Citrus Sinensis ID: 009255

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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-------54
Protein Sequence
MEGFGCLPDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGLIKRRKSISKAVD
Secondary Structure (PSIPRED)
cccccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccccccccccccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHccccHHHHcc
Secondary Structure Prediction (SSPRO)
ccccccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHccccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHccccHHHHHHHHHHHHHccccccEEHHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHccccHHHHHc
Coil and Loop (DISEMBL)
megfgclpdnvTYNTILDALFKKGKLNEVRDLLSDmkkqglvpnrttyNILVSGYCKLGWLKEAMRVVDLMtqnkslpdvwtYNMLINGWCNAGMLEEAFRLRKEMESLkllpdvvtYNTLINRFFESGRSMEAFKLIDEldehgikpnavTHNIMIKWYCKEGKIDKACKIVRNmeengfspdcvtynTLIDANCKAGNMEEAFRMMDVMgrkglkmnTITLNTILHTLCCEKKLDEAYMLLNSAskrgyyldevSYGTLITGYFRDEKANRALKLWDEMkerqimpstfTYNAMIWGLSQSGKTEQAIDMLNELLqsgmipdettfnTIIHGFCSEGQVEKALQFHNKMveksfkpdivtCNILLSGLCREGILEKALKFFRSWIlkgkavdsVTYNTLISSLCKERRLEDAFGLLSEMEekklgpdrytYAAIHTALVESGRLEEAQKFTSIMVETGkinhqvvqpntsktpeeidpssisySEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGLIKRRKSISKAVD
Flexible Loop (DISEMBL)
megfgclpdnvTYNTILDALFKKGKLNEVRDLLsdmkkqglvpnrttyniLVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLkllpdvvtYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGtlitgyfrdEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWIlkgkavdsvtyNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGkinhqvvqpntsktpeeidpSSISYSEKINEHCSQGRYKDALQIFEETRqkgiainkstymnlmnglikrrksiskavd
Low Complexity Region (SEG)
MEGFGCLPDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMntitlntilhtlCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGLIKRRKSISKAVD
Disordered region (IsUnstruct)
***FGCLPDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKI**********************************RYKDALQIFEETRQKGIAINKSTYMNLMNGLI***********
Disordered Region (DISOPRED)
***FGCLPDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGLIKRRKSISKAVD
Disordered Region (DISEMBL)
MEGFGCLPDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVV***************ISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGLIKRR********
Disordered Region (DISPRO)
****GCLPDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGLIKRRKSI*****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MEGFGCLPDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGLIKRRKSISKAVD
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	539	2.2.26 [Sep-21-2011]
Q9ZVX5	743	Pentatricopeptide repeat-	yes	no	0.909	0.659	0.545	1e-157
Q9FMF6	730	Pentatricopeptide repeat-	no	no	0.847	0.626	0.318	7e-75
Q3EDF8	598	Pentatricopeptide repeat-	no	no	0.784	0.707	0.342	1e-74
Q9LFC5	729	Pentatricopeptide repeat-	no	no	0.901	0.666	0.299	8e-73
Q9FIX3	747	Pentatricopeptide repeat-	no	no	0.914	0.659	0.292	1e-72
Q9FJE6	907	Putative pentatricopeptid	no	no	0.929	0.552	0.309	5e-71
Q9LQ14	629	Pentatricopeptide repeat-	no	no	0.935	0.801	0.299	7e-71
Q9LPX2	644	Pentatricopeptide repeat-	no	no	0.959	0.802	0.300	8e-71
Q9LFF1	754	Pentatricopeptide repeat-	no	no	0.857	0.612	0.311	5e-70
Q76C99	791	Protein Rf1, mitochondria	N/A	no	0.948	0.646	0.285	6e-70

>sp|Q9ZVX5|PP156_ARATH Pentatricopeptide repeat-containing protein At2g16880 OS=Arabidopsis thaliana GN=At2g16880 PE=2 SV=1

 Score =  555 bits (1431), Expect = e-157,   Method: Compositional matrix adjust.
 Identities = 278/510 (54%), Positives = 377/510 (73%), Gaps = 20/510 (3%)

Query: 4   FGCLPDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKE 63
           F   PDNVTYNTIL A+ KKG+L+++++LL DMKK GLVPNR TYN LV GYCKLG LKE
Sbjct: 234 FKVNPDNVTYNTILKAMSKKGRLSDLKELLLDMKKNGLVPNRVTYNNLVYGYCKLGSLKE 293

Query: 64  AMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLIN 123
           A ++V+LM Q   LPD+ TYN+LING CNAG + E   L   M+SLKL PDVVTYNTLI+
Sbjct: 294 AFQIVELMKQTNVLPDLCTYNILINGLCNAGSMREGLELMDAMKSLKLQPDVVTYNTLID 353

Query: 124 RFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEE-NGFS 182
             FE G S+EA KL+++++  G+K N VTHNI +KW CKE K +   + V+ + + +GFS
Sbjct: 354 GCFELGLSLEARKLMEQMENDGVKANQVTHNISLKWLCKEEKREAVTRKVKELVDMHGFS 413

Query: 183 PDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYML 242
           PD VTY+TLI A  K G++  A  MM  MG+KG+KMNTITLNTIL  LC E+KLDEA+ L
Sbjct: 414 PDIVTYHTLIKAYLKVGDLSGALEMMREMGQKGIKMNTITLNTILDALCKERKLDEAHNL 473

Query: 243 LNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQ 302
           LNSA KRG+ +DEV+YGTLI G+FR+EK  +AL++WDEMK+ +I P+  T+N++I GL  
Sbjct: 474 LNSAHKRGFIVDEVTYGTLIMGFFREEKVEKALEMWDEMKKVKITPTVSTFNSLIGGLCH 533

Query: 303 SGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVT 362
            GKTE A++  +EL +SG++PD++TFN+II G+C EG+VEKA +F+N+ ++ SFKPD  T
Sbjct: 534 HGKTELAMEKFDELAESGLLPDDSTFNSIILGYCKEGRVEKAFEFYNESIKHSFKPDNYT 593

Query: 363 CNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEME 422
           CNILL+GLC+EG+ EKAL FF + I + + VD+VTYNT+IS+ CK+++L++A+ LLSEME
Sbjct: 594 CNILLNGLCKEGMTEKALNFFNTLI-EEREVDTVTYNTMISAFCKDKKLKEAYDLLSEME 652

Query: 423 EKKLGPDRYTYAAIHTALVESGRLEEA----QKFTS--------IMVETGKINHQVVQPN 470
           EK L PDR+TY +  + L+E G+L E     +KF+         + VET K       P 
Sbjct: 653 EKGLEPDRFTYNSFISLLMEDGKLSETDELLKKFSGKFGSMKRDLQVETEK------NPA 706

Query: 471 TSKTPEEIDPSSISYSEKINEHCSQGRYKD 500
           TS++ EE++  +I+YS+ I+E CS+GR K+
Sbjct: 707 TSESKEELNTEAIAYSDVIDELCSRGRLKE 736

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FMF6|PP444_ARATH Pentatricopeptide repeat-containing protein At5g64320, mitochondrial OS=Arabidopsis thaliana GN=At5g64320 PE=2 SV=1

 Score =  281 bits (720), Expect = 7e-75,   Method: Compositional matrix adjust.
 Identities = 150/471 (31%), Positives = 263/471 (55%), Gaps = 14/471 (2%)

Query: 1   MEGFGCLPDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGW 60
           M   GC+P++V Y T++ +L K  ++NE   LL +M   G VP+  T+N ++ G CK   
Sbjct: 243 MTKHGCVPNSVIYQTLIHSLSKCNRVNEALQLLEEMFLMGCVPDAETFNDVILGLCKFDR 302

Query: 61  LKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEA----FRLRKEMESLKLLPDVV 116
           + EA ++V+ M      PD  TY  L+NG C  G ++ A    +R+ K        P++V
Sbjct: 303 INEAAKMVNRMLIRGFAPDDITYGYLMNGLCKIGRVDAAKDLFYRIPK--------PEIV 354

Query: 117 TYNTLINRFFESGRSMEAFKLI-DELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRN 175
            +NTLI+ F   GR  +A  ++ D +  +GI P+  T+N +I  Y KEG +  A +++ +
Sbjct: 355 IFNTLIHGFVTHGRLDDAKAVLSDMVTSYGIVPDVCTYNSLIYGYWKEGLVGLALEVLHD 414

Query: 176 MEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKK 235
           M   G  P+  +Y  L+D  CK G ++EA+ +++ M   GLK NT+  N ++   C E +
Sbjct: 415 MRNKGCKPNVYSYTILVDGFCKLGKIDEAYNVLNEMSADGLKPNTVGFNCLISAFCKEHR 474

Query: 236 LDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNA 295
           + EA  +     ++G   D  ++ +LI+G    ++   AL L  +M    ++ +T TYN 
Sbjct: 475 IPEAVEIFREMPRKGCKPDVYTFNSLISGLCEVDEIKHALWLLRDMISEGVVANTVTYNT 534

Query: 296 MIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKS 355
           +I    + G+ ++A  ++NE++  G   DE T+N++I G C  G+V+KA     KM+   
Sbjct: 535 LINAFLRRGEIKEARKLVNEMVFQGSPLDEITYNSLIKGLCRAGEVDKARSLFEKMLRDG 594

Query: 356 FKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAF 415
             P  ++CNIL++GLCR G++E+A++F +  +L+G   D VT+N+LI+ LC+  R+ED  
Sbjct: 595 HAPSNISCNILINGLCRSGMVEEAVEFQKEMVLRGSTPDIVTFNSLINGLCRAGRIEDGL 654

Query: 416 GLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKI-NHQ 465
            +  +++ + + PD  T+  + + L + G + +A       +E G + NH+
Sbjct: 655 TMFRKLQAEGIPPDTVTFNTLMSWLCKGGFVYDACLLLDEGIEDGFVPNHR 705

Arabidopsis thaliana (taxid: 3702)

>sp|Q3EDF8|PPR28_ARATH Pentatricopeptide repeat-containing protein At1g09900 OS=Arabidopsis thaliana GN=At1g09900 PE=2 SV=1

 Score =  281 bits (719), Expect = 1e-74,   Method: Compositional matrix adjust.
 Identities = 146/426 (34%), Positives = 241/426 (56%), Gaps = 3/426 (0%)

Query: 1   MEGFGCLPDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGW 60
           +EG G +PD +TYN ++    K G++N   + LS + +  + P+  TYN ++   C  G 
Sbjct: 163 LEGSGAVPDVITYNVMISGYCKAGEIN---NALSVLDRMSVSPDVVTYNTILRSLCDSGK 219

Query: 61  LKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNT 120
           LK+AM V+D M Q    PDV TY +LI   C    +  A +L  EM      PDVVTYN 
Sbjct: 220 LKQAMEVLDRMLQRDCYPDVITYTILIEATCRDSGVGHAMKLLDEMRDRGCTPDVVTYNV 279

Query: 121 LINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENG 180
           L+N   + GR  EA K ++++   G +PN +THNI+++  C  G+   A K++ +M   G
Sbjct: 280 LVNGICKEGRLDEAIKFLNDMPSSGCQPNVITHNIILRSMCSTGRWMDAEKLLADMLRKG 339

Query: 181 FSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAY 240
           FSP  VT+N LI+  C+ G +  A  +++ M + G + N+++ N +LH  C EKK+D A 
Sbjct: 340 FSPSVVTFNILINFLCRKGLLGRAIDILEKMPQHGCQPNSLSYNPLLHGFCKEKKMDRAI 399

Query: 241 MLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGL 300
             L     RG Y D V+Y T++T   +D K   A+++ +++  +   P   TYN +I GL
Sbjct: 400 EYLERMVSRGCYPDIVTYNTMLTALCKDGKVEDAVEILNQLSSKGCSPVLITYNTVIDGL 459

Query: 301 SQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDI 360
           +++GKT +AI +L+E+    + PD  T+++++ G   EG+V++A++F ++      +P+ 
Sbjct: 460 AKAGKTGKAIKLLDEMRAKDLKPDTITYSSLVGGLSREGKVDEAIKFFHEFERMGIRPNA 519

Query: 361 VTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSE 420
           VT N ++ GLC+    ++A+ F    I +G   +  +Y  LI  L  E   ++A  LL+E
Sbjct: 520 VTFNSIMLGLCKSRQTDRAIDFLVFMINRGCKPNETSYTILIEGLAYEGMAKEALELLNE 579

Query: 421 MEEKKL 426
           +  K L
Sbjct: 580 LCNKGL 585

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LFC5|PP360_ARATH Pentatricopeptide repeat-containing protein At5g01110 OS=Arabidopsis thaliana GN=At5g01110 PE=2 SV=1

 Score =  275 bits (702), Expect = 8e-73,   Method: Compositional matrix adjust.
 Identities = 151/505 (29%), Positives = 262/505 (51%), Gaps = 19/505 (3%)

Query: 12  TYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLM 71
           T N +++AL K GK+ +V   LS ++++G+ P+  TYN L+S Y   G ++EA  +++ M
Sbjct: 237 TLNIMVNALCKDGKMEKVGTFLSQVQEKGVYPDIVTYNTLISAYSSKGLMEEAFELMNAM 296

Query: 72  TQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRS 131
                 P V+TYN +ING C  G  E A  +  EM    L PD  TY +L+    + G  
Sbjct: 297 PGKGFSPGVYTYNTVINGLCKHGKYERAKEVFAEMLRSGLSPDSTTYRSLLMEACKKGDV 356

Query: 132 MEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTL 191
           +E  K+  ++    + P+ V  + M+  + + G +DKA     +++E G  PD V Y  L
Sbjct: 357 VETEKVFSDMRSRDVVPDLVCFSSMMSLFTRSGNLDKALMYFNSVKEAGLIPDNVIYTIL 416

Query: 192 IDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGY 251
           I   C+ G +  A  + + M ++G  M+ +T NTILH LC  K L EA  L N  ++R  
Sbjct: 417 IQGYCRKGMISVAMNLRNEMLQQGCAMDVVTYNTILHGLCKRKMLGEADKLFNEMTERAL 476

Query: 252 YLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAID 311
           + D  +   LI G+ +      A++L+ +MKE++I     TYN ++ G  + G  + A +
Sbjct: 477 FPDSYTLTILIDGHCKLGNLQNAMELFQKMKEKRIRLDVVTYNTLLDGFGKVGDIDTAKE 536

Query: 312 MLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLC 371
           +  +++   ++P   +++ +++  CS+G + +A +  ++M+ K+ KP ++ CN ++ G C
Sbjct: 537 IWADMVSKEILPTPISYSILVNALCSKGHLAEAFRVWDEMISKNIKPTVMICNSMIKGYC 596

Query: 372 REGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLG--PD 429
           R G       F    I +G   D ++YNTLI    +E  +  AFGL+ +MEE++ G  PD
Sbjct: 597 RSGNASDGESFLEKMISEGFVPDCISYNTLIYGFVREENMSKAFGLVKKMEEEQGGLVPD 656

Query: 430 RYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKI 489
            +TY +I        +++EA+     M+E G                 ++P   +Y+  I
Sbjct: 657 VFTYNSILHGFCRQNQMKEAEVVLRKMIERG-----------------VNPDRSTYTCMI 699

Query: 490 NEHCSQGRYKDALQIFEETRQKGIA 514
           N   SQ    +A +I +E  Q+G +
Sbjct: 700 NGFVSQDNLTEAFRIHDEMLQRGFS 724

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FIX3|PP407_ARATH Pentatricopeptide repeat-containing protein At5g39710 OS=Arabidopsis thaliana GN=EMB2745 PE=2 SV=1

 Score =  274 bits (701), Expect = 1e-72,   Method: Compositional matrix adjust.
 Identities = 166/568 (29%), Positives = 280/568 (49%), Gaps = 75/568 (13%)

Query: 2   EGFGCLPDNVTYNTILDALFK-KGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGW 60
           +  G +P  ++YN +LDA  + K  ++   ++  +M +  + PN  TYNIL+ G+C  G 
Sbjct: 161 QAHGFMPGVLSYNAVLDATIRSKRNISFAENVFKEMLESQVSPNVFTYNILIRGFCFAGN 220

Query: 61  LKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNT 120
           +  A+ + D M     LP+V TYN LI+G+C    +++ F+L + M    L P++++YN 
Sbjct: 221 IDVALTLFDKMETKGCLPNVVTYNTLIDGYCKLRKIDDGFKLLRSMALKGLEPNLISYNV 280

Query: 121 LINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENG 180
           +IN     GR  E   ++ E++  G   + VT+N +IK YCKEG   +A  +   M  +G
Sbjct: 281 VINGLCREGRMKEVSFVLTEMNRRGYSLDEVTYNTLIKGYCKEGNFHQALVMHAEMLRHG 340

Query: 181 FSPDCVTYNTLIDANCKAGN-----------------------------------MEEAF 205
            +P  +TY +LI + CKAGN                                   M EA+
Sbjct: 341 LTPSVITYTSLIHSMCKAGNMNRAMEFLDQMRVRGLCPNERTYTTLVDGFSQKGYMNEAY 400

Query: 206 RMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGY 265
           R++  M   G   + +T N +++  C   K+++A  +L    ++G   D VSY T+++G+
Sbjct: 401 RVLREMNDNGFSPSVVTYNALINGHCVTGKMEDAIAVLEDMKEKGLSPDVVSYSTVLSGF 460

Query: 266 FRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDE 325
            R    + AL++  EM E+ I P T TY+++I G  +  +T++A D+  E+L+ G+ PDE
Sbjct: 461 CRSYDVDEALRVKREMVEKGIKPDTITYSSLIQGFCEQRRTKEACDLYEEMLRVGLPPDE 520

Query: 326 TTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRS 385
            T+  +I+ +C EG +EKALQ HN+MVEK   PD+VT ++L++GL ++    +A +    
Sbjct: 521 FTYTALINAYCMEGDLEKALQLHNEMVEKGVLPDVVTYSVLINGLNKQSRTREAKRLLLK 580

Query: 386 WILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGR 445
              +      VTY+TLI + C     +    L+                         G 
Sbjct: 581 LFYEESVPSDVTYHTLIEN-CSNIEFKSVVSLIK-------------------GFCMKGM 620

Query: 446 LEEA-QKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQI 504
           + EA Q F S++   GK NH+              P   +Y+  I+ HC  G  + A  +
Sbjct: 621 MTEADQVFESML---GK-NHK--------------PDGTAYNIMIHGHCRAGDIRKAYTL 662

Query: 505 FEETRQKGIAINKSTYMNLMNGLIKRRK 532
           ++E  + G  ++  T + L+  L K  K
Sbjct: 663 YKEMVKSGFLLHTVTVIALVKALHKEGK 690

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FJE6|PP437_ARATH Putative pentatricopeptide repeat-containing protein At5g59900 OS=Arabidopsis thaliana GN=At5g59900 PE=3 SV=1

 Score =  269 bits (687), Expect = 5e-71,   Method: Compositional matrix adjust.
 Identities = 161/520 (30%), Positives = 261/520 (50%), Gaps = 19/520 (3%)

Query: 1   MEGFGCLPDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGW 60
           M   G  P++VTY+ ++D   ++GKL+     L +M   GL  +   YN L++G+CK G 
Sbjct: 393 MGKIGLRPNDVTYSILIDMFCRRGKLDTALSFLGEMVDTGLKLSVYPYNSLINGHCKFGD 452

Query: 61  LKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNT 120
           +  A   +  M   K  P V TY  L+ G+C+ G + +A RL  EM    + P + T+ T
Sbjct: 453 ISAAEGFMAEMINKKLEPTVVTYTSLMGGYCSKGKINKALRLYHEMTGKGIAPSIYTFTT 512

Query: 121 LINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENG 180
           L++  F +G   +A KL +E+ E  +KPN VT+N+MI+ YC+EG + KA + ++ M E G
Sbjct: 513 LLSGLFRAGLIRDAVKLFNEMAEWNVKPNRVTYNVMIEGYCEEGDMSKAFEFLKEMTEKG 572

Query: 181 FSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAY 240
             PD  +Y  LI   C  G   EA   +D + +   ++N I    +LH  C E KL+EA 
Sbjct: 573 IVPDTYSYRPLIHGLCLTGQASEAKVFVDGLHKGNCELNEICYTGLLHGFCREGKLEEAL 632

Query: 241 MLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGL 300
            +     +RG  LD V YG LI G  + +       L  EM +R + P    Y +MI   
Sbjct: 633 SVCQEMVQRGVDLDLVCYGVLIDGSLKHKDRKLFFGLLKEMHDRGLKPDDVIYTSMIDAK 692

Query: 301 SQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDI 360
           S++G  ++A  + + ++  G +P+E T+  +I+G C  G V +A    +KM   S  P+ 
Sbjct: 693 SKTGDFKEAFGIWDLMINEGCVPNEVTYTAVINGLCKAGFVNEAEVLCSKMQPVSSVPNQ 752

Query: 361 VTCNILLSGLCREGI-LEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLS 419
           VT    L  L +  + ++KA++   + ILKG   ++ TYN LI   C++ R+E+A  L++
Sbjct: 753 VTYGCFLDILTKGEVDMQKAVELHNA-ILKGLLANTATYNMLIRGFCRQGRIEEASELIT 811

Query: 420 EMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEID 479
            M    + PD  TY  +   L     +++A +  + M E G                 I 
Sbjct: 812 RMIGDGVSPDCITYTTMINELCRRNDVKKAIELWNSMTEKG-----------------IR 854

Query: 480 PSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKST 519
           P  ++Y+  I+  C  G    A ++  E  ++G+  N  T
Sbjct: 855 PDRVAYNTLIHGCCVAGEMGKATELRNEMLRQGLIPNNKT 894

Arabidopsis thaliana (taxid: 3702)

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

 Score =  268 bits (686), Expect = 7e-71,   Method: Compositional matrix adjust.
 Identities = 157/525 (29%), Positives = 269/525 (51%), Gaps = 21/525 (4%)

Query: 7   LPDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMR 66
           LP  V +N +L A+ K  K + V  L   M+   +  +  +YNIL++ +C+   L  A+ 
Sbjct: 77  LPSIVEFNKLLSAIAKMNKFDLVISLGERMQNLRISYDLYSYNILINCFCRRSQLPLALA 136

Query: 67  VVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFF 126
           V+  M +    PD+ T + L+NG+C+   + EA  L  +M  ++  P+ VT+NTLI+  F
Sbjct: 137 VLGKMMKLGYEPDIVTLSSLLNGYCHGKRISEAVALVDQMFVMEYQPNTVTFNTLIHGLF 196

Query: 127 ESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCV 186
              ++ EA  LID +   G +P+  T+  ++   CK G ID A  +++ ME+     D V
Sbjct: 197 LHNKASEAVALIDRMVARGCQPDLFTYGTVVNGLCKRGDIDLALSLLKKMEKGKIEADVV 256

Query: 187 TYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSA 246
            Y T+IDA C   N+ +A  +   M  KG++ N +T N+++  LC   +  +A  LL+  
Sbjct: 257 IYTTIIDALCNYKNVNDALNLFTEMDNKGIRPNVVTYNSLIRCLCNYGRWSDASRLLSDM 316

Query: 247 SKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKT 306
            +R    + V++  LI  + ++ K   A KL+DEM +R I P  FTY+++I G     + 
Sbjct: 317 IERKINPNVVTFSALIDAFVKEGKLVEAEKLYDEMIKRSIDPDIFTYSSLINGFCMHDRL 376

Query: 307 EQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNIL 366
           ++A  M   ++     P+  T+NT+I GFC   +VE+ ++   +M ++    + VT N L
Sbjct: 377 DEAKHMFELMISKDCFPNVVTYNTLIKGFCKAKRVEEGMELFREMSQRGLVGNTVTYNTL 436

Query: 367 LSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKL 426
           + GL + G  + A K F+  +  G   D +TY+ L+  LCK  +LE A  +   +++ K+
Sbjct: 437 IQGLFQAGDCDMAQKIFKKMVSDGVPPDIITYSILLDGLCKYGKLEKALVVFEYLQKSKM 496

Query: 427 GPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYS 486
            PD YTY  +   + ++G++E+       +   G      V+PN            I Y+
Sbjct: 497 EPDIYTYNIMIEGMCKAGKVEDGWDLFCSLSLKG------VKPNV-----------IIYT 539

Query: 487 EKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGLIKRR 531
             I+  C +G  ++A  +F E ++ G   N  TY    N LI+ R
Sbjct: 540 TMISGFCRKGLKEEADALFREMKEDGTLPNSGTY----NTLIRAR 580

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LPX2|PPR39_ARATH Pentatricopeptide repeat-containing protein At1g12775, mitochondrial OS=Arabidopsis thaliana GN=At1g12775 PE=2 SV=1

