efL~~v~~~l~~d~~~d  275 (929)
T KOG2062|consen  199 RLLVKTYLKLPSPDYFSVCQCYVFLDDAEAVADLLEKLVKED--DLLLAYQIAFDLYESASQ-EFLDSVLDRLPADDARD  275 (929)
T ss_pred             HHHHHHHccCCCCCeeeeeeeeEEcCCHHHHHHHHHHHHhcc--hhhhHHHHHHHHhhccCH-HHHHHHHHHcccccccc
Confidence            443332111122235557788888999999999999988742  223334433333322211 1111122222211   1


Q ss_pred             CCC---------cHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHH--HHHHHHHHhcCCHHHH-----HHHHH
Q 038401          260 IEQ---------NVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITY--STIIAIWGKAGKLDRA-----AMLFQ  323 (542)
Q Consensus       260 ~~~---------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~--~~l~~~~~~~~~~~~a-----~~~~~  323 (542)
                      -.|         ...+....+..+.+.++.+-  .+++..++. + -++.+.  ..+.+++...|-...-     +..+.
T Consensus       276 e~p~~kii~ILSGe~tik~~l~FL~~~N~tD~--~iL~~iK~s-~-r~sv~H~A~~iAN~fMh~GTT~D~FlR~NL~Wls  351 (929)
T KOG2062|consen  276 EKPMEKIISILSGEETIKLYLQFLLRHNNTDL--LILEEIKES-V-RNSVCHTATLIANAFMHAGTTSDTFLRNNLDWLS  351 (929)
T ss_pred             cChHHHHHHHhcCchHHHHHHHHHHHcCCchH--HHHHHHHHH-H-HHhhhhHHHHHHHHHHhcCCcchHHHHhchhHHh
Confidence            111         11112222333334443331  223333222 1 112111  2233444444432211     11111


Q ss_pred             HHHhcCCCCCHHHHHHHH-HHHHHcCCHHHHHHHHHHhcCCC---CCCH----HHHHHHHHHhCCHHHHHHHHHHHHHcC
Q 038401          324 KLRSSGVEIDPVLYQTMI-VAYERVGLVAHAKRLLHELRQPN---TIPR----ETAITILARAGRIEEATWVFRQAFDAG  395 (542)
Q Consensus       324 ~~~~~~~~~~~~~~~~l~-~~~~~~~~~~~a~~~~~~~~~~~---~~~~----~~l~~~~~~~g~~~~A~~~~~~~~~~~  395 (542)
                      +...    +..  |++.. -+....|+..++.+++.-.....   ...+    ..+.-++.++|......+++.+.++..
T Consensus       352 kAtN----WaK--FtAtAsLGvIH~G~~~~~~~ll~pYLP~~~~~~s~y~EGGalyAlGLIhA~hG~~~~~yL~~~Lk~~  425 (929)
T KOG2062|consen  352 KATN----WAK--FTATASLGVIHRGHENQAMKLLAPYLPKEAGEGSGYKEGGALYALGLIHANHGRGITDYLLQQLKTA  425 (929)
T ss_pred             hcch----Hhh--hhhhhhcceeeccccchHHHHhhhhCCccCCCCCCccccchhhhhhccccCcCccHHHHHHHHHHhc
Confidence            1100    000  11100 11234677777888777654322   1112    123445667777777888888887754


Q ss_pred             CCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHH--HHHHHHhccCcH-HHHHH-HHHHHHHcCCCCchH
Q 038401          396 EVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIA--LVLNSYGKLREF-ETADD-LYSEMQEEGCVFSDQ  471 (542)
Q Consensus       396 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~--~l~~~~~~~g~~-~~A~~-~~~~~~~~~~~~~~~  471 (542)
                      ..+....=..|+-++...|.-  -.++|+++.+.-...+..+-.  .+..++...|-+ .+|++ .+.-+.+..   .+.
T Consensus       426 ~~e~v~hG~cLGlGLa~mGSa--~~eiYe~lKevLy~D~AvsGEAAgi~MGl~mlGt~~~eaiedm~~Ya~ETQ---Hek  500 (929)
T KOG2062|consen  426 ENEVVRHGACLGLGLAGMGSA--NEEIYEKLKEVLYNDSAVSGEAAGIAMGLLMLGTANQEAIEDMLTYAQETQ---HEK  500 (929)
T ss_pred             cchhhhhhhhhhccchhcccc--cHHHHHHHHHHHhccchhhhhHHHHhhhhHhhCcCcHHHHHHHHHHhhhhh---HHH
Confidence            322222223344444444432  245666665532222322221  222233344432 33333 333333321   222


Q ss_pred             HHHH--HHHHHhccCChHHHHHHHHHHhcCCCCC-chhHHHHHHHHHHhhcchhhHHHHH
Q 038401          472 VHFQ--MLSLYGARKDFNMLESLFERLDSDSNIN-KKELHHVVAGIYERANRLNDASRIM  528 (542)
Q Consensus       472 ~~~~--l~~~~~~~g~~~~A~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~  528 (542)
                      ....  ++-++.--|.-++|..+++++..+.++- ....-+.++.+|+-.|+..--.+++
T Consensus       501 i~RGl~vGiaL~~ygrqe~Ad~lI~el~~dkdpilR~~Gm~t~alAy~GTgnnkair~lL  560 (929)
T KOG2062|consen  501 IIRGLAVGIALVVYGRQEDADPLIKELLRDKDPILRYGGMYTLALAYVGTGNNKAIRRLL  560 (929)
T ss_pred             HHHHHHHhHHHHHhhhhhhhHHHHHHHhcCCchhhhhhhHHHHHHHHhccCchhhHHHhh
Confidence            2222  4556666777788999999975444311 1233456777787777755444444

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=82.42  E-value=28  Score=29.20  Aligned_cols=74  Identities=11%  Similarity=0.168  Sum_probs=54.6

Q ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC----HHHHHHHHH
Q 038401          368 RETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPD----SHIIALVLN  443 (542)
Q Consensus       368 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~----~~~~~~l~~  443 (542)
                      ....++.+.+.+.+.+++...+.-++.. +.|...-..++..++-.|+|++|..-++-.-.  +.|+    ..+|..+++
T Consensus         4 l~~t~seLL~~~sL~dai~~a~~qVkak-Ptda~~RhflfqLlcvaGdw~kAl~Ql~l~a~--l~p~~t~~a~lyr~lir   80 (273)
T COG4455           4 LRDTISELLDDNSLQDAIGLARDQVKAK-PTDAGGRHFLFQLLCVAGDWEKALAQLNLAAT--LSPQDTVGASLYRHLIR   80 (273)
T ss_pred             hHHHHHHHHHhccHHHHHHHHHHHHhcC-CccccchhHHHHHHhhcchHHHHHHHHHHHhh--cCcccchHHHHHHHHHH
Confidence            3455677888899999999988888763 35666677788889999999999988877766  3343    356666665


Q ss_pred             H
Q 038401          444 S  444 (542)
Q Consensus       444 ~  444 (542)
                      +
T Consensus        81 ~   81 (273)
T COG4455          81 C   81 (273)
T ss_pred             H
Confidence            3

>PF12862 Apc5: Anaphase-promoting complex subunit 5

Probab=82.24  E-value=8.7  Score=27.36  Aligned_cols=22  Identities=14%  Similarity=0.208  Sum_probs=10.6

Q ss_pred             HHHHHHHhhcchhhHHHHHHHH
Q 038401          510 VVAGIYERANRLNDASRIMNRM  531 (542)
Q Consensus       510 ~l~~~~~~~g~~~~A~~~~~~~  531 (542)
                      .++.++...|++++|...+++.
T Consensus        46 ~lA~~~~~~G~~~~A~~~l~eA   67 (94)
T PF12862_consen   46 NLAELHRRFGHYEEALQALEEA   67 (94)
T ss_pred             HHHHHHHHhCCHHHHHHHHHHH
Confidence            3444444455555555554443

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=81.79  E-value=64  Score=32.86  Aligned_cols=101  Identities=17%  Similarity=0.092  Sum_probs=64.0

Q ss_pred             HHHHHhcCHHHHHHHHHHHHhCCCCC---CHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcC
Q 038401           27 RNVLRAKQWELAHGLFDEMRQRGIAP---DRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLS  103 (542)
Q Consensus        27 ~~~~~~~~~~~A~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  103 (542)
                      +-+.+.+.+++|+.+-+....  ..|   -...+..+|..+.-.|++++|-...-.|...    +...|...+..+...+
T Consensus       364 ~Wll~~k~yeeAl~~~k~~~~--~~~~~~i~kv~~~yI~HLl~~~~y~~Aas~~p~m~gn----~~~eWe~~V~~f~e~~  437 (846)
T KOG2066|consen  364 DWLLEKKKYEEALDAAKASIG--NEERFVIKKVGKTYIDHLLFEGKYDEAASLCPKMLGN----NAAEWELWVFKFAELD  437 (846)
T ss_pred             HHHHHhhHHHHHHHHHHhccC--CccccchHHHHHHHHHHHHhcchHHHHHhhhHHHhcc----hHHHHHHHHHHhcccc
Confidence            335677888998887665443  233   2456888889999999999999888888654    5556665555555554


Q ss_pred             CHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhc
Q 038401          104 DYSKAISIFSRLKSSGIVPDLVAYNTMINVFGK  136 (542)
Q Consensus       104 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  136 (542)
                      ....   ++.-+.......++..|..++..+..
T Consensus       438 ~l~~---Ia~~lPt~~~rL~p~vYemvLve~L~  467 (846)
T KOG2066|consen  438 QLTD---IAPYLPTGPPRLKPLVYEMVLVEFLA  467 (846)
T ss_pred             ccch---hhccCCCCCcccCchHHHHHHHHHHH
Confidence            4332   22223222212356677777777766

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=80.98  E-value=68  Score=32.65  Aligned_cols=47  Identities=13%  Similarity=0.297  Sum_probs=31.9

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccC
Q 038401           90 VLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAK  138 (542)
Q Consensus        90 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  138 (542)
                      .+|. ++-.|.+.|++++|.++.....+. .......+...+..|....
T Consensus       113 p~Wa-~Iyy~LR~G~~~~A~~~~~~~~~~-~~~~~~~f~~~l~~~~~s~  159 (613)
T PF04097_consen  113 PIWA-LIYYCLRCGDYDEALEVANENRNQ-FQKIERSFPTYLKAYASSP  159 (613)
T ss_dssp             EHHH-HHHHHHTTT-HHHHHHHHHHTGGG-S-TTTTHHHHHHHHCTTTT
T ss_pred             ccHH-HHHHHHhcCCHHHHHHHHHHhhhh-hcchhHHHHHHHHHHHhCC
Confidence            3453 566678999999999998655543 3555677788888887753

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.

>KOG4642 consensus Chaperone-dependent E3 ubiquitin protein ligase (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]

Probab=80.40  E-value=8.1  Score=32.71  Aligned_cols=115  Identities=10%  Similarity=0.109  Sum_probs=81.6

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHH--HHHHHHhccCC
Q 038401          409 LFSRNKKYANVIEVFEKMRSAGYFPDS-HIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHF--QMLSLYGARKD  485 (542)
Q Consensus       409 ~~~~~g~~~~A~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~g~  485 (542)
                      .|....+++.|+..|.+.+.  +.|+. .-|..=+.++.+..+|+.+..--.++++..   |+.+--  -++..+.....
T Consensus        19 k~f~~k~y~~ai~~y~raI~--~nP~~~~Y~tnralchlk~~~~~~v~~dcrralql~---~N~vk~h~flg~~~l~s~~   93 (284)
T KOG4642|consen   19 KCFIPKRYDDAIDCYSRAIC--INPTVASYYTNRALCHLKLKHWEPVEEDCRRALQLD---PNLVKAHYFLGQWLLQSKG   93 (284)
T ss_pred             cccchhhhchHHHHHHHHHh--cCCCcchhhhhHHHHHHHhhhhhhhhhhHHHHHhcC---hHHHHHHHHHHHHHHhhcc
Confidence            46667789999999988887  66877 445566678889999999999999998865   665543  38888899999


Q ss_pred             hHHHHHHHHHH----hcCCCCCchhHHHHHHHHHHhhcchhhHHHHH
Q 038401          486 FNMLESLFERL----DSDSNINKKELHHVVAGIYERANRLNDASRIM  528 (542)
Q Consensus       486 ~~~A~~~~~~~----~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  528 (542)
                      +++|+..+.+.    ...+......+...|.++-...=...++.+..
T Consensus        94 ~~eaI~~Lqra~sl~r~~~~~~~~di~~~L~~ak~~~w~v~e~~Ri~  140 (284)
T KOG4642|consen   94 YDEAIKVLQRAYSLLREQPFTFGDDIPKALRDAKKKRWEVSEEKRIR  140 (284)
T ss_pred             ccHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHhCccchhHHHHHH
Confidence            99999999884    33344334567776666533322333444433

>smart00028 TPR Tetratricopeptide repeats

Probab=80.39  E-value=3.4  Score=21.29  Aligned_cols=23  Identities=17%  Similarity=0.307  Sum_probs=10.2

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHH
Q 038401          405 CMIELFSRNKKYANVIEVFEKMR  427 (542)
Q Consensus       405 ~l~~~~~~~g~~~~A~~~~~~~~  427 (542)
                      .+...+...|++++|...+++.+
T Consensus         6 ~~a~~~~~~~~~~~a~~~~~~~~   28 (34)
T smart00028        6 NLGNAYLKLGDYDEALEYYEKAL   28 (34)
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHH
Confidence            33444444444444444444443

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.

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=80.06  E-value=5.2  Score=23.56  Aligned_cols=25  Identities=24%  Similarity=0.363  Sum_probs=17.0

Q ss_pred             HHHHHHHhcCHHHHHHHHHHHHhCC
Q 038401           25 VLRNVLRAKQWELAHGLFDEMRQRG   49 (542)
Q Consensus        25 ll~~~~~~~~~~~A~~~~~~~~~~~   49 (542)
                      +..+|...|+.+.|.+++++....|
T Consensus         5 LA~ayie~Gd~e~Ar~lL~evl~~~   29 (44)
T TIGR03504         5 LARAYIEMGDLEGARELLEEVIEEG   29 (44)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHcC
Confidence            5566777777777777777776543

This protein is found at the extreme C-terminus of FimV from Pseudomonas aeruginosa, and of TspA of Neisseria meningitidis. Disruption of the former blocks twitching motility from type IV pili; Semmler, et al. suggest a role in peptidoglycan layer remodelling required by type IV fimbrial systems.

>PRK12798 chemotaxis protein; Reviewed

Probab=80.05  E-value=53  Score=30.81  Aligned_cols=227  Identities=9%  Similarity=-0.067  Sum_probs=122.1

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHH--HcCCHHHHHHHHHHhcCC----CCCCHHHHHHH-H
Q 038401          303 STIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYE--RVGLVAHAKRLLHELRQP----NTIPRETAITI-L  375 (542)
Q Consensus       303 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~--~~~~~~~a~~~~~~~~~~----~~~~~~~l~~~-~  375 (542)
                      ...+.-....|+++....++.    .+..++.  -..++.+..  -.|+..++.+.+..+...    ....+-.++.+ .
T Consensus        85 ~Aa~iy~lSGGnP~vlr~L~~----~d~~~~~--d~~L~~g~laY~~Gr~~~a~~~La~i~~~~l~~~lg~~laLv~a~l  158 (421)
T PRK12798         85 DAALIYLLSGGNPATLRKLLA----RDKLGNF--DQRLADGALAYLSGRGREARKLLAGVAPEYLPAELGAYLALVQGNL  158 (421)
T ss_pred             hHHHhhHhcCCCHHHHHHHHH----cCCCChh--hHHHHHHHHHHHcCCHHHHHHHhhcCChhhcCchhhhHHHHHHHHH
Confidence            333333445677765544443    3322221  123333322  378999999999887642    22334444433 4


Q ss_pred             HHhCCHHHHHHHHHHHHHcCCCcCHH----HHHHHHHHHHhcCCHHHHHHHHHHHHhC-CCCCCH-HHHHHHHHHHhccC
Q 038401          376 ARAGRIEEATWVFRQAFDAGEVKDIS----VFGCMIELFSRNKKYANVIEVFEKMRSA-GYFPDS-HIIALVLNSYGKLR  449 (542)
Q Consensus       376 ~~~g~~~~A~~~~~~~~~~~~~~~~~----~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~p~~-~~~~~l~~~~~~~g  449 (542)
                      ....+...|+++|+.+.=.  .|-..    ....-+....+.|+.+++..+-.+-... ...|-. ..+..+..++.+.+
T Consensus       159 ~~~~dP~~Al~~lD~aRLl--aPGTLvEEAALRRsi~la~~~g~~~rf~~la~~Y~rRF~~S~YA~~F~~~F~~~~~~~~  236 (421)
T PRK12798        159 MVATDPATALKLLDQARLL--APGTLVEEAALRRSLFIAAQLGDADKFEALARNYLRRFRHSPYASQFAQRFVDLVVRLD  236 (421)
T ss_pred             hcccCHHHHHHHHHHHHHh--CCchHHHHHHHHHhhHHHHhcCcHHHHHHHHHHHHHHhccCchHHHHHHHHHHHHHhcc
Confidence            5567899999999988653  34322    3333444567889988877766655432 223322 22333333444443


Q ss_pred             cHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHHHHHhcC--C-CCCch--hHHHHHHHHHHhhcchhh
Q 038401          450 EFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLFERLDSD--S-NINKK--ELHHVVAGIYERANRLND  523 (542)
Q Consensus       450 ~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~~~~~--~-~~~~~--~~~~~l~~~~~~~g~~~~  523 (542)
                      +-..- .-+..++..-........|. ++..-.-.|+.+-|.-.-++...-  . +....  ..|...+.  ......++
T Consensus       237 d~~~~-~~l~~~ls~~d~~~q~~lYL~iAR~Ali~Gk~~lA~~As~~A~~L~~~~~~~~~ra~LY~aaa~--v~s~~~~~  313 (421)
T PRK12798        237 DEIRD-ARLVEILSFMDPERQRELYLRIARAALIDGKTELARFASERALKLADPDSADAARARLYRGAAL--VASDDAES  313 (421)
T ss_pred             ccccH-HHHHHHHHhcCchhHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHhccCCCcchHHHHHHHHHHc--cCcccHHH
Confidence            22222 22445544321222334555 777777899999998888874322  1 21111  22322222  23456888


Q ss_pred             HHHHHHHHHhcCCCCCC
Q 038401          524 ASRIMNRMNKRRTFNSS  540 (542)
Q Consensus       524 A~~~~~~~~~~~~~~~~  540 (542)
                      |.+.++.+....+.+.+
T Consensus       314 al~~L~~I~~~~L~~~D  330 (421)
T PRK12798        314 ALEELSQIDRDKLSERD  330 (421)
T ss_pred             HHHHHhcCChhhCChhh
Confidence            88888888777766644

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=80.02  E-value=35  Score=28.70  Aligned_cols=72  Identities=17%  Similarity=0.111  Sum_probs=45.0

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHhcC---CCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCC--CcCHHHHHHHHHH
Q 038401          338 QTMIVAYERVGLVAHAKRLLHELRQ---PNTIPRETAITILARAGRIEEATWVFRQAFDAGE--VKDISVFGCMIEL  409 (542)
Q Consensus       338 ~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~--~~~~~~~~~l~~~  409 (542)
                      +..+..+.+.+..++++...++-.+   .+......++..++-.|++++|..-++-+-+...  .+-...|..++.+
T Consensus         5 ~~t~seLL~~~sL~dai~~a~~qVkakPtda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir~   81 (273)
T COG4455           5 RDTISELLDDNSLQDAIGLARDQVKAKPTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIRC   81 (273)
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHhcCCccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHHH
Confidence            3445566677788888887766543   2344556678888888888888877776655321  1224455555543

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	542
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	4e-20
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	8e-17
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	4e-13
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	4e-04
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-13
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-12
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-07
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	4e-06
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	7e-06
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	3e-05
4g1t_A	472	Interferon-induced protein with tetratricopeptide	4e-05
3v6t_A	499	DHAX3; tandem repeats, DNA specific binding protei	8e-05
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	7e-04
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	9e-04

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 93.7 bits (231), Expect = 4e-20
 Identities = 31/300 (10%), Positives = 86/300 (28%), Gaps = 7/300 (2%)

Query: 141 KEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIM 200
           + A  L +  R+    P     + LL             +   + ++             
Sbjct: 74  QMAGCLEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAF 133

Query: 201 IDVYGQLDMAKDADRLFWSMRKM---GIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQR 257
                  D    A  L              ++  YN ++  +     F E +++  +++ 
Sbjct: 134 FKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKD 193

Query: 258 KEIEQNVVTYNTMIKIYGKS-LEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLD 316
             +  ++++Y   ++  G+   +       +++M   G++  A+  + +++   +A  L 
Sbjct: 194 AGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLK 253

Query: 317 RAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIP---RETAIT 373
               +            PV    ++             +L   L+    +        + 
Sbjct: 254 AVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPLKTLQCLFEKQLHMELA 313

Query: 374 ILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP 433
                  +E+ T   ++   A +            L    ++  N +E          +P
Sbjct: 314 SRVCVVSVEKPTLPSKEVKHARKTLKTLRDQWEKALCRALRETKNRLEREVYEGRFSLYP 373

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 83.3 bits (204), Expect = 8e-17
 Identities = 37/321 (11%), Positives = 92/321 (28%), Gaps = 42/321 (13%)

Query: 10  NEEARYSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGM 69
             +A  SP       +L+        ++      +  Q  ++  +        C      
Sbjct: 83  TRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQ 142

Query: 70  FDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNT 129
              A   L                                      +    +  L  YN 
Sbjct: 143 LPLAHHLLVVHH--------------------------------GQRQKRKLLTLDMYNA 170

Query: 130 MINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALS-VFAEMNEV 188
           ++  + +   FKE   ++  +++ G+ PD +SY+  L       +    +     +M++ 
Sbjct: 171 VMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQE 230

Query: 189 NCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLR---------VY 239
              L      +++    +  + K   ++  +       P  V+ + LLR          Y
Sbjct: 231 GLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSY 290

Query: 240 GEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNA 299
            +  L  + +      Q      + V   ++ K    S E + A   ++ ++++  +   
Sbjct: 291 PKLHLPLKTLQCLFEKQLHMELASRVCVVSVEKPTLPSKEVKHARKTLKTLRDQWEKALC 350

Query: 300 ITYSTIIAIWGKAGKLDRAAM 320
                      +     R ++
Sbjct: 351 RALRETKNRLEREVYEGRFSL 371

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 71.4 bits (173), Expect = 4e-13
 Identities = 32/326 (9%), Positives = 100/326 (30%), Gaps = 16/326 (4%)

Query: 10  NEEARYSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGM 69
             + R   ++  YN V+    R   ++    +   ++  G+ PD  +Y+  + C G++  
Sbjct: 156 QRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQ 215

Query: 70  FDSAIS-WLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYN 128
               I   L+QM Q+ +    +  + L+    + +       +         +P  V  +
Sbjct: 216 DAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTS 275

Query: 129 TMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEV 188
            ++        + +   +        +K     +   L++ + +   V ++      ++ 
Sbjct: 276 KLLRDV-----YAKDGRVSYPKLHLPLKTLQCLFEKQLHMELASRVCVVSVEKPTLPSKE 330

Query: 189 NCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEA 248
                 T   +       L  A    +   +  +  +     S    L +  E E+    
Sbjct: 331 VKHARKTLKTLRDQWEKALCRALRETK---NRLEREVYEGRFSLYPFLCLLDEREVVRML 387

Query: 249 IHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAI 308
           + + + +  +      +      + + + +   +         +  ++     Y   + +
Sbjct: 388 LQVLQALPAQGESFTTLARELSARTFSRHVVQRQ-------RVSGQVQALQNHYRKYLCL 440

Query: 309 WGKAGKLDRAAMLFQKLRSSGVEIDP 334
                ++    +  Q   + G     
Sbjct: 441 LASDAEVPEPCLPRQYWEALGAPEAL 466

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 42.5 bits (98), Expect = 4e-04
 Identities = 29/235 (12%), Positives = 63/235 (26%), Gaps = 8/235 (3%)

Query: 311 KAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRET 370
           K  +  R   L  KL+      +       +    R+     A  L    RQ    P E 
Sbjct: 34  KRTQQMRMQRLKAKLQMPFQSGEFKALTRRLQVEPRLLSKQMAGCLEDCTRQAPESPWEE 93

Query: 371 AITIL----ARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKY---ANVIEVF 423
            +  L         ++       Q   A             +      +     +++ V 
Sbjct: 94  QLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVH 153

Query: 424 EKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQMLSLYG-A 482
              R         +   V+  + +   F+    +   +++ G       +   L   G  
Sbjct: 154 HGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQ 213

Query: 483 RKDFNMLESLFERLDSDSNINKKELHHVVAGIYERANRLNDASRIMNRMNKRRTF 537
            +D   +E   E++  +    +     V+    +RA  L    ++    +     
Sbjct: 214 DQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQL 268

>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 = 72.6 bits (177), Expect = 2e-13
 Identities = 90/568 (15%), Positives = 168/568 (29%), Gaps = 167/568 (29%)

Query: 16  SPSVFA-YNV-------VLRNVL---RAKQWELAHGLFDEMRQRGIAPDRYTYSTLI--T 62
              VFA YNV        LR  L   R  +  L  G    +   G        + +    
Sbjct: 122 DNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDG----VLGSG-------KTWVALDV 170

Query: 63  C--FGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARK----LSDYSKAISI----- 111
           C  +  +   D  I WL     +     L +   L+          SD+S  I +     
Sbjct: 171 CLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSI 230

Query: 112 ---FSRL------KSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSY 162
                RL      ++  +V   V      N F         ++L+   R + V  D +S 
Sbjct: 231 QAELRRLLKSKPYENCLLVLLNVQNAKAWNAFN----LS-CKILLTT-RFKQVT-DFLSA 283

Query: 163 STLLNLYVENHKFV----EALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFW 218
           +T  ++ +++H       E  S+  +   ++C                 D+ ++      
Sbjct: 284 ATTTHISLDHHSMTLTPDEVKSLLLKY--LDCRPQ--------------DLPREV----- 322

Query: 219 SMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSL 278
               +  +P  +S            +  E+I    L      +   V  + +  I   SL
Sbjct: 323 ----LTTNPRRLS------------IIAESIRDG-LATWDNWKH--VNCDKLTTIIESSL 363

Query: 279 EHEKATNLMQEMQNRGI-EPNA-ITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVL 336
              +     +      +  P+A I    +  IW    K D   ++ +  + S VE  P  
Sbjct: 364 NVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKE 423

Query: 337 YQTMI------VAYERVGLVAHAKRLLHELRQPNTIPRETAITI-------------LAR 377
               I      +  +     A  + ++     P T   +  I               L  
Sbjct: 424 STISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKN 483

Query: 378 AGRIEEATWVFRQAF-DAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSH 436
               E  T +FR  F D         F      F              K+R      ++ 
Sbjct: 484 IEHPERMT-LFRMVFLD---------FR-----FLEQ-----------KIRHDSTAWNA- 516

Query: 437 IIALVLNSYGKLREFET----ADDLYSEMQEEGCVFSDQVHFQMLSLYGARKDFNMLESL 492
               +LN+  +L+ ++      D  Y  +       +  + F  L         N++ S 
Sbjct: 517 -SGSILNTLQQLKFYKPYICDNDPKYERL------VNAILDF--LPKIEE----NLICSK 563

Query: 493 FERLDSDSNINKKELHHVVAGIYERANR 520
           +      +++ +  L      I+E A++
Sbjct: 564 Y------TDLLRIALMAEDEAIFEEAHK 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 = 69.9 bits (170), Expect = 1e-12
 Identities = 59/426 (13%), Positives = 127/426 (29%), Gaps = 129/426 (30%)

Query: 149 EMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLT----TCNIMIDVY 204
           E  E         Y  +L+++ +   FV+         +V    D+     +   +  + 
Sbjct: 10  ETGEH-----QYQYKDILSVFED--AFVDNFDC----KDV---QDMPKSILSKEEIDHII 55

Query: 205 GQLDMAKDADRLFWSMRKMG---------------------------IDPSV--VSYNTL 235
              D      RLFW++                                 PS+    Y   
Sbjct: 56  MSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQ 115

Query: 236 L-RVYGEAELFGEAIHLFRLMQRKEI---------EQNVVTYNTMIKIYGKS-LEHEKAT 284
             R+Y + ++F +  ++ RL    ++          +NV+    ++   GK+ +  +   
Sbjct: 116 RDRLYNDNQVFAK-YNVSRLQPYLKLRQALLELRPAKNVLIDG-VLGS-GKTWVALDVCL 172

Query: 285 NL-MQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVA 343
           +  +Q   +  I             W      +    + + L+    +IDP  + +    
Sbjct: 173 SYKVQCKMDFKI------------FWLNLKNCNSPETVLEMLQKLLYQIDPN-WTSRSDH 219

Query: 344 YERVGLVAHA-----KRLLHELRQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVK 398
              + L  H+     +RLL      N       + +L     ++ A   +  AF+     
Sbjct: 220 SSNIKLRIHSIQAELRRLLKSKPYEN------CLLVLL---NVQNA-KAWN-AFN----- 263

Query: 399 DISVFGCMIELFSRNKKYANVI------EVFEKMRSAGYFPDS--HIIALVLNSYGKLRE 450
                 C I L +R K+  + +       +     S    PD    ++   L+       
Sbjct: 264 ----LSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLD------- 312

Query: 451 FETADDLYSEMQEEGCVFSDQVHFQMLSLYGARKDFNMLESLFERLDSDSNINKKELHHV 510
                DL  E+           + + LS+         +       D+  ++N  +L  +
Sbjct: 313 -CRPQDLPREVL--------TTNPRRLSIIAE-----SIRDGLATWDNWKHVNCDKLTTI 358

Query: 511 VAGIYE 516
           +     
Sbjct: 359 IESSLN 364

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 51.8 bits (123), Expect = 6e-07
 Identities = 45/292 (15%), Positives = 91/292 (31%), Gaps = 61/292 (20%)

Query: 259 EIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRA 318
           E  ++   Y  ++ ++  +         +Q+M       + ++   I  I      +   
Sbjct: 10  ETGEHQYQYKDILSVFEDAFVDNFDCKDVQDM-----PKSILSKEEIDHIIMSKDAVSGT 64

Query: 319 AMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARA 378
             LF  L S   E+     Q  +    R+        +  E RQP ++     I    R 
Sbjct: 65  LRLFWTLLSKQEEM----VQKFVEEVLRINYKFLMSPIKTEQRQP-SMMTRMYIEQRDR- 118

Query: 379 GRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHII 438
                  +   Q F    V             SR + Y  + +   ++R A         
Sbjct: 119 ------LYNDNQVFAKYNV-------------SRLQPYLKLRQALLELRPAKN------- 152

Query: 439 ALVLNS---YGK--LREFETADDLYSEMQEEGCVFSDQVHFQMLSLYGARKD---FNMLE 490
            ++++     GK  +      D   S   +  C    ++ +  L+L           ML+
Sbjct: 153 -VLIDGVLGSGKTWV----ALDVCLSYKVQ--CKMDFKIFW--LNLKNCNSPETVLEMLQ 203

Query: 491 SLFERLDSDSNINKKELHHVVAGIYERANRLNDASRIMNRMNKRRTFNSSLV 542
            L  ++D     N        + I  R + +    R   R+ K + + + L+
Sbjct: 204 KLLYQIDP----NWTSRSDHSSNIKLRIHSIQAELR---RLLKSKPYENCLL 248

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens} Length = 311

 Score = 47.9 bits (115), Expect = 4e-06
 Identities = 54/304 (17%), Positives = 101/304 (33%), Gaps = 64/304 (21%)

Query: 56  TYSTLITCFGKEGMFDSAISWLQQMEQDR--VSGD-----LVLYSNLIELARKLSDYSKA 108
           T   L+  +  +G ++ A+   +Q  +D    SG        + + L  + R  + Y  A
Sbjct: 29  TLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDA 88

Query: 109 ISIFSR-LKSSGIV-----PD-LVAYNTMINVFGKAKLFKEARLLIE---EMREQ--GVK 156
            ++ +  L           P      N +  ++GK   +KEA  L +   E+RE+  G  
Sbjct: 89  ANLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKD 148

Query: 157 -PDT-VSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDAD 214
            PD     + L  L     K+ E    +                I     G      D  
Sbjct: 149 HPDVAKQLNNLALLCQNQGKYEEVEYYYQR-----------ALEIYQTKLG-----PD-- 190

Query: 215 RLFWSMRKMGIDPSV-VSYNTLLRVYGEAELFGEAIHLFR--LMQRKEIE------QNVV 265
                      DP+V  + N L   Y +   F +A  L++  L +  E E      +N  
Sbjct: 191 -----------DPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKP 239

Query: 266 TYNTMIKIYGKSLEHEKATNLM-QEMQNRGIEPN----AITYSTIIAIWGKAGKLDRAAM 320
            +    +      + +  T+        +  + +      T   + A++ + GK + A  
Sbjct: 240 IWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGALYRRQGKFEAAET 299

Query: 321 LFQK 324
           L + 
Sbjct: 300 LEEA 303

>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 Length = 283

 Score = 46.8 bits (112), Expect = 7e-06
 Identities = 51/292 (17%), Positives = 91/292 (31%), Gaps = 64/292 (21%)

Query: 68  GMFDSAISWLQQMEQDR--VSGD-----LVLYSNLIELARKLSDYSKAISIFSR-LKSSG 119
               SA+   +Q  +D    SG        + + L  + R  + Y +A  + +  L    
Sbjct: 15  VPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIRE 74

Query: 120 IV-----PD-LVAYNTMINVFGKAKLFKEARLLIE---EMREQ--GVK-PDT-VSYSTLL 166
                  P      N +  ++GK   +KEA  L +   E+RE+  G   PD     + L 
Sbjct: 75  KTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLA 134

Query: 167 NLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGID 226
            L     K  E    +                I     G        D           D
Sbjct: 135 LLCQNQGKAEEVEYYYRR-----------ALEIYATRLG-------PD-----------D 165

Query: 227 PSV-VSYNTLLRVYGEAELFGEAIHLFR--LMQRKEIE------QNVVTYNTMIKIYGKS 277
           P+V  + N L   Y +   + +A  L++  L +  E E       N   +    +     
Sbjct: 166 PNVAKTKNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESK 225

Query: 278 LEHEKATNLM-QEMQNRGIEPN----AITYSTIIAIWGKAGKLDRAAMLFQK 324
            +   +          +  + +      T  ++ A++ + GKL+ A  L   
Sbjct: 226 DKRRDSAPYGEYGSWYKACKVDSPTVNTTLRSLGALYRRQGKLEAAHTLEDC 277

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster} Length = 411

 Score = 45.4 bits (108), Expect = 3e-05
 Identities = 45/297 (15%), Positives = 88/297 (29%), Gaps = 44/297 (14%)

Query: 55  YTYSTLITCFGKEGMFDSAISWLQQ---MEQDRVSGDLVLYSNLIELARKLSDYSKAISI 111
              +         G   + +++ Q       + +     +YS L      L DY+KA+  
Sbjct: 49  LELALEGERLCNAGDCRAGVAFFQAAIQAGTEDLRTLSAIYSQLGNAYFYLGDYNKAMQY 108

Query: 112 FSR----LKSSGIVPDL-VAYNTMINVFGKAKLFKEARLLIEE----MREQGVKPDT-VS 161
                   KS         +   + N       F EA +  E      R+ G +     +
Sbjct: 109 HKHDLTLAKSMNDRLGEAKSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRA 168

Query: 162 YSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQ-LDMAKDADRLFWSM 220
              L N+Y    K +   +     ++V   L        ++ Y + L +          M
Sbjct: 169 LYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRA-----VEFYQENLKL----------M 213

Query: 221 RKMGIDPSV-VSYNTLLRVYGEAELFGEAIHLFR--LMQRKEIEQN---VVTYNTMIKIY 274
           R +G   +   +   L   Y     F  AI   +  L   +E           + +   +
Sbjct: 214 RDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSH 273

Query: 275 GKSLEHEKATN-------LMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQK 324
               + E A         L  E+  R +E  A +  ++   +    + + A     +
Sbjct: 274 IFLGQFEDAAEHYKRTLALAVELGEREVE--AQSCYSLGNTYTLLHEFNTAIEYHNR 328

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens} Length = 472

 Score = 45.3 bits (107), Expect = 4e-05
 Identities = 34/272 (12%), Positives = 90/272 (33%), Gaps = 40/272 (14%)

Query: 59  TLITCFGKEGMFDSAISWLQQ-MEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSR-LK 116
            L     +          +++ +E+    G   +  +  +  R+  +  KAI +  + L+
Sbjct: 218 KLHKMREEGEEEGEGEKLVEEALEKA--PGVTDVLRSAAKFYRRKDEPDKAIELLKKALE 275

Query: 117 SSGIVPDL-VAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKF 175
               +P+    +  +   +                R +  +   +  + +          
Sbjct: 276 ---YIPNNAYLHCQIGCCY----------------RAKVFQVMNLRENGMYGKRKLLELI 316

Query: 176 VEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTL 235
             A++   + +E N       C+I+  ++   D  ++A+  F       + P        
Sbjct: 317 GHAVAHLKKADEAN-DNLFRVCSILASLHALADQYEEAEYYFQKEFSKELTPV------- 368

Query: 236 LRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGI 295
                  +L       F+L Q K  ++ +  +   +KI  KS E EK  + +Q++    +
Sbjct: 369 -----AKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKINQKSREKEKMKDKLQKIAKMRL 423

Query: 296 E---PNAITYSTIIAIWGKAGKLDRAAMLFQK 324
                ++     +  +     K+ +A    ++
Sbjct: 424 SKNGADSEALHVLAFLQELNEKMQQADEDSER 455

>3v6t_A DHAX3; tandem repeats, DNA specific binding protein, DNA binding DNA complex; HET: DNA; 1.85A {Xanthomonas} PDB: 3v6p_A 2kq5_A Length = 499

 Score = 44.4 bits (105), Expect = 8e-05
 Identities = 34/323 (10%), Positives = 92/323 (28%), Gaps = 42/323 (13%)

Query: 88  DLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLV-AYNTMINVFGKAKLFKEARLL 146
            +V  ++     + L    + + +    ++ G+ P  V A  +        +  +     
Sbjct: 71  QVVAIASHDGGKQALETVQRLLPVLC--QAHGLTPQQVVAIASHDGGKQALETVQRL--- 125

Query: 147 IEEMREQ-GVKPD-TVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVY 204
           +  + +  G+ P+  V+ ++              L V  + + +  P  +          
Sbjct: 126 LPVLCQAHGLTPEQVVAIASHDGGKQALETVQALLPVLCQAHGLT-PEQVVAIASNGGGK 184

Query: 205 GQLDMAKDADRLFWSMRKMGIDP-SVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIE-- 261
             L+  +    +    +  G+ P  VV+  +        E     + +      +     
Sbjct: 185 QALETVQRLLPVL--CQAHGLTPQQVVAIASNGGGKQALETVQRLLPVL----CQAHGLT 238

Query: 262 -QNVVTYNTMIKIYGKSLEHEKATNLMQEMQNR--GIEPN-AITYSTIIAIWGKAGKLDR 317
            Q VV   +           ++       +  +  G+ P   +  ++          + R
Sbjct: 239 PQQVVAIASNGGGKQALETVQRLL----PVLCQAHGLTPQQVVAIASNSGGKQALETVQR 294

Query: 318 AAMLFQKLRSSGVEIDP---VLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITI 374
              +  +       + P   V   +     + +  V      L  L Q + +  +  + I
Sbjct: 295 LLPVLCQ----AHGLTPQQVVAIASNGGGKQALETVQRL---LPVLCQAHGLTPQQVVAI 347

Query: 375 LARA------GRIEEATWVFRQA 391
            +          ++    V  QA
Sbjct: 348 ASHDGGKQALETVQRLLPVLCQA 370

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1 Length = 388

 Score = 41.0 bits (97), Expect = 7e-04
 Identities = 54/321 (16%), Positives = 109/321 (33%), Gaps = 46/321 (14%)

Query: 31  RAKQWELAHGLFDEMRQRGIAPDRY-TYSTLITCFGKEGMFDSAISWLQQ-MEQDRVSGD 88
           +A  +E A     ++ +    PD       L +   +    D +  +    ++Q+     
Sbjct: 11  QAGDFEAAERHCMQLWR--QEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN--PLL 66

Query: 89  LVLYSNLIELARKLSDYSKAISIFSR-LKSSGIVPDLV-AYNTMINVFGKAKLFKEA--- 143
              YSNL  + ++     +AI  +   L+   + PD +  Y  +      A   + A   
Sbjct: 67  AEAYSNLGNVYKERGQLQEAIEHYRHALR---LKPDFIDGYINLAAALVAAGDMEGAVQA 123

Query: 144 -RLLIEEMREQGVKPDTV-SYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMI 201
               ++        PD     S L NL     +  EA + + +  E   P      + + 
Sbjct: 124 YVSALQ------YNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLG 176

Query: 202 DVYGQLDMAKDADRLFWSMRK-MGIDPS-VVSYNTLLRVYGEAELFGEAIHLFRLMQRKE 259
            V+        A   F    K + +DP+ + +Y  L  V  EA +F  A+  +     + 
Sbjct: 177 CVFNAQGEIWLAIHHF---EKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAY----LRA 229

Query: 260 IE---QNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIE--PN-AITYSTIIAIWGKAG 313
           +     + V +  +  +Y +    + A     +   R IE  P+    Y  +     + G
Sbjct: 230 LSLSPNHAVVHGNLACVYYEQGLIDLAI----DTYRRAIELQPHFPDAYCNLANALKEKG 285

Query: 314 KLDRAAMLFQKLRSSGVEIDP 334
            +  A   +       + + P
Sbjct: 286 SVAEAEDCYNT----ALRLCP 302

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe} Length = 597

 Score = 41.0 bits (96), Expect = 9e-04
 Identities = 39/306 (12%), Positives = 93/306 (30%), Gaps = 35/306 (11%)

Query: 50  IAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAI 109
           I  +      L   +   G +  A   L + +    S              KL D+  A+
Sbjct: 113 ITGNPNDAFWLAQVYCCTGDYARAKCLLTKEDLYNRS--SACRYLAAFCLVKLYDWQGAL 170

Query: 110 SIF---------------SRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQG 154
           ++                  ++  GI  +         V+     F  A+   +E     
Sbjct: 171 NLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALM-- 228

Query: 155 VKPDTV-SYSTLLNLYV----ENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDM 209
           V      ++  L++ ++    E    V  L+ ++  ++ +     +   + ++     D 
Sbjct: 229 VDAKCYEAFDQLVSNHLLTADEEWDLVLKLN-YSTYSKEDAAFLRSLYMLKLNKTSHEDE 287

Query: 210 AKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNT 269
            + A+    S+  +     +               F + + +   +   +   N+  Y  
Sbjct: 288 LRRAEDYLSSINGLEKSSDL--LLCKADTLFVRSRFIDVLAITTKILEID-PYNLDVYPL 344

Query: 270 MIKIYGKSLEHEKATNLMQEMQNRGIEPN-AITYSTIIAIWGKAGKLDRAAMLFQKLRSS 328
            +    +S E  K   +  ++ +    P  A+T+  +   +    K+  A   F K    
Sbjct: 345 HLASLHESGEKNKLYLISNDLVD--RHPEKAVTWLAVGIYYLCVNKISEARRYFSKS--- 399

Query: 329 GVEIDP 334
              +DP
Sbjct: 400 -STMDP 404

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	542
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	100.0
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.98
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.97
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.97
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.96
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.96
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.94
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.94
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.94
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.94
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.91
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.9
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.9
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.89
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.88
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.87
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.87
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.86
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.86
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.86
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.86
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.84
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.83
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.83
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.83
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.82
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.81
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.81
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.81
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.81
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.8
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.8
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.73
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.73
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.72
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.72
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.71
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.7
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.7
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.69
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.69
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.68
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.67
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.67
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.66
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.66
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.65
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.63
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.63
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.63
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.62
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.62
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.61
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.61
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.6
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.6
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.6
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.59
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.59
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.59
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.57
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.57
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.55
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.55
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.53
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.53
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.53
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.53
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.52
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.52
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.51
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.48
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.46
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.43
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.43
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.42
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.38
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.37
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.37
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.35
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.32
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.32
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.32
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.32
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.31
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.29
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.28
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.28
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.27
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.23
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	99.23
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.22
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.2
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.19
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	99.19
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.19
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.19
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.18
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.16
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.15
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.14
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.1
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.1
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.1
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.09
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.08
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.07
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.07
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.05
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	99.02
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.01
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.01
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.0
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.0
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.99
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.97
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.96
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.96
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.96
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.95
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.92
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.9
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.89
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.88
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.88
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.87
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.86
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.86
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.85
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.85
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.84
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.83
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.82
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.82
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.81
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.8
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.78
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.78
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.76
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.74
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.73
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.73
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.73
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.72
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.7
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.7
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.7
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.69
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.64
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.64
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.64
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.64
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.63
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.63
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.63
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.63
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.63
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.62
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.6
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.6
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.58
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.58
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.57
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.57
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.56
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.56
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.55
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.49
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.48
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.47
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.47
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.46
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.46
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.46
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.45
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.45
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.45
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.44
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.43
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.43
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.42
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.42
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.37
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.36
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.35
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.35
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.34
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.34
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.32
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.28
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.27
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.27
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.24
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.13
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.1
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.09
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.09
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.08
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.06
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.05
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.03
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.98
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.96
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.92
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.85
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.78
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.47
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.44
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.43
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.41
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.37
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.31
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.31
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.27
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.27
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.23
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.19
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.18
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	97.06
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	96.94
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.91
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.88
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.86
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.65
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.62
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	96.52
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	96.44
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.44
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	96.42
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.37
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	96.22
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	96.15
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	95.66
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	95.53
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	95.34
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	95.29
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	95.18
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	95.1
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	95.0
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	94.56
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	94.37
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	94.22
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	93.89
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	93.6
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	93.25
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	91.84
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	91.72
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	91.48
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	91.28
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	90.88
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	89.77
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	89.19
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	89.14
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	88.15
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	87.32
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	87.01
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	86.71
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	85.45
4a1g_A	152	Mitotic checkpoint serine/threonine-protein kinas;	84.52
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	83.92
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	82.99
2p58_C	116	Putative type III secretion protein YSCG; type III	81.25

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=3.9e-42  Score=344.17  Aligned_cols=489  Identities=10%  Similarity=-0.031  Sum_probs=298.5

Q ss_pred             HHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHH
Q 038401           30 LRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAI  109 (542)
Q Consensus        30 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  109 (542)
                      .+.|....+...+..+.    .++...|+.++..+.+.|++++|+.+|+++...  .|+..++..++.+|...|++++|.
T Consensus        64 ~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~  137 (597)
T 2xpi_A           64 STDGSFLKERNAQNTDS----LSREDYLRLWRHDALMQQQYKCAAFVGEKVLDI--TGNPNDAFWLAQVYCCTGDYARAK  137 (597)
T ss_dssp             ----------------------CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             cccCccCCCCCccccch----HHHHHHHHHHHHHHHHccCchHHHHHHHHHHhh--CCCchHHHHHHHHHHHcCcHHHHH
Confidence            34445555555544332    235666777777777777777777777776643  345566666777777777777777


Q ss_pred             HHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHc---------------CCCCCHHHHHHHHHHHHHCCC
Q 038401          110 SIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQ---------------GVKPDTVSYSTLLNLYVENHK  174 (542)
Q Consensus       110 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---------------g~~~~~~~~~~l~~~~~~~g~  174 (542)
                      .+|+.+...  +++..+++.++.+|.+.|++++|.++|+++...               |.+++..+|+.++.+|.+.|+
T Consensus       138 ~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  215 (597)
T 2xpi_A          138 CLLTKEDLY--NRSSACRYLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSN  215 (597)
T ss_dssp             HHHHHTCGG--GTCHHHHHHHHHHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHhcc--ccchhHHHHHHHHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCC
Confidence            777766432  456667777777777777777777777642211               223456777777777777777


Q ss_pred             hHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHH--HH-HHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHH
Q 038401          175 FVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDAD--RL-FWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHL  251 (542)
Q Consensus       175 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~--~~-~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~  251 (542)
                      +++|.+.|+++.+.+ +.+...+..+...+...+..+.+.  .+ +..+...+..+...+|+.++..|.+.|++++|.++
T Consensus       216 ~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~  294 (597)
T 2xpi_A          216 FDRAKECYKEALMVD-AKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDY  294 (597)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-chhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHH
Confidence            777777777776654 224445555554444333222211  11 34444443334444555566666677777777777


Q ss_pred             HHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 038401          252 FRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVE  331 (542)
Q Consensus       252 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  331 (542)
                      |+.+.+.  +++..+|+.++..|.+.|++++|..+|+++.+.+ +.+..++..++.++.+.|++++|..+++.+.+.. +
T Consensus       295 ~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~  370 (597)
T 2xpi_A          295 LSSINGL--EKSSDLLLCKADTLFVRSRFIDVLAITTKILEID-PYNLDVYPLHLASLHESGEKNKLYLISNDLVDRH-P  370 (597)
T ss_dssp             HHTSTTG--GGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-T
T ss_pred             HHHhhcC--CchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-c
Confidence            7766654  4566677777777777777777777777776554 2355566677777777777777777777776543 4


Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHhcC---CCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHH
Q 038401          332 IDPVLYQTMIVAYERVGLVAHAKRLLHELRQ---PNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIE  408 (542)
Q Consensus       332 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~  408 (542)
                      .+..++..++..|.+.|++++|.++|+++..   .+...+..++.++.+.|++++|+++|+++.+.+ +.+..+|+.++.
T Consensus       371 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~  449 (597)
T 2xpi_A          371 EKAVTWLAVGIYYLCVNKISEARRYFSKSSTMDPQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGM  449 (597)
T ss_dssp             TSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHH
Confidence            4566667777777777777777777776543   233345666667777777777777777776653 345666777777


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcC---CCCch--HHHHH-HHHHHhc
Q 038401          409 LFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEG---CVFSD--QVHFQ-MLSLYGA  482 (542)
Q Consensus       409 ~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---~~~~~--~~~~~-l~~~~~~  482 (542)
                      +|.+.|++++|+++|+++.+.. +.+..+|..++..|.+.|++++|.++|+++.+..   +..|+  ...+. ++.+|.+
T Consensus       450 ~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~  528 (597)
T 2xpi_A          450 QHMQLGNILLANEYLQSSYALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRK  528 (597)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHH
Confidence            7777777777777777776632 2256667777777777777777777777776651   11233  33333 6777777


Q ss_pred             cCChHHHHHHHHHH-hcCCCCCchhHHHHHHHHHHhhcchhhHHHHHHHHHhcC
Q 038401          483 RKDFNMLESLFERL-DSDSNINKKELHHVVAGIYERANRLNDASRIMNRMNKRR  535 (542)
Q Consensus       483 ~g~~~~A~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  535 (542)
                      .|++++|.+.++++ ...|.  ....|..++.+|...|++++|.++++++.+..
T Consensus       529 ~g~~~~A~~~~~~~~~~~p~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~  580 (597)
T 2xpi_A          529 LKMYDAAIDALNQGLLLSTN--DANVHTAIALVYLHKKIPGLAITHLHESLAIS  580 (597)
T ss_dssp             TTCHHHHHHHHHHHHHHSSC--CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             hcCHHHHHHHHHHHHHhCCC--ChHHHHHHHHHHHHhCCHHHHHHHHHHHHhcC
Confidence            77777777777774 33333  44667777777777777777777777776654

>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=339.26  Aligned_cols=485  Identities=12%  Similarity=0.036  Sum_probs=414.2

Q ss_pred             CcHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHH
Q 038401           17 PSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLI   96 (542)
Q Consensus        17 ~~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~   96 (542)
                      +++..|+.++..+.+.|++++|..+|+.+...  .|+..++..++.+|.+.|++++|+.+|+.+...  +++..+++.++
T Consensus        82 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~  157 (597)
T 2xpi_A           82 SREDYLRLWRHDALMQQQYKCAAFVGEKVLDI--TGNPNDAFWLAQVYCCTGDYARAKCLLTKEDLY--NRSSACRYLAA  157 (597)
T ss_dssp             CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HCCHHHHHHHHHHHHHTTCHHHHHHHHHHTCGG--GTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHccCchHHHHHHHHHHhh--CCCchHHHHHHHHHHHcCcHHHHHHHHHHHhcc--ccchhHHHHHH
Confidence            67889999999999999999999999999864  568889999999999999999999999998653  67889999999


Q ss_pred             HHHHhcCCHHHHHHHHHHhHhC---------------CCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHH
Q 038401           97 ELARKLSDYSKAISIFSRLKSS---------------GIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVS  161 (542)
Q Consensus        97 ~~~~~~~~~~~a~~~~~~~~~~---------------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~  161 (542)
                      .+|.+.|++++|.++|+++...               +.+++..+|+.++.+|.+.|++++|.++|+++.+.+ +.+...
T Consensus       158 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~  236 (597)
T 2xpi_A          158 FCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVD-AKCYEA  236 (597)
T ss_dssp             HHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHH
T ss_pred             HHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-chhhHH
Confidence            9999999999999999954322               234468899999999999999999999999999874 225566


Q ss_pred             HHHHHHHHHHCCChHHHHH--H-HHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHH
Q 038401          162 YSTLLNLYVENHKFVEALS--V-FAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRV  238 (542)
Q Consensus       162 ~~~l~~~~~~~g~~~~a~~--~-~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~  238 (542)
                      +..+...+...+..+.+..  + +..+...+..+...+|+.++..|.+.|++++|.++|+.+.+.  +++..++..++.+
T Consensus       237 ~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~  314 (597)
T 2xpi_A          237 FDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGL--EKSSDLLLCKADT  314 (597)
T ss_dssp             HHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTG--GGCHHHHHHHHHH
T ss_pred             HHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHHHhhcC--CchHHHHHHHHHH
Confidence            6666665544433332221  1 455555554555667777889999999999999999998866  5889999999999


Q ss_pred             HHhcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHH
Q 038401          239 YGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRA  318 (542)
Q Consensus       239 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a  318 (542)
                      |.+.|++++|.++|+++.+.+ +.+..++..++.++.+.|++++|..+++++.+.. +.+..++..++..|.+.|++++|
T Consensus       315 ~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A  392 (597)
T 2xpi_A          315 LFVRSRFIDVLAITTKILEID-PYNLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKISEA  392 (597)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhccHHHH
Confidence            999999999999999999876 3477889999999999999999999999998663 55788999999999999999999


Q ss_pred             HHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcC---CCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcC
Q 038401          319 AMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQ---PNTIPRETAITILARAGRIEEATWVFRQAFDAG  395 (542)
Q Consensus       319 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  395 (542)
                      .++|+++.+.. +.+..+|..++.+|.+.|++++|.++|+++..   .+...+..++.+|.+.|++++|.++|+++.+..
T Consensus       393 ~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  471 (597)
T 2xpi_A          393 RRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLFQGTHLPYLFLGMQHMQLGNILLANEYLQSSYALF  471 (597)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            99999998864 45788999999999999999999999998764   355567788999999999999999999999874


Q ss_pred             CCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCCC--HHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCc
Q 038401          396 EVKDISVFGCMIELFSRNKKYANVIEVFEKMRSA----GYFPD--SHIIALVLNSYGKLREFETADDLYSEMQEEGCVFS  469 (542)
Q Consensus       396 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~  469 (542)
                       +.++.+|+.++.+|.+.|++++|+++|+++.+.    +..|+  ..+|..++.+|.+.|++++|.+.++++.+.+  |+
T Consensus       472 -~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--p~  548 (597)
T 2xpi_A          472 -QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLS--TN  548 (597)
T ss_dssp             -CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--SC
T ss_pred             -CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--CC
Confidence             467899999999999999999999999999875    56787  7899999999999999999999999999987  33


Q ss_pred             hHHHHH-HHHHHhccCChHHHHHHHHHH-hcCCCCCchhHHHHHHHHHH
Q 038401          470 DQVHFQ-MLSLYGARKDFNMLESLFERL-DSDSNINKKELHHVVAGIYE  516 (542)
Q Consensus       470 ~~~~~~-l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~~~~l~~~~~  516 (542)
                      +...+. ++.+|.+.|++++|.+.++++ ..+|+  +...+..++.+|.
T Consensus       549 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~p~--~~~~~~~l~~~~~  595 (597)
T 2xpi_A          549 DANVHTAIALVYLHKKIPGLAITHLHESLAISPN--EIMASDLLKRALE  595 (597)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT--CHHHHHHHHHTTC
T ss_pred             ChHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCC--ChHHHHHHHHHHh
Confidence            455555 999999999999999999995 55555  5678888887764

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=100.00  E-value=3e-28  Score=229.63  Aligned_cols=380  Identities=11%  Similarity=0.040  Sum_probs=229.6

Q ss_pred             HHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCh
Q 038401           96 IELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKF  175 (542)
Q Consensus        96 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~  175 (542)
                      ...+.+.|++++|.+.++.+.+.. +.+...+..+...+...|++++|...++...+.. +.+..+|..+...|.+.|++
T Consensus         6 a~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g~~   83 (388)
T 1w3b_A            6 AHREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQL   83 (388)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCH
Confidence            344555666666666666655442 2234444555555555666666666665555442 33455566666666666666


Q ss_pred             HHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHH
Q 038401          176 VEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLM  255 (542)
Q Consensus       176 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~  255 (542)
                      ++|++.|+++.+.. |.+..+|..+..++...|++++|...|+.+.+.. +.+...+..+...+...|++++|.+.|+++
T Consensus        84 ~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a  161 (388)
T 1w3b_A           84 QEAIEHYRHALRLK-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYLKA  161 (388)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcC-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            66666666655543 2234455555555555566666666555555542 223334444555555555555555555555


Q ss_pred             HhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHH
Q 038401          256 QRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPV  335 (542)
Q Consensus       256 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  335 (542)
                      .... +.+..+|..+...+...|++++|...|+++.+.+ +.+...+..+...+...|++++|...+++..+.. +.+..
T Consensus       162 l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~  238 (388)
T 1w3b_A          162 IETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAV  238 (388)
T ss_dssp             HHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHH
T ss_pred             HHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCCHH
Confidence            5442 2234455555555555555555555555555442 2233444555555555555555555555554432 12333


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCC
Q 038401          336 LYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKK  415 (542)
Q Consensus       336 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  415 (542)
                      ++..                               +..++...|++++|.+.|+++++.. +.++.+|..++.++...|+
T Consensus       239 ~~~~-------------------------------l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~  286 (388)
T 1w3b_A          239 VHGN-------------------------------LACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGS  286 (388)
T ss_dssp             HHHH-------------------------------HHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSC
T ss_pred             HHHH-------------------------------HHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCC
Confidence            3333                               4445555666666666666666653 3457788888888889999


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHHH
Q 038401          416 YANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLFE  494 (542)
Q Consensus       416 ~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~  494 (542)
                      +++|++.|+++++.. +++..++..++..+.+.|++++|...++++.+..  |.+...+. ++.++.+.|++++|.+.++
T Consensus       287 ~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~  363 (388)
T 1w3b_A          287 VAEAEDCYNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEVF--PEFAAAHSNLASVLQQQGKLQEALMHYK  363 (388)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSC--TTCHHHHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCcHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            999999999888742 3467888888888889999999999999988765  23333333 8888999999999999998


Q ss_pred             HH-hcCCCCCchhHHHHHHHHHHhhc
Q 038401          495 RL-DSDSNINKKELHHVVAGIYERAN  519 (542)
Q Consensus       495 ~~-~~~~~~~~~~~~~~l~~~~~~~g  519 (542)
                      ++ ...|+  ...+|..++.++...|
T Consensus       364 ~a~~~~p~--~~~a~~~lg~~~~~~~  387 (388)
T 1w3b_A          364 EAIRISPT--FADAYSNMGNTLKEMQ  387 (388)
T ss_dssp             HHHTTCTT--CHHHHHHHHHHHHHTC
T ss_pred             HHHhhCCC--CHHHHHhHHHHHHHcc
Confidence            85 33443  5577888888877665

>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=99.98  E-value=7.8e-28  Score=226.78  Aligned_cols=378  Identities=12%  Similarity=0.080  Sum_probs=227.9

Q ss_pred             HHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHH
Q 038401           63 CFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKE  142 (542)
Q Consensus        63 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  142 (542)
                      .+.+.|++++|++.++.+.+.. +.+...+..+...+...|++++|...++...+.. +.+..+|..+..++.+.|++++
T Consensus         8 ~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g~~~~   85 (388)
T 1w3b_A            8 REYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQLQE   85 (388)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHH
Confidence            3444555555555555555442 1233444445555555566666665555555432 3445556666666666666666


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHH
Q 038401          143 ARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRK  222 (542)
Q Consensus       143 a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  222 (542)
                      |...|+++.... +.+..+|..+..++.+.|++++|.+.|+++.+.+ |.+...+..+...+...|++++|...|+++..
T Consensus        86 A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  163 (388)
T 1w3b_A           86 AIEHYRHALRLK-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYLKAIE  163 (388)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcC-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            666666665542 2234456666666666666666666666666543 23344555666666666777777777777665


Q ss_pred             CCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHH
Q 038401          223 MGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITY  302 (542)
Q Consensus       223 ~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~  302 (542)
                      .. +.+..++..+...+...|++++|...|+++.+.+ +.+...+..+...+...|++++|...+++..... +.+..++
T Consensus       164 ~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~  240 (388)
T 1w3b_A          164 TQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVH  240 (388)
T ss_dssp             HC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHH
T ss_pred             hC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCCHHHH
Confidence            53 3345666777777777777777777777776654 3355667777777777777777777777776652 2246677


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCHH
Q 038401          303 STIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIE  382 (542)
Q Consensus       303 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  382 (542)
                      ..+...+...|++++|...|+++.+.+ +.++.++..+..++.+.|++++|...+                         
T Consensus       241 ~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~-------------------------  294 (388)
T 1w3b_A          241 GNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCY-------------------------  294 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHH-------------------------
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHH-------------------------
Confidence            777777777888888888887777653 234555555555555444444444444                         


Q ss_pred             HHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHH
Q 038401          383 EATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEM  461 (542)
Q Consensus       383 ~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~  461 (542)
                            +++++. .+.+..++..++..+...|++++|+..++++++.  .| +..++..++.+|.+.|++++|...|+++
T Consensus       295 ------~~al~~-~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a  365 (388)
T 1w3b_A          295 ------NTALRL-CPTHADSLNNLANIKREQGNIEEAVRLYRKALEV--FPEFAAAHSNLASVLQQQGKLQEALMHYKEA  365 (388)
T ss_dssp             ------HHHHHH-CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTS--CTTCHHHHHHHHHHHHTTTCCHHHHHHHHHH
T ss_pred             ------HHHHhh-CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence                  444433 2345666666666677777777777777776653  23 3556666666777777777777777777


Q ss_pred             HHcCCCCchHHHHH-HHHHHhccC
Q 038401          462 QEEGCVFSDQVHFQ-MLSLYGARK  484 (542)
Q Consensus       462 ~~~~~~~~~~~~~~-l~~~~~~~g  484 (542)
                      .+..  |.....+. ++.++...|
T Consensus       366 ~~~~--p~~~~a~~~lg~~~~~~~  387 (388)
T 1w3b_A          366 IRIS--PTFADAYSNMGNTLKEMQ  387 (388)
T ss_dssp             HTTC--TTCHHHHHHHHHHHHHTC
T ss_pred             HhhC--CCCHHHHHhHHHHHHHcc
Confidence            6654  12222222 555555544

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=99.97  E-value=2e-30  Score=247.55  Aligned_cols=204  Identities=16%  Similarity=0.155  Sum_probs=144.3

Q ss_pred             HHHHHHHhHhCCCCccH-hHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCC---------hHH
Q 038401          108 AISIFSRLKSSGIVPDL-VAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHK---------FVE  177 (542)
Q Consensus       108 a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~---------~~~  177 (542)
                      +..+.+.+.+.+..+.+ ..++.+|++|++.|++++|.++|++|.+.|++||..+|++||.+|++.+.         .++
T Consensus         9 ~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~   88 (501)
T 4g26_A            9 SENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSR   88 (501)
T ss_dssp             ---------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHH
T ss_pred             HHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHH
Confidence            44455555555554433 34677778888888888888888888888888888888888888776554         466


Q ss_pred             HHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHh
Q 038401          178 ALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQR  257 (542)
Q Consensus       178 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  257 (542)
                      |.++|++|...|+.||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.+
T Consensus        89 A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~  168 (501)
T 4g26_A           89 GFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVE  168 (501)
T ss_dssp             HHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            77777777777777777777777777777777777777777777777777777777777777777777777777777777


Q ss_pred             cCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 038401          258 KEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGK  311 (542)
Q Consensus       258 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  311 (542)
                      .|+.||..+|+.||.+|++.|+.++|.++|++|.+.|..|+..||+.++..|+.
T Consensus       169 ~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s  222 (501)
T 4g26_A          169 SEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKS  222 (501)
T ss_dssp             TTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHS
T ss_pred             cCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhc
Confidence            777777777777777777777777777777777777777777777777776654

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=99.97  E-value=2.3e-30  Score=247.13  Aligned_cols=201  Identities=14%  Similarity=0.166  Sum_probs=109.6

Q ss_pred             HHHHHHhCCCCCCHH-hHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCC---------HHHHHH
Q 038401           41 LFDEMRQRGIAPDRY-TYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSD---------YSKAIS  110 (542)
Q Consensus        41 ~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---------~~~a~~  110 (542)
                      +.+.+.+.+..+.+. .++.+|.+|++.|++++|+++|++|.+.|+.||..+|+.+|.+|.+.+.         ++.|.+
T Consensus        12 L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~   91 (501)
T 4g26_A           12 LSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFD   91 (501)
T ss_dssp             ------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHH
T ss_pred             HHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHH
Confidence            334444444433322 3455555555555555555555555555555555555555555544332         455556


Q ss_pred             HHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhcCC
Q 038401          111 IFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNC  190 (542)
Q Consensus       111 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  190 (542)
                      +|++|...|+.||..+|++||.+|++.|++++|.++|++|.+.|+.||..+|+++|.+|++.|++++|.++|++|.+.|+
T Consensus        92 lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~  171 (501)
T 4g26_A           92 IFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEV  171 (501)
T ss_dssp             HHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCC
Confidence            66666666666666666666666666666666666666666666666666666666666666666666666666666666


Q ss_pred             CCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHh
Q 038401          191 PLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGE  241 (542)
Q Consensus       191 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~  241 (542)
                      .||..+|+.+|.+|++.|+.++|.+++++|.+.|..|+..||+.++..++.
T Consensus       172 ~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s  222 (501)
T 4g26_A          172 VPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKS  222 (501)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHS
T ss_pred             CCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhc
Confidence            666666666666666666666666666666665556666666655555544

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.96  E-value=2.4e-25  Score=218.31  Aligned_cols=442  Identities=10%  Similarity=0.045  Sum_probs=231.9

Q ss_pred             cHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHH
Q 038401           18 SVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIE   97 (542)
Q Consensus        18 ~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   97 (542)
                      .+..+......+.+.|++++|+..|+.+.+.+  |+..+|..+..++...|++++|+..++++.+.++ .+...+..+..
T Consensus         5 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~   81 (514)
T 2gw1_A            5 YALALKDKGNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELKP-DYSKVLLRRAS   81 (514)
T ss_dssp             HHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCS-CCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccCh-HHHHHHHHHHH
Confidence            34567788888999999999999999999875  6888999999999999999999999999988753 36778888999


Q ss_pred             HHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHH
Q 038401           98 LARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVE  177 (542)
Q Consensus        98 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~  177 (542)
                      ++...|++++|...|+++...+ +++......++..+........+.+.+..+...+..|+...+..-............
T Consensus        82 ~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (514)
T 2gw1_A           82 ANEGLGKFADAMFDLSVLSLNG-DFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPS  160 (514)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHSS-SCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCC
T ss_pred             HHHHHhhHHHHHHHHHHHHhcC-CCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCch
Confidence            9999999999999999998875 445555555555554444444444444333332222222211111100011111111


Q ss_pred             HHHHHHHHHhcCC---------CCChhhHHHHHHHHhc---cCCHHHHHHHHHHHHH-----CCCCCChhHHHHHHHHHH
Q 038401          178 ALSVFAEMNEVNC---------PLDLTTCNIMIDVYGQ---LDMAKDADRLFWSMRK-----MGIDPSVVSYNTLLRVYG  240 (542)
Q Consensus       178 a~~~~~~~~~~~~---------~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~-----~~~~~~~~~~~~ll~~~~  240 (542)
                      ...+...+.....         +.+...+......+..   .|++++|...++.+.+     ..-.|+....        
T Consensus       161 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~--------  232 (514)
T 2gw1_A          161 VTSMASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKL--------  232 (514)
T ss_dssp             HHHHHHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHH--------
T ss_pred             hHHHHHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCcccccc--------
Confidence            1111111111000         1112222222222222   4555555555555544     2001100000        


Q ss_pred             hcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 038401          241 EAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAM  320 (542)
Q Consensus       241 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~  320 (542)
                                         .+.+...+..+...+...|++++|...++++.+..  |+...+..+...+...|++++|..
T Consensus       233 -------------------~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--~~~~~~~~l~~~~~~~~~~~~A~~  291 (514)
T 2gw1_A          233 -------------------KEKLAISLEHTGIFKFLKNDPLGAHEDIKKAIELF--PRVNSYIYMALIMADRNDSTEYYN  291 (514)
T ss_dssp             -------------------HHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHTSSCCTTGGG
T ss_pred             -------------------ChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--ccHHHHHHHHHHHHHCCCHHHHHH
Confidence                               01123334444444444444444444444444432  223344444444444444444444


Q ss_pred             HHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCC---CCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCC
Q 038401          321 LFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQP---NTIPRETAITILARAGRIEEATWVFRQAFDAGEV  397 (542)
Q Consensus       321 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  397 (542)
                      .++.+.+.. +.+...+..+...+...|++++|...++++...   +...+..+...+...|++++|...++++.+.. +
T Consensus       292 ~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~  369 (514)
T 2gw1_A          292 YFDKALKLD-SNNSSVYYHRGQMNFILQNYDQAGKDFDKAKELDPENIFPYIQLACLAYRENKFDDCETLFSEAKRKF-P  369 (514)
T ss_dssp             HHHHHHTTC-TTCTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTCSSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-T
T ss_pred             HHHHHhhcC-cCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-c
Confidence            444444432 223344444444444555555555554444321   12223334444555566666666666665542 2


Q ss_pred             cCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCC----HHHHHHHHHHHhc---cCcHHHHHHHHHHHHHcCCCCc
Q 038401          398 KDISVFGCMIELFSRNKKYANVIEVFEKMRSAGY-FPD----SHIIALVLNSYGK---LREFETADDLYSEMQEEGCVFS  469 (542)
Q Consensus       398 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~p~----~~~~~~l~~~~~~---~g~~~~A~~~~~~~~~~~~~~~  469 (542)
                      .+...+..++..+...|++++|...++++.+... .|+    ...+..++..+..   .|++++|...++++.+..  +.
T Consensus       370 ~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~--~~  447 (514)
T 2gw1_A          370 EAPEVPNFFAEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLD--PR  447 (514)
T ss_dssp             TCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHC--TT
T ss_pred             cCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhC--cc
Confidence            3455666666667777777777777776655210 011    2256666666666   677777777777776654  12


Q ss_pred             hHHHH-HHHHHHhccCChHHHHHHHHHH
Q 038401          470 DQVHF-QMLSLYGARKDFNMLESLFERL  496 (542)
Q Consensus       470 ~~~~~-~l~~~~~~~g~~~~A~~~~~~~  496 (542)
                      +...+ .++.++...|++++|...+++.
T Consensus       448 ~~~~~~~la~~~~~~g~~~~A~~~~~~a  475 (514)
T 2gw1_A          448 SEQAKIGLAQMKLQQEDIDEAITLFEES  475 (514)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            22222 2666777777777777777763

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.96  E-value=1.3e-25  Score=220.24  Aligned_cols=268  Identities=10%  Similarity=-0.030  Sum_probs=219.2

Q ss_pred             HHHHHHHHHHHHc---cCCHHHHHHHHHHHHH-----cCC--------CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 038401          264 VVTYNTMIKIYGK---SLEHEKATNLMQEMQN-----RGI--------EPNAITYSTIIAIWGKAGKLDRAAMLFQKLRS  327 (542)
Q Consensus       264 ~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~-----~~~--------~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  327 (542)
                      ...+......+..   .|++++|...++++.+     ..-        +.+...+..+...+...|+++.|...++.+.+
T Consensus       186 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~  265 (514)
T 2gw1_A          186 ADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDIKKAIE  265 (514)
T ss_dssp             HHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            4455555555554   8999999999999887     211        22345778888899999999999999999998


Q ss_pred             cCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCC---CCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHH
Q 038401          328 SGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPN---TIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFG  404 (542)
Q Consensus       328 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  404 (542)
                      ....  ...+..+..++...|++++|...++.+...+   ...+..+...+...|++++|...++++++.. +.+...+.
T Consensus       266 ~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~  342 (514)
T 2gw1_A          266 LFPR--VNSYIYMALIMADRNDSTEYYNYFDKALKLDSNNSSVYYHRGQMNFILQNYDQAGKDFDKAKELD-PENIFPYI  342 (514)
T ss_dssp             HCCC--HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCTTCTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTC-SSCSHHHH
T ss_pred             hCcc--HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCcCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-hhhHHHHH
Confidence            7533  8888999999999999999999999987643   3445667888999999999999999999874 34677889


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCch----H-HHHHHHHH
Q 038401          405 CMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSD----Q-VHFQMLSL  479 (542)
Q Consensus       405 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~----~-~~~~l~~~  479 (542)
                      .++..+...|++++|+..++++.+.. +.+...+..++..+...|++++|...++++.+..+..+.    . ....++.+
T Consensus       343 ~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~  421 (514)
T 2gw1_A          343 QLACLAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATL  421 (514)
T ss_dssp             HHHHHTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHH
Confidence            99999999999999999999998843 225678889999999999999999999999886522221    1 44449999


Q ss_pred             Hhc---cCChHHHHHHHHHH-hcCCCCCchhHHHHHHHHHHhhcchhhHHHHHHHHHhcCCC
Q 038401          480 YGA---RKDFNMLESLFERL-DSDSNINKKELHHVVAGIYERANRLNDASRIMNRMNKRRTF  537 (542)
Q Consensus       480 ~~~---~g~~~~A~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  537 (542)
                      +..   .|++++|...+++. ...|.  ....+..++.+|...|++++|...++++.+....
T Consensus       422 ~~~~~~~~~~~~A~~~~~~a~~~~~~--~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~  481 (514)
T 2gw1_A          422 LTRNPTVENFIEATNLLEKASKLDPR--SEQAKIGLAQMKLQQEDIDEAITLFEESADLART  481 (514)
T ss_dssp             HHTSCCTTHHHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSS
T ss_pred             HhhhhhcCCHHHHHHHHHHHHHhCcc--cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhccc
Confidence            999   99999999999995 44444  5678999999999999999999999999886643

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.94  E-value=1.8e-23  Score=201.31  Aligned_cols=386  Identities=11%  Similarity=0.034  Sum_probs=268.3

Q ss_pred             HHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhc
Q 038401          109 ISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEV  188 (542)
Q Consensus       109 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  188 (542)
                      ...+..+.... +.+...+..+...+.+.|++++|..+|+++.+.. +.+...+..+..++...|++++|...|+++.+.
T Consensus        12 ~~~~~~~~~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~   89 (450)
T 2y4t_A           12 DLGTENLYFQS-MADVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQL   89 (450)
T ss_dssp             ------------CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             ccccccccccc-HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            33444444432 5577888899999999999999999999988763 347888999999999999999999999999887


Q ss_pred             CCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCCh---hHHHHHHHH------------HHhcCcHHHHHHHHH
Q 038401          189 NCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSV---VSYNTLLRV------------YGEAELFGEAIHLFR  253 (542)
Q Consensus       189 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~ll~~------------~~~~~~~~~a~~~~~  253 (542)
                      + +.+..++..+..++...|++++|...|+.+.... +.+.   ..+..+...            +...|++++|...++
T Consensus        90 ~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~  167 (450)
T 2y4t_A           90 K-MDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSN-PSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLD  167 (450)
T ss_dssp             C-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             C-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            5 4467888889999999999999999999998764 3344   566666443            677778888888887


Q ss_pred             HHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC
Q 038401          254 LMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEID  333 (542)
Q Consensus       254 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  333 (542)
                      .+.... +.+...+..+..+|.+.|++++|...++++.+.. +.+..++..+...+...|++++|...|+.+.+.. +.+
T Consensus       168 ~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~  244 (450)
T 2y4t_A          168 KILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRECLKLD-QDH  244 (450)
T ss_dssp             HHHHHC-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTC
T ss_pred             HHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCh
Confidence            777654 3466677777777778888888888887776652 3456777777777777788888888877777653 223


Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcC----HHHHHHHHHH
Q 038401          334 PVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKD----ISVFGCMIEL  409 (542)
Q Consensus       334 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~----~~~~~~l~~~  409 (542)
                      ...+..+...    +...               ....++..+...|++++|...|+++++..+ .+    ...+..++.+
T Consensus       245 ~~~~~~~~~~----~~~~---------------~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p-~~~~~~~~~~~~l~~~  304 (450)
T 2y4t_A          245 KRCFAHYKQV----KKLN---------------KLIESAEELIRDGRYTDATSKYESVMKTEP-SIAEYTVRSKERICHC  304 (450)
T ss_dssp             HHHHHHHHHH----HHHH---------------HHHHHHHHHHHHTCHHHHHHHHHHHHHHCC-SSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHH----HHHH---------------HHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-cchHHHHHHHHHHHHH
Confidence            3333322111    0000               012236677888889999999988887532 22    3477888888


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHH---------
Q 038401          410 FSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLS---------  478 (542)
Q Consensus       410 ~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~---------  478 (542)
                      +.+.|++++|+..++++.+.  .| +...|..++.+|...|++++|...++++++..  |.+...+. +..         
T Consensus       305 ~~~~g~~~~A~~~~~~a~~~--~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~~~~~  380 (450)
T 2y4t_A          305 FSKDEKPVEAIRVCSEVLQM--EPDNVNALKDRAEAYLIEEMYDEAIQDYETAQEHN--ENDQQIREGLEKAQRLLKQSQ  380 (450)
T ss_dssp             HHTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS--SSCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--cchHHHHHHHHHHHHHhhccc
Confidence            99999999999999998874  35 57888889999999999999999999998876  22233333 442         


Q ss_pred             ---HHhccC-----ChHHHHHHHHH--HhcCCCCCc--------hhHHHHHHHHHHhhcchhhHH
Q 038401          479 ---LYGARK-----DFNMLESLFER--LDSDSNINK--------KELHHVVAGIYERANRLNDAS  525 (542)
Q Consensus       479 ---~~~~~g-----~~~~A~~~~~~--~~~~~~~~~--------~~~~~~l~~~~~~~g~~~~A~  525 (542)
                         .|...|     +.+++.+.+++  +...|+..+        ...+..+..+|...|+.+++.
T Consensus       381 ~~~~y~~lg~~~~~~~~~~~~~y~~~~l~~~pd~~~~~~~~~~a~~~~~~i~~ay~~L~d~~~r~  445 (450)
T 2y4t_A          381 KRDYYKILGVKRNAKKQEIIKAYRKLALQWHPDNFQNEEEKKKAEKKFIDIAAAKEVLSDPEMRK  445 (450)
T ss_dssp             SCCSGGGSCSSTTCCTTHHHHHHHHHHHHSCGGGCCSHHHHHHHHHHHHHHHHHHHHSSGGGGC-
T ss_pred             chhHHHHhCCCccCCHHHHHHHHHHHHHHhCCCCCCCchHHHHHHHHHHHHHHHHHHhCCHHHHH
Confidence               233344     56777888886  333443222        135666777777777766543

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.94  E-value=5.9e-23  Score=197.66  Aligned_cols=356  Identities=12%  Similarity=0.050  Sum_probs=259.4

Q ss_pred             HHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHH
Q 038401           71 DSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEM  150 (542)
Q Consensus        71 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  150 (542)
                      ..+...+..+.... +.+...+..+...+.+.|++++|..+|+++.+.. +.+..++..+..++...|++++|...|+++
T Consensus         9 ~~~~~~~~~~~~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a   86 (450)
T 2y4t_A            9 SGVDLGTENLYFQS-MADVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKV   86 (450)
T ss_dssp             ---------------CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             cccccccccccccc-HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            33444555555442 3467789999999999999999999999998763 557889999999999999999999999999


Q ss_pred             HHcCCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhcCCCCCh---hhHHHHHHH------------HhccCCHHHHHH
Q 038401          151 REQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDL---TTCNIMIDV------------YGQLDMAKDADR  215 (542)
Q Consensus       151 ~~~g~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~------------~~~~~~~~~a~~  215 (542)
                      .+.+ +.+...+..+..+|.+.|++++|.+.|+++.+.+ +.+.   ..+..++..            +...|++++|..
T Consensus        87 l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~  164 (450)
T 2y4t_A           87 IQLK-MDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSN-PSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIA  164 (450)
T ss_dssp             HHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            9875 3468899999999999999999999999998864 3344   667766444            889999999999


Q ss_pred             HHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCC
Q 038401          216 LFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGI  295 (542)
Q Consensus       216 ~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  295 (542)
                      .|+.+.... +.+..++..+..++...|++++|...|+.+.+.. +.+..++..+...|...|++++|...++++...  
T Consensus       165 ~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--  240 (450)
T 2y4t_A          165 FLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRECLKL--  240 (450)
T ss_dssp             HHHHHHHHC-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--
T ss_pred             HHHHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--
Confidence            999999875 5678889999999999999999999999998764 457889999999999999999999999999876  


Q ss_pred             CCC-HHHHHHH------------HHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcC
Q 038401          296 EPN-AITYSTI------------IAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQ  362 (542)
Q Consensus       296 ~p~-~~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  362 (542)
                      .|+ ...+..+            ...+...|++++|...|+.+.+.... +....                         
T Consensus       241 ~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~-------------------------  294 (450)
T 2y4t_A          241 DQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPS-IAEYT-------------------------  294 (450)
T ss_dssp             CTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCS-SHHHH-------------------------
T ss_pred             CCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc-chHHH-------------------------
Confidence            343 3344333            45555566666666666665554211 11100                         


Q ss_pred             CCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHH
Q 038401          363 PNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPD-SHIIALV  441 (542)
Q Consensus       363 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l  441 (542)
                        ...+..+..++.+.|++++|+..++++++.. +.+...|..++.+|...|++++|...|+++++  ..|+ ...+..+
T Consensus       295 --~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~l  369 (450)
T 2y4t_A          295 --VRSKERICHCFSKDEKPVEAIRVCSEVLQME-PDNVNALKDRAEAYLIEEMYDEAIQDYETAQE--HNENDQQIREGL  369 (450)
T ss_dssp             --HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--TSSSCHHHHHHH
T ss_pred             --HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhcCHHHHHHHHHHHHH--hCcchHHHHHHH
Confidence              0012333455566667777777777776652 34677888888888888888888888888887  4453 4555555


Q ss_pred             HH------------HHhccC-----cHHHHHHHHHH-HHHcC
Q 038401          442 LN------------SYGKLR-----EFETADDLYSE-MQEEG  465 (542)
Q Consensus       442 ~~------------~~~~~g-----~~~~A~~~~~~-~~~~~  465 (542)
                      ..            .|...|     +.+++.+.|++ ..+..
T Consensus       370 ~~~~~~~~~~~~~~~y~~lg~~~~~~~~~~~~~y~~~~l~~~  411 (450)
T 2y4t_A          370 EKAQRLLKQSQKRDYYKILGVKRNAKKQEIIKAYRKLALQWH  411 (450)
T ss_dssp             HHHHHHHHHHHSCCSGGGSCSSTTCCTTHHHHHHHHHHHHSC
T ss_pred             HHHHHHhhcccchhHHHHhCCCccCCHHHHHHHHHHHHHHhC
Confidence            52            233344     56677888886 45443

>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=99.94  E-value=2.2e-23  Score=205.51  Aligned_cols=428  Identities=12%  Similarity=0.081  Sum_probs=232.1

Q ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHH
Q 038401           19 VFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIEL   98 (542)
Q Consensus        19 ~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   98 (542)
                      ...|..+...+.+.|++++|+..|+.+.+..+ .++.+|..+..++...|++++|++.++++.+.++ .+...+..+..+
T Consensus        25 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~la~~  102 (537)
T 3fp2_A           25 AVQLKNRGNHFFTAKNFNEAIKYYQYAIELDP-NEPVFYSNISACYISTGDLEKVIEFTTKALEIKP-DHSKALLRRASA  102 (537)
T ss_dssp             HHHHHHHHHHHHHTTCCC-CHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhhCC-CCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-chHHHHHHHHHH
Confidence            45677778888888888888888888887653 3677888888888888888888888888877653 367778888888


Q ss_pred             HHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHc------CCCCCHHHHHHHHHHHHHC
Q 038401           99 ARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQ------GVKPDTVSYSTLLNLYVEN  172 (542)
Q Consensus        99 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------g~~~~~~~~~~l~~~~~~~  172 (542)
                      +...|++++|...|+.+. .  .|+  .....+..+...+....|...++.+...      ...|+..    .+..+...
T Consensus       103 ~~~~g~~~~A~~~~~~~~-~--~~~--~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~----~~~~~~~~  173 (537)
T 3fp2_A          103 NESLGNFTDAMFDLSVLS-L--NGD--FDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNT----SLASFFGI  173 (537)
T ss_dssp             HHHHTCHHHHHHHHHHHC----------------CHHHHHHHHHHHHHHHHHCC-------CCCCCHH----HHHHHHHT
T ss_pred             HHHcCCHHHHHHHHHHHh-c--CCC--CChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHh----HHHHHHHh
Confidence            888888888888886332 2  222  1122233444555667777777777543      1223322    23334455


Q ss_pred             CChHHHHHHHHHHHhcCCCCChh-hHHHHHHHHhcc--------CCHHHHHHHHHHHHHCCCCCCh-------hHHHHHH
Q 038401          173 HKFVEALSVFAEMNEVNCPLDLT-TCNIMIDVYGQL--------DMAKDADRLFWSMRKMGIDPSV-------VSYNTLL  236 (542)
Q Consensus       173 g~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~--------~~~~~a~~~~~~~~~~~~~~~~-------~~~~~ll  236 (542)
                      .+.+.+...+......  .+... ....+...+...        +++++|..+++.+.+.. +.+.       .++..+.
T Consensus       174 ~~~~~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~g  250 (537)
T 3fp2_A          174 FDSHLEVSSVNTSSNY--DTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSAN-TVDDPLRENAALALCYTG  250 (537)
T ss_dssp             SCHHHHHHTSCCCCSS--CSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC---CCCHHHHHHHHHHHHHHH
T ss_pred             cChHHHHHHHhhcccc--ccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHC-CCcchhhHHHHHHHHHHH
Confidence            5555554443332221  11111 222222222221        35666666666666543 1221       2344444


Q ss_pred             HHHHhcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHH
Q 038401          237 RVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLD  316 (542)
Q Consensus       237 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~  316 (542)
                      ..+...|++++|...++......  |+...+..+...+...|++++|...++++.+.. +.+..++..+...+...|+++
T Consensus       251 ~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~  327 (537)
T 3fp2_A          251 IFHFLKNNLLDAQVLLQESINLH--PTPNSYIFLALTLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYK  327 (537)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHhcccHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHH
Confidence            55566666666666666666653  335566666666666666666666666665543 234555666666666666666


Q ss_pred             HHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcC---CCCCCHHHHHHHHHHhCCHHHHHHHHHHHHH
Q 038401          317 RAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQ---PNTIPRETAITILARAGRIEEATWVFRQAFD  393 (542)
Q Consensus       317 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  393 (542)
                      +|...++.+.+.. +.+...+..+..++...|++++|...++++..   .++..+..+...+...|++++|...|+++++
T Consensus       328 ~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~  406 (537)
T 3fp2_A          328 NAKEDFQKAQSLN-PENVYPYIQLACLLYKQGKFTESEAFFNETKLKFPTLPEVPTFFAEILTDRGDFDTAIKQYDIAKR  406 (537)
T ss_dssp             HHHHHHHHHHHHC-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            6666666666543 22345555555555556665555555555432   1222333444444555555555555555443


Q ss_pred             cCCC-----cCHHHHHHHHHHHHhc----------CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHH
Q 038401          394 AGEV-----KDISVFGCMIELFSRN----------KKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLY  458 (542)
Q Consensus       394 ~~~~-----~~~~~~~~l~~~~~~~----------g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~  458 (542)
                      ..+.     .....+..+..++...          |++++|+..|+++.+.. +.+...+..++.+|...|++++|...|
T Consensus       407 ~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~  485 (537)
T 3fp2_A          407 LEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELD-PRSEQAKIGLAQLKLQMEKIDEAIELF  485 (537)
T ss_dssp             HHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHH
Confidence            2110     0111122233344444          55555555555554421 113344444555555555555555555


Q ss_pred             HHHHHcC
Q 038401          459 SEMQEEG  465 (542)
Q Consensus       459 ~~~~~~~  465 (542)
                      +++.+..
T Consensus       486 ~~al~~~  492 (537)
T 3fp2_A          486 EDSAILA  492 (537)
T ss_dssp             HHHHHHC
T ss_pred             HHHHHhC
Confidence            5555443

>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=99.94  E-value=2e-23  Score=205.83  Aligned_cols=434  Identities=13%  Similarity=0.063  Sum_probs=317.5

Q ss_pred             CHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHH
Q 038401           53 DRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMIN  132 (542)
Q Consensus        53 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  132 (542)
                      ....|..+...+.+.|++++|++.|+++.+..+ .+...+..+..++...|++++|.+.++++.+.+ +.+..++..+..
T Consensus        24 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~  101 (537)
T 3fp2_A           24 YAVQLKNRGNHFFTAKNFNEAIKYYQYAIELDP-NEPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRAS  101 (537)
T ss_dssp             HHHHHHHHHHHHHHTTCCC-CHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHhhCC-CCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHH
Confidence            345788888899999999999999999998753 478899999999999999999999999998865 557888999999