 Score =  268 bits (685), Expect = 8e-71,   Method: Compositional matrix adjust.
 Identities = 161/536 (30%), Positives = 272/536 (50%), Gaps = 19/536 (3%)

Query: 3   GFGCLPD-NVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWL 61
           GF    D N++Y   L +     K ++  DL  DM +   +P    +N L S   K    
Sbjct: 45  GFSTFSDRNLSYRDKLSSGLVGIKADDAVDLFRDMIQSRPLPTVIDFNRLFSAIAKTKQY 104

Query: 62  KEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTL 121
           +  + +   M        ++T +++IN +C    L  AF    ++  L   PD V +NTL
Sbjct: 105 ELVLALCKQMESKGIAHSIYTLSIMINCFCRCRKLSYAFSTMGKIMKLGYEPDTVIFNTL 164

Query: 122 INRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGF 181
           +N      R  EA +L+D + E G KP  +T N ++   C  GK+  A  ++  M E GF
Sbjct: 165 LNGLCLECRVSEALELVDRMVEMGHKPTLITLNTLVNGLCLNGKVSDAVVLIDRMVETGF 224

Query: 182 SPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYM 241
            P+ VTY  +++  CK+G    A  ++  M  + +K++ +  + I+  LC +  LD A+ 
Sbjct: 225 QPNEVTYGPVLNVMCKSGQTALAMELLRKMEERNIKLDAVKYSIIIDGLCKDGSLDNAFN 284

Query: 242 LLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLS 301
           L N    +G+  D ++Y TLI G+    + +   KL  +M +R+I P+  T++ +I    
Sbjct: 285 LFNEMEIKGFKADIITYNTLIGGFCNAGRWDDGAKLLRDMIKRKISPNVVTFSVLIDSFV 344

Query: 302 QSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIV 361
           + GK  +A  +L E++Q G+ P+  T+N++I GFC E ++E+A+Q  + M+ K   PDI+
Sbjct: 345 KEGKLREADQLLKEMMQRGIAPNTITYNSLIDGFCKENRLEEAIQMVDLMISKGCDPDIM 404

Query: 362 TCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEM 421
           T NIL++G C+   ++  L+ FR   L+G   ++VTYNTL+   C+  +LE A  L  EM
Sbjct: 405 TFNILINGYCKANRIDDGLELFREMSLRGVIANTVTYNTLVQGFCQSGKLEVAKKLFQEM 464

Query: 422 EEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPS 481
             +++ PD  +Y  +   L ++G LE+A +        GKI          K+  E+D  
Sbjct: 465 VSRRVRPDIVSYKILLDGLCDNGELEKALEI------FGKI---------EKSKMELDIG 509

Query: 482 SISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGLIKRRKSISKA 537
              Y   I+  C+  +  DA  +F     KG+ ++   Y N+M   + R+ S+SKA
Sbjct: 510 --IYMIIIHGMCNASKVDDAWDLFCSLPLKGVKLDARAY-NIMISELCRKDSLSKA 562

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LFF1|PP281_ARATH Pentatricopeptide repeat-containing protein At3g53700, chloroplastic OS=Arabidopsis thaliana GN=MEE40 PE=2 SV=1

 Score =  265 bits (678), Expect = 5e-70,   Method: Compositional matrix adjust.
 Identities = 145/465 (31%), Positives = 248/465 (53%), Gaps = 3/465 (0%)

Query: 1   MEGFGCLPDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGW 60
           M  +G +PD  T+ T++    ++G L+    +   M + G   +  + N++V G+CK G 
Sbjct: 215 MPSYGLVPDEKTFTTVMQGYIEEGDLDGALRIREQMVEFGCSWSNVSVNVIVHGFCKEGR 274

Query: 61  LKEAMRVVDLMT-QNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYN 119
           +++A+  +  M+ Q+   PD +T+N L+NG C AG ++ A  +   M      PDV TYN
Sbjct: 275 VEDALNFIQEMSNQDGFFPDQYTFNTLVNGLCKAGHVKHAIEIMDVMLQEGYDPDVYTYN 334

Query: 120 TLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEEN 179
           ++I+   + G   EA +++D++      PN VT+N +I   CKE ++++A ++ R +   
Sbjct: 335 SVISGLCKLGEVKEAVEVLDQMITRDCSPNTVTYNTLISTLCKENQVEEATELARVLTSK 394

Query: 180 GFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEA 239
           G  PD  T+N+LI   C   N   A  + + M  KG + +  T N ++ +LC + KLDEA
Sbjct: 395 GILPDVCTFNSLIQGLCLTRNHRVAMELFEEMRSKGCEPDEFTYNMLIDSLCSKGKLDEA 454

Query: 240 YMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWG 299
             +L      G     ++Y TLI G+ +  K   A +++DEM+   +  ++ TYN +I G
Sbjct: 455 LNMLKQMELSGCARSVITYNTLIDGFCKANKTREAEEIFDEMEVHGVSRNSVTYNTLIDG 514

Query: 300 LSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPD 359
           L +S + E A  ++++++  G  PD+ T+N+++  FC  G ++KA      M     +PD
Sbjct: 515 LCKSRRVEDAAQLMDQMIMEGQKPDKYTYNSLLTHFCRGGDIKKAADIVQAMTSNGCEPD 574

Query: 360 IVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLS 419
           IVT   L+SGLC+ G +E A K  RS  +KG  +    YN +I  L ++R+  +A  L  
Sbjct: 575 IVTYGTLISGLCKAGRVEVASKLLRSIQMKGINLTPHAYNPVIQGLFRKRKTTEAINLFR 634

Query: 420 EM-EEKKLGPDRYTYAAIHTALVE-SGRLEEAQKFTSIMVETGKI 462
           EM E+ +  PD  +Y  +   L    G + EA  F   ++E G +
Sbjct: 635 EMLEQNEAPPDAVSYRIVFRGLCNGGGPIREAVDFLVELLEKGFV 679

May be involved in female gametophyte development.

Arabidopsis thaliana (taxid: 3702)

>sp|Q76C99|RF1_ORYSI Protein Rf1, mitochondrial OS=Oryza sativa subsp. indica GN=Rf1 PE=2 SV=1

 Score =  265 bits (678), Expect = 6e-70,   Method: Compositional matrix adjust.
 Identities = 152/532 (28%), Positives = 275/532 (51%), Gaps = 21/532 (3%)

Query: 8   PDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRV 67
           PD  TY  ++    + G+L+     L ++ K+G   +   +  L+ G C      +AM +
Sbjct: 85  PDLCTYGILIGCCCRAGRLDLGFAALGNVIKKGFRVDAIAFTPLLKGLCADKRTSDAMDI 144

Query: 68  V-DLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLK---LLPDVVTYNTLIN 123
           V   MT+   +P+V++YN+L+ G C+    +EA  L   M   +     PDVV+Y T+IN
Sbjct: 145 VLRRMTELGCIPNVFSYNILLKGLCDENRSQEALELLHMMADDRGGGSPPDVVSYTTVIN 204

Query: 124 RFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSP 183
            FF+ G S +A+    E+ + GI P+ VT+N +I   CK   +DKA +++  M +NG  P
Sbjct: 205 GFFKEGDSDKAYSTYHEMLDRGILPDVVTYNSIIAALCKAQAMDKAMEVLNTMVKNGVMP 264

Query: 184 DCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLL 243
           DC+TYN+++   C +G  +EA   +  M   G++ + +T + ++  LC   +  EA  + 
Sbjct: 265 DCMTYNSILHGYCSSGQPKEAIGFLKKMRSDGVEPDVVTYSLLMDYLCKNGRCMEARKIF 324

Query: 244 NSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQS 303
           +S +KRG   +  +YGTL+ GY           L D M    I P  + ++ +I   ++ 
Sbjct: 325 DSMTKRGLKPEITTYGTLLQGYATKGALVEMHGLLDLMVRNGIHPDHYVFSILICAYAKQ 384

Query: 304 GKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTC 363
           GK +QA+ + +++ Q G+ P+  T+  +I   C  G+VE A+ +  +M+++   P  +  
Sbjct: 385 GKVDQAMLVFSKMRQQGLNPNAVTYGAVIGILCKSGRVEDAMLYFEQMIDEGLSPGNIVY 444

Query: 364 NILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEE 423
           N L+ GLC     E+A +     + +G  ++++ +N++I S CKE R+ ++  L   M  
Sbjct: 445 NSLIHGLCTCNKWERAEELILEMLDRGICLNTIFFNSIIDSHCKEGRVIESEKLFELMVR 504

Query: 424 KKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSI 483
             + P+  TY  +      +G+++EA K  S MV  G                 + P+++
Sbjct: 505 IGVKPNVITYNTLINGYCLAGKMDEAMKLLSGMVSVG-----------------LKPNTV 547

Query: 484 SYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGLIKRRKSIS 535
           +YS  IN +C   R +DAL +F+E    G++ +  TY  ++ GL + R++ +
Sbjct: 548 TYSTLINGYCKISRMEDALVLFKEMESSGVSPDIITYNIILQGLFQTRRTAA 599

Reduces the expression of the cytoplasmic male sterility (CMS)-associated mitochondrial gene ORF79, encoding a cytotoxic peptide. Can restore male fertility by blocking ORF79 production via endonucleolytic cleavage of dicistronic ATP6/ORF79 mRNA. Promotes the editing of ATP6 mRNAs independently of its cleavage function.

Oryza sativa subsp. indica (taxid: 39946)

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	539
147819144	778	hypothetical protein VITISV_021300 [Viti	0.994	0.688	0.690	0.0
359486541	778	PREDICTED: pentatricopeptide repeat-cont	0.994	0.688	0.688	0.0
255565812	784	pentatricopeptide repeat-containing prot	0.996	0.684	0.668	0.0
449451888	783	PREDICTED: pentatricopeptide repeat-cont	0.996	0.685	0.629	0.0
255585033	605	pentatricopeptide repeat-containing prot	0.975	0.869	0.632	0.0
357443403	873	Pentatricopeptide repeat-containing prot	0.981	0.605	0.613	0.0
224109690	728	predicted protein [Populus trichocarpa]	0.927	0.686	0.644	0.0
357120446	787	PREDICTED: pentatricopeptide repeat-cont	0.998	0.683	0.491	1e-161
297836398	743	pentatricopeptide repeat-containing prot	0.920	0.667	0.557	1e-158
414865374	793	TPA: hypothetical protein ZEAMMB73_16802	0.998	0.678	0.501	1e-158

>gi|147819144|emb|CAN78081.1| hypothetical protein VITISV_021300 [Vitis vinifera]

 Score =  773 bits (1997), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 374/542 (69%), Positives = 448/542 (82%), Gaps = 6/542 (1%)

Query: 1   MEGFGCLPDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGW 60
           M  + C PDNVTYNTILDAL KKG+L + RDLL DMK +GL+PNR TYNILV GYCK+GW
Sbjct: 234 MGKYNCSPDNVTYNTILDALCKKGRLGDARDLLMDMKSRGLLPNRNTYNILVYGYCKMGW 293

Query: 61  LKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNT 120
           LKEA  V++LMTQN  LPDVWTYNMLING CN G +EEAF+LR EME+LKLLPDVV+YNT
Sbjct: 294 LKEAANVIELMTQNNLLPDVWTYNMLINGLCNEGRIEEAFKLRDEMENLKLLPDVVSYNT 353

Query: 121 LINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENG 180
           LIN   E  +  EAFKL++E+ E G+KPNAVTHNIM+KWYCKEGK+D A   +  MEE+G
Sbjct: 354 LINGCLEWSKISEAFKLLEEMSEKGVKPNAVTHNIMVKWYCKEGKMDDASNTITKMEESG 413

Query: 181 FSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAY 240
           FSPDCVTYNTLI+  CKAGNM EAFR MD MGRK +KM+++TLNTIL TLC EKKL+EAY
Sbjct: 414 FSPDCVTYNTLINGYCKAGNMGEAFRTMDEMGRKNMKMDSVTLNTILRTLCREKKLEEAY 473

Query: 241 MLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGL 300
            LL+SA KRGY++DEVSYGTLI GYF+D   +RALKLWDEMKE++I+PST TYN +I GL
Sbjct: 474 KLLSSARKRGYFIDEVSYGTLIVGYFKDGNVDRALKLWDEMKEKEIIPSTVTYNCIIGGL 533

Query: 301 SQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDI 360
            Q GKTEQAI  LNELL+SG++PDETT+NTI+HG+C EG VEKA QFHNKMVE SFKPD+
Sbjct: 534 CQCGKTEQAISKLNELLESGLLPDETTYNTILHGYCREGDVEKAFQFHNKMVENSFKPDV 593

Query: 361 VTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSE 420
            TCNILL GLC EG+LEKALK F +W+ KGKA+D+VTYNTLI+SLCKE RL+DAF LLSE
Sbjct: 594 FTCNILLRGLCMEGMLEKALKLFNTWVSKGKAIDTVTYNTLITSLCKEGRLDDAFNLLSE 653

Query: 421 MEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKT------ 474
           MEEK+LGPD YTY AI TAL +SGR+ EA++F S M+E G +  QV+Q + ++T      
Sbjct: 654 MEEKELGPDHYTYNAIITALTDSGRIREAEEFMSKMLEKGXLPXQVLQLDXNETVVTSET 713

Query: 475 PEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGLIKRRKSI 534
            EE D SS++YSE I E C++G+YKDA++IF E++QKGI ++KSTY+NLM+GLIKRRKSI
Sbjct: 714 SEESDSSSVAYSEWIKELCTEGKYKDAMRIFGESKQKGITVDKSTYINLMDGLIKRRKSI 773

Query: 535 SK 536
           SK
Sbjct: 774 SK 775

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359486541|ref|XP_002275423.2| PREDICTED: pentatricopeptide repeat-containing protein At2g16880-like [Vitis vinifera]

 Score =  773 bits (1995), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 373/542 (68%), Positives = 447/542 (82%), Gaps = 6/542 (1%)

Query: 1   MEGFGCLPDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGW 60
           M  + C PDNVTYNTILD L KKG+L + RDLL DMK +GL+PNR TYNILV GYCK+GW
Sbjct: 234 MGKYNCSPDNVTYNTILDTLCKKGRLGDARDLLMDMKSRGLLPNRNTYNILVYGYCKMGW 293

Query: 61  LKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNT 120
           LKEA  V++LMTQN  LPDVWTYNMLING CN G +EEAF+LR EME+LKLLPDVV+YNT
Sbjct: 294 LKEAANVIELMTQNNLLPDVWTYNMLINGLCNEGRIEEAFKLRDEMENLKLLPDVVSYNT 353

Query: 121 LINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENG 180
           LIN   E  +  EAFKL++E+ E G+KPNAVTHNIM+KWYCKEGK+D A   +  MEE+G
Sbjct: 354 LINGCLEWSKISEAFKLLEEMSEKGVKPNAVTHNIMVKWYCKEGKMDDASNTITKMEESG 413

Query: 181 FSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAY 240
           FSPDCVTYNTLI+  CKAGNM EAFR MD MGRK +KM+++TLNTIL TLC EKKL+EAY
Sbjct: 414 FSPDCVTYNTLINGYCKAGNMGEAFRTMDEMGRKNMKMDSVTLNTILRTLCREKKLEEAY 473

Query: 241 MLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGL 300
            LL+SA KRGY++DEVSYGTLI GYF+D   +RALKLWDEMKE++I+PST TYN +I GL
Sbjct: 474 KLLSSARKRGYFIDEVSYGTLIVGYFKDGNVDRALKLWDEMKEKEIIPSTVTYNCIIGGL 533

Query: 301 SQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDI 360
            Q GKTEQAI  LNELL+SG++PDETT+NTI+HG+C EG VEKA QFHNKMVE SFKPD+
Sbjct: 534 CQCGKTEQAISKLNELLESGLLPDETTYNTILHGYCREGDVEKAFQFHNKMVENSFKPDV 593

Query: 361 VTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSE 420
            TCNILL GLC EG+LEKALK F +W+ KGKA+D+VTYNTLI+SLCKE RL+DAF LLSE
Sbjct: 594 FTCNILLRGLCMEGVLEKALKLFNTWVSKGKAIDTVTYNTLITSLCKEGRLDDAFNLLSE 653

Query: 421 MEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKT------ 474
           MEEK+LGPD YTY AI TAL +SGR+ EA++F S M+E G +  QV+Q + ++T      
Sbjct: 654 MEEKELGPDHYTYNAIITALTDSGRIREAEEFMSKMLEKGNLPDQVLQLDKNETVVTSET 713

Query: 475 PEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGLIKRRKSI 534
            EE D SS++YSE I E C++G+YKDA++IF E++QKGI ++KSTY+NLM+GLIKRRKSI
Sbjct: 714 SEESDSSSVAYSEWIKELCTEGKYKDAMRIFGESKQKGITVDKSTYINLMDGLIKRRKSI 773

Query: 535 SK 536
           SK
Sbjct: 774 SK 775

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255565812|ref|XP_002523895.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223536825|gb|EEF38464.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  771 bits (1990), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 363/543 (66%), Positives = 449/543 (82%), Gaps = 6/543 (1%)

Query: 1   MEGFGCLPDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGW 60
           M+ F C PDNV+YNTILD L KKGKLNE RDLL DMK  GL+PNR T+NILVSGYCKLGW
Sbjct: 238 MKDFSCFPDNVSYNTILDVLCKKGKLNEARDLLLDMKNNGLLPNRNTFNILVSGYCKLGW 297

Query: 61  LKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNT 120
           LKEA +V+DLM QN  LPDVWTYNMLI G C  G ++EAFRL+ EME+LKLLPDVVTYNT
Sbjct: 298 LKEAAQVIDLMAQNNVLPDVWTYNMLIGGLCKDGKIDEAFRLKDEMENLKLLPDVVTYNT 357

Query: 121 LINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENG 180
           LIN  F+   S++ F+LID+++  G+KPNAVT+N+++KWY KEGK+D A   +R MEE+G
Sbjct: 358 LINGCFDCSSSLKGFELIDKMEGKGVKPNAVTYNVVVKWYVKEGKMDNAGNELRKMEESG 417

Query: 181 FSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAY 240
           FSPDCVT+NTLI+  CKAG + EAFRMMD M RKGLKMN++TLNTILHTLC E+KLD+AY
Sbjct: 418 FSPDCVTFNTLINGYCKAGRLSEAFRMMDEMSRKGLKMNSVTLNTILHTLCGERKLDDAY 477

Query: 241 MLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGL 300
            LL+SASKRGY++DEVSYGTLI GYF+D K+  A+KLWDEMKE++I+PS  TYN MI GL
Sbjct: 478 KLLSSASKRGYFVDEVSYGTLIMGYFKDGKSVEAMKLWDEMKEKEIIPSIITYNTMIGGL 537

Query: 301 SQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDI 360
             SGKT+Q+ID LNELL+SG++PDETT+NTII G+C EGQVEKA QFHNKMV+KSFKPD+
Sbjct: 538 CHSGKTDQSIDKLNELLESGLVPDETTYNTIILGYCREGQVEKAFQFHNKMVKKSFKPDL 597

Query: 361 VTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSE 420
            TCNILL GLC EG+L+KALK F +WI KGKA+D+VTYNT+IS LCKE R E+AF LL+E
Sbjct: 598 FTCNILLRGLCTEGMLDKALKLFNTWISKGKAIDAVTYNTIISGLCKEDRFEEAFDLLAE 657

Query: 421 MEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSK------T 474
           MEEKKLGPD YTY AI +AL ++GR++EA++F S +VE GK+  Q +  N  K      T
Sbjct: 658 MEEKKLGPDCYTYNAILSALADAGRMKEAEEFMSRIVEQGKLQDQTISLNKRKIESSSET 717

Query: 475 PEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGLIKRRKSI 534
            +E DP+S+++SE+INE C+QG+YKDA+ + +E+ QKGI ++KSTY++LM GLIKRRKSI
Sbjct: 718 SQESDPNSVTFSEQINELCTQGKYKDAMHMVQESTQKGITLHKSTYISLMEGLIKRRKSI 777

Query: 535 SKA 537
           S++
Sbjct: 778 SRS 780

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449451888|ref|XP_004143692.1| PREDICTED: pentatricopeptide repeat-containing protein At2g16880-like [Cucumis sativus] gi|449529106|ref|XP_004171542.1| PREDICTED: pentatricopeptide repeat-containing protein At2g16880-like [Cucumis sativus]

 Score =  712 bits (1837), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 342/543 (62%), Positives = 426/543 (78%), Gaps = 6/543 (1%)

Query: 1   MEGFGCLPDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGW 60
           M  FGC+PD V+YNTILDAL K+  L E RDLL DMK +GL PN+ TYN+LV GYC+LG 
Sbjct: 239 MSEFGCVPDTVSYNTILDALLKRRLLQEARDLLLDMKSKGLSPNKHTYNMLVCGYCRLGL 298

Query: 61  LKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNT 120
           LKEA +V+++MT+N  LP VWTYNML+NG+CN G ++EAFR+R EME + +LPDVVTYNT
Sbjct: 299 LKEATKVIEIMTRNNLLPTVWTYNMLVNGFCNDGKIDEAFRIRDEMEKMNVLPDVVTYNT 358

Query: 121 LINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENG 180
           LI+   +   S E + LI+E+D+ G+K NAVT+NI++KW CK+G + +A   +  MEENG
Sbjct: 359 LIDGCSQWRDSSEVYSLIEEMDKKGVKCNAVTYNIILKWMCKKGNMTEATTTLDKMEENG 418

Query: 181 FSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAY 240
            SPDCVTYNTLI A CKAG M +AFRMMD M  KGLK++T TLNTILH LC EKKLDEAY
Sbjct: 419 LSPDCVTYNTLIGAYCKAGKMGKAFRMMDEMTSKGLKIDTWTLNTILHCLCVEKKLDEAY 478

Query: 241 MLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGL 300
            LL SASKRGY LDEVSYG LI GYF+DEK +RAL LWDEMKERQIMPST TYN++I GL
Sbjct: 479 NLLCSASKRGYILDEVSYGILILGYFKDEKGDRALNLWDEMKERQIMPSTITYNSVIGGL 538

Query: 301 SQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDI 360
            QS K +QAID LNE+L++G++PDETT+N IIHGFC EG VEKA QFHN+M+E  FKPD+
Sbjct: 539 CQSRKVDQAIDKLNEMLENGLVPDETTYNIIIHGFCLEGNVEKAFQFHNEMIENLFKPDV 598

Query: 361 VTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSE 420
            TCNILL GLCREG+LEKALK F + + KGK +D VTYNT+ISSLCKE + E+A+ LL+E
Sbjct: 599 YTCNILLRGLCREGMLEKALKLFNTLVSKGKDIDVVTYNTIISSLCKEGKFENAYDLLTE 658

Query: 421 MEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPN------TSKT 474
           ME KKLGPD+YTY  I  AL ++GR++EA++FT  MVE+G ++ Q ++        TS+ 
Sbjct: 659 MEAKKLGPDQYTYKVIIAALTDAGRIKEAEEFTLKMVESGIVHDQNLKLGKGQNVLTSEV 718

Query: 475 PEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGLIKRRKSI 534
            E  D  SI+YS++INE C+Q +YKDA+ +F E  ++G+A+NK TY+NLM GLIKRRKS 
Sbjct: 719 SEHFDFKSIAYSDQINELCNQHKYKDAMHLFVEVTKEGVALNKYTYLNLMEGLIKRRKST 778

Query: 535 SKA 537
           SKA
Sbjct: 779 SKA 781

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255585033|ref|XP_002533225.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223526957|gb|EEF29157.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  709 bits (1831), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 339/536 (63%), Positives = 427/536 (79%), Gaps = 10/536 (1%)

Query: 1   MEGFGCLPDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGW 60
           M+ F C PDNV+YNTILD L KKGKLNE RDLL DMK  GL PNR T+NILVSGYCKLGW
Sbjct: 74  MKHFSCFPDNVSYNTILDVLCKKGKLNEARDLLLDMKNNGLFPNRNTFNILVSGYCKLGW 133

Query: 61  LKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNT 120
           LKEA  V+D+M +N  LPDV TY  LI G C  G ++EAFRLR EME+LKLLP VVTYN 
Sbjct: 134 LKEAAEVIDIMARNNVLPDVRTYTTLIGGLCKDGKIDEAFRLRDEMENLKLLPHVVTYNM 193

Query: 121 LINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENG 180
           LIN  FE   S++ F+LIDE++  G+KPNAVT+N+++KWY KEGK+D A   +R MEE+G
Sbjct: 194 LINGCFECSSSLKGFELIDEMEGKGVKPNAVTYNVVVKWYVKEGKMDNAGNELRKMEESG 253