Q ss_pred             HHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhcCC--CCChhhHHHHHHHHhccCCH
Q 038401          133 VFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNC--PLDLTTCNIMIDVYGQLDMA  210 (542)
Q Consensus       133 ~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~  210 (542)
                      ++...|++++|...|+.+ ..  .|+.  ....+..+...+....+...++.+.....  .+........+..+....+.
T Consensus       102 ~~~~~g~~~~A~~~~~~~-~~--~~~~--~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~  176 (537)
T 3fp2_A          102 ANESLGNFTDAMFDLSVL-SL--NGDF--DGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDS  176 (537)
T ss_dssp             HHHHHTCHHHHHHHHHHH-C---------------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCH
T ss_pred             HHHHcCCHHHHHHHHHHH-hc--CCCC--ChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcCh
Confidence            999999999999999743 22  2322  22234455566667889999988865310  01111122333444455555


Q ss_pred             HHHHHHHHHHHHCCCCCChh-HHHHHHHHHHh--------cCcHHHHHHHHHHHHhcCCCCc------HHHHHHHHHHHH
Q 038401          211 KDADRLFWSMRKMGIDPSVV-SYNTLLRVYGE--------AELFGEAIHLFRLMQRKEIEQN------VVTYNTMIKIYG  275 (542)
Q Consensus       211 ~~a~~~~~~~~~~~~~~~~~-~~~~ll~~~~~--------~~~~~~a~~~~~~~~~~~~~~~------~~~~~~l~~~~~  275 (542)
                      +.+...+......  .+... ....+...+..        .|++++|..+++.+.+......      ..++..+...+.
T Consensus       177 ~~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~g~~~~  254 (537)
T 3fp2_A          177 HLEVSSVNTSSNY--DTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSANTVDDPLRENAALALCYTGIFHF  254 (537)
T ss_dssp             HHHHHTSCCCCSS--CSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhcccc--ccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHCCCcchhhHHHHHHHHHHHHHHH
Confidence            5554443332211  12211 23333333222        2578999999999987642211      235667778888


Q ss_pred             ccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHH
Q 038401          276 KSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKR  355 (542)
Q Consensus       276 ~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  355 (542)
                      ..|++++|...++++.+.  .|+...+..+...+...|+++.|...++.+.+.. +.+..++..+...+...|++++|..
T Consensus       255 ~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~  331 (537)
T 3fp2_A          255 LKNNLLDAQVLLQESINL--HPTPNSYIFLALTLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAKE  331 (537)
T ss_dssp             HTTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             hcccHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHHH
Confidence            999999999999999987  5667888899999999999999999999998875 4578889999999999999999999


Q ss_pred             HHHHhcC---CCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC--
Q 038401          356 LLHELRQ---PNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAG--  430 (542)
Q Consensus       356 ~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--  430 (542)
                      .++++..   .+...+..+..++...|++++|...++++++.. +.+...+..++..+...|++++|+..|+++.+..  
T Consensus       332 ~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~  410 (537)
T 3fp2_A          332 DFQKAQSLNPENVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEV  410 (537)
T ss_dssp             HHHHHHHHCTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCc
Confidence            9998764   334456677888999999999999999999874 4567788999999999999999999999987632  


Q ss_pred             ---CCCCHHHHHHHHHHHhcc----------CcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHHHHH
Q 038401          431 ---YFPDSHIIALVLNSYGKL----------REFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLFERL  496 (542)
Q Consensus       431 ---~~p~~~~~~~l~~~~~~~----------g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~~  496 (542)
                         .......+......+...          |++++|...++++.+..  |.+...+. ++.++...|++++|.+.+++.
T Consensus       411 ~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a  488 (537)
T 3fp2_A          411 QEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELD--PRSEQAKIGLAQLKLQMEKIDEAIELFEDS  488 (537)
T ss_dssp             CSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             chhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHhccHHHHHHHHHHH
Confidence               111223344556677777          99999999999999986  22333344 999999999999999999994


Q ss_pred             -hcCCC
Q 038401          497 -DSDSN  501 (542)
Q Consensus       497 -~~~~~  501 (542)
                       ...|.
T Consensus       489 l~~~~~  494 (537)
T 3fp2_A          489 AILART  494 (537)
T ss_dssp             HHHC--
T ss_pred             HHhCCC
Confidence             44554

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.91  E-value=3.2e-19  Score=172.94  Aligned_cols=348  Identities=15%  Similarity=0.122  Sum_probs=181.3

Q ss_pred             CHHhHHHHHHHHHh----cCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhc----cCcHHHHHHHHHHHHHcCCCCCH
Q 038401           88 DLVLYSNLIELARK----LSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGK----AKLFKEARLLIEEMREQGVKPDT  159 (542)
Q Consensus        88 ~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~g~~~~~  159 (542)
                      ++..+..+...|..    .+++++|...|++..+.|   ++..+..|...|..    .+++++|...|++..+.|   +.
T Consensus        38 ~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~  111 (490)
T 2xm6_A           38 EAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LP  111 (490)
T ss_dssp             CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CH
T ss_pred             CHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CH
Confidence            45555555555555    556666666666655543   34445555555555    555666666666555543   44


Q ss_pred             HHHHHHHHHHHH----CCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhc----cCCHHHHHHHHHHHHHCCCCCChhH
Q 038401          160 VSYSTLLNLYVE----NHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQ----LDMAKDADRLFWSMRKMGIDPSVVS  231 (542)
Q Consensus       160 ~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~  231 (542)
                      ..+..|...|..    .+++++|.+.|++..+.+   +...+..+...|..    .++.++|...|++..+.|   +...
T Consensus       112 ~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a  185 (490)
T 2xm6_A          112 QAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWS  185 (490)
T ss_dssp             HHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHH
T ss_pred             HHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHH
Confidence            445555555555    455555555555555543   34444444444443    445555555555555432   3344


Q ss_pred             HHHHHHHHHh----cCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHc----cCCHHHHHHHHHHHHHcCCCCCHHHHH
Q 038401          232 YNTLLRVYGE----AELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGK----SLEHEKATNLMQEMQNRGIEPNAITYS  303 (542)
Q Consensus       232 ~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~p~~~~~~  303 (542)
                      +..+...|..    .++.++|.+.|+...+.+   +...+..+...|..    .+++++|...|++..+.|   +...+.
T Consensus       186 ~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~  259 (490)
T 2xm6_A          186 CNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQF  259 (490)
T ss_dssp             HHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHH
T ss_pred             HHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            4444444444    455555555555544432   33344444444443    445555555555544432   233333


Q ss_pred             HHHHHHHh----cCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHh-
Q 038401          304 TIIAIWGK----AGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARA-  378 (542)
Q Consensus       304 ~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~-  378 (542)
                      .+...+..    .++.++|...|+...+.+   ++..+..+                               ...+... 
T Consensus       260 ~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~L-------------------------------g~~y~~~~  305 (490)
T 2xm6_A          260 RLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYL-------------------------------AHLYDKGA  305 (490)
T ss_dssp             HHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHH-------------------------------HHHHHHCB
T ss_pred             HHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHH-------------------------------HHHHHcCC
Confidence            33333433    444555555555444432   22333333                               3333333 


Q ss_pred             ----CCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhc----
Q 038401          379 ----GRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNK---KYANVIEVFEKMRSAGYFPDSHIIALVLNSYGK----  447 (542)
Q Consensus       379 ----g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~----  447 (542)
                          +++++|...|+++.+.+   +...+..+...|...|   ++++|++.|++..+.+   +...+..+...|..    
T Consensus       306 ~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~  379 (490)
T 2xm6_A          306 EGVAKNREQAISWYTKSAEQG---DATAQANLGAIYFRLGSEEEHKKAVEWFRKAAAKG---EKAAQFNLGNALLQGKGV  379 (490)
T ss_dssp             TTBCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSS
T ss_pred             CCCcCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCC
Confidence                56666666666666543   3445555666665544   5666777776666642   45556666666665    


Q ss_pred             cCcHHHHHHHHHHHHHcCCCCchHHHHHHHHHHhc----cCChHHHHHHHHHH
Q 038401          448 LREFETADDLYSEMQEEGCVFSDQVHFQMLSLYGA----RKDFNMLESLFERL  496 (542)
Q Consensus       448 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~  496 (542)
                      .+++++|..+|+++.+.+   +....+.++.+|..    .+++++|..++++.
T Consensus       380 ~~~~~~A~~~~~~A~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A  429 (490)
T 2xm6_A          380 KKDEQQAAIWMRKAAEQG---LSAAQVQLGEIYYYGLGVERDYVQAWAWFDTA  429 (490)
T ss_dssp             CCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHhCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHH
Confidence            566777777777766654   23333446666665    66677777777663

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.90  E-value=4e-20  Score=172.10  Aligned_cols=328  Identities=12%  Similarity=0.053  Sum_probs=198.4

Q ss_pred             CHHHHHHHHHHHHHCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhHHHHHHH
Q 038401          158 DTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLR  237 (542)
Q Consensus       158 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  237 (542)
                      +...+..+...+...|++++|+..|+++.+.. |.+..++..+...+...|++++|...++.+.+.. +.+...+..+..
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~   79 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGH   79 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHH
Confidence            45567777788888888888888888887754 4467777778888888888888888888877664 345667777777


Q ss_pred             HHHhcCcHHHHHHHHHHHHhcCCC--CcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCH
Q 038401          238 VYGEAELFGEAIHLFRLMQRKEIE--QNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKL  315 (542)
Q Consensus       238 ~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~  315 (542)
                      .+...|++++|...++...+....  .+...+..+...+.                       ...+..+...+...|++
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            888888888888888877765310  23333333311000                       00111223344445555


Q ss_pred             HHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCC---CHHHHHHHHHHhCCHHHHHHHHHHHH
Q 038401          316 DRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTI---PRETAITILARAGRIEEATWVFRQAF  392 (542)
Q Consensus       316 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~l~~~~~~~g~~~~A~~~~~~~~  392 (542)
                      ++|...++.+.+.. +.+...+..+..++...|++++|...++++...++.   .+..+...+...|++++|...+++++
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            55555555554442 234444444555555555555555555544432221   22333444555555555555555555


Q ss_pred             HcCCCcCHHHHH------------HHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-H----HHHHHHHHHHhccCcHHHHH
Q 038401          393 DAGEVKDISVFG------------CMIELFSRNKKYANVIEVFEKMRSAGYFPD-S----HIIALVLNSYGKLREFETAD  455 (542)
Q Consensus       393 ~~~~~~~~~~~~------------~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~----~~~~~l~~~~~~~g~~~~A~  455 (542)
                      +..+ .+...+.            .++..+...|++++|+..++++.+..  |+ .    ..+..++.++...|++++|.
T Consensus       216 ~~~~-~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~la~~~~~~~~~~~A~  292 (359)
T 3ieg_A          216 KLDQ-DHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTE--PSVAEYTVRSKERICHCFSKDEKPVEAI  292 (359)
T ss_dssp             HHCT-TCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CSSHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             hhCc-cchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHHHHHHccCHHHHH
Confidence            5422 2222222            33566778888888888888887743  43 2    23445677888888888888


Q ss_pred             HHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHHHHHh-cCCCCCchhHHHHHHHHHHhh
Q 038401          456 DLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLFERLD-SDSNINKKELHHVVAGIYERA  518 (542)
Q Consensus       456 ~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~  518 (542)
                      ..++++.+..  |.+...+. ++.++...|++++|...+++.. ..|+  ...++..+..++...
T Consensus       293 ~~~~~~~~~~--~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~p~--~~~~~~~l~~~~~~~  353 (359)
T 3ieg_A          293 RICSEVLQME--PDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEHNEN--DQQIREGLEKAQRLL  353 (359)
T ss_dssp             HHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTT--CHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhC--cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC--ChHHHHHHHHHHHHH
Confidence            8888888865  22333333 8888888888888888888843 3443  445666666655443

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.90  E-value=3e-19  Score=166.17  Aligned_cols=317  Identities=12%  Similarity=0.027  Sum_probs=210.1

Q ss_pred             cHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHH
Q 038401           18 SVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIE   97 (542)
Q Consensus        18 ~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   97 (542)
                      |+..+..+...+.+.|++++|...|+.+.+..+ .+..++..+..++...|++++|+..++++.+..+ .+...+..+..
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~   79 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGDP-DNYIAYYRRATVFLAMGKSKAALPDLTKVIALKM-DFTAARLQRGH   79 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCc-ccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CcchHHHHHHH
Confidence            566788889999999999999999999988753 3678899999999999999999999999988743 36788889999


Q ss_pred             HHHhcCCHHHHHHHHHHhHhCCCC---ccHhHHHHH------------HHHHhccCcHHHHHHHHHHHHHcCCCCCHHHH
Q 038401           98 LARKLSDYSKAISIFSRLKSSGIV---PDLVAYNTM------------INVFGKAKLFKEARLLIEEMREQGVKPDTVSY  162 (542)
Q Consensus        98 ~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~  162 (542)
                      ++...|++++|...++++.+.. +   .+...+..+            ...+...|++++|...++++.+.. +.+...+
T Consensus        80 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  157 (359)
T 3ieg_A           80 LLLKQGKLDEAEDDFKKVLKSN-PSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVC-VWDAELR  157 (359)
T ss_dssp             HHHHHTCHHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HHHHcCChHHHHHHHHHHHhcC-CcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCchHHH
Confidence            9999999999999999998763 2   244444444            456667777777777777776653 2356666


Q ss_pred             HHHHHHHHHCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhHHH---------
Q 038401          163 STLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYN---------  233 (542)
Q Consensus       163 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~---------  233 (542)
                      ..+...+...|++++|.+.++++.+.. +.+..++..+...+...|++++|...++...+.. +.+...+.         
T Consensus       158 ~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~~~~~~~  235 (359)
T 3ieg_A          158 ELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECLKLD-QDHKRCFAHYKQVKKLN  235 (359)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-ccchHHHHHHHHHHHHH
Confidence            777777777777777777777776653 4456667777777777777777777777776553 22222222         


Q ss_pred             ---HHHHHHHhcCcHHHHHHHHHHHHhcCCCCcH----HHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 038401          234 ---TLLRVYGEAELFGEAIHLFRLMQRKEIEQNV----VTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTII  306 (542)
Q Consensus       234 ---~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~  306 (542)
                         .+...+...|++++|...++.+...... +.    ..+..+...+...|++++|...+++..+.. +.+...+..+.
T Consensus       236 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~  313 (359)
T 3ieg_A          236 KLIESAEELIRDGRYTDATSKYESVMKTEPS-VAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQME-PDNVNALKDRA  313 (359)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-SHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-chHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccHHHHHHHH
Confidence               1134455566666666666665554321 11    123334555556666666666666655542 22445555555


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 038401          307 AIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVA  343 (542)
Q Consensus       307 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  343 (542)
                      ..+...|++++|...|+.+.+.. +.+...+..+..+
T Consensus       314 ~~~~~~g~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~  349 (359)
T 3ieg_A          314 EAYLIEEMYDEAIQDYEAAQEHN-ENDQQIREGLEKA  349 (359)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcC-CCChHHHHHHHHH
Confidence            56666666666666666665542 2234444444333

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.89  E-value=5e-18  Score=164.59  Aligned_cols=368  Identities=14%  Similarity=0.126  Sum_probs=284.2

Q ss_pred             HHHHHHHHHHhCCCCCCHHhHHHHHHHHhc----cCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHh----cCCHHHH
Q 038401           37 LAHGLFDEMRQRGIAPDRYTYSTLITCFGK----EGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARK----LSDYSKA  108 (542)
Q Consensus        37 ~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a  108 (542)
                      .+...+....+.|   ++..+..+...|..    .+++++|+.+|++..+.|   +...+..+...|..    .+++++|
T Consensus        25 ~~~~~~~~~a~~g---~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A   98 (490)
T 2xm6_A           25 VNLEQLKQKAESG---EAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQA   98 (490)
T ss_dssp             CCHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHH
T ss_pred             HHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHH
Confidence            3455566655554   77788888888887    899999999999998864   67788888888988    8999999


Q ss_pred             HHHHHHhHhCCCCccHhHHHHHHHHHhc----cCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH----CCChHHHHH
Q 038401          109 ISIFSRLKSSGIVPDLVAYNTMINVFGK----AKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVE----NHKFVEALS  180 (542)
Q Consensus       109 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~----~g~~~~a~~  180 (542)
                      ...|++..+.|   ++..+..|...|..    .+++++|...|++..+.|   +...+..|...|..    .+++++|.+
T Consensus        99 ~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~  172 (490)
T 2xm6_A           99 VIWYKKAALKG---LPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMARE  172 (490)
T ss_dssp             HHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHH
T ss_pred             HHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHH
Confidence            99999998865   56677777778877    789999999999998875   67778888888887    789999999


Q ss_pred             HHHHHHhcCCCCChhhHHHHHHHHhc----cCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHh----cCcHHHHHHHH
Q 038401          181 VFAEMNEVNCPLDLTTCNIMIDVYGQ----LDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGE----AELFGEAIHLF  252 (542)
Q Consensus       181 ~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~  252 (542)
                      .|++..+.+   +...+..+...|..    .++.++|...|++..+.|   +...+..+...|..    .+++++|...|
T Consensus       173 ~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~  246 (490)
T 2xm6_A          173 WYSKAAEQG---NVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLF  246 (490)
T ss_dssp             HHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHH
T ss_pred             HHHHHHHCC---CHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHH
Confidence            999998875   67788888888887    899999999999998865   55677778888876    78999999999


Q ss_pred             HHHHhcCCCCcHHHHHHHHHHHHc----cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc-----CCHHHHHHHHH
Q 038401          253 RLMQRKEIEQNVVTYNTMIKIYGK----SLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKA-----GKLDRAAMLFQ  323 (542)
Q Consensus       253 ~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~-----~~~~~a~~~~~  323 (542)
                      +...+.+   +...+..+...|..    .++.++|...|++..+.|   +...+..+...+...     +++++|...|+
T Consensus       247 ~~a~~~~---~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~  320 (490)
T 2xm6_A          247 SQSAEQG---NSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYT  320 (490)
T ss_dssp             HHHHTTT---CHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHH
T ss_pred             HHHHHCC---CHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHH
Confidence            9988764   55677777778877    899999999999998765   556677777777776     89999999999


Q ss_pred             HHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHH
Q 038401          324 KLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVF  403 (542)
Q Consensus       324 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~  403 (542)
                      +..+.+   +...+..+...|...|.                            ..++++|.+.|+++.+.   .++..+
T Consensus       321 ~a~~~~---~~~a~~~lg~~y~~~g~----------------------------~~~~~~A~~~~~~a~~~---~~~~a~  366 (490)
T 2xm6_A          321 KSAEQG---DATAQANLGAIYFRLGS----------------------------EEEHKKAVEWFRKAAAK---GEKAAQ  366 (490)
T ss_dssp             HHHHTT---CHHHHHHHHHHHHHSCC----------------------------HHHHHHHHHHHHHHHHT---TCHHHH
T ss_pred             HHHhcC---CHHHHHHHHHHHHhCCC----------------------------cccHHHHHHHHHHHHHC---CCHHHH
Confidence            998875   44555666665554431                            01345555556666554   345666


Q ss_pred             HHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhc----cCcHHHHHHHHHHHHHcC
Q 038401          404 GCMIELFSR----NKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGK----LREFETADDLYSEMQEEG  465 (542)
Q Consensus       404 ~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~  465 (542)
                      ..+...|..    .+++++|+..|++..+.+   +...+..+...|..    .++.++|..+|+++.+.+
T Consensus       367 ~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~  433 (490)
T 2xm6_A          367 FNLGNALLQGKGVKKDEQQAAIWMRKAAEQG---LSAAQVQLGEIYYYGLGVERDYVQAWAWFDTASTND  433 (490)
T ss_dssp             HHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCCCCCCHHHHHHHHHHHHhCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC
Confidence            667777766    677777777777777643   45566666666665    677777777777777765

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.88  E-value=3.8e-18  Score=167.14  Aligned_cols=428  Identities=11%  Similarity=0.083  Sum_probs=219.2

Q ss_pred             hHHHHhhCCCCCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCC
Q 038401            6 LDWINEEARYSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRV   85 (542)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~   85 (542)
                      |+...+..  +-+...|..++.. .+.|++++|..+|+++.+.. +.+...|..++..+.+.|++++|..+|+++.... 
T Consensus         2 le~al~~~--P~~~~~w~~l~~~-~~~~~~~~a~~~~e~al~~~-P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~-   76 (530)
T 2ooe_A            2 AEKKLEEN--PYDLDAWSILIRE-AQNQPIDKARKTYERLVAQF-PSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKV-   76 (530)
T ss_dssp             HHHHHHHC--TTCHHHHHHHHHH-HHSSCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTC-
T ss_pred             hhhHhhhC--CCCHHHHHHHHHH-HHhCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC-
Confidence            44444432  4577788888884 77889999999999998863 3467788899998888999999999999988763 


Q ss_pred             CCCHHhHHHHHHHH-HhcCCHHHHHH----HHHHhHh-CCCCc-cHhHHHHHHHHHhc---------cCcHHHHHHHHHH
Q 038401           86 SGDLVLYSNLIELA-RKLSDYSKAIS----IFSRLKS-SGIVP-DLVAYNTMINVFGK---------AKLFKEARLLIEE  149 (542)
Q Consensus        86 ~~~~~~~~~l~~~~-~~~~~~~~a~~----~~~~~~~-~~~~~-~~~~~~~l~~~~~~---------~~~~~~a~~~~~~  149 (542)
                       |+...|..++... ...|+.+.|.+    +|+.... .|..| +...|...+.....         .|+++.|..+|++
T Consensus        77 -p~~~lw~~~~~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~  155 (530)
T 2ooe_A           77 -LHIDLWKCYLSYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQR  155 (530)
T ss_dssp             -CCHHHHHHHHHHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHH
T ss_pred             -CChHHHHHHHHHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHH
Confidence             5777777766533 35567666654    6666553 24333 45666666665543         5677777777777


Q ss_pred             HHHcCCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHH------HC
Q 038401          150 MREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMR------KM  223 (542)
Q Consensus       150 ~~~~g~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~------~~  223 (542)
                      ..+....+....|..........|.                    .+...++.  ...+++..|..++....      +.
T Consensus       156 al~~P~~~~~~~~~~~~~~e~~~~~--------------------~~~~~~l~--~~~~~~~~A~~~~~~~~~~~~~l~~  213 (530)
T 2ooe_A          156 GCVNPMINIEQLWRDYNKYEEGINI--------------------HLAKKMIE--DRSRDYMNARRVAKEYETVMKGLDR  213 (530)
T ss_dssp             HTTSCCTTHHHHHHHHHHHHHHHCH--------------------HHHHHHHH--TTHHHHHHHHHHHHHHHHHHHHCCS
T ss_pred             HHhchhhhHHHHHHHHHHHHHhhch--------------------hHHHHHHH--HhhHHHHHHHHHHHHHHHHHHHhcc
Confidence            7763111111222222211100010                    00001110  12233444554444321      11


Q ss_pred             C---CCCC--------hhHHHHHHHHHHhc----CcH----HHHHHHHHHHHhcCCCCcHHHHHHHHHHHHc-------c
Q 038401          224 G---IDPS--------VVSYNTLLRVYGEA----ELF----GEAIHLFRLMQRKEIEQNVVTYNTMIKIYGK-------S  277 (542)
Q Consensus       224 ~---~~~~--------~~~~~~ll~~~~~~----~~~----~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~  277 (542)
                      .   ++|+        ...|...+......    ++.    ..+..+|++..... +.+...|..++..+.+       .
T Consensus       214 ~~~~~~p~~~~~~~~~~~~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~  292 (530)
T 2ooe_A          214 NAPSVPPQNTPQEAQQVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEK  292 (530)
T ss_dssp             SSCCCCCC--CCHHHHHHHHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTT
T ss_pred             ccccCCCCCChhHHHHHHHHHHHHHHHHcCCccCCcchhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhc
Confidence            1   1222        12333333222111    111    24555666655542 3345556666555553       4


Q ss_pred             CCHH-------HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCH-HHHHHHHHHHHHcCC
Q 038401          278 LEHE-------KATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDP-VLYQTMIVAYERVGL  349 (542)
Q Consensus       278 ~~~~-------~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~  349 (542)
                      |+++       +|..++++..+.-.+.+...|..++..+.+.|++++|..+|+++.+.. +.+. ..|..++..+.+.|+
T Consensus       293 g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~  371 (530)
T 2ooe_A          293 GDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIE-DIDPTLVYIQYMKFARRAEG  371 (530)
T ss_dssp             TCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSS-SSCHHHHHHHHHHHHHHHHH
T ss_pred             cchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCcc-ccCchHHHHHHHHHHHHhcC
Confidence            6654       566666665542112235556666666666666666666666666542 1122 355555555555555


Q ss_pred             HHHHHHHHHHhcCCCCCCHHHH-HHH---HHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 038401          350 VAHAKRLLHELRQPNTIPRETA-ITI---LARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEK  425 (542)
Q Consensus       350 ~~~a~~~~~~~~~~~~~~~~~l-~~~---~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  425 (542)
                      +++|..+|++..+..+..+... ..+   +...|+.++|..+|+++++.. +.++..|..++..+.+.|+.++|..+|++
T Consensus       372 ~~~A~~~~~~Al~~~~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~-p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~  450 (530)
T 2ooe_A          372 IKSGRMIFKKAREDARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFER  450 (530)
T ss_dssp             HHHHHHHHHHHHTCTTCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHTTTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccCCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhCCCHhhHHHHHHH
Confidence            5555555555443222221111 111   113455555555555554431 23344455555555555555555555555


Q ss_pred             HHhCC-CCCC--HHHHHHHHHHHhccCcHHHHHHHHHHHHHc
Q 038401          426 MRSAG-YFPD--SHIIALVLNSYGKLREFETADDLYSEMQEE  464 (542)
Q Consensus       426 ~~~~~-~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  464 (542)
                      ++..+ ..|+  ...|...+......|+.+.+..+++++.+.
T Consensus       451 al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~~  492 (530)
T 2ooe_A          451 VLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  492 (530)
T ss_dssp             HHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHH
T ss_pred             HHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            54431 1111  224444444444445555555555555443

>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=99.87  E-value=4.4e-17  Score=165.21  Aligned_cols=383  Identities=13%  Similarity=0.113  Sum_probs=224.1

Q ss_pred             CcHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCCC--CCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHH
Q 038401           17 PSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGI--APDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSN   94 (542)
Q Consensus        17 ~~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~   94 (542)
                      .++.--...+++|...|.+.+|+++++.....+-  .-+...-+.++.+..+. +..+..++..++...    +   ...
T Consensus       983 ~~PeeVs~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~~----d---~~e 1054 (1630)
T 1xi4_A          983 QDPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLDNY----D---APD 1054 (1630)
T ss_pred             cCHHHhHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhhhc----c---HHH
Confidence            3444456677788888888888888888874321  12334455566555554 445555555444321    1   233


Q ss_pred             HHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCC
Q 038401           95 LIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHK  174 (542)
Q Consensus        95 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~  174 (542)
                      +...+...|.+++|..+|++..     ......+.++.   ..+++++|.++.++..      +..+|..+..++...|+
T Consensus      1055 IA~Iai~lglyEEAf~IYkKa~-----~~~~A~~VLie---~i~nldrAiE~Aervn------~p~vWsqLAKAql~~G~ 1120 (1630)
T 1xi4_A         1055 IANIAISNELFEEAFAIFRKFD-----VNTSAVQVLIE---HIGNLDRAYEFAERCN------EPAVWSQLAKAQLQKGM 1120 (1630)
T ss_pred             HHHHHHhCCCHHHHHHHHHHcC-----CHHHHHHHHHH---HHhhHHHHHHHHHhcC------CHHHHHHHHHHHHhCCC
Confidence            5566667777777777777752     11222233322   4566777777666442      46667777777777777


Q ss_pred             hHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHH
Q 038401          175 FVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRL  254 (542)
Q Consensus       175 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~  254 (542)
                      +++|++.|.+.      .|...|..++.++.+.|++++|.+.+....+..  +++...+.++.+|++.+++++...+.  
T Consensus      1121 ~kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI-- 1190 (1630)
T 1xi4_A         1121 VKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI-- 1190 (1630)
T ss_pred             HHHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH--
Confidence            77777777543      356667777777777777777777777666543  33333444677777777666433322  


Q ss_pred             HHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCH
Q 038401          255 MQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDP  334 (542)
Q Consensus       255 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  334 (542)
                        .   .++...|..+...|...|++++|..+|...         ..|..+...+.+.|+++.|.+.+++..      +.
T Consensus      1191 --~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA~------n~ 1250 (1630)
T 1xi4_A         1191 --N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKAN------ST 1250 (1630)
T ss_pred             --h---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHhC------CH
Confidence              1   235555666777777777777777777664         256777777777777777777776652      34


Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhc-
Q 038401          335 VLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRN-  413 (542)
Q Consensus       335 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-  413 (542)
                      .+|..+..+|...|++..|...... ...++.....++..|.+.|.+++|+.+++..+... +.....|+.+..+|++. 
T Consensus      1251 ~aWkev~~acve~~Ef~LA~~cgl~-Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~Le-raH~gmftELaiLyaKy~ 1328 (1630)
T 1xi4_A         1251 RTWKEVCFACVDGKEFRLAQMCGLH-IVVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFK 1328 (1630)
T ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHh-hhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC-hhHhHHHHHHHHHHHhCC
Confidence            5666666666666666666655543 22233344455666666666666666666665442 23344454455444432 


Q ss_pred             -CCHHHHHHHHHHHHhCCCCC------CHHHHHHHHHHHhccCcHHHHH
Q 038401          414 -KKYANVIEVFEKMRSAGYFP------DSHIIALVLNSYGKLREFETAD  455 (542)
Q Consensus       414 -g~~~~A~~~~~~~~~~~~~p------~~~~~~~l~~~~~~~g~~~~A~  455 (542)
                       ++..++.++|..-..  ++|      +...|..+...|.+.|+++.|.
T Consensus      1329 peklmEhlk~f~~rin--i~k~~r~~e~~~lW~elv~LY~~~~e~dnA~ 1375 (1630)
T 1xi4_A         1329 PQKMREHLELFWSRVN--IPKVLRAAEQAHLWAELVFLYDKYEEYDNAI 1375 (1630)
T ss_pred             HHHHHHHHHHHHHhcc--cchHhHHHHHHHHHHHHHHHHHhcccHHHHH
Confidence             334444444443222  222      2345555666666666666555

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.87  E-value=2.1e-19  Score=165.10  Aligned_cols=285  Identities=10%  Similarity=-0.021  Sum_probs=184.5

Q ss_pred             ChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 038401          228 SVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIA  307 (542)
Q Consensus       228 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  307 (542)
                      +...+..+...+...|++++|.++++.+.+.. +.+...+..++..+...|++++|...++++.+.. +.+...+..+..
T Consensus        21 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~   98 (330)
T 3hym_B           21 NLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVGC   98 (330)
T ss_dssp             CCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHH
Confidence            34444555555555555666665555555443 2233344445555555566666666665555542 223445555555


Q ss_pred             HHHhcC-CHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcC---CCCCCHHHHHHHHHHhCCHHH
Q 038401          308 IWGKAG-KLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQ---PNTIPRETAITILARAGRIEE  383 (542)
Q Consensus       308 ~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~  383 (542)
                      .+...| ++++|...++.+.+.. +.+...+..+...+...|++++|...++++..   .+...+..+...+...|++++
T Consensus        99 ~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~  177 (330)
T 3hym_B           99 YYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKGCHLPMLYIGLEYGLTNNSKL  177 (330)
T ss_dssp             HHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCSHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhhHHH
Confidence            555556 5666666666655543 22445555566666666666666666665543   122334445666777778888


Q ss_pred             HHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC--------CCCCHHHHHHHHHHHhccCcHHHHH
Q 038401          384 ATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAG--------YFPDSHIIALVLNSYGKLREFETAD  455 (542)
Q Consensus       384 A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--------~~p~~~~~~~l~~~~~~~g~~~~A~  455 (542)
                      |.+.++++++.. +.+...+..++..+...|++++|+..++++.+..        .+.+..++..++.++...|++++|.
T Consensus       178 A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  256 (330)
T 3hym_B          178 AERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEAL  256 (330)
T ss_dssp             HHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHH
Confidence            888888887763 4567888889999999999999999999887631        1234578888899999999999999


Q ss_pred             HHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHHHHHh-cCCCCCchhHHHHHHHHHH-hhcc
Q 038401          456 DLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLFERLD-SDSNINKKELHHVVAGIYE-RANR  520 (542)
Q Consensus       456 ~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~~~~l~~~~~-~~g~  520 (542)
                      ..++++.+..  +.+...+. ++.++...|++++|.+.+++.. ..|+  ....+..++.++. ..|+
T Consensus       257 ~~~~~a~~~~--~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~--~~~~~~~l~~~~~~~~g~  320 (330)
T 3hym_B          257 DYHRQALVLI--PQNASTYSAIGYIHSLMGNFENAVDYFHTALGLRRD--DTFSVTMLGHCIEMYIGD  320 (330)
T ss_dssp             HHHHHHHHHS--TTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTCSC--CHHHHHHHHHHHHTTTTC
T ss_pred             HHHHHHHhhC--ccchHHHHHHHHHHHHhccHHHHHHHHHHHHccCCC--chHHHHHHHHHHHHHhCc
Confidence            9999999876  22333333 8899999999999999999953 3443  5577888888884 4454

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.86  E-value=1.1e-17  Score=163.81  Aligned_cols=398  Identities=10%  Similarity=0.104  Sum_probs=264.1

Q ss_pred             ChhhhhHHHHhhCCCCCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHH-hccCCHHHHHH----
Q 038401            1 RSVAILDWINEEARYSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCF-GKEGMFDSAIS----   75 (542)
Q Consensus         1 ~A~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~g~~~~a~~----   75 (542)
                      +|+.+|+.+.+.  ++.+...|..++..+.+.|++++|..+|+++.+..  |+...|...+... ...|+++.|.+    
T Consensus        30 ~a~~~~e~al~~--~P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~--p~~~lw~~~~~~~~~~~~~~~~a~~~~~~  105 (530)
T 2ooe_A           30 KARKTYERLVAQ--FPSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKV--LHIDLWKCYLSYVRETKGKLPSYKEKMAQ  105 (530)
T ss_dssp             HHHHHHHHHHTT--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTC--CCHHHHHHHHHHHHHHTTTSTTHHHHHHH
T ss_pred             HHHHHHHHHHHH--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC--CChHHHHHHHHHHHHHccchhhHHHHHHH
Confidence            367888988865  46678899999999999999999999999999874  6888888887533 45677776665    


Q ss_pred             HHHHHHhC-CCCC-CHHhHHHHHHHHHh---------cCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHH
Q 038401           76 WLQQMEQD-RVSG-DLVLYSNLIELARK---------LSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEAR  144 (542)
Q Consensus        76 ~~~~~~~~-~~~~-~~~~~~~l~~~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  144 (542)
                      +|+..... |..| +...|...+.....         .|+++.|..+|++..+....+....|..........|. ..+ 
T Consensus       106 ~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~P~~~~~~~~~~~~~~e~~~~~-~~~-  183 (530)
T 2ooe_A          106 AYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVNPMINIEQLWRDYNKYEEGINI-HLA-  183 (530)
T ss_dssp             HHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTSCCTTHHHHHHHHHHHHHHHCH-HHH-
T ss_pred             HHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHhhch-hHH-
Confidence            77776553 4433 56778887777655         68899999999999873211112333332221111110 001 


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHHHHHHHHHH------HhcC---CCCC--------hhhHHHHHHHHhc-
Q 038401          145 LLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEM------NEVN---CPLD--------LTTCNIMIDVYGQ-  206 (542)
Q Consensus       145 ~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~------~~~~---~~~~--------~~~~~~l~~~~~~-  206 (542)
                                        ..++.  ...+++..|..++..+      .+..   ++|+        ...|...+..... 
T Consensus       184 ------------------~~~l~--~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w~~~~~~e~~~  243 (530)
T 2ooe_A          184 ------------------KKMIE--DRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVDMWKKYIQWEKSN  243 (530)
T ss_dssp             ------------------HHHHH--TTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHHHHHHHHHHHHHC
T ss_pred             ------------------HHHHH--HhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHHHHHHHHHHHHHHcC
Confidence                              11110  0123344455444442      1111   2332        1344444433222 


Q ss_pred             ---cCCH----HHHHHHHHHHHHCCCCCChhHHHHHHHHHHh-------cCcHH-------HHHHHHHHHHhcCCCCcHH
Q 038401          207 ---LDMA----KDADRLFWSMRKMGIDPSVVSYNTLLRVYGE-------AELFG-------EAIHLFRLMQRKEIEQNVV  265 (542)
Q Consensus       207 ---~~~~----~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~-------~~~~~-------~a~~~~~~~~~~~~~~~~~  265 (542)
                         .++.    ..+..+|++..... +.+...|..++..+.+       .|+++       +|..+++...+.-.+.+..
T Consensus       244 ~~~~~~~~~~~~~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~  322 (530)
T 2ooe_A          244 PLRTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNML  322 (530)
T ss_dssp             SSCCSCSHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHH
T ss_pred             CccCCcchhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHH
Confidence               1222    36667787777653 4466777777777664       67776       8888888887632244677


Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCC-H-HHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 038401          266 TYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPN-A-ITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVA  343 (542)
Q Consensus       266 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~-~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  343 (542)
                      .|..++..+.+.|++++|..+|+++.+.  .|+ . ..|..++..+.+.|+++.|..+|++..+.. +.+...+......
T Consensus       323 l~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~-~~~~~~~~~~a~~  399 (530)
T 2ooe_A          323 LYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALM  399 (530)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCT-TCCTHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhcc-CCchHHHHHHHHH
Confidence            8888888888888999999999888875  443 2 467777777788888899999998888763 2233333322222


Q ss_pred             -HHHcCCHHHHHHHHHHhcC---CCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCC-Cc--CHHHHHHHHHHHHhcCCH
Q 038401          344 -YERVGLVAHAKRLLHELRQ---PNTIPRETAITILARAGRIEEATWVFRQAFDAGE-VK--DISVFGCMIELFSRNKKY  416 (542)
Q Consensus       344 -~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~--~~~~~~~l~~~~~~~g~~  416 (542)
                       +...|+.++|..+|+...+   .++..|..++..+.+.|+.++|..+|++++.... .|  ....|...+......|+.
T Consensus       400 ~~~~~~~~~~A~~~~e~al~~~p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~  479 (530)
T 2ooe_A          400 EYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDL  479 (530)
T ss_dssp             HHHHTCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCH
T ss_pred             HHHHcCChhHHHHHHHHHHHHCCCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCH
Confidence             3468889999998887654   2344566667777888999999999999988643 22  255788888888889999


Q ss_pred             HHHHHHHHHHHh
Q 038401          417 ANVIEVFEKMRS  428 (542)
Q Consensus       417 ~~A~~~~~~~~~  428 (542)
                      +.+..+++++.+
T Consensus       480 ~~~~~~~~r~~~  491 (530)
T 2ooe_A          480 ASILKVEKRRFT  491 (530)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999999987

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.86  E-value=8.2e-19  Score=161.12  Aligned_cols=290  Identities=13%  Similarity=0.041  Sum_probs=165.5

Q ss_pred             CHHHHHHHHHHHHHCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhHHHHHHH
Q 038401          158 DTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLR  237 (542)
Q Consensus       158 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  237 (542)
                      +...+..+...+...|++++|.++++++.+.. +.+...+..++.++...|++++|...++++.+.. +.+...+..+..
T Consensus        21 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~   98 (330)
T 3hym_B           21 NLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVGC   98 (330)
T ss_dssp             CCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHH
Confidence            34445555566666666666666666665543 3344455555556666666666666666666543 334555666666


Q ss_pred             HHHhcC-cHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHH
Q 038401          238 VYGEAE-LFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLD  316 (542)
Q Consensus       238 ~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~  316 (542)
                      .+...| ++++|...++...... +.+...|..+...+...|++++|...++++.+.. +.+...+..+...+...|+++
T Consensus        99 ~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~  176 (330)
T 3hym_B           99 YYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLM-KGCHLPMLYIGLEYGLTNNSK  176 (330)
T ss_dssp             HHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-TTCSHHHHHHHHHHHHTTCHH
T ss_pred             HHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHhhHH
Confidence            666666 6666666666665543 2244556666666666666666666666665542 223344555566666666666


Q ss_pred             HHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcC-
Q 038401          317 RAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFRQAFDAG-  395 (542)
Q Consensus       317 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-  395 (542)
                      +|...++.+.+.. +.+...+..+...+...|++++|...+++.                               ++.. 
T Consensus       177 ~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a-------------------------------~~~~~  224 (330)
T 3hym_B          177 LAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDA-------------------------------LEKIK  224 (330)
T ss_dssp             HHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH-------------------------------HHHHT
T ss_pred             HHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHH-------------------------------HHHhh
Confidence            6666666666553 334555555555555555555555555443                               3211 


Q ss_pred             -------CCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCC
Q 038401          396 -------EVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVF  468 (542)
Q Consensus       396 -------~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  468 (542)
                             .+....++..++.++...|++++|+..++++.+.. +.+...+..++.++...|++++|...++++.+..  |
T Consensus       225 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--p  301 (330)
T 3hym_B          225 AIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYHRQALVLI-PQNASTYSAIGYIHSLMGNFENAVDYFHTALGLR--R  301 (330)
T ss_dssp             TTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTC--S
T ss_pred             hccccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhC-ccchHHHHHHHHHHHHhccHHHHHHHHHHHHccC--C
Confidence                   12234566666777777777777777777766632 1234566666677777777777777777776654  2


Q ss_pred             chHHHHH-HHHHH-hccCCh
Q 038401          469 SDQVHFQ-MLSLY-GARKDF  486 (542)
Q Consensus       469 ~~~~~~~-l~~~~-~~~g~~  486 (542)
                      .+...+. ++.++ ...|+.
T Consensus       302 ~~~~~~~~l~~~~~~~~g~~  321 (330)
T 3hym_B          302 DDTFSVTMLGHCIEMYIGDS  321 (330)
T ss_dssp             CCHHHHHHHHHHHHTTTTC-
T ss_pred             CchHHHHHHHHHHHHHhCch
Confidence            2222223 55555 344443

>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=99.86  E-value=1.9e-16  Score=160.67  Aligned_cols=410  Identities=14%  Similarity=0.133  Sum_probs=300.1

Q ss_pred             CHHhHHHHHHHHhccCCHHHHHHHHHHHHhCC--CCCCHHhHHHHHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHH
Q 038401           53 DRYTYSTLITCFGKEGMFDSAISWLQQMEQDR--VSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTM  130 (542)
Q Consensus        53 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  130 (542)
                      ++.-....+++|...|.+.+|++++++..-.+  +.-+...-+.++.+..+. +.....++..++...    +   ...+
T Consensus       984 ~PeeVs~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~~----d---~~eI 1055 (1630)
T 1xi4_A          984 DPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLDNY----D---APDI 1055 (1630)
T ss_pred             CHHHhHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhhhc----c---HHHH
Confidence            45556778888889999999999999987432  113445666677666666 566666666665522    1   3336


Q ss_pred             HHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCH
Q 038401          131 INVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMA  210 (542)
Q Consensus       131 ~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  210 (542)
                      ...+...|.+++|..+|++...     .....+.++.   ..+++++|.++.++.      .++.+|..+..++...|++
T Consensus      1056 A~Iai~lglyEEAf~IYkKa~~-----~~~A~~VLie---~i~nldrAiE~Aerv------n~p~vWsqLAKAql~~G~~ 1121 (1630)
T 1xi4_A         1056 ANIAISNELFEEAFAIFRKFDV-----NTSAVQVLIE---HIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKGMV 1121 (1630)
T ss_pred             HHHHHhCCCHHHHHHHHHHcCC-----HHHHHHHHHH---HHhhHHHHHHHHHhc------CCHHHHHHHHHHHHhCCCH
Confidence            6778889999999999998631     2222233332   778899999998865      3578899999999999999


Q ss_pred             HHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHH
Q 038401          211 KDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEM  290 (542)
Q Consensus       211 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  290 (542)
                      ++|.+.|.+.      .|...|..++.++.+.|++++|.+.+....+..  ++....+.++.+|++.+++++...++   
T Consensus      1122 kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI--- 1190 (1630)
T 1xi4_A         1122 KEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI--- 1190 (1630)
T ss_pred             HHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH---
Confidence            9999999653      467778889999999999999999999877764  33333445889999999888644432   


Q ss_pred             HHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHH
Q 038401          291 QNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRET  370 (542)
Q Consensus       291 ~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  370 (542)
                       .   .++...|..+...|...|++++|..+|..+         ..|..+..++.+.|+++.|.+.+++.  .++.+|..
T Consensus      1191 -~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA--~n~~aWke 1255 (1630)
T 1xi4_A         1191 -N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA--NSTRTWKE 1255 (1630)
T ss_pred             -h---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHh--CCHHHHHH
Confidence             2   456677778899999999999999999985         37899999999999999999999987  45678888


Q ss_pred             HHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHh--cc
Q 038401          371 AITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYG--KL  448 (542)
Q Consensus       371 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~--~~  448 (542)
                      ...+|...|++..|......+     ..++..+..++..|...|.+++|+.+++..+... +-....|..+...|.  +-
T Consensus      1256 v~~acve~~Ef~LA~~cgl~I-----iv~~deLeeli~yYe~~G~feEAI~LlE~aL~Le-raH~gmftELaiLyaKy~p 1329 (1630)
T 1xi4_A         1256 VCFACVDGKEFRLAQMCGLHI-----VVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKP 1329 (1630)
T ss_pred             HHHHHhhhhHHHHHHHHHHhh-----hcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC-hhHhHHHHHHHHHHHhCCH
Confidence            888899999999998876643     3466777889999999999999999999888633 223456655555554  55


Q ss_pred             CcHHHHHHHHHHHHHcCCCCc------hHHHHH-HHHHHhccCChHHHHHHHHH-Hhc----------CCCCCchhHHHH
Q 038401          449 REFETADDLYSEMQEEGCVFS------DQVHFQ-MLSLYGARKDFNMLESLFER-LDS----------DSNINKKELHHV  510 (542)
Q Consensus       449 g~~~~A~~~~~~~~~~~~~~~------~~~~~~-l~~~~~~~g~~~~A~~~~~~-~~~----------~~~~~~~~~~~~  510 (542)
                      ++..++.+.|..-...   ++      +...|. +..+|.+.|+++.|...+-. ...          -....+.+.|+.
T Consensus      1330 eklmEhlk~f~~rini---~k~~r~~e~~~lW~elv~LY~~~~e~dnA~~tm~~h~~~a~~~~~Fk~~i~kv~n~elyyk 1406 (1630)
T 1xi4_A         1330 QKMREHLELFWSRVNI---PKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMNHPTDAWKEGQFKDIITKVANVELYYR 1406 (1630)
T ss_pred             HHHHHHHHHHHHhccc---chHhHHHHHHHHHHHHHHHHHhcccHHHHHHHHHhccHhhhhhHHHHHHhcccccHHHHHH
Confidence            6777777777755442   23      233444 88999999999999832222 110          012235677777


Q ss_pred             HHHHHHhhc
Q 038401          511 VAGIYERAN  519 (542)
Q Consensus       511 l~~~~~~~g  519 (542)
                      .+..|....
T Consensus      1407 ai~Fyl~~~ 1415 (1630)
T 1xi4_A         1407 AIQFYLEFK 1415 (1630)
T ss_pred             HHHHHHhhC
Confidence            777776444

>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=99.86  E-value=1.4e-19  Score=168.99  Aligned_cols=307  Identities=10%  Similarity=-0.024  Sum_probs=196.4

Q ss_pred             HHhccCCHHHHHH-HHHHHHHCCC-CC--ChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccC
Q 038401          203 VYGQLDMAKDADR-LFWSMRKMGI-DP--SVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSL  278 (542)
Q Consensus       203 ~~~~~~~~~~a~~-~~~~~~~~~~-~~--~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  278 (542)
                      ++...|++++|.. .+++...... .|  +...+..+...+...|++++|...++.+.+.. +.+...+..+..++...|
T Consensus        34 ~~~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g  112 (368)
T 1fch_A           34 AHPWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENE  112 (368)
T ss_dssp             ------------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTT
T ss_pred             hhHHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCc
Confidence            3445566666665 5554433210 01  23445566666666666666666666666553 335556666666666666


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Q 038401          279 EHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLH  358 (542)
Q Consensus       279 ~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  358 (542)
                      ++++|...++++.+.. +.+..++..+...+...|++++|...++.+.+.... +...+..+...       ...     
T Consensus       113 ~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~-------~~~-----  178 (368)
T 1fch_A          113 QELLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRYTPA-YAHLVTPAEEG-------AGG-----  178 (368)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTT-TGGGCC--------------------
T ss_pred             CHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHH-------hhh-----
Confidence            6666666666666553 334556666666666666666666666666654311 11111111000       000     


Q ss_pred             HhcCCCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHH
Q 038401          359 ELRQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVK-DISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP-DSH  436 (542)
Q Consensus       359 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~  436 (542)
                        ... ...... +..+...|++++|...++++++..+.. +..++..++.++...|++++|+..|+++++.  .| +..
T Consensus       179 --~~~-~~~~~~-~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~~~~~~  252 (368)
T 1fch_A          179 --AGL-GPSKRI-LGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV--RPNDYL  252 (368)
T ss_dssp             ----------CT-THHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHH
T ss_pred             --hcc-cHHHHH-HHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCCHH
Confidence              000 000011 223338899999999999999875432 5889999999999999999999999999984  35 578


Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHHHHH-hcCCCC---------Cch
Q 038401          437 IIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLFERL-DSDSNI---------NKK  505 (542)
Q Consensus       437 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~~-~~~~~~---------~~~  505 (542)
                      ++..++..+...|++++|...++++.+..  |.+...+. ++.++.+.|++++|...+++. ...|..         ...
T Consensus       253 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  330 (368)
T 1fch_A          253 LWNKLGATLANGNQSEEAVAAYRRALELQ--PGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSE  330 (368)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhh
Confidence            89999999999999999999999999976  23333444 999999999999999999994 333322         115


Q ss_pred             hHHHHHHHHHHhhcchhhHHHHHHHHH
Q 038401          506 ELHHVVAGIYERANRLNDASRIMNRMN  532 (542)
Q Consensus       506 ~~~~~l~~~~~~~g~~~~A~~~~~~~~  532 (542)
                      ..|..++.+|...|++++|..++++..
T Consensus       331 ~~~~~l~~~~~~~g~~~~A~~~~~~~l  357 (368)
T 1fch_A          331 NIWSTLRLALSMLGQSDAYGAADARDL  357 (368)
T ss_dssp             HHHHHHHHHHHHHTCGGGHHHHHTTCH
T ss_pred             HHHHHHHHHHHHhCChHhHHHhHHHHH
Confidence            789999999999999999999987543

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.84  E-value=6.9e-17  Score=156.22  Aligned_cols=381  Identities=13%  Similarity=-0.000  Sum_probs=216.9

Q ss_pred             HhHHHHHHHHHhccCcHHHHHHHHHHHHHc--------CCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhcC------
Q 038401          124 LVAYNTMINVFGKAKLFKEARLLIEEMREQ--------GVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVN------  189 (542)
Q Consensus       124 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--------g~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~------  189 (542)
                      ...|+.|...+...|++++|++.|++..+.        .-+....+|..+..+|...|++++|...+++..+..      
T Consensus        51 a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~  130 (472)
T 4g1t_A           51 ATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSP  130 (472)
T ss_dssp             CHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCS
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcccc
Confidence            334555555555555555555555544321        111234556666666666666666666666554310      


Q ss_pred             -CCCChhhHHHHHHHHhc--cCCHHHHHHHHHHHHHCCCCCChhHHHHHHHH---HHhcCcHHHHHHHHHHHHhcCCCCc
Q 038401          190 -CPLDLTTCNIMIDVYGQ--LDMAKDADRLFWSMRKMGIDPSVVSYNTLLRV---YGEAELFGEAIHLFRLMQRKEIEQN  263 (542)
Q Consensus       190 -~~~~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~---~~~~~~~~~a~~~~~~~~~~~~~~~  263 (542)
                       ......++.....++..  .+++++|...|++..+.. +.++..+..+..+   +...++.++|++.+++..+.. +.+
T Consensus       131 ~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~-p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~-p~~  208 (472)
T 4g1t_A          131 YRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKK-PKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN-PDN  208 (472)
T ss_dssp             SCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC-SSC
T ss_pred             cchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC-Ccc
Confidence             01122334443333333  345777777777777653 2334444444433   234456667777777766653 234


Q ss_pred             HHHHHHHHHHHHc----cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHH
Q 038401          264 VVTYNTMIKIYGK----SLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQT  339 (542)
Q Consensus       264 ~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  339 (542)
                      ...+..+...+..    .++.++|.+.+++..... +.+...+..+...+...|+++.|...++++.+.. +.+..++..
T Consensus       209 ~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~  286 (472)
T 4g1t_A          209 QYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYI-PNNAYLHCQ  286 (472)
T ss_dssp             HHHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC-CChHHHHHH
Confidence            4555555444433    456677888888776653 3456677778888888888888888888887764 335666666


Q ss_pred             HHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHH
Q 038401          340 MIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANV  419 (542)
Q Consensus       340 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  419 (542)
                      +..+|...+....+...            ..........+.++.|...++++.+.. +.+...+..++..+...|++++|
T Consensus       287 lg~~y~~~~~~~~~~~~------------~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~lg~~~~~~~~~~~A  353 (472)
T 4g1t_A          287 IGCCYRAKVFQVMNLRE------------NGMYGKRKLLELIGHAVAHLKKADEAN-DNLFRVCSILASLHALADQYEEA  353 (472)
T ss_dssp             HHHHHHHHHHHHHHC------------------CHHHHHHHHHHHHHHHHHHHHHC-TTTCCCHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHhhhHHH------------HHHHHHHHHHhhHHHHHHHHHHHhhcC-CchhhhhhhHHHHHHHhccHHHH
Confidence            66655432211111100            001111122345678888899888764 35567788899999999999999


Q ss_pred             HHHHHHHHhCCCCCCHH----HHHHHHH-HHhccCcHHHHHHHHHHHHHcCCCCchHHHHHHHHHHhccCChHHHHHHHH
Q 038401          420 IEVFEKMRSAGYFPDSH----IIALVLN-SYGKLREFETADDLYSEMQEEGCVFSDQVHFQMLSLYGARKDFNMLESLFE  494 (542)
Q Consensus       420 ~~~~~~~~~~~~~p~~~----~~~~l~~-~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  494 (542)
                      +..|+++++..  |+..    .+..+.. .....|+.++|+..|+++++..   |+.....        +..+.+.++++
T Consensus       354 ~~~~~kaL~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~---~~~~~~~--------~~~~~l~~~~~  420 (472)
T 4g1t_A          354 EYYFQKEFSKE--LTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKIN---QKSREKE--------KMKDKLQKIAK  420 (472)
T ss_dssp             HHHHHHHHHSC--CCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSC---CCCHHHH--------HHHHHHHHHHH
T ss_pred             HHHHHHHHhcC--CCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC---cccHHHH--------HHHHHHHHHHH
Confidence            99999999854  4432    2233332 3357899999999999999976   3322221        11233445555


Q ss_pred             H-HhcCCCCCchhHHHHHHHHHHhhcchhhHHHHHHHHHhcCC
Q 038401          495 R-LDSDSNINKKELHHVVAGIYERANRLNDASRIMNRMNKRRT  536 (542)
Q Consensus       495 ~-~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  536 (542)
                      + +..+|.  ...+|..++.+|...|++++|++.|+++.+.+.
T Consensus       421 ~~l~~~p~--~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~  461 (472)
T 4g1t_A          421 MRLSKNGA--DSEALHVLAFLQELNEKMQQADEDSERGLESGS  461 (472)
T ss_dssp             HHHHHCC---CTTHHHHHHHHHHHHHHCC--------------
T ss_pred             HHHHhCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Confidence            5 455555  457899999999999999999999999988653

>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=99.83  E-value=2.5e-18  Score=160.50  Aligned_cols=310  Identities=10%  Similarity=0.016  Sum_probs=177.8

Q ss_pred             hcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHH-HHHHHHhCCCC---CCHHhHHHHHHHHHhcCCHHH
Q 038401           32 AKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAIS-WLQQMEQDRVS---GDLVLYSNLIELARKLSDYSK  107 (542)
Q Consensus        32 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~-~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~  107 (542)
                      .+.++.+...|+.+...+.  +         ++...|++++|++ .+++.......   .+...+..+...+...|++++
T Consensus        14 ~~~~~~~~~~~~~~~~~~~--~---------~~~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~   82 (368)
T 1fch_A           14 VDFWDKLQAELEEMAKRDA--E---------AHPWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPN   82 (368)
T ss_dssp             -------------------------------------------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHH
T ss_pred             cccHHHHHHHHHHHHcCCc--h---------hhHHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHH
Confidence            3445555556666555421  1         2334578888887 77765544221   134567778888888899999


Q ss_pred             HHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHh
Q 038401          108 AISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNE  187 (542)
Q Consensus       108 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  187 (542)
                      |...|+++.+.. +.+..++..+..++...|++++|...++++.+.. +.+..++..+...+...|++++|.+.++++..
T Consensus        83 A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  160 (368)
T 1fch_A           83 AVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLR  160 (368)
T ss_dssp             HHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            999999888764 4567788888888888899999999998888764 34677888888888889999999999888887


Q ss_pred             cCCCCChhhHHH---------------HHHHHhccCCHHHHHHHHHHHHHCCCCC--ChhHHHHHHHHHHhcCcHHHHHH
Q 038401          188 VNCPLDLTTCNI---------------MIDVYGQLDMAKDADRLFWSMRKMGIDP--SVVSYNTLLRVYGEAELFGEAIH  250 (542)
Q Consensus       188 ~~~~~~~~~~~~---------------l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~ll~~~~~~~~~~~a~~  250 (542)
                      ... .+...+..               .+..+...|++++|...++.+.+.. +.  +..++..+...+...|++++|..
T Consensus       161 ~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~l~~~~~~~g~~~~A~~  238 (368)
T 1fch_A          161 YTP-AYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLD-PTSIDPDVQCGLGVLFNLSGEYDKAVD  238 (368)
T ss_dssp             TST-TTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHS-TTSCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             hCc-CcHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhC-cCcccHHHHHHHHHHHHHcCCHHHHHH
Confidence            642 22222221               1222225566666666666666543 11  35556666666666666666666


Q ss_pred             HHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 038401          251 LFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGV  330 (542)
Q Consensus       251 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  330 (542)
                      .++.+.... +.+...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...|+.+.+...
T Consensus       239 ~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~  316 (368)
T 1fch_A          239 CFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEALNMQR  316 (368)
T ss_dssp             HHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC
Confidence            666665543 2345566666666666666666666666665542 23455566666666666666666666666554321


Q ss_pred             CC----------CHHHHHHHHHHHHHcCCHHHHHHHHH
Q 038401          331 EI----------DPVLYQTMIVAYERVGLVAHAKRLLH  358 (542)
Q Consensus       331 ~~----------~~~~~~~l~~~~~~~~~~~~a~~~~~  358 (542)
                      ..          ...+|..+..++...|++++|..++.
T Consensus       317 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  354 (368)
T 1fch_A          317 KSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAADA  354 (368)
T ss_dssp             TC------CCCCCHHHHHHHHHHHHHHTCGGGHHHHHT
T ss_pred             CCCCccccccchhhHHHHHHHHHHHHhCChHhHHHhHH
Confidence            10          14555556666666666666555543

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=99.83  E-value=8.7e-19  Score=159.20  Aligned_cols=393  Identities=11%  Similarity=0.140  Sum_probs=166.8

Q ss_pred             HhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHH
Q 038401           31 RAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAIS  110 (542)
Q Consensus        31 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  110 (542)
                      +.|++++|.+.++++      +++.+|..++.++.+.|++++|++.|.+.      +|...|..++..+...|++++|..
T Consensus        15 ~~~~ld~A~~fae~~------~~~~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi~   82 (449)
T 1b89_A           15 HIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVK   82 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhC------CChHHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHHH
Confidence            567788999988887      34568999999999999999999998653      477788888889999999999999


Q ss_pred             HHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhcCC
Q 038401          111 IFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNC  190 (542)
Q Consensus       111 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  190 (542)
                      +++...+.  .+++.+.+.++.+|.+.|+++++.++++       .|+..+|..+...|...|.+++|...|..+     
T Consensus        83 yl~~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a-----  148 (449)
T 1b89_A           83 YLQMARKK--ARESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV-----  148 (449)
T ss_dssp             ----------------------------CHHHHTTTTT-------CC----------------CTTTHHHHHHHT-----
T ss_pred             HHHHHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh-----
Confidence            88777764  4557788889999999999988887774       367778899999999999999999999866     


Q ss_pred             CCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCcHHHHHHH
Q 038401          191 PLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTM  270 (542)
Q Consensus       191 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  270 (542)
                          ..|..++.++.+.|++++|.+.+.++      .++.+|..++.+|...|+++.|......+.     .++.....+
T Consensus       149 ----~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~-----~~ad~l~~l  213 (449)
T 1b89_A          149 ----SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV-----VHADELEEL  213 (449)
T ss_dssp             ----TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT-----TCHHHHHHH
T ss_pred             ----hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHHH-----hCHhhHHHH
Confidence                36888888899999999988888877      267888888888888888888855544322     233334567


Q ss_pred             HHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc-CCCC------CHHHHHHHHHH
Q 038401          271 IKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSS-GVEI------DPVLYQTMIVA  343 (542)
Q Consensus       271 ~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~------~~~~~~~l~~~  343 (542)
                      +..|.+.|.+++|..+++...... +-....|+.+..++++- ++++..+.++...+. +++|      +...|..++-.
T Consensus       214 v~~Yek~G~~eEai~lLe~aL~le-~ah~~~ftel~il~~ky-~p~k~~ehl~~~~~~ini~k~~~~~~~~~~w~e~~~l  291 (449)
T 1b89_A          214 INYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKF-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFL  291 (449)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTT-CHHHHHHHHHHHSTTSCHHHHHHHHHTTTCHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHhCCc-HHHHHHHHHHHHHHHhc-CHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHH
Confidence            888888888888888888877553 33456677776666543 344444444332221 1111      23344555555


Q ss_pred             HHHcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHH
Q 038401          344 YERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVF  423 (542)
Q Consensus       344 ~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  423 (542)
                      |...++++.|....-+-.   +..|.               ...|..++..  ..+...|-..+..|.  +....++.-+
T Consensus       292 y~~~~e~d~A~~tm~~h~---~~a~~---------------~~~f~~~~~k--v~n~elyYkai~fyl--~~~p~~l~~l  349 (449)
T 1b89_A          292 YDKYEEYDNAIITMMNHP---TDAWK---------------EGQFKDIITK--VANVELYYRAIQFYL--EFKPLLLNDL  349 (449)
T ss_dssp             HHHTTCHHHHHHHHHHST---TTTCC---------------HHHHHHHHHH--CSSTHHHHHHHHHHH--HHCGGGHHHH
T ss_pred             HHhhchHHHHHHHHHhCC---hhhhh---------------hHHHHHHHhc--hhHHHHHHHHHHHHH--hcCHHHHHHH
Confidence            555555555544322211   11110               0122222221  233444444444444  2223333333


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHHHHHHHhccCChHHHHHHHHHH
Q 038401          424 EKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQMLSLYGARKDFNMLESLFERL  496 (542)
Q Consensus       424 ~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  496 (542)
                      -..+...+.|     ..++..+.+.|...-+..++..+...+   ...+.-.+-.+|....+++.-+..++..
T Consensus       350 l~~l~~~ld~-----~r~v~~~~~~~~l~l~~~yl~~v~~~n---~~~vnealn~l~ieeed~~~lr~si~~~  414 (449)
T 1b89_A          350 LMVLSPRLDH-----TRAVNYFSKVKQLPLVKPYLRSVQNHN---NKSVNESLNNLFITEEDYQALRTSIDAY  414 (449)
T ss_dssp             HHHHGGGCCH-----HHHHHHHHHTTCTTTTHHHHHHHHTTC---CHHHHHHHHHHHHHTTCHHHHHHHHHHC
T ss_pred             HHHHHhccCc-----HHHHHHHHHcCCcHHHHHHHHHHHHhh---HHHHHHHHHHHHHhhhhHHHHHHHHHHh
Confidence            3333211222     233445566677777777776666654   3444444777888888888777776654

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.83  E-value=1.3e-18  Score=162.32  Aligned_cols=274  Identities=7%  Similarity=-0.075  Sum_probs=189.7

Q ss_pred             hhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 038401          229 VVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAI  308 (542)
Q Consensus       229 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~  308 (542)
                      ...+..+...+.+.|++++|...|+.+.... +.+..++..+...+...|++++|...|+++.+.. +.+..++..+...
T Consensus        65 ~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~  142 (365)
T 4eqf_A           65 WPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAVS  142 (365)
T ss_dssp             CTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHH
Confidence            3446666667777777777777777776654 3356667777777777777777777777766653 2345666666667


Q ss_pred             HHhcCCHHHHHHHHHHHHhcCCCCCH-HHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCHHHHHHH
Q 038401          309 WGKAGKLDRAAMLFQKLRSSGVEIDP-VLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWV  387 (542)
Q Consensus       309 ~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  387 (542)
                      +...|++++|...++++.+..  |+. ..+..+.                     ........+...+...|++++|.+.
T Consensus       143 ~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~---------------------~~~~~~~~l~~~~~~~g~~~~A~~~  199 (365)
T 4eqf_A          143 YTNTSHQQDACEALKNWIKQN--PKYKYLVKNKK---------------------GSPGLTRRMSKSPVDSSVLEGVKEL  199 (365)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC--HHHHCC----------------------------------------CCHHHHHHHHH
T ss_pred             HHccccHHHHHHHHHHHHHhC--ccchHHHhhhc---------------------cchHHHHHHHHHHhhhhhHHHHHHH
Confidence            777777777777777666542  111 1111000                     0112233446677788899999999


Q ss_pred             HHHHHHcCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCC
Q 038401          388 FRQAFDAGEVK-DISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGC  466 (542)
Q Consensus       388 ~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  466 (542)
                      ++++++..+.. ++.++..++..+...|++++|+..|+++++.. +.+..+|..++.+|...|++++|+..|+++++.. 
T Consensus       200 ~~~al~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-  277 (365)
T 4eqf_A          200 YLEAAHQNGDMIDPDLQTGLGVLFHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQ-  277 (365)
T ss_dssp             HHHHHHHSCSSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHhCcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-
Confidence            99998874321 68899999999999999999999999999843 2357889999999999999999999999999976 


Q ss_pred             CCchHHHHH-HHHHHhccCChHHHHHHHHHH-hcCCCCC----------chhHHHHHHHHHHhhcchhhHHHHHHH
Q 038401          467 VFSDQVHFQ-MLSLYGARKDFNMLESLFERL-DSDSNIN----------KKELHHVVAGIYERANRLNDASRIMNR  530 (542)
Q Consensus       467 ~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~~-~~~~~~~----------~~~~~~~l~~~~~~~g~~~~A~~~~~~  530 (542)
                       |.+...+. ++.+|...|++++|...+++. ...|...          ....|..++.++...|+.+.|....++
T Consensus       278 -p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          278 -PGFIRSRYNLGISCINLGAYREAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             -TTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             -CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence             22334444 999999999999999999994 3232211          247899999999999999999888766

>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=1.4e-19  Score=164.44  Aligned_cols=375  Identities=10%  Similarity=0.124  Sum_probs=166.8

Q ss_pred             HhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHHHH
Q 038401          100 RKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEAL  179 (542)
Q Consensus       100 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a~  179 (542)
                      .+.|++++|.++++++      +++.+|..|..++.+.|++++|.+.|.+.      +|..+|..++.++...|++++|+
T Consensus        14 ~~~~~ld~A~~fae~~------~~~~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi   81 (449)
T 1b89_A           14 EHIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELV   81 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHccCHHHHHHHHHhC------CChHHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHH
Confidence            3678899999998887      34468999999999999999999999653      47778999999999999999999


Q ss_pred             HHHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcC
Q 038401          180 SVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKE  259 (542)
Q Consensus       180 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  259 (542)
                      ..++...+.  .+++.+.+.++.+|.+.|+++++.++++       .|+..+|..+...|...|.+++|...|..+    
T Consensus        82 ~yl~~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a----  148 (449)
T 1b89_A           82 KYLQMARKK--ARESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV----  148 (449)
T ss_dssp             -----------------------------CHHHHTTTTT-------CC----------------CTTTHHHHHHHT----
T ss_pred             HHHHHHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh----
Confidence            988777664  3557788899999999999999888774       467779999999999999999999999866    


Q ss_pred             CCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHH
Q 038401          260 IEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQT  339 (542)
Q Consensus       260 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  339 (542)
                           ..|..++.++.+.|++++|.+.+.++      .++.+|..++.+|...|+++.|......     +...+.....
T Consensus       149 -----~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~-----L~~~ad~l~~  212 (449)
T 1b89_A          149 -----SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLH-----IVVHADELEE  212 (449)
T ss_dssp             -----TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTT-----TTTCHHHHHH
T ss_pred             -----hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHH-----HHhCHhhHHH
Confidence                 36889999999999999999999888      2788999999999999999999655443     2335555667


Q ss_pred             HHHHHHHcCCHHHHHHHHHHhcCCCCCC---HHHHHHHHHH--hCCHHHHHHHHHHHHHcCCCc------CHHHHHHHHH
Q 038401          340 MIVAYERVGLVAHAKRLLHELRQPNTIP---RETAITILAR--AGRIEEATWVFRQAFDAGEVK------DISVFGCMIE  408 (542)
Q Consensus       340 l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~l~~~~~~--~g~~~~A~~~~~~~~~~~~~~------~~~~~~~l~~  408 (542)
                      ++..|.+.|.+++|..+++.....+...   ++.+.-++++  -++..+.++.|..-+.  ++|      +...|..++.
T Consensus       213 lv~~Yek~G~~eEai~lLe~aL~le~ah~~~ftel~il~~ky~p~k~~ehl~~~~~~in--i~k~~~~~~~~~~w~e~~~  290 (449)
T 1b89_A          213 LINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFKPQKMREHLELFWSRVN--IPKVLRAAEQAHLWAELVF  290 (449)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHTTSTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHSTTSC--HHHHHHHHHTTTCHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhc--CcHHHHHHHHHHHHHHHHH
Confidence            8889999999999999999887654333   3444444443  3455555555553322  222      3567888999


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCC-CCCCHHHHHHHHHHHhccCcHHHHHHHHH-----------HHHHcCCCCchHHHHHH
Q 038401          409 LFSRNKKYANVIEVFEKMRSAG-YFPDSHIIALVLNSYGKLREFETADDLYS-----------EMQEEGCVFSDQVHFQM  476 (542)
Q Consensus       409 ~~~~~g~~~~A~~~~~~~~~~~-~~p~~~~~~~l~~~~~~~g~~~~A~~~~~-----------~~~~~~~~~~~~~~~~l  476 (542)
                      .|.+.++++.|..   .|.+.. ..-+...+.-++.--....-+-+|..+|=           ..+.     |...+-..
T Consensus       291 ly~~~~e~d~A~~---tm~~h~~~a~~~~~f~~~~~kv~n~elyYkai~fyl~~~p~~l~~ll~~l~-----~~ld~~r~  362 (449)
T 1b89_A          291 LYDKYEEYDNAII---TMMNHPTDAWKEGQFKDIITKVANVELYYRAIQFYLEFKPLLLNDLLMVLS-----PRLDHTRA  362 (449)
T ss_dssp             HHHHTTCHHHHHH---HHHHSTTTTCCHHHHHHHHHHCSSTHHHHHHHHHHHHHCGGGHHHHHHHHG-----GGCCHHHH
T ss_pred             HHHhhchHHHHHH---HHHhCChhhhhhHHHHHHHhchhHHHHHHHHHHHHHhcCHHHHHHHHHHHH-----hccCcHHH
Confidence            9999999998886   444421 11122333333221122222223333332           2221     11111223


Q ss_pred             HHHHhccCChHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhhcchhhHHHHH
Q 038401          477 LSLYGARKDFNMLESLFERLDSDSNINKKELHHVVAGIYERANRLNDASRIM  528 (542)
Q Consensus       477 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  528 (542)
                      +..+.+.|+..-+..+++.+... +  ....-..+-++|...++++.=..-.
T Consensus       363 v~~~~~~~~l~l~~~yl~~v~~~-n--~~~vnealn~l~ieeed~~~lr~si  411 (449)
T 1b89_A          363 VNYFSKVKQLPLVKPYLRSVQNH-N--NKSVNESLNNLFITEEDYQALRTSI  411 (449)
T ss_dssp             HHHHHHTTCTTTTHHHHHHHHTT-C--CHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHcCCcHHHHHHHHHHHHh-h--HHHHHHHHHHHHHhhhhHHHHHHHH
Confidence            34445555555555555555432 1  3456667777888887776544443

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.81  E-value=1.1e-17  Score=156.05  Aligned_cols=263  Identities=10%  Similarity=-0.035  Sum_probs=133.0

Q ss_pred             hHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHh
Q 038401           56 TYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFG  135 (542)
Q Consensus        56 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  135 (542)
                      .|..+...+.+.|++++|++.|+++.+..+ .+...+..+..++...|++++|...|+++.+.. +.+..++..+..++.
T Consensus        67 ~~~~~~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~  144 (365)
T 4eqf_A           67 GAFEEGLKRLKEGDLPVTILFMEAAILQDP-GDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAVSYT  144 (365)
T ss_dssp             THHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCc-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHH
Confidence            344455555555555555555555544422 244455555555555555555555555554432 223444555555555


Q ss_pred             ccCcHHHHHHHHHHHHHcCCCCC-----------HHHHHHHHHHHHHCCChHHHHHHHHHHHhcCCC-CChhhHHHHHHH
Q 038401          136 KAKLFKEARLLIEEMREQGVKPD-----------TVSYSTLLNLYVENHKFVEALSVFAEMNEVNCP-LDLTTCNIMIDV  203 (542)
Q Consensus       136 ~~~~~~~a~~~~~~~~~~g~~~~-----------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~  203 (542)
                      ..|++++|...++++.+..  |+           ...+..+...+...|++++|.+.++++.+.... ++..++..+...
T Consensus       145 ~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~  222 (365)
T 4eqf_A          145 NTSHQQDACEALKNWIKQN--PKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVL  222 (365)
T ss_dssp             HTTCHHHHHHHHHHHHHHC--HHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHH
T ss_pred             ccccHHHHHHHHHHHHHhC--ccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHH
Confidence            5555555555555554431  11           112223345555556666666666655554311 135555555566


Q ss_pred             HhccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHH
Q 038401          204 YGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKA  283 (542)
Q Consensus       204 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  283 (542)
                      +...|++++|...++++.+.. +.+..++..+..++...|++++|...|+.+.+.. +.+..++..+..+|...|++++|
T Consensus       223 ~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A  300 (365)
T 4eqf_A          223 FHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCINLGAYREA  300 (365)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHHH
Confidence            666666666666666655543 3345556666666666666666666666655543 22455566666666666666666


Q ss_pred             HHHHHHHHHcCC---C--------CCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 038401          284 TNLMQEMQNRGI---E--------PNAITYSTIIAIWGKAGKLDRAAMLFQK  324 (542)
Q Consensus       284 ~~~~~~~~~~~~---~--------p~~~~~~~l~~~~~~~~~~~~a~~~~~~  324 (542)
                      ...++++.+...   .        .+...|..+..++...|+.+.+..+...
T Consensus       301 ~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          301 VSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             HHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             HHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            666666544310   0        0234566666666666776666665543

>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=99.81  E-value=5.1e-18  Score=155.58  Aligned_cols=278  Identities=8%  Similarity=-0.001  Sum_probs=192.0

Q ss_pred             hHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 038401          230 VSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIW  309 (542)
Q Consensus       230 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  309 (542)
                      ..+..+...+...|++++|..+++.+.+.. +.+...+..+...+...|++++|...++++.+.. +.+..++..+...+
T Consensus        22 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~   99 (327)
T 3cv0_A           22 ENPMEEGLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSH   99 (327)
T ss_dssp             SCHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHHHH
Confidence            345556666667777777777777766653 3355666666667777777777777777766552 33455666666666


Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHH-HH-HHHHhCCHHHHHHH
Q 038401          310 GKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETA-IT-ILARAGRIEEATWV  387 (542)
Q Consensus       310 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l-~~-~~~~~g~~~~A~~~  387 (542)
                      ...|++++|...++.+.+... .+...+..+...+                  +.......+ .. .+...|++++|...
T Consensus       100 ~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~~A~~~  160 (327)
T 3cv0_A          100 TNEHNANAALASLRAWLLSQP-QYEQLGSVNLQAD------------------VDIDDLNVQSEDFFFAAPNEYRECRTL  160 (327)
T ss_dssp             HHTTCHHHHHHHHHHHHHTST-TTTTC--------------------------------------CCTTSHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhCC-ccHHHHHHHhHHH------------------HHHHHHHHHHHhHHHHHcccHHHHHHH
Confidence            677777777777766665431 1222222111100                  000000011 12 35677899999999


Q ss_pred             HHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCC
Q 038401          388 FRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCV  467 (542)
Q Consensus       388 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  467 (542)
                      ++++++.. +.+...+..++..+...|++++|+..++++.+.. +.+...+..++..+...|++++|...++++.+..  
T Consensus       161 ~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--  236 (327)
T 3cv0_A          161 LHAALEMN-PNDAQLHASLGVLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAYNRALDIN--  236 (327)
T ss_dssp             HHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--
T ss_pred             HHHHHhhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--
Confidence            99998874 3578899999999999999999999999998843 2357889999999999999999999999999876  


Q ss_pred             CchHHHHH-HHHHHhccCChHHHHHHHHHH-hcCCCC---C-------chhHHHHHHHHHHhhcchhhHHHHHHHHH
Q 038401          468 FSDQVHFQ-MLSLYGARKDFNMLESLFERL-DSDSNI---N-------KKELHHVVAGIYERANRLNDASRIMNRMN  532 (542)
Q Consensus       468 ~~~~~~~~-l~~~~~~~g~~~~A~~~~~~~-~~~~~~---~-------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  532 (542)
                      +.+...+. ++.++...|++++|.+.+++. ...|..   .       ....|..++.+|...|++++|..++++..
T Consensus       237 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l  313 (327)
T 3cv0_A          237 PGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQNV  313 (327)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCCS
T ss_pred             CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            22333344 999999999999999999994 333331   0       35788999999999999999999987643

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.81  E-value=2.2e-17  Score=147.38  Aligned_cols=272  Identities=11%  Similarity=0.083  Sum_probs=149.9

Q ss_pred             HhcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 038401          240 GEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAA  319 (542)
Q Consensus       240 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~  319 (542)
                      ...|++..|+...+........+.......+.++|...|+++.|+..++..    -+|+..++..+...+...++.+.|+
T Consensus        10 ~~~g~y~~ai~~~~~~~~~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~~----~~~~~~a~~~la~~~~~~~~~~~A~   85 (291)
T 3mkr_A           10 FYIGSYQQCINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKPS----SAPELQAVRMFAEYLASHSRRDAIV   85 (291)
T ss_dssp             HHTTCHHHHHHHHHHSCCCSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCTT----SCHHHHHHHHHHHHHHCSTTHHHHH
T ss_pred             HHHHHHHHHHHHHHhcccCCchhhHHHHHHHHHHHHHCCCHHHHHHHhccc----CChhHHHHHHHHHHHcCCCcHHHHH
Confidence            345566666655554433211111223344455666666666665544331    2344455555555666666666666


Q ss_pred             HHHHHHHhcCC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCc
Q 038401          320 MLFQKLRSSGV-EIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVK  398 (542)
Q Consensus       320 ~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  398 (542)
                      +.++++...+. +.+...+..+...+...|++++|.+.+++  ..+...+..++.++.+.|++++|.+.|+++.+..  |
T Consensus        86 ~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~--~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~--p  161 (291)
T 3mkr_A           86 AELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ--GDSLECMAMTVQILLKLDRLDLARKELKKMQDQD--E  161 (291)
T ss_dssp             HHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT--CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--T
T ss_pred             HHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--c
Confidence            66666655442 22344455555566666666666666655  2233334445556666677777777777766653  2


Q ss_pred             CHH-H--HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH
Q 038401          399 DIS-V--FGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ  475 (542)
Q Consensus       399 ~~~-~--~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  475 (542)
                      +.. .  ...++..+...|++++|..+|+++.+. .+.+...++.++.++.+.|++++|...++++++..  |.+...+.
T Consensus       162 ~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~-~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~--p~~~~~l~  238 (291)
T 3mkr_A          162 DATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK-CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD--SGHPETLI  238 (291)
T ss_dssp             TCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHH
T ss_pred             CcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHH
Confidence            211 1  112223334457777777777777764 23456677777777777777777777777777765  22233333


Q ss_pred             -HHHHHhccCChHH-HHHHHHHH-hcCCCCCchhHHHHHHHHHHhhcchhhHHHHH
Q 038401          476 -MLSLYGARKDFNM-LESLFERL-DSDSNINKKELHHVVAGIYERANRLNDASRIM  528 (542)
Q Consensus       476 -l~~~~~~~g~~~~-A~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  528 (542)
                       ++.++...|+.++ +.++++++ ..+|+..      .+.+...+.+.+++|..-|
T Consensus       239 ~l~~~~~~~g~~~eaa~~~~~~~~~~~P~~~------~~~d~~~~~~~fd~~~~~~  288 (291)
T 3mkr_A          239 NLVVLSQHLGKPPEVTNRYLSQLKDAHRSHP------FIKEYRAKENDFDRLVLQY  288 (291)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHHHHHCTTCH------HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHHhCCCCh------HHHHHHHHHHHHHHHHHHc
Confidence             6777777777765 45677663 3444421      2234455555555555433

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.81  E-value=1.3e-17  Score=148.91  Aligned_cols=241  Identities=9%  Similarity=0.111  Sum_probs=145.5

Q ss_pred             HHHHHHHhcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHhc
Q 038401          234 TLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEP-NAITYSTIIAIWGKA  312 (542)
Q Consensus       234 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~  312 (542)
                      .+..+|...|+++.|+..++..    .+|+..++..+...+...++.++|++.++++...+..| +...+..+...+...
T Consensus        39 ~l~r~yi~~g~~~~al~~~~~~----~~~~~~a~~~la~~~~~~~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~  114 (291)
T 3mkr_A           39 FLYRAYLAQRKYGVVLDEIKPS----SAPELQAVRMFAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYD  114 (291)
T ss_dssp             HHHHHHHHTTCHHHHHHHSCTT----SCHHHHHHHHHHHHHHCSTTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHCCCHHHHHHHhccc----CChhHHHHHHHHHHHcCCCcHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHC
Confidence            3444555555555555433221    13344445555555555555555555555555443323 233334444455555


Q ss_pred             CCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCH-HHHH----HHHHHhCCHHHHHHH
Q 038401          313 GKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPR-ETAI----TILARAGRIEEATWV  387 (542)
Q Consensus       313 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~l~----~~~~~~g~~~~A~~~  387 (542)
                      |++++|+..++.      +.+...+..++..+.+.|++++|.+.++++...++... ..+.    ..+...|++++|..+
T Consensus       115 g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~l~~a~~~l~~~~~~~~eA~~~  188 (291)
T 3mkr_A          115 QNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKELKKMQDQDEDATLTQLATAWVSLAAGGEKLQDAYYI  188 (291)
T ss_dssp             TCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTTHHHHHHHH
T ss_pred             CCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcCcHHHHHHHHHHHHHhCchHHHHHHHH
Confidence            555555555544      23445555555555555555555555555543222221 1111    222344888999999


Q ss_pred             HHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHH-HHHHHHHHHHcC
Q 038401          388 FRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFET-ADDLYSEMQEEG  465 (542)
Q Consensus       388 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~-A~~~~~~~~~~~  465 (542)
                      |+++++. .+.++..++.++.++.+.|++++|+..|+++++.  .| +..++..++..+...|+.++ +.++++++.+.+
T Consensus       189 ~~~~l~~-~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~--~p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~  265 (291)
T 3mkr_A          189 FQEMADK-CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDK--DSGHPETLINLVVLSQHLGKPPEVTNRYLSQLKDAH  265 (291)
T ss_dssp             HHHHHHH-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHh-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhC
Confidence            9999887 4578899999999999999999999999999884  35 66888889999999999876 678999999877


Q ss_pred             CCCchHHHHHHHHHHhccCChHHHHHH
Q 038401          466 CVFSDQVHFQMLSLYGARKDFNMLESL  492 (542)
Q Consensus       466 ~~~~~~~~~~l~~~~~~~g~~~~A~~~  492 (542)
                         |+....  .....+.+.++++..-
T Consensus       266 ---P~~~~~--~d~~~~~~~fd~~~~~  287 (291)
T 3mkr_A          266 ---RSHPFI--KEYRAKENDFDRLVLQ  287 (291)
T ss_dssp             ---TTCHHH--HHHHHHHHHHHHHHHH
T ss_pred             ---CCChHH--HHHHHHHHHHHHHHHH
Confidence               443332  3344455555555543

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=99.80  E-value=6.1e-17  Score=148.39  Aligned_cols=265  Identities=11%  Similarity=0.012  Sum_probs=176.5

Q ss_pred             cHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHH
Q 038401           18 SVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIE   97 (542)
Q Consensus        18 ~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   97 (542)
                      +...+..+...+.+.|++++|..+|+.+.+.... +..++..+..++...|++++|...++++.+.. +.+...+..+..
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~   97 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQAAPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAV   97 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHH
Confidence            3445677888899999999999999999887533 77888899999999999999999999998874 336778888999


Q ss_pred             HHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHH--------------HH-HHhccCcHHHHHHHHHHHHHcCCCCCHHHH
Q 038401           98 LARKLSDYSKAISIFSRLKSSGIVPDLVAYNTM--------------IN-VFGKAKLFKEARLLIEEMREQGVKPDTVSY  162 (542)
Q Consensus        98 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l--------------~~-~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~  162 (542)
                      .+...|++++|...++++.+.. +.+...+..+              .. .+...|++++|...++++.+.. +.+...+
T Consensus        98 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  175 (327)
T 3cv0_A           98 SHTNEHNANAALASLRAWLLSQ-PQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN-PNDAQLH  175 (327)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTS-TTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC-CCCHHHH
Confidence            9999999999999999988763 2233333333              22 2556667777777777766653 2256666


Q ss_pred             HHHHHHHHHCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhc
Q 038401          163 STLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEA  242 (542)
Q Consensus       163 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~  242 (542)
                      ..+...+...|++++|.+.++++.+.. +.+..++..+...+...|++++|...++.+.+.. +.+..++..+...+...
T Consensus       176 ~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~  253 (327)
T 3cv0_A          176 ASLGVLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAYNRALDIN-PGYVRVMYNMAVSYSNM  253 (327)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHh
Confidence            666777777777777777777666543 3345556666666666666666666666665543 33445555556666666


Q ss_pred             CcHHHHHHHHHHHHhcCCCC-----------cHHHHHHHHHHHHccCCHHHHHHHHH
Q 038401          243 ELFGEAIHLFRLMQRKEIEQ-----------NVVTYNTMIKIYGKSLEHEKATNLMQ  288 (542)
Q Consensus       243 ~~~~~a~~~~~~~~~~~~~~-----------~~~~~~~l~~~~~~~~~~~~a~~~~~  288 (542)
                      |++++|.+.++.........           +...|..+..++.+.|+.++|..+++
T Consensus       254 g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  310 (327)
T 3cv0_A          254 SQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYA  310 (327)
T ss_dssp             TCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTT
T ss_pred             ccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHH
Confidence            66666666666555442111           34455555555555555555555544

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.80  E-value=3.3e-16  Score=151.40  Aligned_cols=386  Identities=11%  Similarity=0.003  Sum_probs=219.7

Q ss_pred             CHHhHHHHHHHHhccCCHHHHHHHHHHHHhC--------CCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHhHhC-----C
Q 038401           53 DRYTYSTLITCFGKEGMFDSAISWLQQMEQD--------RVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSS-----G  119 (542)
Q Consensus        53 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~--------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~  119 (542)
                      ....|+.+...+...|++++|++.|++..+.        ..+....+|..+..+|...|++++|...+++..+.     +
T Consensus        50 ~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~  129 (472)
T 4g1t_A           50 KATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSS  129 (472)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhccc
Confidence            4557888888888899999999888876542        11223567888888888999999998888876542     1


Q ss_pred             -C-CccHhHHHHHHHHHhc--cCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHH---HHHCCChHHHHHHHHHHHhcCCCC
Q 038401          120 -I-VPDLVAYNTMINVFGK--AKLFKEARLLIEEMREQGVKPDTVSYSTLLNL---YVENHKFVEALSVFAEMNEVNCPL  192 (542)
Q Consensus       120 -~-~~~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~---~~~~g~~~~a~~~~~~~~~~~~~~  192 (542)
                       . .....++..+..++..  .+++++|...|++..+.. +-+...+..+..+   +...++.++|++.+++..+.+ +.
T Consensus       130 ~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~-p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~-p~  207 (472)
T 4g1t_A          130 PYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKK-PKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN-PD  207 (472)
T ss_dssp             SSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC-SS
T ss_pred             ccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC-Cc
Confidence             0 1124455555444443  457889999999888763 2244455444444   345677788888888887764 33


Q ss_pred             ChhhHHHHHHHHh----ccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCcHHHHH
Q 038401          193 DLTTCNIMIDVYG----QLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYN  268 (542)
Q Consensus       193 ~~~~~~~l~~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  268 (542)
                      +..++..+...+.    ..+++++|.+.+++..... +.+..++..+...+...|++++|...+++..+.. +.+..++.
T Consensus       208 ~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~  285 (472)
T 4g1t_A          208 NQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYI-PNNAYLHC  285 (472)
T ss_dssp             CHHHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHH
T ss_pred             chHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC-CChHHHHH
Confidence            5555555544443    3456778888888887765 5566778888888889999999999998888764 33555666


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcC
Q 038401          269 TMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVG  348 (542)
Q Consensus       269 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  348 (542)
                      .+...|...+..         ..... .      ..........+..+.|...++...+.. +.+...+..+...+...|
T Consensus       286 ~lg~~y~~~~~~---------~~~~~-~------~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~lg~~~~~~~  348 (472)
T 4g1t_A          286 QIGCCYRAKVFQ---------VMNLR-E------NGMYGKRKLLELIGHAVAHLKKADEAN-DNLFRVCSILASLHALAD  348 (472)
T ss_dssp             HHHHHHHHHHHH---------HHHC-------------CHHHHHHHHHHHHHHHHHHHHHC-TTTCCCHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHH---------hhhHH-H------HHHHHHHHHHhhHHHHHHHHHHHhhcC-CchhhhhhhHHHHHHHhc
Confidence            665555321110         00000 0      000000111123455666666665543 234445556666666666