Query: 181 FSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAY 240
           FSPDCVT+NTL +  CKAG + EAFRMMD M RKGLKMN++TLNTILHTLC E+KLD+AY
Sbjct: 254 FSPDCVTFNTLSNGYCKAGRLSEAFRMMDEMSRKGLKMNSVTLNTILHTLCGERKLDDAY 313

Query: 241 MLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGL 300
            LL+SASKRGY++DEVSYGTLI GYF+  K+      WDEMKE++I+PS  TY  MI GL
Sbjct: 314 KLLSSASKRGYFVDEVSYGTLIMGYFKVGKSXX----WDEMKEKEIIPSIITYGTMIGGL 369

Query: 301 SQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDI 360
            +SGKT+Q+ID  NELL+SG++PD+TT+NTII G+C EGQV+KA  F NKMV+KSFKPD+
Sbjct: 370 CRSGKTDQSIDKCNELLESGLVPDQTTYNTIILGYCREGQVDKAFHFRNKMVKKSFKPDL 429

Query: 361 VTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSE 420
            TCNIL+ GLC EG+L+KALK F++WI KGKA+D+VT+NT+IS LC+E R E+AF LL+E
Sbjct: 430 FTCNILVRGLCTEGMLDKALKLFKTWISKGKAIDAVTFNTIISGLCEEGRFEEAFDLLAE 489

Query: 421 MEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSK------T 474
           MEEKKLGPD YT+ AI +AL ++GR++EA++F S +VE GK+  Q +  N  K      T
Sbjct: 490 MEEKKLGPDCYTHNAILSALADAGRMKEAEEFMSGIVEQGKLQDQTISLNKRKTESSSET 549

Query: 475 PEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGLIKR 530
            +E DP+S+++SE+INE C+QG+YKDA+ + +E+ QKGI ++KSTY++LM GLIKR
Sbjct: 550 SQESDPNSVAFSEQINELCTQGKYKDAMHMIQESTQKGIILHKSTYISLMEGLIKR 605

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357443403|ref|XP_003591979.1| Pentatricopeptide repeat-containing protein [Medicago truncatula] gi|355481027|gb|AES62230.1| Pentatricopeptide repeat-containing protein [Medicago truncatula]

 Score =  692 bits (1785), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 328/535 (61%), Positives = 406/535 (75%), Gaps = 6/535 (1%)

Query: 1   MEGFGCLPDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGW 60
           M  +GC PDNVTYNT+L AL K+ +L +VRDLL  MK  GL PNR TYNILV GYCKL W
Sbjct: 237 MGEYGCCPDNVTYNTVLTALCKRSQLTQVRDLLLQMKNSGLFPNRNTYNILVHGYCKLKW 296

Query: 61  LKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNT 120
           LKEA  V++LMT    LPDVWTYN ++ G C+ G ++EA RLR +MES KL+PDVVTYNT
Sbjct: 297 LKEAAEVIELMTGKGMLPDVWTYNTMVRGLCDEGKIDEAVRLRDKMESFKLVPDVVTYNT 356

Query: 121 LINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENG 180
           LI+  FE   S  AFKL++E+   G+K N VTHNIMIKW+C EGKID+A  ++  M E+G
Sbjct: 357 LIDGCFEHRGSDAAFKLVEEMKARGVKENGVTHNIMIKWFCTEGKIDEASNVMVKMVESG 416

Query: 181 FSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAY 240
           FSPDC TYNT+I+  CKAG M EA++MMD MGRKGLK++T TLNT+LHT+C EK+LD+AY
Sbjct: 417 FSPDCFTYNTMINGYCKAGKMAEAYKMMDEMGRKGLKLDTFTLNTLLHTMCLEKQLDDAY 476

Query: 241 MLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGL 300
            L   A KRGY LDEV+YGTLI GYF+DE+A+RALKLW+EMKE  I+ +  TYN +I GL
Sbjct: 477 TLTMKARKRGYILDEVTYGTLIMGYFKDEQADRALKLWEEMKETGIVATIITYNTIIRGL 536

Query: 301 SQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDI 360
             SGKT+QA+D LNELL+ G++PDE+T N IIHG+C EG VEKA QFHNKMVE S KPDI
Sbjct: 537 CLSGKTDQAVDKLNELLEKGLVPDESTSNIIIHGYCWEGAVEKAFQFHNKMVEHSLKPDI 596

Query: 361 VTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSE 420
            TCNILL GLCREG+LEK L  F +WI KGK +D+VTYN +ISS CKERRLEDAF L++E
Sbjct: 597 FTCNILLRGLCREGMLEKGLTLFNTWISKGKPMDTVTYNIIISSFCKERRLEDAFDLMTE 656

Query: 421 MEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDP 480
           ME K L PDRYTY AI T L ++GR EEA+K      E G+      Q  T  T  E+  
Sbjct: 657 MEGKNLEPDRYTYNAIVTGLTKAGRTEEAEKLALKFAEKGQ------QVKTQDTSPELGT 710

Query: 481 SSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGLIKRRKSIS 535
           S + YSE+I+  C+QG+YKDA+++F++  QKG+++NK TY+ LM+GL+KRRKS +
Sbjct: 711 SDMMYSEQISSLCTQGKYKDAMKLFQQAEQKGVSLNKYTYIKLMDGLLKRRKSFT 765

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224109690|ref|XP_002315278.1| predicted protein [Populus trichocarpa] gi|222864318|gb|EEF01449.1| predicted protein [Populus trichocarpa]

 Score =  691 bits (1782), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 326/506 (64%), Positives = 407/506 (80%), Gaps = 6/506 (1%)

Query: 1   MEGFGCLPDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGW 60
           M  +GC PDN+TYNTILD L KKG+LNE RDLL DMK +GL PNRTT+NILV G C+LGW
Sbjct: 223 MRDYGCPPDNITYNTILDGLCKKGRLNEARDLLLDMKNKGLFPNRTTFNILVVGCCRLGW 282

Query: 61  LKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNT 120
           LKEA  V++LM+QN  +PD WTYN++I+G+C  G + EA RLR+EME+LKL PDVVTYNT
Sbjct: 283 LKEAANVIELMSQNSVVPDAWTYNVMISGFCKQGRIAEAMRLREEMENLKLSPDVVTYNT 342

Query: 121 LINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENG 180
           LIN  FE G S E FKLI+E++  G+KPN+VT+N+M+KW+ K+GK+D+  K VR MEE+G
Sbjct: 343 LINGCFEHGSSEEGFKLIEEMEGRGMKPNSVTYNVMVKWFVKKGKMDEVDKTVRKMEESG 402

Query: 181 FSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAY 240
             PD VTYNTLI  +CK G M+EAFR+MD MGRKGLKM+ +TLNT+L  LC E+KLDEA+
Sbjct: 403 CLPDIVTYNTLISWHCKVGKMDEAFRLMDEMGRKGLKMDDVTLNTMLRALCRERKLDEAH 462

Query: 241 MLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGL 300
            LL SA +RGY++DEVSYGTLI GYF+ EKA++AL+LWDEMKE++I+PS  TYN+MI GL
Sbjct: 463 DLLCSARRRGYFVDEVSYGTLIIGYFKHEKASQALRLWDEMKEKEIIPSIITYNSMIAGL 522

Query: 301 SQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDI 360
            Q GKT QAID L+ELL+SG++PDE T+NTIIHG+C EGQVEKA QFHNKMVEK+FKPD+
Sbjct: 523 CQMGKTNQAIDKLDELLESGLVPDEITYNTIIHGYCQEGQVEKAFQFHNKMVEKNFKPDV 582

Query: 361 VTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSE 420
           VTCN LL GLC+EG+LEKALK F +WI KGK VD+V+YNT+I SLCKE+R  +AF LL E
Sbjct: 583 VTCNTLLCGLCKEGMLEKALKLFNTWISKGKDVDAVSYNTIILSLCKEKRFGEAFDLLEE 642

Query: 421 MEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQ------PNTSKT 474
           MEEKKLGPD YTY AI   L ++GR+++A++F S + E GK  +Q ++        TS+ 
Sbjct: 643 MEEKKLGPDCYTYNAILGGLTDAGRMKDAEEFISKIAEKGKSENQFLELGKRQDARTSEI 702

Query: 475 PEEIDPSSISYSEKINEHCSQGRYKD 500
           P+E  P++I+YS KINE CSQGRYKD
Sbjct: 703 PQEPHPNAIAYSNKINELCSQGRYKD 728

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357120446|ref|XP_003561938.1| PREDICTED: pentatricopeptide repeat-containing protein At2g16880-like [Brachypodium distachyon]

 Score =  576 bits (1485), Expect = e-161,   Method: Compositional matrix adjust.
 Identities = 274/557 (49%), Positives = 386/557 (69%), Gaps = 19/557 (3%)

Query: 1   MEGFGCLPDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGW 60
           M+GFG  PD VTYNT+L+A  +KG L E R LL+ MKK G+ P R TYN LVS Y +LGW
Sbjct: 230 MQGFGLSPDAVTYNTLLNAHCRKGMLGEARALLARMKKDGVAPTRPTYNTLVSAYARLGW 289

Query: 61  LKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESL-KLLPDVVTYN 119
           +K+A +VV+ MT N   PD+WTYN+L  G C AG ++EAFRL+ EME L  LLPDVVTYN
Sbjct: 290 IKQATKVVEAMTANGFEPDLWTYNVLAAGLCQAGKVDEAFRLKDEMERLGTLLPDVVTYN 349

Query: 120 TLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEEN 179
           TL +  F+   S +A +L++E+ E G+K   VTHNI+IK  CK+G+++ A   +  M ++
Sbjct: 350 TLADACFKCRCSSDALRLLEEMREKGVKATLVTHNIVIKGLCKDGELEGALGCLNKMADD 409

Query: 180 GFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEA 239
           G +PD +TYNTLI A+CKAGN+ +A+ +MD M R+GLK++T TLNT+L+ LC EK+ +EA
Sbjct: 410 GLAPDVITYNTLIHAHCKAGNIAKAYTLMDEMVRRGLKLDTFTLNTVLYNLCKEKRYEEA 469

Query: 240 YMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWG 299
             LL S  +RG+  DEVSYGT++  YF++  +  AL+LWDEM E+++ PS  TYN +I G
Sbjct: 470 QGLLQSPPQRGFMPDEVSYGTVMAAYFKEYNSEPALRLWDEMIEKKLTPSISTYNTLIKG 529

Query: 300 LSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPD 359
           LS+ G+ ++AID LNEL++ G++PD+TT+N IIH +C EG +E A QFHNKMVE SFKPD
Sbjct: 530 LSRMGRLKEAIDKLNELMEKGLVPDDTTYNIIIHAYCKEGDLENAFQFHNKMVENSFKPD 589

Query: 360 IVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLS 419
           +VTCN L++GLC  G L+KALK F SW+ KGK VD +TYNTLI ++CK+  ++ A    +
Sbjct: 590 VVTCNTLMNGLCLNGKLDKALKLFESWVEKGKKVDVITYNTLIQTMCKDGDVDTALHFFA 649

Query: 420 EMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQP---------- 469
           +ME + L PD +TY  + +AL E+GR EEAQ     + E+G ++     P          
Sbjct: 650 DMEARGLQPDAFTYNVVLSALSEAGRTEEAQNMLHKLAESGTLSQSFSSPLLKPSSVDEA 709

Query: 470 ---NTSKTPEEI-----DPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYM 521
                +KT EE      D +S +Y++ +N  C+ G++K+A  I +E  QKG++++ STY+
Sbjct: 710 ESGKDAKTEEETVENPQDSASEAYTKLVNGLCTSGQFKEAKAILDEMMQKGMSVDSSTYI 769

Query: 522 NLMNGLIKRRKSISKAV 538
            LM GL+KR+K ++ AV
Sbjct: 770 TLMEGLVKRQKRLTHAV 786

Source: Brachypodium distachyon

Species: Brachypodium distachyon

Genus: Brachypodium

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297836398|ref|XP_002886081.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata] gi|297331921|gb|EFH62340.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata]

 Score =  565 bits (1457), Expect = e-158,   Method: Compositional matrix adjust.
 Identities = 281/504 (55%), Positives = 377/504 (74%), Gaps = 8/504 (1%)

Query: 4   FGCLPDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKE 63
           F   PDNVTYNTIL A+ KKG+L++V+DLL DMK+ GLVPNR TYN LV GYCKLG LKE
Sbjct: 234 FNVNPDNVTYNTILKAMSKKGRLSDVKDLLLDMKRNGLVPNRVTYNNLVYGYCKLGSLKE 293

Query: 64  AMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLIN 123
           A ++V+LM Q   LPD+ TYN+LING CNAG + E   L   M+SLKL PDVVTYNTLI+
Sbjct: 294 AFQIVELMKQTNILPDLCTYNILINGVCNAGSIREGLELMDVMKSLKLQPDVVTYNTLID 353

Query: 124 RFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEE-NGFS 182
             FE G S+EA KL+++++  G+KPN VTHNI +KW CKE K ++  + V+ + E +GFS
Sbjct: 354 GCFELGLSLEAKKLMEQMENDGVKPNQVTHNISLKWLCKEEKREEVTRKVKELVEMHGFS 413

Query: 183 PDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYML 242
           PD VTY+TLI A  K G++  A  MM  MG+KG+KMNTITLNTIL  LC E+K+DEA+ L
Sbjct: 414 PDIVTYHTLIKAYLKVGDLSGALEMMREMGQKGIKMNTITLNTILDALCKERKVDEAHNL 473

Query: 243 LNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQ 302
           L+SA KRGY +DEV+YGTLI GYFR+EK  +A ++WDEMK  +I P+  T+N++I GL  
Sbjct: 474 LDSAHKRGYIVDEVTYGTLIMGYFREEKVEKAFEMWDEMKRIKITPTVTTFNSLIGGLCH 533

Query: 303 SGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVT 362
            GKTE A++  +EL +SG++PD+ TFN+II G+C EG+VEKA +F+N+ ++ SFKPD  T
Sbjct: 534 HGKTELAMEKFDELAESGLLPDDCTFNSIILGYCKEGRVEKAFEFYNESIKHSFKPDNYT 593

Query: 363 CNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEME 422
           CNILL+GLC+EG+ EKAL FF + I + + VD+VTYNT+IS+ CK+++L++A+ LLSEME
Sbjct: 594 CNILLNGLCKEGMTEKALNFFNTLITE-REVDTVTYNTMISAFCKDKKLKEAYDLLSEME 652

Query: 423 EKKLGPDRYTYAAIHTALVESGRLEEA----QKFTSIMVETGKINHQVVQ--PNTSKTPE 476
           EK+L PDR+TY +I T+L+E G+L EA    +KF+       +  H   +  P TS++ E
Sbjct: 653 EKRLEPDRFTYNSIITSLMEDGKLSEADELLKKFSGKFGSMKRNLHLETEKNPATSESKE 712

Query: 477 EIDPSSISYSEKINEHCSQGRYKD 500
           E+   +I+YS+ INE CS+GR K+
Sbjct: 713 ELKTEAIAYSDVINELCSRGRLKE 736

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|414865374|tpg|DAA43931.1| TPA: hypothetical protein ZEAMMB73_168023 [Zea mays]

 Score =  565 bits (1456), Expect = e-158,   Method: Compositional matrix adjust.
 Identities = 280/558 (50%), Positives = 384/558 (68%), Gaps = 20/558 (3%)

Query: 1   MEGFGCLPDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGW 60
           M+GFG  PD VTYNT+L+A  +KG L E R LL+ MKK+G+VP R TYN LVS Y +LGW
Sbjct: 235 MQGFGLSPDAVTYNTLLNAHCRKGMLGEARTLLARMKKEGIVPTRATYNTLVSAYARLGW 294

Query: 61  LKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLL-PDVVTYN 119
           +K+A  VV+ MT     PD+WTYN+L  G C AG ++EAF+L+ EME L ++ PDVVTYN
Sbjct: 295 IKQATDVVEAMTAFGFEPDLWTYNVLAAGLCQAGKVDEAFKLKDEMEQLGIVSPDVVTYN 354

Query: 120 TLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEEN 179
           TL++  F+  RS +A  L++E+ E G+K + VTHNI++K  C+EG++++A   +  M E 
Sbjct: 355 TLVDACFKCQRSSDALNLLEEMREKGVKSSLVTHNIIVKGLCREGQLEEALGRLEMMTEE 414

Query: 180 GFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEA 239
           G +PD +TYNTLIDA+CKAGN+ +AF +MD M R GLKM+T TLNT+L+ LC EK+ +EA
Sbjct: 415 GLTPDVITYNTLIDASCKAGNVAKAFVLMDEMVRSGLKMDTFTLNTLLYNLCKEKRYEEA 474

Query: 240 YMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWG 299
             LL +  +RG+  DEVSYGT++  YF++ K   AL LWDEM +R++ PS  TYN +I G
Sbjct: 475 EELLRAPPQRGFVPDEVSYGTVMAAYFKEYKPEPALCLWDEMIKRKLTPSISTYNTLIKG 534

Query: 300 LSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPD 359
           LS  GK  +AID LNEL++ G++PD+TT+N IIH +C EG +EKA QFHNKMVE SFKPD
Sbjct: 535 LSTMGKLTEAIDKLNELMEMGLVPDDTTYNIIIHAYCKEGDLEKAFQFHNKMVENSFKPD 594

Query: 360 IVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLS 419
           +VTCN L++GLC  G LEKA+K F SW+ KGK VD +TYNTLI +LCK+  ++ A    +
Sbjct: 595 VVTCNTLMNGLCLYGRLEKAMKLFESWVEKGKKVDVITYNTLIQALCKDNDVDTALRFFA 654

Query: 420 EMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPN--------- 470
           +ME + L PD +TY  + +AL E+GR  EAQK    + E+GK+  +   P+         
Sbjct: 655 DMEVRGLQPDVFTYNVLLSALSEAGRSVEAQKMLHKLNESGKLYGRFFYPSIKSSVEAVE 714

Query: 471 TSKTPE-EIDPSSI---------SYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTY 520
           T K PE + D  S+         SY++ I E C  G+ K+A  + +E  QKG++++ STY
Sbjct: 715 TGKDPEVKSDIESVGNTQGDDQESYNKYIKELCIGGQLKEAKAVLDEMMQKGMSVDNSTY 774

Query: 521 MNLMNGLIKRRKSISKAV 538
           + LM GLIKR+K  + A 
Sbjct: 775 ITLMEGLIKRQKRQTHAA 792

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	539
TAIR|locus:2039415	743	AT2G16880 "AT2G16880" [Arabido	0.910	0.660	0.528	9.2e-139
TAIR|locus:2024296	598	AT1G09900 "AT1G09900" [Arabido	0.840	0.757	0.309	4.2e-71
TAIR|locus:2173403	730	AT5G64320 "AT5G64320" [Arabido	0.855	0.631	0.312	2.1e-68
TAIR|locus:2164910	747	EMB2745 "EMBRYO DEFECTIVE 2745	0.972	0.701	0.296	7.2e-68
TAIR|locus:2168078	907	AT5G59900 "AT5G59900" [Arabido	0.870	0.517	0.317	1.7e-67
TAIR|locus:1009023134	644	AT1G12775 [Arabidopsis thalian	0.829	0.694	0.305	6.8e-67
TAIR|locus:2083976	754	MEE40 "maternal effect embryo	0.853	0.610	0.306	1.2e-65
TAIR|locus:2026192	630	RPF2 "rna processing factor 2"	0.853	0.730	0.306	1.6e-65
TAIR|locus:2015494	629	RPF3 "RNA processing factor 3"	0.823	0.705	0.308	9.9e-64
TAIR|locus:2015218	590	AT1G63070 [Arabidopsis thalian	0.914	0.835	0.303	6.8e-65

TAIR|locus:2039415 AT2G16880 "AT2G16880" [Arabidopsis thaliana (taxid:3702)]

 Score = 1358 (483.1 bits), Expect = 9.2e-139, P = 9.2e-139
 Identities = 265/501 (52%), Positives = 367/501 (73%)

Query:     8 PDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRV 67
             PDNVTYNTIL A+ KKG+L+++++LL DMKK GLVPNR TYN LV GYCKLG LKEA ++
Sbjct:   238 PDNVTYNTILKAMSKKGRLSDLKELLLDMKKNGLVPNRVTYNNLVYGYCKLGSLKEAFQI 297

Query:    68 VDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFE 127
             V+LM Q   LPD+ TYN+LING CNAG + E   L   M+SLKL PDVVTYNTLI+  FE
Sbjct:   298 VELMKQTNVLPDLCTYNILINGLCNAGSMREGLELMDAMKSLKLQPDVVTYNTLIDGCFE 357

Query:   128 SGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEE-NGFSPDCV 186
              G S+EA KL+++++  G+K N VTHNI +KW CKE K +   + V+ + + +GFSPD V
Sbjct:   358 LGLSLEARKLMEQMENDGVKANQVTHNISLKWLCKEEKREAVTRKVKELVDMHGFSPDIV 417

Query:   187 TYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMXXXXXXXXXXXXCCEKKLDEAYMLLNSA 246
             TY+TLI A  K G++  A  MM  MG+KG+KM            C E+KLDEA+ LLNSA
Sbjct:   418 TYHTLIKAYLKVGDLSGALEMMREMGQKGIKMNTITLNTILDALCKERKLDEAHNLLNSA 477

Query:   247 SKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKT 306
              KRG+ +DEV+YGTLI G+FR+EK  +AL++WDEMK+ +I P+  T+N++I GL   GKT
Sbjct:   478 HKRGFIVDEVTYGTLIMGFFREEKVEKALEMWDEMKKVKITPTVSTFNSLIGGLCHHGKT 537

Query:   307 EQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNIL 366
             E A++  +EL +SG++PD++TFN+II G+C EG+VEKA +F+N+ ++ SFKPD  TCNIL
Sbjct:   538 ELAMEKFDELAESGLLPDDSTFNSIILGYCKEGRVEKAFEFYNESIKHSFKPDNYTCNIL 597

Query:   367 LSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKL 426
             L+GLC+EG+ EKAL FF + +++ + VD+VTYNT+IS+ CK+++L++A+ LLSEMEEK L
Sbjct:   598 LNGLCKEGMTEKALNFFNT-LIEEREVDTVTYNTMISAFCKDKKLKEAYDLLSEMEEKGL 656

Query:   427 GPDRYTYAAIHTALVESGRLEEA----QKFTSIMVETGKINHQVV---QPNTSKTPEEID 479
              PDR+TY +  + L+E G+L E     +KF+     + K + QV     P TS++ EE++
Sbjct:   657 EPDRFTYNSFISLLMEDGKLSETDELLKKFSG-KFGSMKRDLQVETEKNPATSESKEELN 715

Query:   480 PSSISYSEKINEHCSQGRYKD 500
               +I+YS+ I+E CS+GR K+
Sbjct:   716 TEAIAYSDVIDELCSRGRLKE 736

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2024296 AT1G09900 "AT1G09900" [Arabidopsis thaliana (taxid:3702)]

 Score = 687 (246.9 bits), Expect = 4.2e-71, Sum P(2) = 4.2e-71
 Identities = 141/456 (30%), Positives = 242/456 (53%)

Query:     5 GCLPDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEA 64
             G +PD +   T++    + GK  +   +L  ++  G VP+  TYN+++SGYCK G +  A
Sbjct:   132 GNVPDIIPCTTLIRGFCRLGKTRKAAKILEILEGSGAVPDVITYNVMISGYCKAGEINNA 191

Query:    65 MRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINR 124
             + V+D M+ +   PDV TYN ++   C++G L++A  +   M      PDV+TY  LI  
Sbjct:   192 LSVLDRMSVS---PDVVTYNTILRSLCDSGKLKQAMEVLDRMLQRDCYPDVITYTILIEA 248

Query:   125 FFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPD 184
                      A KL+DE+ + G  P+ VT+N+++   CKEG++D+A K + +M  +G  P+
Sbjct:   249 TCRDSGVGHAMKLLDEMRDRGCTPDVVTYNVLVNGICKEGRLDEAIKFLNDMPSSGCQPN 308

Query:   185 CVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMXXXXXXXXXXXXCCEKKLDEAYMLLN 244
              +T+N ++ + C  G   +A +++  M RKG               C +  L  A  +L 
Sbjct:   309 VITHNIILRSMCSTGRWMDAEKLLADMLRKGFSPSVVTFNILINFLCRKGLLGRAIDILE 368

Query:   245 SASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSG 304
                + G   + +SY  L+ G+ +++K +RA++  + M  R   P   TYN M+  L + G
Sbjct:   369 KMPQHGCQPNSLSYNPLLHGFCKEKKMDRAIEYLERMVSRGCYPDIVTYNTMLTALCKDG 428

Query:   305 KTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCN 364
             K E A+++LN+L   G  P   T+NT+I G    G+  KA++  ++M  K  KPD +T +
Sbjct:   429 KVEDAVEILNQLSSKGCSPVLITYNTVIDGLAKAGKTGKAIKLLDEMRAKDLKPDTITYS 488

Query:   365 ILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEK 424
              L+ GL REG +++A+KFF  +   G   ++VT+N+++  LCK R+ + A   L  M  +
Sbjct:   489 SLVGGLSREGKVDEAIKFFHEFERMGIRPNAVTFNSIMLGLCKSRQTDRAIDFLVFMINR 548

Query:   425 KLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETG 460
                P+  +Y  +   L   G  +EA +  + +   G
Sbjct:   549 GCKPNETSYTILIEGLAYEGMAKEALELLNELCNKG 584

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0016020 "membrane" evidence=IDA

TAIR|locus:2173403 AT5G64320 "AT5G64320" [Arabidopsis thaliana (taxid:3702)]

 Score = 694 (249.4 bits), Expect = 2.1e-68, P = 2.1e-68
 Identities = 146/467 (31%), Positives = 255/467 (54%)

Query:     1 MEGFGCLPDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGW 60
             M   GC+P++V Y T++ +L K  ++NE   LL +M   G VP+  T+N ++ G CK   
Sbjct:   243 MTKHGCVPNSVIYQTLIHSLSKCNRVNEALQLLEEMFLMGCVPDAETFNDVILGLCKFDR 302

Query:    61 LKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNT 120
             + EA ++V+ M      PD  TY  L+NG C  G ++ A  L   +      P++V +NT
Sbjct:   303 INEAAKMVNRMLIRGFAPDDITYGYLMNGLCKIGRVDAAKDLFYRIPK----PEIVIFNT 358

Query:   121 LINRFFESGRSMEAFKLI-DELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEEN 179
             LI+ F   GR  +A  ++ D +  +GI P+  T+N +I  Y KEG +  A +++ +M   
Sbjct:   359 LIHGFVTHGRLDDAKAVLSDMVTSYGIVPDVCTYNSLIYGYWKEGLVGLALEVLHDMRNK 418

Query:   180 GFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMXXXXXXXXXXXXCCEKKLDEA 239
             G  P+  +Y  L+D  CK G ++EA+ +++ M   GLK             C E ++ EA
Sbjct:   419 GCKPNVYSYTILVDGFCKLGKIDEAYNVLNEMSADGLKPNTVGFNCLISAFCKEHRIPEA 478

Query:   240 YMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWG 299
               +     ++G   D  ++ +LI+G    ++   AL L  +M    ++ +T TYN +I  
Sbjct:   479 VEIFREMPRKGCKPDVYTFNSLISGLCEVDEIKHALWLLRDMISEGVVANTVTYNTLINA 538

Query:   300 LSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPD 359
               + G+ ++A  ++NE++  G   DE T+N++I G C  G+V+KA     KM+     P 
Sbjct:   539 FLRRGEIKEARKLVNEMVFQGSPLDEITYNSLIKGLCRAGEVDKARSLFEKMLRDGHAPS 598

Query:   360 IVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLS 419
              ++CNIL++GLCR G++E+A++F +  +L+G   D VT+N+LI+ LC+  R+ED   +  
Sbjct:   599 NISCNILINGLCRSGMVEEAVEFQKEMVLRGSTPDIVTFNSLINGLCRAGRIEDGLTMFR 658

Query:   420 EMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKI-NHQ 465
             +++ + + PD  T+  + + L + G + +A       +E G + NH+
Sbjct:   659 KLQAEGIPPDTVTFNTLMSWLCKGGFVYDACLLLDEGIEDGFVPNHR 705

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2164910 EMB2745 "EMBRYO DEFECTIVE 2745" [Arabidopsis thaliana (taxid:3702)]

 Score = 689 (247.6 bits), Expect = 7.2e-68, P = 7.2e-68
 Identities = 159/537 (29%), Positives = 276/537 (51%)

Query:     2 EGFGCLPDNVTYNTILDALFK-KGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGW 60
             +  G +P  ++YN +LDA  + K  ++   ++  +M +  + PN  TYNIL+ G+C  G 
Sbjct:   161 QAHGFMPGVLSYNAVLDATIRSKRNISFAENVFKEMLESQVSPNVFTYNILIRGFCFAGN 220

Query:    61 LKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNT 120
             +  A+ + D M     LP+V TYN LI+G+C    +++ F+L + M    L P++++YN 
Sbjct:   221 IDVALTLFDKMETKGCLPNVVTYNTLIDGYCKLRKIDDGFKLLRSMALKGLEPNLISYNV 280

Query:   121 LINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENG 180
             +IN     GR  E   ++ E++  G   + VT+N +IK YCKEG   +A  +   M  +G
Sbjct:   281 VINGLCREGRMKEVSFVLTEMNRRGYSLDEVTYNTLIKGYCKEGNFHQALVMHAEMLRHG 340

Query:   181 FSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMXXXXXXXXXXXXCCEKKLDEAY 240
              +P  +TY +LI + CKAGNM  A   +D M  +GL                +  ++EAY
Sbjct:   341 LTPSVITYTSLIHSMCKAGNMNRAMEFLDQMRVRGLCPNERTYTTLVDGFSQKGYMNEAY 400

Query:   241 MLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGL 300
              +L   +  G+    V+Y  LI G+    K   A+ + ++MKE+ + P   +Y+ ++ G 
Sbjct:   401 RVLREMNDNGFSPSVVTYNALINGHCVTGKMEDAIAVLEDMKEKGLSPDVVSYSTVLSGF 460

Query:   301 SQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDI 360
              +S   ++A+ +  E+++ G+ PD  T++++I GFC + + ++A   + +M+     PD 
Sbjct:   461 CRSYDVDEALRVKREMVEKGIKPDTITYSSLIQGFCEQRRTKEACDLYEEMLRVGLPPDE 520

Query:   361 VTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSE 420
              T   L++  C EG LEKAL+     + KG   D VTY+ LI+ L K+ R  +A  LL +
Sbjct:   521 FTYTALINAYCMEGDLEKALQLHNEMVEKGVLPDVVTYSVLINGLNKQSRTREAKRLLLK 580

Query:   421 MEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIM---VETGKINH--QVVQPNTSKTP 475
             +  ++  P   TY   HT L+E+    E +   S++      G +    QV +    K  
Sbjct:   581 LFYEESVPSDVTY---HT-LIENCSNIEFKSVVSLIKGFCMKGMMTEADQVFESMLGKNH 636

Query:   476 EEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGLIKRRK 532
             +   P   +Y+  I+ HC  G  + A  +++E  + G  ++  T + L+  L K  K
Sbjct:   637 K---PDGTAYNIMIHGHCRAGDIRKAYTLYKEMVKSGFLLHTVTVIALVKALHKEGK 690

GO:0005739 "mitochondrion" evidence=ISM;IDA

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

TAIR|locus:2168078 AT5G59900 "AT5G59900" [Arabidopsis thaliana (taxid:3702)]

 Score = 644 (231.8 bits), Expect = 1.7e-67, Sum P(2) = 1.7e-67
 Identities = 150/472 (31%), Positives = 240/472 (50%)

Query:     1 MEGFGCLPDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGW 60
             M   G  P++VTY+ ++D   ++GKL+     L +M   GL  +   YN L++G+CK G 
Sbjct:   393 MGKIGLRPNDVTYSILIDMFCRRGKLDTALSFLGEMVDTGLKLSVYPYNSLINGHCKFGD 452

Query:    61 LKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNT 120
             +  A   +  M   K  P V TY  L+ G+C+ G + +A RL  EM    + P + T+ T
Sbjct:   453 ISAAEGFMAEMINKKLEPTVVTYTSLMGGYCSKGKINKALRLYHEMTGKGIAPSIYTFTT 512

Query:   121 LINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENG 180
             L++  F +G   +A KL +E+ E  +KPN VT+N+MI+ YC+EG + KA + ++ M E G
Sbjct:   513 LLSGLFRAGLIRDAVKLFNEMAEWNVKPNRVTYNVMIEGYCEEGDMSKAFEFLKEMTEKG 572

Query:   181 FSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMXXXXXXXXXXXXCCEKKLDEAY 240
               PD  +Y  LI   C  G   EA   +D + +   ++            C E KL+EA 
Sbjct:   573 IVPDTYSYRPLIHGLCLTGQASEAKVFVDGLHKGNCELNEICYTGLLHGFCREGKLEEAL 632

Query:   241 MLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGL 300
              +     +RG  LD V YG LI G  + +       L  EM +R + P    Y +MI   
Sbjct:   633 SVCQEMVQRGVDLDLVCYGVLIDGSLKHKDRKLFFGLLKEMHDRGLKPDDVIYTSMIDAK 692

Query:   301 SQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDI 360
             S++G  ++A  + + ++  G +P+E T+  +I+G C  G V +A    +KM   S  P+ 
Sbjct:   693 SKTGDFKEAFGIWDLMINEGCVPNEVTYTAVINGLCKAGFVNEAEVLCSKMQPVSSVPNQ 752

Query:   361 VTCNILLSGLCREGI-LEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLS 419
             VT    L  L +  + ++KA++   + ILKG   ++ TYN LI   C++ R+E+A  L++
Sbjct:   753 VTYGCFLDILTKGEVDMQKAVELHNA-ILKGLLANTATYNMLIRGFCRQGRIEEASELIT 811

Query:   420 EMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNT 471
              M    + PD  TY  +   L     +++A +  + M E G I    V  NT
Sbjct:   812 RMIGDGVSPDCITYTTMINELCRRNDVKKAIELWNSMTEKG-IRPDRVAYNT 862

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:1009023134 AT1G12775 [Arabidopsis thaliana (taxid:3702)]

 Score = 632 (227.5 bits), Expect = 6.8e-67, Sum P(2) = 6.8e-67
 Identities = 137/448 (30%), Positives = 230/448 (51%)

Query:     3 GFGCLPD-NVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWL 61
             GF    D N++Y   L +     K ++  DL  DM +   +P    +N L S   K    
Sbjct:    45 GFSTFSDRNLSYRDKLSSGLVGIKADDAVDLFRDMIQSRPLPTVIDFNRLFSAIAKTKQY 104

Query:    62 KEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTL 121
             +  + +   M        ++T +++IN +C    L  AF    ++  L   PD V +NTL
Sbjct:   105 ELVLALCKQMESKGIAHSIYTLSIMINCFCRCRKLSYAFSTMGKIMKLGYEPDTVIFNTL 164

Query:   122 INRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGF 181
             +N      R  EA +L+D + E G KP  +T N ++   C  GK+  A  ++  M E GF
Sbjct:   165 LNGLCLECRVSEALELVDRMVEMGHKPTLITLNTLVNGLCLNGKVSDAVVLIDRMVETGF 224

Query:   182 SPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMXXXXXXXXXXXXCCEKKLDEAYM 241
              P+ VTY  +++  CK+G    A  ++  M  + +K+            C +  LD A+ 
Sbjct:   225 QPNEVTYGPVLNVMCKSGQTALAMELLRKMEERNIKLDAVKYSIIIDGLCKDGSLDNAFN 284

Query:   242 LLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLS 301
             L N    +G+  D ++Y TLI G+    + +   KL  +M +R+I P+  T++ +I    
Sbjct:   285 LFNEMEIKGFKADIITYNTLIGGFCNAGRWDDGAKLLRDMIKRKISPNVVTFSVLIDSFV 344

Query:   302 QSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIV 361
             + GK  +A  +L E++Q G+ P+  T+N++I GFC E ++E+A+Q  + M+ K   PDI+
Sbjct:   345 KEGKLREADQLLKEMMQRGIAPNTITYNSLIDGFCKENRLEEAIQMVDLMISKGCDPDIM 404

Query:   362 TCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEM 421
             T NIL++G C+   ++  L+ FR   L+G   ++VTYNTL+   C+  +LE A  L  EM
Sbjct:   405 TFNILINGYCKANRIDDGLELFREMSLRGVIANTVTYNTLVQGFCQSGKLEVAKKLFQEM 464

Query:   422 EEKKLGPDRYTYAAIHTALVESGRLEEA 449
               +++ PD  +Y  +   L ++G LE+A
Sbjct:   465 VSRRVRPDIVSYKILLDGLCDNGELEKA 492

GO:0005739 "mitochondrion" evidence=ISM

TAIR|locus:2083976 MEE40 "maternal effect embryo arrest 40" [Arabidopsis thaliana (taxid:3702)]

 Score = 668 (240.2 bits), Expect = 1.2e-65, P = 1.2e-65
 Identities = 142/463 (30%), Positives = 240/463 (51%)

Query:     1 MEGFGCLPDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGW 60
             M  +G +PD  T+ T++    ++G L+    +   M + G   +  + N++V G+CK G 
Sbjct:   215 MPSYGLVPDEKTFTTVMQGYIEEGDLDGALRIREQMVEFGCSWSNVSVNVIVHGFCKEGR 274

Query:    61 LKEAMRVVDLMT-QNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYN 119
             +++A+  +  M+ Q+   PD +T+N L+NG C AG ++ A  +   M      PDV TYN
Sbjct:   275 VEDALNFIQEMSNQDGFFPDQYTFNTLVNGLCKAGHVKHAIEIMDVMLQEGYDPDVYTYN 334

Query:   120 TLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEEN 179
             ++I+   + G   EA +++D++      PN VT+N +I   CKE ++++A ++ R +   
Sbjct:   335 SVISGLCKLGEVKEAVEVLDQMITRDCSPNTVTYNTLISTLCKENQVEEATELARVLTSK 394

Query:   180 GFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMXXXXXXXXXXXXCCEKKLDEA 239
             G  PD  T+N+LI   C   N   A  + + M  KG +             C + KLDEA
Sbjct:   395 GILPDVCTFNSLIQGLCLTRNHRVAMELFEEMRSKGCEPDEFTYNMLIDSLCSKGKLDEA 454

Query:   240 YMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWG 299
               +L      G     ++Y TLI G+ +  K   A +++DEM+   +  ++ TYN +I G
Sbjct:   455 LNMLKQMELSGCARSVITYNTLIDGFCKANKTREAEEIFDEMEVHGVSRNSVTYNTLIDG 514

Query:   300 LSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPD 359
             L +S + E A  ++++++  G  PD+ T+N+++  FC  G ++KA      M     +PD
Sbjct:   515 LCKSRRVEDAAQLMDQMIMEGQKPDKYTYNSLLTHFCRGGDIKKAADIVQAMTSNGCEPD 574

Query:   360 IVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLS 419
             IVT   L+SGLC+ G +E A K  RS  +KG  +    YN +I  L ++R+  +A  L  
Sbjct:   575 IVTYGTLISGLCKAGRVEVASKLLRSIQMKGINLTPHAYNPVIQGLFRKRKTTEAINLFR 634

Query:   420 EM-EEKKLGPDRYTYAAIHTALVESGR-LEEAQKFTSIMVETG 460
             EM E+ +  PD  +Y  +   L   G  + EA  F   ++E G
Sbjct:   635 EMLEQNEAPPDAVSYRIVFRGLCNGGGPIREAVDFLVELLEKG 677

GO:0005739 "mitochondrion" evidence=ISM

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

GO:0009507 "chloroplast" evidence=IDA

GO:0010027 "thylakoid membrane organization" evidence=RCA

GO:0010228 "vegetative to reproductive phase transition of meristem" evidence=RCA

GO:0016226 "iron-sulfur cluster assembly" evidence=RCA

GO:0048481 "ovule development" evidence=RCA

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

 Score = 644 (231.8 bits), Expect = 1.6e-65, Sum P(2) = 1.6e-65
 Identities = 141/460 (30%), Positives = 235/460 (51%)

Query:     1 MEGFGCLPDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGW 60
             M   G  P+ VT +++L+      +++E   L+  M   G  PN  T+N L+ G      
Sbjct:   142 MMKLGYEPNIVTLSSLLNGYCHSKRISEAVALVDQMFVTGYQPNTVTFNTLIHGLFLHNK 201

Query:    61 LKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNT 120
               EAM ++D M      PD+ TY +++NG C  G  + AF L  +ME  KL P V+ YNT
Sbjct:   202 ASEAMALIDRMVAKGCQPDLVTYGVVVNGLCKRGDTDLAFNLLNKMEQGKLEPGVLIYNT 261

Query:   121 LINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENG 180
             +I+   +     +A  L  E++  GI+PN VT++ +I   C  G+   A +++ +M E  
Sbjct:   262 IIDGLCKYKHMDDALNLFKEMETKGIRPNVVTYSSLISCLCNYGRWSDASRLLSDMIERK 321

Query:   181 FSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMXXXXXXXXXXXXCCEKKLDEAY 240
              +PD  T++ LIDA  K G + EA ++ D M ++ +              C   +LDEA 
Sbjct:   322 INPDVFTFSALIDAFVKEGKLVEAEKLYDEMVKRSIDPSIVTYSSLINGFCMHDRLDEAK 381

Query:   241 MLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGL 300
              +      +  + D V+Y TLI G+ + ++    ++++ EM +R ++ +T TYN +I GL
Sbjct:   382 QMFEFMVSKHCFPDVVTYNTLIKGFCKYKRVEEGMEVFREMSQRGLVGNTVTYNILIQGL 441

Query:   301 SQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDI 360
              Q+G  + A ++  E++  G+ P+  T+NT++ G C  G++EKA+     +     +P I
Sbjct:   442 FQAGDCDMAQEIFKEMVSDGVPPNIMTYNTLLDGLCKNGKLEKAMVVFEYLQRSKMEPTI 501

Query:   361 VTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSE 420
              T NI++ G+C+ G +E     F +  LKG   D V YNT+IS  C++   E+A  L  E
Sbjct:   502 YTYNIMIEGMCKAGKVEDGWDLFCNLSLKGVKPDVVAYNTMISGFCRKGSKEEADALFKE 561

Query:   421 MEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETG 460
             M+E    P+   Y  +  A +  G  E + +    M   G
Sbjct:   562 MKEDGTLPNSGCYNTLIRARLRDGDREASAELIKEMRSCG 601

GO:0005739 "mitochondrion" evidence=ISM;IDA

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

GO:0003723 "RNA binding" evidence=IDA

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

 Score = 627 (225.8 bits), Expect = 9.9e-64, Sum P(2) = 9.9e-64
 Identities = 137/444 (30%), Positives = 230/444 (51%)

Query:     1 MEGFGCLPDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGW 60
             M   G  PD VT +++L+      +++E   L+  M      PN  T+N L+ G      
Sbjct:   141 MMKLGYEPDIVTLSSLLNGYCHGKRISEAVALVDQMFVMEYQPNTVTFNTLIHGLFLHNK 200

Query:    61 LKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNT 120
               EA+ ++D M      PD++TY  ++NG C  G ++ A  L K+ME  K+  DVV Y T
Sbjct:   201 ASEAVALIDRMVARGCQPDLFTYGTVVNGLCKRGDIDLALSLLKKMEKGKIEADVVIYTT 260

Query:   121 LINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENG 180
             +I+         +A  L  E+D  GI+PN VT+N +I+  C  G+   A +++ +M E  
Sbjct:   261 IIDALCNYKNVNDALNLFTEMDNKGIRPNVVTYNSLIRCLCNYGRWSDASRLLSDMIERK 320

Query:   181 FSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMXXXXXXXXXXXXCCEKKLDEAY 240
              +P+ VT++ LIDA  K G + EA ++ D M ++ +              C   +LDEA 
Sbjct:   321 INPNVVTFSALIDAFVKEGKLVEAEKLYDEMIKRSIDPDIFTYSSLINGFCMHDRLDEAK 380

Query:   241 MLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGL 300
              +      +  + + V+Y TLI G+ + ++    ++L+ EM +R ++ +T TYN +I GL
Sbjct:   381 HMFELMISKDCFPNVVTYNTLIKGFCKAKRVEEGMELFREMSQRGLVGNTVTYNTLIQGL 440

Query:   301 SQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDI 360
              Q+G  + A  +  +++  G+ PD  T++ ++ G C  G++EKAL     + +   +PDI
Sbjct:   441 FQAGDCDMAQKIFKKMVSDGVPPDIITYSILLDGLCKYGKLEKALVVFEYLQKSKMEPDI 500

Query:   361 VTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSE 420
              T NI++ G+C+ G +E     F S  LKG   + + Y T+IS  C++   E+A  L  E
Sbjct:   501 YTYNIMIEGMCKAGKVEDGWDLFCSLSLKGVKPNVIIYTTMISGFCRKGLKEEADALFRE 560

Query:   421 MEEKKLGPDRYTYAAIHTALVESG 444
             M+E    P+  TY  +  A +  G
Sbjct:   561 MKEDGTLPNSGTYNTLIRARLRDG 584

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0006397 "mRNA processing" evidence=IMP

TAIR|locus:2015218 AT1G63070 [Arabidopsis thaliana (taxid:3702)]

 Score = 635 (228.6 bits), Expect = 6.8e-65, Sum P(2) = 6.8e-65
 Identities = 150/495 (30%), Positives = 241/495 (48%)

Query:     8 PDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRV 67
             P  V ++ +L A+ K  K + V  L   M+  G+  N  TY+I ++ +C+   L  A+ +
Sbjct:    73 PSIVEFSKLLSAIAKMNKFDLVISLGEQMQNLGISHNLYTYSIFINYFCRRSQLSLALAI 132

Query:    68 VDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFE 127
             +  M +    P + T N L+NG+C+   + EA  L  +M  +   PD VT+ TL++  F+
Sbjct:   133 LGKMMKLGYGPSIVTLNSLLNGFCHGNRISEAVALVDQMVEMGYQPDTVTFTTLVHGLFQ 192

Query:   128 SGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVT 187
               ++ EA  L++ +   G +P+ VT+  +I   CK G+ D A  ++  ME+     D V 
Sbjct:   193 HNKASEAVALVERMVVKGCQPDLVTYGAVINGLCKRGEPDLALNLLNKMEKGKIEADVVI 252

Query:   188 YNTLIDANCKAGNMEEAFRMMDVMGRKGLKMXXXXXXXXXXXXCCEKKLDEAYMLLNSAS 247
             YNT+ID  CK  +M++AF + + M  KG+K             C   +  +A  LL+   
Sbjct:   253 YNTIIDGLCKYKHMDDAFDLFNKMETKGIKPDVFTYNPLISCLCNYGRWSDASRLLSDML 312

Query:   248 KRGYYLDEVSYGTLITGYFRDEKANRALKLWDEM-KERQIMPSTFTYNAMIWGLSQSGKT 306
             ++    D V +  LI  + ++ K   A KL+DEM K +   P    YN +I G  +  + 
Sbjct:   313 EKNINPDLVFFNALIDAFVKEGKLVEAEKLYDEMVKSKHCFPDVVAYNTLIKGFCKYKRV 372

Query:   307 EQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNIL 366
             E+ +++  E+ Q G++ +  T+ T+IHGF      + A     +MV     PDI+T NIL
Sbjct:   373 EEGMEVFREMSQRGLVGNTVTYTTLIHGFFQARDCDNAQMVFKQMVSDGVHPDIMTYNIL 432

Query:   367 LSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKL 426
             L GLC  G +E AL  F     +   +D VTY T+I +LCK  ++ED + L   +  K +
Sbjct:   433 LDGLCNNGNVETALVVFEYMQKRDMKLDIVTYTTMIEALCKAGKVEDGWDLFCSLSLKGV 492

Query:   427 GPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYS 486
              P+  TY  + +     G  EEA      M E G + +     NT       D    + +
Sbjct:   493 KPNVVTYTTMMSGFCRKGLKEEADALFVEMKEDGPLPNSGTY-NTLIRARLRDGDEAASA 551