Q ss_pred             CHHHHHHHHHHhcCCCCCCHH------HHHH-HHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHH
Q 038401          349 LVAHAKRLLHELRQPNTIPRE------TAIT-ILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIE  421 (542)
Q Consensus       349 ~~~~a~~~~~~~~~~~~~~~~------~l~~-~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  421 (542)
                      ++++|...|++....++.+..      .+.. .....|++++|+..|+++++..  |+.....         +....+..
T Consensus       349 ~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~--~~~~~~~---------~~~~~l~~  417 (472)
T 4g1t_A          349 QYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKIN--QKSREKE---------KMKDKLQK  417 (472)
T ss_dssp             CHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSC--CCCHHHH---------HHHHHHHH
T ss_pred             cHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--cccHHHH---------HHHHHHHH
Confidence            676666666665433322211      1111 1235678888888888888753  3322211         22334455


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchH
Q 038401          422 VFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQ  471 (542)
Q Consensus       422 ~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  471 (542)
                      ++++.++.+ +.+..+|..++..|...|++++|++.|+++++.+...|+.
T Consensus       418 ~~~~~l~~~-p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a  466 (472)
T 4g1t_A          418 IAKMRLSKN-GADSEALHVLAFLQELNEKMQQADEDSERGLESGSLIPSA  466 (472)
T ss_dssp             HHHHHHHHC-C-CTTHHHHHHHHHHHHHHCC-------------------
T ss_pred             HHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcH
Confidence            666666532 2356778888888888888888888888888877544443

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.73  E-value=9.7e-16  Score=146.03  Aligned_cols=217  Identities=11%  Similarity=0.077  Sum_probs=117.8

Q ss_pred             HHHHHHHHHHhcC---CHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHc----CCHHHHHHHHHHhcCCCCCCHHHHHH
Q 038401          301 TYSTIIAIWGKAG---KLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERV----GLVAHAKRLLHELRQPNTIPRETAIT  373 (542)
Q Consensus       301 ~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~~~~a~~~~~~~~~~~~~~~~~l~~  373 (542)
                      .+..+...|...|   +.++|+..|+...+.| +++...+..+...|...    +++++|..+|++....++.....+..
T Consensus       178 a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g-~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~g~~~a~~~Lg~  256 (452)
T 3e4b_A          178 CYVELATVYQKKQQPEQQAELLKQMEAGVSRG-TVTAQRVDSVARVLGDATLGTPDEKTAQALLEKIAPGYPASWVSLAQ  256 (452)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTT-CSCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHGGGSTHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCcccHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHcCCCHHHHHHHHH
Confidence            4444444555555   5555555555555554 33344333444444332    45555555555554222222333333


Q ss_pred             H-H--HHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcC-----CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 038401          374 I-L--ARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNK-----KYANVIEVFEKMRSAGYFPDSHIIALVLNSY  445 (542)
Q Consensus       374 ~-~--~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-----~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~  445 (542)
                      + +  ...+++++|...|+++.+.|   ++..+..|...|. .|     ++++|+..|++.. .   -+...+..+...|
T Consensus       257 ~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-~---g~~~A~~~Lg~~y  328 (452)
T 3e4b_A          257 LLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-G---REVAADYYLGQIY  328 (452)
T ss_dssp             HHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-T---TCHHHHHHHHHHH
T ss_pred             HHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-C---CCHHHHHHHHHHH
Confidence            3 2  34567777777777777654   4556666666665 44     7777777777666 2   3455566666666


Q ss_pred             hc----cCcHHHHHHHHHHHHHcCCCCchHHHHHHHHHHhc----cCChHHHHHHHHHHhcCCCCCchhHHHHHHHHH--
Q 038401          446 GK----LREFETADDLYSEMQEEGCVFSDQVHFQMLSLYGA----RKDFNMLESLFERLDSDSNINKKELHHVVAGIY--  515 (542)
Q Consensus       446 ~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~--  515 (542)
                      ..    ..+.++|..+|+++.+.+   .....+.++.+|..    ..+.++|..++++....++   ..+-..+..+.  
T Consensus       329 ~~G~g~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g~---~~a~~~l~~l~~~  402 (452)
T 3e4b_A          329 RRGYLGKVYPQKALDHLLTAARNG---QNSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKAQDT---PEANDLATQLEAP  402 (452)
T ss_dssp             HTTTTSSCCHHHHHHHHHHHHTTT---CTTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHTTCC---HHHHHHHHHHHTT
T ss_pred             HCCCCCCcCHHHHHHHHHHHHhhC---hHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHCCC---HHHHHHHHHHHHh
Confidence            55    337777777777777765   22334446666553    4577777777777554433   12222333332  


Q ss_pred             HhhcchhhHHHHHHHHH
Q 038401          516 ERANRLNDASRIMNRMN  532 (542)
Q Consensus       516 ~~~g~~~~A~~~~~~~~  532 (542)
                      ...++.++|.++.++-.
T Consensus       403 ~~~~~~~~a~~~~~~~~  419 (452)
T 3e4b_A          403 LTPAQRAEGQRLVQQEL  419 (452)
T ss_dssp             CCHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHH
Confidence            22345556666666533

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.73  E-value=1.1e-15  Score=134.83  Aligned_cols=219  Identities=11%  Similarity=0.039  Sum_probs=122.4

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC--CC----HHHHHHH
Q 038401          267 YNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVE--ID----PVLYQTM  340 (542)
Q Consensus       267 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~----~~~~~~l  340 (542)
                      +..+...+...|++++|...+++..+..  .+...+..+..++...|++++|...++.+.+....  ++    ..++..+
T Consensus         8 ~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l   85 (258)
T 3uq3_A            8 EKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFARI   85 (258)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHHH
Confidence            3444444444444444444444444443  33444444444444444444444444444432110  01    2344444


Q ss_pred             HHHHHHcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHH
Q 038401          341 IVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVI  420 (542)
Q Consensus       341 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  420 (542)
                      ..++...|++++|...+++....++.     ...+...|++++|...++++.+.. +.+...+..++..+...|++++|+
T Consensus        86 ~~~~~~~~~~~~A~~~~~~a~~~~~~-----~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~  159 (258)
T 3uq3_A           86 GNAYHKLGDLKKTIEYYQKSLTEHRT-----ADILTKLRNAEKELKKAEAEAYVN-PEKAEEARLEGKEYFTKSDWPNAV  159 (258)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCCC-----HHHHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHcccHHHHHHHHHHHHhcCch-----hHHHHHHhHHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHhcCHHHHH
Confidence            44444444444444444443321111     233455566677777777766642 234566777777777777788888


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHHHHH
Q 038401          421 EVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLFERL  496 (542)
Q Consensus       421 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~~  496 (542)
                      ..++++.+.. +.+..++..++.+|...|++++|...++++++..  +.+...+. ++.++...|++++|...+++.
T Consensus       160 ~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a  233 (258)
T 3uq3_A          160 KAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD--PNFVRAYIRKATAQIAVKEYASALETLDAA  233 (258)
T ss_dssp             HHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC--HHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            7777777632 2245667777777777777777777777777765  22233333 777777777777777777773

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.72  E-value=6.7e-16  Score=131.62  Aligned_cols=193  Identities=11%  Similarity=0.034  Sum_probs=121.1

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCC---HHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHH
Q 038401          333 DPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIP---RETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIEL  409 (542)
Q Consensus       333 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~  409 (542)
                      +...+..+...+.+.|++++|...+++....++..   +..+..++.+.|++++|+..++++++.. +.+...+..+..+
T Consensus         4 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~   82 (217)
T 2pl2_A            4 AEQNPLRLGVQLYALGRYDAALTLFERALKENPQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVLSEA   82 (217)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHH
Confidence            44444555555555555555555555554433322   3334455566666666777777776653 3466777777888


Q ss_pred             HHhc-----------CCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHHHH
Q 038401          410 FSRN-----------KKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQML  477 (542)
Q Consensus       410 ~~~~-----------g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~  477 (542)
                      +...           |++++|+..|++.++.  .| +...+..+..++...|++++|+..|+++++.+  ......+.++
T Consensus        83 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la  158 (217)
T 2pl2_A           83 YVALYRQAEDRERGKGYLEQALSVLKDAERV--NPRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSALA  158 (217)
T ss_dssp             HHHHHHTCSSHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHH
T ss_pred             HHHhhhhhhhhcccccCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHHH
Confidence            8877           8888888888888873  45 45777788888888888888888888888876  2333344488


Q ss_pred             HHHhccCChHHHHHHHHH-HhcCCCCCchhHHHHHHHHHHhhcchhhHHHHHHHHH
Q 038401          478 SLYGARKDFNMLESLFER-LDSDSNINKKELHHVVAGIYERANRLNDASRIMNRMN  532 (542)
Q Consensus       478 ~~~~~~g~~~~A~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  532 (542)
                      .++...|++++|+..+++ +...|+  ....+..++.++...|++++|+..+++..
T Consensus       159 ~~~~~~g~~~~A~~~~~~al~~~P~--~~~~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          159 ELYLSMGRLDEALAQYAKALEQAPK--DLDLRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHSTT--CHHHHHHHHHHHTC---------------
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCC--ChHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            888888888888888888 444554  45678888888888888888888887754

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.72  E-value=2.9e-17  Score=161.44  Aligned_cols=163  Identities=17%  Similarity=0.245  Sum_probs=131.6

Q ss_pred             HHhHHHHHHHHhccCCHHHHHHHHHHHHh---CCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHH
Q 038401           54 RYTYSTLITCFGKEGMFDSAISWLQQMEQ---DRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTM  130 (542)
Q Consensus        54 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  130 (542)
                      ..+|+++|.+|++.|++++|.++|.+|.+   .|+.||..+||+||.+|++.|++++|.++|++|.+.|+.||..||+++
T Consensus       127 ~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYntL  206 (1134)
T 3spa_A          127 QQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAA  206 (1134)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHH
Confidence            44899999999999999999999988764   478999999999999999999999999999999999999999999999


Q ss_pred             HHHHhccCc-HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhcCCCCC------hhhHHHHHHH
Q 038401          131 INVFGKAKL-FKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLD------LTTCNIMIDV  203 (542)
Q Consensus       131 ~~~~~~~~~-~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~------~~~~~~l~~~  203 (542)
                      |.++++.|+ .+.|.++|++|.+.|+.||..+|+.++..+.+.    .+++.++++ ..+..|+      ..+...+.+.
T Consensus       207 I~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~----~vL~~Vrkv-~P~f~p~~~~~~~~~t~~LL~dl  281 (1134)
T 3spa_A          207 LQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRA----TVLKAVHKV-KPTFSLPPQLPPPVNTSKLLRDV  281 (1134)
T ss_dssp             HHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHH----HHHHHHGGG-CCCCCCCCCCCCCCCCCTTTHHH
T ss_pred             HHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHH----HHHHHHHHh-CcccCCCCCCcccccchHHHHHH
Confidence            999999997 578999999999999999999999988655443    334444444 2233333      5566677777


Q ss_pred             HhccCC---------HHHHHHHHHHHH
Q 038401          204 YGQLDM---------AKDADRLFWSMR  221 (542)
Q Consensus       204 ~~~~~~---------~~~a~~~~~~~~  221 (542)
                      |.+.+.         .++..+.|++-.
T Consensus       282 ~s~d~~~s~pk~~~~~~~L~~~~~~Ql  308 (1134)
T 3spa_A          282 YAKDGRVSYPKLHLPLKTLQCLFEKQL  308 (1134)
T ss_dssp             HCCCSCCCCCCCSSCHHHHHHHHHHHH
T ss_pred             HccCCCCcCccccCCHHHHHHHHHHHH
Confidence            776652         355555555533

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.71  E-value=7.8e-15  Score=139.78  Aligned_cols=379  Identities=12%  Similarity=0.083  Sum_probs=167.1

Q ss_pred             HHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCH---HHHHHHHHHHHhCCCCCCHHhHHHHHHHHHh
Q 038401           25 VLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMF---DSAISWLQQMEQDRVSGDLVLYSNLIELARK  101 (542)
Q Consensus        25 ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~---~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  101 (542)
                      +...+.+.|++++|.++|+...+.|   ++..+..+...|...|+.   ++|+++|++..+.    ++..+..+...+..
T Consensus         9 la~~~~~~g~~~~A~~~~~~aa~~g---~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~----~~~A~~~Lg~~~~~   81 (452)
T 3e4b_A            9 LANEALKRGDTVTAQQNYQQLAELG---YSEAQVGLADIQVGTRDPAQIKQAEATYRAAADT----SPRAQARLGRLLAA   81 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHT---CCTGGGTCC--------------------------------CHHHHHHHHHT
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC----CHHHHHHHHHHHHh
Confidence            4555666677777777777766654   333344455555555555   6666666666543    33344444443333


Q ss_pred             cC-----CHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHH---HHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCC
Q 038401          102 LS-----DYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFK---EARLLIEEMREQGVKPDTVSYSTLLNLYVENH  173 (542)
Q Consensus       102 ~~-----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~---~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g  173 (542)
                      .+     ++++|...|++..+.|.   ...+..|...|...+..+   .+.+.+......|   +...+..+...|...+
T Consensus        82 ~~~~~~~~~~~A~~~~~~Aa~~g~---~~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g---~~~a~~~Lg~~y~~~~  155 (452)
T 3e4b_A           82 KPGATEAEHHEAESLLKKAFANGE---GNTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAG---YPEAGLAQVLLYRTQG  155 (452)
T ss_dssp             C--CCHHHHHHHHHHHHHHHHTTC---SSCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHT---CTTHHHHHHHHHHHHT
T ss_pred             CCCCCCcCHHHHHHHHHHHHHCCC---HHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCC
Confidence            33     55566666666665441   123444444444333221   2233333333322   2223334444444444


Q ss_pred             ChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcC---cHHHHHH
Q 038401          174 KFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAE---LFGEAIH  250 (542)
Q Consensus       174 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~---~~~~a~~  250 (542)
                      .++++.+....                               +++...    ..++..+..+...|...|   +.++|++
T Consensus       156 ~~~~~~~~a~~-------------------------------~~~~a~----~~~~~a~~~Lg~~~~~~g~~~~~~~A~~  200 (452)
T 3e4b_A          156 TYDQHLDDVER-------------------------------ICKAAL----NTTDICYVELATVYQKKQQPEQQAELLK  200 (452)
T ss_dssp             CGGGGHHHHHH-------------------------------HHHHHT----TTCTTHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CcccCHHHHHH-------------------------------HHHHHH----cCCHHHHHHHHHHHHHcCCcccHHHHHH
Confidence            33333222222                               221111    112223444444444444   4444555


Q ss_pred             HHHHHHhcCCCCcHHHHHHHHHHHHcc----CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-H--HhcCCHHHHHHHHH
Q 038401          251 LFRLMQRKEIEQNVVTYNTMIKIYGKS----LEHEKATNLMQEMQNRGIEPNAITYSTIIAI-W--GKAGKLDRAAMLFQ  323 (542)
Q Consensus       251 ~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~-~--~~~~~~~~a~~~~~  323 (542)
                      .|+...+.| .++...+..+...|...    ++.++|...|++.. .|   ++..+..+... +  ...+++++|...|+
T Consensus       201 ~~~~aa~~g-~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~  275 (452)
T 3e4b_A          201 QMEAGVSRG-TVTAQRVDSVARVLGDATLGTPDEKTAQALLEKIA-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLD  275 (452)
T ss_dssp             HHHHHHHTT-CSCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHH
T ss_pred             HHHHHHHCC-CHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Confidence            444444443 22333333344444332    44555555555544 22   22233333333 2  23455555555555


Q ss_pred             HHHhcCCCCCHHHHHHHHHHHHHcC-----CHHHHHHHHHHhcCCCCCCHHHHHHHHHH----hCCHHHHHHHHHHHHHc
Q 038401          324 KLRSSGVEIDPVLYQTMIVAYERVG-----LVAHAKRLLHELRQPNTIPRETAITILAR----AGRIEEATWVFRQAFDA  394 (542)
Q Consensus       324 ~~~~~~~~~~~~~~~~l~~~~~~~~-----~~~~a~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~  394 (542)
                      +..+.|   ++..+..+...|. .|     ++++|.++|++....++.....+..+|..    ..++++|...|+++.+.
T Consensus       276 ~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~  351 (452)
T 3e4b_A          276 NGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAVGREVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARN  351 (452)
T ss_dssp             HHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTTTTCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTT
T ss_pred             HHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHhCCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhh
Confidence            555443   3444444444444 33     55555555555541112222223333333    23777788888887776


Q ss_pred             CCCcCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHc
Q 038401          395 GEVKDISVFGCMIELFSR----NKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEE  464 (542)
Q Consensus       395 ~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  464 (542)
                      |.   +.....|...|..    ..++.+|...|++..+.|. ++.......+......++.++|....++..+.
T Consensus       352 g~---~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g~-~~a~~~l~~l~~~~~~~~~~~a~~~~~~~~~~  421 (452)
T 3e4b_A          352 GQ---NSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKAQDT-PEANDLATQLEAPLTPAQRAEGQRLVQQELAA  421 (452)
T ss_dssp             TC---TTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHTTCC-HHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHH
T ss_pred             Ch---HHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHCCC-HHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHh
Confidence            53   3344556666653    4578888888888887663 23333333333334556777788887776664

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.70  E-value=3.1e-17  Score=161.24  Aligned_cols=150  Identities=11%  Similarity=0.165  Sum_probs=124.4

Q ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHh---CCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHH
Q 038401           19 VFAYNVVLRNVLRAKQWELAHGLFDEMRQ---RGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNL   95 (542)
Q Consensus        19 ~~~~~~ll~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l   95 (542)
                      ..+||++|++|++.|++++|..+|+.|.+   .|+.||..+||+||.+|++.|++++|.++|++|.+.|+.||..||+++
T Consensus       127 ~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYntL  206 (1134)
T 3spa_A          127 QQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAA  206 (1134)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHH
Confidence            45899999999999999999999988764   589999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhcCC-HHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCC------HHHHHHHHHH
Q 038401           96 IELARKLSD-YSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPD------TVSYSTLLNL  168 (542)
Q Consensus        96 ~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~------~~~~~~l~~~  168 (542)
                      |.++++.|+ .+.|.++|++|.+.|+.||..+|+.++....+.+    .++.++++ ..++.|+      ..+...|.+.
T Consensus       207 I~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~----vL~~Vrkv-~P~f~p~~~~~~~~~t~~LL~dl  281 (1134)
T 3spa_A          207 LQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRAT----VLKAVHKV-KPTFSLPPQLPPPVNTSKLLRDV  281 (1134)
T ss_dssp             HHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHH----HHHHHGGG-CCCCCCCCCCCCCCCCCTTTHHH
T ss_pred             HHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHH----HHHHHHHh-CcccCCCCCCcccccchHHHHHH
Confidence            999999998 4789999999999999999999999886554433    33334333 2334433      3444455555


Q ss_pred             HHHCC
Q 038401          169 YVENH  173 (542)
Q Consensus       169 ~~~~g  173 (542)
                      |.+.+
T Consensus       282 ~s~d~  286 (1134)
T 3spa_A          282 YAKDG  286 (1134)
T ss_dssp             HCCCS
T ss_pred             HccCC
Confidence            55544

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.70  E-value=4e-15  Score=132.24  Aligned_cols=224  Identities=16%  Similarity=0.150  Sum_probs=118.3

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcC--CCCCC----HHHHHHHHHHhC
Q 038401          306 IAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQ--PNTIP----RETAITILARAG  379 (542)
Q Consensus       306 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~----~~~l~~~~~~~g  379 (542)
                      ...+...|++++|...++.+.+.. +.+...+..+..++...|++++|...+++...  .++..    +..+...+...|
T Consensus        10 a~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~~~~   88 (272)
T 3u4t_A           10 ADFLFKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILMKKG   88 (272)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHcc
Confidence            334444445555555554444432 12233444444444455555555555444433  11122    334455555556


Q ss_pred             CHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHH
Q 038401          380 RIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLY  458 (542)
Q Consensus       380 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~  458 (542)
                      ++++|++.|+++++.. +.+...+..++.+|...|++++|+..|+++++.  .| +...+..++..+...+++++|...+
T Consensus        89 ~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~  165 (272)
T 3u4t_A           89 QDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRP--TTTDPKVFYELGQAYYYNKEYVKADSSF  165 (272)
T ss_dssp             CHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCS--SCCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhc--CCCcHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6666666666666542 234556666666777777777777777666653  23 3455555552333344777777777


Q ss_pred             HHHHHcCCCCchHHHHH-HHHHHhccCC---hHHHHHHHHHHhcC----CCCC---chhHHHHHHHHHHhhcchhhHHHH
Q 038401          459 SEMQEEGCVFSDQVHFQ-MLSLYGARKD---FNMLESLFERLDSD----SNIN---KKELHHVVAGIYERANRLNDASRI  527 (542)
Q Consensus       459 ~~~~~~~~~~~~~~~~~-l~~~~~~~g~---~~~A~~~~~~~~~~----~~~~---~~~~~~~l~~~~~~~g~~~~A~~~  527 (542)
                      +++.+..  |.+...+. ++.++...|+   +++|...+++....    |+..   ....|..++.+|...|++++|.++
T Consensus       166 ~~a~~~~--p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~  243 (272)
T 3u4t_A          166 VKVLELK--PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKADAA  243 (272)
T ss_dssp             HHHHHHS--TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHhC--ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            7776655  11122222 5566665565   66666666663211    2110   014566677777777777777777


Q ss_pred             HHHHHhcC
Q 038401          528 MNRMNKRR  535 (542)
Q Consensus       528 ~~~~~~~~  535 (542)
                      ++++.+..
T Consensus       244 ~~~al~~~  251 (272)
T 3u4t_A          244 WKNILALD  251 (272)
T ss_dssp             HHHHHHHC
T ss_pred             HHHHHhcC
Confidence            77766654

>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=99.69  E-value=3.7e-14  Score=126.00  Aligned_cols=229  Identities=10%  Similarity=0.062  Sum_probs=144.9

Q ss_pred             cHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhcCCCCCHHHHH
Q 038401          263 NVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGK----AGKLDRAAMLFQKLRSSGVEIDPVLYQ  338 (542)
Q Consensus       263 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~  338 (542)
                      +..++..+...+...|++++|...|++..+.+   +...+..+...+..    .+++++|...|++..+.+   ++..+.
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~   78 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   78 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            45556666666666677777777776666532   44555556666666    666777777776666653   445555


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHh----cC
Q 038401          339 TMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSR----NK  414 (542)
Q Consensus       339 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g  414 (542)
                      .+...|....                           ...+++++|+..|+++.+.+   ++..+..+...|..    .+
T Consensus        79 ~lg~~~~~g~---------------------------~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~  128 (273)
T 1ouv_A           79 LLGNLYYSGQ---------------------------GVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTR  128 (273)
T ss_dssp             HHHHHHHHTS---------------------------SSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCC
T ss_pred             HHHHHHhCCC---------------------------CcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCccc
Confidence            5555444400                           00455555555666665542   55666677777777    77


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhc----cCcHHHHHHHHHHHHHcCCCCchHHHHHHHHHHhc----cCCh
Q 038401          415 KYANVIEVFEKMRSAGYFPDSHIIALVLNSYGK----LREFETADDLYSEMQEEGCVFSDQVHFQMLSLYGA----RKDF  486 (542)
Q Consensus       415 ~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~  486 (542)
                      ++++|+..|++..+.+   +...+..+...|..    .+++++|..+|+++.+.+   +....+.++.+|..    .+++
T Consensus       129 ~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~  202 (273)
T 1ouv_A          129 DFKKAVEYFTKACDLN---DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNF  202 (273)
T ss_dssp             CHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCH
T ss_pred             CHHHHHHHHHHHHhcC---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccH
Confidence            7777777777777644   44556666666666    777777777777777764   33344447777777    7777


Q ss_pred             HHHHHHHHHHhcCCCCCchhHHHHHHHHHHh----hcchhhHHHHHHHHHhcCC
Q 038401          487 NMLESLFERLDSDSNINKKELHHVVAGIYER----ANRLNDASRIMNRMNKRRT  536 (542)
Q Consensus       487 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~  536 (542)
                      ++|+.++++.....   +...+..++.+|..    .|++++|++++++..+.|.
T Consensus       203 ~~A~~~~~~a~~~~---~~~a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~~  253 (273)
T 1ouv_A          203 KEALARYSKACELE---NGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGA  253 (273)
T ss_dssp             HHHHHHHHHHHHTT---CHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHhCC---CHHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHHcCC
Confidence            77777777744332   24566777777777    7777777777777776653

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.69  E-value=5.2e-15  Score=126.08  Aligned_cols=199  Identities=16%  Similarity=0.031  Sum_probs=119.5

Q ss_pred             CCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHH
Q 038401           16 SPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNL   95 (542)
Q Consensus        16 ~~~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l   95 (542)
                      ++++..+..+...+.+.|++++|...|+...+..+. +...+..+..++.+.|++++|+..+++..+..+ .+...+..+
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~l   79 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKENPQ-DPEALYWLARTQLKLGLVNPALENGKTLVARTP-RYLGGYMVL   79 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CcHHHHHHH
Confidence            466677777778888888888888888888776433 667777788888888888888888888777643 256677777


Q ss_pred             HHHHHhc-----------CCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHH
Q 038401           96 IELARKL-----------SDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYST  164 (542)
Q Consensus        96 ~~~~~~~-----------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~  164 (542)
                      ..++...           |++++|...+++..+.. +.+...+..+..++...|++++|...|++..+..  .+...+..
T Consensus        80 g~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~  156 (217)
T 2pl2_A           80 SEAYVALYRQAEDRERGKGYLEQALSVLKDAERVN-PRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSA  156 (217)
T ss_dssp             HHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHH
T ss_pred             HHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHH
Confidence            7777776           66666666666665542 2245555555566666666666666666665554  45555566


Q ss_pred             HHHHHHHCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHH
Q 038401          165 LLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSM  220 (542)
Q Consensus       165 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  220 (542)
                      +..+|...|++++|...|++..+.. |.+...+..+...+...|++++|...+++.
T Consensus       157 la~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~  211 (217)
T 2pl2_A          157 LAELYLSMGRLDEALAQYAKALEQA-PKDLDLRVRYASALLLKGKAEEAARAAALE  211 (217)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTC--------------
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            6666666666666666666655543 334455555555566666666665555543

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.68  E-value=1.1e-14  Score=128.14  Aligned_cols=225  Identities=12%  Similarity=0.060  Sum_probs=144.5

Q ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCC--C----HHhH
Q 038401           19 VFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSG--D----LVLY   92 (542)
Q Consensus        19 ~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~--~----~~~~   92 (542)
                      ...|..+...+...|++++|...|+.+.+..  .+..+|..+..++...|++++|++.+++..+..+..  +    ...+
T Consensus         5 a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~   82 (258)
T 3uq3_A            5 ADKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSF   82 (258)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHH
Confidence            4567777777888888888888888887776  577778888888888888888888888776643211  1    4666


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHC
Q 038401           93 SNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVEN  172 (542)
Q Consensus        93 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~  172 (542)
                      ..+...+...|++++|...|++..+.  .|+.       ..+...|++++|...++.+.... +.+...+..+...+...
T Consensus        83 ~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~-------~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~  152 (258)
T 3uq3_A           83 ARIGNAYHKLGDLKKTIEYYQKSLTE--HRTA-------DILTKLRNAEKELKKAEAEAYVN-PEKAEEARLEGKEYFTK  152 (258)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CCCH-------HHHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhc--Cchh-------HHHHHHhHHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHh
Confidence            77777777777777777777777764  3332       23444566677777777766542 12344556666666666


Q ss_pred             CChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHH
Q 038401          173 HKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLF  252 (542)
Q Consensus       173 g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~  252 (542)
                      |++++|.+.+++..+.. +.+..++..+...+...|++++|...++...+.. +.+..++..+..++...|++++|...+
T Consensus       153 ~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~  230 (258)
T 3uq3_A          153 SDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYASALETL  230 (258)
T ss_dssp             TCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHHHHHHHH
Confidence            66766666666666543 3345556666666666666666666666665543 334455555555566666666666665


Q ss_pred             HHHHh
Q 038401          253 RLMQR  257 (542)
Q Consensus       253 ~~~~~  257 (542)
                      +...+
T Consensus       231 ~~a~~  235 (258)
T 3uq3_A          231 DAART  235 (258)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            55544

>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=99.67  E-value=4.3e-12  Score=124.88  Aligned_cols=432  Identities=13%  Similarity=0.123  Sum_probs=253.2

Q ss_pred             hHHHHhhCCCCCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCC---HHHHHHHHHHHHh
Q 038401            6 LDWINEEARYSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGM---FDSAISWLQQMEQ   82 (542)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~   82 (542)
                      |+....+.  +-|...|..++..+.+.+.++.+..+|+++... .+.+...|...+..-.+.|+   ++.+..+|++...
T Consensus        55 lE~~l~~n--p~d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~-fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~lfeRal~  131 (679)
T 4e6h_A           55 LNDMIEEQ--PTDIFLYVKLLKHHVSLKQWKQVYETFDKLHDR-FPLMANIWCMRLSLEFDKMEELDAAVIEPVLARCLS  131 (679)
T ss_dssp             HHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTC--CCCHHHHHHHHHHHTC
T ss_pred             HHHHHHHC--cCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHH
Confidence            44444343  568888999999988889999999999999887 45577788888888888888   9999999999887


Q ss_pred             CC-CCCCHHhHHHHHHHHHhcCCH--------HHHHHHHHHhHh-CCC-Cc-cHhHHHHHHHHHhc---------cCcHH
Q 038401           83 DR-VSGDLVLYSNLIELARKLSDY--------SKAISIFSRLKS-SGI-VP-DLVAYNTMINVFGK---------AKLFK  141 (542)
Q Consensus        83 ~~-~~~~~~~~~~l~~~~~~~~~~--------~~a~~~~~~~~~-~~~-~~-~~~~~~~l~~~~~~---------~~~~~  141 (542)
                      .. .+|++..|...+....+.++.        +...++|+.... .|. .+ +...|...+.....         .++++
T Consensus       132 ~~~~~~sv~LW~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~eeq~~~~  211 (679)
T 4e6h_A          132 KELGNNDLSLWLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQQRVQ  211 (679)
T ss_dssp             SSSCCCCHHHHHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHHHHHHH
T ss_pred             hcCCCCCHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHHHhHHH
Confidence            63 137888888877766665543        334467776553 355 44 35677777765432         34567


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHH
Q 038401          142 EARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMR  221 (542)
Q Consensus       142 ~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  221 (542)
                      .+..+|+.........-..+|......-...+. ..+.+++.+.                     ..+++.|...+..+.
T Consensus       212 ~~R~iy~raL~iP~~~~~~~w~~Y~~fe~~~~~-~~a~~~~~e~---------------------~~~y~~Ar~~~~e~~  269 (679)
T 4e6h_A          212 YIRKLYKTLLCQPMDCLESMWQRYTQWEQDVNQ-LTARRHIGEL---------------------SAQYMNARSLYQDWL  269 (679)
T ss_dssp             HHHHHHHHHTTSCCSSHHHHHHHHHHHHHHHCT-TTHHHHHHHH---------------------HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCccHHHHHHHHHHHHHHHhcCc-chHHHHHHHh---------------------hHHHHHHHHHHHHHH
Confidence            788888887753111112233222111100010 0111111110                     001122222222211


Q ss_pred             HC--CC----C-----------C-----C---hhHHHHHHHHHHhcC-------cHHHHHHHHHHHHhcCCCCcHHHHHH
Q 038401          222 KM--GI----D-----------P-----S---VVSYNTLLRVYGEAE-------LFGEAIHLFRLMQRKEIEQNVVTYNT  269 (542)
Q Consensus       222 ~~--~~----~-----------~-----~---~~~~~~ll~~~~~~~-------~~~~a~~~~~~~~~~~~~~~~~~~~~  269 (542)
                      ..  ++    +           |     +   ...|...+.---..+       ..+.+..+|++.... .+.+...|..
T Consensus       270 ~~~~~l~r~~p~~~~~~~~~~~p~~~~~~~~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~-~p~~~~lW~~  348 (679)
T 4e6h_A          270 NITKGLKRNLPITLNQATESNLPKPNEYDVQQLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQH-VCFAPEIWFN  348 (679)
T ss_dssp             HHTTTCCCCCCSSSTTCCTTTSCCTTCCCHHHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHH-TTTCHHHHHH
T ss_pred             HHHHhHhhccccccccchhccCCCCchhHHHHHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHH-cCCCHHHHHH
Confidence            00  00    0           0     0   122333333222211       123445566666654 2345666766


Q ss_pred             HHHHHHccCCHHHHH-HHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC---------CCC-------
Q 038401          270 MIKIYGKSLEHEKAT-NLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSG---------VEI-------  332 (542)
Q Consensus       270 l~~~~~~~~~~~~a~-~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---------~~~-------  332 (542)
                      .+..+...|+.++|. .+|++.... ++.+...|...+......|+++.|..+|+.+++..         ..|       
T Consensus       349 ya~~~~~~~~~~~a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~  427 (679)
T 4e6h_A          349 MANYQGEKNTDSTVITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAIN  427 (679)
T ss_dssp             HHHHHHHHSCCTTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHH
T ss_pred             HHHHHHhcCcHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhh
Confidence            666666667777775 777776654 23344455566666667777777777777766531         012       


Q ss_pred             -----CHHHHHHHHHHHHHcCCHHHHHHHHHHhcCC-CCCCHHHH---HHHHHHh-CCHHHHHHHHHHHHHcCCCcCHHH
Q 038401          333 -----DPVLYQTMIVAYERVGLVAHAKRLLHELRQP-NTIPRETA---ITILARA-GRIEEATWVFRQAFDAGEVKDISV  402 (542)
Q Consensus       333 -----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~l---~~~~~~~-g~~~~A~~~~~~~~~~~~~~~~~~  402 (542)
                           ...+|...+....+.|+.+.|..+|....+. ....+...   +..-.+. ++.+.|..+|+..++. .+.++..
T Consensus       428 ~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~-~p~~~~~  506 (679)
T 4e6h_A          428 QLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHISKDTKTACKVLELGLKY-FATDGEY  506 (679)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHH-HTTCHHH
T ss_pred             hhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCchHH
Confidence                 1235666777667777777888887776543 22222222   2222233 3478888888888776 4456777


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcC
Q 038401          403 FGCMIELFSRNKKYANVIEVFEKMRSAGYFP--DSHIIALVLNSYGKLREFETADDLYSEMQEEG  465 (542)
Q Consensus       403 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  465 (542)
                      |...+......|+.+.|..+|++++.....+  ....|...+..-.+.|+.+.+.++.+++.+..
T Consensus       507 w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~  571 (679)
T 4e6h_A          507 INKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKF  571 (679)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            7777777777888888888888887743222  23567777766677888888888888888876

>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=99.67  E-value=4.1e-12  Score=124.99  Aligned_cols=440  Identities=9%  Similarity=0.054  Sum_probs=288.9

Q ss_pred             HHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCC---HHHHHHHH
Q 038401           36 ELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSD---YSKAISIF  112 (542)
Q Consensus        36 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---~~~a~~~~  112 (542)
                      .+.+..|+..+..++ -|..+|..++..+.+.+.++.+..+|+++... ++.....|...+..-.+.++   ++.+..+|
T Consensus        49 ~d~i~~lE~~l~~np-~d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~-fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~lf  126 (679)
T 4e6h_A           49 SDVIGKLNDMIEEQP-TDIFLYVKLLKHHVSLKQWKQVYETFDKLHDR-FPLMANIWCMRLSLEFDKMEELDAAVIEPVL  126 (679)
T ss_dssp             SCHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTC--CCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCc-CCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHhhCCcchHHHHHHHH
Confidence            345556666666654 48889999999998889999999999999887 55677888888888888888   99999999


Q ss_pred             HHhHhCC-CCccHhHHHHHHHHHhccCcH--------HHHHHHHHHHHH-cCC-CC-CHHHHHHHHHHHHH---------
Q 038401          113 SRLKSSG-IVPDLVAYNTMINVFGKAKLF--------KEARLLIEEMRE-QGV-KP-DTVSYSTLLNLYVE---------  171 (542)
Q Consensus       113 ~~~~~~~-~~~~~~~~~~l~~~~~~~~~~--------~~a~~~~~~~~~-~g~-~~-~~~~~~~l~~~~~~---------  171 (542)
                      ++..... .+|++..|...+....+.++.        +...++|+.... .|. .+ +...|...+.....         
T Consensus       127 eRal~~~~~~~sv~LW~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~ee  206 (679)
T 4e6h_A          127 ARCLSKELGNNDLSLWLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEE  206 (679)
T ss_dssp             HHHTCSSSCCCCHHHHHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHH
T ss_pred             HHHHHhcCCCCCHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHH
Confidence            9988763 137888888877665554432        344577776554 355 44 35677776665432         


Q ss_pred             CCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHH
Q 038401          172 NHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHL  251 (542)
Q Consensus       172 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~  251 (542)
                      .++.+.+..+|+.+.......-..+|......-...+. ..+.+++.+                     ...+++.|...
T Consensus       207 q~~~~~~R~iy~raL~iP~~~~~~~w~~Y~~fe~~~~~-~~a~~~~~e---------------------~~~~y~~Ar~~  264 (679)
T 4e6h_A          207 QQRVQYIRKLYKTLLCQPMDCLESMWQRYTQWEQDVNQ-LTARRHIGE---------------------LSAQYMNARSL  264 (679)
T ss_dssp             HHHHHHHHHHHHHHTTSCCSSHHHHHHHHHHHHHHHCT-TTHHHHHHH---------------------HHHHHHHHHHH
T ss_pred             HhHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHhcCc-chHHHHHHH---------------------hhHHHHHHHHH
Confidence            33466777888887753211111222222111100000 001111111                     11233444444


Q ss_pred             HHHHHhc--CC----C-----------C--------cHHHHHHHHHHHHccC-------CHHHHHHHHHHHHHcCCCCCH
Q 038401          252 FRLMQRK--EI----E-----------Q--------NVVTYNTMIKIYGKSL-------EHEKATNLMQEMQNRGIEPNA  299 (542)
Q Consensus       252 ~~~~~~~--~~----~-----------~--------~~~~~~~l~~~~~~~~-------~~~~a~~~~~~~~~~~~~p~~  299 (542)
                      +.++...  ++    +           |        ....|...+..--..+       ..+.+..+|++.... ++-+.
T Consensus       265 ~~e~~~~~~~l~r~~p~~~~~~~~~~~p~~~~~~~~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~-~p~~~  343 (679)
T 4e6h_A          265 YQDWLNITKGLKRNLPITLNQATESNLPKPNEYDVQQLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQH-VCFAP  343 (679)
T ss_dssp             HHHHHHHTTTCCCCCCSSSTTCCTTTSCCTTCCCHHHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHH-TTTCH
T ss_pred             HHHHHHHHHhHhhccccccccchhccCCCCchhHHHHHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHH-cCCCH
Confidence            4443211  11    0           1        0245666665443332       134566788888776 24477


Q ss_pred             HHHHHHHHHHHhcCCHHHHH-HHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCC-----------CC--
Q 038401          300 ITYSTIIAIWGKAGKLDRAA-MLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQP-----------NT--  365 (542)
Q Consensus       300 ~~~~~l~~~~~~~~~~~~a~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----------~~--  365 (542)
                      ..|...+..+...|+.+.|. .+|++.... ++.+...+...+....+.|++++|..+|+.+...           .+  
T Consensus       344 ~lW~~ya~~~~~~~~~~~a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~  422 (679)
T 4e6h_A          344 EIWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTN  422 (679)
T ss_dssp             HHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTC
T ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcc
Confidence            88888888888889999997 999999875 4667888888899999999999999999987641           11  


Q ss_pred             ------------CCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhc-CCHHHHHHHHHHHHhCCCC
Q 038401          366 ------------IPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRN-KKYANVIEVFEKMRSAGYF  432 (542)
Q Consensus       366 ------------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~~~~  432 (542)
                                  ..|...+....+.|+.+.|..+|.++++.........|...+..-.+. ++++.|..+|+..++. ++
T Consensus       423 ~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~-~p  501 (679)
T 4e6h_A          423 ESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHISKDTKTACKVLELGLKY-FA  501 (679)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHH-HT
T ss_pred             hhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CC
Confidence                        135555677778899999999999999861122334444433333344 4599999999999985 33


Q ss_pred             CCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCc-hHHHHH-HHHHHhccCChHHHHHHHHHH-hcCCCC
Q 038401          433 PDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFS-DQVHFQ-MLSLYGARKDFNMLESLFERL-DSDSNI  502 (542)
Q Consensus       433 p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~~~~~-l~~~~~~~g~~~~A~~~~~~~-~~~~~~  502 (542)
                      -+...|...+......|+.+.|+.+|++++.....+. ....+. ++..-...|+.+.+.++.+++ ...|..
T Consensus       502 ~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~P~~  574 (679)
T 4e6h_A          502 TDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKFPEV  574 (679)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHSTTC
T ss_pred             CchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCC
Confidence            3567777888888889999999999999998762111 223333 777788899999999999995 445543

>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=99.66  E-value=1e-14  Score=134.46  Aligned_cols=225  Identities=10%  Similarity=0.073  Sum_probs=146.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCC-HHHHHHHHHHhcCCC---CCCHHHHHHHHHH
Q 038401          302 YSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGL-VAHAKRLLHELRQPN---TIPRETAITILAR  377 (542)
Q Consensus       302 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~---~~~~~~l~~~~~~  377 (542)
                      |..+...+...|++++|+..++++++.. +-+...|..+..++...|+ +++|+..++++...+   ...|..+..++..
T Consensus       100 ~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~~~~a~~~~g~~~~~  178 (382)
T 2h6f_A          100 YDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLVEW  178 (382)
T ss_dssp             HHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH
Confidence            3333344444444444444444444432 2234444444444444443 555555544443322   2223344455556


Q ss_pred             hCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhc-cCcHHHH-
Q 038401          378 AGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGK-LREFETA-  454 (542)
Q Consensus       378 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~-~g~~~~A-  454 (542)
                      .|++++|+..|+++++.. +.+...|..+..++...|++++|+..|+++++.  .| +...|..+..++.. .|..++| 
T Consensus       179 ~g~~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l--~P~~~~a~~~lg~~l~~l~~~~~eA~  255 (382)
T 2h6f_A          179 LRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKE--DVRNNSVWNQRYFVISNTTGYNDRAV  255 (382)
T ss_dssp             HTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCSCSHHH
T ss_pred             ccCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCcchHHH
Confidence            677777777777777763 457888888999999999999999999999884  35 56788888888888 5665777 


Q ss_pred             ----HHHHHHHHHcCCCCchHHHHH-HHHHHhccC--ChHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhhc--------
Q 038401          455 ----DDLYSEMQEEGCVFSDQVHFQ-MLSLYGARK--DFNMLESLFERLDSDSNINKKELHHVVAGIYERAN--------  519 (542)
Q Consensus       455 ----~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g--~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--------  519 (542)
                          +..++++++..  |.+...+. ++.++...|  ++++|.+.++++..  ++....++..++++|...|        
T Consensus       256 ~~~el~~~~~Al~l~--P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~~~--~p~~~~al~~La~~~~~~~~~~~~~~~  331 (382)
T 2h6f_A          256 LEREVQYTLEMIKLV--PHNESAWNYLKGILQDRGLSKYPNLLNQLLDLQP--SHSSPYLIAFLVDIYEDMLENQCDNKE  331 (382)
T ss_dssp             HHHHHHHHHHHHHHS--TTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHHTT--TCCCHHHHHHHHHHHHHHHHTTCSSHH
T ss_pred             HHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHccCccchHHHHHHHHHhcc--CCCCHHHHHHHHHHHHHHhcccccchH
Confidence                58888988876  22333343 788888887  68899998888833  3335678888999998875        


Q ss_pred             -chhhHHHHHHHH-Hhc
Q 038401          520 -RLNDASRIMNRM-NKR  534 (542)
Q Consensus       520 -~~~~A~~~~~~~-~~~  534 (542)
                       .+++|+++++++ .+.
T Consensus       332 ~~~~~A~~~~~~l~~~~  348 (382)
T 2h6f_A          332 DILNKALELCEILAKEK  348 (382)
T ss_dssp             HHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHh
Confidence             358899999987 554

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.66  E-value=1.8e-14  Score=127.98  Aligned_cols=247  Identities=14%  Similarity=0.078  Sum_probs=134.4

Q ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCC--HHHHHHHHHH
Q 038401          231 SYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPN--AITYSTIIAI  308 (542)
Q Consensus       231 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~--~~~~~~l~~~  308 (542)
                      .+......+...|++++|...++...+.. +.+...+..+...+...|++++|...+++..+.+-.|+  ...|..+...
T Consensus         5 ~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~   83 (272)
T 3u4t_A            5 VEFRYADFLFKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKI   83 (272)
T ss_dssp             CHHHHHHHHHTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHH
Confidence            34445556666677777777777666553 22344566666666666777777776666665321111  2235566666


Q ss_pred             HHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCHHHHHHHH
Q 038401          309 WGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVF  388 (542)
Q Consensus       309 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  388 (542)
                      +...|++++|...++.+.+.. +.+...+..+...+...|++++|...+++..                           
T Consensus        84 ~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al---------------------------  135 (272)
T 3u4t_A           84 LMKKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQI---------------------------  135 (272)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGC---------------------------
T ss_pred             HHHcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHh---------------------------
Confidence            666666666666666666543 2244555555555555555555555555544                           


Q ss_pred             HHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHhccCc---HHHHHHHHHHHHHc
Q 038401          389 RQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPD-SHIIALVLNSYGKLRE---FETADDLYSEMQEE  464 (542)
Q Consensus       389 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~  464 (542)
                          +. .+.+...|..++..+...+++++|++.|+++.+.  .|+ ...+..+..++...|+   +++|...++++.+.
T Consensus       136 ----~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~  208 (272)
T 3u4t_A          136 ----RP-TTTDPKVFYELGQAYYYNKEYVKADSSFVKVLEL--KPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEV  208 (272)
T ss_dssp             ----CS-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHH
T ss_pred             ----hc-CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHH
Confidence                33 2234555555552333344666666666666652  233 4555555666655565   66666666666654


Q ss_pred             CCCCchH------HHHH-HHHHHhccCChHHHHHHHHH-HhcCCCCCchhHHHHHHHHH
Q 038401          465 GCVFSDQ------VHFQ-MLSLYGARKDFNMLESLFER-LDSDSNINKKELHHVVAGIY  515 (542)
Q Consensus       465 ~~~~~~~------~~~~-l~~~~~~~g~~~~A~~~~~~-~~~~~~~~~~~~~~~l~~~~  515 (542)
                      ....|+.      ..+. ++.+|...|++++|.+.+++ +..+|+  +..++..+..+.
T Consensus       209 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~--~~~a~~~l~~~~  265 (272)
T 3u4t_A          209 CAPGGAKYKDELIEANEYIAYYYTINRDKVKADAAWKNILALDPT--NKKAIDGLKMKL  265 (272)
T ss_dssp             HGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT--CHHHHHHHC---
T ss_pred             HhcccccchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcc--HHHHHHHhhhhh
Confidence            2111221      1222 66666677777777777776 344444  334444444433

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.65  E-value=2.3e-14  Score=127.51  Aligned_cols=245  Identities=9%  Similarity=-0.085  Sum_probs=111.1

Q ss_pred             cCcHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHHHHCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHHH
Q 038401          137 AKLFKEARLLIEEMREQGVK---PDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDA  213 (542)
Q Consensus       137 ~~~~~~a~~~~~~~~~~g~~---~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  213 (542)
                      .|++++|...++++.+....   .+...+..+...+...|++++|.+.|+++.+.+ +.+..++..+...+...|++++|
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            34555555555555543210   123344455555555555555555555555443 22444555555555555555555


Q ss_pred             HHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHc
Q 038401          214 DRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNR  293 (542)
Q Consensus       214 ~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  293 (542)
                      ...++++.... +.+..++..+..++...|++++|...++.+.+..  |+.......+..+...|++++|...+.+....
T Consensus        97 ~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~  173 (275)
T 1xnf_A           97 YEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD--PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEK  173 (275)
T ss_dssp             HHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            55555555442 2234455555555555555555555555555432  22222222333334445555555555554443


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC---CCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHH
Q 038401          294 GIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVE---IDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRET  370 (542)
Q Consensus       294 ~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  370 (542)
                      . +++...+ .++..+...++.+.|...+....+....   .+...+..+..++.+.|++++|...+++....++..+..
T Consensus       174 ~-~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~  251 (275)
T 1xnf_A          174 S-DKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNFVE  251 (275)
T ss_dssp             S-CCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTCHH
T ss_pred             C-CcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCchhHHH
Confidence            2 2222222 2444444555555555555555433110   012344444444445555555555444444433333333


Q ss_pred             HHHHHHHhCCHHHHHHH
Q 038401          371 AITILARAGRIEEATWV  387 (542)
Q Consensus       371 l~~~~~~~g~~~~A~~~  387 (542)
                      ...++...|++++|++.
T Consensus       252 ~~~~~~~l~~~~~a~~~  268 (275)
T 1xnf_A          252 HRYALLELSLLGQDQDD  268 (275)
T ss_dssp             HHHHHHHHHHHHHC---
T ss_pred             HHHHHHHHHHHHhhHHH
Confidence            33334444444444433

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.63  E-value=2.2e-14  Score=127.62  Aligned_cols=218  Identities=9%  Similarity=-0.032  Sum_probs=125.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcC---CCCCCHHHHHHHHHH
Q 038401          301 TYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQ---PNTIPRETAITILAR  377 (542)
Q Consensus       301 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~  377 (542)
                      .+..+...+...|++++|...|+.+.+.. +.+...+..+..++...|++++|...++++..   .+...+..+..++..
T Consensus        45 ~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~  123 (275)
T 1xnf_A           45 LLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYY  123 (275)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCccccHHHHHHHHHHHH
Confidence            33444444444444444444444444432 22344444444444444555555444444432   122233444555666


Q ss_pred             hCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHH
Q 038401          378 AGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDL  457 (542)
Q Consensus       378 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~  457 (542)
                      .|++++|...++++++..  |+.......+..+...|++++|...+++..... +++...+ .++..+...++.++|...
T Consensus       124 ~g~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~-~~~~~~~~~~~~~~a~~~  199 (275)
T 1xnf_A          124 GGRDKLAQDDLLAFYQDD--PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKS-DKEQWGW-NIVEFYLGNISEQTLMER  199 (275)
T ss_dssp             TTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHS-CCCSTHH-HHHHHHTTSSCHHHHHHH
T ss_pred             hccHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CcchHHH-HHHHHHHHhcCHHHHHHH
Confidence            677777777777777653  222233333444566789999999998877642 2333334 366677778888899999


Q ss_pred             HHHHHHcCCCC-ch-HHHHH-HHHHHhccCChHHHHHHHHHHhc-CCCCCchhHHHHHHHHHHhhcchhhHHHHH
Q 038401          458 YSEMQEEGCVF-SD-QVHFQ-MLSLYGARKDFNMLESLFERLDS-DSNINKKELHHVVAGIYERANRLNDASRIM  528 (542)
Q Consensus       458 ~~~~~~~~~~~-~~-~~~~~-l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  528 (542)
                      ++++.+..... |. ...+. ++.++...|++++|...+++... .|..     +...+.++...|++++|++.+
T Consensus       200 ~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~-----~~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          200 LKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHN-----FVEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             HHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTT-----CHHHHHHHHHHHHHHHC----
T ss_pred             HHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCchh-----HHHHHHHHHHHHHHHhhHHHH
Confidence            98887654110 11 23333 88999999999999999999543 3321     233466788889999998876

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.63  E-value=4.7e-14  Score=132.07  Aligned_cols=225  Identities=15%  Similarity=0.103  Sum_probs=152.3

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhc----CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHhcC---CCC-------CCHHHH
Q 038401          307 AIWGKAGKLDRAAMLFQKLRSS----GVEI-DPVLYQTMIVAYERVGLVAHAKRLLHELRQ---PNT-------IPRETA  371 (542)
Q Consensus       307 ~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~-------~~~~~l  371 (542)
                      ..+...|++++|...++...+.    +.++ ...++..+...|...|++++|...+.+...   ...       ..+..+
T Consensus       111 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~l  190 (383)
T 3ulq_A          111 MYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHSLF  190 (383)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHHHH
Confidence            3445556666666666665442    1011 134455555556666666666666555432   111       123344


Q ss_pred             HHHHHHhCCHHHHHHHHHHHHHcCCC-c----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCC-CHHHHHHH
Q 038401          372 ITILARAGRIEEATWVFRQAFDAGEV-K----DISVFGCMIELFSRNKKYANVIEVFEKMRSA----GYFP-DSHIIALV  441 (542)
Q Consensus       372 ~~~~~~~g~~~~A~~~~~~~~~~~~~-~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~p-~~~~~~~l  441 (542)
                      ...+...|++++|+..++++++.... +    ...++..++.+|...|++++|+..+++.++.    +..| ...++..+
T Consensus       191 g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l  270 (383)
T 3ulq_A          191 ATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFLI  270 (383)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHHH
Confidence            56667777888888877777653111 1    1347888999999999999999999999862    2223 35778899


Q ss_pred             HHHHhccCcHHHHHHHHHHHHHcCCC--CchH-HHHH-HHHHHhccCC---hHHHHHHHHHHhcCCCCCchhHHHHHHHH
Q 038401          442 LNSYGKLREFETADDLYSEMQEEGCV--FSDQ-VHFQ-MLSLYGARKD---FNMLESLFERLDSDSNINKKELHHVVAGI  514 (542)
Q Consensus       442 ~~~~~~~g~~~~A~~~~~~~~~~~~~--~~~~-~~~~-l~~~~~~~g~---~~~A~~~~~~~~~~~~~~~~~~~~~l~~~  514 (542)
                      +..|...|++++|...++++.+....  .|.. ..+. ++.++...|+   +++|...+++....+.  ....+..++.+
T Consensus       271 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~~~~~~--~~~~~~~la~~  348 (383)
T 3ulq_A          271 TQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESKMLYAD--LEDFAIDVAKY  348 (383)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHTTCHHH--HHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCcCHHH--HHHHHHHHHHH
Confidence            99999999999999999998875211  1222 2223 8889999999   8888888887743222  34678899999


Q ss_pred             HHhhcchhhHHHHHHHHHh
Q 038401          515 YERANRLNDASRIMNRMNK  533 (542)
Q Consensus       515 ~~~~g~~~~A~~~~~~~~~  533 (542)
                      |...|++++|..+++++.+
T Consensus       349 y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          349 YHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHH
Confidence            9999999999999999765

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=99.63  E-value=1.6e-12  Score=115.34  Aligned_cols=223  Identities=13%  Similarity=0.062  Sum_probs=132.1

Q ss_pred             cHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhc----cCCHHHHHHHHHHHHhCCCCCCHHhHH
Q 038401           18 SVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGK----EGMFDSAISWLQQMEQDRVSGDLVLYS   93 (542)
Q Consensus        18 ~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~   93 (542)
                      ++.++..+...+...|++++|...|+...+.+   +..++..+...+..    .+++++|+..|++..+.+   +...+.
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~   78 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   78 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            45566666666777777777777777766632   44566666666666    677777777777766654   555666


Q ss_pred             HHHHHHHh----cCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhc----cCcHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 038401           94 NLIELARK----LSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGK----AKLFKEARLLIEEMREQGVKPDTVSYSTL  165 (542)
Q Consensus        94 ~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~g~~~~~~~~~~l  165 (542)
                      .+...+..    .+++++|...|++..+.+   +...+..+...+..    .+++++|...|++..+.+   +...+..+
T Consensus        79 ~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l  152 (273)
T 1ouv_A           79 LLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTIL  152 (273)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHH
T ss_pred             HHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHH
Confidence            66666666    666666766666666543   45555566666665    666666666666666543   44455555


Q ss_pred             HHHHHH----CCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhc----cCCHHHHHHHHHHHHHCCCCCChhHHHHHHH
Q 038401          166 LNLYVE----NHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQ----LDMAKDADRLFWSMRKMGIDPSVVSYNTLLR  237 (542)
Q Consensus       166 ~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  237 (542)
                      ...|..    .+++++|.+.|++..+.+   +...+..+...+..    .+++++|...|++..+.+   +...+..+..
T Consensus       153 g~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l~~  226 (273)
T 1ouv_A          153 GSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGA  226 (273)
T ss_dssp             HHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHH
T ss_pred             HHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC---CHHHHHHHHH
Confidence            555555    566666666666655543   34444555555555    555555555555555443   1334444444


Q ss_pred             HHHh----cCcHHHHHHHHHHHHhc
Q 038401          238 VYGE----AELFGEAIHLFRLMQRK  258 (542)
Q Consensus       238 ~~~~----~~~~~~a~~~~~~~~~~  258 (542)
                      .|..    .+++++|.+.|+...+.
T Consensus       227 ~~~~g~~~~~~~~~A~~~~~~a~~~  251 (273)
T 1ouv_A          227 MQYNGEGVTRNEKQAIENFKKGCKL  251 (273)
T ss_dssp             HHHTTSSSSCCSTTHHHHHHHHHHH
T ss_pred             HHHcCCCcccCHHHHHHHHHHHHHc
Confidence            4544    55555555555555444

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.62  E-value=3e-14  Score=134.95  Aligned_cols=277  Identities=13%  Similarity=0.068  Sum_probs=168.4

Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCcH----HHHHHHHHHHHccCCHHHHHHHHHHHHHc----CC-CCCHHHH
Q 038401          232 YNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNV----VTYNTMIKIYGKSLEHEKATNLMQEMQNR----GI-EPNAITY  302 (542)
Q Consensus       232 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~p~~~~~  302 (542)
                      +..+...+...|++++|...|+.+.+.... +.    ..+..+...|...|++++|...+++..+.    +. ......+
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            334445566667777777777766665322 22    35666666677777777777777665432    11 1123456


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcC-----CCCCHHHHHHHHHHHHHcCC----------HHHHHHHHHHhcCCCCCC
Q 038401          303 STIIAIWGKAGKLDRAAMLFQKLRSSG-----VEIDPVLYQTMIVAYERVGL----------VAHAKRLLHELRQPNTIP  367 (542)
Q Consensus       303 ~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~  367 (542)
                      ..+...+...|++++|...++++.+..     .+....++..+...|...|+          .++|...           
T Consensus       130 ~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~-----------  198 (411)
T 4a1s_A          130 GNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEA-----------  198 (411)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHH-----------
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHH-----------
Confidence            666677777788888877777765431     01123345555555666666          1111111           


Q ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHc----CC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCC----HHH
Q 038401          368 RETAITILARAGRIEEATWVFRQAFDA----GE-VKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGY-FPD----SHI  437 (542)
Q Consensus       368 ~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~p~----~~~  437 (542)
                                   +++|++.++++++.    +. ......+..+...+...|++++|+..+++..+... .++    ..+
T Consensus       199 -------------~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  265 (411)
T 4a1s_A          199 -------------LTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRA  265 (411)
T ss_dssp             -------------HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             -------------HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHH
Confidence                         33333333333221    11 12345677788888888899998888888875210 012    236


Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHHHHcCCCC--c--hHHHHH-HHHHHhccCChHHHHHHHHHHhcC----CC-CCchhH
Q 038401          438 IALVLNSYGKLREFETADDLYSEMQEEGCVF--S--DQVHFQ-MLSLYGARKDFNMLESLFERLDSD----SN-INKKEL  507 (542)
Q Consensus       438 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~--~--~~~~~~-l~~~~~~~g~~~~A~~~~~~~~~~----~~-~~~~~~  507 (542)
                      +..++..|...|++++|...++++.+.....  +  ....+. ++.++...|++++|...+++....    ++ ......
T Consensus       266 ~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  345 (411)
T 4a1s_A          266 NSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARA  345 (411)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHH
Confidence            7778888888999999999988887653110  0  122333 788888899999999888884221    11 011357


Q ss_pred             HHHHHHHHHhhcchhhHHHHHHHHHh
Q 038401          508 HHVVAGIYERANRLNDASRIMNRMNK  533 (542)
Q Consensus       508 ~~~l~~~~~~~g~~~~A~~~~~~~~~  533 (542)
                      +..++.+|...|++++|..+++++.+
T Consensus       346 ~~~la~~~~~~g~~~~A~~~~~~al~  371 (411)
T 4a1s_A          346 CWSLGNAHSAIGGHERALKYAEQHLQ  371 (411)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            88888999999999999999888765

>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=99.62  E-value=3.2e-13  Score=124.50  Aligned_cols=248  Identities=10%  Similarity=0.122  Sum_probs=188.0

Q ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCC-HHHHHHHHHHHHhCCCCCCHHhHHHHHH
Q 038401           19 VFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGM-FDSAISWLQQMEQDRVSGDLVLYSNLIE   97 (542)
Q Consensus        19 ~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~   97 (542)
                      ...|..+...+.+.|++++|+..++.+++.... +..+|+.+..++...|+ +++|+..|+++++..+. +...|..+..
T Consensus        97 ~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~P~-~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~-~~~a~~~~g~  174 (382)
T 2h6f_A           97 RDVYDYFRAVLQRDERSERAFKLTRDAIELNAA-NYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHRRV  174 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHhCcc-CHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCC-CHHHHHHHHH
Confidence            456788888888899999999999999887543 67788888899999996 99999999999887543 7788888888


Q ss_pred             HHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH-CCChH
Q 038401           98 LARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVE-NHKFV  176 (542)
Q Consensus        98 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~-~g~~~  176 (542)
                      ++...|++++|+..|+++++.. +.+...|..+..++...|++++|+..++++++.. +-+...|+.+..++.. .|..+
T Consensus       175 ~~~~~g~~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~-P~~~~a~~~lg~~l~~l~~~~~  252 (382)
T 2h6f_A          175 LVEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYND  252 (382)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCS
T ss_pred             HHHHccCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCcch
Confidence            9999999999999999988764 4567888888888888899999999999988864 2367888888888888 56557


Q ss_pred             HH-----HHHHHHHHhcCCCCChhhHHHHHHHHhccC--CHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcC------
Q 038401          177 EA-----LSVFAEMNEVNCPLDLTTCNIMIDVYGQLD--MAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAE------  243 (542)
Q Consensus       177 ~a-----~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~------  243 (542)
                      +|     ++.+++..... +-+...|+.+...+...|  ++++|.+.+..+ +.. +.+...+..+..+|.+.|      
T Consensus       253 eA~~~~el~~~~~Al~l~-P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~~-p~~~~al~~La~~~~~~~~~~~~~  329 (382)
T 2h6f_A          253 RAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QPS-HSSPYLIAFLVDIYEDMLENQCDN  329 (382)
T ss_dssp             HHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TTT-CCCHHHHHHHHHHHHHHHHTTCSS
T ss_pred             HHHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHccCccchHHHHHHHHHh-ccC-CCCHHHHHHHHHHHHHHhcccccc
Confidence            77     47777777754 346677877777787777  577888888777 332 445667777777777653      


Q ss_pred             ---cHHHHHHHHHHH-HhcCCCCcHHHHHHHHHHH
Q 038401          244 ---LFGEAIHLFRLM-QRKEIEQNVVTYNTMIKIY  274 (542)
Q Consensus       244 ---~~~~a~~~~~~~-~~~~~~~~~~~~~~l~~~~  274 (542)
                         ..++|.++|+.+ .+.+ +.....|..+...+
T Consensus       330 ~~~~~~~A~~~~~~l~~~~D-P~r~~~w~~~~~~l  363 (382)
T 2h6f_A          330 KEDILNKALELCEILAKEKD-TIRKEYWRYIGRSL  363 (382)
T ss_dssp             HHHHHHHHHHHHHHHHHTTC-GGGHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHhC-chhHHHHHHHHHHH
Confidence               257788888887 5442 22334455444443

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.61  E-value=2.4e-14  Score=135.33  Aligned_cols=300  Identities=12%  Similarity=0.024  Sum_probs=166.2

Q ss_pred             CCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCc---HHHHHHHHHHHHccCCHHHHHHHHHHHHHc----CCCC-
Q 038401          226 DPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQN---VVTYNTMIKIYGKSLEHEKATNLMQEMQNR----GIEP-  297 (542)
Q Consensus       226 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~p-  297 (542)
                      ......+......+...|++++|...|+..........   ...+..+...+...|++++|...+++....    +-.| 
T Consensus         6 ~~~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~   85 (406)
T 3sf4_A            6 EASCLELALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLG   85 (406)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHH
Confidence            34455666777888899999999999999888742211   356778888899999999999999886543    2112 


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC-CC----HHHHHHHHHHHHHcCC--------------------HHH
Q 038401          298 NAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVE-ID----PVLYQTMIVAYERVGL--------------------VAH  352 (542)
Q Consensus       298 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~--------------------~~~  352 (542)
                      ....+..+...+...|++++|...+++..+.... ++    ..++..+...+...|+                    +++
T Consensus        86 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~  165 (406)
T 3sf4_A           86 EAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQA  165 (406)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHH
Confidence            2446777778888899999999998887653110 12    3466667777777777                    666


Q ss_pred             HHHHHHHhcC----CC-----CCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCC-cC----HHHHHHHHHHHHhcCCHHH
Q 038401          353 AKRLLHELRQ----PN-----TIPRETAITILARAGRIEEATWVFRQAFDAGEV-KD----ISVFGCMIELFSRNKKYAN  418 (542)
Q Consensus       353 a~~~~~~~~~----~~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~g~~~~  418 (542)
                      |...+.+...    .+     ...+..+...+...|++++|...++++++.... ++    ..++..++..+...|++++
T Consensus       166 A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~  245 (406)
T 3sf4_A          166 AVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFET  245 (406)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHH
Confidence            6666655432    00     011223344455555555555555555543110 11    1244455555555555555


Q ss_pred             HHHHHHHHHhCCC-CCC----HHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCC---Cch-HHHHH-HHHHHhccCChHH
Q 038401          419 VIEVFEKMRSAGY-FPD----SHIIALVLNSYGKLREFETADDLYSEMQEEGCV---FSD-QVHFQ-MLSLYGARKDFNM  488 (542)
Q Consensus       419 A~~~~~~~~~~~~-~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~---~~~-~~~~~-l~~~~~~~g~~~~  488 (542)
                      |+..+++..+... .++    ..++..++..|...|++++|...++++.+....   ++. ...+. ++.++...|++++
T Consensus       246 A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~  325 (406)
T 3sf4_A          246 ASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQ  325 (406)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHH
Confidence            5555555554210 011    234445555555555555555555555443100   011 11122 4555555555555


Q ss_pred             HHHHHHHHh-cCCCCCc----hhHHHHHHHHHHhhcchhhHH
Q 038401          489 LESLFERLD-SDSNINK----KELHHVVAGIYERANRLNDAS  525 (542)
Q Consensus       489 A~~~~~~~~-~~~~~~~----~~~~~~l~~~~~~~g~~~~A~  525 (542)
                      |...+++.. ..+....    ...+..++.+|...|+...+.
T Consensus       326 A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~  367 (406)
T 3sf4_A          326 AMHFAEKHLEISREVGDKSGELTARLNLSDLQMVLGLSYSTN  367 (406)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTSCC-
T ss_pred             HHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHhhHhHHHH
Confidence            555555532 2222111    133444555555555544433

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.61  E-value=4.8e-14  Score=129.51  Aligned_cols=280  Identities=13%  Similarity=0.089  Sum_probs=183.4

Q ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCc----HHHHHHHHHHHHccCCHHHHHHHHHHHHHc----CCCC-CHHH
Q 038401          231 SYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQN----VVTYNTMIKIYGKSLEHEKATNLMQEMQNR----GIEP-NAIT  301 (542)
Q Consensus       231 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~p-~~~~  301 (542)
                      .+......+...|++++|...++++.+.... +    ...+..+...+...|++++|...+++....    +..| ....
T Consensus         7 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~   85 (338)
T 3ro2_A            7 ELALEGERLCKSGDCRAGVSFFEAAVQVGTE-DLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKA   85 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhhCcc-cHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHH
Confidence            3445556677888888888888888776422 2    356677777888888888888888776532    1111 2345


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCC-CCC----HHHHHHHHHHHHHcCC-------------HHHHHHHHHHhcCC
Q 038401          302 YSTIIAIWGKAGKLDRAAMLFQKLRSSGV-EID----PVLYQTMIVAYERVGL-------------VAHAKRLLHELRQP  363 (542)
Q Consensus       302 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~~~-------------~~~a~~~~~~~~~~  363 (542)
                      +..+...+...|++++|...+++..+... .++    ..++..+...+...|+             .+++...       
T Consensus        86 ~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~-------  158 (338)
T 3ro2_A           86 SGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNA-------  158 (338)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHH-------
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHH-------
Confidence            66677777788888888888777654310 111    2244445555555555             1111100       


Q ss_pred             CCCCHHHHHHHHHHhCCHHHHHHHHHHHHHc----CC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCC---
Q 038401          364 NTIPRETAITILARAGRIEEATWVFRQAFDA----GE-VKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGY-FPD---  434 (542)
Q Consensus       364 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~p~---  434 (542)
                                       +++|.+.++++++.    +. +.....+..++..+...|++++|...++++.+... .++   
T Consensus       159 -----------------~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~  221 (338)
T 3ro2_A          159 -----------------LQAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAA  221 (338)
T ss_dssp             -----------------HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHH
T ss_pred             -----------------HHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHH
Confidence                             44444444443321    11 12245678888899999999999999998875310 112   


Q ss_pred             -HHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCC---Cch-HHHHH-HHHHHhccCChHHHHHHHHHHhc-C---CC-CC
Q 038401          435 -SHIIALVLNSYGKLREFETADDLYSEMQEEGCV---FSD-QVHFQ-MLSLYGARKDFNMLESLFERLDS-D---SN-IN  503 (542)
Q Consensus       435 -~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~---~~~-~~~~~-l~~~~~~~g~~~~A~~~~~~~~~-~---~~-~~  503 (542)
                       ..++..++..+...|++++|...++++.+....   ++. ...+. ++.++...|++++|...+++... .   ++ ..
T Consensus       222 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~  301 (338)
T 3ro2_A          222 ERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIG  301 (338)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHH
Confidence             247788888999999999999999998764311   111 22333 88999999999999999998422 1   11 11


Q ss_pred             chhHHHHHHHHHHhhcchhhHHHHHHHHHhcC
Q 038401          504 KKELHHVVAGIYERANRLNDASRIMNRMNKRR  535 (542)
Q Consensus       504 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  535 (542)
                      ....+..++.+|...|++++|..+++++.+..
T Consensus       302 ~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~  333 (338)
T 3ro2_A          302 EGRACWSLGNAYTALGNHDQAMHFAEKHLEIS  333 (338)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHHHcCChHHHHHHHHHHHHHH
Confidence            13578899999999999999999999987754

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.60  E-value=8.8e-13  Score=113.23  Aligned_cols=204  Identities=9%  Similarity=0.000  Sum_probs=130.7

Q ss_pred             CcHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHH
Q 038401           17 PSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLI   96 (542)
Q Consensus        17 ~~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~   96 (542)
                      .++..+..+...+...|++++|...|+.+.+... .+...+..+...+...|++++|.+.++++.+.. +.+...+..+.
T Consensus         6 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~   83 (225)
T 2vq2_A            6 QVSNIKTQLAMEYMRGQDYRQATASIEDALKSDP-KNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYG   83 (225)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCc-cchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHH
Confidence            3455677777777777788888777777776542 256677777777777777777777777776653 22556666677


Q ss_pred             HHHHhc-CCHHHHHHHHHHhHhCCCCc-cHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCC
Q 038401           97 ELARKL-SDYSKAISIFSRLKSSGIVP-DLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHK  174 (542)
Q Consensus        97 ~~~~~~-~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~  174 (542)
                      ..+... |++++|...++++.+.+..| +...+..+..++...|++++|...++++.+.. +.+...+..+...+...|+
T Consensus        84 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~  162 (225)
T 2vq2_A           84 WFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ-PQFPPAFKELARTKMLAGQ  162 (225)
T ss_dssp             HHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHcCC
Confidence            777777 77777777777776622122 24556666666667777777777777666542 2245566666666666666


Q ss_pred             hHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHC
Q 038401          175 FVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKM  223 (542)
Q Consensus       175 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  223 (542)
                      +++|.+.++++.+.....+...+..+...+...|+.+.+...++.+...
T Consensus       163 ~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  211 (225)
T 2vq2_A          163 LGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQAN  211 (225)
T ss_dssp             HHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh
Confidence            6666666666655432134555555555566666666666666665543

>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=99.60  E-value=7.9e-13  Score=115.85  Aligned_cols=199  Identities=14%  Similarity=0.026  Sum_probs=94.8

Q ss_pred             hHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHh
Q 038401           56 TYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFG  135 (542)
Q Consensus        56 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  135 (542)
                      .|..+...+...|++++|++.|+++.+.. +.+...+..+...+...|++++|.+.++++.+.. +.+...+..+...+.
T Consensus        39 ~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~  116 (252)
T 2ho1_A           39 AYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGFLY  116 (252)
T ss_dssp             HHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHH
Confidence            34444444444555555555554444432 1234444444444555555555555555444432 223444444444555


Q ss_pred             ccCcHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHHCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHH
Q 038401          136 KAKLFKEARLLIEEMREQGVKP-DTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDAD  214 (542)
Q Consensus       136 ~~~~~~~a~~~~~~~~~~g~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  214 (542)
                      ..|++++|...++++...+..| +...+..+...+...|++++|.+.++++.+.. +.+...+..+...+...|++++|.
T Consensus       117 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~  195 (252)
T 2ho1_A          117 EQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKEREYVPAR  195 (252)
T ss_dssp             HTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCHHHHH
Confidence            5555555555555544421122 23344444555555555555555555554432 223444555555555555555555


Q ss_pred             HHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhc
Q 038401          215 RLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRK  258 (542)
Q Consensus       215 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  258 (542)
                      ..++.+.+.. +.+...+..+...+...|++++|.+.++.+.+.
T Consensus       196 ~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~  238 (252)
T 2ho1_A          196 QYYDLFAQGG-GQNARSLLLGIRLAKVFEDRDTAASYGLQLKRL  238 (252)
T ss_dssp             HHHHHHHTTS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhC-cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            5555554432 233444445555555555555555555555544

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.60  E-value=6.8e-14  Score=132.28  Aligned_cols=304  Identities=11%  Similarity=0.001  Sum_probs=170.0

Q ss_pred             CCHHHHHHHHHHHHHCCChHHHHHHHHHHHhcCCCCC----hhhHHHHHHHHhccCCHHHHHHHHHHHHHC----CCCC-
Q 038401          157 PDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLD----LTTCNIMIDVYGQLDMAKDADRLFWSMRKM----GIDP-  227 (542)
Q Consensus       157 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-  227 (542)
                      +....+......+...|++++|...|+++.+.+ +.+    ...+..+...+...|++++|...+++....    +..| 
T Consensus         7 ~~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~   85 (406)
T 3sf4_A            7 ASCLELALEGERLCKSGDCRAGVSFFEAAVQVG-TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLG   85 (406)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHH
Confidence            345556666677777777777777777776653 222    245566666677777777777777665432    1111 


Q ss_pred             ChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCC-Cc----HHHHHHHHHHHHccCC--------------------HHH
Q 038401          228 SVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIE-QN----VVTYNTMIKIYGKSLE--------------------HEK  282 (542)
Q Consensus       228 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~--------------------~~~  282 (542)
                      ...++..+...+...|++++|...+++....... ++    ..++..+...|...|+                    +++
T Consensus        86 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~  165 (406)
T 3sf4_A           86 EAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQA  165 (406)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHH
Confidence            1334555555666666666666666665543100 01    2244455555555555                    555


Q ss_pred             HHHHHHHHHHc----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC-CCCHHHHHHHHHHHHHcCCHHHHHHH
Q 038401          283 ATNLMQEMQNR----GIEP-NAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGV-EIDPVLYQTMIVAYERVGLVAHAKRL  356 (542)
Q Consensus       283 a~~~~~~~~~~----~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~  356 (542)
                      |...+.+....    +..| ...++..+...+...|++++|...+++..+... .++...                    
T Consensus       166 A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~--------------------  225 (406)
T 3sf4_A          166 AVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAA--------------------  225 (406)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHH--------------------
T ss_pred             HHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHH--------------------
Confidence            55555443321    1000 112333444444444444444444444432100 000000                    


Q ss_pred             HHHhcCCCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCC----Cc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC--
Q 038401          357 LHELRQPNTIPRETAITILARAGRIEEATWVFRQAFDAGE----VK-DISVFGCMIELFSRNKKYANVIEVFEKMRSA--  429 (542)
Q Consensus       357 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~----~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--  429 (542)
                             ....+..+...+...|++++|...++++++...    .+ ...++..++..|...|++++|...++++.+.  
T Consensus       226 -------~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~  298 (406)
T 3sf4_A          226 -------ERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQ  298 (406)
T ss_dssp             -------HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             -------HHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHH
Confidence                   000233445556666777777777776654311    11 1567888899999999999999999988753  


Q ss_pred             --CCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcC---CCCch-HHHHH-HHHHHhccCChHH
Q 038401          430 --GYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEG---CVFSD-QVHFQ-MLSLYGARKDFNM  488 (542)
Q Consensus       430 --~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---~~~~~-~~~~~-l~~~~~~~g~~~~  488 (542)
                        +..+ ...++..+...|...|++++|...++++.+..   ..++. ...+. ++.++...|+...
T Consensus       299 ~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  365 (406)
T 3sf4_A          299 ELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISREVGDKSGELTARLNLSDLQMVLGLSYS  365 (406)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTSC
T ss_pred             hcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHhhHhHH
Confidence              1111 14577888899999999999999999987652   11122 22222 7778877776643

>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=99.59  E-value=6.7e-13  Score=116.28  Aligned_cols=200  Identities=12%  Similarity=0.012  Sum_probs=100.1

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 038401           90 VLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLY  169 (542)
Q Consensus        90 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~  169 (542)
                      ..+..+...+...|++++|...|+++.+.. +.+...+..+...+...|++++|...++++.+.. +.+...+..+...+
T Consensus        38 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~  115 (252)
T 2ho1_A           38 DAYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGFL  115 (252)
T ss_dssp             HHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHH
Confidence            344444555555555555555555554432 2234455555555555555555555555554432 12444555555555


Q ss_pred             HHCCChHHHHHHHHHHHhcCC-CCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHH
Q 038401          170 VENHKFVEALSVFAEMNEVNC-PLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEA  248 (542)
Q Consensus       170 ~~~g~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a  248 (542)
                      ...|++++|.+.++++...+. +.+...+..+...+...|++++|...++.+.+.. +.+...+..+...+...|++++|
T Consensus       116 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A  194 (252)
T 2ho1_A          116 YEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKEREYVPA  194 (252)
T ss_dssp             HHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCHHHH
Confidence            555555555555555544111 1233444445555555555555555555555443 22344455555555555555555


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHc
Q 038401          249 IHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNR  293 (542)
Q Consensus       249 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  293 (542)
                      ...++.+.+.. +.+...+..+...+...|+.++|...++++.+.
T Consensus       195 ~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~  238 (252)
T 2ho1_A          195 RQYYDLFAQGG-GQNARSLLLGIRLAKVFEDRDTAASYGLQLKRL  238 (252)
T ss_dssp             HHHHHHHHTTS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhC-cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            55555554432 233444455555555555555555555555544

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.59  E-value=1.2e-12  Score=112.36  Aligned_cols=202  Identities=10%  Similarity=-0.067  Sum_probs=119.1

Q ss_pred             CHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHH
Q 038401           53 DRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMIN  132 (542)
Q Consensus        53 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  132 (542)
                      +...|..+...+...|++++|++.++++.+.. +.+...+..+...+...|++++|...++++.+.. +.+..++..+..
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~   84 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGW   84 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHH
Confidence            44566666777777777777777777766653 2245666666677777777777777777766543 334556666666


Q ss_pred             HHhcc-CcHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHHCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCH
Q 038401          133 VFGKA-KLFKEARLLIEEMREQGVKP-DTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMA  210 (542)
Q Consensus       133 ~~~~~-~~~~~a~~~~~~~~~~g~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  210 (542)
                      .+... |++++|...++++.+.+..| +...+..+...+...|++++|.+.++++.+.. +.+...+..+...+...|++
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~  163 (225)
T 2vq2_A           85 FLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ-PQFPPAFKELARTKMLAGQL  163 (225)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHcCCH
Confidence            66666 67777776666666522222 24555566666666666666666666665543 22345555555555556666


Q ss_pred             HHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHh
Q 038401          211 KDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQR  257 (542)
Q Consensus       211 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  257 (542)
                      ++|...++.+.......+...+..+...+...|+.+.+..+++.+..
T Consensus       164 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  210 (225)
T 2vq2_A          164 GDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQA  210 (225)
T ss_dssp             HHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            66666655555443103444444444455555555555555555543

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.59  E-value=1.5e-13  Score=119.67  Aligned_cols=200  Identities=14%  Similarity=0.085  Sum_probs=100.3

Q ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHH
Q 038401           19 VFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIEL   98 (542)
Q Consensus        19 ~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   98 (542)
                      ...|..+...+...|++++|...|+.+.+... .+...+..+...+...|++++|++.++++.+... .+...+..+...
T Consensus        23 ~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~  100 (243)
T 2q7f_A           23 SMTGGQQMGRGSEFGDYEKAAEAFTKAIEENK-EDAIPYINFANLLSSVNELERALAFYDKALELDS-SAATAYYGAGNV  100 (243)
T ss_dssp             -------------------CCTTHHHHHTTCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-cchHHHHHHHHH
Confidence            34555556666666666666666666665432 2455666666666666666666666666655432 245555556666


Q ss_pred             HHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHHH
Q 038401           99 ARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEA  178 (542)
Q Consensus        99 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a  178 (542)
                      +...|++++|...++++.+.. +.+...+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|
T Consensus       101 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A  178 (243)
T 2q7f_A          101 YVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGMLDEA  178 (243)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHH
T ss_pred             HHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHHHH
Confidence            666666666666666655542 3344555555555556666666666666555442 22444555555555555555555


Q ss_pred             HHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHC
Q 038401          179 LSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKM  223 (542)
Q Consensus       179 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  223 (542)
                      .+.++++.+.. +.+..++..+..++...|++++|...++++.+.
T Consensus       179 ~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  222 (243)
T 2q7f_A          179 LSQFAAVTEQD-PGHADAFYNAGVTYAYKENREKALEMLDKAIDI  222 (243)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHcc
Confidence            55555555432 223444555555555555555555555555443

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.57  E-value=2.8e-13  Score=117.99  Aligned_cols=201  Identities=15%  Similarity=0.131  Sum_probs=109.3

Q ss_pred             CHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHH
Q 038401           53 DRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMIN  132 (542)
Q Consensus        53 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  132 (542)
                      ....|..+...+...|++++|...|+++.+.. +.+...+..+...+...|++++|...++++.+.. +.+...+..+..
T Consensus        22 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~   99 (243)
T 2q7f_A           22 ASMTGGQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGN   99 (243)
T ss_dssp             --------------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHH
Confidence            34456666666777777777777777776653 2356666666777777777777777777766543 334566666666


Q ss_pred             HHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHH
Q 038401          133 VFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKD  212 (542)
Q Consensus       133 ~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  212 (542)
                      .+...|++++|...++++.+.. +.+...+..+...+...|++++|.+.++++.+.. +.+...+..+...+...|++++
T Consensus       100 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~  177 (243)
T 2q7f_A          100 VYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGMLDE  177 (243)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHH
T ss_pred             HHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHHH
Confidence            6666677777777766666543 2345556666666666666666666666665543 2345555555556666666666


Q ss_pred             HHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhc
Q 038401          213 ADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRK  258 (542)
Q Consensus       213 a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  258 (542)
                      |...++.+.+.. +.+..++..+..++...|++++|...++.+.+.
T Consensus       178 A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  222 (243)
T 2q7f_A          178 ALSQFAAVTEQD-PGHADAFYNAGVTYAYKENREKALEMLDKAIDI  222 (243)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHcc
Confidence            666666555443 233445555555555555555555555555544

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.57  E-value=4.9e-13  Score=110.82  Aligned_cols=162  Identities=9%  Similarity=0.059  Sum_probs=125.0

Q ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhc
Q 038401          368 RETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGK  447 (542)
Q Consensus       368 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~  447 (542)
                      +..+...+...|++++|++.|+++++.. +.++..+..++.+|...|++++|+..++++.... +.+...+..+...+..
T Consensus         8 y~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~   85 (184)
T 3vtx_A            8 YMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGSANFM   85 (184)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHHHHHH
Confidence            4455666777777788888888887764 3567888888888889999999999998888743 2245677777788888


Q ss_pred             cCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHHHH-HhcCCCCCchhHHHHHHHHHHhhcchhhHH
Q 038401          448 LREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLFER-LDSDSNINKKELHHVVAGIYERANRLNDAS  525 (542)
Q Consensus       448 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  525 (542)
                      .++++.|...+.++.+..  |.+...+. ++.++...|++++|++.+++ +..+|.  ...+|..++.+|...|++++|+
T Consensus        86 ~~~~~~a~~~~~~a~~~~--~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~--~~~~~~~lg~~~~~~g~~~~A~  161 (184)
T 3vtx_A           86 IDEKQAAIDALQRAIALN--TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPG--FIRAYQSIGLAYEGKGLRDEAV  161 (184)
T ss_dssp             TTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHTTCHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhC--ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcch--hhhHHHHHHHHHHHCCCHHHHH
Confidence            899999999999888876  22233333 88888899999999999888 444554  5678888999999999999999


Q ss_pred             HHHHHHHhcC
Q 038401          526 RIMNRMNKRR  535 (542)
Q Consensus       526 ~~~~~~~~~~  535 (542)
                      +.|+++.+..
T Consensus       162 ~~~~~al~~~  171 (184)
T 3vtx_A          162 KYFKKALEKE  171 (184)
T ss_dssp             HHHHHHHHTT
T ss_pred             HHHHHHHhCC
Confidence            9999887754

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.55  E-value=1.2e-13  Score=132.45  Aligned_cols=193  Identities=12%  Similarity=0.031  Sum_probs=129.0

Q ss_pred             CHHHHHHHHHHHHHcCCH-HHHHHHHHHhcCCC---CCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHH
Q 038401          333 DPVLYQTMIVAYERVGLV-AHAKRLLHELRQPN---TIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIE  408 (542)
Q Consensus       333 ~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~  408 (542)
                      +...+..+..++...|++ ++|...+++..+.+   ...+..+..++...|++++|.+.|+++++.  .|+...+..+..
T Consensus       101 ~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~lg~  178 (474)
T 4abn_A          101 EAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEPELVEAWNQLGEVYWKKGDVTSAHTCFSGALTH--CKNKVSLQNLSM  178 (474)
T ss_dssp             CHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT--CCCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCHHHHHHHHH
Confidence            334444444444444444 44444444433211   122334445555666666666667777664  355677888888


Q ss_pred             HHHhc---------CCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhcc--------CcHHHHHHHHHHHHHcCCCC-c
Q 038401          409 LFSRN---------KKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKL--------REFETADDLYSEMQEEGCVF-S  469 (542)
Q Consensus       409 ~~~~~---------g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~--------g~~~~A~~~~~~~~~~~~~~-~  469 (542)
                      ++...         |++++|+..|+++++.  .| +...|..++.+|...        |++++|+..|+++++..+.. .
T Consensus       179 ~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~  256 (474)
T 4abn_A          179 VLRQLQTDSGDEHSRHVMDSVRQAKLAVQM--DVLDGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKVDRKASS  256 (474)
T ss_dssp             HHTTCCCSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCGGGGG
T ss_pred             HHHHhccCChhhhhhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhCCCccc
Confidence            88888         8888888888888874  35 467788888888887        88899999999888876100 2


Q ss_pred             hHHHHH-HHHHHhccCChHHHHHHHHH-HhcCCCCCchhHHHHHHHHHHhhcchhhHHHHHHHH
Q 038401          470 DQVHFQ-MLSLYGARKDFNMLESLFER-LDSDSNINKKELHHVVAGIYERANRLNDASRIMNRM  531 (542)
Q Consensus       470 ~~~~~~-l~~~~~~~g~~~~A~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  531 (542)
                      +...+. ++.+|...|++++|.+.+++ +..+|+  ...++..++.++...|++++|++.+.++
T Consensus       257 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~--~~~a~~~l~~~~~~lg~~~eAi~~~~~~  318 (474)
T 4abn_A          257 NPDLHLNRATLHKYEESYGEALEGFSQAAALDPA--WPEPQQREQQLLEFLSRLTSLLESKGKT  318 (474)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHHHHHHHHHHHTTTC
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC--CHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            333333 88888889999999988888 455555  4567888888888888888888766543

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.55  E-value=1.8e-13  Score=129.61  Aligned_cols=95  Identities=12%  Similarity=-0.043  Sum_probs=49.3

Q ss_pred             HHHHHHHHHHHCCChHHHHHHHHHHHhcCCCCCh----hhHHHHHHHHhccCCHHHHHHHHHHHHHC----C-CCCChhH
Q 038401          161 SYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDL----TTCNIMIDVYGQLDMAKDADRLFWSMRKM----G-IDPSVVS  231 (542)
Q Consensus       161 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~~~  231 (542)
                      .+..+...+...|++++|+..|+++.+.+ +.+.    ..+..+...+...|++++|...+++....    + .+....+
T Consensus        50 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  128 (411)
T 4a1s_A           50 ELALEGERLCNAGDCRAGVAFFQAAIQAG-TEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKS  128 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHHHhc-ccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHH
Confidence            34445556666677777777766666643 1122    34555556666666666666666655432    0 0112233


Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHH
Q 038401          232 YNTLLRVYGEAELFGEAIHLFRLMQ  256 (542)
Q Consensus       232 ~~~ll~~~~~~~~~~~a~~~~~~~~  256 (542)
                      +..+...+...|++++|...+++..
T Consensus       129 ~~~l~~~~~~~g~~~~A~~~~~~al  153 (411)
T 4a1s_A          129 SGNLGNTLKVMGRFDEAAICCERHL  153 (411)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            4444445555555555555554443

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.53  E-value=1.5e-11  Score=111.02  Aligned_cols=211  Identities=12%  Similarity=0.110  Sum_probs=103.2

Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHH-------hcCCH-------HHHHHHHHHHHhcCCCCCHHHHHHHHHHHHH
Q 038401          281 EKATNLMQEMQNRGIEPNAITYSTIIAIWG-------KAGKL-------DRAAMLFQKLRSSGVEIDPVLYQTMIVAYER  346 (542)
Q Consensus       281 ~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~-------~~~~~-------~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  346 (542)
                      ++|..+|++..... +.++..|..++..+.       ..|++       ++|..+|++.++.-.+.+...|..++..+.+
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            45666666665542 334455555555543       23553       6666666666652112344556666666666