Query:   487 EKINEHCSQGRYKDA 501
             E I E  S G   DA
Sbjct:   552 ELIKEMRSCGFAGDA 566

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9ZVX5	PP156_ARATH	No assigned EC number	0.5450	0.9090	0.6594	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	539
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	7e-32
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	4e-30
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-28
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	4e-24
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-22
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	4e-20
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-17
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-17
pfam13041	50	pfam13041, PPR_2, PPR repeat family	7e-17
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	8e-17
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-16
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	2e-16
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-16
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-14
pfam13041	50	pfam13041, PPR_2, PPR repeat family	9e-14
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	3e-13
pfam13041	50	pfam13041, PPR_2, PPR repeat family	6e-13
pfam13041	50	pfam13041, PPR_2, PPR repeat family	8e-13
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-12
pfam13041	50	pfam13041, PPR_2, PPR repeat family	4e-12
pfam13041	50	pfam13041, PPR_2, PPR repeat family	5e-12
pfam12854	34	pfam12854, PPR_1, PPR repeat	1e-10
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	2e-10
pfam12854	34	pfam12854, PPR_1, PPR repeat	3e-10
pfam12854	34	pfam12854, PPR_1, PPR repeat	2e-09
pfam12854	34	pfam12854, PPR_1, PPR repeat	7e-09
pfam12854	34	pfam12854, PPR_1, PPR repeat	8e-09
pfam12854	34	pfam12854, PPR_1, PPR repeat	1e-08
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-07
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	2e-07
pfam12854	34	pfam12854, PPR_1, PPR repeat	3e-07
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	4e-07
pfam12854	34	pfam12854, PPR_1, PPR repeat	5e-07
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	7e-07
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-06
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	2e-06
pfam12854	34	pfam12854, PPR_1, PPR repeat	3e-06
pfam01535	31	pfam01535, PPR, PPR repeat	3e-06
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	5e-06
pfam01535	31	pfam01535, PPR, PPR repeat	5e-06
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	2e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	4e-05
pfam01535	31	pfam01535, PPR, PPR repeat	4e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	6e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	7e-05
pfam01535	31	pfam01535, PPR, PPR repeat	1e-04
pfam01535	31	pfam01535, PPR, PPR repeat	1e-04
pfam12854	34	pfam12854, PPR_1, PPR repeat	2e-04
pfam12854	34	pfam12854, PPR_1, PPR repeat	3e-04
pfam01535	31	pfam01535, PPR, PPR repeat	3e-04
pfam01535	31	pfam01535, PPR, PPR repeat	3e-04
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	4e-04
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	5e-04
pfam01535	31	pfam01535, PPR, PPR repeat	0.001
pfam01535	31	pfam01535, PPR, PPR repeat	0.001
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.002
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	0.002
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	0.002
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.003
pfam01535	31	pfam01535, PPR, PPR repeat	0.003
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.004

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

 Score =  130 bits (329), Expect = 7e-32
 Identities = 87/385 (22%), Positives = 177/385 (45%), Gaps = 45/385 (11%)

Query: 1   MEGFGCLPDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGW 60
           ++  G   D   Y T++    K GK++ + ++  +M   G+  N  T+  L+ G  + G 
Sbjct: 463 VQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQ 522

Query: 61  LKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEM--ESLKLLPDVVTY 118
           + +A     +M      PD   +N LI+    +G ++ AF +  EM  E+  + PD +T 
Sbjct: 523 VAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITV 582

Query: 119 NTLIN---RFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRN 175
             L+       +  R+ E +++I    E+ IK     + I +    ++G  D A  I  +
Sbjct: 583 GALMKACANAGQVDRAKEVYQMI---HEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDD 639

Query: 176 MEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKK 235
           M++ G  PD V ++ L+D    AG++++AF ++    ++G+K+ T++ ++ L   C   K
Sbjct: 640 MKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSS-LMGACSNAK 698

Query: 236 LDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNA 295
                                                +AL+L++++K  ++ P+  T NA
Sbjct: 699 ----------------------------------NWKKALELYEDIKSIKLRPTVSTMNA 724

Query: 296 MIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKS 355
           +I  L +  +  +A+++L+E+ + G+ P+  T++ ++     +   +  L   ++  E  
Sbjct: 725 LITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDG 784

Query: 356 FKPDIVTCNILLSGLCREGILEKAL 380
            KP++V C   ++GLC     EKA 
Sbjct: 785 IKPNLVMCRC-ITGLCLRRF-EKAC 807

Length = 1060

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

 Score =  125 bits (315), Expect = 4e-30
 Identities = 94/406 (23%), Positives = 176/406 (43%), Gaps = 50/406 (12%)

Query: 12  TYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLM 71
           T+N ++        ++    +L  +++ GL  +   Y  L+S   K G +     V   M
Sbjct: 439 TFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEM 498

Query: 72  TQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRS 131
                  +V T+  LI+G   AG + +AF     M S  + PD V +N LI+   +SG  
Sbjct: 499 VNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAV 558

Query: 132 MEAFKLIDEL--DEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGF--SPDCVT 187
             AF ++ E+  + H I P+ +T   ++K     G++D+A ++ + + E     +P+   
Sbjct: 559 DRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEV-- 616

Query: 188 YNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSAS 247
           Y   +++  + G+ + A  + D M +KG+K + +  + ++        LD+A+ +L  A 
Sbjct: 617 YTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDAR 676

Query: 248 KRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTE 307
           K+G  L  VSY +L+      +   +AL+L++++K  ++ P+  T NA+I  L       
Sbjct: 677 KQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITAL------- 729

Query: 308 QAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILL 367
                                       C   Q+ KAL+  ++M      P+ +T +ILL
Sbjct: 730 ----------------------------CEGNQLPKALEVLSEMKRLGLCPNTITYSILL 761

Query: 368 SGLCREGILEKALKFFRSWILKGKAVDSVTYNTL----ISSLCKER 409
               R+   +  L      +L     D +  N +    I+ LC  R
Sbjct: 762 VASERKDDADVGLD-----LLSQAKEDGIKPNLVMCRCITGLCLRR 802

Length = 1060

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

 Score =  120 bits (302), Expect = 2e-28
 Identities = 115/520 (22%), Positives = 211/520 (40%), Gaps = 91/520 (17%)

Query: 13  YNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKL-GWLKEAMRVVDLM 71
           Y    + L + G++ +  DLL DM+K+GL+     Y+      CK    +KEA R   L+
Sbjct: 373 YIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLI 432

Query: 72  TQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRS 131
                 P + T+NML++   ++  ++ A R+ + ++   L  D   Y TLI+   +SG+ 
Sbjct: 433 RN----PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKV 488

Query: 132 MEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTL 191
              F++  E+   G++ N  T   +I    + G++ KA      M      PD V +N L
Sbjct: 489 DAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNAL 548

Query: 192 IDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGY 251
           I A  ++G ++ AF   DV+     + + I                              
Sbjct: 549 ISACGQSGAVDRAF---DVLAEMKAETHPIDP---------------------------- 577

Query: 252 YLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAID 311
             D ++ G L+       + +RA +++  + E  I  +   Y   +   SQ G  + A+ 
Sbjct: 578 --DHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALS 635

Query: 312 MLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLC 371
           + +++ + G+ PDE  F+ ++            +  H   ++K+F               
Sbjct: 636 IYDDMKKKGVKPDEVFFSALVD-----------VAGHAGDLDKAF--------------- 669

Query: 372 REGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRY 431
              IL+ A K       +G  + +V+Y++L+ +    +  + A  L  +++  KL P   
Sbjct: 670 --EILQDARK-------QGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVS 720

Query: 432 TYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINE 491
           T  A+ TAL E  +L +A +  S M   G      + PNT           I+YS  +  
Sbjct: 721 TMNALITALCEGNQLPKALEVLSEMKRLG------LCPNT-----------ITYSILLVA 763

Query: 492 HCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGLIKRR 531
              +      L +  + ++ GI  N      +  GL  RR
Sbjct: 764 SERKDDADVGLDLLSQAKEDGIKPNLVMCRCIT-GLCLRR 802

Length = 1060

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

 Score =  106 bits (266), Expect = 4e-24
 Identities = 105/461 (22%), Positives = 176/461 (38%), Gaps = 74/461 (16%)

Query: 46  TTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKE 105
           +TY+ LV     L  ++    V   +  +   PD +  N ++      GML +A RL  E
Sbjct: 124 STYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDE 183

Query: 106 MESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIK------- 158
           M    L     ++ T+I    ++G   EAF L  E+ E G      T  +M++       
Sbjct: 184 MPERNL----ASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGS 239

Query: 159 ----------------------------WYCKEGKIDKACKIVRNMEENGFSPDCVTYNT 190
                                        Y K G I+ A  +   M E       V +N+
Sbjct: 240 ARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEK----TTVAWNS 295

Query: 191 LIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRG 250
           ++      G  EEA  +   M   G+ ++  T + ++        L+ A        + G
Sbjct: 296 MLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTG 355

Query: 251 YYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAI 310
           + LD V+   L+  Y +  +   A  ++D M  + ++    ++NA+I G    G+  +A+
Sbjct: 356 FPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLI----SWNALIAGYGNHGRGTKAV 411

Query: 311 DMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVE-KSFKPDIV--TCNILL 367
           +M   ++  G+ P+  TF  ++      G  E+  +    M E    KP  +   C I L
Sbjct: 412 EMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIEL 471

Query: 368 SGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGL-------LSE 420
            G  REG+L++A    R      +A    T N + ++L    R+     L       L  
Sbjct: 472 LG--REGLLDEAYAMIR------RAPFKPTVN-MWAALLTACRIHKNLELGRLAAEKLYG 522

Query: 421 MEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGK 461
           M  +KL      Y  +      SGR  EA K    +VET K
Sbjct: 523 MGPEKLN----NYVVLLNLYNSSGRQAEAAK----VVETLK 555

Length = 697

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

 Score =  102 bits (255), Expect = 1e-22
 Identities = 115/539 (21%), Positives = 237/539 (43%), Gaps = 75/539 (13%)

Query: 14  NTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQ 73
           N ++    K G +   R +   M ++    +  ++N ++SGY + G   E + +   M +
Sbjct: 226 NALITMYVKCGDVVSARLVFDRMPRR----DCISWNAMISGYFENGECLEGLELFFTMRE 281

Query: 74  NKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKL----LPDVVTYNTLINRFFESG 129
               PD+ T   +I+      +L +  RL +EM    +      DV   N+LI  +   G
Sbjct: 282 LSVDPDLMTITSVISA---CELLGDE-RLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLG 337

Query: 130 RSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTYN 189
              EA K+   ++      +AV+   MI  Y K G  DKA +    ME++  SPD +T  
Sbjct: 338 SWGEAEKVFSRME----TKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIA 393

Query: 190 TLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKR 249
           +++ A    G+++   ++ ++  RKGL    +  N ++      K +D+A  + ++  ++
Sbjct: 394 SVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEK 453

Query: 250 GYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQA 309
               D +S+ ++I G   + +   AL  + +M    + P++ T  A +   ++ G     
Sbjct: 454 ----DVISWTSIIAGLRLNNRCFEALIFFRQML-LTLKPNSVTLIAALSACARIGALMCG 508

Query: 310 IDMLNELLQSGM-----IP-------------------------DETTFNTIIHGFCSEG 339
            ++   +L++G+     +P                         D  ++N ++ G+ + G
Sbjct: 509 KEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHEKDVVSWNILLTGYVAHG 568

Query: 340 QVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVT-Y 398
           +   A++  N+MVE    PD VT   LL    R G++ + L++F S   K     ++  Y
Sbjct: 569 KGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHY 628

Query: 399 NTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVE 458
             ++  L +  +L +A+  +++M      PD     A+  AL+ + R+          VE
Sbjct: 629 ACVVDLLGRAGKLTEAYNFINKMPIT---PD----PAVWGALLNACRIHRH-------VE 674

Query: 459 TGKINHQVVQPNTSKTPEEIDPSSISYSEKI-NEHCSQGRYKDALQIFEETRQKGIAIN 516
            G++  Q +         E+DP+S+ Y   + N +   G++ +  ++ +  R+ G+ ++
Sbjct: 675 LGELAAQHIF--------ELDPNSVGYYILLCNLYADAGKWDEVARVRKTMRENGLTVD 725

Length = 857

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

 Score = 93.8 bits (233), Expect = 4e-20
 Identities = 83/366 (22%), Positives = 142/366 (38%), Gaps = 16/366 (4%)

Query: 98  EAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMI 157
           E F + +      L     TY+ L+              +   ++  G +P+    N ++
Sbjct: 108 ELFEILEAGCPFTL--PASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVL 165

Query: 158 KWYCKEGKIDKACKIVRNM-EENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGL 216
             + K G +  A ++   M E N       ++ T+I     AGN  EAF +   M   G 
Sbjct: 166 LMHVKCGMLIDARRLFDEMPERNLA-----SWGTIIGGLVDAGNYREAFALFREMWEDGS 220

Query: 217 KMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALK 276
                T   +L              L     K G   D      LI  Y +      A  
Sbjct: 221 DAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARC 280

Query: 277 LWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFC 336
           ++D M E+    +T  +N+M+ G +  G +E+A+ +  E+  SG+  D+ TF+ +I  F 
Sbjct: 281 VFDGMPEK----TTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFS 336

Query: 337 SEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSV 396
               +E A Q H  ++   F  DIV    L+    + G +E A   F     K    + +
Sbjct: 337 RLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRK----NLI 392

Query: 397 TYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIM 456
           ++N LI+      R   A  +   M  + + P+  T+ A+ +A   SG  E+  +    M
Sbjct: 393 SWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSM 452

Query: 457 VETGKI 462
            E  +I
Sbjct: 453 SENHRI 458

Length = 697

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

 Score = 86.1 bits (213), Expect = 1e-17
 Identities = 110/471 (23%), Positives = 199/471 (42%), Gaps = 39/471 (8%)

Query: 1   MEGFGCLPDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGW 60
           M      PD +T  +++ A    G     R++   + K G   + +  N L+  Y  LG 
Sbjct: 279 MRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGS 338

Query: 61  LKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNT 120
             EA +V   M       D  ++  +I+G+   G+ ++A      ME   + PD +T  +
Sbjct: 339 WGEAEKVFSRMETK----DAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIAS 394

Query: 121 LINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENG 180
           +++     G      KL +  +  G+    V  N +I+ Y K   IDKA ++  N+ E  
Sbjct: 395 VLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEK- 453

Query: 181 FSPDCVTYNTLIDANCKAGNMEEA---FRMMDVMGRKGLKMNTITLNTILHT------LC 231
              D +++ ++I          EA   FR M       LK N++TL   L        L 
Sbjct: 454 ---DVISWTSIIAGLRLNNRCFEALIFFRQM----LLTLKPNSVTLIAALSACARIGALM 506

Query: 232 CEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTF 291
           C K++  A++L     + G   D      L+  Y R  + N A   ++  ++        
Sbjct: 507 CGKEI-HAHVL-----RTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHEK-----DVV 555

Query: 292 TYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKM 351
           ++N ++ G    GK   A+++ N +++SG+ PDE TF +++      G V + L++ + M
Sbjct: 556 SWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSM 615

Query: 352 VEK-SFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERR 410
            EK S  P++     ++  L R G L +A  F     +     D   +  L+++    R 
Sbjct: 616 EEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMPITP---DPAVWGALLNACRIHRH 672

Query: 411 LEDAFGLLSEMEEKKLGPDRYTYAAIHTAL-VESGRLEEAQKFTSIMVETG 460
           +E   G L+     +L P+   Y  +   L  ++G+ +E  +    M E G
Sbjct: 673 VE--LGELAAQHIFELDPNSVGYYILLCNLYADAGKWDEVARVRKTMRENG 721

Length = 857

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

 Score = 76.3 bits (189), Expect = 1e-17
 Identities = 27/50 (54%), Positives = 36/50 (72%)

Query: 8  PDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCK 57
          PD VTYNT++D   KKGK+ E   L ++MKK+G+ PN  TY+IL+ G CK
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|205222 pfam13041, PPR_2, PPR repeat family

 Score = 74.0 bits (183), Expect = 7e-17
 Identities = 22/50 (44%), Positives = 34/50 (68%)

Query: 148 PNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCK 197
           P+ VT+N +I  YCK+GK+++A K+   M++ G  P+  TY+ LID  CK
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 83.7 bits (207), Expect = 8e-17
 Identities = 91/389 (23%), Positives = 162/389 (41%), Gaps = 22/389 (5%)

Query: 84  NMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEA-----FKLI 138
           N  +   C+ G LE+A +L + M+ L++  D   Y  L  R  E  R++E       + +
Sbjct: 55  NSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALF-RLCEWKRAVEEGSRVCSRAL 113

Query: 139 DELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKA 198
                 G++      N M+  + + G++  A  +   M E     D  ++N L+    KA
Sbjct: 114 SSHPSLGVR----LGNAMLSMFVRFGELVHAWYVFGKMPER----DLFSWNVLVGGYAKA 165

Query: 199 GNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSY 258
           G  +EA  +   M   G++ +  T   +L T      L     +     + G+ LD    
Sbjct: 166 GYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVV 225

Query: 259 GTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQ 318
             LIT Y +      A  ++D M  R  +    ++NAMI G  ++G+  + +++   + +
Sbjct: 226 NALITMYVKCGDVVSARLVFDRMPRRDCI----SWNAMISGYFENGECLEGLELFFTMRE 281

Query: 319 SGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEK 378
             + PD  T  ++I      G      + H  +V+  F  D+  CN L+      G   +
Sbjct: 282 LSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGE 341

Query: 379 ALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHT 438
           A K F     K    D+V++  +IS   K    + A    + ME+  + PD  T A++ +
Sbjct: 342 AEKVFSRMETK----DAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLS 397

Query: 439 ALVESGRLEEAQKFTSIMVETGKINHQVV 467
           A    G L+   K   +    G I++ VV
Sbjct: 398 ACACLGDLDVGVKLHELAERKGLISYVVV 426

Length = 857

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

 Score = 73.6 bits (182), Expect = 1e-16
 Identities = 26/50 (52%), Positives = 36/50 (72%)

Query: 113 PDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCK 162
           PDVVTYNTLI+ + + G+  EA KL +E+ + GIKPN  T++I+I   CK
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 82.2 bits (203), Expect = 2e-16
 Identities = 94/401 (23%), Positives = 175/401 (43%), Gaps = 42/401 (10%)

Query: 11  VTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDL 70
           V +  ++ A +  GK+ E RDL S             +N+LV GY K G+  EA+ +   
Sbjct: 132 VRFGELVHAWYVFGKMPE-RDLFS-------------WNVLVGGYAKAGYFDEALCLYHR 177

Query: 71  MTQNKSLPDVWTYNMLIN---GWCNAGMLEE--AFRLRKEMESLKLLPDVVTYNTLINRF 125
           M      PDV+T+  ++    G  +     E  A  +R   E      DV   N LI  +
Sbjct: 178 MLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFEL-----DVDVVNALITMY 232

Query: 126 FESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDC 185
            + G  + A  + D +         ++ N MI  Y + G+  +  ++   M E    PD 
Sbjct: 233 VKCGDVVSARLVFDRMPRRDC----ISWNAMISGYFENGECLEGLELFFTMRELSVDPDL 288

Query: 186 VTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNS 245
           +T  ++I A    G+      M   + + G  ++    N+++          EA  + + 
Sbjct: 289 MTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSR 348

Query: 246 ASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGK 305
              +    D VS+  +I+GY ++   ++AL+ +  M++  + P   T  +++   +  G 
Sbjct: 349 METK----DAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGD 404

Query: 306 TEQAIDMLNELLQS-GMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCN 364
            +  +  L+EL +  G+I      N +I  +     ++KAL+  + + EK    D+++  
Sbjct: 405 LDVGV-KLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEK----DVISWT 459

Query: 365 ILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSL 405
            +++GL       +AL FFR  +L  K  +SV   TLI++L
Sbjct: 460 SIIAGLRLNNRCFEALIFFRQMLLTLKP-NSV---TLIAAL 496

Length = 857

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

 Score = 72.4 bits (179), Expect = 2e-16
 Identities = 23/50 (46%), Positives = 38/50 (76%)

Query: 323 PDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCR 372
           PD  T+NT+I G+C +G+VE+AL+  N+M ++  KP++ T +IL+ GLC+
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|205222 pfam13041, PPR_2, PPR repeat family

 Score = 67.8 bits (167), Expect = 1e-14
 Identities = 23/46 (50%), Positives = 32/46 (69%)

Query: 78  PDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLIN 123
           PDV TYN LI+G+C  G +EEA +L  EM+   + P+V TY+ LI+
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 = 65.1 bits (160), Expect = 9e-14
 Identities = 23/49 (46%), Positives = 33/49 (67%)

Query: 183 PDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLC 231
           PD VTYNTLID  CK G +EEA ++ + M ++G+K N  T + ++  LC
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLC 49

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

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

 Score = 71.8 bits (176), Expect = 3e-13
 Identities = 55/242 (22%), Positives = 108/242 (44%), Gaps = 36/242 (14%)

Query: 9   DNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVV 68
           D  T++ ++    +   L   +   + + + G   +      LV  Y K G +++A  V 
Sbjct: 324 DQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVF 383

Query: 69  DLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFES 128
           D M +     ++ ++N LI G+ N G   +A  + + M +  + P+ VT+  +++    S
Sbjct: 384 DRMPRK----NLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYS 439

Query: 129 GRSMEAFKLIDELDE-HGIKPNAVTHNIMIKWYCKEGKIDK------------------- 168
           G S + +++   + E H IKP A+ +  MI+   +EG +D+                   
Sbjct: 440 GLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAPFKPTVNMWAA 499

Query: 169 ---ACKIVRNMEEN--------GFSPDCV-TYNTLIDANCKAGNMEEAFRMMDVMGRKGL 216
              AC+I +N+E          G  P+ +  Y  L++    +G   EA ++++ + RKGL
Sbjct: 500 LLTACRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGL 559

Query: 217 KM 218
            M
Sbjct: 560 SM 561

Length = 697

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

 Score = 62.8 bits (154), Expect = 6e-13
 Identities = 18/49 (36%), Positives = 30/49 (61%)

Query: 288 PSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFC 336
           P   TYN +I G  + GK E+A+ + NE+ + G+ P+  T++ +I G C
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLC 49

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

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

 Score = 62.4 bits (153), Expect = 8e-13
 Identities = 24/49 (48%), Positives = 34/49 (69%)

Query: 254 DEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQ 302
           D V+Y TLI GY +  K   ALKL++EMK+R I P+ +TY+ +I GL +
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 62.0 bits (152), Expect = 1e-12
 Identities = 21/50 (42%), Positives = 35/50 (70%)

Query: 43 PNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCN 92
          P+  TYN L+ GYCK G ++EA+++ + M +    P+V+TY++LI+G C 
Sbjct: 1  PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 60.5 bits (148), Expect = 4e-12
 Identities = 22/50 (44%), Positives = 31/50 (62%)

Query: 358 PDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCK 407
           PD+VT N L+ G C++G +E+ALK F     +G   +  TY+ LI  LCK
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 60.5 bits (148), Expect = 5e-12
 Identities = 19/40 (47%), Positives = 29/40 (72%)

Query: 394 DSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTY 433
           D VTYNTLI   CK+ ++E+A  L +EM+++ + P+ YTY
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTY 41

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

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

 Score = 55.8 bits (136), Expect = 1e-10
 Identities = 18/33 (54%), Positives = 23/33 (69%)

Query: 179 NGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVM 211
            G  PD VTYNTLID  C+AG ++EA  ++D M
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEM 33

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

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

 Score = 63.4 bits (154), Expect = 2e-10
 Identities = 59/280 (21%), Positives = 119/280 (42%), Gaps = 27/280 (9%)

Query: 274 ALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIH 333
           A +L+DEM ER +     ++  +I GL  +G   +A  +  E+ + G   +  TF  ++ 
Sbjct: 177 ARRLFDEMPERNL----ASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLR 232

Query: 334 GFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAV 393
                G      Q H  +++     D      L+    + G +E A   F    +  K  
Sbjct: 233 ASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDG--MPEKTT 290

Query: 394 DSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFT 453
             V +N++++        E+A  L  EM +  +  D++T++ +         LE A++  
Sbjct: 291 --VAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAH 348

Query: 454 SIMVETG---KI--NHQVV-------QPNTSKTPEEIDPSS--ISYSEKINEHCSQGRYK 499
           + ++ TG    I  N  +V       +   ++   +  P    IS++  I  + + GR  
Sbjct: 349 AGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGT 408

Query: 500 DALQIFEETRQKGIAINKSTYMNLMN-----GLIKRRKSI 534
            A+++FE    +G+A N  T++ +++     GL ++   I
Sbjct: 409 KAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEI 448

Length = 697

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

 Score = 54.7 bits (133), Expect = 3e-10
 Identities = 18/30 (60%), Positives = 21/30 (70%)

Query: 78  PDVWTYNMLINGWCNAGMLEEAFRLRKEME 107
           PDV TYN LI+G C AG ++EA  L  EME
Sbjct: 5   PDVVTYNTLIDGLCRAGRVDEAVELLDEME 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 = 52.4 bits (127), Expect = 2e-09
 Identities = 19/34 (55%), Positives = 23/34 (67%)

Query: 389 KGKAVDSVTYNTLISSLCKERRLEDAFGLLSEME 422
           KG   D VTYNTLI  LC+  R+++A  LL EME
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

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

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

 Score = 51.2 bits (124), Expect = 7e-09
 Identities = 14/33 (42%), Positives = 22/33 (66%)

Query: 39 QGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLM 71
          +GL P+  TYN L+ G C+ G + EA+ ++D M
Sbjct: 1  KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEM 33

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

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

 Score = 50.8 bits (123), Expect = 8e-09
 Identities = 13/34 (38%), Positives = 23/34 (67%)

Query: 319 SGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMV 352
            G+ PD  T+NT+I G C  G+V++A++  ++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|205109 pfam12854, PPR_1, PPR repeat

 Score = 50.4 bits (122), Expect = 1e-08
 Identities = 13/33 (39%), Positives = 24/33 (72%)

Query: 145 GIKPNAVTHNIMIKWYCKEGKIDKACKIVRNME 177
           G+KP+ VT+N +I   C+ G++D+A +++  ME
Sbjct: 2   GLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 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|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score = 54.5 bits (131), Expect = 1e-07
 Identities = 48/183 (26%), Positives = 85/183 (46%), Gaps = 17/183 (9%)

Query: 9   DNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVV 68
           D V++N +L      GK +   +L + M + G+ P+  T+  L+    + G + + +   
Sbjct: 553 DVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYF 612

Query: 69  DLMTQNKSL-PDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLIN---- 123
             M +  S+ P++  Y  +++    AG L EA+    +M    + PD   +  L+N    
Sbjct: 613 HSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKM---PITPDPAVWGALLNACRI 669

Query: 124 -RFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMI-KWYCKEGKIDKACKIVRNMEENGF 181
            R  E G    A + I ELD     PN+V + I++   Y   GK D+  ++ + M ENG 
Sbjct: 670 HRHVELGEL--AAQHIFELD-----PNSVGYYILLCNLYADAGKWDEVARVRKTMRENGL 722

Query: 182 SPD 184
           + D
Sbjct: 723 TVD 725

Length = 857

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

 Score = 47.1 bits (113), Expect = 2e-07
 Identities = 13/35 (37%), Positives = 23/35 (65%)

Query: 151 VTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDC 185
           VT+N +I   CK G++++A ++ + M+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|205109 pfam12854, PPR_1, PPR repeat

 Score = 46.2 bits (111), Expect = 3e-07
 Identities = 14/31 (45%), Positives = 21/31 (67%)

Query: 354 KSFKPDIVTCNILLSGLCREGILEKALKFFR 384
           K  KPD+VT N L+ GLCR G +++A++   
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLD 31

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 = 45.9 bits (110), Expect = 4e-07
 Identities = 15/34 (44%), Positives = 24/34 (70%)

Query: 327 TFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDI 360
           T+NT+I G C  G+VE+AL+   +M E+  +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|205109 pfam12854, PPR_1, PPR repeat

 Score = 45.8 bits (110), Expect = 5e-07
 Identities = 15/34 (44%), Positives = 24/34 (70%)

Query: 4  FGCLPDNVTYNTILDALFKKGKLNEVRDLLSDMK 37
           G  PD VTYNT++D L + G+++E  +LL +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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 45.5 bits (109), Expect = 7e-07
 Identities = 19/34 (55%), Positives = 24/34 (70%)

Query: 396 VTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPD 429
           VTYNTLI  LCK  R+E+A  L  EM+E+ + 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|205222 pfam13041, PPR_2, PPR repeat family

 Score = 44.3 bits (106), Expect = 2e-06
 Identities = 18/50 (36%), Positives = 34/50 (68%)

Query: 480 PSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGLIK 529
           P  ++Y+  I+ +C +G+ ++AL++F E +++GI  N  TY  L++GL 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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 44.4 bits (106), Expect = 2e-06
 Identities = 15/34 (44%), Positives = 25/34 (73%)

Query: 11 VTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPN 44
          VTYNT++D L K G++ E  +L  +MK++G+ P+
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|205109 pfam12854, PPR_1, PPR repeat

 Score = 43.5 bits (104), Expect = 3e-06
 Identities = 18/30 (60%), Positives = 22/30 (73%)

Query: 111 LLPDVVTYNTLINRFFESGRSMEAFKLIDE 140
           L PDVVTYNTLI+    +GR  EA +L+DE
Sbjct: 3   LKPDVVTYNTLIDGLCRAGRVDEAVELLDE 32

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

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

 Score = 43.6 bits (104), Expect = 3e-06
 Identities = 16/31 (51%), Positives = 20/31 (64%)

Query: 186 VTYNTLIDANCKAGNMEEAFRMMDVMGRKGL 216
           VTYN+LI   CKAG +EEA  +   M  KG+
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 = 42.8 bits (102), Expect = 5e-06
 Identities = 19/34 (55%), Positives = 23/34 (67%)

Query: 82  TYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDV 115
           TYN LI+G C AG +EEA  L KEM+   + PDV
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 = 42.8 bits (102), Expect = 5e-06
 Identities = 17/31 (54%), Positives = 22/31 (70%)

Query: 396 VTYNTLISSLCKERRLEDAFGLLSEMEEKKL 426
           VTYN+LIS  CK  +LE+A  L  EM+EK +
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 = 41.0 bits (97), Expect = 2e-05
 Identities = 14/33 (42%), Positives = 18/33 (54%)

Query: 11 VTYNTILDALFKKGKLNEVRDLLSDMKKQGLVP 43
           TYN +L AL K G  +    +L +MK  GL P
Sbjct: 2  ETYNALLLALAKAGDPDLALAVLEEMKASGLKP 34

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

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

 Score = 40.1 bits (95), Expect = 4e-05
 Identities = 17/35 (48%), Positives = 24/35 (68%)

Query: 116 VTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNA 150
           VTYNTLI+   ++GR  EA +L  E+ E GI+P+ 
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 40.1 bits (95), Expect = 4e-05
 Identities = 13/31 (41%), Positives = 22/31 (70%)

Query: 151 VTHNIMIKWYCKEGKIDKACKIVRNMEENGF 181
           VT+N +I  YCK GK+++A ++ + M+E G 
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 39.8 bits (94), Expect = 6e-05
 Identities = 14/34 (41%), Positives = 20/34 (58%)

Query: 47 TYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDV 80
          TYN L+ G CK G ++EA+ +   M +    PDV
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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 39.8 bits (94), Expect = 7e-05
 Identities = 17/35 (48%), Positives = 23/35 (65%)

Query: 186 VTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNT 220
           VTYNTLID  CKAG +EEA  +   M  +G++ + 
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 = 39.4 bits (93), Expect = 1e-04
 Identities = 17/30 (56%), Positives = 21/30 (70%)

Query: 82  TYNMLINGWCNAGMLEEAFRLRKEMESLKL 111
           TYN LI+G+C AG LEEA  L KEM+   +
Sbjct: 2   TYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 39.4 bits (93), Expect = 1e-04
 Identities = 12/30 (40%), Positives = 21/30 (70%)

Query: 327 TFNTIIHGFCSEGQVEKALQFHNKMVEKSF 356
           T+N++I G+C  G++E+AL+   +M EK  
Sbjct: 2   TYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 38.5 bits (91), Expect = 2e-04
 Identities = 14/31 (45%), Positives = 21/31 (67%)

Query: 214 KGLKMNTITLNTILHTLCCEKKLDEAYMLLN 244
           KGLK + +T NT++  LC   ++DEA  LL+
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLD 31

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 = 38.1 bits (90), Expect = 3e-04
 Identities = 14/34 (41%), Positives = 21/34 (61%)

Query: 249 RGYYLDEVSYGTLITGYFRDEKANRALKLWDEMK 282
           +G   D V+Y TLI G  R  + + A++L DEM+
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 = 37.8 bits (89), Expect = 3e-04
 Identities = 14/28 (50%), Positives = 19/28 (67%)

Query: 47 TYNILVSGYCKLGWLKEAMRVVDLMTQN 74
          TYN L+SGYCK G L+EA+ +   M + 
Sbjct: 2  TYNSLISGYCKAGKLEEALELFKEMKEK 29

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 = 37.8 bits (89), Expect = 3e-04
 Identities = 13/31 (41%), Positives = 21/31 (67%)

Query: 11 VTYNTILDALFKKGKLNEVRDLLSDMKKQGL 41
          VTYN+++    K GKL E  +L  +MK++G+
Sbjct: 1  VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 37.5 bits (88), Expect = 4e-04
 Identities = 10/34 (29%), Positives = 19/34 (55%)

Query: 115 VVTYNTLINRFFESGRSMEAFKLIDELDEHGIKP 148
           + TYN L+    ++G    A  +++E+   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|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 37.2 bits (87), Expect = 5e-04
 Identities = 13/32 (40%), Positives = 19/32 (59%)

Query: 186 VTYNTLIDANCKAGNMEEAFRMMDVMGRKGLK 217
            TYN L+ A  KAG+ + A  +++ M   GLK
Sbjct: 2   ETYNALLLALAKAGDPDLALAVLEEMKASGLK 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|144943 pfam01535, PPR, PPR repeat

 Score = 36.3 bits (85), Expect = 0.001
 Identities = 14/31 (45%), Positives = 22/31 (70%)

Query: 256 VSYGTLITGYFRDEKANRALKLWDEMKERQI 286
           V+Y +LI+GY +  K   AL+L+ EMKE+ +
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 = 35.9 bits (84), Expect = 0.001
 Identities = 11/31 (35%), Positives = 22/31 (70%)

Query: 291 FTYNAMIWGLSQSGKTEQAIDMLNELLQSGM 321
            TYN++I G  ++GK E+A+++  E+ + G+
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 35.5 bits (83), Expect = 0.002
 Identities = 13/35 (37%), Positives = 24/35 (68%)

Query: 291 FTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDE 325
            TYN +I GL ++G+ E+A+++  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|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 36.0 bits (84), Expect = 0.002
 Identities = 12/33 (36%), Positives = 17/33 (51%)

Query: 396 VTYNTLISSLCKERRLEDAFGLLSEMEEKKLGP 428
            TYN L+ +L K    + A  +L EM+   L P
Sbjct: 2   ETYNALLLALAKAGDPDLALAVLEEMKASGLKP 34

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

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

 Score = 35.6 bits (83), Expect = 0.002
 Identities = 11/34 (32%), Positives = 18/34 (52%)

Query: 80  VWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLP 113
           + TYN L+     AG  + A  + +EM++  L 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 = 35.1 bits (82), Expect = 0.003
 Identities = 16/35 (45%), Positives = 21/35 (60%)

Query: 256 VSYGTLITGYFRDEKANRALKLWDEMKERQIMPST 290
           V+Y TLI G  +  +   AL+L+ EMKER I P  
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 35.1 bits (82), Expect = 0.003
 Identities = 13/31 (41%), Positives = 22/31 (70%)

Query: 116 VTYNTLINRFFESGRSMEAFKLIDELDEHGI 146
           VTYN+LI+ + ++G+  EA +L  E+ E G+
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 34.7 bits (81), Expect = 0.004
 Identities = 14/35 (40%), Positives = 21/35 (60%)

Query: 361 VTCNILLSGLCREGILEKALKFFRSWILKGKAVDS 395
           VT N L+ GLC+ G +E+AL+ F+    +G   D 
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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	539
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03077	857	Protein ECB2; 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	99.98
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.97
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.96
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.95
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.95
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.95
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.94
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.94
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.93
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.93
PRK14574	822	hmsH outer membrane protein; Provisional	99.92
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.92
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.92
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.92
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.92
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.91
PRK14574	822	hmsH outer membrane protein; Provisional	99.91
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.88
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.86
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.86
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.85
KOG2076	895	consensus RNA polymerase III transcription factor	99.85
KOG2003	840	consensus TPR repeat-containing protein [General f	99.84
KOG2003	840	consensus TPR repeat-containing protein [General f	99.84
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.84
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.82
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.81
KOG2076	895	consensus RNA polymerase III transcription factor	99.81
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.79
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.78
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.77
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.76
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.75
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.75
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.74
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.73
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.72
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.72
KOG1126	638	consensus DNA-binding cell division cycle control	99.71
KOG1126	638	consensus DNA-binding cell division cycle control	99.71
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.7
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.69
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.69
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.69
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.68
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.68
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.68
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.68
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.67
KOG1129	478	consensus TPR repeat-containing protein [General f	99.64
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.6
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.6
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.59
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.59
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.58
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.58
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.55
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.53
PRK12370	553	invasion protein regulator; Provisional	99.52
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.52
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.51
PRK12370	553	invasion protein regulator; Provisional	99.5
KOG1129	478	consensus TPR repeat-containing protein [General f	99.5
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.5
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	99.49
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.47
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.45
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.45
PRK11189	296	lipoprotein NlpI; Provisional	99.44
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.44
KOG4340	459	consensus Uncharacterized conserved protein [Funct	99.44
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.43
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.39
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.36
PRK11189	296	lipoprotein NlpI; Provisional	99.34
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	99.3
PF13041	50	PPR_2: PPR repeat family	99.26
KOG4340	459	consensus Uncharacterized conserved protein [Funct	99.26
KOG1125	579	consensus TPR repeat-containing protein [General f	99.25
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	99.24
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.23
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	99.21
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.21
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	99.2
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	99.2
PF13041	50	PPR_2: PPR repeat family	99.2
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	99.2
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	99.2
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	99.18
PRK04841	903	transcriptional regulator MalT; Provisional	99.14
KOG1125	579	consensus TPR repeat-containing protein [General f	99.13
PRK04841	903	transcriptional regulator MalT; Provisional	99.12
PRK15359	144	type III secretion system chaperone protein SscB;	99.12
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.12
KOG3616	1636	consensus Selective LIM binding factor [Transcript	99.1
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	99.09
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	99.08
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.07
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	99.05
KOG3616	1636	consensus Selective LIM binding factor [Transcript	99.04
PRK10370	198	formate-dependent nitrite reductase complex subuni	99.04
PLN02789	320	farnesyltranstransferase	99.03
PLN02789	320	farnesyltranstransferase	98.98
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.97
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.92
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.92
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.9
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.89
PRK15359	144	type III secretion system chaperone protein SscB;	98.88
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.88
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.87
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.85
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.85
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.84
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.83
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.81
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.73
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.73
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.72
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.72
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.71
PF12854	34	PPR_1: PPR repeat	98.71
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.68
KOG0553	304	consensus TPR repeat-containing protein [General f	98.66
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.65
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.62
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.61
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.61
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.61
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.61
PF12854	34	PPR_1: PPR repeat	98.56
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.5
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.48
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.47
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.46
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.36
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.32
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	98.32
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.31
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.29
PF12688	120	TPR_5: Tetratrico peptide repeat	98.28
COG4700	251	Uncharacterized protein conserved in bacteria cont	98.28
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	98.24
COG4700	251	Uncharacterized protein conserved in bacteria cont	98.23
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	98.23
COG3898	531	Uncharacterized membrane-bound protein [Function u	98.23
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.23
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	98.23
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.23
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	98.2
KOG0553	304	consensus TPR repeat-containing protein [General f	98.19
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	98.18
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	98.16
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.15
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.12
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.09
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.08
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.06
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.05
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.05
KOG2041	1189	consensus WD40 repeat protein [General function pr	98.04
PRK10803	263	tol-pal system protein YbgF; Provisional	98.03
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	98.02
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.02
PF13371	73	TPR_9: Tetratricopeptide repeat	98.01
PF12688	120	TPR_5: Tetratrico peptide repeat	97.99
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	97.97
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.95
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.95
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.95
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.94
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	97.93
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.92
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.91
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.91
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.89
PF13812	34	PPR_3: Pentatricopeptide repeat domain	97.86
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.84
PRK15331	165	chaperone protein SicA; Provisional	97.84
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.83
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.82
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.82
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.82
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.73
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.7
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.68
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.67
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.66
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.65
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.65
PRK10803	263	tol-pal system protein YbgF; Provisional	97.65
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	97.63
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.61
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.6
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.59
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.59
COG3898	531	Uncharacterized membrane-bound protein [Function u	97.57
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.57
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.54
PF13512	142	TPR_18: Tetratricopeptide repeat	97.52
PRK15331	165	chaperone protein SicA; Provisional	97.5
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.47
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	97.44
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.41
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.38
KOG1258	577	consensus mRNA processing protein [RNA processing	97.37
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.37
KOG4555	175	consensus TPR repeat-containing protein [Function	97.36
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.35
PRK11906	458	transcriptional regulator; Provisional	97.34
PF13371	73	TPR_9: Tetratricopeptide repeat	97.29
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	97.25
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.15
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	97.14
KOG4555	175	consensus TPR repeat-containing protein [Function	97.11
PF13428	44	TPR_14: Tetratricopeptide repeat	97.09
KOG1258	577	consensus mRNA processing protein [RNA processing	97.07
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.07
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.98
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.94
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.93
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.91
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	96.89
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.87
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.81
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	96.77
PRK11906	458	transcriptional regulator; Provisional	96.75
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	96.71
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	96.71
COG4105	254	ComL DNA uptake lipoprotein [General function pred	96.69
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.68
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.66
KOG2610	491	consensus Uncharacterized conserved protein [Funct	96.64
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.63
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.57
PF13428	44	TPR_14: Tetratricopeptide repeat	96.52
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.51
PF13512	142	TPR_18: Tetratricopeptide repeat	96.5
KOG1585	308	consensus Protein required for fusion of vesicles	96.39
COG0457	291	NrfG FOG: TPR repeat [General function prediction	96.38
PF13431	34	TPR_17: Tetratricopeptide repeat	96.37
COG4105	254	ComL DNA uptake lipoprotein [General function pred	96.36
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.34
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.27
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	96.18
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	96.17
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	96.16
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	96.14
KOG4234	271	consensus TPR repeat-containing protein [General f	96.14
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	96.09
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	96.0
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	95.91
KOG1941	518	consensus Acetylcholine receptor-associated protei	95.81
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	95.79
KOG4648	536	consensus Uncharacterized conserved protein, conta	95.78
KOG2610	491	consensus Uncharacterized conserved protein [Funct	95.76
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.74
KOG2396	568	consensus HAT (Half-A-TPR) repeat-containing prote	95.72
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.7
KOG1585	308	consensus Protein required for fusion of vesicles	95.67
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.63
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	95.6
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	95.47
COG3629	280	DnrI DNA-binding transcriptional activator of the	95.33
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	95.32
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	95.31
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	95.28
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	95.18
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	95.08
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	95.01
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	95.0
KOG3941	406	consensus Intermediate in Toll signal transduction	94.97
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	94.92
COG3629	280	DnrI DNA-binding transcriptional activator of the	94.72
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	94.71
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	94.61
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	94.59
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	94.57
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	94.45
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	94.44
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	94.34
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	94.32
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	94.28
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	94.18
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	94.13
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	94.11
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	94.09
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	93.98
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	93.86
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	93.82
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	93.73
COG1747	711	Uncharacterized N-terminal domain of the transcrip	93.73
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	93.7
KOG3941	406	consensus Intermediate in Toll signal transduction	93.64
KOG4234	271	consensus TPR repeat-containing protein [General f	93.4
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	93.3
PF13431	34	TPR_17: Tetratricopeptide repeat	93.29
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	93.27
KOG3364	149	consensus Membrane protein involved in organellar	93.15
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	93.13
KOG2396	568	consensus HAT (Half-A-TPR) repeat-containing prote	92.87
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	92.84
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	92.73
PF13929	292	mRNA_stabil: mRNA stabilisation	92.69
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	92.64
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	92.57
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	92.5
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	92.45
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	92.05
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	92.05
KOG1586	288	consensus Protein required for fusion of vesicles	91.88
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	91.85
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	91.77
COG0790	292	FOG: TPR repeat, SEL1 subfamily [General function	91.75
KOG1308	377	consensus Hsp70-interacting protein Hip/Transient	91.68
PF09986	214	DUF2225: Uncharacterized protein conserved in bact	91.64
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	91.64
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	91.6
COG3947	361	Response regulator containing CheY-like receiver a	91.43
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	91.2
KOG4642	284	consensus Chaperone-dependent E3 ubiquitin protein	90.87
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	90.78
KOG0376	476	consensus Serine-threonine phosphatase 2A, catalyt	90.7
KOG1586	288	consensus Protein required for fusion of vesicles	90.57
KOG2471	696	consensus TPR repeat-containing protein [General f	90.54
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	90.51
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	90.5
PF07575	566	Nucleopor_Nup85: Nup85 Nucleoporin; InterPro: IPR0	90.43
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	90.34
KOG2471	696	consensus TPR repeat-containing protein [General f	90.01
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	89.97
KOG4570	418	consensus Uncharacterized conserved protein [Funct	89.69
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	89.62
KOG4648	536	consensus Uncharacterized conserved protein, conta	89.42
KOG1550	552	consensus Extracellular protein SEL-1 and related	89.41
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	89.32
KOG1550	552	consensus Extracellular protein SEL-1 and related	89.24
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	89.16
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	89.05
COG4455	273	ImpE Protein of avirulence locus involved in tempe	88.92
PRK10941	269	hypothetical protein; Provisional	88.78
COG4455	273	ImpE Protein of avirulence locus involved in tempe	88.74
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	88.41
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	88.16
KOG0545	329	consensus Aryl-hydrocarbon receptor-interacting pr	88.02
KOG4570	418	consensus Uncharacterized conserved protein [Funct	87.81
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	87.79
COG1747	711	Uncharacterized N-terminal domain of the transcrip	87.64
KOG0128	881	consensus RNA-binding protein SART3 (RRM superfami	87.34
KOG4642	284	consensus Chaperone-dependent E3 ubiquitin protein	87.33
KOG4507	886	consensus Uncharacterized conserved protein, conta	87.24
KOG0128	881	consensus RNA-binding protein SART3 (RRM superfami	86.95
PF13929	292	mRNA_stabil: mRNA stabilisation	86.95
PF09986	214	DUF2225: Uncharacterized protein conserved in bact	86.07
PF08424	321	NRDE-2: NRDE-2, necessary for RNA interference; In	85.87
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	85.76
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	85.03
COG3947	361	Response regulator containing CheY-like receiver a	84.44
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	84.2
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	84.14
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	84.05
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	83.54
PF12862	94	Apc5: Anaphase-promoting complex subunit 5	83.04
PF14561	90	TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S	82.91
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	82.82
KOG0686	466	consensus COP9 signalosome, subunit CSN1 [Posttran	82.35
PRK09687	280	putative lyase; Provisional	82.11
PF13762	145	MNE1: Mitochondrial splicing apparatus component	81.71
KOG4507	886	consensus Uncharacterized conserved protein, conta	80.85

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=1.2e-67  Score=525.38  Aligned_cols=503  Identities=20%  Similarity=0.313  Sum_probs=476.8

Q ss_pred             CCCcChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCC-CCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhH
Q 009255            5 GCLPDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGL-VPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTY   83 (539)
Q Consensus         5 g~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~   83 (539)
                      ...++...|..++..|.+.|++++|.++|++|...|+ +++..++..++..|.+.|.+++|..+|+.|..    |+..+|
T Consensus       365 ~~~~~~~~~~~~y~~l~r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~----pd~~Ty  440 (1060)
T PLN03218        365 SGKRKSPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRN----PTLSTF  440 (1060)
T ss_pred             CCCCCchHHHHHHHHHHHCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcCC----CCHHHH
Confidence            4566788899999999999999999999999999985 56777888999999999999999999999874    899999


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 009255           84 NMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKE  163 (539)
Q Consensus        84 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  163 (539)
                      +.++.+|++.|+++.|.++|++|.+.|+.||..+|+.++.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.
T Consensus       441 n~LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~  520 (1060)
T PLN03218        441 NMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARA  520 (1060)
T ss_pred             HHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCHhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhh--CCCCCCHHhHHHHHHHHhccCCHHHHHH
Q 009255          164 GKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGR--KGLKMNTITLNTILHTLCCEKKLDEAYM  241 (539)
Q Consensus       164 g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~a~~  241 (539)
                      |++++|.++|+.|.+.|+.||..+|+.++.+|++.|++++|.++|++|..  .|+.||..+|+.++.+|++.|++++|.+
T Consensus       521 G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~e  600 (1060)
T PLN03218        521 GQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKE  600 (1060)
T ss_pred             cCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHH
Confidence            99999999999999999999999999999999999999999999999976  6789999999999999999999999999