Q ss_pred             cCCHHHHHHHHHHhcCCCC---C-CHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHH-hcCCHHHHHH
Q 038401          347 VGLVAHAKRLLHELRQPNT---I-PRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFS-RNKKYANVIE  421 (542)
Q Consensus       347 ~~~~~~a~~~~~~~~~~~~---~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~g~~~~A~~  421 (542)
                      .|++++|..+|+++...++   . .|..++..+.+.|++++|..+|+++++..+ ++...|...+.... ..|++++|..
T Consensus       112 ~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p-~~~~~~~~~a~~~~~~~~~~~~A~~  190 (308)
T 2ond_A          112 RMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR-TRHHVYVTAALMEYYCSKDKSVAFK  190 (308)
T ss_dssp             TTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTT-CCTHHHHHHHHHHHHTSCCHHHHHH
T ss_pred             cCCHHHHHHHHHHHHhccccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHcCCHHHHHH
Confidence            6666666666665544221   1 234444445555555555555555555422 23333332222211 1455555555


Q ss_pred             HHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCch--HHHHH-HHHHHhccCChHHHHHHHHH
Q 038401          422 VFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSD--QVHFQ-MLSLYGARKDFNMLESLFER  495 (542)
Q Consensus       422 ~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~--~~~~~-l~~~~~~~g~~~~A~~~~~~  495 (542)
                      +|+++++.  .| +...|..++..+.+.|+.++|+.+|+++++....+|+  ...+. ++..+.+.|+.++|..++++
T Consensus       191 ~~~~al~~--~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~  266 (308)
T 2ond_A          191 IFELGLKK--YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKR  266 (308)
T ss_dssp             HHHHHHHH--HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHH
T ss_pred             HHHHHHHh--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            55555542  12 3445555555555555555555555555554211221  11222 44555555555555555555

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.53  E-value=1.1e-12  Score=122.44  Aligned_cols=223  Identities=10%  Similarity=0.010  Sum_probs=151.1

Q ss_pred             HHHhcCCHHHHHHHHHHHHhcCC-CC----CHHHHHHHHHHHHHcCCHHHHHHHHHHhcC---CCC-------CCHHHHH
Q 038401          308 IWGKAGKLDRAAMLFQKLRSSGV-EI----DPVLYQTMIVAYERVGLVAHAKRLLHELRQ---PNT-------IPRETAI  372 (542)
Q Consensus       308 ~~~~~~~~~~a~~~~~~~~~~~~-~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~-------~~~~~l~  372 (542)
                      .+...|++++|...++++.+... .+    ...++..+...|...|+++.|...+++...   ...       ..+..+.
T Consensus       110 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg  189 (378)
T 3q15_A          110 YEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIA  189 (378)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHH
T ss_pred             HHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHH
Confidence            34456666666666666554210 01    134455555666666666666666655432   111       1123455


Q ss_pred             HHHHHhCCHHHHHHHHHHHHHc----CCC-cCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh-----CCCCCCHHHHHHHH
Q 038401          373 TILARAGRIEEATWVFRQAFDA----GEV-KDISVFGCMIELFSRNKKYANVIEVFEKMRS-----AGYFPDSHIIALVL  442 (542)
Q Consensus       373 ~~~~~~g~~~~A~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~~p~~~~~~~l~  442 (542)
                      .++...|++++|.+.++++++.    +.+ ....++..++.+|...|++++|+..+++.++     .. +....++..++
T Consensus       190 ~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~-~~~~~~~~~la  268 (378)
T 3q15_A          190 GNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVP-DLLPKVLFGLS  268 (378)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCG-GGHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCC-hhHHHHHHHHH
Confidence            6667777777777777777653    111 1245788899999999999999999999986     32 12357788899


Q ss_pred             HHHhccCcHHHHHHHHHHHHHcCCC--Cc-hHHHHH-HHHHHhccCC---hHHHHHHHHHHhcCCCCCchhHHHHHHHHH
Q 038401          443 NSYGKLREFETADDLYSEMQEEGCV--FS-DQVHFQ-MLSLYGARKD---FNMLESLFERLDSDSNINKKELHHVVAGIY  515 (542)
Q Consensus       443 ~~~~~~g~~~~A~~~~~~~~~~~~~--~~-~~~~~~-l~~~~~~~g~---~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~  515 (542)
                      ..|.+.|++++|..+++++.+....  .| ....+. +...+...|+   +++|+..+++....+.  ....+..++.+|
T Consensus       269 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~~~~~~--~~~~~~~la~~y  346 (378)
T 3q15_A          269 WTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKKNLHAY--IEACARSAAAVF  346 (378)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHTTCHHH--HHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhCCChhH--HHHHHHHHHHHH
Confidence            9999999999999999999886322  12 222333 6778888888   8888888887432222  346788999999


Q ss_pred             HhhcchhhHHHHHHHHHh
Q 038401          516 ERANRLNDASRIMNRMNK  533 (542)
Q Consensus       516 ~~~g~~~~A~~~~~~~~~  533 (542)
                      ...|++++|..+++++.+
T Consensus       347 ~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          347 ESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHH
Confidence            999999999999999765

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.53  E-value=1.5e-11  Score=110.98  Aligned_cols=217  Identities=12%  Similarity=0.119  Sum_probs=151.0

Q ss_pred             HHHHHHHHHHHhcCCCCcHHHHHHHHHHHH-------ccCCH-------HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 038401          246 GEAIHLFRLMQRKEIEQNVVTYNTMIKIYG-------KSLEH-------EKATNLMQEMQNRGIEPNAITYSTIIAIWGK  311 (542)
Q Consensus       246 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-------~~~~~-------~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  311 (542)
                      ++|..+|+...... +.+...|..++..+.       +.|+.       ++|..+|++..+.-.+-+...|..++..+..
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            45556666655542 335555555555544       24554       6777777777652112244566677777777


Q ss_pred             cCCHHHHHHHHHHHHhcCCCCCHH-HHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHHH-HHHH---HhCCHHHHHH
Q 038401          312 AGKLDRAAMLFQKLRSSGVEIDPV-LYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAI-TILA---RAGRIEEATW  386 (542)
Q Consensus       312 ~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~-~~~~---~~g~~~~A~~  386 (542)
                      .|++++|..+|+++++.. +.+.. +|..++..+.+.|++++|..+|++..+.++......+ .+..   ..|++++|..
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 11233 6777777777777777777777777654333332221 2222   2699999999


Q ss_pred             HHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCC--CHHHHHHHHHHHhccCcHHHHHHHHHHHHH
Q 038401          387 VFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAG-YFP--DSHIIALVLNSYGKLREFETADDLYSEMQE  463 (542)
Q Consensus       387 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~p--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  463 (542)
                      +|+++++.. +.++..|..++..+...|++++|..+|+++++.. +.|  ....|..++..+.+.|+.++|..+++++.+
T Consensus       191 ~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~~  269 (308)
T 2ond_A          191 IFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFT  269 (308)
T ss_dssp             HHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            999998863 4578899999999999999999999999999863 455  457888888888999999999999999998


Q ss_pred             cC
Q 038401          464 EG  465 (542)
Q Consensus       464 ~~  465 (542)
                      ..
T Consensus       270 ~~  271 (308)
T 2ond_A          270 AF  271 (308)
T ss_dssp             HT
T ss_pred             Hc
Confidence            76

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.53  E-value=1.6e-12  Score=107.73  Aligned_cols=163  Identities=14%  Similarity=0.060  Sum_probs=87.6

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCC---CHHHHHHHH
Q 038401          299 AITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTI---PRETAITIL  375 (542)
Q Consensus       299 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~l~~~~  375 (542)
                      +..|..+...+...|++++|+..|++.++.. +-+...+..+..++.+.|++++|...+......++.   .+..+...+
T Consensus         5 ~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~   83 (184)
T 3vtx_A            5 TTIYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLDTTSAEAYYILGSAN   83 (184)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHH
Confidence            3444555555555555555555555555443 224444444555555555555554444443321111   122223334


Q ss_pred             HHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHH
Q 038401          376 ARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETA  454 (542)
Q Consensus       376 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A  454 (542)
                      ...++++.|...+.++.+.. +.+...+..++.++...|++++|++.|+++++.  .| +..++..++.+|.+.|++++|
T Consensus        84 ~~~~~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~~lg~~~~~~g~~~~A  160 (184)
T 3vtx_A           84 FMIDEKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISI--KPGFIRAYQSIGLAYEGKGLRDEA  160 (184)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHh--cchhhhHHHHHHHHHHHCCCHHHH
Confidence            44555555555555555542 345566666666666677777777777666663  24 445666666666667777777


Q ss_pred             HHHHHHHHHcC
Q 038401          455 DDLYSEMQEEG  465 (542)
Q Consensus       455 ~~~~~~~~~~~  465 (542)
                      ++.|+++++.+
T Consensus       161 ~~~~~~al~~~  171 (184)
T 3vtx_A          161 VKYFKKALEKE  171 (184)
T ss_dssp             HHHHHHHHHTT
T ss_pred             HHHHHHHHhCC
Confidence            77777766654

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.52  E-value=6.9e-13  Score=121.70  Aligned_cols=95  Identities=13%  Similarity=0.071  Sum_probs=58.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCC----HHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCC---Cch-HH
Q 038401          402 VFGCMIELFSRNKKYANVIEVFEKMRSAGY-FPD----SHIIALVLNSYGKLREFETADDLYSEMQEEGCV---FSD-QV  472 (542)
Q Consensus       402 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~---~~~-~~  472 (542)
                      .+..++..+...|++++|...+++..+... .++    ..++..+...+...|++++|...++++.+....   ++. ..
T Consensus       225 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~  304 (338)
T 3ro2_A          225 AYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGR  304 (338)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHH
Confidence            566666777777777777777776654210 011    345666677777777777777777776654210   111 11


Q ss_pred             HHH-HHHHHhccCChHHHHHHHHHH
Q 038401          473 HFQ-MLSLYGARKDFNMLESLFERL  496 (542)
Q Consensus       473 ~~~-l~~~~~~~g~~~~A~~~~~~~  496 (542)
                      .+. ++.++...|++++|...+++.
T Consensus       305 ~~~~la~~~~~~g~~~~A~~~~~~a  329 (338)
T 3ro2_A          305 ACWSLGNAYTALGNHDQAMHFAEKH  329 (338)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHH
Confidence            222 677777777777777777774

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.52  E-value=4.5e-12  Score=118.56  Aligned_cols=223  Identities=8%  Similarity=-0.087  Sum_probs=135.7

Q ss_pred             HHHHHccCCHHHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC--C----CCCHHHHHH
Q 038401          271 IKIYGKSLEHEKATNLMQEMQNR----GIEP-NAITYSTIIAIWGKAGKLDRAAMLFQKLRSSG--V----EIDPVLYQT  339 (542)
Q Consensus       271 ~~~~~~~~~~~~a~~~~~~~~~~----~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~----~~~~~~~~~  339 (542)
                      ...+...|++++|...+++..+.    +-.+ ...++..+...+...|+++.|...+.+..+..  .    +....++..
T Consensus       110 g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~  189 (383)
T 3ulq_A          110 GMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHSL  189 (383)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHHH
Confidence            33444555555555555555432    1001 12344555555555555555555555544320  0    001234455


Q ss_pred             HHHHHHHcCCHHHHHHHHHHhcCC---CC------CCHHHHHHHHHHhCCHHHHHHHHHHHHHc----CC-CcCHHHHHH
Q 038401          340 MIVAYERVGLVAHAKRLLHELRQP---NT------IPRETAITILARAGRIEEATWVFRQAFDA----GE-VKDISVFGC  405 (542)
Q Consensus       340 l~~~~~~~~~~~~a~~~~~~~~~~---~~------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~-~~~~~~~~~  405 (542)
                      +..+|...|++++|...+++....   ..      ..+..+..++...|++++|++.++++++.    +. +....++..
T Consensus       190 lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  269 (383)
T 3ulq_A          190 FATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFL  269 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHH
Confidence            555556666666666655554320   00      12344566677778888888888877762    23 345778889


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCC---CCCC-HHHHHHHHHHHhccCc---HHHHHHHHHHHHHcCCCCchHHHHH-HH
Q 038401          406 MIELFSRNKKYANVIEVFEKMRSAG---YFPD-SHIIALVLNSYGKLRE---FETADDLYSEMQEEGCVFSDQVHFQ-ML  477 (542)
Q Consensus       406 l~~~~~~~g~~~~A~~~~~~~~~~~---~~p~-~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~~~~~~~~~~~-l~  477 (542)
                      ++.++...|++++|...+++..+..   -.|. ...+..+...+...|+   .++|+.++++.   +..+.....+. ++
T Consensus       270 l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~la  346 (383)
T 3ulq_A          270 ITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK---MLYADLEDFAIDVA  346 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC---cCHHHHHHHHHHHH
Confidence            9999999999999999999987631   0121 2345678888889998   77777777766   21222233333 89


Q ss_pred             HHHhccCChHHHHHHHHHH
Q 038401          478 SLYGARKDFNMLESLFERL  496 (542)
Q Consensus       478 ~~~~~~g~~~~A~~~~~~~  496 (542)
                      .+|...|++++|...+++.
T Consensus       347 ~~y~~~g~~~~A~~~~~~a  365 (383)
T 3ulq_A          347 KYYHERKNFQKASAYFLKV  365 (383)
T ss_dssp             HHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHH
Confidence            9999999999999999984

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.51  E-value=1.4e-12  Score=118.20  Aligned_cols=235  Identities=13%  Similarity=0.174  Sum_probs=154.7

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhc-------CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCC-------C
Q 038401          299 AITYSTIIAIWGKAGKLDRAAMLFQKLRSS-------GVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQP-------N  364 (542)
Q Consensus       299 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~  364 (542)
                      ..++..+...+...|++++|..+++++.+.       ..+.....+..+...+...|++++|...+++....       +
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            345566666666777777777777666552       22334556667777777888888888777765431       1


Q ss_pred             ----CCCHHHHHHHHHHhCCHHHHHHHHHHHHHc------CC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----
Q 038401          365 ----TIPRETAITILARAGRIEEATWVFRQAFDA------GE-VKDISVFGCMIELFSRNKKYANVIEVFEKMRSA----  429 (542)
Q Consensus       365 ----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~------~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----  429 (542)
                          ...+..+...+...|++++|...++++++.      +. +.....+..++..+...|++++|+.+++++.+.    
T Consensus       107 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~  186 (311)
T 3nf1_A          107 HPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTK  186 (311)
T ss_dssp             CHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHT
T ss_pred             ChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHH
Confidence                122445677788899999999999999874      22 234567888899999999999999999998763    


Q ss_pred             --CCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHHHHcCC-------CCchH------HHHH-HHHHHhccCChHHHHHH
Q 038401          430 --GYFPD-SHIIALVLNSYGKLREFETADDLYSEMQEEGC-------VFSDQ------VHFQ-MLSLYGARKDFNMLESL  492 (542)
Q Consensus       430 --~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-------~~~~~------~~~~-l~~~~~~~g~~~~A~~~  492 (542)
                        +..|+ ..++..++..|...|++++|...++++.+...       .+...      ..+. ....+...+.+.+|...
T Consensus       187 ~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  266 (311)
T 3nf1_A          187 LGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGW  266 (311)
T ss_dssp             SCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC--
T ss_pred             hCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHH
Confidence              21332 35778888999999999999999999987420       00000      1111 33445556777777777


Q ss_pred             HHHHhcCCCCCchhHHHHHHHHHHhhcchhhHHHHHHHHHhc
Q 038401          493 FERLDSDSNINKKELHHVVAGIYERANRLNDASRIMNRMNKR  534 (542)
Q Consensus       493 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  534 (542)
                      +++..... +.....+..++.+|...|++++|.++++++.+.
T Consensus       267 ~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l  307 (311)
T 3nf1_A          267 YKACKVDS-PTVTTTLKNLGALYRRQGKFEAAETLEEAAMRS  307 (311)
T ss_dssp             -------C-HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HhhcCCCC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            77754322 224578999999999999999999999998764

>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=99.48  E-value=2.5e-12  Score=128.16  Aligned_cols=159  Identities=11%  Similarity=0.108  Sum_probs=130.9

Q ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHh
Q 038401          368 RETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYG  446 (542)
Q Consensus       368 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~  446 (542)
                      +..+..++.+.|++++|++.|+++++.. +.+...|..++.+|.+.|++++|++.|+++++  +.| +...|..++.+|.
T Consensus        12 l~nLG~~~~~~G~~~eAi~~~~kAl~l~-P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~--l~P~~~~a~~nLg~~l~   88 (723)
T 4gyw_A           12 LNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIR--ISPTFADAYSNMGNTLK   88 (723)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHH
Confidence            4456677778888888888888888863 35688899999999999999999999999988  446 4688889999999


Q ss_pred             ccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHHHH-HhcCCCCCchhHHHHHHHHHHhhcchhhH
Q 038401          447 KLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLFER-LDSDSNINKKELHHVVAGIYERANRLNDA  524 (542)
Q Consensus       447 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  524 (542)
                      +.|++++|++.|+++++.+  |.....+. ++.+|...|++++|++.+++ +..+|+  ...+|..++.+|...|+|++|
T Consensus        89 ~~g~~~~A~~~~~kAl~l~--P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~--~~~a~~~L~~~l~~~g~~~~A  164 (723)
T 4gyw_A           89 EMQDVQGALQCYTRAIQIN--PAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPD--FPDAYCNLAHCLQIVCDWTDY  164 (723)
T ss_dssp             HTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC--CHHHHHHHHHHHHHTTCCTTH
T ss_pred             HcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC--ChHHHhhhhhHHHhcccHHHH
Confidence            9999999999999999876  22333344 89999999999999999999 566665  567899999999999999999


Q ss_pred             HHHHHHHHh
Q 038401          525 SRIMNRMNK  533 (542)
Q Consensus       525 ~~~~~~~~~  533 (542)
                      .+.++++.+
T Consensus       165 ~~~~~kal~  173 (723)
T 4gyw_A          165 DERMKKLVS  173 (723)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999988765

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.46  E-value=7.1e-12  Score=120.17  Aligned_cols=211  Identities=12%  Similarity=0.004  Sum_probs=109.5

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCH-HHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHH
Q 038401           35 WELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMF-DSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFS  113 (542)
Q Consensus        35 ~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  113 (542)
                      ++++...++...... +.+...+..+...+...|++ ++|++.|++..+..+ .+...|..+..++...|++++|...|+
T Consensus        84 ~~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~  161 (474)
T 4abn_A           84 MEKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEP-ELVEAWNQLGEVYWKKGDVTSAHTCFS  161 (474)
T ss_dssp             HHHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            334444444443332 22455555555666666666 666666666555432 245555556666666666666666666


Q ss_pred             HhHhCCCCccHhHHHHHHHHHhcc---------CcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHC--------CChH
Q 038401          114 RLKSSGIVPDLVAYNTMINVFGKA---------KLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVEN--------HKFV  176 (542)
Q Consensus       114 ~~~~~~~~~~~~~~~~l~~~~~~~---------~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~--------g~~~  176 (542)
                      +..+.  .|+...+..+...+...         |++++|...+++..+.. +.+...|..+..+|...        |+++
T Consensus       162 ~al~~--~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g~~~  238 (474)
T 4abn_A          162 GALTH--CKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPKISQ  238 (474)
T ss_dssp             HHHTT--CCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHHHHH
T ss_pred             HHHhh--CCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccchHH
Confidence            65554  34445555555555555         55666666665555542 22345555555555555        5555


Q ss_pred             HHHHHHHHHHhcCCC--CChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHH
Q 038401          177 EALSVFAEMNEVNCP--LDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHL  251 (542)
Q Consensus       177 ~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~  251 (542)
                      +|++.|++..+....  .+...|..+..++...|++++|...|++..+.. +.+...+..+..++...|++++|.+.
T Consensus       239 ~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~a~~~l~~~~~~lg~~~eAi~~  314 (474)
T 4abn_A          239 QALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD-PAWPEPQQREQQLLEFLSRLTSLLES  314 (474)
T ss_dssp             HHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence            555555555553210  244555555555555555555555555555443 22333444455555555555555443

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.43  E-value=1.9e-12  Score=117.29  Aligned_cols=170  Identities=14%  Similarity=0.123  Sum_probs=128.5

Q ss_pred             cHHHHHHHHHHHHHhcCHHHHHHHHHHHHhC-------CCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhC------C
Q 038401           18 SVFAYNVVLRNVLRAKQWELAHGLFDEMRQR-------GIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQD------R   84 (542)
Q Consensus        18 ~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~------~   84 (542)
                      +..++..+...+...|++++|...|+.+.+.       ..+....++..+...+...|++++|...+++..+.      +
T Consensus        26 ~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~  105 (311)
T 3nf1_A           26 RLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGK  105 (311)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCC
Confidence            4567888999999999999999999988773       22334567888888999999999999999888764      2


Q ss_pred             C-CCCHHhHHHHHHHHHhcCCHHHHHHHHHHhHhC------CC-CccHhHHHHHHHHHhccCcHHHHHHHHHHHHHc---
Q 038401           85 V-SGDLVLYSNLIELARKLSDYSKAISIFSRLKSS------GI-VPDLVAYNTMINVFGKAKLFKEARLLIEEMREQ---  153 (542)
Q Consensus        85 ~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---  153 (542)
                      . +.....+..+...+...|++++|...++++.+.      +. +.....+..+...+...|++++|...+++..+.   
T Consensus       106 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~  185 (311)
T 3nf1_A          106 DHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQT  185 (311)
T ss_dssp             TCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHH
Confidence            1 223557778888888999999999988887753      21 223556777788888888888888888887664   


Q ss_pred             ---CCCC-CHHHHHHHHHHHHHCCChHHHHHHHHHHHh
Q 038401          154 ---GVKP-DTVSYSTLLNLYVENHKFVEALSVFAEMNE  187 (542)
Q Consensus       154 ---g~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  187 (542)
                         +..| ...++..+...|...|++++|.+.++++.+
T Consensus       186 ~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  223 (311)
T 3nf1_A          186 KLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILT  223 (311)
T ss_dssp             TSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence               1122 245677778888888888888888888765

>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=99.43  E-value=1.1e-11  Score=102.71  Aligned_cols=158  Identities=16%  Similarity=0.166  Sum_probs=112.3

Q ss_pred             HHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcH
Q 038401          372 ITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREF  451 (542)
Q Consensus       372 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~  451 (542)
                      ...+...|++++|...++++.+.. +.+...+..++..+...|++++|...++++.+.. +.+...+..++..+...|++
T Consensus        15 ~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~   92 (186)
T 3as5_A           15 GISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTYVQVQKY   92 (186)
T ss_dssp             HHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCH
Confidence            444555666666666666665542 3456777778888888888888888888887642 23567777778888888888


Q ss_pred             HHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHHHHH-hcCCCCCchhHHHHHHHHHHhhcchhhHHHHHH
Q 038401          452 ETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLFERL-DSDSNINKKELHHVVAGIYERANRLNDASRIMN  529 (542)
Q Consensus       452 ~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  529 (542)
                      ++|.+.++++.+..  +.+...+. ++.++...|++++|.+.+++. ...|.  ....+..++.+|...|++++|..+++
T Consensus        93 ~~A~~~~~~~~~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~--~~~~~~~la~~~~~~~~~~~A~~~~~  168 (186)
T 3as5_A           93 DLAVPLLIKVAEAN--PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPN--EGKVHRAIAFSYEQMGRHEEALPHFK  168 (186)
T ss_dssp             HHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcC--cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCcc--chHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            88888888888765  22233333 778888888888888888884 33333  45677888888888888888888888


Q ss_pred             HHHhcC
Q 038401          530 RMNKRR  535 (542)
Q Consensus       530 ~~~~~~  535 (542)
                      ++.+..
T Consensus       169 ~~~~~~  174 (186)
T 3as5_A          169 KANELD  174 (186)
T ss_dssp             HHHHHH
T ss_pred             HHHHcC
Confidence            876654

>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=99.42  E-value=2e-11  Score=105.02  Aligned_cols=190  Identities=12%  Similarity=0.037  Sum_probs=98.2

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCC----CCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHH
Q 038401          333 DPVLYQTMIVAYERVGLVAHAKRLLHELRQPN----TIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIE  408 (542)
Q Consensus       333 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~  408 (542)
                      |+..+......+...|++++|...|++....+    ...+..+..++...|++++|+..++++++.. +.+...|..++.
T Consensus         6 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~   84 (228)
T 4i17_A            6 DPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKN-YNLANAYIGKSA   84 (228)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-CSHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhC-cchHHHHHHHHH
Confidence            45555666666666666666666666554322    2223334455555666666666666666542 234455555666


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCC-H-------HHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCch---HHHHH-H
Q 038401          409 LFSRNKKYANVIEVFEKMRSAGYFPD-S-------HIIALVLNSYGKLREFETADDLYSEMQEEGCVFSD---QVHFQ-M  476 (542)
Q Consensus       409 ~~~~~g~~~~A~~~~~~~~~~~~~p~-~-------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~---~~~~~-l  476 (542)
                      ++...|++++|+..+++.++.  .|+ .       ..|..+...+...|++++|+..|+++++.+   |+   ...+. +
T Consensus        85 ~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~---p~~~~~~~~~~l  159 (228)
T 4i17_A           85 AYRDMKNNQEYIATLTEGIKA--VPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVT---SKKWKTDALYSL  159 (228)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSS---CHHHHHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcC---CCcccHHHHHHH
Confidence            666666666666666666552  232 2       234455555556666666666666665543   33   12222 4


Q ss_pred             HHHHhccCChHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhhcchhhHHHHHHHHHhcCC
Q 038401          477 LSLYGARKDFNMLESLFERLDSDSNINKKELHHVVAGIYERANRLNDASRIMNRMNKRRT  536 (542)
Q Consensus       477 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  536 (542)
                      +.++...|     ...++++....... ...|  ........|.+++|+.++++..+..+
T Consensus       160 ~~~~~~~~-----~~~~~~a~~~~~~~-~~~~--~~~~~~~~~~~~~A~~~~~~a~~l~p  211 (228)
T 4i17_A          160 GVLFYNNG-----ADVLRKATPLASSN-KEKY--ASEKAKADAAFKKAVDYLGEAVTLSP  211 (228)
T ss_dssp             HHHHHHHH-----HHHHHHHGGGTTTC-HHHH--HHHHHHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHH-----HHHHHHHHhcccCC-HHHH--HHHHHHHHHHHHHHHHHHHHHhhcCC
Confidence            55553322     22233322211111 1111  22223344556999999999988664

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.38  E-value=1.2e-09  Score=101.77  Aligned_cols=269  Identities=11%  Similarity=-0.011  Sum_probs=128.3

Q ss_pred             HHHHCCChHHHHHHHHHHHhcCCCCChh----hHHHHHHHHhccCCHHHHHHHHHHHHHCCC-CCC----hhHHHHHHHH
Q 038401          168 LYVENHKFVEALSVFAEMNEVNCPLDLT----TCNIMIDVYGQLDMAKDADRLFWSMRKMGI-DPS----VVSYNTLLRV  238 (542)
Q Consensus       168 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~ll~~  238 (542)
                      .+...|++++|...+++........+..    +++.+...+...|++++|...+++...... ..+    ..++..+...
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            3445566666666665554432111111    233444455555666666666555543210 011    1223445555


Q ss_pred             HHhcCcHHHHHHHHHHHHhc----CCC--C-cHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCC--C--CHHHHHHHHH
Q 038401          239 YGEAELFGEAIHLFRLMQRK----EIE--Q-NVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIE--P--NAITYSTIIA  307 (542)
Q Consensus       239 ~~~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--p--~~~~~~~l~~  307 (542)
                      +...|++++|...++.....    +..  | ....+..+...+...|++++|...+++.......  +  ...++..+..
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            66666666666666655442    111  1 2234455566666667777777776666543211  1  1234555566


Q ss_pred             HHHhcCCHHHHHHHHHHHHhcCCCC-C-HHHHH----HHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCH
Q 038401          308 IWGKAGKLDRAAMLFQKLRSSGVEI-D-PVLYQ----TMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRI  381 (542)
Q Consensus       308 ~~~~~~~~~~a~~~~~~~~~~~~~~-~-~~~~~----~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~  381 (542)
                      .+...|++++|...+++.......+ . .....    ..+..+...|++++|...+++.....+..              
T Consensus       183 ~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~--------------  248 (373)
T 1hz4_A          183 CSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFAN--------------  248 (373)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTT--------------
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCc--------------
Confidence            6666777777777776665421111 1 11111    12223445566666665555554322110              


Q ss_pred             HHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCCCH-HHHHHHHHHHhccCcHHHHHH
Q 038401          382 EEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSA----GYFPDS-HIIALVLNSYGKLREFETADD  456 (542)
Q Consensus       382 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~p~~-~~~~~l~~~~~~~g~~~~A~~  456 (542)
                                    .......+..+...+...|++++|...++++...    +..++. ..+..+..++...|+.++|..
T Consensus       249 --------------~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~  314 (373)
T 1hz4_A          249 --------------NHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQR  314 (373)
T ss_dssp             --------------CGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             --------------chhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHH
Confidence                          0001122344455555555555555555554321    111111 234445555566666666666


Q ss_pred             HHHHHHHc
Q 038401          457 LYSEMQEE  464 (542)
Q Consensus       457 ~~~~~~~~  464 (542)
                      .++++...
T Consensus       315 ~l~~al~~  322 (373)
T 1hz4_A          315 VLLDALKL  322 (373)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            66665553

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.37  E-value=5.4e-10  Score=104.04  Aligned_cols=234  Identities=11%  Similarity=-0.036  Sum_probs=120.5

Q ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHH----hHHHHHHHHhccCCHHHHHHHHHHHHhCCCC-CC----HHhH
Q 038401           22 YNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRY----TYSTLITCFGKEGMFDSAISWLQQMEQDRVS-GD----LVLY   92 (542)
Q Consensus        22 ~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~----~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-~~----~~~~   92 (542)
                      .......+...|++++|...++.........+..    ++..+...+...|++++|.+.+++....... ++    ..++
T Consensus        17 ~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~   96 (373)
T 1hz4_A           17 NALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSL   96 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHH
Confidence            3344455667788888888888877653222222    4555566677778888888777776543111 11    1234


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHhC----CCC--c-cHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCC----CCHHH
Q 038401           93 SNLIELARKLSDYSKAISIFSRLKSS----GIV--P-DLVAYNTMINVFGKAKLFKEARLLIEEMREQGVK----PDTVS  161 (542)
Q Consensus        93 ~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~----~~~~~  161 (542)
                      ..+...+...|++++|...+++....    +..  | ....+..+...+...|++++|...+++.......    ....+
T Consensus        97 ~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  176 (373)
T 1hz4_A           97 IQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQC  176 (373)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHH
Confidence            45566667777777777777665532    111  2 2334445556666667777777776665543211    11234


Q ss_pred             HHHHHHHHHHCCChHHHHHHHHHHHhcCCCCC-hhhHH-----HHHHHHhccCCHHHHHHHHHHHHHCCCCCC---hhHH
Q 038401          162 YSTLLNLYVENHKFVEALSVFAEMNEVNCPLD-LTTCN-----IMIDVYGQLDMAKDADRLFWSMRKMGIDPS---VVSY  232 (542)
Q Consensus       162 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~-----~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~  232 (542)
                      +..+...+...|++++|...+++.......++ ...+.     ..+..+...|++++|...++........+.   ...+
T Consensus       177 ~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~  256 (373)
T 1hz4_A          177 LAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQW  256 (373)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHH
Confidence            55555666666666666666666543211111 01111     122224455555555555555443221100   1123


Q ss_pred             HHHHHHHHhcCcHHHHHHHHHHH
Q 038401          233 NTLLRVYGEAELFGEAIHLFRLM  255 (542)
Q Consensus       233 ~~ll~~~~~~~~~~~a~~~~~~~  255 (542)
                      ..+...+...|++++|...++..
T Consensus       257 ~~la~~~~~~g~~~~A~~~l~~a  279 (373)
T 1hz4_A          257 RNIARAQILLGEFEPAEIVLEEL  279 (373)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHH
Confidence            33444444555555555555444

>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=99.37  E-value=2.9e-11  Score=107.79  Aligned_cols=199  Identities=13%  Similarity=0.194  Sum_probs=127.2

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHhcCC--------C---CCCHHHHHHHHHHhCCHHHHHHHHHHHHHcC-------C
Q 038401          335 VLYQTMIVAYERVGLVAHAKRLLHELRQP--------N---TIPRETAITILARAGRIEEATWVFRQAFDAG-------E  396 (542)
Q Consensus       335 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--------~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-------~  396 (542)
                      .++..+...+...|++++|...+++....        +   ...+..+...+...|++++|.+.++++++..       .
T Consensus        44 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  123 (283)
T 3edt_B           44 TMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKFH  123 (283)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCC
Confidence            34444444555555555555555443311        0   1123456777888999999999999998651       1


Q ss_pred             CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC------CCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHHHHcC----
Q 038401          397 VKDISVFGCMIELFSRNKKYANVIEVFEKMRSA------GYFPD-SHIIALVLNSYGKLREFETADDLYSEMQEEG----  465 (542)
Q Consensus       397 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~------~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~----  465 (542)
                      +.....+..++..+...|++++|+..++++.+.      +..|+ ..++..++..|...|++++|...++++.+..    
T Consensus       124 ~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~  203 (283)
T 3edt_B          124 PDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEILTRAHEKE  203 (283)
T ss_dssp             HHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhc
Confidence            234677888999999999999999999999874      11332 4678888999999999999999999998751    


Q ss_pred             --CCCc-hHHHHH-HHHHHhccCC------hHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhhcchhhHHHHHHHHHhc
Q 038401          466 --CVFS-DQVHFQ-MLSLYGARKD------FNMLESLFERLDSDSNINKKELHHVVAGIYERANRLNDASRIMNRMNKR  534 (542)
Q Consensus       466 --~~~~-~~~~~~-l~~~~~~~g~------~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  534 (542)
                        ...+ ....+. +...+...+.      +.++...++.+... .+.....+..++.+|...|++++|..+++++.+.
T Consensus       204 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          204 FGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVD-SPTVNTTLRSLGALYRRQGKLEAAHTLEDCASRN  281 (283)
T ss_dssp             SSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCC-CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             CCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence              0011 112222 4444444333      33333333332211 1123467889999999999999999999998763

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.35  E-value=3.8e-10  Score=105.21  Aligned_cols=307  Identities=12%  Similarity=0.031  Sum_probs=152.1

Q ss_pred             CCcHHHHHHHHHHH--HHhcCHHHHHHHHHHHHhC--CCCCC--HHhHHHHHHHHh--ccCCHHH---------HHHHHH
Q 038401           16 SPSVFAYNVVLRNV--LRAKQWELAHGLFDEMRQR--GIAPD--RYTYSTLITCFG--KEGMFDS---------AISWLQ   78 (542)
Q Consensus        16 ~~~~~~~~~ll~~~--~~~~~~~~A~~~~~~~~~~--~~~~~--~~~~~~l~~~~~--~~g~~~~---------a~~~~~   78 (542)
                      .|+...-+.+-.-|  .+.+++++|..+++++.+.  ....+  ...|-.++..-.  ..+.+..         ..+.++
T Consensus         7 ~~~~~v~~~l~~wy~~i~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~yy~l~~~r~~~~~~~~~~~~~~~~~~~~~~~l~   86 (378)
T 3q15_A            7 IPSSRVGVKINEWYKMIRQFSVPDAEILKAEVEQDIQQMEEDQDLLIYYSLMCFRHQLMLDYLEPGKTYGNRPTVTELLE   86 (378)
T ss_dssp             BCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHGGGBCCCHHHHHHHHHHHHHHHHHHHTCCC--------CHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHhhcCcccccccccchHHHHH
Confidence            34444444444444  6788999999998887653  22223  223344333210  0111111         114444


Q ss_pred             HHHhCCCCCCH----HhHHHHHHHHHhcCCHHHHHHHHHHhHhCCC-Cc----cHhHHHHHHHHHhccCcHHHHHHHHHH
Q 038401           79 QMEQDRVSGDL----VLYSNLIELARKLSDYSKAISIFSRLKSSGI-VP----DLVAYNTMINVFGKAKLFKEARLLIEE  149 (542)
Q Consensus        79 ~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~  149 (542)
                      .+.....+.+.    ..+......+...|++++|...|++..+... .+    ...++..+...+...|+++.|...+++
T Consensus        87 ~i~~~~~~~~~~l~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~  166 (378)
T 3q15_A           87 TIETPQKKLTGLLKYYSLFFRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQ  166 (378)
T ss_dssp             HHHGGGHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHhccCCCCccHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHH
Confidence            43322111010    1222334445667777777777777664310 01    234566666677777777777777766


Q ss_pred             HHHcC--C---CC-CHHHHHHHHHHHHHCCChHHHHHHHHHHHhc----CCC-CChhhHHHHHHHHhccCCHHHHHHHHH
Q 038401          150 MREQG--V---KP-DTVSYSTLLNLYVENHKFVEALSVFAEMNEV----NCP-LDLTTCNIMIDVYGQLDMAKDADRLFW  218 (542)
Q Consensus       150 ~~~~g--~---~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~  218 (542)
                      ..+..  .   .+ ...++..+...|...|++++|.+.+.+..+.    +.+ ....++..+..++...|++++|...++
T Consensus       167 al~~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~  246 (378)
T 3q15_A          167 ALDIYQNHPLYSIRTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQ  246 (378)
T ss_dssp             HHHHHHTSTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHhCCCchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            55421  0   11 1345566666677777777777776665442    100 112345555566666666666666666


Q ss_pred             HHHH-----CCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcC----CCCcHHHHHHHHHHHHccCC---HHHHHHH
Q 038401          219 SMRK-----MGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKE----IEQNVVTYNTMIKIYGKSLE---HEKATNL  286 (542)
Q Consensus       219 ~~~~-----~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~~~~~l~~~~~~~~~---~~~a~~~  286 (542)
                      +...     .. +....++..+...+.+.|++++|...+++.....    .+.....+..+...+...++   ..+|+..
T Consensus       247 ~al~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~  325 (378)
T 3q15_A          247 KAAKVSREKVP-DLLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSY  325 (378)
T ss_dssp             HHHHHHHHHCG-GGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHH
T ss_pred             HHHHHHHhhCC-hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHH
Confidence            6554     21 2224445555556666666666666666555431    11112233444444445555   4444444


Q ss_pred             HHHHHHcCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 038401          287 MQEMQNRGIEPN-AITYSTIIAIWGKAGKLDRAAMLFQKLR  326 (542)
Q Consensus       287 ~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~  326 (542)
                      +++   .+..|+ ...+..+...|...|++++|...|+...
T Consensus       326 ~~~---~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al  363 (378)
T 3q15_A          326 FEK---KNLHAYIEACARSAAAVFESSCHFEQAAAFYRKVL  363 (378)
T ss_dssp             HHH---TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHh---CCChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            433   111111 2233445555555566665555555544

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=99.32  E-value=3.5e-10  Score=97.13  Aligned_cols=207  Identities=9%  Similarity=-0.005  Sum_probs=104.7

Q ss_pred             cHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 038401          263 NVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIV  342 (542)
Q Consensus       263 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  342 (542)
                      ++..+......+...|++++|...|++..+....++...+..+..++...|++++|+..++...+.. +.+...+..+..
T Consensus         6 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~   84 (228)
T 4i17_A            6 DPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKN-YNLANAYIGKSA   84 (228)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-CSHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhC-cchHHHHHHHHH
Confidence            3455555666666666666666666666555322455555555556666666666666666665543 223444444444


Q ss_pred             HHHHcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCH-------HHHHHHHHHHHhcCC
Q 038401          343 AYERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDI-------SVFGCMIELFSRNKK  415 (542)
Q Consensus       343 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~g~  415 (542)
                      ++...                               |++++|+..++++++.. +.+.       ..|..+...+...|+
T Consensus        85 ~~~~~-------------------------------~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~  132 (228)
T 4i17_A           85 AYRDM-------------------------------KNNQEYIATLTEGIKAV-PGNATIEKLYAIYYLKEGQKFQQAGN  132 (228)
T ss_dssp             HHHHT-------------------------------TCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHc-------------------------------ccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhHHHHHhcc
Confidence            45444                               45555555555555432 1223       345556666666677


Q ss_pred             HHHHHHHHHHHHhCCCCCC---HHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHHHHHHHhccCChHHHHHH
Q 038401          416 YANVIEVFEKMRSAGYFPD---SHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQMLSLYGARKDFNMLESL  492 (542)
Q Consensus       416 ~~~A~~~~~~~~~~~~~p~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  492 (542)
                      +++|++.|+++++  ..|+   ...+..++.+|...|+     ..++++......  ....+ ........+.+++|+..
T Consensus       133 ~~~A~~~~~~al~--~~p~~~~~~~~~~l~~~~~~~~~-----~~~~~a~~~~~~--~~~~~-~~~~~~~~~~~~~A~~~  202 (228)
T 4i17_A          133 IEKAEENYKHATD--VTSKKWKTDALYSLGVLFYNNGA-----DVLRKATPLASS--NKEKY-ASEKAKADAAFKKAVDY  202 (228)
T ss_dssp             HHHHHHHHHHHTT--SSCHHHHHHHHHHHHHHHHHHHH-----HHHHHHGGGTTT--CHHHH-HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh--cCCCcccHHHHHHHHHHHHHHHH-----HHHHHHHhcccC--CHHHH-HHHHHHHHHHHHHHHHH
Confidence            7777777776666  3354   2455555555544332     333444433311  11111 11222334556666666


Q ss_pred             HHH-HhcCCCCCchhHHHHHHHH
Q 038401          493 FER-LDSDSNINKKELHHVVAGI  514 (542)
Q Consensus       493 ~~~-~~~~~~~~~~~~~~~l~~~  514 (542)
                      +++ +...|+  +..+...+..+
T Consensus       203 ~~~a~~l~p~--~~~~~~~l~~i  223 (228)
T 4i17_A          203 LGEAVTLSPN--RTEIKQMQDQV  223 (228)
T ss_dssp             HHHHHHHCTT--CHHHHHHHHHH
T ss_pred             HHHHhhcCCC--CHHHHHHHHHH
Confidence            666 333443  23344444433

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.32  E-value=2.6e-11  Score=108.42  Aligned_cols=94  Identities=17%  Similarity=0.150  Sum_probs=54.8

Q ss_pred             HHHHHHHHHHhcCCCCcHHHHHHHHHHHHcc--C-CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 038401          247 EAIHLFRLMQRKEIEQNVVTYNTMIKIYGKS--L-EHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQ  323 (542)
Q Consensus       247 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--~-~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~  323 (542)
                      +|.+++.+..+.- +++...| .    +.+.  + ++++|...+.+.               ...|...|++++|...|.
T Consensus         3 ~a~~~~~~a~k~~-~~~~~~~-~----~~~~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~~~~   61 (292)
T 1qqe_A            3 DPVELLKRAEKKG-VPSSGFM-K----LFSGSDSYKFEEAADLCVQA---------------ATIYRLRKELNLAGDSFL   61 (292)
T ss_dssp             CHHHHHHHHHHHS-SCCCTHH-H----HHSCCSHHHHHHHHHHHHHH---------------HHHHHHTTCTHHHHHHHH
T ss_pred             cHHHHHHHHHHHh-CcCCCcc-h----hcCCCCCccHHHHHHHHHHH---------------HHHHHHcCCHHHHHHHHH
Confidence            4566666666552 2222222 2    2232  2 477777777665               334667888888888888


Q ss_pred             HHHhc----CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHhc
Q 038401          324 KLRSS----GVEID-PVLYQTMIVAYERVGLVAHAKRLLHELR  361 (542)
Q Consensus       324 ~~~~~----~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~  361 (542)
                      +..+.    +.+++ ..++..+..+|...|++++|+..+++..
T Consensus        62 ~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al  104 (292)
T 1qqe_A           62 KAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAI  104 (292)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            77553    21111 3466666667777777777776666543

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.32  E-value=1.5e-10  Score=101.78  Aligned_cols=164  Identities=13%  Similarity=0.126  Sum_probs=102.7

Q ss_pred             HHHHHHhCCHHHHHHHHHHHHHcCCCcC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCC-HHHHHHHHHHHh
Q 038401          372 ITILARAGRIEEATWVFRQAFDAGEVKD---ISVFGCMIELFSRNKKYANVIEVFEKMRSAGY-FPD-SHIIALVLNSYG  446 (542)
Q Consensus       372 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~p~-~~~~~~l~~~~~  446 (542)
                      ...+.+.|++++|+..|+++++..+ .+   ...+..++.++...|++++|+..|+++++... .|. ...+..++.++.
T Consensus        22 a~~~~~~g~~~~A~~~~~~~l~~~p-~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~  100 (261)
T 3qky_A           22 AMEFYNQGKYDRAIEYFKAVFTYGR-THEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEYERAMCYY  100 (261)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHGGGCS-CSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHhCC-CCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHHHHHHHHH
Confidence            4445555666666666666655422 22   45566666666666666666666666665321 112 234555556666


Q ss_pred             c--------cCcHHHHHHHHHHHHHcCCCCchHH----------------HHHHHHHHhccCChHHHHHHHHHH-hcCCC
Q 038401          447 K--------LREFETADDLYSEMQEEGCVFSDQV----------------HFQMLSLYGARKDFNMLESLFERL-DSDSN  501 (542)
Q Consensus       447 ~--------~g~~~~A~~~~~~~~~~~~~~~~~~----------------~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~  501 (542)
                      .        .|++++|+..|+++++..+..+...                .+.++.+|...|++++|+..++++ ...|+
T Consensus       101 ~~~~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~  180 (261)
T 3qky_A          101 KLSPPYELDQTDTRKAIEAFQLFIDRYPNHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAVTYEAVFDAYPD  180 (261)
T ss_dssp             HHCCCTTSCCHHHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             HhcccccccchhHHHHHHHHHHHHHHCcCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCC
Confidence            5        6667777777776666552221111                144788888899999999888884 44444


Q ss_pred             CC-chhHHHHHHHHHHhh----------cchhhHHHHHHHHHhcCC
Q 038401          502 IN-KKELHHVVAGIYERA----------NRLNDASRIMNRMNKRRT  536 (542)
Q Consensus       502 ~~-~~~~~~~l~~~~~~~----------g~~~~A~~~~~~~~~~~~  536 (542)
                      .. ...++..++.+|...          |++++|+..++++.+..+
T Consensus       181 ~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p  226 (261)
T 3qky_A          181 TPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFP  226 (261)
T ss_dssp             STTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCT
T ss_pred             CchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCC
Confidence            32 346788888888876          888899999988887654

>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=99.32  E-value=3e-10  Score=93.87  Aligned_cols=166  Identities=14%  Similarity=0.088  Sum_probs=111.9

Q ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHH
Q 038401           19 VFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIEL   98 (542)
Q Consensus        19 ~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   98 (542)
                      ...|..+...+...|++++|...|+.+.+... .+..++..+...+...|++++|...++++.+.. +.+...+..+...
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~   85 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVYDADA-FDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLT   85 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTCCTTS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCc-cChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHH
Confidence            34566667777777888888887777766532 356677777777777777777777777776653 2356666677777


Q ss_pred             HHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHHH
Q 038401           99 ARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEA  178 (542)
Q Consensus        99 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a  178 (542)
                      +...|++++|.+.++++.+.. +.+...+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|
T Consensus        86 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A  163 (186)
T 3as5_A           86 YVQVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHEEA  163 (186)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHHHH
Confidence            777777777777777766553 3455666666666777777777777777766553 23456666666667777777777


Q ss_pred             HHHHHHHHhc
Q 038401          179 LSVFAEMNEV  188 (542)
Q Consensus       179 ~~~~~~~~~~  188 (542)
                      .+.++++.+.
T Consensus       164 ~~~~~~~~~~  173 (186)
T 3as5_A          164 LPHFKKANEL  173 (186)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHc
Confidence            7776666543

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.31  E-value=2.3e-10  Score=97.85  Aligned_cols=90  Identities=8%  Similarity=0.099  Sum_probs=66.1

Q ss_pred             cCcHHHHHHHHHHHHHcCCCCchHH----------------HHHHHHHHhccCChHHHHHHHHHH-hcCCCCC-chhHHH
Q 038401          448 LREFETADDLYSEMQEEGCVFSDQV----------------HFQMLSLYGARKDFNMLESLFERL-DSDSNIN-KKELHH  509 (542)
Q Consensus       448 ~g~~~~A~~~~~~~~~~~~~~~~~~----------------~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~~-~~~~~~  509 (542)
                      .|++++|...|+++++..+..+...                .+.++..|...|++++|+..++++ ...|+.. ...++.
T Consensus       109 ~~~~~~A~~~~~~~l~~~P~~~~a~~a~~~l~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~  188 (225)
T 2yhc_A          109 PQQARAAFSDFSKLVRGYPNSQYTTDATKRLVFLKDRLAKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALP  188 (225)
T ss_dssp             CHHHHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHCcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHH
Confidence            5667777777777776652222111                133678899999999999999995 4455532 136799


Q ss_pred             HHHHHHHhhcchhhHHHHHHHHHhcCCC
Q 038401          510 VVAGIYERANRLNDASRIMNRMNKRRTF  537 (542)
Q Consensus       510 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~  537 (542)
                      .++.+|.+.|++++|++.++++...++.
T Consensus       189 ~l~~~~~~~g~~~~A~~~~~~l~~~~~~  216 (225)
T 2yhc_A          189 LMENAYRQMQMNAQAEKVAKIIAANSSN  216 (225)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHCCSC
T ss_pred             HHHHHHHHcCCcHHHHHHHHHHHhhCCC
Confidence            9999999999999999999998887643

>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=99.29  E-value=2.3e-10  Score=114.07  Aligned_cols=167  Identities=11%  Similarity=0.021  Sum_probs=147.1

Q ss_pred             CcHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHH
Q 038401           17 PSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLI   96 (542)
Q Consensus        17 ~~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~   96 (542)
                      -++.+|+.+...+.+.|++++|++.|++.++.... +..+|..+..++.+.|++++|++.|++.++..+. +...|..+.
T Consensus         7 ~~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P~-~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~P~-~~~a~~nLg   84 (723)
T 4gyw_A            7 THADSLNNLANIKREQGNIEEAVRLYRKALEVFPE-FAAAHSNLASVLQQQGKLQEALMHYKEAIRISPT-FADAYSNMG   84 (723)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHH
Confidence            34678999999999999999999999999987533 6789999999999999999999999999987533 678999999


Q ss_pred             HHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChH
Q 038401           97 ELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFV  176 (542)
Q Consensus        97 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~  176 (542)
                      .++...|++++|++.|++..+.. +.+...|..+..++...|++++|+..|++..+.. +-+...+..+..++...|+++
T Consensus        85 ~~l~~~g~~~~A~~~~~kAl~l~-P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~-P~~~~a~~~L~~~l~~~g~~~  162 (723)
T 4gyw_A           85 NTLKEMQDVQGALQCYTRAIQIN-PAFADAHSNLASIHKDSGNIPEAIASYRTALKLK-PDFPDAYCNLAHCLQIVCDWT  162 (723)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCCT
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHhhhhhHHHhcccHH
Confidence            99999999999999999998864 4468899999999999999999999999998863 236788999999999999999


Q ss_pred             HHHHHHHHHHh
Q 038401          177 EALSVFAEMNE  187 (542)
Q Consensus       177 ~a~~~~~~~~~  187 (542)
                      +|.+.++++.+
T Consensus       163 ~A~~~~~kal~  173 (723)
T 4gyw_A          163 DYDERMKKLVS  173 (723)
T ss_dssp             THHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99998888754

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=99.28  E-value=5.9e-11  Score=97.19  Aligned_cols=162  Identities=10%  Similarity=0.023  Sum_probs=122.5

Q ss_pred             CHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH-H
Q 038401          367 PRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNS-Y  445 (542)
Q Consensus       367 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~-~  445 (542)
                      ........+...|++++|...|+++++.. +.+...+..+..++...|++++|+..++++.+.  .|+...+...... +
T Consensus         8 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~--~p~~~~~~~~~~~~~   84 (176)
T 2r5s_A            8 QLLKQVSELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLE--YQDNSYKSLIAKLEL   84 (176)
T ss_dssp             THHHHHHHHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGG--GCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhc--cCChHHHHHHHHHHH
Confidence            34455667788899999999999887753 356888999999999999999999999998774  3554433332222 1


Q ss_pred             hccCcHHHHHHHHHHHHHcCCCCchHH-HHHHHHHHhccCChHHHHHHHHH-HhcCCCCCchhHHHHHHHHHHhhcchhh
Q 038401          446 GKLREFETADDLYSEMQEEGCVFSDQV-HFQMLSLYGARKDFNMLESLFER-LDSDSNINKKELHHVVAGIYERANRLND  523 (542)
Q Consensus       446 ~~~g~~~~A~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~g~~~~A~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~g~~~~  523 (542)
                      ...+...+|...++++++..  |.+.. .+.++.++...|++++|+..+++ +..+|+..+...+..++.+|...|+.++
T Consensus        85 ~~~~~~~~a~~~~~~al~~~--P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~  162 (176)
T 2r5s_A           85 HQQAAESPELKRLEQELAAN--PDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNA  162 (176)
T ss_dssp             HHHHTSCHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCH
T ss_pred             HhhcccchHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCc
Confidence            22233445799999999876  22233 34499999999999999999999 4556654445689999999999999999


Q ss_pred             HHHHHHHHHh
Q 038401          524 ASRIMNRMNK  533 (542)
Q Consensus       524 A~~~~~~~~~  533 (542)
                      |...|++...
T Consensus       163 A~~~y~~al~  172 (176)
T 2r5s_A          163 IASKYRRQLY  172 (176)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999998764

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.28  E-value=1.9e-10  Score=101.08  Aligned_cols=153  Identities=11%  Similarity=0.090  Sum_probs=96.0

Q ss_pred             HHHHHHhCCHHHHHHHHHHHHHcCCC--cCHHHHHHHHHHHHh--------cCCHHHHHHHHHHHHhCCCCCCH-HH---
Q 038401          372 ITILARAGRIEEATWVFRQAFDAGEV--KDISVFGCMIELFSR--------NKKYANVIEVFEKMRSAGYFPDS-HI---  437 (542)
Q Consensus       372 ~~~~~~~g~~~~A~~~~~~~~~~~~~--~~~~~~~~l~~~~~~--------~g~~~~A~~~~~~~~~~~~~p~~-~~---  437 (542)
                      ..++...|++++|+..|+++++..+.  .....+..++.++..        .|++++|+..|+++++.  .|+. ..   
T Consensus        59 g~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a  136 (261)
T 3qky_A           59 ARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDR--YPNHELVDDA  136 (261)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHH--CTTCTTHHHH
T ss_pred             HHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHH--CcCchhHHHH
Confidence            34445555555555555555554221  123445555666666        66677777777666653  2321 11   


Q ss_pred             --------------HHHHHHHHhccCcHHHHHHHHHHHHHcCCCCc-hH-HHHHHHHHHhcc----------CChHHHHH
Q 038401          438 --------------IALVLNSYGKLREFETADDLYSEMQEEGCVFS-DQ-VHFQMLSLYGAR----------KDFNMLES  491 (542)
Q Consensus       438 --------------~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~-~~~~l~~~~~~~----------g~~~~A~~  491 (542)
                                    +..++..|.+.|++++|+..|+++++..+..+ .. ..+.++.+|...          |++++|+.
T Consensus       137 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~  216 (261)
T 3qky_A          137 TQKIRELRAKLARKQYEAARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVE  216 (261)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHH
Confidence                          25667888999999999999999998763322 22 233377888766          88899999


Q ss_pred             HHHHH-hcCCCCCc-hhHHHHHHHHHHhhcchhhHHH
Q 038401          492 LFERL-DSDSNINK-KELHHVVAGIYERANRLNDASR  526 (542)
Q Consensus       492 ~~~~~-~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~  526 (542)
                      .++++ ...|+... ..+...+..++...|+++++..
T Consensus       217 ~~~~~~~~~p~~~~~~~a~~~l~~~~~~~~~~~~~~~  253 (261)
T 3qky_A          217 LYERLLQIFPDSPLLRTAEELYTRARQRLTELEGDAS  253 (261)
T ss_dssp             HHHHHHHHCTTCTHHHHHHHHHHHHHHHHHHHHTCTT
T ss_pred             HHHHHHHHCCCChHHHHHHHHHHHHHHHHHHhhhhhH
Confidence            99995 44554322 3566677777777777766544

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.27  E-value=1.3e-10  Score=103.34  Aligned_cols=160  Identities=9%  Similarity=-0.034  Sum_probs=128.2

Q ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHH-HHHHHHhc
Q 038401          369 ETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIA-LVLNSYGK  447 (542)
Q Consensus       369 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~-~l~~~~~~  447 (542)
                      ..+...+...|++++|...|+++++.. +.+...+..++.++...|++++|+..++++...  .|+..... .....+..
T Consensus       121 ~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~~~~~~l~~  197 (287)
T 3qou_A          121 AQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ--DQDTRYQGLVAQIELLX  197 (287)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG--GCSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh--hcchHHHHHHHHHHHHh
Confidence            345566778888899999999988874 357888999999999999999999999998874  46654333 33334667


Q ss_pred             cCcHHHHHHHHHHHHHcCCCCchH-HHHHHHHHHhccCChHHHHHHHHH-HhcCCCCCchhHHHHHHHHHHhhcchhhHH
Q 038401          448 LREFETADDLYSEMQEEGCVFSDQ-VHFQMLSLYGARKDFNMLESLFER-LDSDSNINKKELHHVVAGIYERANRLNDAS  525 (542)
Q Consensus       448 ~g~~~~A~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  525 (542)
                      .++.++|...++++++..  |.+. ..+.++.++...|++++|+..+++ +..+|+..+..++..++.+|...|+.++|.
T Consensus       198 ~~~~~~a~~~l~~al~~~--P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~a~  275 (287)
T 3qou_A          198 QAADTPEIQQLQQQVAEN--PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGTGDALA  275 (287)
T ss_dssp             HHTSCHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCTTCHHH
T ss_pred             hcccCccHHHHHHHHhcC--CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCCCCcHH
Confidence            888889999999999987  2233 344499999999999999999999 566777555789999999999999999999


Q ss_pred             HHHHHHHh
Q 038401          526 RIMNRMNK  533 (542)
Q Consensus       526 ~~~~~~~~  533 (542)
                      ..|++...
T Consensus       276 ~~~r~al~  283 (287)
T 3qou_A          276 SXYRRQLY  283 (287)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99988654

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=99.23  E-value=3.6e-11  Score=95.28  Aligned_cols=142  Identities=8%  Similarity=-0.026  Sum_probs=106.5

Q ss_pred             HHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCc
Q 038401          372 ITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLRE  450 (542)
Q Consensus       372 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~  450 (542)
                      ..++...|++++|++.++++.... +.++..+..+...|...|++++|++.|+++++  +.| +..+|..++.+|...|+
T Consensus         4 G~~~~~~~~~e~ai~~~~~a~~~~-p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~--~~p~~~~a~~~lg~~~~~~~~   80 (150)
T 4ga2_A            4 GSMRRSKADVERYIASVQGSTPSP-RQKSIKGFYFAKLYYEAKEYDLAKKYICTYIN--VQERDPKAHRFLGLLYELEEN   80 (150)
T ss_dssp             ---CCCHHHHHHHHHHHHHHSCSH-HHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHcChHHHHHHHHHHhcccC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCc
Confidence            344456678888888888886641 23455667788899999999999999999988  446 56888899999999999


Q ss_pred             HHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHH-HHH-HhcCCCCCchhHHHHHHHHHHhhcc
Q 038401          451 FETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESL-FER-LDSDSNINKKELHHVVAGIYERANR  520 (542)
Q Consensus       451 ~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~-~~~-~~~~~~~~~~~~~~~l~~~~~~~g~  520 (542)
                      +++|+..|+++++.+  |.+...+. ++.+|.+.|++++|.+. +++ +..+|+  +..+|.....++...|+
T Consensus        81 ~~~A~~~~~~al~~~--p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~--~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A           81 TDKAVECYRRSVELN--PTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPG--SPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             HHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTT--CHHHHHHHHHHHHTCCC
T ss_pred             hHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcC--CHHHHHHHHHHHHHhCc
Confidence            999999999999887  22333333 88899999998876654 566 566666  55778888888877774

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=99.23  E-value=2.9e-08  Score=94.99  Aligned_cols=369  Identities=11%  Similarity=0.020  Sum_probs=175.3

Q ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCC-HHHHHHHHHHHHhC-CCC-CCHHhHHHHHH
Q 038401           21 AYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGM-FDSAISWLQQMEQD-RVS-GDLVLYSNLIE   97 (542)
Q Consensus        21 ~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-~~~a~~~~~~~~~~-~~~-~~~~~~~~l~~   97 (542)
                      .|...+..+-. |+++.+..+|++....  .|+...|...+....+.++ .+....+|+..... |.. .+...|...+.
T Consensus        17 vyer~l~~~P~-~~~e~~~~iferal~~--~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~~s~~iW~~Yi~   93 (493)
T 2uy1_A           17 IMEHARRLYMS-KDYRSLESLFGRCLKK--SYNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYWDSYGLYKEYIE   93 (493)
T ss_dssp             HHHHHHHHHHT-TCHHHHHHHHHHHSTT--CCCHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCTTCHHHHHHHHH
T ss_pred             HHHHHHHHCCC-CCHHHHHHHHHHHhcc--CCCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCcccHHHHHHHHH
Confidence            45555544433 8899999999999885  4688899988887776663 35566777776653 432 36677777776


Q ss_pred             HHH----hcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCC
Q 038401           98 LAR----KLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENH  173 (542)
Q Consensus        98 ~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g  173 (542)
                      .+.    ..++.+.+..+|++.+......-...|......-.. .....+.+++.+..                     +
T Consensus        94 f~~~~~~~~~~~~~vR~iy~rAL~~P~~~~~~lw~~Y~~fE~~-~~~~~~~~~~~~~~---------------------~  151 (493)
T 2uy1_A           94 EEGKIEDEQTRIEKIRNGYMRALQTPMGSLSELWKDFENFELE-LNKITGKKIVGDTL---------------------P  151 (493)
T ss_dssp             HTSSCSSHHHHHHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHH-HCHHHHHHHHHHHH---------------------H
T ss_pred             HHHhchhhhHHHHHHHHHHHHHHhChhhhHHHHHHHHHHHHHH-hccccHHHHHHHHh---------------------H
Confidence            654    345678889999998874221112223222211111 11111222221110                     1


Q ss_pred             ChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccC-------CHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHH
Q 038401          174 KFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLD-------MAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFG  246 (542)
Q Consensus       174 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-------~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~  246 (542)
                      .+..|..+++.+...-...+...|...+..-...+       ..+.+..+|+++.... +.+...|...+..+.+.|+.+
T Consensus       152 ~y~~ar~~y~~~~~~~~~~s~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al~~~-p~~~~lW~~ya~~~~~~~~~~  230 (493)
T 2uy1_A          152 IFQSSFQRYQQIQPLIRGWSVKNAARLIDLEMENGMKLGGRPHESRMHFIHNYILDSF-YYAEEVYFFYSEYLIGIGQKE  230 (493)
T ss_dssp             HHHHHHHHHHHHHHHHHTCSHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhcCCccCcchhhHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHH
Confidence            11112222222111000011223333222211110       0123344444444432 233444444444444455555


Q ss_pred             HHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHH-HHHHHHH--H---cCCCC---CHHHHHHHHHHHHhcCCHHH
Q 038401          247 EAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKAT-NLMQEMQ--N---RGIEP---NAITYSTIIAIWGKAGKLDR  317 (542)
Q Consensus       247 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~-~~~~~~~--~---~~~~p---~~~~~~~l~~~~~~~~~~~~  317 (542)
                      .|..+++.....  +.+...|...    ....+.++.. .+.+...  .   .+..+   ....|...+....+.++.+.
T Consensus       231 ~ar~i~erAi~~--P~~~~l~~~y----~~~~e~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~  304 (493)
T 2uy1_A          231 KAKKVVERGIEM--SDGMFLSLYY----GLVMDEEAVYGDLKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLEL  304 (493)
T ss_dssp             HHHHHHHHHHHH--CCSSHHHHHH----HHHTTCTHHHHHHHHHTC----------CHHHHHHHHHHHHHHHHHHHCHHH
T ss_pred             HHHHHHHHHHhC--CCcHHHHHHH----HhhcchhHHHHHHHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHH
Confidence            555555555444  2222222111    1111111111 0110000  0   00000   12345555555555666777


Q ss_pred             HHHHHHHHHhcCCCCCHHHHHHHHHHHHH-cCCHHHHHHHHHHhcCCC---CCCHHHHHHHHHHhCCHHHHHHHHHHHHH
Q 038401          318 AAMLFQKLRSSGVEIDPVLYQTMIVAYER-VGLVAHAKRLLHELRQPN---TIPRETAITILARAGRIEEATWVFRQAFD  393 (542)
Q Consensus       318 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  393 (542)
                      |..+|+.+ ... ..+..+|......-.. .++.+.|..+|+...+..   +..+...+....+.|+.+.|..+|+++. 
T Consensus       305 AR~i~~~A-~~~-~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~~~~~~~~~~yid~e~~~~~~~~aR~l~er~~-  381 (493)
T 2uy1_A          305 FRKLFIEL-GNE-GVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKHPDSTLLKEEFFLFLLRIGDEENARALFKRLE-  381 (493)
T ss_dssp             HHHHHHHH-TTS-CCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHSC-
T ss_pred             HHHHHHHh-hCC-CCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH-
Confidence            77777776 221 2234444332222222 235677777776654311   1123334555566677777777777762 


Q ss_pred             cCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 038401          394 AGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRS  428 (542)
Q Consensus       394 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  428 (542)
                          .....|...+..-...|+.+.+..+++++.+
T Consensus       382 ----k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          382 ----KTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             ----CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             ----HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence                3567777777776777888888887777764

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.22  E-value=4.3e-10  Score=94.75  Aligned_cols=124  Identities=10%  Similarity=0.090  Sum_probs=55.3

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhcc
Q 038401          406 MIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGAR  483 (542)
Q Consensus       406 l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~  483 (542)
                      ++.+|...|++++|+..|+++++.  .| +...+..++.++...|++++|+..|+++++.+  |.+...+. ++.+|...
T Consensus        60 lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--P~~~~a~~~lg~~~~~~  135 (208)
T 3urz_A           60 LALAYKKNRNYDKAYLFYKELLQK--APNNVDCLEACAEMQVCRGQEKDALRMYEKILQLE--ADNLAANIFLGNYYYLT  135 (208)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHH
Confidence            555555555555555555555552  23 34455555555555555555555555555544  11112222 44444433


Q ss_pred             CC--hHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhhcchhhHHHHHHHHHhcC
Q 038401          484 KD--FNMLESLFERLDSDSNINKKELHHVVAGIYERANRLNDASRIMNRMNKRR  535 (542)
Q Consensus       484 g~--~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  535 (542)
                      |.  .+.+...++++.. +. +....+..++.++...|++++|+..|+++.+..
T Consensus       136 ~~~~~~~~~~~~~~~~~-~~-~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~  187 (208)
T 3urz_A          136 AEQEKKKLETDYKKLSS-PT-KMQYARYRDGLSKLFTTRYEKARNSLQKVILRF  187 (208)
T ss_dssp             HHHHHHHHHHHHC---C-CC-HHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTTS
T ss_pred             hHHHHHHHHHHHHHHhC-CC-chhHHHHHHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            32  2233333333321 11 011233444555555555555555555555433

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.20  E-value=4.4e-10  Score=100.41  Aligned_cols=153  Identities=12%  Similarity=0.038  Sum_probs=67.5

Q ss_pred             HHHHHHcCCHHHHHHHHHHhcCC-----C----CCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCc-C----HHHHHHH
Q 038401          341 IVAYERVGLVAHAKRLLHELRQP-----N----TIPRETAITILARAGRIEEATWVFRQAFDAGEVK-D----ISVFGCM  406 (542)
Q Consensus       341 ~~~~~~~~~~~~a~~~~~~~~~~-----~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~-~----~~~~~~l  406 (542)
                      ...|...|++++|...+.+....     +    ...+..+..++...|++++|+..++++++..... +    ..+++.+
T Consensus        44 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~l  123 (292)
T 1qqe_A           44 ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFEL  123 (292)
T ss_dssp             HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            33455556666665555543320     0    1122333444445555555555555554431100 0    2344445


Q ss_pred             HHHHHhc-CCHHHHHHHHHHHHhCCCCCC-------HHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchH------H
Q 038401          407 IELFSRN-KKYANVIEVFEKMRSAGYFPD-------SHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQ------V  472 (542)
Q Consensus       407 ~~~~~~~-g~~~~A~~~~~~~~~~~~~p~-------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~------~  472 (542)
                      +.+|... |++++|+..|++.++.  .|+       ..++..++..+.+.|++++|+..|+++.+..+..+..      .
T Consensus       124 g~~~~~~lg~~~~A~~~~~~Al~~--~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~  201 (292)
T 1qqe_A          124 GEILENDLHDYAKAIDCYELAGEW--YAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDY  201 (292)
T ss_dssp             HHHHHHTTCCHHHHHHHHHHHHHH--HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHH
T ss_pred             HHHHHHhhcCHHHHHHHHHHHHHH--HHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHH
Confidence            5555553 5555555555555442  121       1234444555555555555555555555443211110      1


Q ss_pred             HHHHHHHHhccCChHHHHHHHHH
Q 038401          473 HFQMLSLYGARKDFNMLESLFER  495 (542)
Q Consensus       473 ~~~l~~~~~~~g~~~~A~~~~~~  495 (542)
                      ...++.++...|++++|+..+++
T Consensus       202 ~~~lg~~~~~~g~~~~A~~~~~~  224 (292)
T 1qqe_A          202 FLKKGLCQLAATDAVAAARTLQE  224 (292)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHG
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHH
Confidence            11144445555555555555555

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=99.19  E-value=1.3e-09  Score=84.59  Aligned_cols=129  Identities=12%  Similarity=0.163  Sum_probs=87.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHH-HHHHHH
Q 038401          402 VFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHF-QMLSLY  480 (542)
Q Consensus       402 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~-~l~~~~  480 (542)
                      .|..++..+...|++++|..+++++.+.+ +.+...+..++..+...|++++|...++++.+..  +.+...+ .++.++
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~   79 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD--PRSAEAWYNLGNAY   79 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC--CCchHHHHHHHHHH
Confidence            35566677777777777777777776632 1245666667777777777777777777777765  1222223 377777


Q ss_pred             hccCChHHHHHHHHHHh-cCCCCCchhHHHHHHHHHHhhcchhhHHHHHHHHHhcC
Q 038401          481 GARKDFNMLESLFERLD-SDSNINKKELHHVVAGIYERANRLNDASRIMNRMNKRR  535 (542)
Q Consensus       481 ~~~g~~~~A~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  535 (542)
                      ...|++++|.+.++++. ..|.  ....+..++.+|...|++++|...++++.+..
T Consensus        80 ~~~~~~~~A~~~~~~~~~~~~~--~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  133 (136)
T 2fo7_A           80 YKQGDYDEAIEYYQKALELDPR--SAEAWYNLGNAYYKQGDYDEAIEYYQKALELD  133 (136)
T ss_dssp             HTTTCHHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHS
T ss_pred             HHhcCHHHHHHHHHHHHHhCCC--ChHHHHHHHHHHHHHccHHHHHHHHHHHHccC
Confidence            77888888887777743 3332  34567777888888888888888888877654

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=99.19  E-value=1.1e-07  Score=90.96  Aligned_cols=369  Identities=9%  Similarity=-0.027  Sum_probs=189.4

Q ss_pred             CCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCc-HHHHHHHHHHHHHc-CCC-CCHHHHHHHHHHHH----HCCCh
Q 038401          103 SDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKL-FKEARLLIEEMREQ-GVK-PDTVSYSTLLNLYV----ENHKF  175 (542)
Q Consensus       103 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~-g~~-~~~~~~~~l~~~~~----~~g~~  175 (542)
                      ++++.+..+|++....  .|+...|...+....+.+. .+....+|+..... |.. ++...|...+..+.    ..++.
T Consensus        28 ~~~e~~~~iferal~~--~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~~s~~iW~~Yi~f~~~~~~~~~~~  105 (493)
T 2uy1_A           28 KDYRSLESLFGRCLKK--SYNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYWDSYGLYKEYIEEEGKIEDEQTRI  105 (493)
T ss_dssp             TCHHHHHHHHHHHSTT--CCCHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCTTCHHHHHHHHHHTSSCSSHHHHH
T ss_pred             CCHHHHHHHHHHHhcc--CCCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCcccHHHHHHHHHHHHhchhhhHHH
Confidence            7777777777777764  4677777777666655543 34455566665543 322 24555665555433    23455


Q ss_pred             HHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHH
Q 038401          176 VEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLM  255 (542)
Q Consensus       176 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~  255 (542)
                      +.+.++|+.........-...|...... ........+.+                   ++...  .+.+..|..+++.+
T Consensus       106 ~~vR~iy~rAL~~P~~~~~~lw~~Y~~f-E~~~~~~~~~~-------------------~~~~~--~~~y~~ar~~y~~~  163 (493)
T 2uy1_A          106 EKIRNGYMRALQTPMGSLSELWKDFENF-ELELNKITGKK-------------------IVGDT--LPIFQSSFQRYQQI  163 (493)
T ss_dssp             HHHHHHHHHHHTSCCTTHHHHHHHHHHH-HHHHCHHHHHH-------------------HHHHH--HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhChhhhHHHHHHHHHHH-HHHhccccHHH-------------------HHHHH--hHHHHHHHHHHHHH
Confidence            6666666666652111001111111110 00001111111                   11111  12233444444443


Q ss_pred             HhcCCCCcHHHHHHHHHHHHccC--C-----HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 038401          256 QRKEIEQNVVTYNTMIKIYGKSL--E-----HEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSS  328 (542)
Q Consensus       256 ~~~~~~~~~~~~~~l~~~~~~~~--~-----~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  328 (542)
                      ...-...+...|...+..-...+  -     .+.+..+|+++.... +.++..|...+..+...|+.+.|..++++....
T Consensus       164 ~~~~~~~s~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al~~~-p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~  242 (493)
T 2uy1_A          164 QPLIRGWSVKNAARLIDLEMENGMKLGGRPHESRMHFIHNYILDSF-YYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM  242 (493)
T ss_dssp             HHHHHTCSHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhhccHHHHHHHHHHHhcCCccCcchhhHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC
Confidence            32100113335554444322211  1     234566777766642 345666666666667777777777777777766


Q ss_pred             CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHH
Q 038401          329 GVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIE  408 (542)
Q Consensus       329 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~  408 (542)
                        +.+...+..    |....+.++.   ++.+.           ..+.. ...+.+     .. .. .......|...+.
T Consensus       243 --P~~~~l~~~----y~~~~e~~~~---~~~l~-----------~~~~~-~~~~~~-----~~-~~-~~~~~~lw~~y~~  294 (493)
T 2uy1_A          243 --SDGMFLSLY----YGLVMDEEAV---YGDLK-----------RKYSM-GEAESA-----EK-VF-SKELDLLRINHLN  294 (493)
T ss_dssp             --CCSSHHHHH----HHHHTTCTHH---HHHHH-----------HHTC-----------------C-HHHHHHHHHHHHH
T ss_pred             --CCcHHHHHH----HHhhcchhHH---HHHHH-----------HHHHh-hccchh-----hh-hc-ccccHHHHHHHHH
Confidence              333333221    2211111111   11110           00000 000000     00 00 0112356777777


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccC-cHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCCh
Q 038401          409 LFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLR-EFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDF  486 (542)
Q Consensus       409 ~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~  486 (542)
                      .+.+.++.+.|..+|+++ .. ...+...|...+..-...+ +.+.|+.+|+.+++..+..|  ..+. .+....+.|+.
T Consensus       295 ~~~r~~~~~~AR~i~~~A-~~-~~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~~~~~--~~~~~yid~e~~~~~~  370 (493)
T 2uy1_A          295 YVLKKRGLELFRKLFIEL-GN-EGVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKHPDST--LLKEEFFLFLLRIGDE  370 (493)
T ss_dssp             HHHHHHCHHHHHHHHHHH-TT-SCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHCTTCH--HHHHHHHHHHHHHTCH
T ss_pred             HHHHcCCHHHHHHHHHHh-hC-CCCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCCCCH--HHHHHHHHHHHHcCCH
Confidence            777788899999999988 32 1234455544333223333 68999999999988753222  2333 67777788999


Q ss_pred             HHHHHHHHHHhcCCCCCchhHHHHHHHHHHhhcchhhHHHHHHHHHh
Q 038401          487 NMLESLFERLDSDSNINKKELHHVVAGIYERANRLNDASRIMNRMNK  533 (542)
Q Consensus       487 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  533 (542)
                      +.|..+++++.+     ....|...++.=...|+.+.+..+++++..
T Consensus       371 ~~aR~l~er~~k-----~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          371 ENARALFKRLEK-----TSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHHHHHHHSCC-----BHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH-----HHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            999999998732     356777777777778998888888887663

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.19  E-value=1.2e-08  Score=88.98  Aligned_cols=179  Identities=9%  Similarity=-0.029  Sum_probs=94.2

Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhcCC-CCChhhHHHHHHHHhccCCHHHHHHHHHHHH
Q 038401          143 ARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNC-PLDLTTCNIMIDVYGQLDMAKDADRLFWSMR  221 (542)
Q Consensus       143 a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  221 (542)
                      |...|+++.+.+ +++..++..+..++...|++++|++++.+....+. .-+...+...+..+.+.|+.+.|.+.++.|.
T Consensus        85 a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~  163 (310)
T 3mv2_B           85 NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYT  163 (310)
T ss_dssp             CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            455555555443 33444445566666666666666666666554432 1244555566666666666666666666665


Q ss_pred             HCCCCC-----ChhHHHHHHHHHH--hcC--cHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHH
Q 038401          222 KMGIDP-----SVVSYNTLLRVYG--EAE--LFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQN  292 (542)
Q Consensus       222 ~~~~~~-----~~~~~~~ll~~~~--~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  292 (542)
                      +.  .|     +..+...++.++.  ..|  +..+|..+|+++...  .|+..+-..++.++.+.|++++|.+.++.+.+
T Consensus       164 ~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~  239 (310)
T 3mv2_B          164 NA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELLLS  239 (310)
T ss_dssp             HH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHS
T ss_pred             hc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            54  34     2344444444422  222  566666666666543  23322223333356666666666666665443


Q ss_pred             c-----C----CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 038401          293 R-----G----IEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSS  328 (542)
Q Consensus       293 ~-----~----~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  328 (542)
                      .     +    -+-|+.+...+|......|+  .|.++++++.+.
T Consensus       240 ~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~  282 (310)
T 3mv2_B          240 DYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKL  282 (310)
T ss_dssp             HHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHT
T ss_pred             hcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHh
Confidence            2     0    02244445444444444554  556666666655

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.19  E-value=1.5e-08  Score=88.40  Aligned_cols=28  Identities=7%  Similarity=0.045  Sum_probs=14.8

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 038401          399 DISVFGCMIELFSRNKKYANVIEVFEKMRS  428 (542)
Q Consensus       399 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  428 (542)
                      ++.++-.++......|+  +|.++++++.+
T Consensus       254 ~~~~LaN~i~l~~~lgk--~a~~l~~qL~~  281 (310)
T 3mv2_B          254 KPTFLANQITLALMQGL--DTEDLTNQLVK  281 (310)
T ss_dssp             HHHHHHHHHHHHHHTTC--TTHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCh--HHHHHHHHHHH
Confidence            44555344444444454  56666666665

>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=99.18  E-value=3.2e-10  Score=100.89  Aligned_cols=227  Identities=12%  Similarity=0.045  Sum_probs=149.4

Q ss_pred             HhcCHHHHHHHHHHHHh-------CCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhC------CC-CCCHHhHHHHH
Q 038401           31 RAKQWELAHGLFDEMRQ-------RGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQD------RV-SGDLVLYSNLI   96 (542)
Q Consensus        31 ~~~~~~~A~~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~------~~-~~~~~~~~~l~   96 (542)
                      ..|+++.|+..|++..+       ...+....++..+...+...|++++|+..+++..+.      +. +....++..+.
T Consensus        13 ~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~   92 (283)
T 3edt_B           13 GLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLA   92 (283)
T ss_dssp             CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHH
Confidence            34555555555555544       222234567888888999999999999999887754      21 22355788888


Q ss_pred             HHHHhcCCHHHHHHHHHHhHhC------C-CCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHc------CCCC-CHHHH
Q 038401           97 ELARKLSDYSKAISIFSRLKSS------G-IVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQ------GVKP-DTVSY  162 (542)
Q Consensus        97 ~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------g~~~-~~~~~  162 (542)
                      ..+...|++++|...+++....      . .+....++..+...+...|++++|...+++..+.      +-.| ...++
T Consensus        93 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  172 (283)
T 3edt_B           93 VLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTK  172 (283)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHH
T ss_pred             HHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHH
Confidence            8999999999999998887754      1 1234667888888999999999999999988764      1122 35677


Q ss_pred             HHHHHHHHHCCChHHHHHHHHHHHhc-------CCCCC-hhhHHHHHHHHhccCC------HHHHHHHHHHHHHCCCCCC
Q 038401          163 STLLNLYVENHKFVEALSVFAEMNEV-------NCPLD-LTTCNIMIDVYGQLDM------AKDADRLFWSMRKMGIDPS  228 (542)
Q Consensus       163 ~~l~~~~~~~g~~~~a~~~~~~~~~~-------~~~~~-~~~~~~l~~~~~~~~~------~~~a~~~~~~~~~~~~~~~  228 (542)
                      ..+...|...|++++|.+.+++..+.       ...+. ...+..+.......+.      +..+...++.... ..+..
T Consensus       173 ~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~  251 (283)
T 3edt_B          173 NNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKV-DSPTV  251 (283)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCC-CCHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCC-CCHHH
Confidence            88889999999999999999888653       11222 2233333333333222      2222222221111 11223


Q ss_pred             hhHHHHHHHHHHhcCcHHHHHHHHHHHHhc
Q 038401          229 VVSYNTLLRVYGEAELFGEAIHLFRLMQRK  258 (542)
Q Consensus       229 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  258 (542)
                      ..++..+...|...|++++|...+++..+.
T Consensus       252 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          252 NTTLRSLGALYRRQGKLEAAHTLEDCASRN  281 (283)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            456788889999999999999999987653

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=99.16  E-value=1.8e-10  Score=115.53  Aligned_cols=151  Identities=12%  Similarity=-0.047  Sum_probs=85.7

Q ss_pred             HhcCCHHHHHHHHHHHH--------hcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCC---CCCHHHHHHHHHHh
Q 038401          310 GKAGKLDRAAMLFQKLR--------SSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPN---TIPRETAITILARA  378 (542)
Q Consensus       310 ~~~~~~~~a~~~~~~~~--------~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~l~~~~~~~  378 (542)
                      ...|++++|++.++.+.        +.. +.+...+..+..++.+.|++++|...++++.+.+   ...+..+..++...
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~  480 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDF-SESVELPLMEVRALLDLGDVAKATRKLDDLAERVGWRWRLVWYRAVAELLT  480 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CC-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccccc-ccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcchHHHHHHHHHHHHHc
Confidence            45666666666666665        321 3344555556666666666666666666654322   22334445555666


Q ss_pred             CCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHH
Q 038401          379 GRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDL  457 (542)
Q Consensus       379 g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~  457 (542)
                      |++++|++.|+++++.. +.+...|..+..++...|++++ ++.|+++++.  .| +...+..+..++.+.|++++|+..
T Consensus       481 g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~--~P~~~~a~~~lg~~~~~~g~~~~A~~~  556 (681)
T 2pzi_A          481 GDYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQTVWST--NDGVISAAFGLARARSAEGDRVGAVRT  556 (681)
T ss_dssp             TCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHh--CCchHHHHHHHHHHHHHcCCHHHHHHH
Confidence            66666666666666542 2345555566666666666666 6666666552  23 345555566666666666666666


Q ss_pred             HHHHHHcC
Q 038401          458 YSEMQEEG  465 (542)
Q Consensus       458 ~~~~~~~~  465 (542)
                      |+++.+.+
T Consensus       557 ~~~al~l~  564 (681)
T 2pzi_A          557 LDEVPPTS  564 (681)
T ss_dssp             HHTSCTTS
T ss_pred             HHhhcccC
Confidence            66665544

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=99.15  E-value=3.3e-09  Score=89.51  Aligned_cols=160  Identities=13%  Similarity=0.093  Sum_probs=113.7

Q ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcC----CHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 038401          368 RETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNK----KYANVIEVFEKMRSAGYFPDSHIIALVLN  443 (542)
Q Consensus       368 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g----~~~~A~~~~~~~~~~~~~p~~~~~~~l~~  443 (542)
                      ...+...+...+++++|...|+++.+.+   ++..+..|...|.. +    ++++|+..|++..+.|   +...+..+..
T Consensus        21 ~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~~g---~~~a~~~Lg~   93 (212)
T 3rjv_A           21 QYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEKAVEAG---SKSGEIVLAR   93 (212)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHHTT---CHHHHHHHHH
T ss_pred             HHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHH
Confidence            3344455555667777777777777653   56667777777776 6    8888888888887744   5667777777


Q ss_pred             HHhc----cCcHHHHHHHHHHHHHcCCCCc-hHHHHHHHHHHhc----cCChHHHHHHHHHHhcCCCCCchhHHHHHHHH
Q 038401          444 SYGK----LREFETADDLYSEMQEEGCVFS-DQVHFQMLSLYGA----RKDFNMLESLFERLDSDSNINKKELHHVVAGI  514 (542)
Q Consensus       444 ~~~~----~g~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~  514 (542)
                      .|..    .+++++|..+|+++.+.+.... ....+.++.+|..    .+++++|..++++....++  ...++..|+.+
T Consensus        94 ~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~--~~~a~~~Lg~~  171 (212)
T 3rjv_A           94 VLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSLSR--TGYAEYWAGMM  171 (212)
T ss_dssp             HHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHTSC--TTHHHHHHHHH
T ss_pred             HHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHcCC--CHHHHHHHHHH
Confidence            8876    7888899999998888761100 3344447888877    7788999999988654433  23467788888


Q ss_pred             HHhh-c-----chhhHHHHHHHHHhcCC
Q 038401          515 YERA-N-----RLNDASRIMNRMNKRRT  536 (542)
Q Consensus       515 ~~~~-g-----~~~~A~~~~~~~~~~~~  536 (542)
                      |... |     ++++|+.+|++..+.|.
T Consensus       172 y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          172 FQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             HHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             HHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            8654 3     78899999988887764

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=99.14  E-value=1.2e-09  Score=107.68  Aligned_cols=143  Identities=8%  Similarity=0.006  Sum_probs=74.7

Q ss_pred             CCHHHHHHHHHHhcCCCCC---CHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 038401          348 GLVAHAKRLLHELRQPNTI---PRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFE  424 (542)
Q Consensus       348 ~~~~~a~~~~~~~~~~~~~---~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  424 (542)
                      |++++|...+++..+.++.   .+..+...+...|++++|.+.++++++.. +.+...+..++.+|...|++++|++.++
T Consensus         3 g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~   81 (568)
T 2vsy_A            3 ADGPRELLQLRAAVRHRPQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVLLQ   81 (568)
T ss_dssp             ------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            5566666666665543332   23444555666666666666666666652 2345666666666666666666666666


Q ss_pred             HHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhcc---CChHHHHHHHHH
Q 038401          425 KMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGAR---KDFNMLESLFER  495 (542)
Q Consensus       425 ~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~---g~~~~A~~~~~~  495 (542)
                      ++++.  .| +...+..++.+|.+.|++++|.+.|+++.+..  +.+...+. ++.++...   |++++|.+.+++
T Consensus        82 ~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~  153 (568)
T 2vsy_A           82 QASDA--APEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLL--PEEPYITAQLLNWRRRLCDWRALDVLSAQVRA  153 (568)
T ss_dssp             HHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHH
T ss_pred             HHHhc--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHhhccccHHHHHHHHHH
Confidence            66653  23 34566666666666666666666666666654  11222222 66666666   666666666666

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=99.10  E-value=1.5e-09  Score=97.66  Aligned_cols=198  Identities=12%  Similarity=0.052  Sum_probs=108.6

Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHH
Q 038401          277 SLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGK-AGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKR  355 (542)
Q Consensus       277 ~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  355 (542)
                      .|++++|.+++++..+..  +.         .+.. .++++.|...|..+               ...|...|++++|..
T Consensus         4 ~~~~~eA~~~~~~a~k~~--~~---------~~~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~   57 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYL--KT---------SFMKWKPDYDSAASEYAKA---------------AVAFKNAKQLEQAKD   57 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHH--CC---------CSSSCSCCHHHHHHHHHHH---------------HHHHHHTTCHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHc--cc---------cccCCCCCHHHHHHHHHHH---------------HHHHHHcCCHHHHHH
Confidence            456666777666665431  11         0222 45666666666554               345666777777777


Q ss_pred             HHHHhcCC-----C----CCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCC---c--CHHHHHHHHHHHHhcCCHHHHHH
Q 038401          356 LLHELRQP-----N----TIPRETAITILARAGRIEEATWVFRQAFDAGEV---K--DISVFGCMIELFSRNKKYANVIE  421 (542)
Q Consensus       356 ~~~~~~~~-----~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~---~--~~~~~~~l~~~~~~~g~~~~A~~  421 (542)
                      .+.+....     +    ...+..+..++...|++++|+..|+++++....   +  -..++..+..+|.. |++++|+.
T Consensus        58 ~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~  136 (307)
T 2ifu_A           58 AYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVH  136 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHH
Confidence            76665321     1    112334455566667777777777776654111   1  13455666666666 77777777


Q ss_pred             HHHHHHhCCCCC-C----HHHHHHHHHHHhccCcHHHHHHHHHHHHHcCC---CCchHH-HHH-HHHHHhccCChHHHHH
Q 038401          422 VFEKMRSAGYFP-D----SHIIALVLNSYGKLREFETADDLYSEMQEEGC---VFSDQV-HFQ-MLSLYGARKDFNMLES  491 (542)
Q Consensus       422 ~~~~~~~~~~~p-~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~---~~~~~~-~~~-l~~~~~~~g~~~~A~~  491 (542)
                      .|++.++..... +    ..++..+...|.+.|++++|+..|+++++...   ..+... .+. ++.++...|++++|..
T Consensus       137 ~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~  216 (307)
T 2ifu_A          137 LYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQK  216 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            777776531100 1    24556666667777777777777777665421   011111 222 4555666677777777