Q ss_pred             HHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCC
Q 009255          242 LLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGM  321 (539)
Q Consensus       242 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  321 (539)
                      +|+.+.+.++.|+..+|+.++.+|++.|++++|.++|++|...|+.||..+|+.++.+|.+.|+.++|.+++++|.+.|+
T Consensus       601 lf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~  680 (1060)
T PLN03218        601 VYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGI  680 (1060)
T ss_pred             HHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHH
Q 009255          322 IPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTL  401 (539)
Q Consensus       322 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l  401 (539)
                      .|+..+|+.++.+|++.|++++|.++|++|.+.++.|+..+|+.++.+|++.|++++|.++|++|...|..||..+|+.+
T Consensus       681 ~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sL  760 (1060)
T PLN03218        681 KLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSIL  760 (1060)
T ss_pred             CCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHh----c-------------------CCHHHHHHHHHHHHH
Q 009255          402 ISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVE----S-------------------GRLEEAQKFTSIMVE  458 (539)
Q Consensus       402 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~-------------------g~~~~A~~~~~~~~~  458 (539)
                      +.+|++.|++++|.+++.+|.+.|+.||..+|..++..|.+    .                   +..++|..+|++|++
T Consensus       761 L~a~~k~G~le~A~~l~~~M~k~Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w~~~Al~lf~eM~~  840 (1060)
T PLN03218        761 LVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALMVYRETIS  840 (1060)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccchHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999998866432    1                   224679999999999


Q ss_pred             cCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 009255          459 TGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGLI  528 (539)
Q Consensus       459 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~  528 (539)
                      .+..                 |+..+|..++.+++..+..+.+..+++.+...+..|+..+|..++.++.
T Consensus       841 ~Gi~-----------------Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~~~~~~y~~Li~g~~  893 (1060)
T PLN03218        841 AGTL-----------------PTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGFG  893 (1060)
T ss_pred             CCCC-----------------CCHHHHHHHHHHhcccccHHHHHHHHHHhccCCCCcchhhhHHHHHhhc
Confidence            8865                 9999999999888888999999999998887778888999999998873

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=8.7e-68  Score=526.48  Aligned_cols=495  Identities=19%  Similarity=0.264  Sum_probs=467.0

Q ss_pred             CCCCCC-CcChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCC
Q 009255            1 MEGFGC-LPDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPD   79 (539)
Q Consensus         1 m~~~g~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~   79 (539)
                      |.+.|+ +|+..+++.++..|.+.|.+++|..+|+.|..    |+..+|+.++.+|++.|+++.|.++|+.|.+.|+.||
T Consensus       396 M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~----pd~~Tyn~LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD  471 (1060)
T PLN03218        396 MEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRN----PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKAD  471 (1060)
T ss_pred             HHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcCC----CCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCC
Confidence            455664 57888889999999999999999999999974    8999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 009255           80 VWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKW  159 (539)
Q Consensus        80 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  159 (539)
                      ..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.++.+
T Consensus       472 ~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a  551 (1060)
T PLN03218        472 CKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISA  551 (1060)
T ss_pred             HHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhcCCHhHHHHHHHHHHH--cCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCCHH
Q 009255          160 YCKEGKIDKACKIVRNMEE--NGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLD  237 (539)
Q Consensus       160 ~~~~g~~~~a~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  237 (539)
                      |++.|++++|.++|++|..  .|+.||..+|+.++.+|++.|++++|.++|+.|.+.|+.|+..+|+.++.+|++.|+++
T Consensus       552 ~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~d  631 (1060)
T PLN03218        552 CGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWD  631 (1060)
T ss_pred             HHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHH
Confidence            9999999999999999986  67899999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHH
Q 009255          238 EAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELL  317 (539)
Q Consensus       238 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  317 (539)
                      +|.++|++|.+.|+.||..+|+.++.+|++.|++++|.+++++|.+.++.|+..+|+.++.+|++.|++++|.++|++|.
T Consensus       632 eAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~  711 (1060)
T PLN03218        632 FALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIK  711 (1060)
T ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhh
Q 009255          318 QSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVT  397 (539)
Q Consensus       318 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  397 (539)
                      ..++.|+..+|+.++.+|++.|++++|.++|++|...|+.||..+|+.++.+|++.|+++.|.+++++|.+.|+.||..+
T Consensus       712 ~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~a~~k~G~le~A~~l~~~M~k~Gi~pd~~t  791 (1060)
T PLN03218        712 SIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVM  791 (1060)
T ss_pred             HcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHc----c-------------------CChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHH
Q 009255          398 YNTLISSLCK----E-------------------RRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTS  454 (539)
Q Consensus       398 ~~~l~~~~~~----~-------------------~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  454 (539)
                      |+.++..|.+    .                   +..++|+.+|++|.+.|+.||..+|..++.++...+..+.+..+++
T Consensus       792 ynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w~~~Al~lf~eM~~~Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m~~  871 (1060)
T PLN03218        792 CRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALMVYRETISAGTLPTMEVLSQVLGCLQLPHDATLRNRLIE  871 (1060)
T ss_pred             HHHHHHHHHHHHHHHhhhhhhhhhhhccccccccchHHHHHHHHHHHHHCCCCCCHHHHHHHHHHhcccccHHHHHHHHH
Confidence            9999865432    1                   2346799999999999999999999999988888888999888888


Q ss_pred             HHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHH
Q 009255          455 IMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKS  518 (539)
Q Consensus       455 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~  518 (539)
                      .+...+.                 .|+..+|+.+++++.+.  .++|..++++|.+.|+.|+..
T Consensus       872 ~m~~~~~-----------------~~~~~~y~~Li~g~~~~--~~~A~~l~~em~~~Gi~p~~~  916 (1060)
T PLN03218        872 NLGISAD-----------------SQKQSNLSTLVDGFGEY--DPRAFSLLEEAASLGVVPSVS  916 (1060)
T ss_pred             HhccCCC-----------------CcchhhhHHHHHhhccC--hHHHHHHHHHHHHcCCCCCcc
Confidence            7766553                 37888999999998432  468999999999999999974

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=1.4e-67  Score=536.09  Aligned_cols=491  Identities=22%  Similarity=0.311  Sum_probs=424.7

Q ss_pred             CcChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH-----------------------------------HHHHHH
Q 009255            7 LPDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNR-----------------------------------TTYNIL   51 (539)
Q Consensus         7 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----------------------------------~~~~~l   51 (539)
                      +||..+|+.+|.+|.+.|++++|..+|++|...|+.||.                                   .+++.+
T Consensus       149 ~~d~~~~n~li~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~L  228 (857)
T PLN03077        149 ERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNAL  228 (857)
T ss_pred             CCCeeEHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHhCCccchhhHHHHHHHHHHcCCCcccchHhHH
Confidence            355566666666666666666666666666555555554                                   455666


Q ss_pred             HHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCH
Q 009255           52 VSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRS  131 (539)
Q Consensus        52 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  131 (539)
                      +.+|++.|+++.|..+|+.|..    ||..+|+.+|.+|++.|++++|+++|++|...|+.||..+|+.++.+|.+.|+.
T Consensus       229 i~~y~k~g~~~~A~~lf~~m~~----~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~  304 (857)
T PLN03077        229 ITMYVKCGDVVSARLVFDRMPR----RDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDE  304 (857)
T ss_pred             HHHHhcCCCHHHHHHHHhcCCC----CCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCCh
Confidence            6677777777777777777753    577778888888888888888888888888888888888888888888888888


Q ss_pred             hHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 009255          132 MEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVM  211 (539)
Q Consensus       132 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  211 (539)
                      +.+.+++..+.+.|+.||..+|+.++.+|++.|++++|.++|++|.    .||..+|+.++.+|.+.|++++|+++|++|
T Consensus       305 ~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~----~~d~~s~n~li~~~~~~g~~~~A~~lf~~M  380 (857)
T PLN03077        305 RLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRME----TKDAVSWTAMISGYEKNGLPDKALETYALM  380 (857)
T ss_pred             HHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCC----CCCeeeHHHHHHHHHhCCCHHHHHHHHHHH
Confidence            8888888888888888888888888888888888888888888886    468888999999999999999999999999


Q ss_pred             hhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHh
Q 009255          212 GRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTF  291 (539)
Q Consensus       212 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  291 (539)
                      .+.|+.||..|+..++.+|++.|+++.+.++++.+.+.|..++..+++.|+.+|.+.|++++|.++|++|.+    +|..
T Consensus       381 ~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~----~d~v  456 (857)
T PLN03077        381 EQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPE----KDVI  456 (857)
T ss_pred             HHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCC----CCee
Confidence            988999999999999999999999999999999999999999999999999999999999999999998865    4788


Q ss_pred             hHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHH
Q 009255          292 TYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLC  371 (539)
Q Consensus       292 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  371 (539)
                      +|+.++.+|.+.|+.++|+.+|++|.. ++.||..+|..++.+|++.|+.+.+.+++..+.+.|+.++..+++.++.+|+
T Consensus       457 s~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~  535 (857)
T PLN03077        457 SWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYV  535 (857)
T ss_pred             eHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHH
Confidence            999999999999999999999999986 5889999999999999999999999999999999999999999999999999


Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHH
Q 009255          372 REGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQK  451 (539)
Q Consensus       372 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  451 (539)
                      ++|++++|.++|+.+     .||..+|+.++.+|++.|+.++|+++|++|.+.|+.||..||..++.+|.+.|++++|.+
T Consensus       536 k~G~~~~A~~~f~~~-----~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~  610 (857)
T PLN03077        536 RCGRMNYAWNQFNSH-----EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLE  610 (857)
T ss_pred             HcCCHHHHHHHHHhc-----CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHH
Confidence            999999999999886     569999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC
Q 009255          452 FTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGLIKRR  531 (539)
Q Consensus       452 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~  531 (539)
                      +|+.|.+....                .|+..+|+.++++|.+.|++++|.+++++|.   +.||..+|..++++|... 
T Consensus       611 ~f~~M~~~~gi----------------~P~~~~y~~lv~~l~r~G~~~eA~~~~~~m~---~~pd~~~~~aLl~ac~~~-  670 (857)
T PLN03077        611 YFHSMEEKYSI----------------TPNLKHYACVVDLLGRAGKLTEAYNFINKMP---ITPDPAVWGALLNACRIH-  670 (857)
T ss_pred             HHHHHHHHhCC----------------CCchHHHHHHHHHHHhCCCHHHHHHHHHHCC---CCCCHHHHHHHHHHHHHc-
Confidence            99999955433                5999999999999999999999999999984   789999999999988543 


Q ss_pred             Cchh
Q 009255          532 KSIS  535 (539)
Q Consensus       532 ~~~~  535 (539)
                      ++.+
T Consensus       671 ~~~e  674 (857)
T PLN03077        671 RHVE  674 (857)
T ss_pred             CChH
Confidence            3344

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=2.8e-66  Score=526.71  Aligned_cols=519  Identities=18%  Similarity=0.269  Sum_probs=468.0

Q ss_pred             CCCCCCcChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChh
Q 009255            2 EGFGCLPDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVW   81 (539)
Q Consensus         2 ~~~g~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~   81 (539)
                      ...|++|+..+|..++.+|.+.+.++.+..++..+.+.+..++...++.++..|.+.|+++.|.++|++|..    ||..
T Consensus        78 ~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~n~li~~~~~~g~~~~A~~~f~~m~~----~d~~  153 (857)
T PLN03077         78 QELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPE----RDLF  153 (857)
T ss_pred             HhcCCCCChhHHHHHHHHHhhCCCHHHHHHHHHHHHHcCCCCCchHHHHHHHHHHhCCChHHHHHHHhcCCC----CCee
Confidence            345666777777777777777777777777777777666666777778888888888888889888888863    6888


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 009255           82 TYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYC  161 (539)
Q Consensus        82 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  161 (539)
                      +|+.+|.+|++.|++++|+.+|++|...|+.||..+|+.++.+|...+++..+.+++..+.+.|+.||..+++.++.+|+
T Consensus       154 ~~n~li~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~Li~~y~  233 (857)
T PLN03077        154 SWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYV  233 (857)
T ss_pred             EHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHhCCccchhhHHHHHHHHHHcCCCcccchHhHHHHHHh
Confidence            99999999999999999999999999989999999999999999999999999999999999999999999999999999


Q ss_pred             hcCCHhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHH
Q 009255          162 KEGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYM  241 (539)
Q Consensus       162 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  241 (539)
                      +.|+++.|.++|++|.    .||..+|+.++.+|++.|++++|+++|++|...|+.||..||..++.+|++.|+.+.+.+
T Consensus       234 k~g~~~~A~~lf~~m~----~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~  309 (857)
T PLN03077        234 KCGDVVSARLVFDRMP----RRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGRE  309 (857)
T ss_pred             cCCCHHHHHHHHhcCC----CCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHH
Confidence            9999999999999986    478999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCC
Q 009255          242 LLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGM  321 (539)
Q Consensus       242 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  321 (539)
                      ++..+.+.|+.||..+|+.|+.+|.+.|++++|.++|++|..    ||..+|+.++.+|.+.|++++|+++|++|.+.|+
T Consensus       310 l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~----~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~  385 (857)
T PLN03077        310 MHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMET----KDAVSWTAMISGYEKNGLPDKALETYALMEQDNV  385 (857)
T ss_pred             HHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCC----CCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCC
Confidence            999999999999999999999999999999999999999864    5889999999999999999999999999999999


Q ss_pred             CCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHH
Q 009255          322 IPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTL  401 (539)
Q Consensus       322 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l  401 (539)
                      .|+..+|+.++.+|++.|+++.|.++++.+.+.|+.|+..+++.++.+|++.|++++|.++|++|.+    +|..+|+.+
T Consensus       386 ~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~----~d~vs~~~m  461 (857)
T PLN03077        386 SPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPE----KDVISWTSI  461 (857)
T ss_pred             CCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCC----CCeeeHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999999864    588999999


Q ss_pred             HHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCC----------
Q 009255          402 ISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNT----------  471 (539)
Q Consensus       402 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~----------  471 (539)
                      +.+|++.|+.++|+.+|++|.. ++.||..+|..++.+|.+.|+.+.+.+++..+++.+...+..+.+..          
T Consensus       462 i~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~  540 (857)
T PLN03077        462 IAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRM  540 (857)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCH
Confidence            9999999999999999999986 58999999999999999999999999999999988866555544320          


Q ss_pred             ---CCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCchhhcc
Q 009255          472 ---SKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGLIKRRKSISKAV  538 (539)
Q Consensus       472 ---~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~A~  538 (539)
                         ........|+..+|+.++.+|++.|+.++|+++|++|.+.|+.||..|+..++.+|.+.+. .++|.
T Consensus       541 ~~A~~~f~~~~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~-v~ea~  609 (857)
T PLN03077        541 NYAWNQFNSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGM-VTQGL  609 (857)
T ss_pred             HHHHHHHHhcCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcCh-HHHHH
Confidence               0111122688889999999999999999999999999999999999999999999888765 77764

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

Probab=100.00  E-value=3.2e-63  Score=492.44  Aligned_cols=476  Identities=21%  Similarity=0.289  Sum_probs=454.6

Q ss_pred             CCcChhhHHHHHHHHHhcCChHHHHHHHHHHHhCC-CCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHH
Q 009255            6 CLPDNVTYNTILDALFKKGKLNEVRDLLSDMKKQG-LVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYN   84 (539)
Q Consensus         6 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~   84 (539)
                      ..++..+|+.+|..|.+.|++++|.++|+.|...+ +.|+..+|+.++.+|.+.++++.+.+++..|.+.|..|+..+|+
T Consensus        83 ~~~~~~~~~~~i~~l~~~g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n  162 (697)
T PLN03081         83 IRKSGVSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMN  162 (697)
T ss_pred             CCCCceeHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHH
Confidence            34466699999999999999999999999999864 68999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 009255           85 MLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEG  164 (539)
Q Consensus        85 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  164 (539)
                      .++.+|++.|+++.|.++|++|.+    ||..+|+.++.+|++.|++++|+++|++|.+.|+.|+..+|+.++.++++.|
T Consensus       163 ~Li~~y~k~g~~~~A~~lf~~m~~----~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~  238 (697)
T PLN03081        163 RVLLMHVKCGMLIDARRLFDEMPE----RNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLG  238 (697)
T ss_pred             HHHHHHhcCCCHHHHHHHHhcCCC----CCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCC
Confidence            999999999999999999999974    8999999999999999999999999999999999999999999999999999


Q ss_pred             CHhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHH
Q 009255          165 KIDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLN  244 (539)
Q Consensus       165 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  244 (539)
                      ..+.+.+++..+.+.|+.||..+++.|+.+|++.|++++|.++|++|..    +|..+|+.++.+|++.|+.++|.++|+
T Consensus       239 ~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~----~~~vt~n~li~~y~~~g~~~eA~~lf~  314 (697)
T PLN03081        239 SARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPE----KTTVAWNSMLAGYALHGYSEEALCLYY  314 (697)
T ss_pred             cHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCC----CChhHHHHHHHHHHhCCCHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999964    588999999999999999999999999


Q ss_pred             HHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCC
Q 009255          245 SASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPD  324 (539)
Q Consensus       245 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  324 (539)
                      +|.+.|+.||..+|+.++.+|++.|++++|.+++..|.+.++.||..+++.++.+|.+.|++++|.++|++|.+    ||
T Consensus       315 ~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~----~d  390 (697)
T PLN03081        315 EMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR----KN  390 (697)
T ss_pred             HHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC----CC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999864    68


Q ss_pred             HHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHH-cCCCCChhhHHHHHH
Q 009255          325 ETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWIL-KGKAVDSVTYNTLIS  403 (539)
Q Consensus       325 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~~~~~l~~  403 (539)
                      ..+|+.++.+|++.|+.++|.++|++|.+.|+.||..+|+.++.+|.+.|.+++|.++|+.|.+ .|..|+..+|+.++.
T Consensus       391 ~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~  470 (697)
T PLN03081        391 LISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIE  470 (697)
T ss_pred             eeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHH
Confidence            8999999999999999999999999999999999999999999999999999999999999986 589999999999999


Q ss_pred             HHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChh
Q 009255          404 SLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSI  483 (539)
Q Consensus       404 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  483 (539)
                      +|++.|++++|.+++++|   ++.|+..+|..++.+|...|+++.|.++++++.+..                  +.+..
T Consensus       471 ~l~r~G~~~eA~~~~~~~---~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~~------------------p~~~~  529 (697)
T PLN03081        471 LLGREGLLDEAYAMIRRA---PFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMG------------------PEKLN  529 (697)
T ss_pred             HHHhcCCHHHHHHHHHHC---CCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhCCC------------------CCCCc
Confidence            999999999999999876   578999999999999999999999999999998765                  33456


Q ss_pred             hHHHHHHHHhhcCCHHHHHHHHHHHHHcCCC
Q 009255          484 SYSEKINEHCSQGRYKDALQIFEETRQKGIA  514 (539)
Q Consensus       484 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  514 (539)
                      +|..++..|++.|++++|.+++++|.+.|++
T Consensus       530 ~y~~L~~~y~~~G~~~~A~~v~~~m~~~g~~  560 (697)
T PLN03081        530 NYVVLLNLYNSSGRQAEAAKVVETLKRKGLS  560 (697)
T ss_pred             chHHHHHHHHhCCCHHHHHHHHHHHHHcCCc
Confidence            9999999999999999999999999999875

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

Probab=100.00  E-value=2.1e-61  Score=479.45  Aligned_cols=441  Identities=21%  Similarity=0.313  Sum_probs=423.4

Q ss_pred             CCCcChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHH
Q 009255            5 GCLPDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYN   84 (539)
Q Consensus         5 g~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~   84 (539)
                      ++.||..+|+.++.+|.+.++++.+..++..|.+.|+.||..+++.++.+|++.|+++.|.++|++|.+    ||..+|+
T Consensus       118 ~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~----~~~~t~n  193 (697)
T PLN03081        118 PFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPE----RNLASWG  193 (697)
T ss_pred             CCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHHHHHHHhcCCCHHHHHHHHhcCCC----CCeeeHH
Confidence            578999999999999999999999999999999999999999999999999999999999999999974    7999999


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 009255           85 MLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEG  164 (539)
Q Consensus        85 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  164 (539)
                      .++.+|++.|++++|+++|++|.+.|+.|+..+|..++.++...|..+.+.+++..+.+.|+.||..+++.|+.+|++.|
T Consensus       194 ~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g  273 (697)
T PLN03081        194 TIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCG  273 (697)
T ss_pred             HHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CHhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHH
Q 009255          165 KIDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLN  244 (539)
Q Consensus       165 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  244 (539)
                      ++++|.++|+.|.    ++|..+|+.++.+|++.|++++|.++|++|.+.|+.||..||..++.+|++.|+++.|.+++.
T Consensus       274 ~~~~A~~vf~~m~----~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~  349 (697)
T PLN03081        274 DIEDARCVFDGMP----EKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHA  349 (697)
T ss_pred             CHHHHHHHHHhCC----CCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHH
Confidence            9999999999996    468999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCC
Q 009255          245 SASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPD  324 (539)
Q Consensus       245 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  324 (539)
                      .+.+.|+.++..+++.|+.+|++.|++++|.++|++|.+    ||..+|+.+|.+|++.|+.++|.++|++|.+.|+.||
T Consensus       350 ~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~----~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd  425 (697)
T PLN03081        350 GLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR----KNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPN  425 (697)
T ss_pred             HHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC----CCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCC
Confidence            999999999999999999999999999999999999965    5899999999999999999999999999999999999


Q ss_pred             HHhHHHHHHHHhcCCCHHHHHHHHHHHHh-CCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHH
Q 009255          325 ETTFNTIIHGFCSEGQVEKALQFHNKMVE-KSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLIS  403 (539)
Q Consensus       325 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~  403 (539)
                      ..||+.++.+|.+.|..++|.++|+.|.+ .++.|+..+|+.++.+|++.|++++|.++++++   +..|+..+|+.++.
T Consensus       426 ~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~---~~~p~~~~~~~Ll~  502 (697)
T PLN03081        426 HVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRA---PFKPTVNMWAALLT  502 (697)
T ss_pred             HHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHC---CCCCCHHHHHHHHH
Confidence            99999999999999999999999999986 589999999999999999999999999999865   46799999999999


Q ss_pred             HHHccCChHHHHHHHHHHHhCCCCCC-HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC
Q 009255          404 SLCKERRLEDAFGLLSEMEEKKLGPD-RYTYAAIHTALVESGRLEEAQKFTSIMVETGKI  462 (539)
Q Consensus       404 ~~~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  462 (539)
                      +|...|+++.|..+++++.+  +.|+ ..+|..++..|.+.|++++|.++++.|.+.+..
T Consensus       503 a~~~~g~~~~a~~~~~~l~~--~~p~~~~~y~~L~~~y~~~G~~~~A~~v~~~m~~~g~~  560 (697)
T PLN03081        503 ACRIHKNLELGRLAAEKLYG--MGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLS  560 (697)
T ss_pred             HHHHcCCcHHHHHHHHHHhC--CCCCCCcchHHHHHHHHhCCCHHHHHHHHHHHHHcCCc
Confidence            99999999999999999974  4554 678999999999999999999999999998854

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

Probab=100.00  E-value=9e-34  Score=296.83  Aligned_cols=495  Identities=13%  Similarity=0.076  Sum_probs=256.7

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHH
Q 009255            9 DNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLIN   88 (539)
Q Consensus         9 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (539)
                      +...+..+...+.+.|++++|..+|+++.+.. +.+...+..+...+...|++++|.+.++.+.+..+. .......++.
T Consensus       362 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~  439 (899)
T TIGR02917       362 DPAALSLLGEAYLALGDFEKAAEYLAKATELD-PENAAARTQLGISKLSQGDPSEAIADLETAAQLDPE-LGRADLLLIL  439 (899)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhhCCc-chhhHHHHHH
Confidence            34455566666666666666666666665543 334445555555555555555555555555544322 1222233334


Q ss_pred             HHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhH
Q 009255           89 GWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDK  168 (539)
Q Consensus        89 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  168 (539)
                      .+.+.|++++|..+++++.... +++..++..+...+...|++++|.+.|+++.+.. +.+...+..++..+...|++++
T Consensus       440 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~  517 (899)
T TIGR02917       440 SYLRSGQFDKALAAAKKLEKKQ-PDNASLHNLLGAIYLGKGDLAKAREAFEKALSIE-PDFFPAAANLARIDIQEGNPDD  517 (899)
T ss_pred             HHHhcCCHHHHHHHHHHHHHhC-CCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHCCCHHH
Confidence            4444444444444444444321 2334445555555555555555555555544432 1133334444444444444444


Q ss_pred             HHHHHHHHHHcCCCCChhhHHH----------------------------------HHHHHHhcCCHHHHHHHHHHHhhC
Q 009255          169 ACKIVRNMEENGFSPDCVTYNT----------------------------------LIDANCKAGNMEEAFRMMDVMGRK  214 (539)
Q Consensus       169 a~~~~~~~~~~~~~~~~~~~~~----------------------------------l~~~~~~~~~~~~a~~~~~~~~~~  214 (539)
                      |.+.++.+.+.+ +.+..++..                                  ++..+...|++++|..+++.+...
T Consensus       518 A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  596 (899)
T TIGR02917       518 AIQRFEKVLTID-PKNLRAILALAGLYLRTGNEEEAVAWLEKAAELNPQEIEPALALAQYYLGKGQLKKALAILNEAADA  596 (899)
T ss_pred             HHHHHHHHHHhC-cCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHc
Confidence            444444444332 223333334                                  444444444444444444444332