Q ss_pred             HHHHHhcCCC
Q 038401          492 LFERLDSDSN  501 (542)
Q Consensus       492 ~~~~~~~~~~  501 (542)
                      .+++....|.
T Consensus       217 ~~~~al~~p~  226 (307)
T 2ifu_A          217 CVRESYSIPG  226 (307)
T ss_dssp             HHHHHTTSTT
T ss_pred             HHHHHhCCCC
Confidence            7777434444

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=99.10  E-value=6e-10  Score=88.18  Aligned_cols=140  Identities=7%  Similarity=-0.007  Sum_probs=107.0

Q ss_pred             HHHHHHcCCHHHHHHHHHHhcCC---CCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHH
Q 038401          341 IVAYERVGLVAHAKRLLHELRQP---NTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYA  417 (542)
Q Consensus       341 ~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  417 (542)
                      ...+...|++++|+..++.....   ++..+..+..+|.+.|++++|++.|+++++.. +.++.+|..++.+|...|+++
T Consensus         4 G~~~~~~~~~e~ai~~~~~a~~~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~   82 (150)
T 4ga2_A            4 GSMRRSKADVERYIASVQGSTPSPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEENTD   82 (150)
T ss_dssp             ---CCCHHHHHHHHHHHHHHSCSHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHcChHHHHHHHHHHhcccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCchH
Confidence            34445567788888888777653   34455667888889999999999999999874 467889999999999999999


Q ss_pred             HHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHH-HHHHHHcCCCCchHHHHH-HHHHHhccCC
Q 038401          418 NVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDL-YSEMQEEGCVFSDQVHFQ-MLSLYGARKD  485 (542)
Q Consensus       418 ~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~-~~~~~~~~~~~~~~~~~~-l~~~~~~~g~  485 (542)
                      +|+..|+++++  +.| +...+..++..|.+.|++++|.+. ++++++..  |.++..+. ...++...|+
T Consensus        83 ~A~~~~~~al~--~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~--P~~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A           83 KAVECYRRSVE--LNPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLF--PGSPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             HHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHS--TTCHHHHHHHHHHHHTCCC
T ss_pred             HHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhC--cCCHHHHHHHHHHHHHhCc
Confidence            99999999998  446 568888999999999998876665 58899876  23334444 5667766664

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.10  E-value=6.2e-09  Score=87.63  Aligned_cols=166  Identities=12%  Similarity=0.030  Sum_probs=92.3

Q ss_pred             cHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHH----------------HHHHHhccCCHHHHHHHHHHHH
Q 038401           18 SVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYST----------------LITCFGKEGMFDSAISWLQQME   81 (542)
Q Consensus        18 ~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~----------------l~~~~~~~g~~~~a~~~~~~~~   81 (542)
                      ++..+......+.+.|++++|+..|+...+..+. +...|..                +..++.+.|++++|+..|++..
T Consensus         3 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al   81 (208)
T 3urz_A            3 SVDEMLQKVSAAIEAGQNGQAVSYFRQTIALNID-RTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELL   81 (208)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCHH-HHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-ChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            3444555666778889999999999998886322 3445555                5666666666666666666666


Q ss_pred             hCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCc--HHHHHHHHHHHHHcCCCCCH
Q 038401           82 QDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKL--FKEARLLIEEMREQGVKPDT  159 (542)
Q Consensus        82 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--~~~a~~~~~~~~~~g~~~~~  159 (542)
                      +..+ .+...+..+..++...|++++|...|++..+.. +.+..++..+..++...|.  .+.+...++....  ..|..
T Consensus        82 ~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~~--~~~~~  157 (208)
T 3urz_A           82 QKAP-NNVDCLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYLTAEQEKKKLETDYKKLSS--PTKMQ  157 (208)
T ss_dssp             HHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHC---C--CCHHH
T ss_pred             HHCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhC--CCchh
Confidence            5532 245566666666666666666666666666543 3345555555555544332  2233333433322  11222


Q ss_pred             HHHHHHHHHHHHCCChHHHHHHHHHHHhc
Q 038401          160 VSYSTLLNLYVENHKFVEALSVFAEMNEV  188 (542)
Q Consensus       160 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  188 (542)
                      ..+..+..++...|++++|+..|++..+.
T Consensus       158 ~a~~~~g~~~~~~~~~~~A~~~~~~al~l  186 (208)
T 3urz_A          158 YARYRDGLSKLFTTRYEKARNSLQKVILR  186 (208)
T ss_dssp             HHHHHHHHHHHHHHTHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence            22333344444555666666666665553

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.09  E-value=6e-08  Score=85.63  Aligned_cols=151  Identities=7%  Similarity=0.035  Sum_probs=115.9

Q ss_pred             CCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHH--HHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCc------
Q 038401          379 GRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYA--NVIEVFEKMRSAGYFPDSHIIALVLNSYGKLRE------  450 (542)
Q Consensus       379 g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~--~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~------  450 (542)
                      +++++++++++++++.. +.+..+|+.-..++...|.++  ++++.++++++.+. -|...|..-...+...|+      
T Consensus       124 ~~~~~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~-~N~sAW~~R~~ll~~l~~~~~~~~  201 (306)
T 3dra_A          124 FDPYREFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDL-KNNSAWSHRFFLLFSKKHLATDNT  201 (306)
T ss_dssp             CCTHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHSSGGGCCHHH
T ss_pred             CCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhccccchhhh
Confidence            67788888888888874 468888988888888888888  99999999998542 366788877777777776      


Q ss_pred             HHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHH-HHHHHHHHhcC--CCCCchhHHHHHHHHHHhhcchhhHHH
Q 038401          451 FETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNM-LESLFERLDSD--SNINKKELHHVVAGIYERANRLNDASR  526 (542)
Q Consensus       451 ~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~-A~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~A~~  526 (542)
                      ++++++.+++++..+  |.+...+. +..++.+.|+..+ +..+.+++...  .++....++..++++|...|+.++|++
T Consensus       202 ~~eEl~~~~~aI~~~--p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~  279 (306)
T 3dra_A          202 IDEELNYVKDKIVKC--PQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRT  279 (306)
T ss_dssp             HHHHHHHHHHHHHHC--SSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHHhC--CCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHH
Confidence            899999999999887  34444444 7778888777544 55677764332  123356788899999999999999999


Q ss_pred             HHHHHHh
Q 038401          527 IMNRMNK  533 (542)
Q Consensus       527 ~~~~~~~  533 (542)
                      +++++.+
T Consensus       280 ~~~~l~~  286 (306)
T 3dra_A          280 VYDLLKS  286 (306)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHh
Confidence            9999875

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.08  E-value=7.9e-09  Score=88.26  Aligned_cols=184  Identities=11%  Similarity=-0.015  Sum_probs=109.2

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC-C-CHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCC------HHH
Q 038401          299 AITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVE-I-DPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIP------RET  370 (542)
Q Consensus       299 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~------~~~  370 (542)
                      ...+..+...+...|++++|...|+.+.+.... + ....+..+..++.+.|++++|+..++++.+..+..      +..
T Consensus         4 ~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~   83 (225)
T 2yhc_A            4 PNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYM   83 (225)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHH
Confidence            344555666677888888888888888775322 1 13566667777888888888888887765422221      112


Q ss_pred             HHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH-HH------------
Q 038401          371 AITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDS-HI------------  437 (542)
Q Consensus       371 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~-~~------------  437 (542)
                      +..++...|..                 ....|..+...+...|++++|+..|+++++.  .|+. ..            
T Consensus        84 ~g~~~~~~~~~-----------------~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~P~~~~a~~a~~~l~~~~~  144 (225)
T 2yhc_A           84 RGLTNMALDDS-----------------ALQGFFGVDRSDRDPQQARAAFSDFSKLVRG--YPNSQYTTDATKRLVFLKD  144 (225)
T ss_dssp             HHHHHHHHHC-------------------------------CCHHHHHHHHHHHHHHTT--CTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHhhhhh-----------------hhhhhhccchhhcCcHHHHHHHHHHHHHHHH--CcCChhHHHHHHHHHHHHH
Confidence            22233221100                 0000111122223345566666666666552  2322 11            


Q ss_pred             -----HHHHHHHHhccCcHHHHHHHHHHHHHcCCCCch--HHHHHHHHHHhccCChHHHHHHHHHHhcCCC
Q 038401          438 -----IALVLNSYGKLREFETADDLYSEMQEEGCVFSD--QVHFQMLSLYGARKDFNMLESLFERLDSDSN  501 (542)
Q Consensus       438 -----~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  501 (542)
                           ...++..|.+.|++++|+..|+++++..+..|.  ...+.++.++.+.|++++|++.++.+...++
T Consensus       145 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~  215 (225)
T 2yhc_A          145 RLAKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSS  215 (225)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCS
T ss_pred             HHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCC
Confidence                 134567788999999999999999998733332  2233489999999999999999999765543

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=99.07  E-value=1.2e-08  Score=78.90  Aligned_cols=129  Identities=17%  Similarity=0.176  Sum_probs=71.6

Q ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHH
Q 038401           21 AYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELAR  100 (542)
Q Consensus        21 ~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  100 (542)
                      .|..+...+...|++++|..+|+.+.+.+. .+...+..+...+...|++++|...++++.+.+ +.+...+..+...+.
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~   80 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELDP-RSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYY   80 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcCC-cchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHH
Confidence            355556666666666666666666665432 245555566666666666666666666665543 223445555555555


Q ss_pred             hcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHH
Q 038401          101 KLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMRE  152 (542)
Q Consensus       101 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  152 (542)
                      ..|++++|.+.++++.+.. +.+...+..+...+...|++++|...++++..
T Consensus        81 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  131 (136)
T 2fo7_A           81 KQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALE  131 (136)
T ss_dssp             TTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHHc
Confidence            5566666655555555432 22344445555555555555555555555444

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=99.07  E-value=1.1e-09  Score=109.75  Aligned_cols=173  Identities=9%  Similarity=-0.006  Sum_probs=137.1

Q ss_pred             HHcCCHHHHHHHHHHhc--------CC---CCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhc
Q 038401          345 ERVGLVAHAKRLLHELR--------QP---NTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRN  413 (542)
Q Consensus       345 ~~~~~~~~a~~~~~~~~--------~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  413 (542)
                      ...|++++|.+.+++..        ..   +...+..+...+...|++++|++.|+++++.. +.+...|..++.++...
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~  480 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELLT  480 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHHc
Confidence            67899999999999987        43   33345566788999999999999999999874 35788999999999999


Q ss_pred             CCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHHHHHHHhccCChHHHHHH
Q 038401          414 KKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQMLSLYGARKDFNMLESL  492 (542)
Q Consensus       414 g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  492 (542)
                      |++++|++.|+++++.  .| +...+..+..++.+.|++++ +..|+++++.++. ....++.++.++.+.|++++|++.
T Consensus       481 g~~~~A~~~~~~al~l--~P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~  556 (681)
T 2pzi_A          481 GDYDSATKHFTEVLDT--FPGELAPKLALAATAELAGNTDE-HKFYQTVWSTNDG-VISAAFGLARARSAEGDRVGAVRT  556 (681)
T ss_dssp             TCHHHHHHHHHHHHHH--STTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCc-hHHHHHHHHHHHHHcCCHHHHHHH
Confidence            9999999999999984  46 45788899999999999999 9999999998721 122334499999999999999999


Q ss_pred             HHHH-hcCCCCCchhHHHHHHHHHHhhcchhhH
Q 038401          493 FERL-DSDSNINKKELHHVVAGIYERANRLNDA  524 (542)
Q Consensus       493 ~~~~-~~~~~~~~~~~~~~l~~~~~~~g~~~~A  524 (542)
                      +++. ..+|.  ...++..++.+|...|+.+++
T Consensus       557 ~~~al~l~P~--~~~a~~~~~~~~~~~~~~~~~  587 (681)
T 2pzi_A          557 LDEVPPTSRH--FTTARLTSAVTLLSGRSTSEV  587 (681)
T ss_dssp             HHTSCTTSTT--HHHHHHHHHHHTC-------C
T ss_pred             HHhhcccCcc--cHHHHHHHHHHHHccCCCCCC
Confidence            9995 44444  567888999999887774433

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=99.05  E-value=1.3e-08  Score=91.46  Aligned_cols=221  Identities=13%  Similarity=0.135  Sum_probs=140.0

Q ss_pred             cCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHc-cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 038401          242 AELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGK-SLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAM  320 (542)
Q Consensus       242 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~  320 (542)
                      .|++++|.+++++..+... ..          +.+ .++++.|...|.+.               ...|...|++++|..
T Consensus         4 ~~~~~eA~~~~~~a~k~~~-~~----------~~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~   57 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYLK-TS----------FMKWKPDYDSAASEYAKA---------------AVAFKNAKQLEQAKD   57 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-CC----------SSSCSCCHHHHHHHHHHH---------------HHHHHHTTCHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHcc-cc----------ccCCCCCHHHHHHHHHHH---------------HHHHHHcCCHHHHHH
Confidence            4556666666666554311 00          111 35666666665544               234555667777766


Q ss_pred             HHHHHHhcCC---C--CCHHHHHHHHHHHHHcCCHHHHHHHHHHhcC----CC-----CCCHHHHHHHHHHhCCHHHHHH
Q 038401          321 LFQKLRSSGV---E--IDPVLYQTMIVAYERVGLVAHAKRLLHELRQ----PN-----TIPRETAITILARAGRIEEATW  386 (542)
Q Consensus       321 ~~~~~~~~~~---~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~-----~~~~~~l~~~~~~~g~~~~A~~  386 (542)
                      .|....+...   .  .-..++..+..+|...|++++|...+++...    .+     ...+..+..++.. |++++|+.
T Consensus        58 ~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~  136 (307)
T 2ifu_A           58 AYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVH  136 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHH
Confidence            6666543210   0  0134566667777788888888877776542    11     1123455667777 99999999


Q ss_pred             HHHHHHHcCCCc-----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCCC-HHHHHHHHHHHhccCcHHHHHH
Q 038401          387 VFRQAFDAGEVK-----DISVFGCMIELFSRNKKYANVIEVFEKMRSA----GYFPD-SHIIALVLNSYGKLREFETADD  456 (542)
Q Consensus       387 ~~~~~~~~~~~~-----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~p~-~~~~~~l~~~~~~~g~~~~A~~  456 (542)
                      .|+++++.....     ...++..+...|...|++++|+..|+++++.    +..+. ...+..++.++...|++++|..
T Consensus       137 ~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~  216 (307)
T 2ifu_A          137 LYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQK  216 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            999998753211     1467888999999999999999999999863    21111 2356677778888899999999


Q ss_pred             HHHHHHHcCCCCchHH---HHH-HHHHHhccCChHHHHH
Q 038401          457 LYSEMQEEGCVFSDQV---HFQ-MLSLYGARKDFNMLES  491 (542)
Q Consensus       457 ~~~~~~~~~~~~~~~~---~~~-l~~~~~~~g~~~~A~~  491 (542)
                      .|++++ ..+..+...   ... ++..+ ..|+.+.+.+
T Consensus       217 ~~~~al-~~p~~~~~~e~~~l~~l~~~~-~~~d~~~~~~  253 (307)
T 2ifu_A          217 CVRESY-SIPGFSGSEDCAALEDLLQAY-DEQDEEQLLR  253 (307)
T ss_dssp             HHHHHT-TSTTSTTSHHHHHHHHHHHHH-HTTCHHHHHH
T ss_pred             HHHHHh-CCCCCCCCHHHHHHHHHHHHH-HhcCHHHHHH
Confidence            999999 653222221   122 44444 5677766666

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=99.02  E-value=2.9e-09  Score=83.68  Aligned_cols=95  Identities=15%  Similarity=-0.022  Sum_probs=61.0

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHHHH
Q 038401          399 DISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQML  477 (542)
Q Consensus       399 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~  477 (542)
                      +...+..++..+.+.|++++|+..|+++++.  .| +...|..++.+|...|++++|+..|+++++..+.. ...++.++
T Consensus        35 ~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~-~~~~~~lg  111 (151)
T 3gyz_A           35 MMDDIYSYAYDFYNKGRIEEAEVFFRFLCIY--DFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKND-YTPVFHTG  111 (151)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSC-CHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCC-cHHHHHHH
Confidence            3455666666677777777777777777763  34 45666667777777777777777777777765211 12233367


Q ss_pred             HHHhccCChHHHHHHHHHH
Q 038401          478 SLYGARKDFNMLESLFERL  496 (542)
Q Consensus       478 ~~~~~~g~~~~A~~~~~~~  496 (542)
                      .+|...|++++|+..|++.
T Consensus       112 ~~~~~lg~~~eA~~~~~~a  130 (151)
T 3gyz_A          112 QCQLRLKAPLKAKECFELV  130 (151)
T ss_dssp             HHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHH
Confidence            7777777777777777773

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=99.01  E-value=1.1e-07  Score=80.19  Aligned_cols=175  Identities=9%  Similarity=-0.047  Sum_probs=100.7

Q ss_pred             hhhhhHHHHhhCCCCCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccC----CHHHHHHHH
Q 038401            2 SVAILDWINEEARYSPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEG----MFDSAISWL   77 (542)
Q Consensus         2 A~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g----~~~~a~~~~   77 (542)
                      |++.|....+.    -++..+..+...+...+++++|...|+...+.|   ++..+..+...|.. +    ++++|+++|
T Consensus         5 A~~~~~~aa~~----g~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~   76 (212)
T 3rjv_A            5 PGSQYQQQAEA----GDRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLA   76 (212)
T ss_dssp             TTHHHHHHHHT----TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHH
T ss_pred             HHHHHHHHHHC----CCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHH
Confidence            55555555532    356666666666666777777777777766654   45556666666655 4    667777777


Q ss_pred             HHHHhCCCCCCHHhHHHHHHHHHh----cCCHHHHHHHHHHhHhCCCC-ccHhHHHHHHHHHhc----cCcHHHHHHHHH
Q 038401           78 QQMEQDRVSGDLVLYSNLIELARK----LSDYSKAISIFSRLKSSGIV-PDLVAYNTMINVFGK----AKLFKEARLLIE  148 (542)
Q Consensus        78 ~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~----~~~~~~a~~~~~  148 (542)
                      ++..+.|   ++..+..+...|..    .+++++|..+|++..+.|.. ..+..+..|...|..    .+++++|...|+
T Consensus        77 ~~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~  153 (212)
T 3rjv_A           77 EKAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFK  153 (212)
T ss_dssp             HHHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHH
T ss_pred             HHHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHH
Confidence            6665543   45555555555554    56666666666666655411 114455555555555    556666666666


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHHHC-C-----ChHHHHHHHHHHHhcC
Q 038401          149 EMREQGVKPDTVSYSTLLNLYVEN-H-----KFVEALSVFAEMNEVN  189 (542)
Q Consensus       149 ~~~~~g~~~~~~~~~~l~~~~~~~-g-----~~~~a~~~~~~~~~~~  189 (542)
                      +..+.  ..+...+..|...|... |     ++++|...|+...+.|
T Consensus       154 ~A~~~--~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g  198 (212)
T 3rjv_A          154 GSSSL--SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEG  198 (212)
T ss_dssp             HHHHT--SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHT
T ss_pred             HHHHc--CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcC
Confidence            66554  12333445555555432 2     5566666666655544

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=99.01  E-value=1.2e-08  Score=86.35  Aligned_cols=123  Identities=9%  Similarity=-0.018  Sum_probs=94.3

Q ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccC
Q 038401          370 TAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLR  449 (542)
Q Consensus       370 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g  449 (542)
                      .....+...|++++|+..|++++    .|+...+..++.++...|++++|+..|+++++.. +.+...+..++.+|...|
T Consensus        11 ~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~~~~   85 (213)
T 1hh8_A           11 NEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTE   85 (213)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcc
Confidence            34566778889999998888874    4577888888888888999999999998888743 235677888888888899


Q ss_pred             cHHHHHHHHHHHHHcCCCCc--------------h-HHHHHHHHHHhccCChHHHHHHHHHHh
Q 038401          450 EFETADDLYSEMQEEGCVFS--------------D-QVHFQMLSLYGARKDFNMLESLFERLD  497 (542)
Q Consensus       450 ~~~~A~~~~~~~~~~~~~~~--------------~-~~~~~l~~~~~~~g~~~~A~~~~~~~~  497 (542)
                      ++++|...|+++.+..+..+              . ...+.++.++...|++++|...+++..
T Consensus        86 ~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al  148 (213)
T 1hh8_A           86 KYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALAT  148 (213)
T ss_dssp             CHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            99999999998888652111              1 233338888888899999988888843

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.00  E-value=1.8e-08  Score=89.52  Aligned_cols=161  Identities=7%  Similarity=-0.031  Sum_probs=86.3

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHH---HHH
Q 038401          298 NAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETA---ITI  374 (542)
Q Consensus       298 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l---~~~  374 (542)
                      +...+..+...+...|++++|...|+++.+.. +.+...+..+...+.+.|++++|...++++...++......   ...
T Consensus       116 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~~~~~~~  194 (287)
T 3qou_A          116 EEELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQDQDTRYQGLVAQIE  194 (287)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGGCSHHHHHHHHHHH
T ss_pred             chhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhhcchHHHHHHHHHH
Confidence            44555666666777788888888888777764 33566677777777777777777777776654322111111   111


Q ss_pred             HHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC---HHHHHHHHHHHhccCcH
Q 038401          375 LARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPD---SHIIALVLNSYGKLREF  451 (542)
Q Consensus       375 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~---~~~~~~l~~~~~~~g~~  451 (542)
                      +...++.+.|...++++++.. +.+...+..+..++...|++++|+..|+++++..  |+   ...+..++..+...|+.
T Consensus       195 l~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~--p~~~~~~a~~~l~~~~~~~g~~  271 (287)
T 3qou_A          195 LLXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXD--LTAADGQTRXTFQEILAALGTG  271 (287)
T ss_dssp             HHHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTGGGGHHHHHHHHHHHHHCTT
T ss_pred             HHhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcc--cccccchHHHHHHHHHHHcCCC
Confidence            233344444455555554442 2344445555555555555555555555555422  22   23444444455555555


Q ss_pred             HHHHHHHHHHH
Q 038401          452 ETADDLYSEMQ  462 (542)
Q Consensus       452 ~~A~~~~~~~~  462 (542)
                      ++|...|++.+
T Consensus       272 ~~a~~~~r~al  282 (287)
T 3qou_A          272 DALASXYRRQL  282 (287)
T ss_dssp             CHHHHHHHHHH
T ss_pred             CcHHHHHHHHH
Confidence            55555444443

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.00  E-value=6.6e-09  Score=79.17  Aligned_cols=109  Identities=13%  Similarity=0.100  Sum_probs=74.8

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHH-HHH
Q 038401          400 ISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHF-QML  477 (542)
Q Consensus       400 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~-~l~  477 (542)
                      ...+...+..|.+.|++++|++.|+++++.  .| +...|..++.+|.+.|++++|+..++++++.+  |.....+ .++
T Consensus        13 a~~~~~~G~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~--p~~~~a~~~lg   88 (126)
T 4gco_A           13 AQEEKNKGNEYFKKGDYPTAMRHYNEAVKR--DPENAILYSNRAACLTKLMEFQRALDDCDTCIRLD--SKFIKGYIRKA   88 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh--hhhhHHHHHHH
Confidence            345666777778888888888888887773  34 56777777778888888888888888887766  2222233 377


Q ss_pred             HHHhccCChHHHHHHHHH-HhcCCCCCchhHHHHHHHH
Q 038401          478 SLYGARKDFNMLESLFER-LDSDSNINKKELHHVVAGI  514 (542)
Q Consensus       478 ~~~~~~g~~~~A~~~~~~-~~~~~~~~~~~~~~~l~~~  514 (542)
                      .++...|++++|++.+++ +..+|+  +..++..++.+
T Consensus        89 ~~~~~~~~~~~A~~~~~~al~l~P~--~~~a~~~l~~~  124 (126)
T 4gco_A           89 ACLVAMREWSKAQRAYEDALQVDPS--NEEAREGVRNC  124 (126)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT--CHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHCcC--CHHHHHHHHHh
Confidence            788888888888888887 455555  44555555443

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.99  E-value=4.8e-08  Score=87.24  Aligned_cols=161  Identities=9%  Similarity=0.027  Sum_probs=111.9

Q ss_pred             HHHHHHhCCHHHHHHHHHHHHHcCCCcC-----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC---CCCC--HHHHHHH
Q 038401          372 ITILARAGRIEEATWVFRQAFDAGEVKD-----ISVFGCMIELFSRNKKYANVIEVFEKMRSAG---YFPD--SHIIALV  441 (542)
Q Consensus       372 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---~~p~--~~~~~~l  441 (542)
                      +..+...|++++|.+.+++.++.....+     ...+..++..+...|++++|+..++++.+..   ..+.  ..++..+
T Consensus        82 ~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l  161 (293)
T 2qfc_A           82 VIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAI  161 (293)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHHHHHHH
T ss_pred             HHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHHHHHHH
Confidence            4456677888888888887776532211     1223445666778889999999999888632   1122  3578888


Q ss_pred             HHHHhccCcHHHHHHHHHHHHH---cCCCCch---HHHHHHHHHHhccCChHHHHHHHHHHhc---CCC--CCchhHHHH
Q 038401          442 LNSYGKLREFETADDLYSEMQE---EGCVFSD---QVHFQMLSLYGARKDFNMLESLFERLDS---DSN--INKKELHHV  510 (542)
Q Consensus       442 ~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~--~~~~~~~~~  510 (542)
                      +..|...|++++|...|+++.+   .....+.   ...+.++.+|...|++++|...+++...   ..+  ......|..
T Consensus       162 g~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~~~~~~  241 (293)
T 2qfc_A          162 ANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQ  241 (293)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHHHHHHH
Confidence            8999999999999999999883   3211121   2233388999999999999999988321   111  112467889


Q ss_pred             HHHHHHhhcchhhH-HHHHHHHH
Q 038401          511 VAGIYERANRLNDA-SRIMNRMN  532 (542)
Q Consensus       511 l~~~~~~~g~~~~A-~~~~~~~~  532 (542)
                      ++.+|...|++++| ..++++..
T Consensus       242 lg~~y~~~g~~~~Ai~~~~~~Al  264 (293)
T 2qfc_A          242 RGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCcHHHHHHHHHHHH
Confidence            99999999999999 77787754

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.97  E-value=7.1e-09  Score=78.99  Aligned_cols=102  Identities=14%  Similarity=0.033  Sum_probs=86.8

Q ss_pred             CCCCH-HHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHHHH-HhcCCCCCchhH
Q 038401          431 YFPDS-HIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLFER-LDSDSNINKKEL  507 (542)
Q Consensus       431 ~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~-~~~~~~~~~~~~  507 (542)
                      +.|+. ..+...+..|.+.|++++|++.|+++++.+  |.+...+. ++.++...|++++|+..+++ +..+|.  ...+
T Consensus         8 inP~~a~~~~~~G~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~--~~~a   83 (126)
T 4gco_A            8 INPELAQEEKNKGNEYFKKGDYPTAMRHYNEAVKRD--PENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSK--FIKG   83 (126)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT--CHHH
T ss_pred             HCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhh--hhHH
Confidence            55653 678888999999999999999999999987  23344444 99999999999999999999 555665  5689


Q ss_pred             HHHHHHHHHhhcchhhHHHHHHHHHhcCC
Q 038401          508 HHVVAGIYERANRLNDASRIMNRMNKRRT  536 (542)
Q Consensus       508 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  536 (542)
                      |..++.+|...|++++|++.|+++.+..+
T Consensus        84 ~~~lg~~~~~~~~~~~A~~~~~~al~l~P  112 (126)
T 4gco_A           84 YIRKAACLVAMREWSKAQRAYEDALQVDP  112 (126)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHCc
Confidence            99999999999999999999999988653

>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=98.96  E-value=2.4e-08  Score=80.57  Aligned_cols=129  Identities=9%  Similarity=-0.011  Sum_probs=94.5

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHH
Q 038401          400 ISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLS  478 (542)
Q Consensus       400 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~  478 (542)
                      ...+..++..+...|++++|...|++.++.. +.+...+..++.++...|++++|...++++.+..  +.+...+. ++.
T Consensus        13 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~a~   89 (166)
T 1a17_A           13 AEELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD--KKYIKGYYRRAA   89 (166)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--cccHHHHHHHHH
Confidence            4456777788888888888888888888742 2256778888888888889999999998888876  22233333 888


Q ss_pred             HHhccCChHHHHHHHHHH-hcCCCCCchhHH--HHHHHHHHhhcchhhHHHHHHHHHh
Q 038401          479 LYGARKDFNMLESLFERL-DSDSNINKKELH--HVVAGIYERANRLNDASRIMNRMNK  533 (542)
Q Consensus       479 ~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~~--~~l~~~~~~~g~~~~A~~~~~~~~~  533 (542)
                      ++...|++++|...+++. ...|.  ....+  ..++..+...|++++|++.+++...
T Consensus        90 ~~~~~~~~~~A~~~~~~a~~~~p~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  145 (166)
T 1a17_A           90 SNMALGKFRAALRDYETVVKVKPH--DKDAKMKYQECNKIVKQKAFERAIAGDEHKRS  145 (166)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTT--CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhccHHHHHHHHHHHHHhCCC--CHHHHHHHHHHHHHHHHHHHHHHHHcccchHH
Confidence            888899999999888884 44444  23344  4455557788899999888887543

>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=98.96  E-value=8.5e-09  Score=84.20  Aligned_cols=161  Identities=10%  Similarity=0.039  Sum_probs=90.0

Q ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHH-HH
Q 038401           22 YNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIEL-AR  100 (542)
Q Consensus        22 ~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~  100 (542)
                      +..+...+.+.|++++|...|+...+..+. +...+..+...+...|++++|+..+++.....+  +...+..+... +.
T Consensus         9 ~~~~a~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~p--~~~~~~~~~~~~~~   85 (176)
T 2r5s_A            9 LLKQVSELLQQGEHAQALNVIQTLSDELQS-RGDVKLAKADCLLETKQFELAQELLATIPLEYQ--DNSYKSLIAKLELH   85 (176)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSCHHHHT-SHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGGC--CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHhhhccC--ChHHHHHHHHHHHH
Confidence            445556667777777777777776654322 556677777777777777777777777655432  33322222111 11


Q ss_pred             hcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHHCCChHHHH
Q 038401          101 KLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKP-DTVSYSTLLNLYVENHKFVEAL  179 (542)
Q Consensus       101 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~-~~~~~~~l~~~~~~~g~~~~a~  179 (542)
                      ..++...|...+++..+.. +.+...+..+..++...|++++|...|+++.+....+ +...+..+...+...|+.++|.
T Consensus        86 ~~~~~~~a~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~  164 (176)
T 2r5s_A           86 QQAAESPELKRLEQELAAN-PDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIA  164 (176)
T ss_dssp             HHHTSCHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHH
T ss_pred             hhcccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHH
Confidence            2122233455565555442 2245556666666666666666666666666543221 2345555666666666666666


Q ss_pred             HHHHHHH
Q 038401          180 SVFAEMN  186 (542)
Q Consensus       180 ~~~~~~~  186 (542)
                      ..|++..
T Consensus       165 ~~y~~al  171 (176)
T 2r5s_A          165 SKYRRQL  171 (176)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            6665543

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.96  E-value=5.6e-07  Score=79.47  Aligned_cols=173  Identities=10%  Similarity=0.100  Sum_probs=99.1

Q ss_pred             hcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccC--CHHHHHHHHHHHHhCCCCCCHHhHHHHHHHH----Hhc---
Q 038401           32 AKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEG--MFDSAISWLQQMEQDRVSGDLVLYSNLIELA----RKL---  102 (542)
Q Consensus        32 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~---  102 (542)
                      ....++|+..++.++..++. +..+|+.--..+...|  ++++++++++.++...++ +..+|+.-..++    ...   
T Consensus        46 ~e~s~~aL~~t~~~L~~nP~-~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk-~y~aW~~R~~iL~~~~~~l~~~  123 (306)
T 3dra_A           46 EEYSERALHITELGINELAS-HYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEK-NYQIWNYRQLIIGQIMELNNND  123 (306)
T ss_dssp             TCCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTT-CCHHHHHHHHHHHHHHHHTTTC
T ss_pred             CCCCHHHHHHHHHHHHHCcH-HHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcc-cHHHHHHHHHHHHHHHHhcccc
Confidence            33446788888888876543 5667777777777777  888888888887776543 455555544444    334   


Q ss_pred             CCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHH--HHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCC------
Q 038401          103 SDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFK--EARLLIEEMREQGVKPDTVSYSTLLNLYVENHK------  174 (542)
Q Consensus       103 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~------  174 (542)
                      +++++++.+++.+.+.. +.+..+|+.-...+.+.|.++  ++++.++++.+... -+...|+.....+...+.      
T Consensus       124 ~~~~~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~-~N~sAW~~R~~ll~~l~~~~~~~~  201 (306)
T 3dra_A          124 FDPYREFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDL-KNNSAWSHRFFLLFSKKHLATDNT  201 (306)
T ss_dssp             CCTHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHSSGGGCCHHH
T ss_pred             CCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhccccchhhh
Confidence            56666666666666543 345555555555555555555  66666666665532 245555544444444443      


Q ss_pred             hHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCC
Q 038401          175 FVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDM  209 (542)
Q Consensus       175 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  209 (542)
                      ++++++.++.+...+ +-|...|+-.-..+.+.|.
T Consensus       202 ~~eEl~~~~~aI~~~-p~n~SaW~y~~~ll~~~~~  235 (306)
T 3dra_A          202 IDEELNYVKDKIVKC-PQNPSTWNYLLGIHERFDR  235 (306)
T ss_dssp             HHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHhC-CCCccHHHHHHHHHHhcCC
Confidence            445555555544443 2344444444444444443

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=98.95  E-value=2.3e-07  Score=82.77  Aligned_cols=162  Identities=9%  Similarity=-0.011  Sum_probs=112.9

Q ss_pred             HHHHHHhCCHHHHHHHHHHHHHcCC-CcCH----HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CC----HHHHHHH
Q 038401          372 ITILARAGRIEEATWVFRQAFDAGE-VKDI----SVFGCMIELFSRNKKYANVIEVFEKMRSAGYF-PD----SHIIALV  441 (542)
Q Consensus       372 ~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-p~----~~~~~~l  441 (542)
                      +..+...|++++|...++++.+... .|+.    ..+..++..+...|++++|+..|+++++.... ++    ..+++.+
T Consensus        82 i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~l  161 (293)
T 3u3w_A           82 VIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAI  161 (293)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHH
Confidence            3445667788888888887776422 1221    13334666777788999999999999874221 22    2468888


Q ss_pred             HHHHhccCcHHHHHHHHHHHHHcC----CCCchHH-HHH-HHHHHhccCChHHHHHHHHHHh----cCCC-CCchhHHHH
Q 038401          442 LNSYGKLREFETADDLYSEMQEEG----CVFSDQV-HFQ-MLSLYGARKDFNMLESLFERLD----SDSN-INKKELHHV  510 (542)
Q Consensus       442 ~~~~~~~g~~~~A~~~~~~~~~~~----~~~~~~~-~~~-l~~~~~~~g~~~~A~~~~~~~~----~~~~-~~~~~~~~~  510 (542)
                      +..|...|++++|..+|+++++..    ...+... .+. ++.+|...|++++|+..+++..    .... ......|..
T Consensus       162 g~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~~  241 (293)
T 3u3w_A          162 ANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQ  241 (293)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHH
Confidence            899999999999999999988521    1122222 333 8899999999999999998832    1111 112578999


Q ss_pred             HHHHHHhhcc-hhhHHHHHHHHHh
Q 038401          511 VAGIYERANR-LNDASRIMNRMNK  533 (542)
Q Consensus       511 l~~~~~~~g~-~~~A~~~~~~~~~  533 (542)
                      ++.+|...|+ +++|.+.++++..
T Consensus       242 lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          242 RGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCcHHHHHHHHHHHHH
Confidence            9999999995 6999999988654

>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=98.92  E-value=1.8e-08  Score=91.71  Aligned_cols=129  Identities=16%  Similarity=0.101  Sum_probs=99.7

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC----------------HHHHHHHHHHHhccCcHHHHHHHHHHHH
Q 038401          399 DISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPD----------------SHIIALVLNSYGKLREFETADDLYSEMQ  462 (542)
Q Consensus       399 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~----------------~~~~~~l~~~~~~~g~~~~A~~~~~~~~  462 (542)
                      +...+..++..+...|++++|+..|+++++.  .|+                ...|..+..+|.+.|++++|+..+++++
T Consensus       146 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al  223 (336)
T 1p5q_A          146 QSTIVKERGTVYFKEGKYKQALLQYKKIVSW--LEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKAL  223 (336)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--TTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--hhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4567778888888888888888888888874  343                4778888888899999999999999998


Q ss_pred             HcCCCCchHH-HHHHHHHHhccCChHHHHHHHHH-HhcCCCCCchhHHHHHHHHHHhhcchhhH-HHHHHHHHh
Q 038401          463 EEGCVFSDQV-HFQMLSLYGARKDFNMLESLFER-LDSDSNINKKELHHVVAGIYERANRLNDA-SRIMNRMNK  533 (542)
Q Consensus       463 ~~~~~~~~~~-~~~l~~~~~~~g~~~~A~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~g~~~~A-~~~~~~~~~  533 (542)
                      +..  |.+.. .+.++.+|...|++++|+..|++ +..+|.  ...++..++.++...|++++| ...+++|..
T Consensus       224 ~~~--p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~--~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~~  293 (336)
T 1p5q_A          224 ELD--SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPN--NKAAKTQLAVCQQRIRRQLAREKKLYANMFE  293 (336)
T ss_dssp             HHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSS--CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhC--CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCC--CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            876  22333 33388889999999999999988 455554  457888889999999998888 456666643

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.90  E-value=6.1e-08  Score=83.42  Aligned_cols=181  Identities=13%  Similarity=-0.002  Sum_probs=97.6

Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCCHHHHHHH-------HHHHHHcCCHHHHHHHHHHhcCCCC----------CC------
Q 038401          311 KAGKLDRAAMLFQKLRSSGVEIDPVLYQTM-------IVAYERVGLVAHAKRLLHELRQPNT----------IP------  367 (542)
Q Consensus       311 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-------~~~~~~~~~~~~a~~~~~~~~~~~~----------~~------  367 (542)
                      ..++...|.+.|.++.... +-....|..+       ...+.+.++..+++..+..-....+          ..      
T Consensus        18 ~~~d~~~A~~~F~~a~~~d-P~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~l~p~~l~a~~~~~g~y~~~~~   96 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYD-ESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQISMSTLNARIAIGGLYGDITY   96 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTTCCGGGGCCEEECCTTTCCCEE
T ss_pred             cCCCHHHHHHHHHHHHHhC-hhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhcCChhhhhhhhccCCccccccc
Confidence            5788888999998888874 3356677666       3444444444455444444332100          00      


Q ss_pred             --------HHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC--HHH
Q 038401          368 --------RETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPD--SHI  437 (542)
Q Consensus       368 --------~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~--~~~  437 (542)
                              .......+...|++++|.+.|+.+...+  |+......+...+.+.+++++|+..|+...... .|.  ...
T Consensus        97 ~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~~a  173 (282)
T 4f3v_A           97 PVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAGAA  173 (282)
T ss_dssp             ECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHHHH
T ss_pred             ccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHHHH
Confidence                    0123445556666666666666665432  222244444555666666666666666443311 111  124


Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHHHHcCCCCc--h-HHHHHHHHHHhccCChHHHHHHHHHH
Q 038401          438 IALVLNSYGKLREFETADDLYSEMQEEGCVFS--D-QVHFQMLSLYGARKDFNMLESLFERL  496 (542)
Q Consensus       438 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~--~-~~~~~l~~~~~~~g~~~~A~~~~~~~  496 (542)
                      +..+..++...|++++|+..|+++.... ..|  . ...+..+.++.+.|+.++|...|+++
T Consensus       174 ~~~LG~al~~LG~~~eAl~~l~~a~~g~-~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a  234 (282)
T 4f3v_A          174 GVAHGVAAANLALFTEAERRLTEANDSP-AGEACARAIAWYLAMARRSQGNESAAVALLEWL  234 (282)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTST-TTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHhcCC-CCccccHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            5555666666666666666666665322 102  1 12333566666666666666666664

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.89  E-value=6.4e-08  Score=74.60  Aligned_cols=118  Identities=15%  Similarity=0.087  Sum_probs=95.4

Q ss_pred             CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH
Q 038401          397 VKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ  475 (542)
Q Consensus       397 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  475 (542)
                      +.+...+..++..+...|++++|+..|+++.+.  .| +...+..++.++...|++++|...++++.+..  +.+...+.
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~   88 (133)
T 2lni_A           13 PDLALMVKNKGNECFQKGDYPQAMKHYTEAIKR--NPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE--PTFIKGYT   88 (133)
T ss_dssp             SCHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTT--CTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC--TTCHHHHH
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCchHHHH
Confidence            345778888999999999999999999999884  34 67888889999999999999999999999876  22333333


Q ss_pred             -HHHHHhccCChHHHHHHHHHH-hcCCCCCchhHHHHHHHHHHhhcc
Q 038401          476 -MLSLYGARKDFNMLESLFERL-DSDSNINKKELHHVVAGIYERANR  520 (542)
Q Consensus       476 -l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~g~  520 (542)
                       ++.++...|++++|++.+++. ...|.  ....+..++.++...|+
T Consensus        89 ~la~~~~~~~~~~~A~~~~~~~~~~~p~--~~~~~~~l~~~~~~~~~  133 (133)
T 2lni_A           89 RKAAALEAMKDYTKAMDVYQKALDLDSS--CKEAADGYQRCMMAQYN  133 (133)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCGG--GTHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHHhCCC--chHHHHHHHHHHHHhcC
Confidence             889999999999999999994 44443  45678888888887764

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.88  E-value=4.5e-09  Score=82.58  Aligned_cols=94  Identities=11%  Similarity=0.066  Sum_probs=43.2

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHHHH-HhcCCCCCchhHHHHHHHH
Q 038401          437 IIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLFER-LDSDSNINKKELHHVVAGI  514 (542)
Q Consensus       437 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~-~~~~~~~~~~~~~~~l~~~  514 (542)
                      .+..++..+.+.|++++|+..|+++++.+  |.+...+. ++.++...|++++|+..+++ +..+|+  ...+|+.++.+
T Consensus        38 ~~~~lg~~~~~~g~~~eA~~~~~~al~~~--P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~--~~~~~~~lg~~  113 (151)
T 3gyz_A           38 DIYSYAYDFYNKGRIEEAEVFFRFLCIYD--FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKN--DYTPVFHTGQC  113 (151)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSS--CCHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCC--CcHHHHHHHHH
Confidence            34444444455555555555555555443  11222222 44555555555555555555 233333  22344455555


Q ss_pred             HHhhcchhhHHHHHHHHHhc
Q 038401          515 YERANRLNDASRIMNRMNKR  534 (542)
Q Consensus       515 ~~~~g~~~~A~~~~~~~~~~  534 (542)
                      |...|++++|+..|+++.+.
T Consensus       114 ~~~lg~~~eA~~~~~~al~l  133 (151)
T 3gyz_A          114 QLRLKAPLKAKECFELVIQH  133 (151)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHh
Confidence            55555555555555554443

>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=98.88  E-value=6.7e-07  Score=79.73  Aligned_cols=156  Identities=6%  Similarity=-0.020  Sum_probs=109.5

Q ss_pred             HHHHHHcCCHHHHHHHHHHhcCCCCCCHH---------HHHHHHHHhCCHHHHHHHHHHHHHcCCC-cC----HHHHHHH
Q 038401          341 IVAYERVGLVAHAKRLLHELRQPNTIPRE---------TAITILARAGRIEEATWVFRQAFDAGEV-KD----ISVFGCM  406 (542)
Q Consensus       341 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---------~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~----~~~~~~l  406 (542)
                      +..+...|++++|...+++..........         .+...+...|++++|+..++++++.... ++    ..+++.+
T Consensus        82 i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~l  161 (293)
T 3u3w_A           82 VIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAI  161 (293)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHH
Confidence            44556667777777776665543222111         2334455667889999999999874322 22    3468999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhC-----CCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHHHHcC----CCCchHHHHH-
Q 038401          407 IELFSRNKKYANVIEVFEKMRSA-----GYFPD-SHIIALVLNSYGKLREFETADDLYSEMQEEG----CVFSDQVHFQ-  475 (542)
Q Consensus       407 ~~~~~~~g~~~~A~~~~~~~~~~-----~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~----~~~~~~~~~~-  475 (542)
                      +.+|...|++++|+..|+++++.     +..+. ..++..++..|.+.|++++|..+++++++..    ........+. 
T Consensus       162 g~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~~  241 (293)
T 3u3w_A          162 ANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQ  241 (293)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHH
Confidence            99999999999999999999841     11122 2478889999999999999999999988642    1111233344 


Q ss_pred             HHHHHhccCC-hHHHHHHHHHH
Q 038401          476 MLSLYGARKD-FNMLESLFERL  496 (542)
Q Consensus       476 l~~~~~~~g~-~~~A~~~~~~~  496 (542)
                      ++.++.+.|+ +++|.+.+++.
T Consensus       242 lg~~~~~~g~~~~~A~~~~~~A  263 (293)
T 3u3w_A          242 RGECLRKLEYEEAEIEDAYKKA  263 (293)
T ss_dssp             HHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHhCCcHHHHHHHHHHH
Confidence            8999999995 69999999884

>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=98.87  E-value=1.7e-08  Score=79.42  Aligned_cols=111  Identities=11%  Similarity=0.010  Sum_probs=82.9

Q ss_pred             HHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcC
Q 038401          387 VFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEG  465 (542)
Q Consensus       387 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  465 (542)
                      .|+++++.. +.+...+..++..+...|++++|+..|++++..  .| +...|..++.+|...|++++|+..|+++++.+
T Consensus         9 ~~~~al~~~-p~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~   85 (148)
T 2vgx_A            9 TIAMLNEIS-SDTLEQLYSLAFNQYQSGXYEDAHXVFQALCVL--DHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD   85 (148)
T ss_dssp             SHHHHTTCC-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             hHHHHHcCC-HhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHc--CcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            445555432 235667777888888999999999999998874  35 66788888889999999999999999998876


Q ss_pred             CCCchHHHHHHHHHHhccCChHHHHHHHHHH-hcCCC
Q 038401          466 CVFSDQVHFQMLSLYGARKDFNMLESLFERL-DSDSN  501 (542)
Q Consensus       466 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~  501 (542)
                      +. ....++.++.++...|++++|+..+++. ...|+
T Consensus        86 p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~  121 (148)
T 2vgx_A           86 IX-EPRFPFHAAECLLQXGELAEAESGLFLAQELIAN  121 (148)
T ss_dssp             TT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTT
T ss_pred             CC-CchHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC
Confidence            22 1223334888999999999999999884 44444

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.86  E-value=2.9e-08  Score=83.23  Aligned_cols=157  Identities=8%  Similarity=-0.012  Sum_probs=98.0

Q ss_pred             HHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHhccCc
Q 038401          376 ARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSA----GYFP-DSHIIALVLNSYGKLRE  450 (542)
Q Consensus       376 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~p-~~~~~~~l~~~~~~~g~  450 (542)
                      ...|++++|.+.++.+.. ........+..+...+...|++++|...+++.++.    +..| ...++..+...+...|+
T Consensus         3 ~~~g~~~~A~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~   81 (203)
T 3gw4_A            3 FEAHDYALAERQAQALLA-HPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGN   81 (203)
T ss_dssp             ----CHHHHHHHHHHHHT-STTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTC
T ss_pred             cccccHHHHHHHHHHhcC-ChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCC
Confidence            345777777774444433 22245667777778888888888888888877652    2112 23566677777888888


Q ss_pred             HHHHHHHHHHHHHc---CCCCc-h-HHHHH-HHHHHhccCChHHHHHHHHHHhc---CCCCCc--hhHHHHHHHHHHhhc
Q 038401          451 FETADDLYSEMQEE---GCVFS-D-QVHFQ-MLSLYGARKDFNMLESLFERLDS---DSNINK--KELHHVVAGIYERAN  519 (542)
Q Consensus       451 ~~~A~~~~~~~~~~---~~~~~-~-~~~~~-l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~--~~~~~~l~~~~~~~g  519 (542)
                      +++|...++++.+.   .+..+ . ...+. ++.++...|++++|...+++...   ..+...  ...+..++.+|...|
T Consensus        82 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g  161 (203)
T 3gw4_A           82 WDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEK  161 (203)
T ss_dssp             HHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCc
Confidence            88888888887765   21112 1 11222 77788888888888888877321   111111  234577888888888


Q ss_pred             chhhHHHHHHHHHh
Q 038401          520 RLNDASRIMNRMNK  533 (542)
Q Consensus       520 ~~~~A~~~~~~~~~  533 (542)
                      ++++|.+.+++..+
T Consensus       162 ~~~~A~~~~~~al~  175 (203)
T 3gw4_A          162 NLLEAQQHWLRARD  175 (203)
T ss_dssp             CHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHH
Confidence            88888888877654

>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=98.86  E-value=8.6e-08  Score=94.52  Aligned_cols=154  Identities=8%  Similarity=-0.115  Sum_probs=100.2

Q ss_pred             hcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHH
Q 038401           32 AKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISI  111 (542)
Q Consensus        32 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  111 (542)
                      .|++++|...|++..+.... +...|..+...+...|++++|.+.+++..+..+ .+...+..+..++...|++++|.+.
T Consensus         2 ~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRPQ-DFVAWLMLADAELGMGDTTAGEMAVQRGLALHP-GHPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             -------------------C-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTST-TCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            36777788888777765322 566777777788888888888888888777642 3566777777888888888888888


Q ss_pred             HHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHC---CChHHHHHHHHHHHhc
Q 038401          112 FSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVEN---HKFVEALSVFAEMNEV  188 (542)
Q Consensus       112 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~---g~~~~a~~~~~~~~~~  188 (542)
                      +++..+.. +.+...+..+..++...|++++|.+.+++..+.. +.+...+..+...+...   |++++|.+.+++..+.
T Consensus        80 ~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~  157 (568)
T 2vsy_A           80 LQQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLL-PEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQ  157 (568)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Confidence            88777653 3456677777788888888888888888877653 23566777777778887   8888888888887765


Q ss_pred             C
Q 038401          189 N  189 (542)
Q Consensus       189 ~  189 (542)
                      +
T Consensus       158 ~  158 (568)
T 2vsy_A          158 G  158 (568)
T ss_dssp             T
T ss_pred             C
Confidence            4

>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=98.85  E-value=1.3e-06  Score=77.90  Aligned_cols=150  Identities=8%  Similarity=0.006  Sum_probs=91.0

Q ss_pred             CHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHH--------HHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCc-
Q 038401          380 RIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYA--------NVIEVFEKMRSAGYFPDSHIIALVLNSYGKLRE-  450 (542)
Q Consensus       380 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~--------~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~-  450 (542)
                      ++++++++++++++.. +.+..+|+.-..++.+.|.++        ++++.++++++.+. -|...|+.-...+.+.++ 
T Consensus       140 ~~~~EL~~~~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp-~N~SAW~~R~~lL~~l~~~  217 (349)
T 3q7a_A          140 DPVSEIEYIHGSLLPD-PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDG-RNNSAWGWRWYLRVSRPGA  217 (349)
T ss_dssp             CCHHHHHHHHHHTSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHTTSTTC
T ss_pred             ChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhcccc
Confidence            4566666666666653 356666766666666666655        77777777777431 256677777666666665 


Q ss_pred             ------HHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCCh--------------------HHHHHHHHHHhcCC---
Q 038401          451 ------FETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDF--------------------NMLESLFERLDSDS---  500 (542)
Q Consensus       451 ------~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~--------------------~~A~~~~~~~~~~~---  500 (542)
                            ++++++++++++...  |.+...+. +..++.+.|..                    .+..+....+....   
T Consensus       218 ~~~~~~~~eELe~~~~aI~~~--P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  295 (349)
T 3q7a_A          218 ETSSRSLQDELIYILKSIHLI--PHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPE  295 (349)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCS
T ss_pred             ccchHHHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhccccc
Confidence                  678888888887766  33334443 55555555543                    22333333332221   


Q ss_pred             --CCCchhHHHHHHHHHHhhcchhhHHHHHHHHHh
Q 038401          501 --NINKKELHHVVAGIYERANRLNDASRIMNRMNK  533 (542)
Q Consensus       501 --~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  533 (542)
                        ......+...++++|...|+.++|.++++.+.+
T Consensus       296 ~~~~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~  330 (349)
T 3q7a_A          296 DTPLPVPLALEYLADSFIEQNRVDDAAKVFEKLSS  330 (349)
T ss_dssp             SCCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ccCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Confidence              133456778888888888888888888888653

>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=98.85  E-value=1.2e-08  Score=80.41  Aligned_cols=109  Identities=8%  Similarity=0.020  Sum_probs=88.5

Q ss_pred             HHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHHHH-Hhc
Q 038401          422 VFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLFER-LDS  498 (542)
Q Consensus       422 ~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~-~~~  498 (542)
                      .|+++++  +.| +...+..++..+...|++++|+..|++++..+  |.+...+. ++.++...|++++|+..+++ +..
T Consensus         9 ~~~~al~--~~p~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l   84 (148)
T 2vgx_A            9 TIAMLNE--ISSDTLEQLYSLAFNQYQSGXYEDAHXVFQALCVLD--HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVM   84 (148)
T ss_dssp             SHHHHTT--CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hHHHHHc--CCHhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC--cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            4556655  445 34677788889999999999999999999987  23334444 99999999999999999999 455


Q ss_pred             CCCCCchhHHHHHHHHHHhhcchhhHHHHHHHHHhcCC
Q 038401          499 DSNINKKELHHVVAGIYERANRLNDASRIMNRMNKRRT  536 (542)
Q Consensus       499 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  536 (542)
                      +|+  ....+..++.+|...|++++|+..|+++.+...
T Consensus        85 ~p~--~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p  120 (148)
T 2vgx_A           85 DIX--EPRFPFHAAECLLQXGELAEAESGLFLAQELIA  120 (148)
T ss_dssp             STT--CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHT
T ss_pred             CCC--CchHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc
Confidence            565  457899999999999999999999999887543

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.84  E-value=7.7e-08  Score=73.84  Aligned_cols=120  Identities=6%  Similarity=-0.027  Sum_probs=94.5

Q ss_pred             cCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHH-HHH
Q 038401          398 KDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVH-FQM  476 (542)
Q Consensus       398 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~-~~l  476 (542)
                      .+...+..++..+...|++++|+..++++.+.. +.+...+..++.++...|++++|...++++.+..  +.+... +.+
T Consensus        10 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~   86 (131)
T 2vyi_A           10 AEAERLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICID--PAYSKAYGRM   86 (131)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC--ccCHHHHHHH
Confidence            346677888888999999999999999998743 2356788888889999999999999999999876  222333 338


Q ss_pred             HHHHhccCChHHHHHHHHHH-hcCCCCCchhHHHHHHHHHHhhcchh
Q 038401          477 LSLYGARKDFNMLESLFERL-DSDSNINKKELHHVVAGIYERANRLN  522 (542)
Q Consensus       477 ~~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~g~~~  522 (542)
                      +.++...|++++|...+++. ...|.  ....+..++.++...|+++
T Consensus        87 ~~~~~~~~~~~~A~~~~~~~~~~~p~--~~~~~~~l~~~~~~~~~~~  131 (131)
T 2vyi_A           87 GLALSSLNKHVEAVAYYKKALELDPD--NETYKSNLKIAELKLREAP  131 (131)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHSTT--CHHHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHhCCHHHHHHHHHHHHhcCcc--chHHHHHHHHHHHHHhcCC
Confidence            88999999999999999994 44444  4567888899988888753

>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=98.83  E-value=2.8e-07  Score=77.83  Aligned_cols=128  Identities=11%  Similarity=0.009  Sum_probs=97.7

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCH
Q 038401          337 YQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKY  416 (542)
Q Consensus       337 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  416 (542)
                      +..+...+...|++++|...+++...+++..+..+...+...|++++|+..++++++.. +.+...+..++.++...|++
T Consensus         9 ~~~~g~~~~~~~~~~~A~~~~~~a~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~   87 (213)
T 1hh8_A            9 LWNEGVLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKY   87 (213)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHcCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcccH
Confidence            34455566677777777777777665555555666777778888888888888888764 45678888899999999999


Q ss_pred             HHHHHHHHHHHhCCC--------------CC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcC
Q 038401          417 ANVIEVFEKMRSAGY--------------FP-DSHIIALVLNSYGKLREFETADDLYSEMQEEG  465 (542)
Q Consensus       417 ~~A~~~~~~~~~~~~--------------~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  465 (542)
                      ++|+..|+++.+...              .| ....+..++.+|...|++++|...|+++.+..
T Consensus        88 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  151 (213)
T 1hh8_A           88 DLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  151 (213)
T ss_dssp             HHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcC
Confidence            999999999987421              11 12677888889999999999999999999876

>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=98.82  E-value=1.4e-07  Score=76.07  Aligned_cols=125  Identities=14%  Similarity=-0.024  Sum_probs=97.2

Q ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccC
Q 038401          370 TAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLR  449 (542)
Q Consensus       370 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g  449 (542)
                      .+...+...|++++|...|+++++.. +.+...+..++.++...|++++|+..+++..+.. +.+...+..++.++...|
T Consensus        18 ~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~   95 (166)
T 1a17_A           18 TQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALG   95 (166)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhc
Confidence            44566777888888888888888763 3568888889999999999999999999998843 235678888899999999


Q ss_pred             cHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHHHHH
Q 038401          450 EFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLFERL  496 (542)
Q Consensus       450 ~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~~  496 (542)
                      ++++|...++++.+..+..+...... .+..+...|++++|++.+++.
T Consensus        96 ~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  143 (166)
T 1a17_A           96 KFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHK  143 (166)
T ss_dssp             CHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHcccch
Confidence            99999999999998763222221112 455577889999999888874

>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=98.82  E-value=3.3e-08  Score=80.77  Aligned_cols=123  Identities=10%  Similarity=0.126  Sum_probs=95.4

Q ss_pred             HHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHH-HhccCcH-
Q 038401          375 LARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNS-YGKLREF-  451 (542)
Q Consensus       375 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~-~~~~g~~-  451 (542)
                      +...|++++|...++++++.. +.+...|..++.+|...|++++|+..|+++.+..  | +...+..++.+ +...|++ 
T Consensus        20 ~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~la~~l~~~~~~~~   96 (177)
T 2e2e_A           20 FASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR--GENAELYAALATVLYYQASQHM   96 (177)
T ss_dssp             CC-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--CSCHHHHHHHHHHHHHHTTTCC
T ss_pred             hhhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHhcCCcc
Confidence            356789999999999998874 4678889999999999999999999999998743  4 56778888888 7788998 


Q ss_pred             -HHHHHHHHHHHHcCCCCchHHHHHHHHHHhccCChHHHHHHHHHH-hcCCC
Q 038401          452 -ETADDLYSEMQEEGCVFSDQVHFQMLSLYGARKDFNMLESLFERL-DSDSN  501 (542)
Q Consensus       452 -~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~  501 (542)
                       ++|...++++++..+. .....+.++.++...|++++|...++++ ...|.
T Consensus        97 ~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~  147 (177)
T 2e2e_A           97 TAQTRAMIDKALALDSN-EITALMLLASDAFMQANYAQAIELWQKVMDLNSP  147 (177)
T ss_dssp             CHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCT
T ss_pred             hHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCCC
Confidence             9999999999998621 1223333889999999999999999994 44554

>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=98.81  E-value=1.2e-08  Score=85.10  Aligned_cols=156  Identities=6%  Similarity=-0.030  Sum_probs=99.1

Q ss_pred             HHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCC--------------HHHHHH
Q 038401          376 ARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGY-FPD--------------SHIIAL  440 (542)
Q Consensus       376 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~p~--------------~~~~~~  440 (542)
                      ...|+++.+.+.++...+. .......+..++..+...|++++|+..|+++++... .|+              ...+..
T Consensus        15 ~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (198)
T 2fbn_A           15 ENLYFQGAKKSIYDYTDEE-KVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLN   93 (198)
T ss_dssp             -------CCCSGGGCCHHH-HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHH
T ss_pred             hhhhhccccCchhhCCHHH-HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHH
Confidence            3345555555554433221 112345677778888888999999999998887321 110              267788


Q ss_pred             HHHHHhccCcHHHHHHHHHHHHHcCCCCchHH-HHHHHHHHhccCChHHHHHHHHHH-hcCCCCCchhHHHHHHHHHHhh
Q 038401          441 VLNSYGKLREFETADDLYSEMQEEGCVFSDQV-HFQMLSLYGARKDFNMLESLFERL-DSDSNINKKELHHVVAGIYERA  518 (542)
Q Consensus       441 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~  518 (542)
                      +..+|...|++++|+..++++++..  +.+.. .+.++.++...|++++|+..+++. ...|.  ...++..++.++...
T Consensus        94 la~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~--~~~~~~~l~~~~~~~  169 (198)
T 2fbn_A           94 LATCYNKNKDYPKAIDHASKVLKID--KNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPN--NLDIRNSYELCVNKL  169 (198)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTT--CHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHhC--cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCC--cHHHHHHHHHHHHHH
Confidence            8889999999999999999999876  22333 333889999999999999999994 44554  567888899999999


Q ss_pred             cchhhHH-HHHHHHHhcCC
Q 038401          519 NRLNDAS-RIMNRMNKRRT  536 (542)
Q Consensus       519 g~~~~A~-~~~~~~~~~~~  536 (542)
                      |+.+++. ..+++|..++.
T Consensus       170 ~~~~~~~~~~~~~~f~~~~  188 (198)
T 2fbn_A          170 KEARKKDKLTFGGMFDKGP  188 (198)
T ss_dssp             HHHHC--------------
T ss_pred             HHHHHHHHHHHHHHhcccc
Confidence            9888887 66666665543

>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=98.80  E-value=2.7e-08  Score=75.94  Aligned_cols=94  Identities=11%  Similarity=0.092  Sum_probs=59.1

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCch------HH
Q 038401          400 ISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSD------QV  472 (542)
Q Consensus       400 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~------~~  472 (542)
                      ...+..++..+.+.|++++|++.|+++++  +.| +...|..++.+|.+.|++++|+..++++++..+..+.      ..
T Consensus         8 A~a~~~lG~~~~~~~~~~~A~~~y~~Al~--~~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~   85 (127)
T 4gcn_A            8 AIAEKDLGNAAYKQKDFEKAHVHYDKAIE--LDPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKA   85 (127)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHH
Confidence            34566677777777777777777777776  334 4566667777777777777777777777664311110      01


Q ss_pred             HHHHHHHHhccCChHHHHHHHHH
Q 038401          473 HFQMLSLYGARKDFNMLESLFER  495 (542)
Q Consensus       473 ~~~l~~~~~~~g~~~~A~~~~~~  495 (542)
                      ...++.++...|++++|++.+++
T Consensus        86 ~~~lg~~~~~~~~~~~A~~~~~k  108 (127)
T 4gcn_A           86 MSRAGNAFQKQNDLSLAVQWFHR  108 (127)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHH
Confidence            22256666666777777766666

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.78  E-value=2.7e-07  Score=69.97  Aligned_cols=115  Identities=13%  Similarity=0.215  Sum_probs=85.3

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHH-HHHH
Q 038401          400 ISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHF-QMLS  478 (542)
Q Consensus       400 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~-~l~~  478 (542)
                      ...+..++..+...|++++|++.++++.+.. +.+..++..++..+...|++++|..+++++.+..  +.+...+ .++.
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~la~   85 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD--PNNAEAWYNLGN   85 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC--CccHHHHHHHHH
Confidence            5677778888888899999999988888743 2356777888888888899999999998888875  2223333 3888


Q ss_pred             HHhccCChHHHHHHHHHH-hcCCCCCchhHHHHHHHHHHhhc
Q 038401          479 LYGARKDFNMLESLFERL-DSDSNINKKELHHVVAGIYERAN  519 (542)
Q Consensus       479 ~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~g  519 (542)
                      ++...|++++|...++++ ...|.  ....+..++.++...|
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g  125 (125)
T 1na0_A           86 AYYKQGDYDEAIEYYQKALELDPN--NAEAKQNLGNAKQKQG  125 (125)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHHC
T ss_pred             HHHHhcCHHHHHHHHHHHHHhCCC--cHHHHHHHHHHHHhcc
Confidence            888899999999888884 44443  4466777777776544

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.78  E-value=1.3e-06  Score=77.83  Aligned_cols=125  Identities=8%  Similarity=0.025  Sum_probs=92.2

Q ss_pred             HHHHHHhCCHHHHHHHHHHHHHcCCC---cC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-CCCCC-----HHHHHH
Q 038401          372 ITILARAGRIEEATWVFRQAFDAGEV---KD--ISVFGCMIELFSRNKKYANVIEVFEKMRSA-GYFPD-----SHIIAL  440 (542)
Q Consensus       372 ~~~~~~~g~~~~A~~~~~~~~~~~~~---~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~p~-----~~~~~~  440 (542)
                      ...+...|++++|+..++++++....   +.  ..+++.++..|...|++++|+..|+++.+. ...|+     ..++..
T Consensus       122 ~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~n  201 (293)
T 2qfc_A          122 AAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYN  201 (293)
T ss_dssp             HHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHH
T ss_pred             HHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHh
Confidence            34455667888888888888753221   11  458889999999999999999999998731 01122     257888


Q ss_pred             HHHHHhccCcHHHHHHHHHHHHHcCC---C-CchHHHHH-HHHHHhccCChHHH-HHHHHHH
Q 038401          441 VLNSYGKLREFETADDLYSEMQEEGC---V-FSDQVHFQ-MLSLYGARKDFNML-ESLFERL  496 (542)
Q Consensus       441 l~~~~~~~g~~~~A~~~~~~~~~~~~---~-~~~~~~~~-l~~~~~~~g~~~~A-~~~~~~~  496 (542)
                      ++.+|...|++++|+.+++++++...   . ......+. ++.+|...|++++| ...+++.
T Consensus       202 lg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~Ai~~~~~~A  263 (293)
T 2qfc_A          202 HAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKA  263 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHHHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHH
Confidence            99999999999999999999886530   0 11133344 89999999999999 7778773

>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=98.76  E-value=1.2e-07  Score=77.43  Aligned_cols=118  Identities=10%  Similarity=0.075  Sum_probs=53.3

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHH-HhccCCh--HH
Q 038401          413 NKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSL-YGARKDF--NM  488 (542)
Q Consensus       413 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~-~~~~g~~--~~  488 (542)
                      .|++++|+..+++..+.. +.+...+..++.+|...|++++|...|+++.+..  |.+...+. ++.+ +...|++  ++
T Consensus        23 ~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~la~~l~~~~~~~~~~~   99 (177)
T 2e2e_A           23 QQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR--GENAELYAALATVLYYQASQHMTAQ   99 (177)
T ss_dssp             ----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--CSCHHHHHHHHHHHHHHTTTCCCHH
T ss_pred             ccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHhcCCcchHH
Confidence            445555555555554421 1133445555555555555555555555555543  11112222 4444 4445554  55


Q ss_pred             HHHHHHHH-hcCCCCCchhHHHHHHHHHHhhcchhhHHHHHHHHHhcC
Q 038401          489 LESLFERL-DSDSNINKKELHHVVAGIYERANRLNDASRIMNRMNKRR  535 (542)
Q Consensus       489 A~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  535 (542)
                      |+..+++. ...|.  ....+..++.+|...|++++|...++++.+..
T Consensus       100 A~~~~~~al~~~p~--~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  145 (177)
T 2e2e_A          100 TRAMIDKALALDSN--EITALMLLASDAFMQANYAQAIELWQKVMDLN  145 (177)
T ss_dssp             HHHHHHHHHHHCTT--CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHhCCC--cHHHHHHHHHHHHHcccHHHHHHHHHHHHhhC
Confidence            55555552 22232  23445555555555555555555555554443

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.74  E-value=9.3e-08  Score=72.16  Aligned_cols=94  Identities=10%  Similarity=-0.038  Sum_probs=57.0

Q ss_pred             HHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHH-HHHHHHhccCChHHHHHHHHH-HhcCCCCCchhHHHHHHHHHH
Q 038401          439 ALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHF-QMLSLYGARKDFNMLESLFER-LDSDSNINKKELHHVVAGIYE  516 (542)
Q Consensus       439 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~g~~~~A~~~~~~-~~~~~~~~~~~~~~~l~~~~~  516 (542)
                      ..++..+.+.|++++|+..++++++..  |.+...+ .++.++...|++++|+..+++ +..+|+  ...++..++.+|.
T Consensus        21 ~~~g~~~~~~g~~~~A~~~~~~al~~~--P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~--~~~~~~~la~~~~   96 (121)
T 1hxi_A           21 MEEGLSMLKLANLAEAALAFEAVCQKE--PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPK--DIAVHAALAVSHT   96 (121)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT--CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC--CHHHHHHHHHHHH
Confidence            344556666677777777777776655  1222222 266667777777777777766 344444  3456667777777


Q ss_pred             hhcchhhHHHHHHHHHhcCC
Q 038401          517 RANRLNDASRIMNRMNKRRT  536 (542)
Q Consensus       517 ~~g~~~~A~~~~~~~~~~~~  536 (542)
                      ..|++++|+..++++.+..+
T Consensus        97 ~~g~~~~A~~~~~~al~~~P  116 (121)
T 1hxi_A           97 NEHNANAALASLRAWLLSQP  116 (121)
T ss_dssp             HHHHHHHHHHHHHHHHC---
T ss_pred             HcCCHHHHHHHHHHHHHhCc
Confidence            77777777777777666543

>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=98.73  E-value=7.4e-06  Score=73.10  Aligned_cols=183  Identities=8%  Similarity=0.076  Sum_probs=124.9

Q ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccC-CHHHHHHHHHHHHhCCCCCCHHhHHHHHHHH
Q 038401           21 AYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEG-MFDSAISWLQQMEQDRVSGDLVLYSNLIELA   99 (542)
Q Consensus        21 ~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   99 (542)
                      .++.+-....+.+..++|+++++.++..++. +..+|+.--..+...| .+++++++++.++...++ +..+|+.-..++
T Consensus        56 ~~~~~r~~~~~~e~se~AL~lt~~~L~~nP~-~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPK-ny~aW~hR~wlL  133 (349)
T 3q7a_A           56 AMDYFRAIAAKEEKSERALELTEIIVRMNPA-HYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLK-SYQVWHHRLLLL  133 (349)
T ss_dssp             HHHHHHHHHHTTCCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCC-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHhCch-hHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCC-cHHHHHHHHHHH
Confidence            3444444445556667899999999987654 6777888877777777 599999999999887644 777888777777


Q ss_pred             Hhc-C-CHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHH--------HHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 038401          100 RKL-S-DYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFK--------EARLLIEEMREQGVKPDTVSYSTLLNLY  169 (542)
Q Consensus       100 ~~~-~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--------~a~~~~~~~~~~g~~~~~~~~~~l~~~~  169 (542)
                      ... + ++++++++++.+.+.. +.+..+|+.-...+.+.+.++        ++++.++++.+... -|...|+-....+
T Consensus       134 ~~l~~~~~~~EL~~~~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp-~N~SAW~~R~~lL  211 (349)
T 3q7a_A          134 DRISPQDPVSEIEYIHGSLLPD-PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDG-RNNSAWGWRWYLR  211 (349)
T ss_dssp             HHHCCSCCHHHHHHHHHHTSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHH
T ss_pred             HHhcCCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCC-CCHHHHHHHHHHH
Confidence            776 6 7889999999988764 446667765555544444444        77777777777642 3667777766666


Q ss_pred             HHCCC-------hHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccC
Q 038401          170 VENHK-------FVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLD  208 (542)
Q Consensus       170 ~~~g~-------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  208 (542)
                      .+.++       ++++++.+++..... +-|...|+-+-..+.+.|
T Consensus       212 ~~l~~~~~~~~~~~eELe~~~~aI~~~-P~n~SaW~Ylr~Ll~~~~  256 (349)
T 3q7a_A          212 VSRPGAETSSRSLQDELIYILKSIHLI-PHNVSAWNYLRGFLKHFS  256 (349)
T ss_dssp             TTSTTCCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HhccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcC
Confidence            66665       466677776666654 345566655444444433

>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=98.73  E-value=1.3e-07  Score=83.58  Aligned_cols=190  Identities=8%  Similarity=0.014  Sum_probs=124.5

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHhcCC---CCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHH
Q 038401          333 DPVLYQTMIVAYERVGLVAHAKRLLHELRQP---NTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIEL  409 (542)
Q Consensus       333 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~  409 (542)
                      +...+..+...+.+.|++++|...+++....   +...+..+..++.+.|++++|+..++++++.. +.+...+..++.+
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~   81 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQC   81 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            5667778888889999999999999887653   33345566778888999999999999998863 3567888888999


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChH
Q 038401          410 FSRNKKYANVIEVFEKMRSAGYFPDS-HIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFN  487 (542)
Q Consensus       410 ~~~~g~~~~A~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~  487 (542)
                      +...|++++|+..|+++.+.+  |+. ..+...+....   ...++..+.. ..... .+++..... +...+  .|+++
T Consensus        82 ~~~~g~~~~A~~~~~~al~l~--p~~~~~~~~~~~~~~---~~~~~~~~~~-~~~~~-~~~~~~i~~~l~~l~--~~~~~  152 (281)
T 2c2l_A           82 QLEMESYDEAIANLQRAYSLA--KEQRLNFGDDIPSAL---RIAKKKRWNS-IEERR-IHQESELHSYLTRLI--AAERE  152 (281)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHH--HHTTCCCCSHHHHHH---HHHHHHHHHH-HHHTC-CCCCCHHHHHHHHHH--HHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC--ccchhhHHHHHHHHH---HHHHHHHHHH-HHHHH-HhhhHHHHHHHHHHH--HHHHH
Confidence            999999999999999887632  321 01111111111   1112222222 22222 223333333 43333  68899


Q ss_pred             HHHHHHHHH-hcCCCCCchhHHHHHHHHHHhh-cchhhHHHHHHHHHhc
Q 038401          488 MLESLFERL-DSDSNINKKELHHVVAGIYERA-NRLNDASRIMNRMNKR  534 (542)
Q Consensus       488 ~A~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~  534 (542)
                      +|++.+++. ..+|+  +......+..++... +++++|.++|.++.+.
T Consensus       153 ~A~~~~~~al~~~p~--~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~~  199 (281)
T 2c2l_A          153 RELEECQRNHEGHED--DGHIRAQQACIEAKHDKYMADMDELFSQVDEK  199 (281)
T ss_dssp             HHHTTTSGGGTTTSC--HHHHTHHHHHHHHHHHHHHHHHHHHHHHSSCT
T ss_pred             HHHHHHHhhhccccc--hhhhhhHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            999988884 33443  445566666677666 7799999999987653

>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=98.73  E-value=2.7e-07  Score=70.29  Aligned_cols=93  Identities=12%  Similarity=0.057  Sum_probs=62.5

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHH-HHH
Q 038401          400 ISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHF-QML  477 (542)
Q Consensus       400 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~-~l~  477 (542)
                      ...|..++..+...|++++|+..|++.++.  .| +...|..++.+|.+.|++++|+..++++++.+  |.+...+ .++
T Consensus         4 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~lg   79 (126)
T 3upv_A            4 AEEARLEGKEYFTKSDWPNAVKAYTEMIKR--APEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD--PNFVRAYIRKA   79 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--CCcHHHHHHHH
Confidence            345666667777777777777777777763  24 45667777777777777777777777777765  1222223 377


Q ss_pred             HHHhccCChHHHHHHHHHH
Q 038401          478 SLYGARKDFNMLESLFERL  496 (542)
Q Consensus       478 ~~~~~~g~~~~A~~~~~~~  496 (542)
                      .++...|++++|+..+++.
T Consensus        80 ~~~~~~~~~~~A~~~~~~a   98 (126)
T 3upv_A           80 TAQIAVKEYASALETLDAA   98 (126)
T ss_dssp             HHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHhCHHHHHHHHHHH
Confidence            7777777777777777773

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.72  E-value=9.1e-08  Score=80.13  Aligned_cols=98  Identities=11%  Similarity=-0.024  Sum_probs=69.3

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCC--CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCC--CCch
Q 038401          399 DISVFGCMIELFSRNKKYANVIEVFEKMRSA----GYFP--DSHIIALVLNSYGKLREFETADDLYSEMQEEGC--VFSD  470 (542)
Q Consensus       399 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~p--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~--~~~~  470 (542)
                      ...++..+...+...|++++|...+++..+.    +-.|  ....+..+...+...|++++|...++++.+...  ..+.
T Consensus        65 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  144 (203)
T 3gw4_A           65 EHRALHQVGMVERMAGNWDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQV  144 (203)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchH
Confidence            3556777888888899999999988887653    1112  124567778888889999999999988875321  1121


Q ss_pred             H--HHHH-HHHHHhccCChHHHHHHHHHH
Q 038401          471 Q--VHFQ-MLSLYGARKDFNMLESLFERL  496 (542)
Q Consensus       471 ~--~~~~-l~~~~~~~g~~~~A~~~~~~~  496 (542)
                      .  ..+. ++.++...|++++|...+++.
T Consensus       145 ~~~~~~~~la~~~~~~g~~~~A~~~~~~a  173 (203)
T 3gw4_A          145 AIACAFRGLGDLAQQEKNLLEAQQHWLRA  173 (203)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCcCHHHHHHHHHHH
Confidence            1  1223 788888999999999888874

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.70  E-value=2.8e-07  Score=74.05  Aligned_cols=99  Identities=11%  Similarity=0.101  Sum_probs=62.1

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHH-HHH
Q 038401          399 DISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVH-FQM  476 (542)
Q Consensus       399 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~-~~l  476 (542)
                      +...+..++..+...|++++|+..|++.++.  .| +...|..+..+|...|++++|+..|+++++.+  +.+... +.+
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l   85 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSI--APANPIYLSNRAAAYSASGQHEKAAEDAELATVVD--PKYSKAWSRL   85 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC--CCCHHHHHHH
Confidence            4555666666677777777777777777663  24 45666666677777777777777777777665  122222 226


Q ss_pred             HHHHhccCChHHHHHHHHH-HhcCCC
Q 038401          477 LSLYGARKDFNMLESLFER-LDSDSN  501 (542)
Q Consensus       477 ~~~~~~~g~~~~A~~~~~~-~~~~~~  501 (542)
                      +.++...|++++|+..+++ +...|+
T Consensus        86 g~~~~~~g~~~~A~~~~~~al~~~p~  111 (164)
T 3sz7_A           86 GLARFDMADYKGAKEAYEKGIEAEGN  111 (164)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHSS
T ss_pred             HHHHHHccCHHHHHHHHHHHHHhCCC
Confidence            6777777777777777776 333443

>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=98.70  E-value=2e-07  Score=71.09  Aligned_cols=97  Identities=12%  Similarity=0.071  Sum_probs=82.7

Q ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHHHH-HhcCCCCCchhHHHHHH
Q 038401          435 SHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLFER-LDSDSNINKKELHHVVA  512 (542)
Q Consensus       435 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~-~~~~~~~~~~~~~~~l~  512 (542)
                      ...+...+..+.+.|++++|+..|+++++..  |.+...+. ++.++...|++++|+..+++ +..+|.  ....|..++
T Consensus         4 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~--~~~~~~~lg   79 (126)
T 3upv_A            4 AEEARLEGKEYFTKSDWPNAVKAYTEMIKRA--PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPN--FVRAYIRKA   79 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT--CHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC--cHHHHHHHH
Confidence            4567788889999999999999999999987  23344444 99999999999999999999 455555  567899999


Q ss_pred             HHHHhhcchhhHHHHHHHHHhcC
Q 038401          513 GIYERANRLNDASRIMNRMNKRR  535 (542)
Q Consensus       513 ~~~~~~g~~~~A~~~~~~~~~~~  535 (542)
                      .+|...|++++|+..++++.+..
T Consensus        80 ~~~~~~~~~~~A~~~~~~al~~~  102 (126)
T 3upv_A           80 TAQIAVKEYASALETLDAARTKD  102 (126)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCHHHHHHHHHHHHHhC
Confidence            99999999999999999988765

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.70  E-value=1.3e-07  Score=73.83  Aligned_cols=95  Identities=14%  Similarity=-0.011  Sum_probs=72.8

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHHHH
Q 038401          399 DISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQML  477 (542)
Q Consensus       399 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~  477 (542)
                      +...+..++..+...|++++|+..|++++..  .| +...|..+..+|...|++++|+..|+++++.++.. ...++.++
T Consensus        17 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~-~~~~~~lg   93 (142)
T 2xcb_A           17 TLEQLYALGFNQYQAGKWDDAQKIFQALCML--DHYDARYFLGLGACRQSLGLYEQALQSYSYGALMDINE-PRFPFHAA   93 (142)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC-THHHHHHH
T ss_pred             HHHHHHHHHHHHHHHccHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCC-cHHHHHHH
Confidence            4556666777888888999999998888874  35 56778888888888899999999999888876221 22333388


Q ss_pred             HHHhccCChHHHHHHHHHH
Q 038401          478 SLYGARKDFNMLESLFERL  496 (542)
Q Consensus       478 ~~~~~~g~~~~A~~~~~~~  496 (542)
                      .++...|++++|+..+++.
T Consensus        94 ~~~~~~g~~~~A~~~~~~a  112 (142)
T 2xcb_A           94 ECHLQLGDLDGAESGFYSA  112 (142)
T ss_dssp             HHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHH
Confidence            8888899999998888884

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.69  E-value=1.4e-07  Score=73.72  Aligned_cols=102  Identities=9%  Similarity=-0.019  Sum_probs=83.7

Q ss_pred             CCCC-HHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHHHH-HhcCCCCCchhH
Q 038401          431 YFPD-SHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLFER-LDSDSNINKKEL  507 (542)
Q Consensus       431 ~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~-~~~~~~~~~~~~  507 (542)
                      ..|+ ...+..+...+.+.|++++|...|++++..+  |.+...+. ++.++...|++++|+..+++ +..+|+  +...
T Consensus        13 ~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~--~~~~   88 (142)
T 2xcb_A           13 LSEDTLEQLYALGFNQYQAGKWDDAQKIFQALCMLD--HYDARYFLGLGACRQSLGLYEQALQSYSYGALMDIN--EPRF   88 (142)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT--CTHH
T ss_pred             CCHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHhC--CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC--CcHH
Confidence            3453 3566778889999999999999999999987  23333444 89999999999999999999 455555  4578


Q ss_pred             HHHHHHHHHhhcchhhHHHHHHHHHhcCC
Q 038401          508 HHVVAGIYERANRLNDASRIMNRMNKRRT  536 (542)
Q Consensus       508 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  536 (542)
                      +..++.+|...|++++|+..|+++.+...
T Consensus        89 ~~~lg~~~~~~g~~~~A~~~~~~al~~~p  117 (142)
T 2xcb_A           89 PFHAAECHLQLGDLDGAESGFYSARALAA  117 (142)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            89999999999999999999999877553

>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=98.64  E-value=1.7e-07  Score=82.94  Aligned_cols=49  Identities=16%  Similarity=0.134  Sum_probs=24.1

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHH-HHHHHHHHhcc-CcHHHHHHHHHHHHH
Q 038401          413 NKKYANVIEVFEKMRSAGYFPDSHI-IALVLNSYGKL-REFETADDLYSEMQE  463 (542)
Q Consensus       413 ~g~~~~A~~~~~~~~~~~~~p~~~~-~~~l~~~~~~~-g~~~~A~~~~~~~~~  463 (542)
                      .|++++|++.+++..+  ..|+... ...+...+.+. +.+++|.++|.++.+
T Consensus       148 ~~~~~~A~~~~~~al~--~~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~  198 (281)
T 2c2l_A          148 AAERERELEECQRNHE--GHEDDGHIRAQQACIEAKHDKYMADMDELFSQVDE  198 (281)
T ss_dssp             HHHHHHHHTTTSGGGT--TTSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHHHHHHHHHhhhc--cccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            4666666666666555  2344322 22222223333 455666666665554

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.64  E-value=8.2e-07  Score=67.91  Aligned_cols=113  Identities=12%  Similarity=0.053  Sum_probs=86.6

Q ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccC
Q 038401          370 TAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLR  449 (542)
Q Consensus       370 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g  449 (542)
                      .+...+...|++++|...++++++.. +.+...+..++.++...|++++|+..+++..+.. +.+...+..++..+...|
T Consensus        17 ~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~   94 (131)
T 2vyi_A           17 TEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGLALSSLN   94 (131)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHHHHHHhC
Confidence            34556677788888888888887763 3567888889999999999999999999998743 224678888888999999


Q ss_pred             cHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCCh
Q 038401          450 EFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDF  486 (542)
Q Consensus       450 ~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~  486 (542)
                      ++++|...++++.+..+  .+...+. ++.++...|++
T Consensus        95 ~~~~A~~~~~~~~~~~p--~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           95 KHVEAVAYYKKALELDP--DNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             CHHHHHHHHHHHHHHST--TCHHHHHHHHHHHHHHTTC
T ss_pred             CHHHHHHHHHHHHhcCc--cchHHHHHHHHHHHHHhcC
Confidence            99999999999998762  2233333 77777776654

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.64  E-value=2.9e-07  Score=73.94  Aligned_cols=100  Identities=12%  Similarity=0.019  Sum_probs=84.7

Q ss_pred             CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHHHH-HhcCCCCCchhHHHHH
Q 038401          434 DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLFER-LDSDSNINKKELHHVV  511 (542)
Q Consensus       434 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~-~~~~~~~~~~~~~~~l  511 (542)
                      +...+..+...+...|++++|+..|+++++..  +.+...+. ++.+|...|++++|+..+++ +..+|.  ....|..+
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~--~~~~~~~l   85 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIA--PANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPK--YSKAWSRL   85 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT--CHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC--CHHHHHHH
Confidence            45678888999999999999999999999987  22334444 99999999999999999999 455555  56889999


Q ss_pred             HHHHHhhcchhhHHHHHHHHHhcCCC
Q 038401          512 AGIYERANRLNDASRIMNRMNKRRTF  537 (542)
Q Consensus       512 ~~~~~~~g~~~~A~~~~~~~~~~~~~  537 (542)
                      +.+|...|++++|+..|+++.+....
T Consensus        86 g~~~~~~g~~~~A~~~~~~al~~~p~  111 (164)
T 3sz7_A           86 GLARFDMADYKGAKEAYEKGIEAEGN  111 (164)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHSS
T ss_pred             HHHHHHccCHHHHHHHHHHHHHhCCC
Confidence            99999999999999999998876543

>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=98.64  E-value=3.6e-07  Score=69.59  Aligned_cols=96  Identities=16%  Similarity=0.222  Sum_probs=78.5

Q ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC--CCCC----HHHHHHHH
Q 038401          369 ETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAG--YFPD----SHIIALVL  442 (542)
Q Consensus       369 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~p~----~~~~~~l~  442 (542)
                      ..+...+.+.|++++|++.|+++++.. +.+...|..++.+|...|++++|++.+++.++.+  ..++    ..+|..++
T Consensus        12 ~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg   90 (127)
T 4gcn_A           12 KDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSRAG   90 (127)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHHHH
Confidence            345677888899999999999998874 4578889999999999999999999999998632  1112    24677788


Q ss_pred             HHHhccCcHHHHHHHHHHHHHcC
Q 038401          443 NSYGKLREFETADDLYSEMQEEG  465 (542)
Q Consensus       443 ~~~~~~g~~~~A~~~~~~~~~~~  465 (542)
                      .++...|++++|++.|++.++..
T Consensus        91 ~~~~~~~~~~~A~~~~~kal~~~  113 (127)
T 4gcn_A           91 NAFQKQNDLSLAVQWFHRSLSEF  113 (127)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHcCCHHHHHHHHHHHHhhC
Confidence            89999999999999999998865

>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=98.63  E-value=1.1e-06  Score=65.86  Aligned_cols=110  Identities=6%  Similarity=0.009  Sum_probs=71.1

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHH
Q 038401          400 ISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLS  478 (542)
Q Consensus       400 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~  478 (542)
                      ...+..++..+...|++++|+..|+++.+.. +.+...+..++.++...|++++|...++++.+..  +.+...+. ++.
T Consensus         4 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~a~   80 (118)
T 1elw_A            4 VNELKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK--PDWGKGYSRKAA   80 (118)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC--cccHHHHHHHHH
Confidence            4456667777777788888888887777632 1255667777777777788888888888777765  12222333 777


Q ss_pred             HHhccCChHHHHHHHHHHh-cCCCCCchhHHHHHHHH
Q 038401          479 LYGARKDFNMLESLFERLD-SDSNINKKELHHVVAGI  514 (542)
Q Consensus       479 ~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~~~~l~~~  514 (542)
                      ++...|++++|.+.+++.. ..|.  ....+..++.+
T Consensus        81 ~~~~~~~~~~A~~~~~~~~~~~~~--~~~~~~~l~~~  115 (118)
T 1elw_A           81 ALEFLNRFEEAKRTYEEGLKHEAN--NPQLKEGLQNM  115 (118)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTCTT--CHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHcCCC--CHHHHHHHHHh
Confidence            7777888888888777743 3332  33444444443

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.63  E-value=2.8e-07  Score=68.36  Aligned_cols=99  Identities=7%  Similarity=-0.063  Sum_probs=48.9

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHHHHHHHhccCChHHHHHHHHHHh-cCCCCCchhHHHHHHHHH
Q 038401          437 IIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQMLSLYGARKDFNMLESLFERLD-SDSNINKKELHHVVAGIY  515 (542)
Q Consensus       437 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~~~~l~~~~  515 (542)
                      .+..++..+...|++++|...++++.+..+. .....+.++.++...|++++|...+++.. ..|.......+..++.+|
T Consensus         8 ~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~~~   86 (112)
T 2kck_A            8 EYYLEGVLQYDAGNYTESIDLFEKAIQLDPE-ESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKADAL   86 (112)
T ss_dssp             GGGGHHHHHHSSCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHHHHH
Confidence            3444455555555555555555555554311 11112225555555555555555555532 222211234555556666


Q ss_pred             Hhh-cchhhHHHHHHHHHhcCC
Q 038401          516 ERA-NRLNDASRIMNRMNKRRT  536 (542)
Q Consensus       516 ~~~-g~~~~A~~~~~~~~~~~~  536 (542)
                      ... |++++|.+.+++....+.
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~~p  108 (112)
T 2kck_A           87 RYIEGKEVEAEIAEARAKLEHH  108 (112)
T ss_dssp             TTCSSCSHHHHHHHHHHGGGCC
T ss_pred             HHHhCCHHHHHHHHHHHhhccc
Confidence            666 666666666666555543

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.63  E-value=1.1e-06  Score=67.39  Aligned_cols=119  Identities=14%  Similarity=0.114  Sum_probs=86.2

Q ss_pred             CCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHH
Q 038401           16 SPSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNL   95 (542)
Q Consensus        16 ~~~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l   95 (542)
                      +.++..|..+...+.+.|++++|...|+...+... .+...+..+..++...|++++|++.+++..+... .+...+..+
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l   90 (133)
T 2lni_A           13 PDLALMVKNKGNECFQKGDYPQAMKHYTEAIKRNP-KDAKLYSNRAACYTKLLEFQLALKDCEECIQLEP-TFIKGYTRK   90 (133)
T ss_dssp             SCHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCT-TCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCT-TCHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC-CchHHHHHH
Confidence            44566788888888888888888888888887643 2677788888888888888888888888877642 356777777


Q ss_pred             HHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhcc
Q 038401           96 IELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKA  137 (542)
Q Consensus        96 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  137 (542)
                      ..++...|++++|...|++..+.. +.+...+..+..++...
T Consensus        91 a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~  131 (133)
T 2lni_A           91 AAALEAMKDYTKAMDVYQKALDLD-SSCKEAADGYQRCMMAQ  131 (133)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-GGGTHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHh
Confidence            888888888888888888877652 22344555555554433

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.63  E-value=1.5e-06  Score=65.77  Aligned_cols=111  Identities=16%  Similarity=0.175  Sum_probs=71.2

Q ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHH
Q 038401           19 VFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIEL   98 (542)
Q Consensus        19 ~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   98 (542)
                      ...|..+...+.+.|++++|...|+.+.+... .+..++..+...+...|++++|+.+++++.+.. +.+...+..+...
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~   86 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDP-NNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNA   86 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc-CcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHH
Confidence            45666677777777777777777777766532 255667777777777777777777777776653 2355566666677


Q ss_pred             HHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHH
Q 038401           99 ARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMIN  132 (542)
Q Consensus        99 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  132 (542)
                      +...|++++|...++++.+.. +.+...+..+..
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~  119 (125)
T 1na0_A           87 YYKQGDYDEAIEYYQKALELD-PNNAEAKQNLGN  119 (125)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHH
Confidence            777777777777777666542 223344444333

>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=98.63  E-value=6e-07  Score=69.50  Aligned_cols=116  Identities=9%  Similarity=-0.010  Sum_probs=86.8

Q ss_pred             CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHH-HH
Q 038401          397 VKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQV-HF  474 (542)
Q Consensus       397 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~-~~  474 (542)
                      +.+...+..++..+...|++++|+..|+++++..  | +...+..++.++...|++++|...++++++.+  |.+.. .+
T Consensus         6 ~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~   81 (137)
T 3q49_B            6 SPSAQELKEQGNRLFVGRKYPEAAACYGRAITRN--PLVAVYYTNRALCYLKMQQPEQALADCRRALELD--GQSVKAHF   81 (137)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHH
T ss_pred             cccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC--cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--chhHHHHH
Confidence            3567888889999999999999999999998843  4 56788888999999999999999999999876  22233 33


Q ss_pred             HHHHHHhccCChHHHHHHHHHH-hcCCC---CCchhHHHHHHHHHH
Q 038401          475 QMLSLYGARKDFNMLESLFERL-DSDSN---INKKELHHVVAGIYE  516 (542)
Q Consensus       475 ~l~~~~~~~g~~~~A~~~~~~~-~~~~~---~~~~~~~~~l~~~~~  516 (542)
                      .++.++...|++++|+..+++. ...|+   .....+...+..+..
T Consensus        82 ~l~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~l~~~~~  127 (137)
T 3q49_B           82 FLGQCQLEMESYDEAIANLQRAYSLAKEQRLNFGDDIPSALRIAKK  127 (137)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHHHChhHHHHHHHHHHHHHHHHHH
Confidence            3889999999999999999884 32222   113445555554443

>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=98.62  E-value=5.6e-07  Score=81.81  Aligned_cols=131  Identities=11%  Similarity=-0.018  Sum_probs=78.3

Q ss_pred             cHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCC--------------HHhHHHHHHHHhccCCHHHHHHHHHHHHhC
Q 038401           18 SVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPD--------------RYTYSTLITCFGKEGMFDSAISWLQQMEQD   83 (542)
Q Consensus        18 ~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~--------------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~   83 (542)
                      +...+..+...+.+.|++++|+..|+...+......              ..+|..+..++.+.|++++|+..+++.++.
T Consensus       146 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  225 (336)
T 1p5q_A          146 QSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALEL  225 (336)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            345666777777777777777777777776543211              355666666666666666666666666655


Q ss_pred             CCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHH-HHHHHHH
Q 038401           84 RVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEA-RLLIEEM  150 (542)
Q Consensus        84 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a-~~~~~~~  150 (542)
                      .+ .+...+..+..++...|++++|...|++..+.. +.+...+..+..++...|+.+++ ..+++.|
T Consensus       226 ~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~  291 (336)
T 1p5q_A          226 DS-NNEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQRIRRQLAREKKLYANM  291 (336)
T ss_dssp             CT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CC-CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            32 245566666666666666666666666665542 23445555555555556665555 2344444

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.60  E-value=1.2e-06  Score=75.52  Aligned_cols=91  Identities=9%  Similarity=-0.135  Sum_probs=55.5

Q ss_pred             HHHHhCCHHHHHHHHHHHHHcCCCc--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHhccC
Q 038401          374 ILARAGRIEEATWVFRQAFDAGEVK--DISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPD--SHIIALVLNSYGKLR  449 (542)
Q Consensus       374 ~~~~~g~~~~A~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g  449 (542)
                      .+.+.+++++|+..|+...... .|  ....+..+..++...|++++|+..|++.......|.  .........++.+.|
T Consensus       144 l~~~~~r~~dA~~~l~~a~~~~-d~~~~~~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lG  222 (282)
T 4f3v_A          144 VYGAAERWTDVIDQVKSAGKWP-DKFLAGAAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQG  222 (282)
T ss_dssp             HHHHTTCHHHHHHHHTTGGGCS-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHT
T ss_pred             HHHHcCCHHHHHHHHHHhhccC-CcccHHHHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcC
Confidence            3445556666666665443321 11  123556667777777777777777777765332243  235555666777777


Q ss_pred             cHHHHHHHHHHHHHcC
Q 038401          450 EFETADDLYSEMQEEG  465 (542)
Q Consensus       450 ~~~~A~~~~~~~~~~~  465 (542)
                      +.++|...|+++...+
T Consensus       223 r~deA~~~l~~a~a~~  238 (282)
T 4f3v_A          223 NESAAVALLEWLQTTH  238 (282)
T ss_dssp             CHHHHHHHHHHHHHHS
T ss_pred             CHHHHHHHHHHHHhcC
Confidence            7777777777777765

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.60  E-value=1.2e-06  Score=68.80  Aligned_cols=111  Identities=9%  Similarity=0.062  Sum_probs=76.5

Q ss_pred             cCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHH-
Q 038401          398 KDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPD----SHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQV-  472 (542)
Q Consensus       398 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~-  472 (542)
                      .+...+..++..+...|++++|+..|++..+  ..|+    ...+..+..+|...|++++|+..++++.+..  +.+.. 
T Consensus        26 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~--~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~  101 (148)
T 2dba_A           26 SSVEQLRKEGNELFKCGDYGGALAAYTQALG--LDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD--GGDVKA  101 (148)
T ss_dssp             CCHHHHHHHHHHHHTTTCHHHHHHHHHHHHT--SCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT--SCCHHH
T ss_pred             HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH--HcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC--ccCHHH
Confidence            3566777777888888888888888888877  3465    4667777778888888888888888887765  22222 


Q ss_pred             HHHHHHHHhccCChHHHHHHHHHH-hcCCCCCchhHHHHHHHH
Q 038401          473 HFQMLSLYGARKDFNMLESLFERL-DSDSNINKKELHHVVAGI  514 (542)
Q Consensus       473 ~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~~~~l~~~  514 (542)
                      ++.++.++...|++++|...+++. ...|.  ....+..+..+
T Consensus       102 ~~~~a~~~~~~~~~~~A~~~~~~al~~~p~--~~~~~~~l~~~  142 (148)
T 2dba_A          102 LYRRSQALEKLGRLDQAVLDLQRCVSLEPK--NKVFQEALRNI  142 (148)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHCSS--CHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCCC--cHHHHHHHHHH
Confidence            333777888888888888888884 43443  33444444443

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.58  E-value=7.4e-07  Score=67.12  Aligned_cols=93  Identities=13%  Similarity=0.024  Sum_probs=51.4

Q ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhcc
Q 038401          370 TAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKL  448 (542)
Q Consensus       370 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~  448 (542)
                      .....+.+.|++++|+..|+++++.. +.+...|..+..++...|++++|+..|+++++.  .| +...+..++.++...
T Consensus        22 ~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l--~P~~~~~~~~la~~~~~~   98 (121)
T 1hxi_A           22 EEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARML--DPKDIAVHAALAVSHTNE   98 (121)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHc
Confidence            33444555566666666666665542 234555555666666666666666666666552  24 344555555566666


Q ss_pred             CcHHHHHHHHHHHHHcC
Q 038401          449 REFETADDLYSEMQEEG  465 (542)
Q Consensus       449 g~~~~A~~~~~~~~~~~  465 (542)
                      |++++|+..++++++..
T Consensus        99 g~~~~A~~~~~~al~~~  115 (121)
T 1hxi_A           99 HNANAALASLRAWLLSQ  115 (121)
T ss_dssp             HHHHHHHHHHHHHHC--
T ss_pred             CCHHHHHHHHHHHHHhC
Confidence            66666666666655543

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.58  E-value=4.9e-07  Score=72.33  Aligned_cols=135  Identities=13%  Similarity=0.068  Sum_probs=99.0

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCC----HHHHHHHHHHHhccCcHHHHHHHHHHHHHcCC---CCch-
Q 038401          400 ISVFGCMIELFSRNKKYANVIEVFEKMRSAGY-FPD----SHIIALVLNSYGKLREFETADDLYSEMQEEGC---VFSD-  470 (542)
Q Consensus       400 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~---~~~~-  470 (542)
                      ..++..+...+...|++++|+..+++.++... .++    ..++..+...+...|++++|...++++.+...   .++. 
T Consensus         9 ~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~   88 (164)
T 3ro3_A            9 GRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVE   88 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHH
Confidence            45677788888899999999999988875310 012    14677788899999999999999999876421   1111 


Q ss_pred             HHHHH-HHHHHhccCChHHHHHHHHHHhc----CCCC-CchhHHHHHHHHHHhhcchhhHHHHHHHHHhc
Q 038401          471 QVHFQ-MLSLYGARKDFNMLESLFERLDS----DSNI-NKKELHHVVAGIYERANRLNDASRIMNRMNKR  534 (542)
Q Consensus       471 ~~~~~-l~~~~~~~g~~~~A~~~~~~~~~----~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  534 (542)
                      ...+. ++.++...|++++|...+++...    .++. .....+..++.+|...|++++|.+++++..+.
T Consensus        89 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  158 (164)
T 3ro3_A           89 AQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEI  158 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            22333 88899999999999999988421    1111 11366888999999999999999999997653

>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=98.57  E-value=5e-07  Score=85.97  Aligned_cols=127  Identities=15%  Similarity=0.169  Sum_probs=80.7

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC----------------HHHHHHHHHHHhccCcHHHHHHHHHHHHH
Q 038401          400 ISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPD----------------SHIIALVLNSYGKLREFETADDLYSEMQE  463 (542)
Q Consensus       400 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~----------------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  463 (542)
                      ...|..++..+.+.|++++|+..|+++++.  .|+                ...|..+..+|.+.|++++|+..++++++
T Consensus       268 a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~--~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~  345 (457)
T 1kt0_A          268 AAIVKEKGTVYFKGGKYMQAVIQYGKIVSW--LEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALG  345 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHH--hcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHh
Confidence            445666666777777777777777777663  232                36666777777777777777777777777


Q ss_pred             cCCCCchHHHHHHHHHHhccCChHHHHHHHHHH-hcCCCCCchhHHHHHHHHHHhhcchhhHHH-HHHHH
Q 038401          464 EGCVFSDQVHFQMLSLYGARKDFNMLESLFERL-DSDSNINKKELHHVVAGIYERANRLNDASR-IMNRM  531 (542)
Q Consensus       464 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~-~~~~~  531 (542)
                      ..+ .....++.++.+|...|++++|+..|++. ..+|.  +..++..++.++...|++++|.+ .+++|
T Consensus       346 ~~p-~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~--~~~a~~~l~~~~~~~~~~~~a~~~~~~~~  412 (457)
T 1kt0_A          346 LDS-ANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQ--NKAARLQISMCQKKAKEHNERDRRIYANM  412 (457)
T ss_dssp             HST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC------CHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             cCC-ccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC--CHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            651 11222333777777777777777777774 33443  34577777777777777776653 34444

>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=98.57  E-value=9.6e-07  Score=68.35  Aligned_cols=95  Identities=5%  Similarity=-0.053  Sum_probs=62.4

Q ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHh
Q 038401          368 RETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYG  446 (542)
Q Consensus       368 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~  446 (542)
                      +..+...+...|++++|...|+++++.. +.+...|..++.++...|++++|+..++++++.+  | +...+..++.+|.
T Consensus        12 ~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~   88 (137)
T 3q49_B           12 LKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD--GQSVKAHFFLGQCQL   88 (137)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--chhHHHHHHHHHHHH
Confidence            3445556666777777777777776653 3456666667777777777777777777776632  3 4556666667777


Q ss_pred             ccCcHHHHHHHHHHHHHcC
Q 038401          447 KLREFETADDLYSEMQEEG  465 (542)
Q Consensus       447 ~~g~~~~A~~~~~~~~~~~  465 (542)
                      ..|++++|...|+++.+..
T Consensus        89 ~~~~~~~A~~~~~~a~~~~  107 (137)
T 3q49_B           89 EMESYDEAIANLQRAYSLA  107 (137)
T ss_dssp             HTTCHHHHHHHHHHHHHHH
T ss_pred             HHhhHHHHHHHHHHHHHHC
Confidence            7777777777777766653

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* 4gtv_A* 4gts_A* 4ehm_A* 4gtt_A*

Probab=98.56  E-value=0.00012  Score=64.92  Aligned_cols=191  Identities=9%  Similarity=-0.028  Sum_probs=120.7

Q ss_pred             HHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcC--CHHHHHHHHHHhcCCCCCCHH---HHHHHHHHhCC-HHHHHHHH
Q 038401          315 LDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVG--LVAHAKRLLHELRQPNTIPRE---TAITILARAGR-IEEATWVF  388 (542)
Q Consensus       315 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~---~l~~~~~~~g~-~~~A~~~~  388 (542)
                      +++++.+++.+...+ +.+..+|+.-..++.+.+  .+++++.++..+...++..+.   .-..++...|. ++++++.+
T Consensus        90 l~~EL~~~~~~L~~~-PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~dprNy~AW~~R~~vl~~l~~~~~eel~~~  168 (331)
T 3dss_A           90 VKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFT  168 (331)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCcCHHHHHHHH
Confidence            456666666666653 346666666555555655  366777777666654444433   33444555666 57888888


Q ss_pred             HHHHHcCCCcCHHHHHHHHHHHHhc--------------CCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhcc-----
Q 038401          389 RQAFDAGEVKDISVFGCMIELFSRN--------------KKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKL-----  448 (542)
Q Consensus       389 ~~~~~~~~~~~~~~~~~l~~~~~~~--------------g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~-----  448 (542)
                      +++++.. +.|...|+.....+...              +.++++++.+++.+..  .| |...|+.+-..+.+.     
T Consensus       169 ~~~I~~~-p~N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~--~P~d~SaW~Y~r~ll~~~~~~~~  245 (331)
T 3dss_A          169 DSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFT--DPNDQSAWFYHRWLLGAGSGRCE  245 (331)
T ss_dssp             HHHHHHC-SCCHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHSSSCGGG
T ss_pred             HHHHHHC-CCCHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhccCccc
Confidence            8888774 46777787777666654              4578888888888873  35 566676555555444     


Q ss_pred             ------CcHHHHHHHHHHHHHcCCCCchHHHHHHH-----HHHhccCChHHHHHHHHHHh-cCCCCCchhHHHHHHHH
Q 038401          449 ------REFETADDLYSEMQEEGCVFSDQVHFQML-----SLYGARKDFNMLESLFERLD-SDSNINKKELHHVVAGI  514 (542)
Q Consensus       449 ------g~~~~A~~~~~~~~~~~~~~~~~~~~~l~-----~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~~~~l~~~  514 (542)
                            +.++++++.++++.+..   |+..+..+.     ......|..++...++.++. .+|-  ..+.|.-+...
T Consensus       246 ~~~~~~~~l~~el~~~~elle~~---pd~~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~Dp~--r~~~y~d~~~~  318 (331)
T 3dss_A          246 LSVEKSTVLQSELESCKELQELE---PENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPM--RAAYLDDLRSK  318 (331)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHHCGG--GHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHHHHhhC---cccchHHHHHHHHHHhhcccccHHHHHHHHHHHHHhCcc--hhhHHHHHHHH
Confidence                  56789999999999876   554433321     12234677888888888854 4443  34555554443

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.56  E-value=1.4e-06  Score=64.42  Aligned_cols=95  Identities=15%  Similarity=-0.012  Sum_probs=47.3

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHH
Q 038401          401 SVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSL  479 (542)
Q Consensus       401 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~  479 (542)
                      ..+..++..+...|++++|+..|+++.+.. +.+...+..++.++...|++++|...++++.+..+...+...+. ++.+
T Consensus         7 ~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~~   85 (112)
T 2kck_A            7 EEYYLEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKADA   85 (112)
T ss_dssp             TGGGGHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHHHH
Confidence            344445555555555555555555555422 11344455555555555555555555555555431100122222 5555


Q ss_pred             Hhcc-CChHHHHHHHHHH
Q 038401          480 YGAR-KDFNMLESLFERL  496 (542)
Q Consensus       480 ~~~~-g~~~~A~~~~~~~  496 (542)
                      +... |++++|.+.++++
T Consensus        86 ~~~~~~~~~~A~~~~~~~  103 (112)
T 2kck_A           86 LRYIEGKEVEAEIAEARA  103 (112)
T ss_dssp             HTTCSSCSHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHH
Confidence            5555 5566665555553

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.55  E-value=1.4e-06  Score=66.61  Aligned_cols=97  Identities=10%  Similarity=0.061  Sum_probs=71.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCc--hHHHHHH
Q 038401          403 FGCMIELFSRNKKYANVIEVFEKMRSAGYFPDS----HIIALVLNSYGKLREFETADDLYSEMQEEGCVFS--DQVHFQM  476 (542)
Q Consensus       403 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~--~~~~~~l  476 (542)
                      +..++..+...|++++|+..|+++.+..  |+.    ..+..++.++...|++++|...|+++.+..+..+  ....+.+
T Consensus         5 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l   82 (129)
T 2xev_A            5 AYNVAFDALKNGKYDDASQLFLSFLELY--PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKL   82 (129)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC--SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHC--CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHH
Confidence            3456677888899999999999888743  432    4677788888889999999999999888763222  2223338


Q ss_pred             HHHHhccCChHHHHHHHHHH-hcCCC
Q 038401          477 LSLYGARKDFNMLESLFERL-DSDSN  501 (542)
Q Consensus       477 ~~~~~~~g~~~~A~~~~~~~-~~~~~  501 (542)
                      +.++...|++++|+..++++ ...|+
T Consensus        83 a~~~~~~g~~~~A~~~~~~~~~~~p~  108 (129)
T 2xev_A           83 GLSQYGEGKNTEAQQTLQQVATQYPG  108 (129)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHCCC
Confidence            88888899999999998885 44443

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.49  E-value=6.8e-06  Score=77.95  Aligned_cols=191  Identities=11%  Similarity=0.096  Sum_probs=92.2

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCCC----------------HHHHHHHHHHHHHcCCHHHHHHHHHHhcCC--CCC-
Q 038401          306 IAIWGKAGKLDRAAMLFQKLRSSGVEID----------------PVLYQTMIVAYERVGLVAHAKRLLHELRQP--NTI-  366 (542)
Q Consensus       306 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~----------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~-  366 (542)
                      ...+.+.|++++|.+.|..+.+......                ...+..+...|...|++++|.+.+..+...  ... 
T Consensus        11 a~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~   90 (434)
T 4b4t_Q           11 ARRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAK   90 (434)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccc
Confidence            3456678888888888888877532211                123455666666677777776666655421  000 


Q ss_pred             C------HHHHHHHHHHhCCHHHHHHHHHHHHHc----CCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC--CC--
Q 038401          367 P------RETAITILARAGRIEEATWVFRQAFDA----GEVK-DISVFGCMIELFSRNKKYANVIEVFEKMRSA--GY--  431 (542)
Q Consensus       367 ~------~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~--  431 (542)
                      .      ...+...+...|+++.|..+++.....    +..+ ...++..++..|...|++++|..+++++...  +.  
T Consensus        91 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~  170 (434)
T 4b4t_Q           91 SKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDD  170 (434)
T ss_dssp             HHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSC
T ss_pred             hHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhccc
Confidence            0      000111112235555555555555431    1111 1334455555555556666666555555431  11  


Q ss_pred             CCC-HHHHHHHHHHHhccCcHHHHHHHHHHHHHcC---CCCchH--HHHH-HHHHHhccCChHHHHHHHHHH
Q 038401          432 FPD-SHIIALVLNSYGKLREFETADDLYSEMQEEG---CVFSDQ--VHFQ-MLSLYGARKDFNMLESLFERL  496 (542)
Q Consensus       432 ~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~--~~~~-l~~~~~~~g~~~~A~~~~~~~  496 (542)
                      .|. ..++..++..|...|++++|..+++++....   ..++..  ..+. ++..+...|++++|...+...
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a  242 (434)
T 4b4t_Q          171 KPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFES  242 (434)
T ss_dssp             STHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence            111 2345555555555566666655555554321   011111  1111 444455555555555555543

>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=98.48  E-value=9e-06  Score=60.59  Aligned_cols=99  Identities=13%  Similarity=0.020  Sum_probs=70.5

Q ss_pred             cHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHH
Q 038401           18 SVFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIE   97 (542)
Q Consensus        18 ~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   97 (542)
                      .+..+..+...+...|++++|...|+....... .+...+..+...+...|++++|...+++..+..+ .+...+..+..
T Consensus         3 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~   80 (118)
T 1elw_A            3 QVNELKEKGNKALSVGNIDDALQCYSEAIKLDP-HNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKP-DWGKGYSRKAA   80 (118)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCc-ccHHHHHHHHH
Confidence            345666777777778888888888877776542 2566777777777777888888877777776532 25666777777


Q ss_pred             HHHhcCCHHHHHHHHHHhHhC
Q 038401           98 LARKLSDYSKAISIFSRLKSS  118 (542)
Q Consensus        98 ~~~~~~~~~~a~~~~~~~~~~  118 (542)
                      ++...|++++|...+++..+.
T Consensus        81 ~~~~~~~~~~A~~~~~~~~~~  101 (118)
T 1elw_A           81 ALEFLNRFEEAKRTYEEGLKH  101 (118)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHhhHHHHHHHHHHHHHc
Confidence            777777777777777777665

>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=98.47  E-value=1.5e-06  Score=67.38  Aligned_cols=60  Identities=10%  Similarity=-0.030  Sum_probs=29.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC--------H-----HHHHHHHHHHhccCcHHHHHHHHHHHHH
Q 038401          402 VFGCMIELFSRNKKYANVIEVFEKMRSAGYFPD--------S-----HIIALVLNSYGKLREFETADDLYSEMQE  463 (542)
Q Consensus       402 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~--------~-----~~~~~l~~~~~~~g~~~~A~~~~~~~~~  463 (542)
                      .+...+..+.+.|++++|+..|++.++  +.|+        .     ..|.....++.+.|++++|+..++++++
T Consensus        13 ~~~~~G~~l~~~g~~eeAi~~Y~kAL~--l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~   85 (159)
T 2hr2_A           13 LALSDAQRQLVAGEYDEAAANCRRAME--ISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALH   85 (159)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHH--HHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHh--hCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            344455555556666666666666655  2233        1     1444444444444444444444444444

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.47  E-value=4.5e-07  Score=82.43  Aligned_cols=129  Identities=9%  Similarity=0.088  Sum_probs=64.2

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH------------------HHHHHHHHHHhccCcHHHHHHHHHHHHHc
Q 038401          403 FGCMIELFSRNKKYANVIEVFEKMRSAGYFPDS------------------HIIALVLNSYGKLREFETADDLYSEMQEE  464 (542)
Q Consensus       403 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~------------------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  464 (542)
                      +..+...+.+.|++++|+..|+++++  ..|+.                  ..|..+..+|.+.|++++|+..++++++.
T Consensus       182 ~~~~g~~~~~~g~~~~A~~~y~~Al~--~~p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  259 (338)
T 2if4_A          182 RKMDGNSLFKEEKLEEAMQQYEMAIA--YMGDDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKRYDEAIGHCNIVLTE  259 (338)
T ss_dssp             HHHHHHHTCSSSCCHHHHHHHHHHHH--HSCHHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHH--HhccchhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            34444445555555555555555554  22332                  26778888999999999999999999987


Q ss_pred             CCCCchHHHHHHHHHHhccCChHHHHHHHHHH-hcCCCCCchhHHHHHHHHH-HhhcchhhHHHHHHHHHhcCC
Q 038401          465 GCVFSDQVHFQMLSLYGARKDFNMLESLFERL-DSDSNINKKELHHVVAGIY-ERANRLNDASRIMNRMNKRRT  536 (542)
Q Consensus       465 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~~~~l~~~~-~~~g~~~~A~~~~~~~~~~~~  536 (542)
                      .+ .....++.++.+|...|++++|+..|++. ..+|+  +..++..+..+. ...+..+++...|++|.....
T Consensus       260 ~p-~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~--~~~a~~~L~~l~~~~~~~~~~a~~~~~~~l~~~p  330 (338)
T 2if4_A          260 EE-KNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPD--DKAIRRELRALAEQEKALYQKQKEMYKGIFKGKD  330 (338)
T ss_dssp             CT-TCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC----------------------------------------
T ss_pred             CC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC--CHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCC
Confidence            61 12233444899999999999999999995 44444  446677777773 455678888899998876654

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.46  E-value=3.8e-06  Score=65.87  Aligned_cols=101  Identities=14%  Similarity=0.061  Sum_probs=83.3

Q ss_pred             CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCch-HHHHH-HHHHHhccCChHHHHHHHHHH-hcCCCCCchhHHHH
Q 038401          434 DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSD-QVHFQ-MLSLYGARKDFNMLESLFERL-DSDSNINKKELHHV  510 (542)
Q Consensus       434 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~-~~~~~-l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~~~~  510 (542)
                      +...+..++..+...|++++|...|+++.+..+..+. ...+. ++.++...|++++|+..+++. ...|.  ....+..
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~--~~~~~~~  104 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGLDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGG--DVKALYR  104 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSC--CHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCcc--CHHHHHH
Confidence            5678888999999999999999999999987621110 33334 889999999999999999994 44444  4678899


Q ss_pred             HHHHHHhhcchhhHHHHHHHHHhcCC
Q 038401          511 VAGIYERANRLNDASRIMNRMNKRRT  536 (542)
Q Consensus       511 l~~~~~~~g~~~~A~~~~~~~~~~~~  536 (542)
                      ++.+|...|++++|...+++..+...
T Consensus       105 ~a~~~~~~~~~~~A~~~~~~al~~~p  130 (148)
T 2dba_A          105 RSQALEKLGRLDQAVLDLQRCVSLEP  130 (148)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCS
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCC
Confidence            99999999999999999999987654

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.46  E-value=4.4e-07  Score=68.04  Aligned_cols=86  Identities=15%  Similarity=0.165  Sum_probs=52.6

Q ss_pred             hCCHHHHHHHHHHHHHcC--CCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHH
Q 038401          378 AGRIEEATWVFRQAFDAG--EVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETA  454 (542)
Q Consensus       378 ~g~~~~A~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A  454 (542)
                      .|++++|+..|+++++.+  .+.+...+..++.+|...|++++|+..|+++++.  .| +...+..++.++...|++++|
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A   80 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQ--FPNHQALRVFYAMVLYNLGRYEQG   80 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCchHHHHHHHHHHHHcCCHHHH
Confidence            456666667777666643  1234556666666777777777777777777663  24 345666666667777777777


Q ss_pred             HHHHHHHHHcC
Q 038401          455 DDLYSEMQEEG  465 (542)
Q Consensus       455 ~~~~~~~~~~~  465 (542)
                      ...++++++..
T Consensus        81 ~~~~~~al~~~   91 (117)
T 3k9i_A           81 VELLLKIIAET   91 (117)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHhC
Confidence            77777766654

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.46  E-value=4.4e-06  Score=63.70  Aligned_cols=95  Identities=9%  Similarity=0.043  Sum_probs=73.5

Q ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCH---HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC----HHHHHH
Q 038401          368 RETAITILARAGRIEEATWVFRQAFDAGEVKDI---SVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPD----SHIIAL  440 (542)
Q Consensus       368 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~----~~~~~~  440 (542)
                      +......+...|++++|...|+++++..+ .+.   ..+..++.++...|++++|+..|+++.+..  |+    ...+..
T Consensus         5 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~   81 (129)
T 2xev_A            5 AYNVAFDALKNGKYDDASQLFLSFLELYP-NGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY--PTHDKAAGGLLK   81 (129)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCS-SSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTSTTHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHCC-CCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC--CCCcccHHHHHH
Confidence            44556677888888888888888887643 233   567778888888888888888888888743  43    566777


Q ss_pred             HHHHHhccCcHHHHHHHHHHHHHcC
Q 038401          441 VLNSYGKLREFETADDLYSEMQEEG  465 (542)
Q Consensus       441 l~~~~~~~g~~~~A~~~~~~~~~~~  465 (542)
                      ++.++...|++++|...|+++++..
T Consensus        82 la~~~~~~g~~~~A~~~~~~~~~~~  106 (129)
T 2xev_A           82 LGLSQYGEGKNTEAQQTLQQVATQY  106 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            8888888888888888888888876

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.45  E-value=2.5e-07  Score=69.44  Aligned_cols=88  Identities=11%  Similarity=0.043  Sum_probs=64.2

Q ss_pred             hcCCHHHHHHHHHHHHhCCC-CC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHH
Q 038401          412 RNKKYANVIEVFEKMRSAGY-FP-DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNM  488 (542)
Q Consensus       412 ~~g~~~~A~~~~~~~~~~~~-~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~  488 (542)
                      ..|++++|+..|+++++.+. .| +...+..++.+|...|++++|+..++++++..+  .+...+. ++.++...|++++
T Consensus         2 ~~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p--~~~~~~~~l~~~~~~~g~~~~   79 (117)
T 3k9i_A            2 VLGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFP--NHQALRVFYAMVLYNLGRYEQ   79 (117)
T ss_dssp             -----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHHTCHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC--CchHHHHHHHHHHHHcCCHHH
Confidence            46889999999999998431 23 346788888999999999999999999998872  2233333 8899999999999


Q ss_pred             HHHHHHH-HhcCCC
Q 038401          489 LESLFER-LDSDSN  501 (542)
Q Consensus       489 A~~~~~~-~~~~~~  501 (542)
                      |+..+++ +...|+
T Consensus        80 A~~~~~~al~~~p~   93 (117)
T 3k9i_A           80 GVELLLKIIAETSD   93 (117)
T ss_dssp             HHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHhCCC
Confidence            9999998 444444

>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=98.45  E-value=3e-06  Score=70.48  Aligned_cols=121  Identities=13%  Similarity=0.034  Sum_probs=79.9

Q ss_pred             HHHHHHhCCHHHHHHHHHHHHHcCCCcC---------------HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CH
Q 038401          372 ITILARAGRIEEATWVFRQAFDAGEVKD---------------ISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP-DS  435 (542)
Q Consensus       372 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~---------------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~  435 (542)
                      ...+...|++++|+..|+++++......               ...+..+..+|...|++++|+..++++++.  .| +.
T Consensus        45 g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~--~p~~~  122 (198)
T 2fbn_A           45 GNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKI--DKNNV  122 (198)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CcccH
Confidence            3444555556666666666555321111               367888888899999999999999999884  34 56


Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHH-HHHHHH
Q 038401          436 HIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLE-SLFERL  496 (542)
Q Consensus       436 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~-~~~~~~  496 (542)
                      ..+..++.+|...|++++|...|+++++..  |.+..... +..++...|+.+++. ..+.++
T Consensus       123 ~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~  183 (198)
T 2fbn_A          123 KALYKLGVANMYFGFLEEAKENLYKAASLN--PNNLDIRNSYELCVNKLKEARKKDKLTFGGM  183 (198)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHHHHHC---------
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            788888899999999999999999998876  22233333 777777777666665 444443

>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=98.45  E-value=6.8e-07  Score=85.39  Aligned_cols=115  Identities=11%  Similarity=0.020  Sum_probs=59.2

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCCh
Q 038401          409 LFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDF  486 (542)
Q Consensus       409 ~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~  486 (542)
                      .+...|++++|++.|+++++.  .| +...+..++.+|.+.|++++|+..++++++..  +.+...+. ++.+|...|++
T Consensus        15 ~~~~~g~~~~A~~~~~~Al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~--p~~~~~~~~lg~~~~~~g~~   90 (477)
T 1wao_1           15 DYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELD--KKYIKGYYRRAASNMALGKF   90 (477)
T ss_dssp             STTTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC--TTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHhCCHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCH
Confidence            344556666666666666552  23 34555566666666666666666666666654  11222222 56666666666


Q ss_pred             HHHHHHHHH-HhcCCCCCchhHHHHHHHH--HHhhcchhhHHHHHH
Q 038401          487 NMLESLFER-LDSDSNINKKELHHVVAGI--YERANRLNDASRIMN  529 (542)
Q Consensus       487 ~~A~~~~~~-~~~~~~~~~~~~~~~l~~~--~~~~g~~~~A~~~~~  529 (542)
                      ++|.+.+++ +...|+  ....+..++.+  +.+.|++++|++.++
T Consensus        91 ~eA~~~~~~al~~~p~--~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           91 RAALRDYETVVKVKPH--DKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHHHSTT--CTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHHHhCCC--CHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            666666666 333333  22344444444  566666666666665

>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=98.44  E-value=2e-06  Score=82.11  Aligned_cols=117  Identities=15%  Similarity=0.008  Sum_probs=91.4

Q ss_pred             HHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHH
Q 038401          374 ILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFE  452 (542)
Q Consensus       374 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~  452 (542)
                      .+.+.|++++|++.++++++.. +.+...|..++.+|.+.|++++|++.++++++.  .| +...+..++.+|...|+++
T Consensus        15 ~~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~lg~~~~~~g~~~   91 (477)
T 1wao_1           15 DYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIEL--DKKYIKGYYRRAASNMALGKFR   91 (477)
T ss_dssp             STTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--CTTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHH
Confidence            3556799999999999999873 356889999999999999999999999999984  45 5678888999999999999


Q ss_pred             HHHHHHHHHHHcCCCCchHHHHHHHHH--HhccCChHHHHHHHH
Q 038401          453 TADDLYSEMQEEGCVFSDQVHFQMLSL--YGARKDFNMLESLFE  494 (542)
Q Consensus       453 ~A~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~g~~~~A~~~~~  494 (542)
                      +|.+.|+++++..+..+. ....++.+  +.+.|++++|++.++
T Consensus        92 eA~~~~~~al~~~p~~~~-~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           92 AALRDYETVVKVKPHDKD-AKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHHSTTCTT-HHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHHhCCCCHH-HHHHHHHHHHHHHHHHHHHHhcccc
Confidence            999999999997632222 22225555  888899999999998

>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=98.43  E-value=3.4e-06  Score=64.40  Aligned_cols=114  Identities=8%  Similarity=0.083  Sum_probs=71.2

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCC-ch----HHHH
Q 038401          400 ISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVF-SD----QVHF  474 (542)
Q Consensus       400 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~-~~----~~~~  474 (542)
                      ...+..++..+...|++++|+..|+++.+.. +.+...+..++..+...|++++|...++++.+..+.. ++    ...+
T Consensus         4 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   82 (131)
T 1elr_A            4 ALKEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAY   82 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHH
Confidence            3456667777777778888888777777642 2255667777777777788888888887777654110 10    2222


Q ss_pred             H-HHHHHhccCChHHHHHHHHHHhcCCCCCchhHHHHHHHHHH
Q 038401          475 Q-MLSLYGARKDFNMLESLFERLDSDSNINKKELHHVVAGIYE  516 (542)
Q Consensus       475 ~-l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~  516 (542)
                      . ++.++...|++++|.+.+++......  +......+..++.
T Consensus        83 ~~la~~~~~~~~~~~A~~~~~~~~~~~~--~~~~~~~l~~~~~  123 (131)
T 1elr_A           83 ARIGNSYFKEEKYKDAIHFYNKSLAEHR--TPDVLKKCQQAEK  123 (131)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCC--CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhCC--CHHHHHHHHHHHH
Confidence            3 77777788888888888877433222  2344444444443

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.43  E-value=1.9e-06  Score=69.01  Aligned_cols=118  Identities=12%  Similarity=0.098  Sum_probs=88.8

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC--------CC--------CCC-HHHHHHHHHHHhccCcHHHHHHHHHHH
Q 038401          399 DISVFGCMIELFSRNKKYANVIEVFEKMRSA--------GY--------FPD-SHIIALVLNSYGKLREFETADDLYSEM  461 (542)
Q Consensus       399 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--------~~--------~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~  461 (542)
                      ....+...+..+.+.|++++|+..|++.++.        ..        .|. ...|..+..+|.+.|++++|+..++++
T Consensus        10 ~a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~a   89 (162)
T 3rkv_A           10 SVEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEV   89 (162)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence            4667888899999999999999999999873        00        222 367888889999999999999999999


Q ss_pred             HHcCCCCchH-HHHHHHHHHhccCChHHHHHHHHH-HhcCCCCCch-hHHHHHHHHHHhhcc
Q 038401          462 QEEGCVFSDQ-VHFQMLSLYGARKDFNMLESLFER-LDSDSNINKK-ELHHVVAGIYERANR  520 (542)
Q Consensus       462 ~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~-~~~~~~~~~~-~~~~~l~~~~~~~g~  520 (542)
                      ++.+  |.+. .++.++.++...|++++|+..+++ +..+|+  +. .+...+..+....+.
T Consensus        90 l~~~--p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~p~--~~~~~~~~l~~~~~~~~~  147 (162)
T 3rkv_A           90 LKRE--ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNHPA--AASVVAREMKIVTERRAE  147 (162)
T ss_dssp             HHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCGG--GHHHHHHHHHHHHHHHHH
T ss_pred             HhcC--CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcCCC--CHHHHHHHHHHHHHHHHH
Confidence            9986  2233 334499999999999999999999 455554  33 445555555544443

>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=98.42  E-value=1.8e-06  Score=65.99  Aligned_cols=96  Identities=17%  Similarity=0.164  Sum_probs=76.1

Q ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC--CCC----HHHHHHHH
Q 038401          369 ETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGY--FPD----SHIIALVL  442 (542)
Q Consensus       369 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~--~p~----~~~~~~l~  442 (542)
                      ..+...+...|++++|...|+++++.. +.+...+..++.++...|++++|+..++++.+...  .++    ..++..++
T Consensus         8 ~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~la   86 (131)
T 1elr_A            8 KELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIG   86 (131)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHHHH
Confidence            345566777888888888888888764 45678888889999999999999999998876421  122    66788888


Q ss_pred             HHHhccCcHHHHHHHHHHHHHcC
Q 038401          443 NSYGKLREFETADDLYSEMQEEG  465 (542)
Q Consensus       443 ~~~~~~g~~~~A~~~~~~~~~~~  465 (542)
                      .++...|++++|...|+++.+..
T Consensus        87 ~~~~~~~~~~~A~~~~~~~~~~~  109 (131)
T 1elr_A           87 NSYFKEEKYKDAIHFYNKSLAEH  109 (131)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHhccHHHHHHHHHHHHHhC
Confidence            89999999999999999998876

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.42  E-value=3e-06  Score=67.77  Aligned_cols=96  Identities=10%  Similarity=0.051  Sum_probs=81.5

Q ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHc--------C---------CCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 038401          368 RETAITILARAGRIEEATWVFRQAFDA--------G---------EVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAG  430 (542)
Q Consensus       368 ~~~l~~~~~~~g~~~~A~~~~~~~~~~--------~---------~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  430 (542)
                      +......+.+.|++++|+..|+++++.        .         .+.+...|..+..+|.+.|++++|+..++++++. 
T Consensus        14 ~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~~-   92 (162)
T 3rkv_A           14 LRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVLKR-   92 (162)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH-
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhc-
Confidence            344577788999999999999999875        1         1123467888999999999999999999999984 


Q ss_pred             CCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcC
Q 038401          431 YFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEG  465 (542)
Q Consensus       431 ~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  465 (542)
                       .| +...|..++.+|...|++++|...|+++++..
T Consensus        93 -~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~  127 (162)
T 3rkv_A           93 -EETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNH  127 (162)
T ss_dssp             -STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             -CCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcC
Confidence             45 56888899999999999999999999999987

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=98.37  E-value=4.2e-06  Score=76.87  Aligned_cols=122  Identities=11%  Similarity=0.129  Sum_probs=87.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhC--------------CCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCC
Q 038401          402 VFGCMIELFSRNKKYANVIEVFEKMRSA--------------GYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEGC  466 (542)
Q Consensus       402 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~--------------~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  466 (542)
                      .+..+...+.+.|++++|+..|+++++.              ...| +...|..+..+|.+.|++++|+..++++++.. 
T Consensus       225 ~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-  303 (370)
T 1ihg_A          225 DLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID-  303 (370)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhC-
Confidence            3555666677777777777777776651              0123 34677888888889999999999999998876 


Q ss_pred             CCchH-HHHHHHHHHhccCChHHHHHHHHH-HhcCCCCCchhHHHHHHHHHHhhcchhhHHHH
Q 038401          467 VFSDQ-VHFQMLSLYGARKDFNMLESLFER-LDSDSNINKKELHHVVAGIYERANRLNDASRI  527 (542)
Q Consensus       467 ~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  527 (542)
                       +.+. .++.++.+|...|++++|+..+++ +...|.  +..++..+..++...++.+++.+.
T Consensus       304 -p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~--~~~~~~~l~~~~~~~~~~~~a~k~  363 (370)
T 1ihg_A          304 -PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPE--DKAIQAELLKVKQKIKAQKDKEKA  363 (370)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             -chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC--CHHHHHHHHHHHHHHHHHHHHHHH
Confidence             2222 333488889999999999999988 455554  457788888888888888777653

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.36  E-value=2.5e-06  Score=68.10  Aligned_cols=125  Identities=13%  Similarity=0.046  Sum_probs=84.7

Q ss_pred             HHHHHHhCCHHHHHHHHHHHHHcCCC-cC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCC----HHHHHHH
Q 038401          372 ITILARAGRIEEATWVFRQAFDAGEV-KD----ISVFGCMIELFSRNKKYANVIEVFEKMRSAGY-FPD----SHIIALV  441 (542)
Q Consensus       372 ~~~~~~~g~~~~A~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~p~----~~~~~~l  441 (542)
                      ...+...|++++|...++++++.... ++    ..++..+...+...|++++|...+++..+... .++    ...+..+
T Consensus        16 ~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l   95 (164)
T 3ro3_A           16 GNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSL   95 (164)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHH
Confidence            44455556666666666665542111 11    24677788889999999999999998875310 012    3567778


Q ss_pred             HHHHhccCcHHHHHHHHHHHHHcC---CCCch-HHHHH-HHHHHhccCChHHHHHHHHHH
Q 038401          442 LNSYGKLREFETADDLYSEMQEEG---CVFSD-QVHFQ-MLSLYGARKDFNMLESLFERL  496 (542)
Q Consensus       442 ~~~~~~~g~~~~A~~~~~~~~~~~---~~~~~-~~~~~-l~~~~~~~g~~~~A~~~~~~~  496 (542)
                      ...+...|++++|...++++.+..   ..++. ...+. ++.++...|++++|.+.+++.
T Consensus        96 ~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a  155 (164)
T 3ro3_A           96 GNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKH  155 (164)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            888899999999999999887642   11111 12233 788899999999999999884

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=98.35  E-value=1.4e-05  Score=61.56  Aligned_cols=111  Identities=9%  Similarity=-0.012  Sum_probs=64.6

Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHHHHHHHhc----cCChHHH
Q 038401          414 KKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQMLSLYGA----RKDFNML  489 (542)
Q Consensus       414 g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A  489 (542)
                      +++++|+..|++..+.| .|+..    +...|...+.+++|.++|+++.+.+   .....+.++.+|..    .+++++|
T Consensus         9 ~d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A   80 (138)
T 1klx_A            9 KDLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKA   80 (138)
T ss_dssp             HHHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             cCHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHH
Confidence            35566666666666654 23322    5555555566666666666666654   33334445555655    5666666


Q ss_pred             HHHHHHHhcCCCCCchhHHHHHHHHHHh----hcchhhHHHHHHHHHhcC
Q 038401          490 ESLFERLDSDSNINKKELHHVVAGIYER----ANRLNDASRIMNRMNKRR  535 (542)
Q Consensus       490 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~  535 (542)
                      ..++++.....   ...++..|+.+|..    .+++++|..+|++..+.|
T Consensus        81 ~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           81 AQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             HHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            66666644332   23456666666666    566666666666666655

>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=98.35  E-value=0.00089  Score=59.46  Aligned_cols=128  Identities=8%  Similarity=0.070  Sum_probs=61.4

Q ss_pred             HHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCC----------HHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcC--C
Q 038401           37 LAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGM----------FDSAISWLQQMEQDRVSGDLVLYSNLIELARKLS--D  104 (542)
Q Consensus        37 ~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~  104 (542)
                      +|+.+++.++..++. +..+|+.--..+...+.          +++++.+++.+....++ +..+|+.-..++...+  +
T Consensus        48 eaL~~t~~~L~~nP~-~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~PK-ny~aW~hR~wlL~~l~~~~  125 (331)
T 3dss_A           48 SVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLPEPN  125 (331)
T ss_dssp             HHHHHHHHHHTTCTT-CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHCSSCC
T ss_pred             HHHHHHHHHHHHCch-hHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHhccCccc
Confidence            566666666665432 34445543333332222          34555555555554322 4455555444454554  2


Q ss_pred             HHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCc-HHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 038401          105 YSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKL-FKEARLLIEEMREQGVKPDTVSYSTLLNL  168 (542)
Q Consensus       105 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~g~~~~~~~~~~l~~~  168 (542)
                      +++++.+++.+.+.. +.+..+|+.-...+...|. ++++++.++.+++..+ -|...|+.....
T Consensus       126 ~~~EL~~~~k~l~~d-prNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~p-~N~SAW~~R~~l  188 (331)
T 3dss_A          126 WARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNF-SNYSSWHYRSCL  188 (331)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCS-CCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHCC-CCHHHHHHHHHH
Confidence            555555555555543 3344444444444444444 3555555555555432 244444444333

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.34  E-value=4.3e-06  Score=79.24  Aligned_cols=127  Identities=7%  Similarity=0.020  Sum_probs=82.8

Q ss_pred             HHHhcCCHHHHHHHHHHHHhC---CCCC---C-HHHHHHHHHHHhccCcHHHHHHHHHHHHHc-----CCCCchHHH-HH
Q 038401          409 LFSRNKKYANVIEVFEKMRSA---GYFP---D-SHIIALVLNSYGKLREFETADDLYSEMQEE-----GCVFSDQVH-FQ  475 (542)
Q Consensus       409 ~~~~~g~~~~A~~~~~~~~~~---~~~p---~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~~~~~~~~~-~~  475 (542)
                      .+..+|++++|+.++++.++.   -+.|   + ..+++.++.+|...|++++|..+++++++.     |...|+... +.
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            345677788887777777642   1112   2 256777777888888888888888776653     333343332 22


Q ss_pred             -HHHHHhccCChHHHHHHHHHHh----c-CCCCCc--hhHHHHHHHHHHhhcchhhHHHHHHHHHhcC
Q 038401          476 -MLSLYGARKDFNMLESLFERLD----S-DSNINK--KELHHVVAGIYERANRLNDASRIMNRMNKRR  535 (542)
Q Consensus       476 -l~~~~~~~g~~~~A~~~~~~~~----~-~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  535 (542)
                       ++.+|...|++++|..++++..    . -+...|  ......+..++...|++++|..+|+++++.-
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             7788888888888888777731    1 122122  3556677788888888888888888887643

>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=98.34  E-value=6.5e-06  Score=63.77  Aligned_cols=95  Identities=14%  Similarity=0.060  Sum_probs=73.8

Q ss_pred             HHHHHHHhCCHHHHHHHHHHHHHcCCCc------C-----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-----CCCCC
Q 038401          371 AITILARAGRIEEATWVFRQAFDAGEVK------D-----ISVFGCMIELFSRNKKYANVIEVFEKMRSA-----GYFPD  434 (542)
Q Consensus       371 l~~~~~~~g~~~~A~~~~~~~~~~~~~~------~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~~~p~  434 (542)
                      ....+.+.|++++|+..|+++++..+..      +     ...|..+..++...|++++|+..+++.++.     .+.|+
T Consensus        17 ~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd   96 (159)
T 2hr2_A           17 DAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQD   96 (159)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTST
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCc
Confidence            3455667788888888888887753321      2     338999999999999999999999999983     11676


Q ss_pred             H-HHH----HHHHHHHhccCcHHHHHHHHHHHHHcC
Q 038401          435 S-HII----ALVLNSYGKLREFETADDLYSEMQEEG  465 (542)
Q Consensus       435 ~-~~~----~~l~~~~~~~g~~~~A~~~~~~~~~~~  465 (542)
                      . ..|    ...+.++...|++++|+..|+++++..
T Consensus        97 ~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~  132 (159)
T 2hr2_A           97 EGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMI  132 (159)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            4 567    788888899999999999999988764

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.32  E-value=2.6e-05  Score=73.86  Aligned_cols=130  Identities=12%  Similarity=0.067  Sum_probs=59.2

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhC-CCCCCH----HHHHHHHHHHhccCcHHHHHHHHHHHHHc----CCCCchHHH
Q 038401          403 FGCMIELFSRNKKYANVIEVFEKMRSA-GYFPDS----HIIALVLNSYGKLREFETADDLYSEMQEE----GCVFSDQVH  473 (542)
Q Consensus       403 ~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~p~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~~~~~~~  473 (542)
                      +..++..|...|++++|.+.+.++... +..++.    .+.+.+...+...|++++|..+++.....    +........
T Consensus        58 l~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  137 (434)
T 4b4t_Q           58 ILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSL  137 (434)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHH
Confidence            444555555566666666555555431 001111    12222333334455556665555554432    111111112


Q ss_pred             HH-HHHHHhccCChHHHHHHHHHHhc---C--CCCCchhHHHHHHHHHHhhcchhhHHHHHHHHH
Q 038401          474 FQ-MLSLYGARKDFNMLESLFERLDS---D--SNINKKELHHVVAGIYERANRLNDASRIMNRMN  532 (542)
Q Consensus       474 ~~-l~~~~~~~g~~~~A~~~~~~~~~---~--~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  532 (542)
                      .. ++.++...|++++|...++++..   .  ........+..++.+|...|++++|..++++..
T Consensus       138 ~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al  202 (434)
T 4b4t_Q          138 SIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAAR  202 (434)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHH
Confidence            22 55556666666666655555311   0  111112455555666666666666666655543

>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=98.28  E-value=7.9e-06  Score=77.69  Aligned_cols=93  Identities=12%  Similarity=0.149  Sum_probs=70.4

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HH
Q 038401          400 ISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-ML  477 (542)
Q Consensus       400 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~  477 (542)
                      ...|..+..+|.+.|++++|+..++++++.  .| +...|..+..+|...|++++|+..|+++++..  |.+...+. +.
T Consensus       317 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~--P~~~~a~~~l~  392 (457)
T 1kt0_A          317 LAAFLNLAMCYLKLREYTKAVECCDKALGL--DSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN--PQNKAARLQIS  392 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC------CHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC--CCCHHHHHHHH
Confidence            567888888899999999999999999884  34 56788888889999999999999999998876  22222333 77


Q ss_pred             HHHhccCChHHHHH-HHHHH
Q 038401          478 SLYGARKDFNMLES-LFERL  496 (542)
Q Consensus       478 ~~~~~~g~~~~A~~-~~~~~  496 (542)
                      .++.+.|++++|.+ .++++
T Consensus       393 ~~~~~~~~~~~a~~~~~~~~  412 (457)
T 1kt0_A          393 MCQKKAKEHNERDRRIYANM  412 (457)
T ss_dssp             HHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            88888888887763 44443

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.27  E-value=8.6e-07  Score=65.60  Aligned_cols=96  Identities=8%  Similarity=-0.026  Sum_probs=58.4

Q ss_pred             CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHHHHH-hcCCCCCc----hhH
Q 038401          434 DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLFERL-DSDSNINK----KEL  507 (542)
Q Consensus       434 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~----~~~  507 (542)
                      +...+..++..+...|++++|+..|+++++..  |.+...+. ++.++...|++++|++.+++. ...|...+    ...
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~   80 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQ--PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTSTAEHVAIRSKL   80 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSSTTSHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCccHHHHHHHH
Confidence            34556666667777777777777777777665  12222233 667777777777777777773 33333211    345


Q ss_pred             HHHHHHHHHhhcchhhHHHHHHHH
Q 038401          508 HHVVAGIYERANRLNDASRIMNRM  531 (542)
Q Consensus       508 ~~~l~~~~~~~g~~~~A~~~~~~~  531 (542)
                      +..++.++...|++++|+..++++
T Consensus        81 ~~~~~~~~~~~~~~~~a~~~~~~~  104 (111)
T 2l6j_A           81 QYRLELAQGAVGSVQIPVVEVDEL  104 (111)
T ss_dssp             HHHHHHHHHHHHCCCCCSSSSSSC
T ss_pred             HHHHHHHHHHHHhHhhhHhHHHHh
Confidence            666777777777777766655543

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=98.27  E-value=8.1e-06  Score=75.01  Aligned_cols=90  Identities=12%  Similarity=0.056  Sum_probs=72.8

Q ss_pred             cCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-
Q 038401          398 KDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-  475 (542)
Q Consensus       398 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-  475 (542)
                      .+...|..+..+|.+.|++++|+..++++++.  .| +...+..+..+|...|++++|+..|+++.+..  |.+..... 
T Consensus       271 ~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~--P~~~~~~~~  346 (370)
T 1ihg_A          271 VALSCVLNIGACKLKMSDWQGAVDSCLEALEI--DPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA--PEDKAIQAE  346 (370)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh--CchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC--CCCHHHHHH
Confidence            35678889999999999999999999999984  45 56888889999999999999999999999986  22333333 


Q ss_pred             HHHHHhccCChHHHHH
Q 038401          476 MLSLYGARKDFNMLES  491 (542)
Q Consensus       476 l~~~~~~~g~~~~A~~  491 (542)
                      +..++...++.+++.+
T Consensus       347 l~~~~~~~~~~~~a~k  362 (370)
T 1ihg_A          347 LLKVKQKIKAQKDKEK  362 (370)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            7777777777777654

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=98.24  E-value=2.4e-05  Score=76.13  Aligned_cols=137  Identities=12%  Similarity=0.056  Sum_probs=105.8

Q ss_pred             HHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcC--CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccC-cHHHHHHH
Q 038401          381 IEEATWVFRQAFDAGEVKDISVFGCMIELFSRNK--KYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLR-EFETADDL  457 (542)
Q Consensus       381 ~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g-~~~~A~~~  457 (542)
                      ++++++.++++++.. +.+..+|..-..++.+.|  +++++++.++++.+.+. -+...|..-...+.+.| .+++++++
T Consensus        89 ~~~eL~~~~~~l~~~-pK~y~aW~hR~w~l~~l~~~~~~~el~~~~k~l~~d~-~N~~aW~~R~~~l~~l~~~~~~el~~  166 (567)
T 1dce_A           89 VKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADE-RNFHCWDYRRFVAAQAAVAPAEELAF  166 (567)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccccHHHHHHHHHHHHhhcc-ccccHHHHHHHHHHHcCCChHHHHHH
Confidence            788888899988874 468888998888888889  67999999999998542 26788888888888888 89999999


Q ss_pred             HHHHHHcCCCCchHHHHH-HHHHHhcc--------------CChHHHHHHHHH-HhcCCCCCchhHHHHHHHHHHhhcch
Q 038401          458 YSEMQEEGCVFSDQVHFQ-MLSLYGAR--------------KDFNMLESLFER-LDSDSNINKKELHHVVAGIYERANRL  521 (542)
Q Consensus       458 ~~~~~~~~~~~~~~~~~~-l~~~~~~~--------------g~~~~A~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~g~~  521 (542)
                      ++++++.+  +.+...+. .+.++...              +.+++|++.+++ +..+|+  +..+|+.+..++...|++
T Consensus       167 ~~~~I~~~--p~n~saW~~r~~ll~~l~~~~~~~~~~~~~~~~~~eel~~~~~ai~~~P~--~~saW~y~~~ll~~~~~~  242 (567)
T 1dce_A          167 TDSLITRN--FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPN--DQSAWFYHRWLLGRAEPH  242 (567)
T ss_dssp             HHTTTTTT--CCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHHHHHHHHHHHHHHHHCSS--CSHHHHHHHHHHSCCCCC
T ss_pred             HHHHHHHC--CCCccHHHHHHHHHHhhcccccccccccccHHHHHHHHHHHHHHHhhCCC--CccHHHHHHHHHhcCCCc
Confidence            99999877  33344333 44444432              567899999988 566766  557899999999888876


Q ss_pred             hh
Q 038401          522 ND  523 (542)
Q Consensus       522 ~~  523 (542)
                      ++
T Consensus       243 ~~  244 (567)
T 1dce_A          243 DV  244 (567)
T ss_dssp             SC
T ss_pred             cc
Confidence            55

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=98.13  E-value=0.00013  Score=70.90  Aligned_cols=151  Identities=9%  Similarity=0.009  Sum_probs=122.1

Q ss_pred             CCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCC----------HHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhc
Q 038401          379 GRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKK----------YANVIEVFEKMRSAGYFP-DSHIIALVLNSYGK  447 (542)
Q Consensus       379 g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~----------~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~  447 (542)
                      ...++|++.++++++.. +.+..+|+.-..++...|+          ++++++.++++.+.  .| +..+|..-..++.+
T Consensus        43 ~~~eeal~~~~~~l~~n-P~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~--~pK~y~aW~hR~w~l~~  119 (567)
T 1dce_A           43 ELDESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRV--NPKSYGTWHHRCWLLSR  119 (567)
T ss_dssp             CCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHT
T ss_pred             CCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHH
Confidence            34467899999999874 3567889888888888777          99999999999984  35 67889988888999


Q ss_pred             cC--cHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccC-ChHHHHHHHHHH-hcCCCCCchhHHHHHHHHHHhh----
Q 038401          448 LR--EFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARK-DFNMLESLFERL-DSDSNINKKELHHVVAGIYERA----  518 (542)
Q Consensus       448 ~g--~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g-~~~~A~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~----  518 (542)
                      .|  ++++++..++++.+.+  +.+...|. ...++.+.| .++++.+.++++ ..+|.  +..+|...+.++...    
T Consensus       120 l~~~~~~~el~~~~k~l~~d--~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~--n~saW~~r~~ll~~l~~~~  195 (567)
T 1dce_A          120 LPEPNWARELELCARFLEAD--ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS--NYSSWHYRSCLLPQLHPQP  195 (567)
T ss_dssp             CSSCCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCC--CHHHHHHHHHHHHHHSCCC
T ss_pred             cccccHHHHHHHHHHHHhhc--cccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCC--CccHHHHHHHHHHhhcccc
Confidence            99  7799999999999987  23344444 778888888 899999999994 44444  678999999998874    


Q ss_pred             ----------cchhhHHHHHHHHHhcCC
Q 038401          519 ----------NRLNDASRIMNRMNKRRT  536 (542)
Q Consensus       519 ----------g~~~~A~~~~~~~~~~~~  536 (542)
                                +.+++|+++++++....+
T Consensus       196 ~~~~~~~~~~~~~~eel~~~~~ai~~~P  223 (567)
T 1dce_A          196 DSGPQGRLPENVLLKELELVQNAFFTDP  223 (567)
T ss_dssp             CSSSCCSSCHHHHHHHHHHHHHHHHHCS
T ss_pred             cccccccccHHHHHHHHHHHHHHHhhCC
Confidence                      678999999999887653

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.10  E-value=2.2e-05  Score=74.39  Aligned_cols=123  Identities=9%  Similarity=0.067  Sum_probs=93.1

Q ss_pred             HHHhCCHHHHHHHHHHHHHcC-------CCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-----C-CCCCH-HHHHH
Q 038401          375 LARAGRIEEATWVFRQAFDAG-------EVKDISVFGCMIELFSRNKKYANVIEVFEKMRSA-----G-YFPDS-HIIAL  440 (542)
Q Consensus       375 ~~~~g~~~~A~~~~~~~~~~~-------~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~-~~p~~-~~~~~  440 (542)
                      +...|++++|+.+++++++..       .+....+++.|+.+|...|++++|+.+++++++.     | -.|+. .+++.
T Consensus       319 ~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~n  398 (490)
T 3n71_A          319 ARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMR  398 (490)
T ss_dssp             HHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHH
T ss_pred             HHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            456788888888888877531       1113567899999999999999999999998752     3 22333 67889


Q ss_pred             HHHHHhccCcHHHHHHHHHHHHHc-----CCCCchHHHHH--HHHHHhccCChHHHHHHHHHHh
Q 038401          441 VLNSYGKLREFETADDLYSEMQEE-----GCVFSDQVHFQ--MLSLYGARKDFNMLESLFERLD  497 (542)
Q Consensus       441 l~~~~~~~g~~~~A~~~~~~~~~~-----~~~~~~~~~~~--l~~~~~~~g~~~~A~~~~~~~~  497 (542)
                      ++..|...|++++|+.+++++++.     |...|......  +..++...|.+++|..++.++.
T Consensus       399 La~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~  462 (490)
T 3n71_A          399 AGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMR  462 (490)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999998763     53344433332  6678888999999999998864

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=98.09  E-value=9e-05  Score=57.00  Aligned_cols=111  Identities=11%  Similarity=0.031  Sum_probs=85.0

Q ss_pred             CCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhc----cCcHHHH
Q 038401          379 GRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGK----LREFETA  454 (542)
Q Consensus       379 g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A  454 (542)
                      +++++|.+.|+++.+.+. ++..    +...|...+.+++|++.|++..+.|   +...+..+...|..    .+++++|
T Consensus         9 ~d~~~A~~~~~~aa~~g~-~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A   80 (138)
T 1klx_A            9 KDLKKAIQYYVKACELNE-MFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKA   80 (138)
T ss_dssp             HHHHHHHHHHHHHHHTTC-TTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             cCHHHHHHHHHHHHcCCC-Hhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHH
Confidence            467888888888888763 3333    6777777788888999999888864   56677777878877    7889999


Q ss_pred             HHHHHHHHHcCCCCchHHHHHHHHHHhc----cCChHHHHHHHHHHhcCC
Q 038401          455 DDLYSEMQEEGCVFSDQVHFQMLSLYGA----RKDFNMLESLFERLDSDS  500 (542)
Q Consensus       455 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~  500 (542)
                      .++|+++.+.+   .....+.++.+|..    .+++++|..++++....+
T Consensus        81 ~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           81 AQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             HHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            99999998876   34445558888887    889999999999865443

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=98.09  E-value=1.8e-05  Score=61.08  Aligned_cols=87  Identities=14%  Similarity=0.182  Sum_probs=70.5

Q ss_pred             HHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCH----------HHHHHHHHHHHhCCCCC-CHHHHHHHHHH
Q 038401          376 ARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKY----------ANVIEVFEKMRSAGYFP-DSHIIALVLNS  444 (542)
Q Consensus       376 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~----------~~A~~~~~~~~~~~~~p-~~~~~~~l~~~  444 (542)
                      .+.+.+++|++.++++++.. +.+...|..+..++...+++          ++|+..|+++++  +.| +...|..++.+
T Consensus        13 ~r~~~feeA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~--ldP~~~~A~~~LG~a   89 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALL--IDPKKDEAVWCIGNA   89 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHH--hCcCcHHHHHHHHHH
Confidence            45677889999999998874 46788888888888887765          589999999988  556 45788888888


Q ss_pred             HhccC-----------cHHHHHHHHHHHHHcC
Q 038401          445 YGKLR-----------EFETADDLYSEMQEEG  465 (542)
Q Consensus       445 ~~~~g-----------~~~~A~~~~~~~~~~~  465 (542)
                      |...|           ++++|++.|+++++.+
T Consensus        90 y~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l~  121 (158)
T 1zu2_A           90 YTSFAFLTPDETEAKHNFDLATQFFQQAVDEQ  121 (158)
T ss_dssp             HHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHhcccCcchhhhhccHHHHHHHHHHHHHhC
Confidence            88764           7889999999998876

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.08  E-value=3.4e-06  Score=62.33  Aligned_cols=97  Identities=10%  Similarity=0.082  Sum_probs=72.4

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCch----H-H
Q 038401          399 DISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSD----Q-V  472 (542)
Q Consensus       399 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~----~-~  472 (542)
                      +...+..++..+...|++++|++.|+++++.  .| +...+..++.++...|++++|+..++++++..+..++    . .
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~   80 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITA--QPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTSTAEHVAIRSKL   80 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSSTTSHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCccHHHHHHHH
Confidence            4567778888888999999999999998874  34 5678888888999999999999999999887622111    2 2


Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHh
Q 038401          473 HFQMLSLYGARKDFNMLESLFERLD  497 (542)
Q Consensus       473 ~~~l~~~~~~~g~~~~A~~~~~~~~  497 (542)
                      .+.++.++...|++++|+..+++++
T Consensus        81 ~~~~~~~~~~~~~~~~a~~~~~~~~  105 (111)
T 2l6j_A           81 QYRLELAQGAVGSVQIPVVEVDELP  105 (111)
T ss_dssp             HHHHHHHHHHHHCCCCCSSSSSSCS
T ss_pred             HHHHHHHHHHHHhHhhhHhHHHHhH
Confidence            2336777777787777776666543

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.06  E-value=1.6e-05  Score=59.14  Aligned_cols=78  Identities=6%  Similarity=0.017  Sum_probs=41.9

Q ss_pred             HHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHH
Q 038401          384 ATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQ  462 (542)
Q Consensus       384 A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  462 (542)
                      |++.|+++++.. +.+...+..++.++...|++++|+..|+++++.  .| +...|..++.+|...|++++|...|++++
T Consensus         4 a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A            4 ITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDF--DPTYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             HHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            455555555542 234555555555555556666666666555552  23 33455555555555555555555555555


Q ss_pred             Hc
Q 038401          463 EE  464 (542)
Q Consensus       463 ~~  464 (542)
                      +.
T Consensus        81 ~~   82 (115)
T 2kat_A           81 AA   82 (115)
T ss_dssp             HH
T ss_pred             Hh
Confidence            43

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.05  E-value=2.3e-05  Score=71.11  Aligned_cols=96  Identities=11%  Similarity=0.006  Sum_probs=79.5

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHH------------------HHH-HHHHHhccCChHHHHHHHHH-
Q 038401          436 HIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQV------------------HFQ-MLSLYGARKDFNMLESLFER-  495 (542)
Q Consensus       436 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~------------------~~~-l~~~~~~~g~~~~A~~~~~~-  495 (542)
                      ..+..+...+.+.|++++|...|+++++..   |+..                  .+. ++.+|.+.|++++|+..+++ 
T Consensus       180 ~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~---p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~~~~A~~~~~~a  256 (338)
T 2if4_A          180 DRRKMDGNSLFKEEKLEEAMQQYEMAIAYM---GDDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKRYDEAIGHCNIV  256 (338)
T ss_dssp             HHHHHHHHHTCSSSCCHHHHHHHHHHHHHS---CHHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHh---ccchhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            456678889999999999999999999876   4432                  334 89999999999999999999 


Q ss_pred             HhcCCCCCchhHHHHHHHHHHhhcchhhHHHHHHHHHhcCC
Q 038401          496 LDSDSNINKKELHHVVAGIYERANRLNDASRIMNRMNKRRT  536 (542)
Q Consensus       496 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  536 (542)
                      +..+|.  +..+|+.++.+|...|++++|+..|+++.+...
T Consensus       257 l~~~p~--~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p  295 (338)
T 2if4_A          257 LTEEEK--NPKALFRRGKAKAELGQMDSARDDFRKAQKYAP  295 (338)
T ss_dssp             HHHCTT--CHHHHHHHHHHHHTTTCHHHHHHHHHHTTC---
T ss_pred             HHhCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCC
Confidence            455554  568899999999999999999999999877553

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=98.03  E-value=1.1e-05  Score=62.38  Aligned_cols=82  Identities=15%  Similarity=0.176  Sum_probs=45.8

Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcH----------HHHHHHHHHHHHcCCCCchHHHHHHHHH
Q 038401          411 SRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREF----------ETADDLYSEMQEEGCVFSDQVHFQMLSL  479 (542)
Q Consensus       411 ~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~----------~~A~~~~~~~~~~~~~~~~~~~~~l~~~  479 (542)
                      .+.+.+++|++.+++.++.  .| +...|..+..++...+++          ++|+..|+++++.++. ....++.++.+
T Consensus        13 ~r~~~feeA~~~~~~Ai~l--~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~-~~~A~~~LG~a   89 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKS--NPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPK-KDEAVWCIGNA   89 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcC-cHHHHHHHHHH
Confidence            3456667777777777663  34 456666666666666553          3666666666665511 11223335555


Q ss_pred             HhccC-----------ChHHHHHHHHH
Q 038401          480 YGARK-----------DFNMLESLFER  495 (542)
Q Consensus       480 ~~~~g-----------~~~~A~~~~~~  495 (542)
                      |...|           ++++|++.|++
T Consensus        90 y~~lg~l~P~~~~a~g~~~eA~~~~~k  116 (158)
T 1zu2_A           90 YTSFAFLTPDETEAKHNFDLATQFFQQ  116 (158)
T ss_dssp             HHHHHHHCCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHhcccCcchhhhhccHHHHHHHHHH
Confidence            55543           55666665555

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.98  E-value=3.2e-05  Score=57.39  Aligned_cols=101  Identities=10%  Similarity=0.024  Sum_probs=68.6

Q ss_pred             HHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHHHHHHHhccCChHHHHHHHHH
Q 038401          417 ANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQMLSLYGARKDFNMLESLFER  495 (542)
Q Consensus       417 ~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  495 (542)
                      ++|+..|+++++.  .| +...+..++..|...|++++|+..|+++++..+. ....++.++.++...|++++|+..+++
T Consensus         2 ~~a~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~   78 (115)
T 2kat_A            2 QAITERLEAMLAQ--GTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPT-YSVAWKWLGKTLQGQGDRAGARQAWES   78 (115)
T ss_dssp             CCHHHHHHHHHTT--TCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            3577788888774  34 5677888888888999999999999998887621 122333388888899999999988888


Q ss_pred             H-hcCCCCCchhHHHHHHHHHHhhcc
Q 038401          496 L-DSDSNINKKELHHVVAGIYERANR  520 (542)
Q Consensus       496 ~-~~~~~~~~~~~~~~l~~~~~~~g~  520 (542)
                      . ...|..........+...+.+.|+
T Consensus        79 al~~~~~~~~~~~~~~l~~~l~~l~~  104 (115)
T 2kat_A           79 GLAAAQSRGDQQVVKELQVFLRRLAR  104 (115)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHH
T ss_pred             HHHhccccccHHHHHHHHHHHHHhcc
Confidence            4 333322233444455555555444

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.96  E-value=7.1e-05  Score=52.57  Aligned_cols=80  Identities=14%  Similarity=0.224  Sum_probs=40.0

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHHHHHHHhccCChHHHHHHHHHH-hcCCCCCchhHHHHHHHH
Q 038401          436 HIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQMLSLYGARKDFNMLESLFERL-DSDSNINKKELHHVVAGI  514 (542)
Q Consensus       436 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~~~~l~~~  514 (542)
                      ..+..+...+...|++++|...++++++..+. .....+.++.++...|++++|...+++. ...|.  ....+..++.+
T Consensus        10 ~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~--~~~~~~~l~~~   86 (91)
T 1na3_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELDPN-NAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPN--NAEAKQNLGNA   86 (91)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT--CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC--CHHHHHHHHHH
Confidence            34445555555556666666666665554411 1112222555666666666666666652 33333  33455555555


Q ss_pred             HHhh
Q 038401          515 YERA  518 (542)
Q Consensus       515 ~~~~  518 (542)
                      +...
T Consensus        87 ~~~~   90 (91)
T 1na3_A           87 KQKQ   90 (91)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            5443

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.92  E-value=2.6e-05  Score=56.16  Aligned_cols=65  Identities=15%  Similarity=0.139  Sum_probs=46.7

Q ss_pred             cCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHc
Q 038401          398 KDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEE  464 (542)
Q Consensus       398 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  464 (542)
                      .++..+..++.+|...|++++|+..|+++++.  .| +...|..++.+|...|++++|+..|+++++.
T Consensus         5 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l   70 (100)
T 3ma5_A            5 EDPFTRYALAQEHLKHDNASRALALFEELVET--DPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEV   70 (100)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            45666777777777777777777777777763  24 3466777777777777777777777777764

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.85  E-value=0.00013  Score=51.20  Aligned_cols=82  Identities=13%  Similarity=0.136  Sum_probs=59.7

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HH
Q 038401          399 DISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-ML  477 (542)
Q Consensus       399 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~  477 (542)
                      +...+..+...+...|++++|+..|++.++.. +.+...+..+..++...|++++|...++++.+..+  .+...+. ++
T Consensus         8 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p--~~~~~~~~l~   84 (91)
T 1na3_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDP--NNAEAKQNLG   84 (91)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT--TCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC--CCHHHHHHHH
Confidence            45677778888888899999999999888743 22567788888888889999999999999888762  2222233 66


Q ss_pred             HHHhcc
Q 038401          478 SLYGAR  483 (542)
Q Consensus       478 ~~~~~~  483 (542)
                      .++...
T Consensus        85 ~~~~~~   90 (91)
T 1na3_A           85 NAKQKQ   90 (91)
T ss_dssp             HHHHHH
T ss_pred             HHHHhc
Confidence            655443

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.78  E-value=8.1e-05  Score=53.49  Aligned_cols=62  Identities=13%  Similarity=0.054  Sum_probs=49.5

Q ss_pred             CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHHHHHHHhccCChHHHHHHHHHH
Q 038401          434 DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQMLSLYGARKDFNMLESLFERL  496 (542)
Q Consensus       434 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  496 (542)
                      +...+..++.+|...|++++|+..|+++++.++.. ...++.++.+|...|++++|++.+++.
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~-~~a~~~lg~~~~~~g~~~~A~~~~~~a   67 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETDPDY-VGTYYHLGKLYERLDRTDDAIDTYAQG   67 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTC-THHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCc-HHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            56778888889999999999999999999887221 223334889999999999999999884

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=97.47  E-value=0.00074  Score=62.87  Aligned_cols=84  Identities=11%  Similarity=0.101  Sum_probs=41.0

Q ss_pred             hcCCHHHHHHHHHHHHhC---CCCCC----HHHHHHHHHHHhccCcHHHHHHHHHHHHHc-----CCCCchHHH-HH-HH
Q 038401          412 RNKKYANVIEVFEKMRSA---GYFPD----SHIIALVLNSYGKLREFETADDLYSEMQEE-----GCVFSDQVH-FQ-ML  477 (542)
Q Consensus       412 ~~g~~~~A~~~~~~~~~~---~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~~~~~~~~~-~~-l~  477 (542)
                      ..|++++|+.++++.++.   -+.|+    ..+++.++.+|...|++++|+.+++++++.     |...|+... +. ++
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            345566666666655431   11121    144555556666666666666666655432     222232222 11 55


Q ss_pred             HHHhccCChHHHHHHHHH
Q 038401          478 SLYGARKDFNMLESLFER  495 (542)
Q Consensus       478 ~~~~~~g~~~~A~~~~~~  495 (542)
                      .+|...|++++|..++++
T Consensus       390 ~~~~~qg~~~eA~~~~~~  407 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKK  407 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHH
Confidence            555555555555555555

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.44  E-value=0.00028  Score=50.43  Aligned_cols=56  Identities=20%  Similarity=0.275  Sum_probs=25.5

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCC-CHH-HHHHHHHHHhccCcHHHHHHHHHHHHHcC
Q 038401          408 ELFSRNKKYANVIEVFEKMRSAGYFP-DSH-IIALVLNSYGKLREFETADDLYSEMQEEG  465 (542)
Q Consensus       408 ~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  465 (542)
                      ..+...|++++|+..|+++++.  .| +.. .+..++.+|...|++++|...|+++++.+
T Consensus         8 ~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~   65 (99)
T 2kc7_A            8 KELINQGDIENALQALEEFLQT--EPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELN   65 (99)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHH--CSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHcCCHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            3344445555555555544442  23 223 44444444444455555555555444443

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.43  E-value=0.00066  Score=51.78  Aligned_cols=85  Identities=11%  Similarity=0.080  Sum_probs=61.2

Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccC---cHHHHHHHHHHHHHcCCCCc---hHHHHHHHHHHhccCChH
Q 038401          414 KKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLR---EFETADDLYSEMQEEGCVFS---DQVHFQMLSLYGARKDFN  487 (542)
Q Consensus       414 g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~  487 (542)
                      .....+.+-|.+..+.|. ++..+...+..++.+.+   +.++++.+++...+..  .|   ....|.++-++.+.|+++
T Consensus        12 ~~l~~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~--~p~~~rd~lY~LAv~~~kl~~Y~   88 (152)
T 1pc2_A           12 EDLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG--SKEEQRDYVFYLAVGNYRLKEYE   88 (152)
T ss_dssp             HHHHHHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS--CHHHHHHHHHHHHHHHHHTSCHH
T ss_pred             HHHHHHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC--CccchHHHHHHHHHHHHHccCHH
Confidence            345566677777766554 67777777888888877   6678888888888865  23   233444888888899999


Q ss_pred             HHHHHHHH-HhcCCC
Q 038401          488 MLESLFER-LDSDSN  501 (542)
Q Consensus       488 ~A~~~~~~-~~~~~~  501 (542)
                      +|.+.+++ +..+|+
T Consensus        89 ~A~~y~~~lL~ieP~  103 (152)
T 1pc2_A           89 KALKYVRGLLQTEPQ  103 (152)
T ss_dssp             HHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHhcCCC
Confidence            99999988 455665

>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=97.41  E-value=0.002  Score=57.42  Aligned_cols=59  Identities=7%  Similarity=-0.084  Sum_probs=29.3

Q ss_pred             CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHHHH
Q 038401          434 DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLFER  495 (542)
Q Consensus       434 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~  495 (542)
                      +..++..+...+...|++++|...+++++..+   |+...+. ++.++.-.|++++|.+.+++
T Consensus       276 ~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln---~s~~a~~llG~~~~~~G~~~eA~e~~~~  335 (372)
T 3ly7_A          276 LSIIYQIKAVSALVKGKTDESYQAINTGIDLE---MSWLNYVLLGKVYEMKGMNREAADAYLT  335 (372)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC---CCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC---CCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            34444444444444455555555555555554   2222222 45555555555555555555

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.37  E-value=0.0011  Score=46.49  Aligned_cols=62  Identities=8%  Similarity=-0.129  Sum_probs=42.0

Q ss_pred             CCHHHHHHHHHHHhccCc---HHHHHHHHHHHHHcCCCCchHH--HHHHHHHHhccCChHHHHHHHHHHh
Q 038401          433 PDSHIIALVLNSYGKLRE---FETADDLYSEMQEEGCVFSDQV--HFQMLSLYGARKDFNMLESLFERLD  497 (542)
Q Consensus       433 p~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~g~~~~A~~~~~~~~  497 (542)
                      +|...+..+..++...++   .++|...++++++.+   |+..  .+.++..+.+.|++++|+..++++.
T Consensus         4 ~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~d---p~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l   70 (93)
T 3bee_A            4 VTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLE---PYNEAALSLIANDHFISFRFQEAIDTWVLLL   70 (93)
T ss_dssp             CCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHC---cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            456667777776654433   678888888888876   3332  2227777888888888888888854

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=97.31  E-value=0.00066  Score=63.24  Aligned_cols=87  Identities=6%  Similarity=-0.053  Sum_probs=68.5

Q ss_pred             hCCHHHHHHHHHHHHHcC---CCc----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-----C-CCCCH-HHHHHHHH
Q 038401          378 AGRIEEATWVFRQAFDAG---EVK----DISVFGCMIELFSRNKKYANVIEVFEKMRSA-----G-YFPDS-HIIALVLN  443 (542)
Q Consensus       378 ~g~~~~A~~~~~~~~~~~---~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~-~~p~~-~~~~~l~~  443 (542)
                      .|++++|+.+++++++..   ..|    -..+++.++.+|...|++++|+.+++++++-     | -.|+. .+++.++.
T Consensus       311 ~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~  390 (433)
T 3qww_A          311 YKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGR  390 (433)
T ss_dssp             TSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHH
Confidence            477888888888876521   111    2567899999999999999999999998752     3 23333 67899999


Q ss_pred             HHhccCcHHHHHHHHHHHHHc
Q 038401          444 SYGKLREFETADDLYSEMQEE  464 (542)
Q Consensus       444 ~~~~~g~~~~A~~~~~~~~~~  464 (542)
                      .|..+|++++|+.+++++++.
T Consensus       391 ~~~~qg~~~eA~~~~~~Al~i  411 (433)
T 3qww_A          391 LYMGLENKAAGEKALKKAIAI  411 (433)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhccCHHHHHHHHHHHHHH
Confidence            999999999999999998863

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=97.31  E-value=0.0023  Score=59.76  Aligned_cols=91  Identities=12%  Similarity=-0.018  Sum_probs=59.9

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhC---CCCCC----HHHHHHHHHHHhccCcHHHHHHHHHHHHHc-----CCCCchHHH
Q 038401          406 MIELFSRNKKYANVIEVFEKMRSA---GYFPD----SHIIALVLNSYGKLREFETADDLYSEMQEE-----GCVFSDQVH  473 (542)
Q Consensus       406 l~~~~~~~g~~~~A~~~~~~~~~~---~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~~~~~~~~~  473 (542)
                      .+..+...|++++|+.++++.++.   -+.|+    ..+++.++.+|...|++++|+.+++++++.     |...|+...
T Consensus       293 ~ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~  372 (429)
T 3qwp_A          293 KIEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGV  372 (429)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHH
T ss_pred             HHHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHH
Confidence            344556678888888888887753   12222    256777777888888888888888877653     333343322


Q ss_pred             -HH-HHHHHhccCChHHHHHHHHHH
Q 038401          474 -FQ-MLSLYGARKDFNMLESLFERL  496 (542)
Q Consensus       474 -~~-l~~~~~~~g~~~~A~~~~~~~  496 (542)
                       +. ++.+|...|++++|..++++.
T Consensus       373 ~l~nLa~~~~~~g~~~eA~~~~~~A  397 (429)
T 3qwp_A          373 QVMKVGKLQLHQGMFPQAMKNLRLA  397 (429)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHH
Confidence             22 777777788888888777774

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.27  E-value=0.00058  Score=48.71  Aligned_cols=83  Identities=14%  Similarity=0.180  Sum_probs=63.4

Q ss_pred             HHHHHHHhCCHHHHHHHHHHHHHcCCCcCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHhcc
Q 038401          371 AITILARAGRIEEATWVFRQAFDAGEVKDIS-VFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDS-HIIALVLNSYGKL  448 (542)
Q Consensus       371 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~  448 (542)
                      ....+...|++++|+..++++++.. +.+.. .+..++.++...|++++|+..|+++++.  .|+. ..+..        
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~--------   74 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTE-PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIEL--NPDSPALQAR--------   74 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTSTHHHHH--------
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCcHHHHHH--------
Confidence            4556778899999999999999874 35677 8999999999999999999999999984  4543 33311        


Q ss_pred             CcHHHHHHHHHHHHHc
Q 038401          449 REFETADDLYSEMQEE  464 (542)
Q Consensus       449 g~~~~A~~~~~~~~~~  464 (542)
                      +.+.++...|++....
T Consensus        75 ~~~~~a~~~~~~~~~~   90 (99)
T 2kc7_A           75 KMVMDILNFYNKDMYN   90 (99)
T ss_dssp             HHHHHHHHHHCCTTHH
T ss_pred             HHHHHHHHHHHHHhcc
Confidence            5666777777665543

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.27  E-value=0.0025  Score=44.54  Aligned_cols=67  Identities=13%  Similarity=0.099  Sum_probs=54.5

Q ss_pred             CcCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcC
Q 038401          397 VKDISVFGCMIELFSRNKK---YANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEG  465 (542)
Q Consensus       397 ~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  465 (542)
                      +.++..+..+..++...++   .++|..++++.++  ..| +...+..++..+.+.|++++|+..|+++++..
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~--~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~   73 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQ--LEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSN   73 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCC
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHH--HCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            4677888888888765554   7899999999988  446 55777888888999999999999999999876

>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=97.23  E-value=0.017  Score=51.52  Aligned_cols=154  Identities=9%  Similarity=-0.043  Sum_probs=97.4

Q ss_pred             CCCHHHHHHHHHHHH--hcC---CHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHH
Q 038401          296 EPNAITYSTIIAIWG--KAG---KLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRET  370 (542)
Q Consensus       296 ~p~~~~~~~l~~~~~--~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  370 (542)
                      +.+...|...+++..  ..+   +..+|..+|+++++.. |-....+..+..+|..          ..... +.  ....
T Consensus       191 p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~lD-P~~a~A~A~la~a~~~----------~~~~~-~~--~~~~  256 (372)
T 3ly7_A          191 PHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQSS-PEFTYARAEKALVDIV----------RHSQH-PL--DEKQ  256 (372)
T ss_dssp             CSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH----------HHHHS-CC--CHHH
T ss_pred             CCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH----------HhccC-CC--chhh
Confidence            556677777776543  233   3578888888888873 2234555555444430          00000 00  0000


Q ss_pred             HHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCc
Q 038401          371 AITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLRE  450 (542)
Q Consensus       371 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  450 (542)
                      . .      ....+.+... .... .+.++.++..+...+...|++++|+..+++++..+  |+...|..+...+...|+
T Consensus       257 ~-~------~l~~a~~a~~-a~~~-~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~  325 (372)
T 3ly7_A          257 L-A------ALNTEIDNIV-TLPE-LNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGM  325 (372)
T ss_dssp             H-H------HHHHHHHHHH-TCGG-GTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTC
T ss_pred             H-H------HHHHHHHHHH-hccc-CCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCC
Confidence            0 0      0111222111 1122 24678888888888888899999999999999954  888888888899999999


Q ss_pred             HHHHHHHHHHHHHcCCCCchHHHHHHH
Q 038401          451 FETADDLYSEMQEEGCVFSDQVHFQML  477 (542)
Q Consensus       451 ~~~A~~~~~~~~~~~~~~~~~~~~~l~  477 (542)
                      +++|...|+++.+.+   |...++.+.
T Consensus       326 ~~eA~e~~~~AlrL~---P~~~t~~~~  349 (372)
T 3ly7_A          326 NREAADAYLTAFNLR---PGANTLYWI  349 (372)
T ss_dssp             HHHHHHHHHHHHHHS---CSHHHHHHH
T ss_pred             HHHHHHHHHHHHhcC---CCcChHHHH
Confidence            999999999999987   444455443

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.19  E-value=0.0048  Score=47.07  Aligned_cols=84  Identities=15%  Similarity=0.102  Sum_probs=59.7

Q ss_pred             CHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHhccCcHHHH
Q 038401          380 RIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNK---KYANVIEVFEKMRSAGYFP--DSHIIALVLNSYGKLREFETA  454 (542)
Q Consensus       380 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~~~p--~~~~~~~l~~~~~~~g~~~~A  454 (542)
                      ....+.+.|.+..+.+. ++..+...+..++++.+   +.++++.+++...+.+ .|  +...+-.+.-+|.+.|++++|
T Consensus        13 ~l~~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A   90 (152)
T 1pc2_A           13 DLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKA   90 (152)
T ss_dssp             HHHHHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHH
T ss_pred             HHHHHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHH
Confidence            45566666776666554 67777777788888877   5668888888887743 24  235555666777888888888


Q ss_pred             HHHHHHHHHcC
Q 038401          455 DDLYSEMQEEG  465 (542)
Q Consensus       455 ~~~~~~~~~~~  465 (542)
                      +++++.+++..
T Consensus        91 ~~y~~~lL~ie  101 (152)
T 1pc2_A           91 LKYVRGLLQTE  101 (152)
T ss_dssp             HHHHHHHHHHC
T ss_pred             HHHHHHHHhcC
Confidence            88888888865

>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=97.18  E-value=0.0021  Score=59.93  Aligned_cols=91  Identities=9%  Similarity=-0.037  Sum_probs=70.7

Q ss_pred             HHHHhCCHHHHHHHHHHHHHcC---CCc----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-----C-CCCCH-HHHH
Q 038401          374 ILARAGRIEEATWVFRQAFDAG---EVK----DISVFGCMIELFSRNKKYANVIEVFEKMRSA-----G-YFPDS-HIIA  439 (542)
Q Consensus       374 ~~~~~g~~~~A~~~~~~~~~~~---~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~-~~p~~-~~~~  439 (542)
                      -+.+.|++++|+..++++++..   ..+    ...+++.++.+|...|++++|+.++++++.-     | ..|+. .+++
T Consensus       296 ~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l~  375 (429)
T 3qwp_A          296 ELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQVM  375 (429)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHH
T ss_pred             HHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHHH
Confidence            3556788888888888887532   111    2567889999999999999999999988752     2 22333 6788


Q ss_pred             HHHHHHhccCcHHHHHHHHHHHHHc
Q 038401          440 LVLNSYGKLREFETADDLYSEMQEE  464 (542)
Q Consensus       440 ~l~~~~~~~g~~~~A~~~~~~~~~~  464 (542)
                      .++..|...|++++|+.+++++++.
T Consensus       376 nLa~~~~~~g~~~eA~~~~~~Al~i  400 (429)
T 3qwp_A          376 KVGKLQLHQGMFPQAMKNLRLAFDI  400 (429)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHH
Confidence            9999999999999999999998763

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=97.06  E-value=0.12  Score=44.21  Aligned_cols=108  Identities=7%  Similarity=0.072  Sum_probs=72.4

Q ss_pred             HHHHHHHHHHHHhCCCCCC---HHHHHHHHHHHhc-----cCcHHHHHHHHHHHHHcCCCCchHHHHHHHHHHhc-cCCh
Q 038401          416 YANVIEVFEKMRSAGYFPD---SHIIALVLNSYGK-----LREFETADDLYSEMQEEGCVFSDQVHFQMLSLYGA-RKDF  486 (542)
Q Consensus       416 ~~~A~~~~~~~~~~~~~p~---~~~~~~l~~~~~~-----~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~g~~  486 (542)
                      ...|...++++++  +.|+   ...|..++..|.+     -|+.++|.+.|+++++.++-..-...+.++..++. .|+.
T Consensus       179 l~~A~a~lerAle--LDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~  256 (301)
T 3u64_A          179 VHAAVMMLERACD--LWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNR  256 (301)
T ss_dssp             HHHHHHHHHHHHH--HCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCH
T ss_pred             HHHHHHHHHHHHH--hCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCH
Confidence            5677888888888  5687   4678888888887     49999999999999998721112233337888887 5999


Q ss_pred             HHHHHHHHHHhcCCCC-CchhHHHHHHHHHHhhcchhhHHHHHHHHH
Q 038401          487 NMLESLFERLDSDSNI-NKKELHHVVAGIYERANRLNDASRIMNRMN  532 (542)
Q Consensus       487 ~~A~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  532 (542)
                      ++|.+.+++....+.. .|.   ..+    ...++-++|..+++++.
T Consensus       257 ~~a~~~L~kAL~a~p~~~P~---~~l----an~~~q~eA~~LL~~~~  296 (301)
T 3u64_A          257 AGFDEALDRALAIDPESVPH---NKL----LVILSQKRARWLKAHVQ  296 (301)
T ss_dssp             HHHHHHHHHHHHCCGGGCSS---CHH----HHHHHHHHHHHHHHTHH
T ss_pred             HHHHHHHHHHHcCCCCCCCC---hhH----HHHHHHHHHHHHHHHhH
Confidence            9999999995433322 121   122    23344566666666543

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=96.94  E-value=0.011  Score=43.32  Aligned_cols=89  Identities=11%  Similarity=0.066  Sum_probs=49.4

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHH---HHHHHHHHHHcCCCCc-h--HHHHHHHHHHhcc
Q 038401          410 FSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFET---ADDLYSEMQEEGCVFS-D--QVHFQMLSLYGAR  483 (542)
Q Consensus       410 ~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~---A~~~~~~~~~~~~~~~-~--~~~~~l~~~~~~~  483 (542)
                      -........+.+-|.+....|. |+..+--.+.+++.+.....+   ++.+++.+.+.+  .| .  .-.|.++-++.+.
T Consensus        11 ~~~~~~l~~~~~~y~~e~~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~--~p~~~Rd~lY~LAvg~ykl   87 (126)
T 1nzn_A           11 LVSVEDLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG--SKEEQRDYVFYLAVGNYRL   87 (126)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS--CHHHHHHHHHHHHHHHHHT
T ss_pred             cCCHHHHHHHHHHHHHHhccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC--CcchHHHHHHHHHHHHHHh
Confidence            3334444555555555544333 555555556666666655444   666666666643  12 1  1222366667777


Q ss_pred             CChHHHHHHHHH-HhcCCC
Q 038401          484 KDFNMLESLFER-LDSDSN  501 (542)
Q Consensus       484 g~~~~A~~~~~~-~~~~~~  501 (542)
                      |++++|.+.++. +..+|+
T Consensus        88 g~Y~~A~~~~~~lL~~eP~  106 (126)
T 1nzn_A           88 KEYEKALKYVRGLLQTEPQ  106 (126)
T ss_dssp             TCHHHHHHHHHHHHHHCTT
T ss_pred             hhHHHHHHHHHHHHHhCCC
Confidence            777777777777 344554

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.91  E-value=0.086  Score=54.23  Aligned_cols=76  Identities=9%  Similarity=0.115  Sum_probs=46.1

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHH
Q 038401          338 QTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYA  417 (542)
Q Consensus       338 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  417 (542)
                      ..++..+.+.|..+.|.++.+.        ...-.......|+++.|.++.+.+      .+...|..+...+.+.|+++
T Consensus       633 ~~~~~~l~~~~~~~~a~~~~~~--------~~~~f~~~l~~~~~~~A~~~~~~~------~~~~~W~~la~~al~~~~~~  698 (814)
T 3mkq_A          633 TKIARFLEGQEYYEEALNISPD--------QDQKFELALKVGQLTLARDLLTDE------SAEMKWRALGDASLQRFNFK  698 (814)
T ss_dssp             HHHHHHHHHTTCHHHHHHHCCC--------HHHHHHHHHHHTCHHHHHHHHTTC------CCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHhCCChHHheecCCC--------cchheehhhhcCCHHHHHHHHHhh------CcHhHHHHHHHHHHHcCCHH
Confidence            4455555556666666554321        112234445667777776664332      45677777888888888888


Q ss_pred             HHHHHHHHHH
Q 038401          418 NVIEVFEKMR  427 (542)
Q Consensus       418 ~A~~~~~~~~  427 (542)
                      .|++.|.++.
T Consensus       699 ~A~~~y~~~~  708 (814)
T 3mkq_A          699 LAIEAFTNAH  708 (814)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHcc
Confidence            8888777764

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.88  E-value=0.092  Score=54.00  Aligned_cols=164  Identities=12%  Similarity=0.109  Sum_probs=95.5

Q ss_pred             HHCCChHHHHH-HHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHH
Q 038401          170 VENHKFVEALS-VFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEA  248 (542)
Q Consensus       170 ~~~g~~~~a~~-~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a  248 (542)
                      ...+++++|.+ ++..+      ++......++..+.+.|..+.|.++.+.       |.     .-.......|+++.|
T Consensus       610 ~~~~~~~~a~~~~l~~i------~~~~~~~~~~~~l~~~~~~~~a~~~~~~-------~~-----~~f~~~l~~~~~~~A  671 (814)
T 3mkq_A          610 TLRGEIEEAIENVLPNV------EGKDSLTKIARFLEGQEYYEEALNISPD-------QD-----QKFELALKVGQLTLA  671 (814)
T ss_dssp             HHTTCHHHHHHHTGGGC------CCHHHHHHHHHHHHHTTCHHHHHHHCCC-------HH-----HHHHHHHHHTCHHHH
T ss_pred             HHhCCHHHHHHHHHhcC------CchHHHHHHHHHHHhCCChHHheecCCC-------cc-----hheehhhhcCCHHHH
Confidence            45677777655 44211      1022225566666677777777655421       11     112334567888888


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 038401          249 IHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSS  328 (542)
Q Consensus       249 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  328 (542)
                      .++.+.+      .+...|..+...+.+.++++.|.+.|.++.+         |..+...+...|+.+...++.+.....
T Consensus       672 ~~~~~~~------~~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a~~~  736 (814)
T 3mkq_A          672 RDLLTDE------SAEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDAETT  736 (814)
T ss_dssp             HHHHTTC------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHhh------CcHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHHHHc
Confidence            7775433      3567788888888888888888888877642         333444455566766666655555544


Q ss_pred             CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCHHHHHHHHHH
Q 038401          329 GVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFRQ  390 (542)
Q Consensus       329 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  390 (542)
                      |.      ++....+|.+.|++++|.+++.+                  .+++++|..+-+.
T Consensus       737 ~~------~~~A~~~~~~~g~~~~a~~~~~~------------------~~~~~~A~~lA~~  774 (814)
T 3mkq_A          737 GK------FNLAFNAYWIAGDIQGAKDLLIK------------------SQRFSEAAFLGST  774 (814)
T ss_dssp             TC------HHHHHHHHHHHTCHHHHHHHHHH------------------TTCHHHHHHHHHH
T ss_pred             Cc------hHHHHHHHHHcCCHHHHHHHHHH------------------cCChHHHHHHHHH
Confidence            31      23334445666777777665544                  4566666665554

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.86  E-value=0.0046  Score=44.46  Aligned_cols=69  Identities=6%  Similarity=-0.070  Sum_probs=51.8

Q ss_pred             CCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCC-----CCchHHHHH-HHHHHhccCChHHHHHHHHHH-hcCCC
Q 038401          433 PDSHIIALVLNSYGKLREFETADDLYSEMQEEGC-----VFSDQVHFQ-MLSLYGARKDFNMLESLFERL-DSDSN  501 (542)
Q Consensus       433 p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-----~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~~-~~~~~  501 (542)
                      .+..-+..++..+.+.|+++.|..+|+.+.+...     ..+....+. ++.++.+.|++++|..++++. ...|.
T Consensus         3 Lsa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~P~   78 (104)
T 2v5f_A            3 LTAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPE   78 (104)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             CCHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCC
Confidence            3555666788899999999999999999887521     122333334 889999999999999999994 45665

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.65  E-value=0.034  Score=43.62  Aligned_cols=132  Identities=12%  Similarity=0.014  Sum_probs=95.0

Q ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccC
Q 038401          370 TAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLR  449 (542)
Q Consensus       370 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g  449 (542)
                      .-.......|+++.|.++.+.+      .+...|..|.+.....|+++-|++.|.+..+         +..+.-.|.-.|
T Consensus        10 ~rF~LAL~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg   74 (177)
T 3mkq_B           10 IRFDLALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTG   74 (177)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHT
T ss_pred             HHHHHHHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhC
Confidence            3456678899999999998765      5788999999999999999999999988754         233444556678


Q ss_pred             cHHHHHHHHHHHHHcCCCCchHHHHHHHHHHhccCChHHHHHHHHHHhcCCCCCchhHHHHHHHHHHhhcchhhHHHHHH
Q 038401          450 EFETADDLYSEMQEEGCVFSDQVHFQMLSLYGARKDFNMLESLFERLDSDSNINKKELHHVVAGIYERANRLNDASRIMN  529 (542)
Q Consensus       450 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  529 (542)
                      +.+.-.+.-+.+...+   ....   ...++.-.|+++++++++.+...     .+.++ .+++   ..|..+.|.++.+
T Consensus        75 ~~e~L~kla~iA~~~g---~~n~---af~~~l~lGdv~~~i~lL~~~~r-----~~eA~-~~A~---t~g~~~~a~~~~~  139 (177)
T 3mkq_B           75 DVNKLSKMQNIAQTRE---DFGS---MLLNTFYNNSTKERSSIFAEGGS-----LPLAY-AVAK---ANGDEAAASAFLE  139 (177)
T ss_dssp             CHHHHHHHHHHHHHTT---CHHH---HHHHHHHHTCHHHHHHHHHHTTC-----HHHHH-HHHH---HTTCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHCc---cHHH---HHHHHHHcCCHHHHHHHHHHCCC-----hHHHH-HHHH---HcCcHHHHHHHHH
Confidence            8877777666666655   2222   33456678999999999987543     12334 2223   3567788888887


Q ss_pred             HH
Q 038401          530 RM  531 (542)
Q Consensus       530 ~~  531 (542)
                      ++
T Consensus       140 ~~  141 (177)
T 3mkq_B          140 QA  141 (177)
T ss_dssp             HT
T ss_pred             Hh
Confidence            74

>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=96.62  E-value=0.0094  Score=50.89  Aligned_cols=87  Identities=11%  Similarity=0.059  Sum_probs=69.1

Q ss_pred             cHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhc-----cCChHHHHHHHHH-HhcCCCCCchhHHHHHHHHHHhh-cch
Q 038401          450 EFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGA-----RKDFNMLESLFER-LDSDSNINKKELHHVVAGIYERA-NRL  521 (542)
Q Consensus       450 ~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~-----~g~~~~A~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~-g~~  521 (542)
                      ...+|...++++++.++...+...+. ++..|..     -|+.++|.++|++ +...|+. ....+...++.+++. |++
T Consensus       178 ~l~~A~a~lerAleLDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~-~id~~v~YA~~l~~~~gd~  256 (301)
T 3u64_A          178 TVHAAVMMLERACDLWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAH-DPDHHITYADALCIPLNNR  256 (301)
T ss_dssp             HHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTT-CSHHHHHHHHHTTTTTTCH
T ss_pred             hHHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCC-CchHHHHHHHHHHHhcCCH
Confidence            46789999999999872222344455 8888888     4999999999999 6667653 246777888988885 999


Q ss_pred             hhHHHHHHHHHhcCCC
Q 038401          522 NDASRIMNRMNKRRTF  537 (542)
Q Consensus       522 ~~A~~~~~~~~~~~~~  537 (542)
                      ++|.++++++....++
T Consensus       257 ~~a~~~L~kAL~a~p~  272 (301)
T 3u64_A          257 AGFDEALDRALAIDPE  272 (301)
T ss_dssp             HHHHHHHHHHHHCCGG
T ss_pred             HHHHHHHHHHHcCCCC
Confidence            9999999999998877

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=96.52  E-value=2.8e-06  Score=76.95  Aligned_cols=245  Identities=13%  Similarity=0.175  Sum_probs=153.8

Q ss_pred             CHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHH
Q 038401           53 DRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMIN  132 (542)
Q Consensus        53 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  132 (542)
                      .+..|..+..+....+++.+|++.|-+.      -|+..|..++.+..+.|.+++...++...++.  ..++..=+.|+-
T Consensus        53 ~p~VWs~LgkAqL~~~~v~eAIdsyIkA------~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~--~ke~~IDteLi~  124 (624)
T 3lvg_A           53 EPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKK--ARESYVETELIF  124 (624)
T ss_dssp             CCCCSSSHHHHTTTSSSCTTTTTSSCCC------SCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTT--CCSTTTTHHHHH
T ss_pred             CccHHHHHHHHHHccCchHHHHHHHHhC------CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHH--hcccccHHHHHH
Confidence            4557888888888888888877665332      25667888888888999999988888877765  334455567888


Q ss_pred             HHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhc--------------------CCCC
Q 038401          133 VFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEV--------------------NCPL  192 (542)
Q Consensus       133 ~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~--------------------~~~~  192 (542)
                      +|++.++..+.++++    .   .|+......+.+-|...|.++.|.-+|..+...                    .-..
T Consensus       125 ayAk~~rL~elEefl----~---~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAn  197 (624)
T 3lvg_A          125 ALAKTNRLAELEEFI----N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKAN  197 (624)
T ss_dssp             HHHTSCSSSTTTSTT----S---CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCC
T ss_pred             HHHhhCcHHHHHHHH----c---CCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            898888765433322    1   255555566677777777777776666554321                    0124


Q ss_pred             ChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHH
Q 038401          193 DLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIK  272 (542)
Q Consensus       193 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  272 (542)
                      ++.||..+-.+|...+++.-|.-.--.+.-.   +|  -...++..|-..|.+++.+.+++.-.... ......|+.|.-
T Consensus       198 s~ktWKeV~~ACvd~~EfrLAqicGLniIvh---ad--eL~elv~~YE~~G~f~ELIsLlEaglglE-rAHmGmFTELaI  271 (624)
T 3lvg_A          198 STRTWKEVCFACVDGKEFRLAQMCGLHIVVH---AD--ELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAI  271 (624)
T ss_dssp             SSCSHHHHTHHHHHSCTTTTTTHHHHHHHCC---SS--CCSGGGSSSSTTCCCTTSTTTHHHHTTST-TCCHHHHHHHHH
T ss_pred             ChhHHHHHHHHHhCchHHHHHHHhcchhccc---HH--HHHHHHHHHHhCCCHHHHHHHHHHHhCCC-chhHHHHHHHHH
Confidence            6677888888888777776665443333321   11  13345566777888888888887766432 456778888888


Q ss_pred             HHHccCCHHHHHHHHHHHHHc-CCCC------CHHHHHHHHHHHHhcCCHHHHH
Q 038401          273 IYGKSLEHEKATNLMQEMQNR-GIEP------NAITYSTIIAIWGKAGKLDRAA  319 (542)
Q Consensus       273 ~~~~~~~~~~a~~~~~~~~~~-~~~p------~~~~~~~l~~~~~~~~~~~~a~  319 (542)
                      .|++- ++++..+.++..-.+ +++-      ....|.-++-.|.+-.+++.|.
T Consensus       272 LYsKY-~PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~  324 (624)
T 3lvg_A          272 LYSKF-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAI  324 (624)
T ss_dssp             HHHSS-CTTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHH
T ss_pred             HHHhc-CHHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHH
Confidence            88775 445544444332221 1110      1234555555555555555544

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=96.44  E-value=0.047  Score=39.97  Aligned_cols=61  Identities=11%  Similarity=0.030  Sum_probs=25.7

Q ss_pred             HHHHHHHHhccCChHH---HHHHHHHHhcCCCC-CchhHHHHHHHHHHhhcchhhHHHHHHHHHh
Q 038401          473 HFQMLSLYGARKDFNM---LESLFERLDSDSNI-NKKELHHVVAGIYERANRLNDASRIMNRMNK  533 (542)
Q Consensus       473 ~~~l~~~~~~~g~~~~---A~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  533 (542)
                      .+.+++++.++.+...   ++.+++.+.....+ ...+..+.++-.+++.|+|++|+++++.+.+
T Consensus        38 ~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A~~~~~~lL~  102 (126)
T 1nzn_A           38 QFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQ  102 (126)
T ss_dssp             HHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            3334444444444333   44444443322111 1223444444444455555555555444444

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.44  E-value=0.038  Score=39.53  Aligned_cols=67  Identities=6%  Similarity=-0.045  Sum_probs=49.1

Q ss_pred             CcHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCC------CCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhC
Q 038401           17 PSVFAYNVVLRNVLRAKQWELAHGLFDEMRQRG------IAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQD   83 (542)
Q Consensus        17 ~~~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~   83 (542)
                      .+...+-.+...+.+.|++..|...|+...+.-      ..+...++..+..++.+.|+++.|+..++++.+.
T Consensus         3 Lsa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l   75 (104)
T 2v5f_A            3 LTAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (104)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            456667778888888888888888888776531      1234567777777888888888888888877765

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=96.42  E-value=0.0083  Score=45.00  Aligned_cols=98  Identities=13%  Similarity=0.179  Sum_probs=57.5

Q ss_pred             CcCHHHHHHHHHHHHhcCCH------HHHHHHHHHHHhCCCCCCH----HHHHHHH--HH-HhccCcHHHHHHHHHHHHH
Q 038401          397 VKDISVFGCMIELFSRNKKY------ANVIEVFEKMRSAGYFPDS----HIIALVL--NS-YGKLREFETADDLYSEMQE  463 (542)
Q Consensus       397 ~~~~~~~~~l~~~~~~~g~~------~~A~~~~~~~~~~~~~p~~----~~~~~l~--~~-~~~~g~~~~A~~~~~~~~~  463 (542)
                      +.|+.+|-..+...-+.|++      ++.+++|+++... ++|+.    ..|..+-  .+ +...++.++|+++|+.++.
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            45677777777777777777      7777777777763 44532    1122111  11 1234667777777777766


Q ss_pred             cCCCCchHHHHHHHHHHhccCChHHHHHHHHHH
Q 038401          464 EGCVFSDQVHFQMLSLYGARKDFNMLESLFERL  496 (542)
Q Consensus       464 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  496 (542)
                      .+-.- ..++...+..-.+.|+.+.|.+++.+.
T Consensus        89 ~hKkF-AKiwi~~AqFEiRqgnl~kARkILg~A  120 (161)
T 4h7y_A           89 NCKKF-AFVHISFAQFELSQGNVKKSKQLLQKA  120 (161)
T ss_dssp             HCTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HhHHH-HHHHHHHHHHHHHcccHHHHHHHHHHH
Confidence            43111 222222566666777777777777774

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.37  E-value=0.26  Score=38.68  Aligned_cols=99  Identities=17%  Similarity=0.165  Sum_probs=59.3

Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCHHHHHHHHH
Q 038401          310 GKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFR  389 (542)
Q Consensus       310 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  389 (542)
                      ...|+++.|.++.+.+      .+...|..|.......|+++-|.+.|....     .+..+.-.|...|+.+.-..+-+
T Consensus        16 L~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~-----D~~~L~~Ly~~tg~~e~L~kla~   84 (177)
T 3mkq_B           16 LEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQH-----SFDKLSFLYLVTGDVNKLSKMQN   84 (177)
T ss_dssp             HHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTT-----CHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhC-----CHHHHHHHHHHhCCHHHHHHHHH
Confidence            3567777777776654      256677777777777777777777777654     34445555555666655555555


Q ss_pred             HHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 038401          390 QAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEK  425 (542)
Q Consensus       390 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  425 (542)
                      .+...|.      ++....++...|++++++++|.+
T Consensus        85 iA~~~g~------~n~af~~~l~lGdv~~~i~lL~~  114 (177)
T 3mkq_B           85 IAQTRED------FGSMLLNTFYNNSTKERSSIFAE  114 (177)
T ss_dssp             HHHHTTC------HHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHCcc------HHHHHHHHHHcCCHHHHHHHHHH
Confidence            4444332      33344445556666666666543

>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=96.22  E-value=1  Score=43.99  Aligned_cols=78  Identities=6%  Similarity=-0.065  Sum_probs=36.8

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHHH
Q 038401          416 YANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLFE  494 (542)
Q Consensus       416 ~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~  494 (542)
                      ..++...+.......  ++.......+....+.|+++.|...|+.+....  ........ ++.++...|+.++|..+++
T Consensus       268 ~~~~~~~~~~~~~~~--~~~~~~e~~~r~Alr~~d~~~a~~~~~~l~~~~--~~~~r~~YW~~ra~~~~g~~~~a~~~~~  343 (618)
T 1qsa_A          268 TDEQAKWRDDAIMRS--QSTSLIERRVRMALGTGDRRGLNTWLARLPMEA--KEKDEWRYWQADLLLERGREAEAKEILH  343 (618)
T ss_dssp             CHHHHHHHHHHHHTC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHSCTTG--GGSHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             ChHHHHHHHhccccC--CChHHHHHHHHHHHHCCCHHHHHHHHHHccccc--cccHhHHHHHHHHHHHcCCHHHHHHHHH
Confidence            334444444443321  333223333333344566666666666554421  11122222 5556666666666666666


Q ss_pred             HHh
Q 038401          495 RLD  497 (542)
Q Consensus       495 ~~~  497 (542)
                      ++.
T Consensus       344 ~~a  346 (618)
T 1qsa_A          344 QLM  346 (618)
T ss_dssp             HHH
T ss_pred             HHh
Confidence            654

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=96.15  E-value=0.035  Score=42.71  Aligned_cols=131  Identities=11%  Similarity=0.129  Sum_probs=64.4

Q ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHcC-CCcC-------HHHHHHHHHHHHhcCCHHHHHHHHHHHHhC--CCCCCHHHHH
Q 038401          370 TAITILARAGRIEEATWVFRQAFDAG-EVKD-------ISVFGCMIELFSRNKKYANVIEVFEKMRSA--GYFPDSHIIA  439 (542)
Q Consensus       370 ~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~-------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~p~~~~~~  439 (542)
                      .-+..+...|.++.|+-+...++... ..|+       ..++..+++++...|++..|...|++.++.  .+.-+..+..
T Consensus        25 dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~~s~~~  104 (167)
T 3ffl_A           25 DHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKTSKVRP  104 (167)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC--------
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcCCCccc
Confidence            33555666677777766666644321 1111       124455666666777777777777766532  1111111111


Q ss_pred             HHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHHHHHHHhccCChHHHHHHHHHHhcCCCCCchhHHHHHHHHH
Q 038401          440 LVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQMLSLYGARKDFNMLESLFERLDSDSNINKKELHHVVAGIY  515 (542)
Q Consensus       440 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~  515 (542)
                      .+..    ......         ..........-|.++.+|...|++++|+..++.++...-  ...+...|+++|
T Consensus       105 ~~~~----~ss~p~---------s~~~~~e~Elkykia~C~~~l~~~~~Ai~~Le~Ip~k~R--t~kvnm~LakLy  165 (167)
T 3ffl_A          105 STGN----SASTPQ---------SQCLPSEIEVKYKLAECYTVLKQDKDAIAILDGIPSRQR--TPKINMLLANLY  165 (167)
T ss_dssp             -------------------------CCCCHHHHHHHHHHHHHHTTCHHHHHHHHHTSCGGGC--CHHHHHHHHHHC
T ss_pred             cccc----cCCCcc---------cccccchHHHHHHHHHHHHHHCCHHHHHHHHhcCCchhc--CHHHHHHHHHHh
Confidence            1100    000000         001111223344488888888888888888888754322  335666666655

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=95.66  E-value=1.9e-05  Score=71.61  Aligned_cols=244  Identities=12%  Similarity=0.141  Sum_probs=123.5

Q ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHH
Q 038401           19 VFAYNVVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIEL   98 (542)
Q Consensus        19 ~~~~~~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   98 (542)
                      +..|..|..+..+.+...+|++-|-   +.   -|+..|..+|....+.|.+++-++++.-..+.  ..++..=+.|+-+
T Consensus        54 p~VWs~LgkAqL~~~~v~eAIdsyI---kA---~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~--~ke~~IDteLi~a  125 (624)
T 3lvg_A           54 PAVWSQLAKAQLQKGMVKEAIDSYI---KA---DDPSSYMEVVQAANTSGNWEELVKYLQMARKK--ARESYVETELIFA  125 (624)
T ss_dssp             CCCSSSHHHHTTTSSSCTTTTTSSC---CC---SCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTT--CCSTTTTHHHHHH
T ss_pred             ccHHHHHHHHHHccCchHHHHHHHH---hC---CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHH--hcccccHHHHHHH
Confidence            3457777777777777666665442   11   15556777777777777777777766655544  2234444566777


Q ss_pred             HHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHc--------------------CCCCC
Q 038401           99 ARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQ--------------------GVKPD  158 (542)
Q Consensus        99 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--------------------g~~~~  158 (542)
                      |++.++..+..+.    +.   .|+..-...+.+-|...|.++.|.-+|..+..-                    .-..+
T Consensus       126 yAk~~rL~elEef----l~---~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns  198 (624)
T 3lvg_A          126 LAKTNRLAELEEF----IN---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANS  198 (624)
T ss_dssp             HHTSCSSSTTTST----TS---CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCS
T ss_pred             HHhhCcHHHHHHH----Hc---CCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence            7777665432221    11   233333333444444444444443333322110                    01235


Q ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHH
Q 038401          159 TVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRV  238 (542)
Q Consensus       159 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~  238 (542)
                      +.||..+-.+|...+.+.-|...--.+.-     ...-...++..|-..|.+++.+.+++...... ......|+-|.-.
T Consensus       199 ~ktWKeV~~ACvd~~EfrLAqicGLniIv-----hadeL~elv~~YE~~G~f~ELIsLlEaglglE-rAHmGmFTELaIL  272 (624)
T 3lvg_A          199 TRTWKEVCFACVDGKEFRLAQMCGLHIVV-----HADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAIL  272 (624)
T ss_dssp             SCSHHHHTHHHHHSCTTTTTTHHHHHHHC-----CSSCCSGGGSSSSTTCCCTTSTTTHHHHTTST-TCCHHHHHHHHHH
T ss_pred             hhHHHHHHHHHhCchHHHHHHHhcchhcc-----cHHHHHHHHHHHHhCCCHHHHHHHHHHHhCCC-chhHHHHHHHHHH
Confidence            56777777777777776655443222221     11122335555666677777666666655332 3445556666655


Q ss_pred             HHhcCcHHHHHHHHHHHHhc-CCCC------cHHHHHHHHHHHHccCCHHHHH
Q 038401          239 YGEAELFGEAIHLFRLMQRK-EIEQ------NVVTYNTMIKIYGKSLEHEKAT  284 (542)
Q Consensus       239 ~~~~~~~~~a~~~~~~~~~~-~~~~------~~~~~~~l~~~~~~~~~~~~a~  284 (542)
                      |++- ++++..+.++....+ +++.      ....|..++-.|.+-.+++.|.
T Consensus       273 YsKY-~PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~  324 (624)
T 3lvg_A          273 YSKF-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAI  324 (624)
T ss_dssp             HHSS-CTTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHH
T ss_pred             HHhc-CHHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHH
Confidence            5544 333333333332221 1111      2234555555555555555443

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=95.53  E-value=0.17  Score=38.11  Aligned_cols=102  Identities=10%  Similarity=0.113  Sum_probs=52.7

Q ss_pred             CCcHHHHHHHHHHHHHhcCH------HHHHHHHHHHHhCCCCCCHH-hHHHHHHHH------hccCCHHHHHHHHHHHHh
Q 038401           16 SPSVFAYNVVLRNVLRAKQW------ELAHGLFDEMRQRGIAPDRY-TYSTLITCF------GKEGMFDSAISWLQQMEQ   82 (542)
Q Consensus        16 ~~~~~~~~~ll~~~~~~~~~------~~A~~~~~~~~~~~~~~~~~-~~~~l~~~~------~~~g~~~~a~~~~~~~~~   82 (542)
                      +.|..+|-..+..+-+.|++      ++.+++|++.... ++|+.. .|...|..+      ...++.++|.++|+.+.+
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            45666777777777777777      7777777777664 444321 122222211      112455555555555544


Q ss_pred             CCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHhHhCC
Q 038401           83 DRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSG  119 (542)
Q Consensus        83 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  119 (542)
                      .+ +-=...|....+.-.++|++..|.+++...+..+
T Consensus        89 ~h-KkFAKiwi~~AqFEiRqgnl~kARkILg~AiG~~  124 (161)
T 4h7y_A           89 NC-KKFAFVHISFAQFELSQGNVKKSKQLLQKAVERG  124 (161)
T ss_dssp             HC-TTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             Hh-HHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccC
Confidence            31 1114444444444445555555555555555544

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=95.34  E-value=0.57  Score=34.50  Aligned_cols=62  Identities=11%  Similarity=0.010  Sum_probs=28.5

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcC
Q 038401          197 CNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKE  259 (542)
Q Consensus       197 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  259 (542)
                      +...+......|..++..+++..+.... +|++...-.+..+|.+.|+..++.+++.+.-+.|
T Consensus        94 vd~ALd~lv~~~KkDqLdki~~~~l~n~-~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG  155 (172)
T 1wy6_A           94 VNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKKG  155 (172)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhccHhHHHHHHHHHhccC-CCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhh
Confidence            3444444444455555555544432221 3444444445555555555555555555444444

>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=95.29  E-value=0.21  Score=36.78  Aligned_cols=72  Identities=8%  Similarity=0.013  Sum_probs=44.6

Q ss_pred             CCCCCHHHHHHHHHHHhccC---cHHHHHHHHHHHHHcCCCCchHHHHHHHHHHhccCChHHHHHHHHHH-hcCCC
Q 038401          430 GYFPDSHIIALVLNSYGKLR---EFETADDLYSEMQEEGCVFSDQVHFQMLSLYGARKDFNMLESLFERL-DSDSN  501 (542)
Q Consensus       430 ~~~p~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~  501 (542)
                      +-.|+..+--.+.+++.+..   +..+++.+++.+.+.+......-.|.++-++.+.|++++|.+..+.+ ..+|+
T Consensus        35 ~~~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~eP~  110 (134)
T 3o48_A           35 GPTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERN  110 (134)
T ss_dssp             GGGSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTCTT
T ss_pred             CCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhCCC
Confidence            33466666555666666554   34567778877777651111223333777788888888888888884 44555

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=95.18  E-value=0.057  Score=41.54  Aligned_cols=117  Identities=14%  Similarity=0.113  Sum_probs=67.3

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhC-CCCCCH-------HHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHHHH
Q 038401          406 MIELFSRNKKYANVIEVFEKMRSA-GYFPDS-------HIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQML  477 (542)
Q Consensus       406 l~~~~~~~g~~~~A~~~~~~~~~~-~~~p~~-------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~  477 (542)
                      -+..+...|.++.|+-+...++.. +..|+.       .++..+++++...|++..|...|++++.....-+......  
T Consensus        26 qik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~~s~~--  103 (167)
T 3ffl_A           26 HVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKTSKVR--  103 (167)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC---------
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcCCCcc--
Confidence            345566778888888777765542 122331       3556677777888888888888888765432112111100  


Q ss_pred             HHHhccCChHHHHHHHHH-Hh-cCCCCCchhHHHHHHHHHHhhcchhhHHHHHHHHHhcC
Q 038401          478 SLYGARKDFNMLESLFER-LD-SDSNINKKELHHVVAGIYERANRLNDASRIMNRMNKRR  535 (542)
Q Consensus       478 ~~~~~~g~~~~A~~~~~~-~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  535 (542)
                         ...|        .+. -+ ........+.-+.++.+|.+.|++++|+.+++.++.+.
T Consensus       104 ---~~~~--------~~ss~p~s~~~~~e~Elkykia~C~~~l~~~~~Ai~~Le~Ip~k~  152 (167)
T 3ffl_A          104 ---PSTG--------NSASTPQSQCLPSEIEVKYKLAECYTVLKQDKDAIAILDGIPSRQ  152 (167)
T ss_dssp             ------------------------CCCCHHHHHHHHHHHHHHTTCHHHHHHHHHTSCGGG
T ss_pred             ---cccc--------ccCCCcccccccchHHHHHHHHHHHHHHCCHHHHHHHHhcCCchh
Confidence               0000        000 00 00011234677889999999999999999999876544

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.10  E-value=2.2  Score=39.89  Aligned_cols=95  Identities=15%  Similarity=0.140  Sum_probs=60.5

Q ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHcCCCc-C----HHHHHHHHHHHHhcCCHHHHHHHHHHHHh----CCCCCCH--HHH
Q 038401          370 TAITILARAGRIEEATWVFRQAFDAGEVK-D----ISVFGCMIELFSRNKKYANVIEVFEKMRS----AGYFPDS--HII  438 (542)
Q Consensus       370 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~-~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~~p~~--~~~  438 (542)
                      .+...+...|++.+|..++..+...-... +    ...+...++.|...+++..|..+++++..    ....|+.  ..+
T Consensus       142 ~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~  221 (445)
T 4b4t_P          142 DLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSILKGDYSQATVLSRKILKKTFKNPKYESLKLEYY  221 (445)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHH
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHH
Confidence            35666777777777777777765321111 1    34556667778888888888888887642    1112221  345


Q ss_pred             HHHHHHHhccCcHHHHHHHHHHHHHc
Q 038401          439 ALVLNSYGKLREFETADDLYSEMQEE  464 (542)
Q Consensus       439 ~~l~~~~~~~g~~~~A~~~~~~~~~~  464 (542)
                      ...+..+...+++.+|.+.|..+.+.
T Consensus       222 ~~~~~~~~~e~~y~~a~~~y~e~~~~  247 (445)
T 4b4t_P          222 NLLVKISLHKREYLEVAQYLQEIYQT  247 (445)
T ss_dssp             HHHHHHHHHHCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHhc
Confidence            56666777778888888888877653

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=95.00  E-value=0.47  Score=35.43  Aligned_cols=70  Identities=6%  Similarity=-0.013  Sum_probs=50.0

Q ss_pred             CCCHHHHHHHHHHHhccC---cHHHHHHHHHHHHHcCCCCchHHHHHHHHHHhccCChHHHHHHHHH-HhcCCC
Q 038401          432 FPDSHIIALVLNSYGKLR---EFETADDLYSEMQEEGCVFSDQVHFQMLSLYGARKDFNMLESLFER-LDSDSN  501 (542)
Q Consensus       432 ~p~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~~~  501 (542)
                      .|+..+--.+.+++.+..   +..+++.+++.+.+.+....-.-.|.++-++.+.|++++|.++.+. +..+|+
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~eP~  109 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERN  109 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTCCC
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCC
Confidence            567766666777777665   4557888888888865222233344488889999999999999999 455665

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=94.56  E-value=4.7  Score=41.16  Aligned_cols=151  Identities=11%  Similarity=0.064  Sum_probs=78.4

Q ss_pred             HhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHH--HHHHHHHHhccCcHHHH
Q 038401          377 RAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHI--IALVLNSYGKLREFETA  454 (542)
Q Consensus       377 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~--~~~l~~~~~~~g~~~~A  454 (542)
                      -.|+.+....++..+.+. ...+..-.-.+.-++...|+.+.+..+.+.+... ..|....  ...+..+|+..|+....
T Consensus       502 GTgn~~ai~~LL~~~~e~-~~e~vrR~aalgLGll~~g~~e~~~~li~~L~~~-~dp~vRygaa~alglAyaGTGn~~aI  579 (963)
T 4ady_A          502 GTGKPEAIHDMFTYSQET-QHGNITRGLAVGLALINYGRQELADDLITKMLAS-DESLLRYGGAFTIALAYAGTGNNSAV  579 (963)
T ss_dssp             TCCCHHHHHHHHHHHHHC-SCHHHHHHHHHHHHHHTTTCGGGGHHHHHHHHHC-SCHHHHHHHHHHHHHHTTTSCCHHHH
T ss_pred             ccCCHHHHHHHHHHHhcc-CcHHHHHHHHHHHHhhhCCChHHHHHHHHHHHhC-CCHHHHHHHHHHHHHHhcCCCCHHHH
Confidence            446766667777766653 1122222333334445678888888887777652 1222211  22344567777887777


Q ss_pred             HHHHHHHHHcCCCCchHHHHH--HHHHHhccCChHHHHHHHHHHhcCCCCCc-hhHHHHHHHHHHhhcchhhHHHHHHHH
Q 038401          455 DDLYSEMQEEGCVFSDQVHFQ--MLSLYGARKDFNMLESLFERLDSDSNINK-KELHHVVAGIYERANRLNDASRIMNRM  531 (542)
Q Consensus       455 ~~~~~~~~~~~~~~~~~~~~~--l~~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~  531 (542)
                      .++++.+....   .+.+...  ++-++...|+.+.+.++++.+....++.- ..+-..++.++...| ..+|+..+.++
T Consensus       580 q~LL~~~~~d~---~d~VRraAViaLGlI~~g~~e~v~rlv~~L~~~~d~~VR~gAalALGli~aGn~-~~~aid~L~~L  655 (963)
T 4ady_A          580 KRLLHVAVSDS---NDDVRRAAVIALGFVLLRDYTTVPRIVQLLSKSHNAHVRCGTAFALGIACAGKG-LQSAIDVLDPL  655 (963)
T ss_dssp             HHHHHHHHHCS---CHHHHHHHHHHHHHHTSSSCSSHHHHTTTGGGCSCHHHHHHHHHHHHHHTSSSC-CHHHHHHHHHH
T ss_pred             HHHHHHhccCC---cHHHHHHHHHHHHhhccCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhccCCC-cHHHHHHHHHH
Confidence            77888777643   2222222  44455556666666666665544333111 122223333332222 25666677666


Q ss_pred             Hh
Q 038401          532 NK  533 (542)
Q Consensus       532 ~~  533 (542)
                      ..
T Consensus       656 ~~  657 (963)
T 4ady_A          656 TK  657 (963)
T ss_dssp             HT
T ss_pred             cc
Confidence            53

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=94.37  E-value=1.1  Score=33.05  Aligned_cols=138  Identities=11%  Similarity=0.055  Sum_probs=77.8

Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCHHHHHHHHH
Q 038401          310 GKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFR  389 (542)
Q Consensus       310 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  389 (542)
                      .-.|..++..++..+..+..   +..-++-++--....-+-+...++++.+-+.-.         ...+|+.......+-
T Consensus        18 ildG~v~qGveii~k~~~ss---ni~E~NW~ICNiiD~a~C~y~v~vLd~IGkiFD---------is~C~NlKrVi~C~~   85 (172)
T 1wy6_A           18 LLDGYIDEGVKIVLEITKSS---TKSEYNWFICNLLESIDCRYMFQVLDKIGSYFD---------LDKCQNLKSVVECGV   85 (172)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS---CHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSC---------GGGCSCTHHHHHHHH
T ss_pred             HHhhhHHHHHHHHHHHcCCC---CccccceeeeecchhhchhHHHHHHHHHhhhcC---------cHhhhcHHHHHHHHH
Confidence            34566777777776666542   334444444444444455555555555432100         112333333333333


Q ss_pred             HHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcC
Q 038401          390 QAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEG  465 (542)
Q Consensus       390 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  465 (542)
                      .+     ..+.......++.+..+|+-+.-.+++..++. +.+|++..+..+..+|.+.|+..+|.+++.++.+.|
T Consensus        86 ~~-----n~~se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG  155 (172)
T 1wy6_A           86 IN-----NTLNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACKKG  155 (172)
T ss_dssp             HT-----TCCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             Hh-----cchHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhh
Confidence            22     12334455556666777777777777777543 345677777777778888888888888887777776

>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=94.22  E-value=0.85  Score=33.57  Aligned_cols=68  Identities=9%  Similarity=0.005  Sum_probs=42.1

Q ss_pred             CCcCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcC
Q 038401          396 EVKDISVFGCMIELFSRNKK---YANVIEVFEKMRSAGYFP--DSHIIALVLNSYGKLREFETADDLYSEMQEEG  465 (542)
Q Consensus       396 ~~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~~~p--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  465 (542)
                      ..|++.+--.+..++.+..+   ..+++.+++.+.+.+  |  ....+-.+.-++.+.|++++|+++.+.+++..
T Consensus        36 ~~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~--~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~e  108 (134)
T 3o48_A           36 PTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA--ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHE  108 (134)
T ss_dssp             GGSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTC
T ss_pred             CCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC--cchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhC
Confidence            34556665566666666544   345667777766643  4  23445556667777777777777777777754

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=93.89  E-value=0.42  Score=47.51  Aligned_cols=50  Identities=6%  Similarity=0.018  Sum_probs=24.0

Q ss_pred             hccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHHHHHh
Q 038401          446 GKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLFERLD  497 (542)
Q Consensus       446 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~~~  497 (542)
                      ...|+++-|+++.++++..-  |.+-.+|. |+.+|...|+++.|.-.++.++
T Consensus       348 l~K~~~elAL~~Ak~AV~~a--PseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          348 LNRGDYELALGVSNTSTELA--LDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC--SSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             hccCcHHHHHHHHHHHHhcC--chhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence            34455555555555555443  22223333 5555555555555555555443

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=93.60  E-value=1  Score=44.87  Aligned_cols=128  Identities=9%  Similarity=0.028  Sum_probs=77.9

Q ss_pred             HHHHHHHHhcCc-HHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCC-HHHHHHHHHHHHHc------CCCC-CH----
Q 038401          233 NTLLRVYGEAEL-FGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLE-HEKATNLMQEMQNR------GIEP-NA----  299 (542)
Q Consensus       233 ~~ll~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~------~~~p-~~----  299 (542)
                      ..++..+...++ .+.|..+++++.......+......++..+...++ --+|.+++.+..+.      ...+ +.    
T Consensus       252 ~~Ll~~~~~t~~~~~~a~~~le~L~~~~p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~~~  331 (754)
T 4gns_B          252 YSLKSFIAITPSLVDFTIDYLKGLTKKDPIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADSAR  331 (754)
T ss_dssp             HHHHHHHHTCGGGHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHHHH
T ss_pred             HHHHHHHcccccHHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhccccccccc
Confidence            444454555555 57788888888776422222222333333333332 23455555544321      1111 11    


Q ss_pred             ------HHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhc
Q 038401          300 ------ITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELR  361 (542)
Q Consensus       300 ------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  361 (542)
                            .....-...|...|+++.|+.+-++..... +-+..+|..|..+|...|+++.|+-.++.+.
T Consensus       332 ~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~a-PseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          332 LMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTELA-LDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             ccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhcC-chhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence                  011112234667899999999999988873 5578999999999999999999999998874

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=93.25  E-value=1.9  Score=32.17  Aligned_cols=70  Identities=9%  Similarity=-0.023  Sum_probs=49.3

Q ss_pred             CCcCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcC
Q 038401          396 EVKDISVFGCMIELFSRNKK---YANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEG  465 (542)
Q Consensus       396 ~~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  465 (542)
                      ..+++.+--.+.+++.+..+   ..+++.+++.+.+.+..-....+-.+.-++.+.|++++|+++.+.+++..
T Consensus        35 ~~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~e  107 (144)
T 1y8m_A           35 PTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHE  107 (144)
T ss_dssp             TTSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTC
T ss_pred             CCCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Confidence            35677777777888877665   44677888888774311123445556678889999999999999888876

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=91.84  E-value=13  Score=38.16  Aligned_cols=256  Identities=7%  Similarity=-0.065  Sum_probs=135.9

Q ss_pred             HHHhcCcHHHHHHHHHHHHhcC--CCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCC--C-----CCHHHHHHHHHH
Q 038401          238 VYGEAELFGEAIHLFRLMQRKE--IEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGI--E-----PNAITYSTIIAI  308 (542)
Q Consensus       238 ~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~-----p~~~~~~~l~~~  308 (542)
                      +....|+.++++.++......+  -.+....-..+.-+....|..+++..++.......-  .     +....-..+.-+
T Consensus       383 GlIh~g~~~~gl~~L~~yL~~~~s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGLG  462 (963)
T 4ady_A          383 GVIHKGNLLEGKKVMAPYLPGSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGIG  462 (963)
T ss_dssp             HHHTSSCTTTHHHHHTTTSTTSCCSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHHH
T ss_pred             hhhccCchHHHHHHHHHhccccCCCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHHH
Confidence            4567788888888887766421  122233334445556667766678887777654321  0     111111222222


Q ss_pred             H--HhcCCHHHHHHHHHHHHhcCCCCCHHH--HH--HHHHHHHHcCCHHHHHHHHHHhcCCCCCCH-HHHHHH--HHHhC
Q 038401          309 W--GKAGKLDRAAMLFQKLRSSGVEIDPVL--YQ--TMIVAYERVGLVAHAKRLLHELRQPNTIPR-ETAITI--LARAG  379 (542)
Q Consensus       309 ~--~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~--~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~l~~~--~~~~g  379 (542)
                      +  ...++. ++.+.+..+....   +...  ..  ++...+.-.|+.+....++..+.......+ ..+..+  +...|
T Consensus       463 la~~GS~~e-ev~e~L~~~L~dd---~~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~~e~vrR~aalgLGll~~g  538 (963)
T 4ady_A          463 LAAMGSANI-EVYEALKEVLYND---SATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQHGNITRGLAVGLALINYG  538 (963)
T ss_dssp             HHSTTCCCH-HHHHHHHHHHHTC---CHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTT
T ss_pred             HHhcCCCCH-HHHHHHHHHHhcC---CHHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhhhCC
Confidence            2  334443 4455555554432   2211  12  233334456777777777766543222222 223333  34678


Q ss_pred             CHHHHHHHHHHHHHcCCCcCHHH--HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHH
Q 038401          380 RIEEATWVFRQAFDAGEVKDISV--FGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDL  457 (542)
Q Consensus       380 ~~~~A~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~  457 (542)
                      +.+.+..+++.+... ..|....  -.+++.+|+..|+.....++++.+.+.. ..+......+.-++...|+.+.+.++
T Consensus       539 ~~e~~~~li~~L~~~-~dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d~-~d~VRraAViaLGlI~~g~~e~v~rl  616 (963)
T 4ady_A          539 RQELADDLITKMLAS-DESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSDS-NDDVRRAAVIALGFVLLRDYTTVPRI  616 (963)
T ss_dssp             CGGGGHHHHHHHHHC-SCHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTSSSCSSHHHH
T ss_pred             ChHHHHHHHHHHHhC-CCHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccCC-cHHHHHHHHHHHHhhccCCHHHHHHH
Confidence            888888888887763 2222222  1234556778899877777999888631 12222222333344456666667777


Q ss_pred             HHHHHHcCCCCchHHHHH-HHHHHhccCCh-HHHHHHHHHHhcCCC
Q 038401          458 YSEMQEEGCVFSDQVHFQ-MLSLYGARKDF-NMLESLFERLDSDSN  501 (542)
Q Consensus       458 ~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~-~~A~~~~~~~~~~~~  501 (542)
                      ++.+.+.+  .|..-... ++-.....|+. .+|+..+..+..+++
T Consensus       617 v~~L~~~~--d~~VR~gAalALGli~aGn~~~~aid~L~~L~~D~d  660 (963)
T 4ady_A          617 VQLLSKSH--NAHVRCGTAFALGIACAGKGLQSAIDVLDPLTKDPV  660 (963)
T ss_dssp             TTTGGGCS--CHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHTCSS
T ss_pred             HHHHHhcC--CHHHHHHHHHHHHHhccCCCcHHHHHHHHHHccCCC
Confidence            76666544  23222222 44444444443 678889999876654

>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=91.72  E-value=1.5  Score=40.07  Aligned_cols=74  Identities=18%  Similarity=0.123  Sum_probs=51.4

Q ss_pred             hHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHhHh-----CCCCccHhHHHHH
Q 038401           56 TYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKS-----SGIVPDLVAYNTM  130 (542)
Q Consensus        56 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~~l  130 (542)
                      +...++..+...|++.+++..+..+.... +.+...+..+|.++.+.|+..+|++.|+.+.+     .|+.|+..+-...
T Consensus       173 a~~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~l~  251 (388)
T 2ff4_A          173 AHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRALN  251 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHH
Confidence            34556666777788888887777776653 34667778888888888888888887777643     3777776654443

>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=91.48  E-value=0.94  Score=41.48  Aligned_cols=67  Identities=7%  Similarity=0.130  Sum_probs=49.0

Q ss_pred             HHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh-----CCCCCCHHHH
Q 038401          371 AITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRS-----AGYFPDSHII  438 (542)
Q Consensus       371 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~~p~~~~~  438 (542)
                      ++..+...|++++++..++.+... .+.+...|..++.++...|+..+|++.|+++.+     .|+.|+..+-
T Consensus       177 ~~~~~l~~g~~~~a~~~l~~~~~~-~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~  248 (388)
T 2ff4_A          177 KAEAEIACGRASAVIAELEALTFE-HPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLR  248 (388)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH-STTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Confidence            445566778888888777777765 345777888888888888888888888887654     3777876543

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=91.28  E-value=5.4  Score=42.64  Aligned_cols=139  Identities=10%  Similarity=-0.007  Sum_probs=87.3

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCC----CC--C-----------
Q 038401          304 TIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQP----NT--I-----------  366 (542)
Q Consensus       304 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~--~-----------  366 (542)
                      .++..+...+.++.+.++..-     .+.++...-.+..++...|++++|.+.|++....    +.  .           
T Consensus       817 ~l~~~l~~~~~~~~~~~l~~~-----~~~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~~~~~~~~l~~~~~~~~~~~~~  891 (1139)
T 4fhn_B          817 ELVEKLFLFKQYNACMQLIGW-----LNSDPIAVYLKALIYLKSKEAVKAVRCFKTTSLVLYSHTSQFAVLREFQEIAEK  891 (1139)
T ss_dssp             HHHHHHHHHSCTTHHHHHHHH-----SCCCHHHHHHHHHHHHHTTCHHHHHHHHHTCCCSCTTCCCSCSSHHHHHHHHHT
T ss_pred             HHHHHHHHhhhHHHHHHHhhh-----ccCCcHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccchhhhhhccccccccc
Confidence            345556666666666554322     2334544455677788999999999999886421    00  0           


Q ss_pred             ---------CHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCH----HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC
Q 038401          367 ---------PRETAITILARAGRIEEATWVFRQAFDAGEVKDI----SVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP  433 (542)
Q Consensus       367 ---------~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p  433 (542)
                               -|..++..+.+.+.++.+.++-+.+++...+.+.    ..|..+...+...|++++|...+-.+.....  
T Consensus       892 ~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~--  969 (1139)
T 4fhn_B          892 YHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPL--  969 (1139)
T ss_dssp             TTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSS--
T ss_pred             ccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHH--
Confidence                     0233456667778888888888888765333222    2577788888888999999888877765432  


Q ss_pred             CHHHHHHHHHHHhccC
Q 038401          434 DSHIIALVLNSYGKLR  449 (542)
Q Consensus       434 ~~~~~~~l~~~~~~~g  449 (542)
                      -...+..++..++..|
T Consensus       970 r~~cLr~LV~~lce~~  985 (1139)
T 4fhn_B          970 KKSCLLDFVNQLTKQG  985 (1139)
T ss_dssp             CHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHhCC
Confidence            2345555555444443

>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=90.88  E-value=4.7  Score=36.68  Aligned_cols=131  Identities=12%  Similarity=0.118  Sum_probs=70.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhC-CCCCC---HHHHHHHHHHHhccC-cHHH----HHHHHHHHHHcCCCCchHHH
Q 038401          403 FGCMIELFSRNKKYANVIEVFEKMRSA-GYFPD---SHIIALVLNSYGKLR-EFET----ADDLYSEMQEEGCVFSDQVH  473 (542)
Q Consensus       403 ~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~p~---~~~~~~l~~~~~~~g-~~~~----A~~~~~~~~~~~~~~~~~~~  473 (542)
                      ...|+..|.+.|+.++..+++...... +.-|-   ......++..+.... ..+.    ..+.++.+.......-....
T Consensus        22 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~~~r~flr~~l  101 (394)
T 3txn_A           22 ILQQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWAKQEKRTFLRQSL  101 (394)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445666666666666666666555431 11121   233445555554422 2222    23333333332211101111


Q ss_pred             H-HHHHHHhccCChHHHHHHHHHHhcCC-----CCCchhHHHHHHHHHHhhcchhhHHHHHHHHHh
Q 038401          474 F-QMLSLYGARKDFNMLESLFERLDSDS-----NINKKELHHVVAGIYERANRLNDASRIMNRMNK  533 (542)
Q Consensus       474 ~-~l~~~~~~~g~~~~A~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  533 (542)
                      - .++..|...|++.+|.+++.++...-     ...--+.|..-+++|...|++.++..++.+...
T Consensus       102 ~~kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~  167 (394)
T 3txn_A          102 EARLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSART  167 (394)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHh
Confidence            1 27788888888888887777753321     111136677778888888888888888877543

>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=89.77  E-value=3.7  Score=28.41  Aligned_cols=49  Identities=12%  Similarity=0.154  Sum_probs=29.3

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHhHh
Q 038401           69 MFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKS  117 (542)
Q Consensus        69 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  117 (542)
                      +.-+..+.++.+......|++....+.+++|.+.+++..|.++|+-++.
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~   73 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKD   73 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            3444555555555555666666666666666666666666666666553

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=89.19  E-value=5.8  Score=42.40  Aligned_cols=145  Identities=9%  Similarity=-0.013  Sum_probs=84.5

Q ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-----------------
Q 038401          370 TAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYF-----------------  432 (542)
Q Consensus       370 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-----------------  432 (542)
                      .++..+...+.++-+.++..-.     +.++..--.++.++...|++++|.+.|++.-. |+.                 
T Consensus       817 ~l~~~l~~~~~~~~~~~l~~~~-----~~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~-~~~~~~~l~~~~~~~~~~~~  890 (1139)
T 4fhn_B          817 ELVEKLFLFKQYNACMQLIGWL-----NSDPIAVYLKALIYLKSKEAVKAVRCFKTTSL-VLYSHTSQFAVLREFQEIAE  890 (1139)
T ss_dssp             HHHHHHHHHSCTTHHHHHHHHS-----CCCHHHHHHHHHHHHHTTCHHHHHHHHHTCCC-SCTTCCCSCSSHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHhhhc-----cCCcHHHHHHHHHHHhcCCHHHHHHHHHHHhh-hhcccchhhhhhcccccccc
Confidence            3444555566666555543321     22333334455666777777777777765421 110                 


Q ss_pred             ------CCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchH-H--HHH-HHHHHhccCChHHHHHHHHHHhcCCCC
Q 038401          433 ------PDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQ-V--HFQ-MLSLYGARKDFNMLESLFERLDSDSNI  502 (542)
Q Consensus       433 ------p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~-~--~~~-l~~~~~~~g~~~~A~~~~~~~~~~~~~  502 (542)
                            .-..-|..++..+.+.|.++.+.++-+.+++.....++. .  .+. +...+...|++++|...+-.++...- 
T Consensus       891 ~~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~-  969 (1139)
T 4fhn_B          891 KYHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPL-  969 (1139)
T ss_dssp             TTTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSS-
T ss_pred             cccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHH-
Confidence                  012346677777778888888888888777654222221 1  233 66777788888888888877654332 


Q ss_pred             CchhHHHHHHHHHHhhcchh
Q 038401          503 NKKELHHVVAGIYERANRLN  522 (542)
Q Consensus       503 ~~~~~~~~l~~~~~~~g~~~  522 (542)
                       .......++..++..|..+
T Consensus       970 -r~~cLr~LV~~lce~~~~~  988 (1139)
T 4fhn_B          970 -KKSCLLDFVNQLTKQGKIN  988 (1139)
T ss_dssp             -CHHHHHHHHHHHHHHCCHH
T ss_pred             -HHHHHHHHHHHHHhCCChh
Confidence             2355666666666666544

>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=89.14  E-value=4.1  Score=28.16  Aligned_cols=70  Identities=10%  Similarity=0.124  Sum_probs=53.4

Q ss_pred             HHHHHhc-CHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHH
Q 038401           27 RNVLRAK-QWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIE   97 (542)
Q Consensus        27 ~~~~~~~-~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   97 (542)
                      ..+-+.. +.=++.+-++.+...++-|++.+..+.+++|.+.+++..|.++|+-.... +.+...+|..+++
T Consensus        17 ~~F~~~~iD~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K-~~~~~~iY~~~lq   87 (109)
T 1v54_E           17 TYFNKPDIDAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQ   87 (109)
T ss_dssp             HHHTCTTCCHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHH
T ss_pred             HHcCCcCccHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCchhhHHHHHH
Confidence            3333444 56678888899999899999999999999999999999999999988654 2223445665553

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=88.15  E-value=2.2  Score=39.62  Aligned_cols=99  Identities=15%  Similarity=0.004  Sum_probs=65.4

Q ss_pred             CHHHHHHHHHHhCCHHHHHHHHHHHHHcCC--CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC---CCCCCHHH--HH
Q 038401          367 PRETAITILARAGRIEEATWVFRQAFDAGE--VKDISVFGCMIELFSRNKKYANVIEVFEKMRSA---GYFPDSHI--IA  439 (542)
Q Consensus       367 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~p~~~~--~~  439 (542)
                      ....++..+.+.|+++.|.+.+.++.+...  ..-...+-..++.+...+++..+...++++...   +-.|+...  ..
T Consensus       133 ~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~~~~~~~~d~~~~~~lk~  212 (429)
T 4b4t_R          133 AWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVNSMIEKGGDWERRNRYKT  212 (429)
T ss_dssp             CCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCCCTHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhcCCCHHHHHHHHH
Confidence            456678888888888888888888876422  223566777778888888888888888887542   32233221  11


Q ss_pred             HHHHHHhccCcHHHHHHHHHHHHHcC
Q 038401          440 LVLNSYGKLREFETADDLYSEMQEEG  465 (542)
Q Consensus       440 ~l~~~~~~~g~~~~A~~~~~~~~~~~  465 (542)
                      .-+..+...+++.+|.+.|-.+....
T Consensus       213 ~~gl~~l~~r~f~~Aa~~f~e~~~t~  238 (429)
T 4b4t_R          213 YYGIHCLAVRNFKEAAKLLVDSLATF  238 (429)
T ss_dssp             HHHHGGGGTSCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHhChHHHHHHHHHHHhccC
Confidence            22233456778888888887776543

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=87.32  E-value=5.4  Score=33.67  Aligned_cols=53  Identities=21%  Similarity=0.260  Sum_probs=29.9

Q ss_pred             HHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 038401          375 LARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRS  428 (542)
Q Consensus       375 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  428 (542)
                      +.+.|++++|++....-++.. +.|...-..++..+|-.|+++.|.+-++...+
T Consensus         7 ll~~g~L~~al~~~~~~VR~~-P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~   59 (273)
T 1zbp_A            7 ALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIK   59 (273)
T ss_dssp             HTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHhCCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            445556666666555555542 34555555555666666666666665555555

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=87.01  E-value=2.7  Score=35.46  Aligned_cols=118  Identities=9%  Similarity=0.025  Sum_probs=63.0

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChH
Q 038401          409 LFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFN  487 (542)
Q Consensus       409 ~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~  487 (542)
                      ...+.|+.++|++....-++.. +-|...-..++..++-.|+|+.|.+-++.+.+.+   |...... +..-+.++   +
T Consensus         6 ~ll~~g~L~~al~~~~~~VR~~-P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l~---p~~~~~a~~yr~lI~a---E   78 (273)
T 1zbp_A            6 NALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKLF---PEYLPGASQLRHLVKA---A   78 (273)
T ss_dssp             HHTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC---GGGHHHHHHHHHHHHH---H
T ss_pred             HHHhCCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC---chhhHHHHHHHHHHHH---H
Confidence            3456677788877777777643 2255555667777777888888888888777765   3332221 22222222   2


Q ss_pred             HHH-HHHHH--HhcCCCCCchhHHHHHHH--HHHhhcchhhHHHHHHHHHhc
Q 038401          488 MLE-SLFER--LDSDSNINKKELHHVVAG--IYERANRLNDASRIMNRMNKR  534 (542)
Q Consensus       488 ~A~-~~~~~--~~~~~~~~~~~~~~~l~~--~~~~~g~~~~A~~~~~~~~~~  534 (542)
                      ..+ ++|.-  .+.-++. +......+..  .....|+.++|.++-.++.+.
T Consensus        79 ~~R~~vfaG~~~P~~~g~-~~~w~~~ll~Al~~~~~G~~~~A~~lr~~A~e~  129 (273)
T 1zbp_A           79 QARKDFAQGAATAKVLGE-NEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  129 (273)
T ss_dssp             HHHHHHTTSCCCEECCCS-CHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCCCCCCCCC-CHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHhc
Confidence            222 22222  2222222 2222333333  334557777777777776543

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=86.71  E-value=7.7  Score=28.53  Aligned_cols=62  Identities=15%  Similarity=0.181  Sum_probs=35.6

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHH
Q 038401           69 MFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMI  131 (542)
Q Consensus        69 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  131 (542)
                      +.-+..+-++.+...+..|++......+++|.+.+|+..|.++|+-++..- .+...+|..++
T Consensus        68 D~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~-~~~~~iY~y~l  129 (152)
T 2y69_E           68 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVI  129 (152)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhc-CCchhhHHHHH
Confidence            334455555555555666666666666666666666666666666665432 22334455444

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=85.45  E-value=8.8  Score=28.24  Aligned_cols=63  Identities=11%  Similarity=0.142  Sum_probs=49.7

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHH
Q 038401           34 QWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIE   97 (542)
Q Consensus        34 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   97 (542)
                      +.=+..+-++.+...++-|++.+....+++|-+.+++..|.++|+-.... ..+...+|..+++
T Consensus        68 D~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K-~~~~~~iY~y~lq  130 (152)
T 2y69_E           68 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQ  130 (152)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-cCCchhhHHHHHH
Confidence            44466777778888888999999999999999999999999999988765 2333445666553

>4a1g_A Mitotic checkpoint serine/threonine-protein kinas; cell cycle, transferase, spindle assembly checkpoint, mitosi repeat, KNL1, KMN network; 2.60A {Homo sapiens} PDB: 2lah_A

Probab=84.52  E-value=3.5  Score=31.32  Aligned_cols=52  Identities=23%  Similarity=0.193  Sum_probs=35.5

Q ss_pred             HHHHHHHHHHhcC-CCCCchhHHHHHHHHHHhhcchhhHHHHHHHHHhcCCCC
Q 038401          487 NMLESLFERLDSD-SNINKKELHHVVAGIYERANRLNDASRIMNRMNKRRTFN  538 (542)
Q Consensus       487 ~~A~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  538 (542)
                      +.+.++|+-|..+ -+...+..|...+..+...|++.+|.++|+.-..++..|
T Consensus        82 ~dp~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~Gi~~~A~P  134 (152)
T 4a1g_A           82 SDLHQFFEFLYNHGIGTLSSPLYIAWAGHLEAQGELQHASAVLQRGIQNQAEP  134 (152)
T ss_dssp             SCHHHHHHHHHTTTTTTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBS
T ss_pred             CCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcc
Confidence            3366777775433 344456677777777777788888888877777777666

>3esl_A Checkpoint serine/threonine-protein kinase BUB1; mitotic spindle checkpoint, TPR motif, all-alpha domain, MAD3-like domain; HET: NHE; 1.74A {Saccharomyces cerevisiae}

Probab=83.92  E-value=7.6  Score=31.09  Aligned_cols=76  Identities=14%  Similarity=0.197  Sum_probs=47.4

Q ss_pred             HHHHHHHhC-----CCCCCHHH---HHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHH
Q 038401          421 EVFEKMRSA-----GYFPDSHI---IALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLES  491 (542)
Q Consensus       421 ~~~~~~~~~-----~~~p~~~~---~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~  491 (542)
                      .++++....     ...-|..-   |...+..+ ..+...++..+|..|...+.-.-....|. .+..+...|++.+|.+
T Consensus        58 ~lLErc~~~F~~~~rYkND~RYLklWl~Ya~~~-~~~~~~~p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~  136 (202)
T 3esl_A           58 STMERCLIYIQDMETYRNDPRFLKIWIWYINLF-LSNNFHESENTFKYMFNKGIGTKLSLFYEEFSKLLENAQFFLEAKV  136 (202)
T ss_dssp             HHHHHHHHHHTTCGGGTTCHHHHHHHHHHHHHH-STTCHHHHHHHHHHHHHHTSSTTBHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHhcccccccCCHHHHHHHHHHHHhh-cccccCCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            466666542     23345533   33333332 24446788888888888774444555555 7788888888888888


Q ss_pred             HHHH-Hh
Q 038401          492 LFER-LD  497 (542)
Q Consensus       492 ~~~~-~~  497 (542)
                      +++. +.
T Consensus       137 Vy~~GI~  143 (202)
T 3esl_A          137 LLELGAE  143 (202)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            8888 44

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=82.99  E-value=30  Score=32.19  Aligned_cols=96  Identities=7%  Similarity=0.153  Sum_probs=69.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhC--CCCCC---HHHHHHHHHHHhccCcHHHHHHHHHHHHHc---CCCCchH-H
Q 038401          402 VFGCMIELFSRNKKYANVIEVFEKMRSA--GYFPD---SHIIALVLNSYGKLREFETADDLYSEMQEE---GCVFSDQ-V  472 (542)
Q Consensus       402 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~p~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~-~  472 (542)
                      ....|...+...|++.+|..++..+...  +..+.   ...+...++.|...+++..|..++.++...   ...+|+. .
T Consensus       139 l~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~  218 (445)
T 4b4t_P          139 VTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSILKGDYSQATVLSRKILKKTFKNPKYESLKL  218 (445)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhcccCCcHHHHH
Confidence            3456788899999999999999998743  32222   256667788999999999999999987531   2122322 2


Q ss_pred             -HHH-HHHHHhccCChHHHHHHHHHHh
Q 038401          473 -HFQ-MLSLYGARKDFNMLESLFERLD  497 (542)
Q Consensus       473 -~~~-l~~~~~~~g~~~~A~~~~~~~~  497 (542)
                       .+. .+..+...++|.+|.+.|..+-
T Consensus       219 ~~~~~~~~~~~~e~~y~~a~~~y~e~~  245 (445)
T 4b4t_P          219 EYYNLLVKISLHKREYLEVAQYLQEIY  245 (445)
T ss_dssp             HHHHHHHHHHHHHCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence             333 7788888999999987777753

>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=81.25  E-value=9.4  Score=26.31  Aligned_cols=50  Identities=12%  Similarity=0.137  Sum_probs=25.6

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcC
Q 038401          410 FSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEG  465 (542)
Q Consensus       410 ~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  465 (542)
                      +...|+|++|..+.+..    ..||...|..+  +-.+.|..+++...+.++...+
T Consensus        50 LmNrG~Yq~Al~l~~~~----c~pdlepw~AL--ce~rlGl~s~le~rL~~la~sg   99 (116)
T 2p58_C           50 LMNRGDYASALQQGNKL----AYPDLEPWLAL--CEYRLGLGSALESRLNRLARSQ   99 (116)
T ss_dssp             HHHTTCHHHHHHHHTTS----CCGGGHHHHHH--HHHHHTCHHHHHHHHHHHTTCC
T ss_pred             HHcchhHHHHHHhcCCC----CCchHHHHHHH--HHHhcccHHHHHHHHHHHHhCC
Confidence            44556666665544433    23555555443  2345555555555555555444

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	542
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.94
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.94
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.7
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.62
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.39
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.3
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.29
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.27
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.24
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.24
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.24
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.17
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.14
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.13
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.98
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.86
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.82
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.81
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.8
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.8
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.75
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.75
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.74
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.71
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.68
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.66
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.61
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.61
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.6
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.59
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.51
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.44
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.35
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.31
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.3
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.29
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.28
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.26
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.24
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.23
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.19
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.17
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.12
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.09
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	98.08
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.05
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.05
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.98
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.87
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.78
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.71
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.68
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.53
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.53
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	97.31
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	97.24
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	96.98
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	96.49
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	96.22
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	95.89
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	95.05
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	93.24
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	89.56
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	87.63

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.94  E-value=1.1e-22  Score=189.26  Aligned_cols=378  Identities=10%  Similarity=0.033  Sum_probs=214.3

Q ss_pred             HHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCh
Q 038401           96 IELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKF  175 (542)
Q Consensus        96 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~  175 (542)
                      ...+.+.|++++|.+.++++.+.. +-++..+..+..++.+.|++++|...+++..+.. +-+..++..+..+|.+.|++
T Consensus         6 a~~~~~~G~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~g~~   83 (388)
T d1w3ba_           6 AHREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQL   83 (388)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhhccc
Confidence            344455566666666666555442 2234555555555555566666666555555442 12344555555555555555


Q ss_pred             HHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHH
Q 038401          176 VEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLM  255 (542)
Q Consensus       176 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~  255 (542)
                      ++|++.+....... +.+..............+....+........... .................+....+...+...
T Consensus        84 ~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  161 (388)
T d1w3ba_          84 QEAIEHYRHALRLK-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYLKA  161 (388)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             cccccccccccccc-cccccccccccccccccccccccccccccccccc-cccccccccccccccccchhhhhHHHHHHh
Confidence            55555555555443 1222222222333333333333333333222222 122222333333334444444444444444


Q ss_pred             HhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHH
Q 038401          256 QRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPV  335 (542)
Q Consensus       256 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  335 (542)
                      .... +.+...+..+...+..                                   .|+++.|...++...+.. +.+..
T Consensus       162 ~~~~-~~~~~~~~~l~~~~~~-----------------------------------~~~~~~A~~~~~~al~~~-p~~~~  204 (388)
T d1w3ba_         162 IETQ-PNFAVAWSNLGCVFNA-----------------------------------QGEIWLAIHHFEKAVTLD-PNFLD  204 (388)
T ss_dssp             HHHC-TTCHHHHHHHHHHHHT-----------------------------------TTCHHHHHHHHHHHHHHC-TTCHH
T ss_pred             hccC-cchhHHHHhhcccccc-----------------------------------cCcHHHHHHHHHHHHHhC-cccHH
Confidence            3332 2233344444444444                                   444444444444444432 22344


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHhcCCCC---CCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHh
Q 038401          336 LYQTMIVAYERVGLVAHAKRLLHELRQPNT---IPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSR  412 (542)
Q Consensus       336 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~  412 (542)
                      .+..+...+...|++++|...+......++   ..+..+...+.+.|++++|+..|+++++.. +.++.++..++.++..
T Consensus       205 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~  283 (388)
T d1w3ba_         205 AYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKE  283 (388)
T ss_dssp             HHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHH
T ss_pred             HHHHHhhhhhccccHHHHHHHHHHhHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH
Confidence            444444444555555555554444332111   122334455666677777777777777753 3567788889999999


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHH
Q 038401          413 NKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLES  491 (542)
Q Consensus       413 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~  491 (542)
                      .|++++|++.++..... .+.+...+..++..+...|++++|+..|+++++..  |.+...+. ++.++...|++++|++
T Consensus       284 ~~~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~la~~~~~~g~~~~A~~  360 (388)
T d1w3ba_         284 KGSVAEAEDCYNTALRL-CPTHADSLNNLANIKREQGNIEEAVRLYRKALEVF--PEFAAAHSNLASVLQQQGKLQEALM  360 (388)
T ss_dssp             HSCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSC--TTCHHHHHHHHHHHHTTTCCHHHHH
T ss_pred             cCCHHHHHHHHHhhhcc-CCccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            99999999999988874 23466788888889999999999999999998876  22233333 8999999999999999


Q ss_pred             HHHHH-hcCCCCCchhHHHHHHHHHHhhcc
Q 038401          492 LFERL-DSDSNINKKELHHVVAGIYERANR  520 (542)
Q Consensus       492 ~~~~~-~~~~~~~~~~~~~~l~~~~~~~g~  520 (542)
                      .+++. ..+|+  ...+|..++.+|.+.|+
T Consensus       361 ~~~~al~l~P~--~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         361 HYKEAIRISPT--FADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHHHHHTTCTT--CHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHhCCC--CHHHHHHHHHHHHHcCC
Confidence            99984 55554  56788999999988774

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.94  E-value=3.2e-22  Score=186.13  Aligned_cols=378  Identities=13%  Similarity=0.083  Sum_probs=210.6

Q ss_pred             HhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHH
Q 038401           64 FGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEA  143 (542)
Q Consensus        64 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  143 (542)
                      +.+.|++++|++.++++.+..+ -+...+..+..++...|++++|...++++.+.. +.+..++..+..++...|++++|
T Consensus         9 ~~~~G~~~~A~~~~~~~l~~~p-~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~g~~~~A   86 (388)
T d1w3ba_           9 EYQAGDFEAAERHCMQLWRQEP-DNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQLQEA   86 (388)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhhcccccc
Confidence            3344444444444444444321 133444444444444455555555544444432 22344445555555555555555


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHC
Q 038401          144 RLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKM  223 (542)
Q Consensus       144 ~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  223 (542)
                      ...+....... +.+..............+....+........... .................+....+...+......
T Consensus        87 ~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  164 (388)
T d1w3ba_          87 IEHYRHALRLK-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYLKAIET  164 (388)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHH
T ss_pred             ccccccccccc-cccccccccccccccccccccccccccccccccc-cccccccccccccccccchhhhhHHHHHHhhcc
Confidence            55555554432 1233333333333344444444444444433332 223333444444555556666666666655544


Q ss_pred             CCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHH
Q 038401          224 GIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYS  303 (542)
Q Consensus       224 ~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~  303 (542)
                      . +.+...+..+...+...|+++.|...++...... +.+...+..+...+...|++++|...+++....+ +.+...+.
T Consensus       165 ~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~  241 (388)
T d1w3ba_         165 Q-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHG  241 (388)
T ss_dssp             C-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             C-cchhHHHHhhcccccccCcHHHHHHHHHHHHHhC-cccHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-hhHHHHHH
Confidence            3 3345566666677777777777777777776653 3355667777777777888888888777776653 33556666


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCHHH
Q 038401          304 TIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEE  383 (542)
Q Consensus       304 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  383 (542)
                      .+...+...|++++|...|+++.+.. +.+..++..+..++...|++++|.+.+                          
T Consensus       242 ~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~--------------------------  294 (388)
T d1w3ba_         242 NLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCY--------------------------  294 (388)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHH--------------------------
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHH--------------------------
Confidence            67777777888888888887777653 334555555555555555555544444                          


Q ss_pred             HHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHH
Q 038401          384 ATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQ  462 (542)
Q Consensus       384 A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  462 (542)
                           +.+... .+.+...+..++..+...|++++|++.|+++++  +.| +..++..++.+|.+.|++++|...|++++
T Consensus       295 -----~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al  366 (388)
T d1w3ba_         295 -----NTALRL-CPTHADSLNNLANIKREQGNIEEAVRLYRKALE--VFPEFAAAHSNLASVLQQQGKLQEALMHYKEAI  366 (388)
T ss_dssp             -----HHHHHH-CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTT--SCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHH
T ss_pred             -----Hhhhcc-CCccchhhhHHHHHHHHCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence                 433333 234555666666666677777777777776665  334 34556666667777777777777777776


Q ss_pred             HcCCCCchHHHHH-HHHHHhccCC
Q 038401          463 EEGCVFSDQVHFQ-MLSLYGARKD  485 (542)
Q Consensus       463 ~~~~~~~~~~~~~-l~~~~~~~g~  485 (542)
                      +..  |.+...+. ++.+|.+.||
T Consensus       367 ~l~--P~~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         367 RIS--PTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             TTC--TTCHHHHHHHHHHHHHTCC
T ss_pred             HhC--CCCHHHHHHHHHHHHHcCC
Confidence            654  12222233 6666666554

>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=99.70  E-value=6.6e-15  Score=132.29  Aligned_cols=272  Identities=10%  Similarity=-0.005  Sum_probs=183.3

Q ss_pred             HHHHHHHhcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC
Q 038401          234 TLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAG  313 (542)
Q Consensus       234 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~  313 (542)
                      .....+.+.|++++|...|+.+.+.. +.+..+|..+..++...|++++|...+.+..+.. +-+...+..+...+...|
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~  101 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNES  101 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-cccccccccccccccccc
Confidence            34555677777888888877777664 3356677777777777777777777777776653 224566666777777777


Q ss_pred             CHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCHHHHHHHHHHHHH
Q 038401          314 KLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFRQAFD  393 (542)
Q Consensus       314 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  393 (542)
                      ++++|.+.++.+....  |+..............               .+..........+...+.+.+|.+.++++++
T Consensus       102 ~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~---------------~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~  164 (323)
T d1fcha_         102 LQRQACEILRDWLRYT--PAYAHLVTPAEEGAGG---------------AGLGPSKRILGSLLSDSLFLEVKELFLAAVR  164 (323)
T ss_dssp             CHHHHHHHHHHHHHTS--TTTGGGCC------------------------------CTTHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccccccchhhHHHhc--cchHHHHHhhhhhhhh---------------cccccchhhHHHHHHhhHHHHHHHHHHHHHH
Confidence            7777777777776642  2211100000000000               0000111112334556778889999998887


Q ss_pred             cCCC-cCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchH
Q 038401          394 AGEV-KDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQ  471 (542)
Q Consensus       394 ~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  471 (542)
                      ..+. .+..++..++..+...|++++|+..|++++..  .| +...|..++.+|...|++++|.+.|+++++..+  .+.
T Consensus       165 ~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p--~~~  240 (323)
T d1fcha_         165 LDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV--RPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQP--GYI  240 (323)
T ss_dssp             HSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT--TCH
T ss_pred             HhhcccccccchhhHHHHHHHHHHhhhhccccccccc--ccccccchhhhhhcccccccchhHHHHHHHHHHHhh--ccH
Confidence            5432 35778888999999999999999999999874  35 568888999999999999999999999998762  223


Q ss_pred             -HHHHHHHHHhccCChHHHHHHHHHH-hcCCCCC---------chhHHHHHHHHHHhhcchhhHHHHH
Q 038401          472 -VHFQMLSLYGARKDFNMLESLFERL-DSDSNIN---------KKELHHVVAGIYERANRLNDASRIM  528 (542)
Q Consensus       472 -~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~~---------~~~~~~~l~~~~~~~g~~~~A~~~~  528 (542)
                       .++.++.+|.+.|++++|+..|++. ...|...         ....|..+..++...|+.+.+...-
T Consensus       241 ~a~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~l~~al~~~~~~d~~~~~~  308 (323)
T d1fcha_         241 RSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAAD  308 (323)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcChhhhhhhHHHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence             3334999999999999999999993 3333221         1245677788888888887665443

>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=99.62  E-value=4.8e-13  Score=119.90  Aligned_cols=228  Identities=15%  Similarity=0.029  Sum_probs=152.7

Q ss_pred             HHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcC
Q 038401           24 VVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLS  103 (542)
Q Consensus        24 ~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  103 (542)
                      -....+.+.|++++|+..|+.+.+..+. +..+|..+..++...|++++|+..|.+..+..+. +...+..+...+...|
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~  101 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQDPK-HMEAWQYLGTTQAENEQELLAISALRRCLELKPD-NQTALMALAVSFTNES  101 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCChHHHHHHHHhhhccccc-cccccccccccccccc
Confidence            4566788999999999999999997543 6889999999999999999999999999887533 6788888999999999


Q ss_pred             CHHHHHHHHHHhHhCCCCccHhHH----------------HHHHHHHhccCcHHHHHHHHHHHHHcCC-CCCHHHHHHHH
Q 038401          104 DYSKAISIFSRLKSSGIVPDLVAY----------------NTMINVFGKAKLFKEARLLIEEMREQGV-KPDTVSYSTLL  166 (542)
Q Consensus       104 ~~~~a~~~~~~~~~~~~~~~~~~~----------------~~l~~~~~~~~~~~~a~~~~~~~~~~g~-~~~~~~~~~l~  166 (542)
                      ++++|.+.++......  |+....                ...+..+...+.+.++...+.+...... .++...+..+.
T Consensus       102 ~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~  179 (323)
T d1fcha_         102 LQRQACEILRDWLRYT--PAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLG  179 (323)
T ss_dssp             CHHHHHHHHHHHHHTS--TTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHH
T ss_pred             cccccccchhhHHHhc--cchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhH
Confidence            9999999999988652  221110                0111122233445556666655544321 22445555666


Q ss_pred             HHHHHCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHH
Q 038401          167 NLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFG  246 (542)
Q Consensus       167 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~  246 (542)
                      ..+...|++++|+..+++..... +.+..+|..+..++...|++++|.+.|++..+.. +-+..++..+..+|.+.|+++
T Consensus       180 ~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~  257 (323)
T d1fcha_         180 VLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHR  257 (323)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHHHhhhhcccccccccc-cccccchhhhhhcccccccchhHHHHHHHHHHHh-hccHHHHHHHHHHHHHCCCHH
Confidence            66666666666666666665543 2345556666666666666666666666665543 234455556666666666666


Q ss_pred             HHHHHHHHHHh
Q 038401          247 EAIHLFRLMQR  257 (542)
Q Consensus       247 ~a~~~~~~~~~  257 (542)
                      +|+..|++..+
T Consensus       258 ~A~~~~~~al~  268 (323)
T d1fcha_         258 EAVEHFLEALN  268 (323)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            66666665554

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.39  E-value=5.1e-11  Score=105.18  Aligned_cols=222  Identities=10%  Similarity=0.111  Sum_probs=136.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcC-CHHHHHHHHHHhcCCC---CCCHHHHHHHHHH
Q 038401          302 YSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVG-LVAHAKRLLHELRQPN---TIPRETAITILAR  377 (542)
Q Consensus       302 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~---~~~~~~l~~~~~~  377 (542)
                      ++.+...+.+.+.+++|+..++.+++.+ |-+...|+....++...| ++++|+..++.....+   ...|.....++.+
T Consensus        46 ~~~~~~~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~~~~a~~~~~~~~~~  124 (315)
T d2h6fa1          46 YDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLVEW  124 (315)
T ss_dssp             HHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHhhhhHHHHHhHHHHh
Confidence            3334444445555555555555555543 224445555555555544 3555555555544322   2233444555666


Q ss_pred             hCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhcc------Cc
Q 038401          378 AGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKL------RE  450 (542)
Q Consensus       378 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~------g~  450 (542)
                      .|++++|++.++++++.. +.+...|..++.++...|++++|++.++++++.  .| +...|......+.+.      +.
T Consensus       125 l~~~~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~--~p~n~~a~~~r~~~l~~~~~~~~~~~  201 (315)
T d2h6fa1         125 LRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKE--DVRNNSVWNQRYFVISNTTGYNDRAV  201 (315)
T ss_dssp             HTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCSCSHHH
T ss_pred             hccHHHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHH--CCccHHHHHHHHHHHHHccccchhhh
Confidence            677777777888887763 457888888999999999999999999999884  45 556777666555443      34


Q ss_pred             HHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHHHHH-hcCCCCCchhHHHHHHHHHHhh--cchhhHHH
Q 038401          451 FETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLFERL-DSDSNINKKELHHVVAGIYERA--NRLNDASR  526 (542)
Q Consensus       451 ~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~--g~~~~A~~  526 (542)
                      +++|+..+.++++..  |.+...+. ++.++... ..+++.+.++.. ...|...+...+..++.+|...  +..+.+..
T Consensus       202 ~~~ai~~~~~al~~~--P~~~~~~~~l~~ll~~~-~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~  278 (315)
T d2h6fa1         202 LEREVQYTLEMIKLV--PHNESAWNYLKGILQDR-GLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNKED  278 (315)
T ss_dssp             HHHHHHHHHHHHHHS--TTCHHHHHHHHHHHTTT-CGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSSHHH
T ss_pred             hHHhHHHHHHHHHhC--CCchHHHHHHHHHHHhc-ChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHHHHhcCHHHHHH
Confidence            688999999988876  23334444 55555444 467777777773 4455555556677777777554  33344444


Q ss_pred             HHHH
Q 038401          527 IMNR  530 (542)
Q Consensus       527 ~~~~  530 (542)
                      .+++
T Consensus       279 ~~~k  282 (315)
T d2h6fa1         279 ILNK  282 (315)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            3333

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.30  E-value=2.9e-10  Score=100.23  Aligned_cols=243  Identities=10%  Similarity=0.094  Sum_probs=125.6

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHH
Q 038401          267 YNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAG-KLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYE  345 (542)
Q Consensus       267 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  345 (542)
                      ++.+...+.+.+.+++|+..++++.+.. +-+...|.....++...| ++++|+..++.+.+.. +-+..+|..+...+.
T Consensus        46 ~~~~~~~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~~~~~  123 (315)
T d2h6fa1          46 YDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVLVE  123 (315)
T ss_dssp             HHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHhHHHH
Confidence            3333444444555555555555555442 112333444444444433 3555555555555443 234555555555555


Q ss_pred             HcCCHHHHHHHHHHhcCCCC---CCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCC------H
Q 038401          346 RVGLVAHAKRLLHELRQPNT---IPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKK------Y  416 (542)
Q Consensus       346 ~~~~~~~a~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~------~  416 (542)
                      +.|++++|+..+.++.+.++   ..|.....++...|++++|++.++++++.+ +.+...|+.+..++...+.      +
T Consensus       124 ~l~~~~eAl~~~~kal~~dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~-p~n~~a~~~r~~~l~~~~~~~~~~~~  202 (315)
T d2h6fa1         124 WLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYNDRAVL  202 (315)
T ss_dssp             HHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCSHHHH
T ss_pred             hhccHHHHHHHHhhhhhhhhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHC-CccHHHHHHHHHHHHHccccchhhhh
Confidence            55555555555555543222   223344555566666677777777777753 3456677766666655444      5


Q ss_pred             HHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhcc--C-------C
Q 038401          417 ANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGAR--K-------D  485 (542)
Q Consensus       417 ~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~--g-------~  485 (542)
                      ++|++.+.++++.  .| +...|..+...+...| .+++.+.++.+.+......+...+. ++.+|...  +       .
T Consensus       203 ~~ai~~~~~al~~--~P~~~~~~~~l~~ll~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~  279 (315)
T d2h6fa1         203 EREVQYTLEMIKL--VPHNESAWNYLKGILQDRG-LSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNKEDI  279 (315)
T ss_dssp             HHHHHHHHHHHHH--STTCHHHHHHHHHHHTTTC-GGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSSHHHH
T ss_pred             HHhHHHHHHHHHh--CCCchHHHHHHHHHHHhcC-hHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHHHHhcCHHHHHHH
Confidence            6777777777763  35 4566666655554443 4667777777766553322222222 44544331  2       2


Q ss_pred             hHHHHHHHHHHhcCCCCCchhHHHHHHHHH
Q 038401          486 FNMLESLFERLDSDSNINKKELHHVVAGIY  515 (542)
Q Consensus       486 ~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~  515 (542)
                      +++|.++++.+....++-....|..+++.+
T Consensus       280 ~~ka~~l~~~l~~~~DpiR~~yw~~~~~~l  309 (315)
T d2h6fa1         280 LNKALELCEILAKEKDTIRKEYWRYIGRSL  309 (315)
T ss_dssp             HHHHHHHHHHHHHTTCGGGHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            455555555544333322234455544443

>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=99.29  E-value=4.7e-10  Score=101.56  Aligned_cols=262  Identities=13%  Similarity=-0.025  Sum_probs=132.8

Q ss_pred             HHHHHHHhcCcHHHHHHHHHHHHhcCCCCc----HHHHHHHHHHHHccCCHHHHHHHHHHHHHcCC-CCC----HHHHHH
Q 038401          234 TLLRVYGEAELFGEAIHLFRLMQRKEIEQN----VVTYNTMIKIYGKSLEHEKATNLMQEMQNRGI-EPN----AITYST  304 (542)
Q Consensus       234 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~p~----~~~~~~  304 (542)
                      .....+...|++++|++++++........+    ...+..+...+...|++++|...+++..+... .++    ...+..
T Consensus        17 lrA~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~   96 (366)
T d1hz4a_          17 LRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQ   96 (366)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHH
Confidence            334556677888888888887776532211    23456666777778888888888877654310 111    123445


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhc----CCCCC---HHHHHHHHHHHHHcCCHHHHHHHHHHhcCC----CCC----CHH
Q 038401          305 IIAIWGKAGKLDRAAMLFQKLRSS----GVEID---PVLYQTMIVAYERVGLVAHAKRLLHELRQP----NTI----PRE  369 (542)
Q Consensus       305 l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~----~~~  369 (542)
                      +...+...|++..+...+......    .....   ...+..+...+...|+++.+...+......    +..    ...
T Consensus        97 ~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  176 (366)
T d1hz4a_          97 QSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLA  176 (366)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHH
Confidence            555666777777777777765431    11111   123344455566666666666666554321    000    011


Q ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHcCCC--c----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC---CHHHHHH
Q 038401          370 TAITILARAGRIEEATWVFRQAFDAGEV--K----DISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP---DSHIIAL  440 (542)
Q Consensus       370 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~--~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p---~~~~~~~  440 (542)
                      .....+...+++..+...+.+.......  .    ....+..+...+...|++++|...+++........   ....+..
T Consensus       177 ~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  256 (366)
T d1hz4a_         177 MLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRN  256 (366)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHH
T ss_pred             HHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHH
Confidence            2233344555666655555554432110  0    12233444445555566666666555554321111   1233444


Q ss_pred             HHHHHhccCcHHHHHHHHHHHHHcC---CCCchH-HHHH-HHHHHhccCChHHHHHHHHH
Q 038401          441 VLNSYGKLREFETADDLYSEMQEEG---CVFSDQ-VHFQ-MLSLYGARKDFNMLESLFER  495 (542)
Q Consensus       441 l~~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~-~~~~-l~~~~~~~g~~~~A~~~~~~  495 (542)
                      +..++...|++++|...++++....   ...|.. ..+. ++.+|.+.|++++|.+.+++
T Consensus       257 la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~  316 (366)
T d1hz4a_         257 IARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLD  316 (366)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            5555555666666666665554321   111221 1222 55555566666666665555

>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=99.27  E-value=1.6e-09  Score=95.47  Aligned_cols=188  Identities=15%  Similarity=0.168  Sum_probs=124.5

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHH
Q 038401           69 MFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIE  148 (542)
Q Consensus        69 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  148 (542)
                      ..++|..+|++..+...+.+...|...+......|+++.|..+|+++.+.........|...+....+.|+++.|.++|+
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            34667777777776544445566777777777777777777777777765322224467777777777777777888877


Q ss_pred             HHHHcCCCCCHHHHHHHHHH-HHHCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCC-CC
Q 038401          149 EMREQGVKPDTVSYSTLLNL-YVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMG-ID  226 (542)
Q Consensus       149 ~~~~~g~~~~~~~~~~l~~~-~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~  226 (542)
                      ...+.+. .+...|...... +...|+.+.|..+|+.+... .+.+...|...+......|+.+.|..+|++..... ..
T Consensus       159 ~al~~~~-~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~-~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~  236 (308)
T d2onda1         159 KAREDAR-TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLP  236 (308)
T ss_dssp             HHHTSTT-CCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSC
T ss_pred             HHHHhCC-CcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh-hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCC
Confidence            7776542 233344333332 33457777788888777765 34566777777777778888888888888876653 23


Q ss_pred             CC--hhHHHHHHHHHHhcCcHHHHHHHHHHHHhc
Q 038401          227 PS--VVSYNTLLRVYGEAELFGEAIHLFRLMQRK  258 (542)
Q Consensus       227 ~~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  258 (542)
                      |+  ...|...+..-...|+.+.+..+++.+.+.
T Consensus       237 ~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~  270 (308)
T d2onda1         237 PEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             GGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            32  345777777667778888888887776654

>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=99.24  E-value=3.3e-08  Score=88.97  Aligned_cols=196  Identities=11%  Similarity=-0.019  Sum_probs=94.1

Q ss_pred             HHHHHHCCChHHHHHHHHHHHhcCCCCC----hhhHHHHHHHHhccCCHHHHHHHHHHHHHCCC-CCC----hhHHHHHH
Q 038401          166 LNLYVENHKFVEALSVFAEMNEVNCPLD----LTTCNIMIDVYGQLDMAKDADRLFWSMRKMGI-DPS----VVSYNTLL  236 (542)
Q Consensus       166 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~ll  236 (542)
                      ...+...|++++|++++++..+.....+    ...+..+..++...|++++|...++....... .++    ...+..+.
T Consensus        19 A~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~   98 (366)
T d1hz4a_          19 AQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQS   98 (366)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHH
Confidence            3444555666666666665554321111    12344445555566666666666655543210 011    12333444


Q ss_pred             HHHHhcCcHHHHHHHHHHHHhc----CCC--C-cHHHHHHHHHHHHccCCHHHHHHHHHHHHHcC----CCCCHHHHHHH
Q 038401          237 RVYGEAELFGEAIHLFRLMQRK----EIE--Q-NVVTYNTMIKIYGKSLEHEKATNLMQEMQNRG----IEPNAITYSTI  305 (542)
Q Consensus       237 ~~~~~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~p~~~~~~~l  305 (542)
                      ..+...|++..+...+......    ...  + ....+..+...+...|+++.+...+.......    .......+...
T Consensus        99 ~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  178 (366)
T d1hz4a_          99 EILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAML  178 (366)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHH
Confidence            5556666666666666554331    111  1 11234445556666677777777666655431    11122334444


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcC--CCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHhc
Q 038401          306 IAIWGKAGKLDRAAMLFQKLRSSG--VEID----PVLYQTMIVAYERVGLVAHAKRLLHELR  361 (542)
Q Consensus       306 ~~~~~~~~~~~~a~~~~~~~~~~~--~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~  361 (542)
                      ...+...++...+...+.......  ....    ...+..+...+...|+++.|...+....
T Consensus       179 ~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  240 (366)
T d1hz4a_         179 IQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTA  240 (366)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             HHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHH
Confidence            455556666666666665543310  1111    1223333444555566666665555544

>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=99.24  E-value=2.6e-09  Score=94.06  Aligned_cols=189  Identities=8%  Similarity=-0.018  Sum_probs=151.4

Q ss_pred             CCHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHHHHHHH
Q 038401          103 SDYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVF  182 (542)
Q Consensus       103 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a~~~~  182 (542)
                      +..++|..+|++..+...+.+...|...+....+.|+++.|..+|+.+...........|...+....+.|+.+.|.++|
T Consensus        78 ~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~  157 (308)
T d2onda1          78 LFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIF  157 (308)
T ss_dssp             HHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHH
Confidence            34578899999988765556677888888899999999999999999987643334567899999999999999999999


Q ss_pred             HHHHhcCCCCChhhHHHHHHH-HhccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcC-C
Q 038401          183 AEMNEVNCPLDLTTCNIMIDV-YGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKE-I  260 (542)
Q Consensus       183 ~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~  260 (542)
                      ..+.+.. +.+...|...... +...|+.+.|..+|+.+.... +.+...|...+..+.+.|+++.|..+|+...... .
T Consensus       158 ~~al~~~-~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~-p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~  235 (308)
T d2onda1         158 KKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSL  235 (308)
T ss_dssp             HHHHTST-TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSS
T ss_pred             HHHHHhC-CCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhh-hhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC
Confidence            9998765 3344455444433 345688999999999999863 5567889999999999999999999999988763 2


Q ss_pred             CCc--HHHHHHHHHHHHccCCHHHHHHHHHHHHHc
Q 038401          261 EQN--VVTYNTMIKIYGKSLEHEKATNLMQEMQNR  293 (542)
Q Consensus       261 ~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  293 (542)
                      .|.  ...|...+..-...|+.+.+.++.+++.+.
T Consensus       236 ~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~  270 (308)
T d2onda1         236 PPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             CGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            332  457888888878889999999999988765

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=99.24  E-value=1.3e-10  Score=99.89  Aligned_cols=148  Identities=9%  Similarity=-0.027  Sum_probs=86.2

Q ss_pred             CHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHH
Q 038401          279 EHEKATNLMQEMQNRGIEPN---AITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKR  355 (542)
Q Consensus       279 ~~~~a~~~~~~~~~~~~~p~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  355 (542)
                      +.+.++..+++........+   ..++..+..+|.+.|++++|...|++.++.. +-++.++..+..++.+.|++++|+.
T Consensus        14 ~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~~   92 (259)
T d1xnfa_          14 QQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYE   92 (259)
T ss_dssp             HHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhhh
Confidence            45566666666665421111   2355566667777888888888888877764 3466777777777777777777777


Q ss_pred             HHHHhcCCC---CCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 038401          356 LLHELRQPN---TIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRS  428 (542)
Q Consensus       356 ~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  428 (542)
                      .|+++...+   ...+..+..++...|++++|.+.|+++++..+ .+......+..++...+..+.+..+......
T Consensus        93 ~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  167 (259)
T d1xnfa_          93 AFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDDP-NDPFRSLWLYLAEQKLDEKQAKEVLKQHFEK  167 (259)
T ss_dssp             HHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHCHHHHHHHHHHHHHH
T ss_pred             hhhHHHHHHhhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhcc-ccHHHHHHHHHHHHHhhhHHHHHHHHHHhhc
Confidence            777665422   22344455556666666666666666666532 3333333333444444444444444444444

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.17  E-value=1.9e-10  Score=102.92  Aligned_cols=231  Identities=6%  Similarity=-0.061  Sum_probs=118.6

Q ss_pred             hcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccC--CHHHHHHHHHHHHHcCCCCCHHHHH-HHHHHHHhcCCHHH
Q 038401          241 EAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSL--EHEKATNLMQEMQNRGIEPNAITYS-TIIAIWGKAGKLDR  317 (542)
Q Consensus       241 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~p~~~~~~-~l~~~~~~~~~~~~  317 (542)
                      ..|.+++|+..++...... +.+...|..+..++...+  +.++|...+.++.... +++...+. .....+...+.++.
T Consensus        85 ~~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~  162 (334)
T d1dcea1          85 SAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAE  162 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHH
T ss_pred             HHHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHH
Confidence            3445667777777766654 335556666655555544  3667777777776653 22344433 33345556677777


Q ss_pred             HHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCC
Q 038401          318 AAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEV  397 (542)
Q Consensus       318 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  397 (542)
                      |+..++.+.+.+ +-+...|..+..++.+.|++++|...+...                               .+.  .
T Consensus       163 Al~~~~~~i~~~-p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~-------------------------------~~~--~  208 (334)
T d1dcea1         163 ELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQGRLP-------------------------------ENV--L  208 (334)
T ss_dssp             HHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSSSCCSSC-------------------------------HHH--H
T ss_pred             HHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHh-------------------------------HHh--H
Confidence            777777776664 335666666666666666665543322221                               110  0


Q ss_pred             cCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchH-HHHH-
Q 038401          398 KDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQ-VHFQ-  475 (542)
Q Consensus       398 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~-~~~~-  475 (542)
                      |+   .......+...+..+++...+.+..... +++...+..++..+...|+.++|...+.+....+   |+. ..+. 
T Consensus       209 ~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---p~~~~~~~~  281 (334)
T d1dcea1         209 LK---ELELVQNAFFTDPNDQSAWFYHRWLLGR-AEPLFRCELSVEKSTVLQSELESCKELQELEPEN---KWCLLTIIL  281 (334)
T ss_dssp             HH---HHHHHHHHHHHCSSCSHHHHHHHHHHSC-CCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTC---HHHHHHHHH
T ss_pred             HH---HHHHHHHHHHhcchhHHHHHHHHHHHhC-cchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhC---chHHHHHHH
Confidence            00   0111222333444455555555555422 1122333344445555556666666666555544   322 2222 


Q ss_pred             HHHHHhccCChHHHHHHHHH-HhcCCCCCchhHHHHHHHHHH
Q 038401          476 MLSLYGARKDFNMLESLFER-LDSDSNINKKELHHVVAGIYE  516 (542)
Q Consensus       476 l~~~~~~~g~~~~A~~~~~~-~~~~~~~~~~~~~~~l~~~~~  516 (542)
                      ++.++...|++++|++.+++ +..+|.  ...+|..+...+.
T Consensus       282 l~~~~~~~~~~~eA~~~~~~ai~ldP~--~~~y~~~L~~~~~  321 (334)
T d1dcea1         282 LMRALDPLLYEKETLQYFSTLKAVDPM--RAAYLDDLRSKFL  321 (334)
T ss_dssp             HHHHHCTGGGHHHHHHHHHHHHHHCGG--GHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHCcc--cHHHHHHHHHHHh
Confidence            55566666666666666666 233332  2344555544444

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=99.14  E-value=2.1e-09  Score=92.11  Aligned_cols=94  Identities=13%  Similarity=-0.052  Sum_probs=46.1

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHH
Q 038401          266 TYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYE  345 (542)
Q Consensus       266 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  345 (542)
                      ++..+..+|.+.|++++|+..|++..... +-++.+|..+..++...|++++|+..|+++.+.. +.+...+..+..++.
T Consensus        39 ~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~  116 (259)
T d1xnfa_          39 LLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRGIALY  116 (259)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHH-hhhhhhHHHHHHHHH
Confidence            34444445555555555555555554432 2234445555555555555555555555555443 223344444455555


Q ss_pred             HcCCHHHHHHHHHHhc
Q 038401          346 RVGLVAHAKRLLHELR  361 (542)
Q Consensus       346 ~~~~~~~a~~~~~~~~  361 (542)
                      ..|++++|...++...
T Consensus       117 ~~g~~~~A~~~~~~al  132 (259)
T d1xnfa_         117 YGGRDKLAQDDLLAFY  132 (259)
T ss_dssp             HTTCHHHHHHHHHHHH
T ss_pred             HHhhHHHHHHHHHHHH
Confidence            5555555555555444

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.13  E-value=1.4e-09  Score=97.20  Aligned_cols=211  Identities=4%  Similarity=-0.119  Sum_probs=135.6

Q ss_pred             HHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcC--CHHHHHHHHHHhcCCCCCCHH----HHHHHHHHhCCHHHHHHHH
Q 038401          315 LDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVG--LVAHAKRLLHELRQPNTIPRE----TAITILARAGRIEEATWVF  388 (542)
Q Consensus       315 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~----~l~~~~~~~g~~~~A~~~~  388 (542)
                      +++|+..++.+.+.+ +.+...|..+..++...+  ++++|...+..+...++....    .....+...+.++.|+..+
T Consensus        89 ~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Al~~~  167 (334)
T d1dcea1          89 VKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFT  167 (334)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhCchhhhhhhhHHHHHHHhccccHHHHHHH
Confidence            444444444444432 223444444433333332  244454444444332222211    1123344456777777777


Q ss_pred             HHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCC
Q 038401          389 RQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVF  468 (542)
Q Consensus       389 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  468 (542)
                      +++++.+ +.+...|+.+..++...|++++|...+++..+  +.|+..   .+...+...+..+++...+.......  +
T Consensus       168 ~~~i~~~-p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~~---~~~~~~~~l~~~~~a~~~~~~~l~~~--~  239 (334)
T d1dcea1         168 DSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPEN--VLLKEL---ELVQNAFFTDPNDQSAWFYHRWLLGR--A  239 (334)
T ss_dssp             HTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHH--HHHHHH---HHHHHHHHHCSSCSHHHHHHHHHHSC--C
T ss_pred             HHHHHcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHhHH--hHHHHH---HHHHHHHHhcchhHHHHHHHHHHHhC--c
Confidence            7777764 35788899999999999999998877766655  223221   22334456677788999999998876  2


Q ss_pred             chHHHHH-HHHHHhccCChHHHHHHHHHHh-cCCCCCchhHHHHHHHHHHhhcchhhHHHHHHHHHhcCC
Q 038401          469 SDQVHFQ-MLSLYGARKDFNMLESLFERLD-SDSNINKKELHHVVAGIYERANRLNDASRIMNRMNKRRT  536 (542)
Q Consensus       469 ~~~~~~~-l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  536 (542)
                      +....+. ++..+...|++++|...+.+.. .+|.  ...+|..++.+|...|++++|+.+++++.+..+
T Consensus       240 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~--~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ldP  307 (334)
T d1dcea1         240 EPLFRCELSVEKSTVLQSELESCKELQELEPENKW--CLLTIILLMRALDPLLYEKETLQYFSTLKAVDP  307 (334)
T ss_dssp             CCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTCHH--HHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCG
T ss_pred             chhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhCch--HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCc
Confidence            2232333 7788888999999999999854 3333  568899999999999999999999999988653

>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=98.98  E-value=8.9e-09  Score=82.92  Aligned_cols=120  Identities=9%  Similarity=-0.018  Sum_probs=85.7

Q ss_pred             HHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCc
Q 038401          372 ITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLRE  450 (542)
Q Consensus       372 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~  450 (542)
                      ...+...|+++.|++.|.++    .+|++.+|..++.+|...|++++|++.|++.++.  .| +...|..++.+|.+.|+
T Consensus        12 g~~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~l--dp~~~~a~~~~g~~~~~~g~   85 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINR--DKHLAVAYFQRGMLYYQTEK   85 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHH--hhhhhhhHHHHHHHHHhhcc
Confidence            34456778888888888764    3466777778888888888888888888888873  35 45777778888888888


Q ss_pred             HHHHHHHHHHHHHcCCCCc---------------hHHHHHHHHHHhccCChHHHHHHHHHHh
Q 038401          451 FETADDLYSEMQEEGCVFS---------------DQVHFQMLSLYGARKDFNMLESLFERLD  497 (542)
Q Consensus       451 ~~~A~~~~~~~~~~~~~~~---------------~~~~~~l~~~~~~~g~~~~A~~~~~~~~  497 (542)
                      +++|+..|++++......+               ....+.++.++...|++++|.+.+++..
T Consensus        86 ~~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~  147 (192)
T d1hh8a_          86 YDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALAT  147 (192)
T ss_dssp             HHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            8888888888876531111               1233347777788888888888877743

>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=98.86  E-value=3.9e-08  Score=71.77  Aligned_cols=85  Identities=7%  Similarity=0.019  Sum_probs=49.2

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccC
Q 038401          407 IELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARK  484 (542)
Q Consensus       407 ~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g  484 (542)
                      +..+...|++++|+..|+++++.  .| +...|..++.+|...|++++|+..++++++.+  |.+...+. ++.++...|
T Consensus        10 g~~~~~~g~~~eAi~~~~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~~g~~~~~~~   85 (117)
T d1elwa_          10 GNKALSVGNIDDALQCYSEAIKL--DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK--PDWGKGYSRKAAALEFLN   85 (117)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhc--CCcchhhhhcccccccccccccccchhhhhHHHhc--cchhhHHHHHHHHHHHcc
Confidence            44555666666666666666652  23 34556666666666666666666666666655  12222222 666666666


Q ss_pred             ChHHHHHHHHH
Q 038401          485 DFNMLESLFER  495 (542)
Q Consensus       485 ~~~~A~~~~~~  495 (542)
                      ++++|+..+++
T Consensus        86 ~~~~A~~~~~~   96 (117)
T d1elwa_          86 RFEEAKRTYEE   96 (117)
T ss_dssp             CHHHHHHHHHH
T ss_pred             CHHHHHHHHHH
Confidence            66666666666

>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Protein phosphatase 5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.82  E-value=7.4e-08  Score=74.95  Aligned_cols=117  Identities=11%  Similarity=0.020  Sum_probs=70.2

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhc
Q 038401          405 CMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGA  482 (542)
Q Consensus       405 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~  482 (542)
                      ..+..|.+.|++++|+..|+++++.  .| +...|..++.+|...|++++|...|+++++.+  |.....+. ++.++..
T Consensus        15 ~~gn~~~~~~~y~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~--p~~~~a~~~~g~~~~~   90 (159)
T d1a17a_          15 TQANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELD--KKYIKGYYRRAASNMA   90 (159)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHhhhcccc--chhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc--ccchHHHHHHHHHHHH
Confidence            3455666777777777777777763  34 45666777777777777777777777777765  12222233 6777777


Q ss_pred             cCChHHHHHHHHHH-hcCCCCCchhHHHHHHHHH--HhhcchhhHHHH
Q 038401          483 RKDFNMLESLFERL-DSDSNINKKELHHVVAGIY--ERANRLNDASRI  527 (542)
Q Consensus       483 ~g~~~~A~~~~~~~-~~~~~~~~~~~~~~l~~~~--~~~g~~~~A~~~  527 (542)
                      .|++++|...+++. ...|.  +..++..+..+.  ...+.+++|...
T Consensus        91 ~g~~~eA~~~~~~a~~~~p~--~~~~~~~l~~~~~~~~~~~~~~a~~~  136 (159)
T d1a17a_          91 LGKFRAALRDYETVVKVKPH--DKDAKMKYQECNKIVKQKAFERAIAG  136 (159)
T ss_dssp             TTCHHHHHHHHHHHHHHSTT--CHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHcCCC--CHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            77777777777773 33443  334444444332  333445555544

>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=98.81  E-value=2.5e-08  Score=81.42  Aligned_cols=95  Identities=9%  Similarity=-0.042  Sum_probs=77.9

Q ss_pred             cCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHH-H
Q 038401          398 KDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHF-Q  475 (542)
Q Consensus       398 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~-~  475 (542)
                      |+...+...+..|.+.|++++|+..|+++++.  .| +...|..++.+|.+.|++++|+..|+++++..  |.....+ .
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~--~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~--p~~~~a~~~   77 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALELD--GQSVKAHFF   77 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC--TTCHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhC--CCcHHHHHH
Confidence            66777788888999999999999999998884  35 56788889999999999999999999998876  2223333 3


Q ss_pred             HHHHHhccCChHHHHHHHHHH
Q 038401          476 MLSLYGARKDFNMLESLFERL  496 (542)
Q Consensus       476 l~~~~~~~g~~~~A~~~~~~~  496 (542)
                      ++.+|...|++++|...+++.
T Consensus        78 lg~~~~~l~~~~~A~~~~~~a   98 (201)
T d2c2la1          78 LGQCQLEMESYDEAIANLQRA   98 (201)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHH
Confidence            899999999999999999883

>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=98.80  E-value=8.3e-08  Score=69.94  Aligned_cols=92  Identities=14%  Similarity=0.092  Sum_probs=81.7

Q ss_pred             HHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcH
Q 038401          372 ITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREF  451 (542)
Q Consensus       372 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~  451 (542)
                      ...+...|++++|+..|+++++.. +.++..|..++.++...|++++|+..++++++.+ +.+...|..++.++...|++
T Consensus        10 g~~~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~~   87 (117)
T d1elwa_          10 GNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRF   87 (117)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccCH
Confidence            556788899999999999999874 4678899999999999999999999999999853 23678899999999999999


Q ss_pred             HHHHHHHHHHHHcC
Q 038401          452 ETADDLYSEMQEEG  465 (542)
Q Consensus       452 ~~A~~~~~~~~~~~  465 (542)
                      ++|+..|+++++..
T Consensus        88 ~~A~~~~~~a~~~~  101 (117)
T d1elwa_          88 EEAKRTYEEGLKHE  101 (117)
T ss_dssp             HHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHhC
Confidence            99999999999977

>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=98.80  E-value=2.1e-07  Score=74.69  Aligned_cols=124  Identities=11%  Similarity=0.009  Sum_probs=99.4

Q ss_pred             HHHHHHcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHH
Q 038401          341 IVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVI  420 (542)
Q Consensus       341 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  420 (542)
                      ...+...|+++.|++.|.++..+++..+..+..++...|++++|++.|+++++.+ +.++..|..++.++.+.|++++|+
T Consensus        12 g~~~~~~~d~~~Al~~~~~i~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~~~g~~~~A~   90 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKYDLAI   90 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHHhhccHHHHH
Confidence            3456678888888888887776666667777888888899999999999999874 467889999999999999999999


Q ss_pred             HHHHHHHhCCC--------------CCC-HHHHHHHHHHHhccCcHHHHHHHHHHHHHcC
Q 038401          421 EVFEKMRSAGY--------------FPD-SHIIALVLNSYGKLREFETADDLYSEMQEEG  465 (542)
Q Consensus       421 ~~~~~~~~~~~--------------~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  465 (542)
                      +.|++.+....              .++ ..++..+..++.+.|++++|.+.++.+.+..
T Consensus        91 ~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~  150 (192)
T d1hh8a_          91 KDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  150 (192)
T ss_dssp             HHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            99999876310              111 2556677888999999999999999999876

>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=98.75  E-value=1.5e-07  Score=73.10  Aligned_cols=91  Identities=14%  Similarity=0.031  Sum_probs=81.9

Q ss_pred             HHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCc
Q 038401          372 ITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLRE  450 (542)
Q Consensus       372 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~  450 (542)
                      ...+.+.|++++|+..|+++++.. +.+...|..++.+|...|++++|+..|+++++.  .| +...|..++.++...|+
T Consensus        17 gn~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~--~p~~~~a~~~~g~~~~~~g~   93 (159)
T d1a17a_          17 ANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIEL--DKKYIKGYYRRAASNMALGK   93 (159)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHH--cccchHHHHHHHHHHHHcCC
Confidence            456788999999999999999985 468899999999999999999999999999984  46 55889999999999999


Q ss_pred             HHHHHHHHHHHHHcC
Q 038401          451 FETADDLYSEMQEEG  465 (542)
Q Consensus       451 ~~~A~~~~~~~~~~~  465 (542)
                      +++|...++++.+..
T Consensus        94 ~~eA~~~~~~a~~~~  108 (159)
T d1a17a_          94 FRAALRDYETVVKVK  108 (159)
T ss_dssp             HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHcC
Confidence            999999999999987

>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=98.75  E-value=6.2e-07  Score=77.59  Aligned_cols=166  Identities=15%  Similarity=0.068  Sum_probs=82.0

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhc----CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhC
Q 038401          305 IIAIWGKAGKLDRAAMLFQKLRSS----GVEI-DPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARAG  379 (542)
Q Consensus       305 l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g  379 (542)
                      ....|...+++++|.+.|.++.+.    +-++ ...+|..+..+|.+.|++++|...++....           .+...|
T Consensus        43 aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~-----------~~~~~~  111 (290)
T d1qqea_          43 AATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQ-----------IFTHRG  111 (290)
T ss_dssp             HHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH-----------HHHHTT
T ss_pred             HHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhH-----------Hhhhcc
Confidence            345677888888888888877643    1111 134556666666667777777666655321           111111


Q ss_pred             CHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHH-hcCCHHHHHHHHHHHHhC----CCCCC-HHHHHHHHHHHhccCcHHH
Q 038401          380 RIEEATWVFRQAFDAGEVKDISVFGCMIELFS-RNKKYANVIEVFEKMRSA----GYFPD-SHIIALVLNSYGKLREFET  453 (542)
Q Consensus       380 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~g~~~~A~~~~~~~~~~----~~~p~-~~~~~~l~~~~~~~g~~~~  453 (542)
                      +...+               ..++..++..|. ..|++++|++.++++.+.    +..+. ..++..++..+...|++++
T Consensus       112 ~~~~~---------------~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~  176 (290)
T d1qqea_         112 QFRRG---------------ANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIE  176 (290)
T ss_dssp             CHHHH---------------HHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             cchhH---------------HHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHH
Confidence            11111               223333344442 235666666666555431    11111 1334555556666666666


Q ss_pred             HHHHHHHHHHcCCCCchH-----HH-HHHHHHHhccCChHHHHHHHHHH
Q 038401          454 ADDLYSEMQEEGCVFSDQ-----VH-FQMLSLYGARKDFNMLESLFERL  496 (542)
Q Consensus       454 A~~~~~~~~~~~~~~~~~-----~~-~~l~~~~~~~g~~~~A~~~~~~~  496 (542)
                      |+..|+++.......+..     .. ...+.++...|+++.|...+++.
T Consensus       177 A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~  225 (290)
T d1qqea_         177 ASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEG  225 (290)
T ss_dssp             HHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGG
T ss_pred             HHHHHHHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHHHH
Confidence            666666655543211110     11 11344445556666666666663

>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=98.74  E-value=1.6e-07  Score=81.40  Aligned_cols=164  Identities=15%  Similarity=0.081  Sum_probs=116.2

Q ss_pred             HHHHHHhCCHHHHHHHHHHHHHcC----CCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCC-CHHHHHHH
Q 038401          372 ITILARAGRIEEATWVFRQAFDAG----EVK-DISVFGCMIELFSRNKKYANVIEVFEKMRSA----GYFP-DSHIIALV  441 (542)
Q Consensus       372 ~~~~~~~g~~~~A~~~~~~~~~~~----~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~p-~~~~~~~l  441 (542)
                      ..+|...|++++|.+.|.++.+..    .++ -..+|..++.+|.+.|++++|++.+++..+.    |..+ ...++..+
T Consensus        44 a~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l  123 (290)
T d1qqea_          44 ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFEL  123 (290)
T ss_dssp             HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHH
Confidence            456677777777777777776531    111 2457888999999999999999999988752    1111 13556677


Q ss_pred             HHHHh-ccCcHHHHHHHHHHHHHcC---CCCch-HHHHH-HHHHHhccCChHHHHHHHHHHhcCCCCCc------hhHHH
Q 038401          442 LNSYG-KLREFETADDLYSEMQEEG---CVFSD-QVHFQ-MLSLYGARKDFNMLESLFERLDSDSNINK------KELHH  509 (542)
Q Consensus       442 ~~~~~-~~g~~~~A~~~~~~~~~~~---~~~~~-~~~~~-l~~~~~~~g~~~~A~~~~~~~~~~~~~~~------~~~~~  509 (542)
                      +..|. ..|++++|++.|+++.+..   ..++. ...+. ++.++...|++++|.+.++++.......+      ...+.
T Consensus       124 ~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~  203 (290)
T d1qqea_         124 GEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFL  203 (290)
T ss_dssp             HHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHH
T ss_pred             HHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHHH
Confidence            77774 4699999999999987642   11121 22333 89999999999999999999543221111      24566


Q ss_pred             HHHHHHHhhcchhhHHHHHHHHHhcC
Q 038401          510 VVAGIYERANRLNDASRIMNRMNKRR  535 (542)
Q Consensus       510 ~l~~~~~~~g~~~~A~~~~~~~~~~~  535 (542)
                      ..+.++...|+++.|...+++..+..
T Consensus       204 ~~~~~~l~~~d~~~A~~~~~~~~~~~  229 (290)
T d1qqea_         204 KKGLCQLAATDAVAAARTLQEGQSED  229 (290)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHGGGCC-
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHhC
Confidence            77888889999999999999987754

>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=98.71  E-value=2.7e-05  Score=66.00  Aligned_cols=147  Identities=11%  Similarity=0.098  Sum_probs=92.2

Q ss_pred             CCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHH----hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhc----cCc
Q 038401          379 GRIEEATWVFRQAFDAGEVKDISVFGCMIELFS----RNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGK----LRE  450 (542)
Q Consensus       379 g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~----~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~  450 (542)
                      .+.+.|...++...+.|..   .....+...+.    .......+...+......   .+...+..+...|..    ..+
T Consensus        88 ~~~~~a~~~~~~a~~~g~~---~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~L~~~~~~~~~~~~~  161 (265)
T d1ouva_          88 QNTNKALQYYSKACDLKYA---EGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL---NDGDGCTILGSLYDAGRGTPKD  161 (265)
T ss_dssp             CCHHHHHHHHHHHHHTTCH---HHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCC
T ss_pred             hhhHHHHHHHhhhhhhhhh---hHHHhhcccccCCCcccchhHHHHHHhhhhhcc---cccchhhhhhhhhccCCCcccc
Confidence            4556677777777665432   22222333332    234566666666666553   355566666666653    456


Q ss_pred             HHHHHHHHHHHHHcCCCCchHHHHHHHHHHhc----cCChHHHHHHHHHHhcCCCCCchhHHHHHHHHHHh----hcchh
Q 038401          451 FETADDLYSEMQEEGCVFSDQVHFQMLSLYGA----RKDFNMLESLFERLDSDSNINKKELHHVVAGIYER----ANRLN  522 (542)
Q Consensus       451 ~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~  522 (542)
                      ...+..+++...+.+   .....+.++..+..    ..++++|+.+|++....+   +..+++.|+.+|..    ..+++
T Consensus       162 ~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~LG~~y~~G~g~~~n~~  235 (265)
T d1ouva_         162 LKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAMQYNGEGVTRNEK  235 (265)
T ss_dssp             HHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHTTSSSSCCST
T ss_pred             cccchhhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhhhccc---CHHHHHHHHHHHHcCCCCccCHH
Confidence            778888888888765   33344446666654    567888888888865443   34577788888875    33788


Q ss_pred             hHHHHHHHHHhcCCC
Q 038401          523 DASRIMNRMNKRRTF  537 (542)
Q Consensus       523 ~A~~~~~~~~~~~~~  537 (542)
                      +|.++|++.-+.|..
T Consensus       236 ~A~~~~~kAa~~g~~  250 (265)
T d1ouva_         236 QAIENFKKGCKLGAK  250 (265)
T ss_dssp             THHHHHHHHHHHTCH
T ss_pred             HHHHHHHHHHHCcCH
Confidence            899998888777643

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=98.68  E-value=1e-07  Score=68.79  Aligned_cols=87  Identities=10%  Similarity=-0.009  Sum_probs=60.8

Q ss_pred             HHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHHHH-HhcCCCCCchhHHHHHHHHHHhh
Q 038401          441 VLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLFER-LDSDSNINKKELHHVVAGIYERA  518 (542)
Q Consensus       441 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~  518 (542)
                      .+..+.+.|++++|+..|+++++.+  |.+...+. ++.++.+.|++++|+..+++ +..+|.  ...+|..++.+|...
T Consensus        22 ~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~--~~~a~~~la~~y~~~   97 (112)
T d1hxia_          22 EGLSMLKLANLAEAALAFEAVCQKE--PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPK--DIAVHAALAVSHTNE   97 (112)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHhhhcccc--cccchhhhhhhhhhhhhhhHHHhhcccccccccccc--cccchHHHHHHHHHC
Confidence            4556677777777777777777765  22233333 77777778888888877777 454554  456777788888888


Q ss_pred             cchhhHHHHHHHH
Q 038401          519 NRLNDASRIMNRM  531 (542)
Q Consensus       519 g~~~~A~~~~~~~  531 (542)
                      |++++|++.+++.
T Consensus        98 g~~~~A~~~l~~~  110 (112)
T d1hxia_          98 HNANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHH
Confidence            8888888877764

>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=98.66  E-value=4.8e-08  Score=79.69  Aligned_cols=95  Identities=5%  Similarity=-0.065  Sum_probs=85.1

Q ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHh
Q 038401          368 RETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYG  446 (542)
Q Consensus       368 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~  446 (542)
                      ....+..+.+.|++++|+..|+++++.. +.++..|..++.+|.+.|++++|+..|+++++  +.| +...|..++.+|.
T Consensus         7 l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~--l~p~~~~a~~~lg~~~~   83 (201)
T d2c2la1           7 LKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALE--LDGQSVKAHFFLGQCQL   83 (201)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTT--SCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHH--hCCCcHHHHHHHHHHHH
Confidence            3445778999999999999999999984 46889999999999999999999999999998  557 4688999999999


Q ss_pred             ccCcHHHHHHHHHHHHHcC
Q 038401          447 KLREFETADDLYSEMQEEG  465 (542)
Q Consensus       447 ~~g~~~~A~~~~~~~~~~~  465 (542)
                      ..|++++|+..|+++++..
T Consensus        84 ~l~~~~~A~~~~~~al~l~  102 (201)
T d2c2la1          84 EMESYDEAIANLQRAYSLA  102 (201)
T ss_dssp             HTTCHHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHhC
Confidence            9999999999999998864

>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=98.61  E-value=1e-07  Score=69.62  Aligned_cols=107  Identities=11%  Similarity=0.093  Sum_probs=76.0

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccC---cHHHHHHHHHHHHHcCCCCchH--HHHHHHH
Q 038401          404 GCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLR---EFETADDLYSEMQEEGCVFSDQ--VHFQMLS  478 (542)
Q Consensus       404 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~~~~~~~--~~~~l~~  478 (542)
                      ..++..+...+++++|.+.|++.+..+ +.+..++..++.++.+.+   ++++|+.+++++++.+. .|..  ..+.++.
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~-~~~~~~~~~~Lg~   80 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGS-KEEQRDYVFYLAV   80 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSC-HHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccC-CchHHHHHHHHHH
Confidence            467778888899999999999998843 235678888888887644   55678999998887651 2222  2344888


Q ss_pred             HHhccCChHHHHHHHHH-HhcCCCCCchhHHHHHHHH
Q 038401          479 LYGARKDFNMLESLFER-LDSDSNINKKELHHVVAGI  514 (542)
Q Consensus       479 ~~~~~g~~~~A~~~~~~-~~~~~~~~~~~~~~~l~~~  514 (542)
                      +|.+.|++++|++.+++ +..+|+  +..+......+
T Consensus        81 ~y~~~g~~~~A~~~~~~aL~~~P~--~~~A~~l~~~I  115 (122)
T d1nzna_          81 GNYRLKEYEKALKYVRGLLQTEPQ--NNQAKELERLI  115 (122)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTT--CHHHHHHHHHH
T ss_pred             HHHHHhhhHHHHHHHHHHHHhCcC--CHHHHHHHHHH
Confidence            99999999999999999 455665  33444444333

>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=98.61  E-value=1.8e-07  Score=68.24  Aligned_cols=96  Identities=15%  Similarity=0.108  Sum_probs=67.8

Q ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCCCC-HHHHHHHHHH
Q 038401          369 ETAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNK---KYANVIEVFEKMRSAGYFPD-SHIIALVLNS  444 (542)
Q Consensus       369 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~  444 (542)
                      ..++..+...+++++|.+.|++++..+ +.++.++..++.++.+.+   ++++|+.+|++++..+..|+ ..++..++.+
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~   81 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVG   81 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHH
Confidence            346667777788888888888888764 356777777777776644   44568888888776432222 2356677788


Q ss_pred             HhccCcHHHHHHHHHHHHHcC
Q 038401          445 YGKLREFETADDLYSEMQEEG  465 (542)
Q Consensus       445 ~~~~g~~~~A~~~~~~~~~~~  465 (542)
                      |.+.|++++|++.|+++++..
T Consensus        82 y~~~g~~~~A~~~~~~aL~~~  102 (122)
T d1nzna_          82 NYRLKEYEKALKYVRGLLQTE  102 (122)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHhhhHHHHHHHHHHHHhC
Confidence            888888888888888888866

>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=98.60  E-value=3.8e-07  Score=65.65  Aligned_cols=87  Identities=14%  Similarity=0.050  Sum_probs=44.7

Q ss_pred             HHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCc
Q 038401          372 ITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLRE  450 (542)
Q Consensus       372 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~  450 (542)
                      ...+.+.|++++|+..|+++++.. +.++..|..++.++.+.|++++|+..|+++++  +.| +...|..++.+|...|+
T Consensus        23 g~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~--~~p~~~~a~~~la~~y~~~g~   99 (112)
T d1hxia_          23 GLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARM--LDPKDIAVHAALAVSHTNEHN   99 (112)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhHHHHHHHhhhcccc-cccchhhhhhhhhhhhhhhHHHhhcccccccc--cccccccchHHHHHHHHHCCC
Confidence            344445555555555555555542 23455555555555555555555555555555  223 34455555555555555


Q ss_pred             HHHHHHHHHHH
Q 038401          451 FETADDLYSEM  461 (542)
Q Consensus       451 ~~~A~~~~~~~  461 (542)
                      +++|.+.+++.
T Consensus       100 ~~~A~~~l~~~  110 (112)
T d1hxia_         100 ANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            55555555543

>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=98.59  E-value=0.00012  Score=61.87  Aligned_cols=49  Identities=14%  Similarity=0.047  Sum_probs=24.1

Q ss_pred             CcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHc----cCCHHHHHHHHHHHHHcC
Q 038401          243 ELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGK----SLEHEKATNLMQEMQNRG  294 (542)
Q Consensus       243 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~  294 (542)
                      .+++.|...|....+.|   ++..+..|...|.+    ..+.++|.+.|++..+.|
T Consensus       196 ~d~~~A~~~~~~aa~~g---~~~a~~~LG~~y~~G~g~~~n~~~A~~~~~kAa~~g  248 (265)
T d1ouva_         196 KNFKEALARYSKACELE---NGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLG  248 (265)
T ss_dssp             CCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             cchhhhhhhHhhhhccc---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHCc
Confidence            34555555555555543   33344444444443    224555555555555444

>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=98.51  E-value=2.2e-06  Score=67.01  Aligned_cols=83  Identities=17%  Similarity=0.077  Sum_probs=55.8

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHHHHH-hcCCCCCchhHHHHHHHH
Q 038401          437 IIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLFERL-DSDSNINKKELHHVVAGI  514 (542)
Q Consensus       437 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~~~~l~~~  514 (542)
                      +|..+..+|.+.|++++|+..++++++.+  |.+...+. ++.++...|++++|+..|++. ..+|+  +..+...+..+
T Consensus        64 ~~~nla~~y~k~~~~~~A~~~~~~al~~~--p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~--n~~~~~~l~~~  139 (170)
T d1p5qa1          64 SHLNLAMCHLKLQAFSAAIESCNKALELD--SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPN--NKAAKTQLAVC  139 (170)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSS--CHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcccccchhhhhhhcc--ccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCC--CHHHHHHHHHH
Confidence            45566777788888888888888888876  22233333 788888888888888888884 44554  45566666666


Q ss_pred             HHhhcchhh
Q 038401          515 YERANRLND  523 (542)
Q Consensus       515 ~~~~g~~~~  523 (542)
                      ..+.+...+
T Consensus       140 ~~~~~~~~~  148 (170)
T d1p5qa1         140 QQRIRRQLA  148 (170)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            655554443

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.44  E-value=5.2e-07  Score=66.80  Aligned_cols=94  Identities=10%  Similarity=0.132  Sum_probs=71.4

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchH-----HHH
Q 038401          401 SVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQ-----VHF  474 (542)
Q Consensus       401 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~-----~~~  474 (542)
                      ..+..++..+...|++++|+..|++.++.  .| +...+..+..+|.+.|++++|+..++++++..+..+..     ..+
T Consensus         5 ~~~k~~G~~~~~~~~y~~Ai~~y~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~   82 (128)
T d1elra_           5 LKEKELGNDAYKKKDFDTALKHYDKAKEL--DPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAY   82 (128)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHH
Confidence            34566788888999999999999999884  35 56788888899999999999999999988754111111     122


Q ss_pred             H-HHHHHhccCChHHHHHHHHHH
Q 038401          475 Q-MLSLYGARKDFNMLESLFERL  496 (542)
Q Consensus       475 ~-l~~~~~~~g~~~~A~~~~~~~  496 (542)
                      . ++.++...+++++|++.+++.
T Consensus        83 ~~lg~~~~~~~~~~~A~~~~~ka  105 (128)
T d1elra_          83 ARIGNSYFKEEKYKDAIHFYNKS  105 (128)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHH
Confidence            3 777888888999999988884

>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=98.35  E-value=4.6e-06  Score=65.11  Aligned_cols=63  Identities=10%  Similarity=0.007  Sum_probs=55.8

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcC
Q 038401          401 SVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEG  465 (542)
Q Consensus       401 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  465 (542)
                      .+|+.+..+|.+.|++++|+..+++.++.  .| +...+..++.+|...|++++|+..|+++++.+
T Consensus        63 ~~~~nla~~y~k~~~~~~A~~~~~~al~~--~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~  126 (170)
T d1p5qa1          63 ASHLNLAMCHLKLQAFSAAIESCNKALEL--DSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY  126 (170)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhhhhcccccchhhhhhhc--cccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhC
Confidence            45677888899999999999999999984  46 67888999999999999999999999999987

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.31  E-value=0.00072  Score=58.10  Aligned_cols=144  Identities=9%  Similarity=0.076  Sum_probs=84.7

Q ss_pred             CCHHHHHHHHHHHHHCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhHHHHHH
Q 038401          157 PDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLL  236 (542)
Q Consensus       157 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll  236 (542)
                      |+..-...+...|.+.|.++.|..+|..+..         |..++..+.+.+++..|.+.+...      -+..+|..+.
T Consensus        12 ~n~~d~~~i~~~c~~~~lye~A~~lY~~~~d---------~~rl~~~~v~l~~~~~avd~~~k~------~~~~~~k~~~   76 (336)
T d1b89a_          12 PNNAHIQQVGDRCYDEKMYDAAKLLYNNVSN---------FGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVC   76 (336)
T ss_dssp             C----------------CTTTHHHHHHHTTC---------HHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHH
T ss_pred             CCcCCHHHHHHHHHHCCCHHHHHHHHHhCCC---------HHHHHHHHHhhccHHHHHHHHHHc------CCHHHHHHHH
Confidence            4555556677777888888888888875432         666777888888888887776543      2456777788


Q ss_pred             HHHHhcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHH
Q 038401          237 RVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQNRGIEPNAITYSTIIAIWGKAGKLD  316 (542)
Q Consensus       237 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~  316 (542)
                      ..+.+......+     .+.......+......++..|-..|.++....+++..... -.++...++.++..|++.+ .+
T Consensus        77 ~~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~-~~~~~~~~~~L~~lyak~~-~~  149 (336)
T d1b89a_          77 FACVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKFK-PQ  149 (336)
T ss_dssp             HHHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-TTCCHHHHHHHHHHHHTTC-HH
T ss_pred             HHHHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC-CccchHHHHHHHHHHHHhC-hH
Confidence            877776655443     1222223345555667888888888888888888876543 2456667778888777754 34


Q ss_pred             HHHHHH
Q 038401          317 RAAMLF  322 (542)
Q Consensus       317 ~a~~~~  322 (542)
                      +..+.+
T Consensus       150 kl~e~l  155 (336)
T d1b89a_         150 KMREHL  155 (336)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            444443

>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=98.30  E-value=1.2e-05  Score=61.33  Aligned_cols=107  Identities=8%  Similarity=0.001  Sum_probs=63.7

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCC----CCCC-----------HHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCc
Q 038401          405 CMIELFSRNKKYANVIEVFEKMRSAG----YFPD-----------SHIIALVLNSYGKLREFETADDLYSEMQEEGCVFS  469 (542)
Q Consensus       405 ~l~~~~~~~g~~~~A~~~~~~~~~~~----~~p~-----------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~  469 (542)
                      .-+..+.+.|++.+|+..|+++++.-    ..++           ..++..++.+|.+.|++++|++.++++++.+  |.
T Consensus        22 ~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Al~~~~~al~~~--p~   99 (153)
T d2fbna1          22 EEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID--KN   99 (153)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHhhhhHHHHHHhhHHHHHHHhcccchhhhhhhcccccc--ch
Confidence            34444555566666666665555420    0011           1345567777778888888888888888776  22


Q ss_pred             h-HHHHHHHHHHhccCChHHHHHHHHH-HhcCCCCCchhHHHHHHHHH
Q 038401          470 D-QVHFQMLSLYGARKDFNMLESLFER-LDSDSNINKKELHHVVAGIY  515 (542)
Q Consensus       470 ~-~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~~~~~~~~~~~~l~~~~  515 (542)
                      + ..++.++.++...|++++|+..|++ +..+|+  +..+...+..+.
T Consensus       100 ~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~--n~~~~~~l~~~~  145 (153)
T d2fbna1         100 NVKALYKLGVANMYFGFLEEAKENLYKAASLNPN--NLDIRNSYELCV  145 (153)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTT--CHHHHHHHHHHH
T ss_pred             hhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCCC--CHHHHHHHHHHH
Confidence            2 2333378888888888888888888 344554  444554444443

>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=98.29  E-value=2.5e-05  Score=60.68  Aligned_cols=128  Identities=16%  Similarity=0.136  Sum_probs=80.2

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhC---CCCCC-----------HHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCC
Q 038401          403 FGCMIELFSRNKKYANVIEVFEKMRSA---GYFPD-----------SHIIALVLNSYGKLREFETADDLYSEMQEEGCVF  468 (542)
Q Consensus       403 ~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~p~-----------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  468 (542)
                      +...+..+.+.|++.+|+..|++++..   ...++           ..+|..+..+|.+.|++++|+..++++++.++ .
T Consensus        18 ~~e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p-~   96 (168)
T d1kt1a1          18 VKEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLDS-A   96 (168)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-T
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhhcchhHHHHHHhHHHHHHHhhhcccchhhhhhhhhccc-c
Confidence            334455555566666666666555431   11111           13455677788889999999999999988761 1


Q ss_pred             chHHHHHHHHHHhccCChHHHHHHHHHH-hcCCCCCchhHHHHHHHHHHhhcchh-hHHHHHHHHHh
Q 038401          469 SDQVHFQMLSLYGARKDFNMLESLFERL-DSDSNINKKELHHVVAGIYERANRLN-DASRIMNRMNK  533 (542)
Q Consensus       469 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~g~~~-~A~~~~~~~~~  533 (542)
                      ....++.++.++...|++++|+..|+++ ..+|+  +..+...+..+....+... ...+.+.+|-+
T Consensus        97 ~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~--n~~~~~~l~~~~~~~~~~~e~~kk~~~~~f~  161 (168)
T d1kt1a1          97 NEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQ--NKAARLQIFMCQKKAKEHNERDRRTYANMFK  161 (168)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTT--CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC--CHHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Confidence            2223334888999999999999999984 44554  4566777777766655443 34555555443

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.28  E-value=0.00088  Score=57.55  Aligned_cols=286  Identities=14%  Similarity=0.164  Sum_probs=132.6

Q ss_pred             CHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHhHhCCCCccHhHHHHHHH
Q 038401           53 DRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKSSGIVPDLVAYNTMIN  132 (542)
Q Consensus        53 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  132 (542)
                      |..--..+...|.+.|.++.|..+|..+..         |..++..+.+.++++.|.+++.+..      +..+|..+..
T Consensus        13 n~~d~~~i~~~c~~~~lye~A~~lY~~~~d---------~~rl~~~~v~l~~~~~avd~~~k~~------~~~~~k~~~~   77 (336)
T d1b89a_          13 NNAHIQQVGDRCYDEKMYDAAKLLYNNVSN---------FGRLASTLVHLGEYQAAVDGARKAN------STRTWKEVCF   77 (336)
T ss_dssp             ----------------CTTTHHHHHHHTTC---------HHHHHHHHHTTTCHHHHHHHHHHHT------CHHHHHHHHH
T ss_pred             CcCCHHHHHHHHHHCCCHHHHHHHHHhCCC---------HHHHHHHHHhhccHHHHHHHHHHcC------CHHHHHHHHH
Confidence            444444555556666666666666654421         4445555566666666655554431      3445555555


Q ss_pred             HHhccCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHHhccCCHHH
Q 038401          133 VFGKAKLFKEARLLIEEMREQGVKPDTVSYSTLLNLYVENHKFVEALSVFAEMNEVNCPLDLTTCNIMIDVYGQLDMAKD  212 (542)
Q Consensus       133 ~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  212 (542)
                      .+........+     .+...+...+......++..|-..|.+++...++....... +.+...++.++..|++.+. ++
T Consensus        78 ~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~-~~~~~~~~~L~~lyak~~~-~k  150 (336)
T d1b89a_          78 ACVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKP-QK  150 (336)
T ss_dssp             HHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTCH-HH
T ss_pred             HHHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCC-ccchHHHHHHHHHHHHhCh-HH
Confidence            55555544332     11122222344444556666666666666666666554321 3344455555555555432 11


Q ss_pred             HHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHccCCHHHHHHHHHHHHH
Q 038401          213 ADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKEIEQNVVTYNTMIKIYGKSLEHEKATNLMQEMQN  292 (542)
Q Consensus       213 a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  292 (542)
                         +.+.+...+...|   ...++..|.+.+.                      |..++-.|.+.|+++.|..++   .+
T Consensus       151 ---l~e~l~~~s~~y~---~~k~~~~c~~~~l----------------------~~elv~Ly~~~~~~~~A~~~~---i~  199 (336)
T d1b89a_         151 ---MREHLELFWSRVN---IPKVLRAAEQAHL----------------------WAELVFLYDKYEEYDNAIITM---MN  199 (336)
T ss_dssp             ---HHHHHHHHSTTSC---HHHHHHHHHTTTC----------------------HHHHHHHHHHTTCHHHHHHHH---HH
T ss_pred             ---HHHHHHhccccCC---HHHHHHHHHHcCC----------------------hHHHHHHHHhcCCHHHHHHHH---HH
Confidence               2222222110111   1112222222222                      333444555556666555433   33


Q ss_pred             cCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHHH
Q 038401          293 RGIEPNAITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAI  372 (542)
Q Consensus       293 ~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~  372 (542)
                      +  .++..-....+..+.+..+.+...++.....+.    ++...+.++......-+..+..+.+               
T Consensus       200 ~--~~~~~~~~~f~e~~~k~~N~e~~~~~i~~yL~~----~p~~i~~lL~~v~~~~d~~r~V~~~---------------  258 (336)
T d1b89a_         200 H--PTDAWKEGQFKDIITKVANVELYYRAIQFYLEF----KPLLLNDLLMVLSPRLDHTRAVNYF---------------  258 (336)
T ss_dssp             S--TTTTCCHHHHHHHHHHCSSTHHHHHHHHHHHHH----CGGGHHHHHHHHGGGCCHHHHHHHH---------------
T ss_pred             c--chhhhhHHHHHHHHHccCChHHHHHHHHHHHHc----CHHHHHHHHHHhccCCCHHHHHHHH---------------
Confidence            3  333333444555556666666655555555443    2233445555544444454444444               


Q ss_pred             HHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHH
Q 038401          373 TILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYAN  418 (542)
Q Consensus       373 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  418 (542)
                         .+.+++.-....++...+.+   +..+.+++...|...++++.
T Consensus       259 ---~k~~~l~li~p~Le~v~~~n---~~~vn~al~~lyie~~d~~~  298 (336)
T d1b89a_         259 ---SKVKQLPLVKPYLRSVQNHN---NKSVNESLNNLFITEEDYQA  298 (336)
T ss_dssp             ---HHTTCTTTTHHHHHHHHTTC---CHHHHHHHHHHHHHTTCHHH
T ss_pred             ---HhcCCcHHHHHHHHHHHHcC---hHHHHHHHHHHHhCcchhHH
Confidence               34455566666666665543   34677888888888888654

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.26  E-value=7.2e-06  Score=60.38  Aligned_cols=95  Identities=16%  Similarity=0.153  Sum_probs=77.6

Q ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCC-----HHHHHHHHH
Q 038401          370 TAITILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGY-FPD-----SHIIALVLN  443 (542)
Q Consensus       370 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~p~-----~~~~~~l~~  443 (542)
                      .+...+...|++++|+..|+++++.+ +.+...+..+..+|.+.|++++|+..++++++... .+.     ..+|..++.
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            45667888899999999999999875 36788999999999999999999999999886310 011     246777888


Q ss_pred             HHhccCcHHHHHHHHHHHHHcC
Q 038401          444 SYGKLREFETADDLYSEMQEEG  465 (542)
Q Consensus       444 ~~~~~g~~~~A~~~~~~~~~~~  465 (542)
                      .+...+++++|+..|++.+...
T Consensus        88 ~~~~~~~~~~A~~~~~kal~~~  109 (128)
T d1elra_          88 SYFKEEKYKDAIHFYNKSLAEH  109 (128)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHhCCHHHHHHHHHHHHhcC
Confidence            8889999999999999988765

>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=98.24  E-value=8e-06  Score=63.73  Aligned_cols=84  Identities=11%  Similarity=0.108  Sum_probs=57.8

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHH-HHHHHHHHhccCChHHHHHHHHH-HhcCCCCCchhHHHHHHH
Q 038401          436 HIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQV-HFQMLSLYGARKDFNMLESLFER-LDSDSNINKKELHHVVAG  513 (542)
Q Consensus       436 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~g~~~~A~~~~~~-~~~~~~~~~~~~~~~l~~  513 (542)
                      ..+..+..++.+.|++++|+..++++++..  |.... ++.++.++...|++++|+..|++ +..+|+  +..++..+..
T Consensus        78 ~~~~nla~~~~~~~~~~~Ai~~~~~al~~~--p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~--n~~~~~~l~~  153 (169)
T d1ihga1          78 SCVLNIGACKLKMSDWQGAVDSCLEALEID--PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPE--DKAIQAELLK  153 (169)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT--CHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhcccchhhhhhhhhhhhh--hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCCC--CHHHHHHHHH
Confidence            456667778888888888888888888876  22223 33388888888888888888888 455555  4456666666


Q ss_pred             HHHhhcchhh
Q 038401          514 IYERANRLND  523 (542)
Q Consensus       514 ~~~~~g~~~~  523 (542)
                      ++.......+
T Consensus       154 ~~~~l~~~~~  163 (169)
T d1ihga1         154 VKQKIKAQKD  163 (169)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            6554444433

>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=98.23  E-value=8.1e-06  Score=62.32  Aligned_cols=99  Identities=16%  Similarity=0.012  Sum_probs=79.0

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCc---h-----------HHHHH-HHHHHhccCChHHHHHHHHH-HhcCC
Q 038401          437 IIALVLNSYGKLREFETADDLYSEMQEEGCVFS---D-----------QVHFQ-MLSLYGARKDFNMLESLFER-LDSDS  500 (542)
Q Consensus       437 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~---~-----------~~~~~-l~~~~~~~g~~~~A~~~~~~-~~~~~  500 (542)
                      .+..-+..+.+.|++++|+..|+++++.-...+   +           ...+. ++.+|.+.|++++|++.+++ +..+|
T Consensus        19 ~~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Al~~~~~al~~~p   98 (153)
T d2fbna1          19 DIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKIDK   98 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHhhhhHHHHHHhhHHHHHHHhcccchhhhhhhccccccc
Confidence            445566788899999999999999987532111   1           12333 88899999999999999999 55565


Q ss_pred             CCCchhHHHHHHHHHHhhcchhhHHHHHHHHHhcCCC
Q 038401          501 NINKKELHHVVAGIYERANRLNDASRIMNRMNKRRTF  537 (542)
Q Consensus       501 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  537 (542)
                      .  ...+|+.++.+|...|++++|+..|++..+-.+.
T Consensus        99 ~--~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~  133 (153)
T d2fbna1          99 N--NVKALYKLGVANMYFGFLEEAKENLYKAASLNPN  133 (153)
T ss_dssp             T--CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTT
T ss_pred             h--hhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCCC
Confidence            5  5689999999999999999999999999887643

>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=98.19  E-value=1.2e-05  Score=62.77  Aligned_cols=65  Identities=11%  Similarity=0.084  Sum_probs=57.8

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcC
Q 038401          399 DISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEG  465 (542)
Q Consensus       399 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  465 (542)
                      ....|..+..++.+.|++++|+..++++++.  .| +...|..++.++...|++++|+..|+++++..
T Consensus        76 ~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~--~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~  141 (169)
T d1ihga1          76 ALSCVLNIGACKLKMSDWQGAVDSCLEALEI--DPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA  141 (169)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             hHHHHHHHHHHHHhhcccchhhhhhhhhhhh--hhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            4556778889999999999999999999984  45 56889999999999999999999999999986

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.17  E-value=4.9e-07  Score=84.71  Aligned_cols=222  Identities=8%  Similarity=0.020  Sum_probs=113.5

Q ss_pred             HHHHHHHHHHHcCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCH-HHHHHHHHHHHHcCCHHHHHHHHHH
Q 038401          282 KATNLMQEMQNRGIEPNA-ITYSTIIAIWGKAGKLDRAAMLFQKLRSSGVEIDP-VLYQTMIVAYERVGLVAHAKRLLHE  359 (542)
Q Consensus       282 ~a~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~  359 (542)
                      +|.+.|++..+.  .|+. ..+..+..++...+++++|   |++++..+  |+. ...+... .+. ...+..+.+.++.
T Consensus         4 eA~q~~~qA~~l--~p~~a~a~~~la~~~~~~~~l~ea---ye~~i~~d--p~~a~~~~~e~-~Lw-~~~y~~~ie~~r~   74 (497)
T d1ya0a1           4 QSAQYLRQAEVL--KADMTDSKLGPAEVWTSRQALQDL---YQKMLVTD--LEYALDKKVEQ-DLW-NHAFKNQITTLQG   74 (497)
T ss_dssp             HHHHHHHHHHHH--HGGGTCSSSCSSSSHHHHHHHHHH---HHHHHHHC--HHHHHHHTHHH-HHH-HHHTHHHHHHHHH
T ss_pred             HHHHHHHHHHHc--CCCCHHHHhhHHHHHHHHchHHHH---HHHHHHcC--hhhHHHHhHHH-HHH-HHHHHHHHHHHHH
Confidence            577888887764  4443 3455555666667777665   66666542  221 1111111 111 1123445556655


Q ss_pred             hcCCC--CCCHH--HHH--HHHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC
Q 038401          360 LRQPN--TIPRE--TAI--TILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP  433 (542)
Q Consensus       360 ~~~~~--~~~~~--~l~--~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p  433 (542)
                      ..+..  +....  ...  ......+.++.|+..++...+.. +++...+..+...+.+.|+.++|...+++....  .|
T Consensus        75 ~~k~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~~l~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~~  151 (497)
T d1ya0a1          75 QAKNRANPNRSEVQANLSLFLEAASGFYTQLLQELCTVFNVD-LPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSY--IC  151 (497)
T ss_dssp             HHSCSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC--------------------------------CCHHHHH--HH
T ss_pred             hcccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-hhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCC--CH
Confidence            54321  22111  111  11223456666666666655542 345667778888888889999999888877652  12


Q ss_pred             CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHHHHH-hcCCCCCchhHHHHH
Q 038401          434 DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLFERL-DSDSNINKKELHHVV  511 (542)
Q Consensus       434 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~~~~l  511 (542)
                       ..++..++..+...|++++|+.+|+++.+..  |.+...+. ++.++...|+..+|+..+.+. ..+++  -..++..|
T Consensus       152 -~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~--P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~~~--~~~a~~nL  226 (497)
T d1ya0a1         152 -QHCLVHLGDIARYRNQTSQAESYYRHAAQLV--PSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVKFP--FPAASTNL  226 (497)
T ss_dssp             -HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSSBC--CHHHHHHH
T ss_pred             -HHHHHHHHHHHHHcccHHHHHHHHHHHHHHC--CCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCC--CHHHHHHH
Confidence             3567778888899999999999999999887  23334444 889999999999999888884 43443  34677788


Q ss_pred             HHHHHhhcc
Q 038401          512 AGIYERANR  520 (542)
Q Consensus       512 ~~~~~~~g~  520 (542)
                      +.++.+..+
T Consensus       227 ~~~~~~~~~  235 (497)
T d1ya0a1         227 QKALSKALE  235 (497)
T ss_dssp             HHHHHHHTT
T ss_pred             HHHHHHhhh
Confidence            877765543

>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=98.12  E-value=2.2e-05  Score=61.00  Aligned_cols=80  Identities=13%  Similarity=0.113  Sum_probs=60.0

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHH-HHH
Q 038401          401 SVFGCMIELFSRNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQ-MLS  478 (542)
Q Consensus       401 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-l~~  478 (542)
                      .+|+.+..+|.+.|++++|+..++++++.  .| +...|...+.++...|++++|...|+++++.+  |.+..... +..
T Consensus        65 ~~~~Nla~~~~~l~~~~~Ai~~~~~al~l--~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~--P~n~~~~~~l~~  140 (168)
T d1kt1a1          65 AAFLNLAMCYLKLREYTKAVECCDKALGL--DSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN--PQNKAARLQIFM  140 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC--TTCHHHHHHHHH
T ss_pred             HHHHhHHHHHHHhhhcccchhhhhhhhhc--ccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHH
Confidence            35666788888999999999999999884  35 56788888899999999999999999999876  23333333 444


Q ss_pred             HHhccC
Q 038401          479 LYGARK  484 (542)
Q Consensus       479 ~~~~~g  484 (542)
                      +....+
T Consensus       141 ~~~~~~  146 (168)
T d1kt1a1         141 CQKKAK  146 (168)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            444433

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.09  E-value=1.6e-06  Score=81.16  Aligned_cols=87  Identities=5%  Similarity=-0.086  Sum_probs=35.7

Q ss_pred             HHHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHhccCcHH
Q 038401          374 ILARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDS-HIIALVLNSYGKLREFE  452 (542)
Q Consensus       374 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~  452 (542)
                      .+.+.|+.+.|...++..+...   ...++..++..+...|++++|+..|+++.+  +.|+. ..|+.++..+...|+..
T Consensus       129 ~~~~~~~~~~A~~~~~~al~~~---~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~--l~P~~~~~~~~Lg~~~~~~~~~~  203 (497)
T d1ya0a1         129 ISNKQTHTSAIVKPQSSSCSYI---CQHCLVHLGDIARYRNQTSQAESYYRHAAQ--LVPSNGQPYNQLAILASSKGDHL  203 (497)
T ss_dssp             --------------CCHHHHHH---HHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTBSHHHHHHHHHHHHTTCHH
T ss_pred             HHHhCCCHHHHHHHHHHHhCCC---HHHHHHHHHHHHHHcccHHHHHHHHHHHHH--HCCCchHHHHHHHHHHHHcCCHH
Confidence            3344444444444444433210   123344455555555555555555555555  23432 45555555555555555


Q ss_pred             HHHHHHHHHHHcC
Q 038401          453 TADDLYSEMQEEG  465 (542)
Q Consensus       453 ~A~~~~~~~~~~~  465 (542)
                      +|...|.+++...
T Consensus       204 ~A~~~y~ral~~~  216 (497)
T d1ya0a1         204 TTIFYYCRSIAVK  216 (497)
T ss_dssp             HHHHHHHHHHSSS
T ss_pred             HHHHHHHHHHhCC
Confidence            5555555555543

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=98.08  E-value=4.3e-06  Score=70.13  Aligned_cols=52  Identities=15%  Similarity=0.154  Sum_probs=25.1

Q ss_pred             hcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHcC
Q 038401          412 RNKKYANVIEVFEKMRSAGYFP-DSHIIALVLNSYGKLREFETADDLYSEMQEEG  465 (542)
Q Consensus       412 ~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  465 (542)
                      +.|++++|+..+++.++.  .| |...+..++..++..|++++|...++.+.+..
T Consensus         8 ~~G~l~eAl~~l~~al~~--~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~   60 (264)
T d1zbpa1           8 SEGQLQQALELLIEAIKA--SPKDASLRSSFIELLCIDGDFERADEQLMQSIKLF   60 (264)
T ss_dssp             TTTCHHHHHHHHHHHHHT--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HCCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            345555555555555442  23 33444445555555555555555555555443

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=98.05  E-value=1.8e-05  Score=59.56  Aligned_cols=125  Identities=9%  Similarity=0.096  Sum_probs=64.0

Q ss_pred             HHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHH
Q 038401          375 LARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETA  454 (542)
Q Consensus       375 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A  454 (542)
                      +.+.+.+++|+..|+++++.. |.++.++..++.++...+++..+.+                         ..+.+++|
T Consensus         7 ~~r~~~fe~A~~~~e~al~~~-P~~~~~~~~~g~~l~~~~~~~~~~e-------------------------~~~~~~~A   60 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISD-------------------------AKQMIQEA   60 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHH-------------------------HHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhhC-CcchHHHHHHHHHHHHhhhhhhhhH-------------------------HHHHHHHH
Confidence            345566667777777776653 3556666666666654333221111                         11233445


Q ss_pred             HHHHHHHHHcCCCCchHHHHH-HHHHHhccC-----------ChHHHHHHHHH-HhcCCCCCchhHHHHHHHHHHhhcch
Q 038401          455 DDLYSEMQEEGCVFSDQVHFQ-MLSLYGARK-----------DFNMLESLFER-LDSDSNINKKELHHVVAGIYERANRL  521 (542)
Q Consensus       455 ~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g-----------~~~~A~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~g~~  521 (542)
                      +..|+++++.+  |.+...+. ++.+|...|           .+++|.+.|++ +..+|+  +..++..       .+..
T Consensus        61 i~~~~kAl~l~--P~~~~a~~~lG~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~l~P~--~~~~~~~-------L~~~  129 (145)
T d1zu2a1          61 ITKFEEALLID--PKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVDEQPD--NTHYLKS-------LEMT  129 (145)
T ss_dssp             HHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCTT--CHHHHHH-------HHHH
T ss_pred             HHHHHHHHHhc--chhhHHHhhHHHHHHHcccchhhHHHHHHhHHHhhhhhhcccccCCC--HHHHHHH-------HHHH
Confidence            55555555544  11112222 444443322           35778888888 455665  2233322       3344


Q ss_pred             hhHHHHHHHHHhcCC
Q 038401          522 NDASRIMNRMNKRRT  536 (542)
Q Consensus       522 ~~A~~~~~~~~~~~~  536 (542)
                      .+|.+++.+..++|+
T Consensus       130 ~ka~~~~~e~~k~~~  144 (145)
T d1zu2a1         130 AKAPQLHAEAYKQGL  144 (145)
T ss_dssp             HTHHHHHHHHHHSSS
T ss_pred             HHHHHHHHHHHHHhc
Confidence            567777777777664

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=98.05  E-value=9.1e-06  Score=61.25  Aligned_cols=70  Identities=16%  Similarity=0.158  Sum_probs=45.3

Q ss_pred             HHHcCCHHHHHHHHHHhcCCCCCC---HHHHHHHHHHh----------CCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHH
Q 038401          344 YERVGLVAHAKRLLHELRQPNTIP---RETAITILARA----------GRIEEATWVFRQAFDAGEVKDISVFGCMIELF  410 (542)
Q Consensus       344 ~~~~~~~~~a~~~~~~~~~~~~~~---~~~l~~~~~~~----------g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~  410 (542)
                      |.+.+.+++|...++...+.+|..   +..+..++...          +.+++|+..|+++++.. +.+..+|..++.+|
T Consensus         7 ~~r~~~fe~A~~~~e~al~~~P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~-P~~~~a~~~lG~~y   85 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKSNPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNAY   85 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhc-chhhHHHhhHHHHH
Confidence            556778999999999987655444   34445555433          44566777777777653 34566666676666


Q ss_pred             HhcC
Q 038401          411 SRNK  414 (542)
Q Consensus       411 ~~~g  414 (542)
                      ...|
T Consensus        86 ~~~g   89 (145)
T d1zu2a1          86 TSFA   89 (145)
T ss_dssp             HHHH
T ss_pred             HHcc
Confidence            5544

>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=97.98  E-value=5.8e-05  Score=58.87  Aligned_cols=121  Identities=9%  Similarity=-0.008  Sum_probs=73.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHHHHHHHhc
Q 038401          403 FGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQMLSLYGA  482 (542)
Q Consensus       403 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~  482 (542)
                      ....+......|++++|.+.|.+.+..  .+....     .. ...+.|-.  ..-..+...    -......++.++..
T Consensus        14 ~~~~g~~~~~~g~~e~A~~~~~~AL~l--~rG~~l-----~~-~~~~~w~~--~~r~~l~~~----~~~a~~~la~~~~~   79 (179)
T d2ff4a2          14 EKTAGVHAAAAGRFEQASRHLSAALRE--WRGPVL-----DD-LRDFQFVE--PFATALVED----KVLAHTAKAEAEIA   79 (179)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTT--CCSSTT-----GG-GTTSTTHH--HHHHHHHHH----HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhh--Cccccc-----cc-CcchHHHH--HHHHHHHHH----HHHHHHHHHHHHHH
Confidence            334455677889999999999999874  222100     00 00111111  111111110    01112227778888


Q ss_pred             cCChHHHHHHHHH-HhcCCCCCchhHHHHHHHHHHhhcchhhHHHHHHHHHh-----cCCCCC
Q 038401          483 RKDFNMLESLFER-LDSDSNINKKELHHVVAGIYERANRLNDASRIMNRMNK-----RRTFNS  539 (542)
Q Consensus       483 ~g~~~~A~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~~~~  539 (542)
                      .|++++|+..+++ +..+|.  ....|..++.+|...|++++|++.|+++.+     -|+.|+
T Consensus        80 ~g~~~~Al~~~~~al~~~P~--~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~  140 (179)
T d2ff4a2          80 CGRASAVIAELEALTFEHPY--REPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPG  140 (179)
T ss_dssp             TTCHHHHHHHHHHHHHHSTT--CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCC
T ss_pred             CCCchHHHHHHHHHHHhCCc--cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcC
Confidence            8888888888888 455665  557888888888888888888888888644     577765

>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=97.87  E-value=3.1e-05  Score=59.29  Aligned_cols=58  Identities=9%  Similarity=-0.020  Sum_probs=33.4

Q ss_pred             HHHHHhccCChHHHHHHHHHHhc------CCCCC----chhHHHHHHHHHHhhcchhhHHHHHHHHHh
Q 038401          476 MLSLYGARKDFNMLESLFERLDS------DSNIN----KKELHHVVAGIYERANRLNDASRIMNRMNK  533 (542)
Q Consensus       476 l~~~~~~~g~~~~A~~~~~~~~~------~~~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  533 (542)
                      ++.+|...|++++|...+++...      .....    ...+++.++.+|...|++++|+..|+++.+
T Consensus        61 lg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          61 LAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCccchhhHhhhhhhhcccccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            55555555555555555555211      00000    113566777888888888888888877654

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=97.78  E-value=1.8e-05  Score=66.22  Aligned_cols=117  Identities=15%  Similarity=0.154  Sum_probs=82.4

Q ss_pred             HHHhCCHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHhccCcHHH
Q 038401          375 LARAGRIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDS-HIIALVLNSYGKLREFET  453 (542)
Q Consensus       375 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~  453 (542)
                      ..+.|++++|+..+++.++.. +.+...+..++..++..|++++|...++...+  ..|+. ..+..+...+...+..++
T Consensus         6 aL~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~--l~P~~~~~~~~l~~ll~a~~~~~~   82 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIK--LFPEYLPGASQLRHLVKAAQARKD   82 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HCGGGHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCCcHHHHHHHHHHHHhccccHH
Confidence            346799999999999999974 47889999999999999999999999999998  45754 455545555444444444


Q ss_pred             HHHHHHHHHHcCCCCchH-HHHH-HHHHHhccCChHHHHHHHHHH
Q 038401          454 ADDLYSEMQEEGCVFSDQ-VHFQ-MLSLYGARKDFNMLESLFERL  496 (542)
Q Consensus       454 A~~~~~~~~~~~~~~~~~-~~~~-l~~~~~~~g~~~~A~~~~~~~  496 (542)
                      +...........  +|+. .... .+..+...|+.++|.+.++++
T Consensus        83 a~~~~~~~~~~~--~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a  125 (264)
T d1zbpa1          83 FAQGAATAKVLG--ENEELTKSLVSFNLSMVSQDYEQVSELALQI  125 (264)
T ss_dssp             HTTSCCCEECCC--SCHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHhhhhhccc--CchHHHHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence            333222111111  2332 2222 567788899999999999885

>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=97.71  E-value=0.00014  Score=55.41  Aligned_cols=95  Identities=8%  Similarity=0.016  Sum_probs=69.1

Q ss_pred             HHHHH--HHHHHhcCCHHHHHHHHHHHHhCC-CCCC----------HHHHHHHHHHHhccCcHHHHHHHHHHHHHcCC--
Q 038401          402 VFGCM--IELFSRNKKYANVIEVFEKMRSAG-YFPD----------SHIIALVLNSYGKLREFETADDLYSEMQEEGC--  466 (542)
Q Consensus       402 ~~~~l--~~~~~~~g~~~~A~~~~~~~~~~~-~~p~----------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~--  466 (542)
                      +|..+  +..+...|++++|+..|++.++.. -.|+          ...|..+..+|.+.|++++|...++++++...  
T Consensus         9 a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~   88 (156)
T d2hr2a1           9 AYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRR   88 (156)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhccccc
Confidence            45544  455667799999999999988621 0121          35688899999999999999999999886420  


Q ss_pred             --C-CchH-----HHHHHHHHHhccCChHHHHHHHHHH
Q 038401          467 --V-FSDQ-----VHFQMLSLYGARKDFNMLESLFERL  496 (542)
Q Consensus       467 --~-~~~~-----~~~~l~~~~~~~g~~~~A~~~~~~~  496 (542)
                        . ++..     .++.++.+|...|++++|+..|++.
T Consensus        89 ~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~A  126 (156)
T d2hr2a1          89 GELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKV  126 (156)
T ss_dssp             CCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             ccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHH
Confidence              1 1111     2233889999999999999999993

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.68  E-value=0.00072  Score=52.46  Aligned_cols=123  Identities=11%  Similarity=0.041  Sum_probs=69.3

Q ss_pred             HHHHHHHHhcCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcC
Q 038401           24 VVLRNVLRAKQWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLS  103 (542)
Q Consensus        24 ~ll~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  103 (542)
                      .........|++++|.+.|...+...  +....        ........+...-..+...    ....+..+...+...|
T Consensus        16 ~~g~~~~~~g~~e~A~~~~~~AL~l~--rG~~l--------~~~~~~~w~~~~r~~l~~~----~~~a~~~la~~~~~~g   81 (179)
T d2ff4a2          16 TAGVHAAAAGRFEQASRHLSAALREW--RGPVL--------DDLRDFQFVEPFATALVED----KVLAHTAKAEAEIACG   81 (179)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTC--CSSTT--------GGGTTSTTHHHHHHHHHHH----HHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhhC--ccccc--------ccCcchHHHHHHHHHHHHH----HHHHHHHHHHHHHHCC
Confidence            33456677788888888887777641  11100        0000000011111111111    2344556677777777


Q ss_pred             CHHHHHHHHHHhHhCCCCccHhHHHHHHHHHhccCcHHHHHHHHHHHHH-----cCCCCCHHH
Q 038401          104 DYSKAISIFSRLKSSGIVPDLVAYNTMINVFGKAKLFKEARLLIEEMRE-----QGVKPDTVS  161 (542)
Q Consensus       104 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~g~~~~~~~  161 (542)
                      ++++|...++++.... +-+...|..++.++...|+..+|++.|+++..     .|+.|...+
T Consensus        82 ~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          82 RASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             CHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             CchHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            7777777777777653 44667777777777777777777777777643     466666544

>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=97.53  E-value=0.0007  Score=46.07  Aligned_cols=20  Identities=10%  Similarity=-0.001  Sum_probs=9.6

Q ss_pred             HHHHHhccCChHHHHHHHHH
Q 038401          476 MLSLYGARKDFNMLESLFER  495 (542)
Q Consensus       476 l~~~~~~~g~~~~A~~~~~~  495 (542)
                      ++.++.+.|++++|+..+++
T Consensus        52 Lg~~~~~~g~~~~A~~~y~~   71 (95)
T d1tjca_          52 LSYAVYQQGDLDKALLLTKK   71 (95)
T ss_dssp             HHHHHHHTTCHHHHHHHHHH
T ss_pred             HhhHHHhcCChHHHHHHHHH
Confidence            44444444444444444444

>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=97.53  E-value=0.00028  Score=48.17  Aligned_cols=66  Identities=12%  Similarity=0.137  Sum_probs=52.7

Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHH-hc---CC--CCCchhHHHHHHHHHHhhcchhhHHHHHHHHHhcCC
Q 038401          471 QVHFQMLSLYGARKDFNMLESLFERL-DS---DS--NINKKELHHVVAGIYERANRLNDASRIMNRMNKRRT  536 (542)
Q Consensus       471 ~~~~~l~~~~~~~g~~~~A~~~~~~~-~~---~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  536 (542)
                      ..++.++.++.+.|++++|+.++++. ..   .+  ......++..++.+|.+.|++++|+..++++.+..+
T Consensus         6 ddc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P   77 (95)
T d1tjca_           6 EDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDP   77 (95)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCc
Confidence            44667899999999999999999883 22   11  222347899999999999999999999999998764

>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=97.31  E-value=0.0042  Score=45.29  Aligned_cols=110  Identities=8%  Similarity=-0.012  Sum_probs=54.8

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCCCchHHHHHHHHHHhc----cCChHHHH
Q 038401          415 KYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEGCVFSDQVHFQMLSLYGA----RKDFNMLE  490 (542)
Q Consensus       415 ~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~  490 (542)
                      ++++|++.|++..+.|. |..  ...+  +.....+.++|.++++++.+.+   .....+.++..|..    ..+.++|.
T Consensus         8 d~~~A~~~~~kaa~~g~-~~a--~~~l--~~~~~~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A~   79 (133)
T d1klxa_           8 DLKKAIQYYVKACELNE-MFG--CLSL--VSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAA   79 (133)
T ss_dssp             HHHHHHHHHHHHHHTTC-TTH--HHHH--HTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHH
T ss_pred             CHHHHHHHHHHHHHCCC-hhh--hhhh--ccccccCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHHH
Confidence            44555555555555432 111  1111  1223345566666666666654   22223334444443    34566666


Q ss_pred             HHHHHHhcCCCCCchhHHHHHHHHHHh----hcchhhHHHHHHHHHhcC
Q 038401          491 SLFERLDSDSNINKKELHHVVAGIYER----ANRLNDASRIMNRMNKRR  535 (542)
Q Consensus       491 ~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~  535 (542)
                      ++|++.....   +..+...|+.+|..    ..+.++|.++|++.-+.|
T Consensus        80 ~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G  125 (133)
T d1klxa_          80 QYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  125 (133)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHhhhhccC---cchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCC
Confidence            6666644332   23345556666654    235666666666666555

>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=97.24  E-value=0.065  Score=48.31  Aligned_cols=115  Identities=8%  Similarity=-0.020  Sum_probs=54.0

Q ss_pred             CCHHHHHHHHHHHHHcCCCcCHHHHHHHHHH----HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHH
Q 038401          379 GRIEEATWVFRQAFDAGEVKDISVFGCMIEL----FSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETA  454 (542)
Q Consensus       379 g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~----~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A  454 (542)
                      .+.+.|...+........ .+..-+..+-..    +...+..+.+...+......+  .+.......+......+++..+
T Consensus       228 ~d~~~a~~~l~~~~~~~~-~~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~w~~~~al~~~~~~~~  304 (450)
T d1qsaa1         228 QDAENARLMIPSLAQAQQ-LNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRS--QSTSLIERRVRMALGTGDRRGL  304 (450)
T ss_dssp             HCHHHHHHHHHHHHHHTT-CCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTC--CCHHHHHHHHHHHHHHTCHHHH
T ss_pred             cChhHHHHHHHhhhhccc-ccHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhcccc--cchHHHHHHHHHHHHcCChHHH
Confidence            455666666666554322 222222222211    123344555555555555432  2333333333334455666666


Q ss_pred             HHHHHHHHHcCCCCchHHHHH-HHHHHhccCChHHHHHHHHHHhc
Q 038401          455 DDLYSEMQEEGCVFSDQVHFQ-MLSLYGARKDFNMLESLFERLDS  498 (542)
Q Consensus       455 ~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~~~~  498 (542)
                      ...+..+....  ........ ++.++...|+.++|...+..+..
T Consensus       305 ~~~~~~l~~~~--~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~  347 (450)
T d1qsaa1         305 NTWLARLPMEA--KEKDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (450)
T ss_dssp             HHHHHHSCTTG--GGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHhcCccc--ccHHHHHHHHHHHHHHcCChhhHHHHHHHHhc
Confidence            66666553321  11122222 66666666666666666666543

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=96.98  E-value=0.013  Score=42.59  Aligned_cols=110  Identities=11%  Similarity=0.053  Sum_probs=72.0

Q ss_pred             CHHHHHHHHHHHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhc----cCcHHHHH
Q 038401          380 RIEEATWVFRQAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGK----LREFETAD  455 (542)
Q Consensus       380 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~  455 (542)
                      ++++|++.|++..+.|...   ....|.  .....+.++|++.+++..+.|   ++.....+...|..    ..+.++|.
T Consensus         8 d~~~A~~~~~kaa~~g~~~---a~~~l~--~~~~~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A~   79 (133)
T d1klxa_           8 DLKKAIQYYVKACELNEMF---GCLSLV--SNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAA   79 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCTT---HHHHHH--TCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHH
T ss_pred             CHHHHHHHHHHHHHCCChh---hhhhhc--cccccCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHHH
Confidence            5677888888887765322   222222  234567888888888888765   44455555555543    45678899


Q ss_pred             HHHHHHHHcCCCCchHHHHHHHHHHhc----cCChHHHHHHHHHHhcCC
Q 038401          456 DLYSEMQEEGCVFSDQVHFQMLSLYGA----RKDFNMLESLFERLDSDS  500 (542)
Q Consensus       456 ~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~  500 (542)
                      ++|++..+.+   .....+.|+..|..    ..+.++|.+++++.-..+
T Consensus        80 ~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G  125 (133)
T d1klxa_          80 QYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  125 (133)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHhhhhccC---cchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCC
Confidence            9999988876   33344446666665    467888888888865444

>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=96.49  E-value=0.013  Score=41.02  Aligned_cols=69  Identities=6%  Similarity=0.000  Sum_probs=39.6

Q ss_pred             CCHHHHHHHHHHHhcc---CcHHHHHHHHHHHHHcCCCCchHHHHHHHHHHhccCChHHHHHHHHH-HhcCCC
Q 038401          433 PDSHIIALVLNSYGKL---REFETADDLYSEMQEEGCVFSDQVHFQMLSLYGARKDFNMLESLFER-LDSDSN  501 (542)
Q Consensus       433 p~~~~~~~l~~~~~~~---g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~~~  501 (542)
                      |+..+--..++++.++   .+.++|+.+++.+.+.+....-...|.++-+|.+.|++++|.+.+++ +..+|+
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ieP~  105 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERN  105 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccCCC
Confidence            4444444455555543   44567777777777654111112233467777777777777777777 444554

>d1qsaa1 a.118.5.1 (A:1-450) 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Bacterial muramidases
family: Bacterial muramidases
domain: 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain
species: Escherichia coli [TaxId: 562]

Probab=96.22  E-value=0.39  Score=42.99  Aligned_cols=113  Identities=13%  Similarity=0.014  Sum_probs=60.5

Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHH----HHHHHhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHH
Q 038401          278 LEHEKATNLMQEMQNRGIEPNAITYSTI----IAIWGKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHA  353 (542)
Q Consensus       278 ~~~~~a~~~~~~~~~~~~~p~~~~~~~l----~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  353 (542)
                      .+.+.+...+......... +..-+..+    .......+..+.+...+......+  .+.....-.+......+++..+
T Consensus       228 ~d~~~a~~~l~~~~~~~~~-~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~w~~~~al~~~~~~~~  304 (450)
T d1qsaa1         228 QDAENARLMIPSLAQAQQL-NEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRS--QSTSLIERRVRMALGTGDRRGL  304 (450)
T ss_dssp             HCHHHHHHHHHHHHHHTTC-CHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTC--CCHHHHHHHHHHHHHHTCHHHH
T ss_pred             cChhHHHHHHHhhhhcccc-cHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhcccc--cchHHHHHHHHHHHHcCChHHH
Confidence            4667777777776554322 22222211    122233455666666666655543  3444444444555566777777


Q ss_pred             HHHHHHhcCCCCCCH---HHHHHHHHHhCCHHHHHHHHHHHHH
Q 038401          354 KRLLHELRQPNTIPR---ETAITILARAGRIEEATWVFRQAFD  393 (542)
Q Consensus       354 ~~~~~~~~~~~~~~~---~~l~~~~~~~g~~~~A~~~~~~~~~  393 (542)
                      ...+..+........   --+..++...|+.+.|...|..+..
T Consensus       305 ~~~~~~l~~~~~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~  347 (450)
T d1qsaa1         305 NTWLARLPMEAKEKDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (450)
T ss_dssp             HHHHHHSCTTGGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHhcCcccccHHHHHHHHHHHHHHcCChhhHHHHHHHHhc
Confidence            777777653211111   2235556667777777777776653

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.89  E-value=0.051  Score=37.85  Aligned_cols=66  Identities=9%  Similarity=0.012  Sum_probs=40.0

Q ss_pred             cCHHHHHHHHHHHHhc---CCHHHHHHHHHHHHhCCCCC-CH-HHHHHHHHHHhccCcHHHHHHHHHHHHHcC
Q 038401          398 KDISVFGCMIELFSRN---KKYANVIEVFEKMRSAGYFP-DS-HIIALVLNSYGKLREFETADDLYSEMQEEG  465 (542)
Q Consensus       398 ~~~~~~~~l~~~~~~~---g~~~~A~~~~~~~~~~~~~p-~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  465 (542)
                      +.+.+--.++.++.+.   .+.++++.+++.+.+.+  | +. ..+-.+.-+|.+.|++++|.++++.+++..
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~--p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ie  103 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA--ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHE  103 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcC--chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccC
Confidence            4455555556666654   34456777777766532  3 22 445556666777777777777777777765

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=95.05  E-value=0.3  Score=33.56  Aligned_cols=61  Identities=11%  Similarity=0.010  Sum_probs=26.2

Q ss_pred             HHHHHHHhccCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCcHHHHHHHHHHHHhcC
Q 038401          198 NIMIDVYGQLDMAKDADRLFWSMRKMGIDPSVVSYNTLLRVYGEAELFGEAIHLFRLMQRKE  259 (542)
Q Consensus       198 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  259 (542)
                      ...++.....|.-++..+++..+.+.+ .+++...-.+..+|-+.|...++-+++.+.-+.|
T Consensus        90 dlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~G  150 (161)
T d1wy6a1          90 NKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKKG  150 (161)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHh
Confidence            333444444444444444444433332 3444444444444444444444444444444443

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=93.24  E-value=0.79  Score=31.47  Aligned_cols=138  Identities=11%  Similarity=0.053  Sum_probs=70.2

Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCHHHHHHHHH
Q 038401          310 GKAGKLDRAAMLFQKLRSSGVEIDPVLYQTMIVAYERVGLVAHAKRLLHELRQPNTIPRETAITILARAGRIEEATWVFR  389 (542)
Q Consensus       310 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  389 (542)
                      .-.|..++..++..+.....   +..-|+-++--....-+-+...+.++.+-+.-.         +..+++.......+-
T Consensus        13 ildG~ve~Gveii~k~~~ss---~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~FD---------ls~C~Nlk~vv~C~~   80 (161)
T d1wy6a1          13 LLDGYIDEGVKIVLEITKSS---TKSEYNWFICNLLESIDCRYMFQVLDKIGSYFD---------LDKCQNLKSVVECGV   80 (161)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS---CHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSC---------GGGCSCTHHHHHHHH
T ss_pred             HHhhhHHhHHHHHHHHcccC---CccccceeeeecccccchHHHHHHHHHHhhhcC---------chhhhcHHHHHHHHH
Confidence            34566666666666655532   333344444333444444555555554432100         011222222222221


Q ss_pred             HHHHcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHcC
Q 038401          390 QAFDAGEVKDISVFGCMIELFSRNKKYANVIEVFEKMRSAGYFPDSHIIALVLNSYGKLREFETADDLYSEMQEEG  465 (542)
Q Consensus       390 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  465 (542)
                      .+     ..+...+...++.+..+|+-+.-.++++.+.+. -+|++..+..+..+|.+.|...++.+++.++.+.|
T Consensus        81 ~~-----n~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn-~~i~~~~llkia~A~kkig~~re~nell~~ACe~G  150 (161)
T d1wy6a1          81 IN-----NTLNEHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKG  150 (161)
T ss_dssp             HT-----TCCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             Hh-----cchHHHHHHHHHHHHHhccHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHh
Confidence            11     122333445555666667766666666665552 35666666667777777777777777777777665

>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=89.56  E-value=1.7  Score=28.13  Aligned_cols=49  Identities=12%  Similarity=0.154  Sum_probs=29.7

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHhHh
Q 038401           69 MFDSAISWLQQMEQDRVSGDLVLYSNLIELARKLSDYSKAISIFSRLKS  117 (542)
Q Consensus        69 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  117 (542)
                      +.-+..+.++.+......|++....+.+++|.+.+++..|.++|+.++.
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~   69 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKD   69 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            3444555555555555666666666666666666666666666666553

>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=87.63  E-value=2.4  Score=27.44  Aligned_cols=62  Identities=11%  Similarity=0.135  Sum_probs=49.1

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCHHhHHHHH
Q 038401           34 QWELAHGLFDEMRQRGIAPDRYTYSTLITCFGKEGMFDSAISWLQQMEQDRVSGDLVLYSNLI   96 (542)
Q Consensus        34 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~   96 (542)
                      +.=++.+-++.+...+.-|++....+.+++|.+.+++..|.++|+..... ..++...|..++
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K-~~~~k~~y~yil   82 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVI   82 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCcHHHHHHHH
Confidence            45577888888888888999999999999999999999999999988654 222344565554