Q ss_pred             CCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHH
Q 009255          215 GLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYN  294 (539)
Q Consensus       215 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  294 (539)
                      . +.+...+..+..++...|++++|...++.+.+.. +.+...+..+...+...|++++|...++++....+. +..++.
T Consensus       597 ~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~  673 (899)
T TIGR02917       597 A-PDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLKRALELKPD-NTEAQI  673 (899)
T ss_pred             C-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-CHHHHH
Confidence            1 2234444444444555555555555555444432 113334444444555555555555555554443222 344445


Q ss_pred             HHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcC
Q 009255          295 AMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREG  374 (539)
Q Consensus       295 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  374 (539)
                      .++..+...|++++|..+++.+....+ .+...+..+...+...|++++|...|+.+....  |+..++..++.++.+.|
T Consensus       674 ~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~g  750 (899)
T TIGR02917       674 GLAQLLLAAKRTESAKKIAKSLQKQHP-KAALGFELEGDLYLRQKDYPAAIQAYRKALKRA--PSSQNAIKLHRALLASG  750 (899)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhhCc-CChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHCC
Confidence            555555555555555555555544432 234445555555555666666666666555542  23344555555566666


Q ss_pred             CHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHH
Q 009255          375 ILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTS  454 (539)
Q Consensus       375 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  454 (539)
                      ++++|.+.++++.+.. +.+...+..++..|...|++++|...|+++.+.. +++..++..++..+...|+ .+|+.+++
T Consensus       751 ~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~-~~A~~~~~  827 (899)
T TIGR02917       751 NTAEAVKTLEAWLKTH-PNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKA-PDNAVVLNNLAWLYLELKD-PRALEYAE  827 (899)
T ss_pred             CHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCc-HHHHHHHH
Confidence            6666666666655542 2245555666666666666666666666666543 3445555566666666666 55666666


Q ss_pred             HHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHhcCCc
Q 009255          455 IMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAI-NKSTYMNLMNGLIKRRKS  533 (539)
Q Consensus       455 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~~l~~~~~~~~~  533 (539)
                      ++++..                  +.+...+..++.++...|++++|.+.++++++.+  | +..++..+...+.+. |+
T Consensus       828 ~~~~~~------------------~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~--~~~~~~~~~l~~~~~~~-g~  886 (899)
T TIGR02917       828 KALKLA------------------PNIPAILDTLGWLLVEKGEADRALPLLRKAVNIA--PEAAAIRYHLALALLAT-GR  886 (899)
T ss_pred             HHHhhC------------------CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCChHHHHHHHHHHHHc-CC
Confidence            666554                  2233377788888888899999999999988743  4 444555555555554 44


Q ss_pred             hhhcc
Q 009255          534 ISKAV  538 (539)
Q Consensus       534 ~~~A~  538 (539)
                      .++|.
T Consensus       887 ~~~A~  891 (899)
T TIGR02917       887 KAEAR  891 (899)
T ss_pred             HHHHH
Confidence            77774

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=8.5e-34  Score=297.01  Aligned_cols=467  Identities=13%  Similarity=0.105  Sum_probs=399.8

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHH
Q 009255           11 VTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGW   90 (539)
Q Consensus        11 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   90 (539)
                      .....++..+.+.|++++|..+++.+.... +.++.++..++..+...|++++|.+.|+++.+..+. +...+..+...+
T Consensus       432 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~~~  509 (899)
T TIGR02917       432 RADLLLILSYLRSGQFDKALAAAKKLEKKQ-PDNASLHNLLGAIYLGKGDLAKAREAFEKALSIEPD-FFPAAANLARID  509 (899)
T ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhCCC-cHHHHHHHHHHH
Confidence            344556667777777778887777777653 567778888888899999999999999988876543 566777788888


Q ss_pred             HhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHH
Q 009255           91 CNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKAC  170 (539)
Q Consensus        91 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  170 (539)
                      ...|++++|.+.|+++.... +.+..++..+...+...|++++|..+++++...+ +.+...+..++..+...|++++|.
T Consensus       510 ~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~  587 (899)
T TIGR02917       510 IQEGNPDDAIQRFEKVLTID-PKNLRAILALAGLYLRTGNEEEAVAWLEKAAELN-PQEIEPALALAQYYLGKGQLKKAL  587 (899)
T ss_pred             HHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchhHHHHHHHHHHHCCCHHHHH
Confidence            88999999999999988764 4567788888899999999999999999987764 346677888999999999999999


Q ss_pred             HHHHHHHHcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHhhcC
Q 009255          171 KIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRG  250 (539)
Q Consensus       171 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  250 (539)
                      .+++.+.+.. +.+...|..+..++...|++++|+..++.+.+.. +.+...+..+..++...|++++|...++++.+..
T Consensus       588 ~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  665 (899)
T TIGR02917       588 AILNEAADAA-PDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLKRALELK  665 (899)
T ss_pred             HHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            9999998753 5677889999999999999999999999998764 3467788889999999999999999999998874


Q ss_pred             CccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHH
Q 009255          251 YYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNT  330 (539)
Q Consensus       251 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  330 (539)
                       +.+...+..++..+...|++++|..+++.+....+. +...+..+...+...|++++|...++++....  |+..++..
T Consensus       666 -~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~  741 (899)
T TIGR02917       666 -PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQHPK-AALGFELEGDLYLRQKDYPAAIQAYRKALKRA--PSSQNAIK  741 (899)
T ss_pred             -CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcC-ChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCchHHHH
Confidence             336788899999999999999999999999887643 77888889999999999999999999999865  44467778


Q ss_pred             HHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCC
Q 009255          331 IIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERR  410 (539)
Q Consensus       331 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  410 (539)
                      ++.++...|++++|...++.+.+.. +.+...+..+...|...|++++|...|+++.+.. ++++.+++.++..+...|+
T Consensus       742 l~~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~  819 (899)
T TIGR02917       742 LHRALLASGNTAEAVKTLEAWLKTH-PNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKA-PDNAVVLNNLAWLYLELKD  819 (899)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCc
Confidence            8999999999999999999999874 4578899999999999999999999999999874 4478899999999999999


Q ss_pred             hHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHH
Q 009255          411 LEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKIN  490 (539)
Q Consensus       411 ~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~  490 (539)
                       .+|+..++++.... +.+..++..++.++...|++++|.++++++++.+                  +.+..++..++.
T Consensus       820 -~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~------------------~~~~~~~~~l~~  879 (899)
T TIGR02917       820 -PRALEYAEKALKLA-PNIPAILDTLGWLLVEKGEADRALPLLRKAVNIA------------------PEAAAIRYHLAL  879 (899)
T ss_pred             -HHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC------------------CCChHHHHHHHH
Confidence             88999999998753 3345677788899999999999999999999987                  346669999999


Q ss_pred             HHhhcCCHHHHHHHHHHHH
Q 009255          491 EHCSQGRYKDALQIFEETR  509 (539)
Q Consensus       491 ~~~~~g~~~~A~~~~~~~~  509 (539)
                      ++.+.|++++|.+++++|+
T Consensus       880 ~~~~~g~~~~A~~~~~~~~  898 (899)
T TIGR02917       880 ALLATGRKAEARKELDKLL  898 (899)
T ss_pred             HHHHcCCHHHHHHHHHHHh
Confidence            9999999999999999986

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=1.1e-26  Score=242.88  Aligned_cols=504  Identities=12%  Similarity=0.021  Sum_probs=322.6

Q ss_pred             cChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHH----------------HHHHHHHHccCCHhHHHHHHHHH
Q 009255            8 PDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTY----------------NILVSGYCKLGWLKEAMRVVDLM   71 (539)
Q Consensus         8 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~----------------~~l~~~~~~~g~~~~a~~~~~~~   71 (539)
                      -|+..+..++..+.+.|+.++|.+.++++.+.. |.++...                ..+...+...|++++|.+.|+.+
T Consensus        60 ~~p~~~~~~~~~~l~~g~~~~A~~~l~~l~~~~-P~~~~~~~~~~~~~~~~~~~~~~l~~A~ll~~~g~~~eA~~~~~~~  138 (1157)
T PRK11447         60 NNPDVIAARFRLLLRQGDSDGAQKLLDRLSQLA-PDSNAYRSSRTTMLLSTPEGRQALQQARLLATTGRTEEALASYDKL  138 (1157)
T ss_pred             CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhhC-CCChHHHHHHHHHHhcCCchhhHHHHHHHHHhCCCHHHHHHHHHHH
Confidence            366777888888889999999999999998875 4344432                33345677889999999999988


Q ss_pred             HhCCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCC-----
Q 009255           72 TQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGI-----  146 (539)
Q Consensus        72 ~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----  146 (539)
                      .+.+++........+.......|+.++|++.++++.+.. +.+...+..+...+...|+.++|++.++++.....     
T Consensus       139 l~~~p~~~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~-P~~~~~~~~LA~ll~~~g~~~eAl~~l~~~~~~~~~~~~a  217 (1157)
T PRK11447        139 FNGAPPELDLAVEYWRLVAKLPAQRPEAINQLQRLNADY-PGNTGLRNTLALLLFSSGRRDEGFAVLEQMAKSPAGRDAA  217 (1157)
T ss_pred             ccCCCCChHHHHHHHHHHhhCCccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHccCCHHHHHHHHHHHhhCCCchHHH
Confidence            876433211111111222234588889999999988764 44566777888888888999999888888754310     


Q ss_pred             -------------C--------------CCHHHH---------------------HHHHHHHHhcCCHhHHHHHHHHHHH
Q 009255          147 -------------K--------------PNAVTH---------------------NIMIKWYCKEGKIDKACKIVRNMEE  178 (539)
Q Consensus       147 -------------~--------------~~~~~~---------------------~~l~~~~~~~g~~~~a~~~~~~~~~  178 (539)
                                   .              |+....                     ......+...|++++|+..|++..+
T Consensus       218 a~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~dp~~~~~~~G~~~~~~g~~~~A~~~l~~aL~  297 (1157)
T PRK11447        218 AQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLADPAFRARAQGLAAVDSGQGGKAIPELQQAVR  297 (1157)
T ss_pred             HHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccCcchHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence                         0              110000                     0113445667888889988888887


Q ss_pred             cCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCC-CHHhH------------HHHHHHHhccCCHHHHHHHHHH
Q 009255          179 NGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKM-NTITL------------NTILHTLCCEKKLDEAYMLLNS  245 (539)
Q Consensus       179 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~------------~~l~~~~~~~~~~~~a~~~~~~  245 (539)
                      .. +.+...+..+..++.+.|++++|+..|++..+..... ....+            ......+...|++++|...+++
T Consensus       298 ~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~~~g~~~~~~g~~~eA~~~~~~  376 (1157)
T PRK11447        298 AN-PKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLIQQGDAALKANNLAQAERLYQQ  376 (1157)
T ss_pred             hC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            63 3467778888888888999999999988887653221 11111            1224456678888889888888


Q ss_pred             HhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHH----------------------------
Q 009255          246 ASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMI----------------------------  297 (539)
Q Consensus       246 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~----------------------------  297 (539)
                      +..... .+...+..+...+...|++++|++.|+++....+. +...+..+.                            
T Consensus       377 Al~~~P-~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~-~~~a~~~L~~l~~~~~~~~A~~~l~~l~~~~~~~~~~  454 (1157)
T PRK11447        377 ARQVDN-TDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPG-NTNAVRGLANLYRQQSPEKALAFIASLSASQRRSIDD  454 (1157)
T ss_pred             HHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhcCHHHHHHHHHhCCHHHHHHHHH
Confidence            887743 35566777888888888999999888888776433 333333222                            


Q ss_pred             --------------HHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhH
Q 009255          298 --------------WGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTC  363 (539)
Q Consensus       298 --------------~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  363 (539)
                                    ..+...|++++|+..++++.+..+. +...+..+...+...|++++|...++++++.. +.+...+
T Consensus       455 ~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~-~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~~-P~~~~~~  532 (1157)
T PRK11447        455 IERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDPG-SVWLTYRLAQDLRQAGQRSQADALMRRLAQQK-PNDPEQV  532 (1157)
T ss_pred             HHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHH
Confidence                          2344567777777777777765432 45556667777777777777777777776643 2233333


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHc---------------------------------------CCCCChhhHHHHHHH
Q 009255          364 NILLSGLCREGILEKALKFFRSWILK---------------------------------------GKAVDSVTYNTLISS  404 (539)
Q Consensus       364 ~~l~~~~~~~g~~~~A~~~~~~~~~~---------------------------------------~~~~~~~~~~~l~~~  404 (539)
                      ..+...+...++.++|...++.+...                                       ..+.++..+..+...
T Consensus       533 ~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~~p~~~~~~~~La~~  612 (1157)
T PRK11447        533 YAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQQPPSTRIDLTLADW  612 (1157)
T ss_pred             HHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHhCCCCchHHHHHHHH
Confidence            33333333344444444333322100                                       022344455666677


Q ss_pred             HHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCCh-h
Q 009255          405 LCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSS-I  483 (539)
Q Consensus       405 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~  483 (539)
                      +...|++++|+..|+++++.. +.+...+..++.++...|++++|++.++.+++..                   |+. .
T Consensus       613 ~~~~g~~~~A~~~y~~al~~~-P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~-------------------p~~~~  672 (1157)
T PRK11447        613 AQQRGDYAAARAAYQRVLTRE-PGNADARLGLIEVDIAQGDLAAARAQLAKLPATA-------------------NDSLN  672 (1157)
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccC-------------------CCChH
Confidence            777777777777777777642 3345666677777777777777777777766654                   333 3


Q ss_pred             hHHHHHHHHhhcCCHHHHHHHHHHHHHcCC-CCC---HHHHHHHHHHHHhcCCchhhcc
Q 009255          484 SYSEKINEHCSQGRYKDALQIFEETRQKGI-AIN---KSTYMNLMNGLIKRRKSISKAV  538 (539)
Q Consensus       484 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~p~---~~~~~~~l~~~~~~~~~~~~A~  538 (539)
                      .+..++.++...|++++|.++++++++..- .|.   .......++.++...|+.++|+
T Consensus       673 ~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~  731 (1157)
T PRK11447        673 TQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQAL  731 (1157)
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHH
Confidence            666677777777888888887777775321 111   2233344566777777777775

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.98  E-value=2.8e-26  Score=239.75  Aligned_cols=472  Identities=14%  Similarity=0.055  Sum_probs=335.6

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHH-HHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHh
Q 009255           14 NTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTT-YNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCN   92 (539)
Q Consensus        14 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   92 (539)
                      ......+.+.|++++|+..|+.+.+.+ +|+... ...........|+.++|++.++++.+..+. +...+..+...+..
T Consensus       116 l~~A~ll~~~g~~~eA~~~~~~~l~~~-p~~~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~P~-~~~~~~~LA~ll~~  193 (1157)
T PRK11447        116 LQQARLLATTGRTEEALASYDKLFNGA-PPELDLAVEYWRLVAKLPAQRPEAINQLQRLNADYPG-NTGLRNTLALLLFS  193 (1157)
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHccCC-CCChHHHHHHHHHHhhCCccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHc
Confidence            344556788899999999999988764 444331 212222233468888999999988887544 66677788888888


Q ss_pred             cCChHHHHHHHHHHHhCCC------------------C--------------CChhhH---------------------H
Q 009255           93 AGMLEEAFRLRKEMESLKL------------------L--------------PDVVTY---------------------N  119 (539)
Q Consensus        93 ~g~~~~a~~~~~~~~~~~~------------------~--------------~~~~~~---------------------~  119 (539)
                      .|+.++|+..++++.....                  .              |+....                     .
T Consensus       194 ~g~~~eAl~~l~~~~~~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~dp~~~~~  273 (1157)
T PRK11447        194 SGRRDEGFAVLEQMAKSPAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLADPAFRAR  273 (1157)
T ss_pred             cCCHHHHHHHHHHHhhCCCchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccCcchHHH
Confidence            8998888888888754310                  0              000000                     0


Q ss_pred             HHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHHHHHcCCCC-ChhhH----------
Q 009255          120 TLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSP-DCVTY----------  188 (539)
Q Consensus       120 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~-~~~~~----------  188 (539)
                      .....+...|++++|+..|++..+... .+...+..+..++.+.|++++|+..|++..+..... ....|          
T Consensus       274 ~~G~~~~~~g~~~~A~~~l~~aL~~~P-~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~  352 (1157)
T PRK11447        274 AQGLAAVDSGQGGKAIPELQQAVRANP-KDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYW  352 (1157)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHH
Confidence            113445667889999999988887632 367788888888999999999999998888753211 11111          


Q ss_pred             --HHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHhhHH-------
Q 009255          189 --NTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYG-------  259 (539)
Q Consensus       189 --~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-------  259 (539)
                        ......+.+.|++++|+..|+++.+.. +.+...+..+..++...|++++|++.|+++.+.... +...+.       
T Consensus       353 ~~~~~g~~~~~~g~~~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~-~~~a~~~L~~l~~  430 (1157)
T PRK11447        353 LLIQQGDAALKANNLAQAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPG-NTNAVRGLANLYR  430 (1157)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHH
Confidence              122345678888999999998888764 335666777888888889999999888888765322 222222       


Q ss_pred             -----------------------------------HHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCC
Q 009255          260 -----------------------------------TLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSG  304 (539)
Q Consensus       260 -----------------------------------~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  304 (539)
                                                         .+...+...|++++|++.|++.++..+. +...+..+...|.+.|
T Consensus       431 ~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~-~~~~~~~LA~~~~~~G  509 (1157)
T PRK11447        431 QQSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDPG-SVWLTYRLAQDLRQAG  509 (1157)
T ss_pred             hcCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcC
Confidence                                               2233455679999999999999887654 6778888999999999


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhC------------------------------
Q 009255          305 KTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEK------------------------------  354 (539)
Q Consensus       305 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------------------------------  354 (539)
                      ++++|...++++.+..+. +...+..+...+...++.++|...++.+...                              
T Consensus       510 ~~~~A~~~l~~al~~~P~-~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~  588 (1157)
T PRK11447        510 QRSQADALMRRLAQQKPN-DPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGK  588 (1157)
T ss_pred             CHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCC
Confidence            999999999998875432 3333322323333444444444443332110                              


Q ss_pred             ---------CCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCC
Q 009255          355 ---------SFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKK  425 (539)
Q Consensus       355 ---------~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  425 (539)
                               ..+.+...+..+...+.+.|++++|+..|+++....+ .++..+..++..+...|++++|+..++.+.+..
T Consensus       589 ~~eA~~~l~~~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~P-~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~  667 (1157)
T PRK11447        589 EAEAEALLRQQPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTREP-GNADARLGLIEVDIAQGDLAAARAQLAKLPATA  667 (1157)
T ss_pred             HHHHHHHHHhCCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccC
Confidence                     1234566777889999999999999999999998743 377889999999999999999999999888542


Q ss_pred             CCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCC---ChhhHHHHHHHHhhcCCHHHHH
Q 009255          426 LGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDP---SSISYSEKINEHCSQGRYKDAL  502 (539)
Q Consensus       426 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~A~  502 (539)
                       +.+..+...++.++...|++++|.+++++++.....               .+|   +...+..++..+...|++++|+
T Consensus       668 -p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~---------------~~~~~~~a~~~~~~a~~~~~~G~~~~A~  731 (1157)
T PRK11447        668 -NDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKS---------------QPPSMESALVLRDAARFEAQTGQPQQAL  731 (1157)
T ss_pred             -CCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCcc---------------CCcchhhHHHHHHHHHHHHHcCCHHHHH
Confidence             334566777888999999999999999999987522               012   1236677899999999999999


Q ss_pred             HHHHHHH
Q 009255          503 QIFEETR  509 (539)
Q Consensus       503 ~~~~~~~  509 (539)
                      +.|++++
T Consensus       732 ~~y~~Al  738 (1157)
T PRK11447        732 ETYKDAM  738 (1157)
T ss_pred             HHHHHHH
Confidence            9999997

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

Probab=99.97  E-value=4.6e-27  Score=208.62  Aligned_cols=439  Identities=15%  Similarity=0.071  Sum_probs=360.0

Q ss_pred             HHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhc
Q 009255           48 YNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFE  127 (539)
Q Consensus        48 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  127 (539)
                      ...|..-..+.|++.+|++.-..+-+.++. +....-.+-..+.+..+.+.....-....+. .+.-..+|..+...+-.
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 RLELAHRLYQGGDYKQAEKHCNMVGQEDPT-NTERLLLLSAIFFQGSRLDKSSAGSLLAIRK-NPQGAEAYSNLANILKE  128 (966)
T ss_pred             HHHHHHHHHhccCHHHHHHHHhHhhccCCC-cccceeeehhhhhcccchhhhhhhhhhhhhc-cchHHHHHHHHHHHHHH
Confidence            456666777899999999988877766433 3344444556667777777665544444433 24457789999999999


Q ss_pred             cCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHHHHHcCCCCChhhH-HHHHHHHHhcCCHHHHHH
Q 009255          128 SGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTY-NTLIDANCKAGNMEEAFR  206 (539)
Q Consensus       128 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~a~~  206 (539)
                      .|+++.|+.+++.+.+...+ ....|..+..++...|+.+.|.+.|...++.  .|+.... ..+....-..|+.++|..
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 RGQLQDALALYRAAIELKPK-FIDAYINLAAALVTQGDLELAVQCFFEALQL--NPDLYCARSDLGNLLKAEGRLEEAKA  205 (966)
T ss_pred             hchHHHHHHHHHHHHhcCch-hhHHHhhHHHHHHhcCCCcccHHHHHHHHhc--CcchhhhhcchhHHHHhhcccchhHH
Confidence            99999999999999987433 6788999999999999999999999998875  4655433 334455556899999999


Q ss_pred             HHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCC
Q 009255          207 MMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQI  286 (539)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  286 (539)
                      .|.+.+.... --...|..+...+-.+|+...|++.|+++.+.... -...|-.|...|...+.+++|...|.+.....+
T Consensus       206 cYlkAi~~qp-~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP~-f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lrp  283 (966)
T KOG4626|consen  206 CYLKAIETQP-CFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPN-FLDAYINLGNVYKEARIFDRAVSCYLRALNLRP  283 (966)
T ss_pred             HHHHHHhhCC-ceeeeehhcchHHhhcchHHHHHHHHHHhhcCCCc-chHHHhhHHHHHHHHhcchHHHHHHHHHHhcCC
Confidence            9988877532 23456788888888999999999999999987432 356788899999999999999999999887654


Q ss_pred             CCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHH
Q 009255          287 MPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNIL  366 (539)
Q Consensus       287 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  366 (539)
                      . ....+..+...|-.+|..+.|+..+++.++..+. -+..|+.+..++-..|++.+|.+.|.+.+... +......+.|
T Consensus       284 n-~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P~-F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~-p~hadam~NL  360 (966)
T KOG4626|consen  284 N-HAVAHGNLACIYYEQGLLDLAIDTYKRALELQPN-FPDAYNNLANALKDKGSVTEAVDCYNKALRLC-PNHADAMNNL  360 (966)
T ss_pred             c-chhhccceEEEEeccccHHHHHHHHHHHHhcCCC-chHHHhHHHHHHHhccchHHHHHHHHHHHHhC-CccHHHHHHH
Confidence            3 5677778888899999999999999999986433 46789999999999999999999999999874 3467788999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCC-HhhHHHHHHHHHhcCC
Q 009255          367 LSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPD-RYTYAAIHTALVESGR  445 (539)
Q Consensus       367 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~  445 (539)
                      ...|...|.+++|..+|....+..+. -...++.|...|-++|++++|+..|++++  .+.|+ ...+..++..|-..|+
T Consensus       361 gni~~E~~~~e~A~~ly~~al~v~p~-~aaa~nNLa~i~kqqgnl~~Ai~~Ykeal--rI~P~fAda~~NmGnt~ke~g~  437 (966)
T KOG4626|consen  361 GNIYREQGKIEEATRLYLKALEVFPE-FAAAHNNLASIYKQQGNLDDAIMCYKEAL--RIKPTFADALSNMGNTYKEMGD  437 (966)
T ss_pred             HHHHHHhccchHHHHHHHHHHhhChh-hhhhhhhHHHHHHhcccHHHHHHHHHHHH--hcCchHHHHHHhcchHHHHhhh
Confidence            99999999999999999998886222 34578999999999999999999999999  46888 4789999999999999


Q ss_pred             HHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChh-hHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHH
Q 009255          446 LEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSI-SYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTY  520 (539)
Q Consensus       446 ~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~  520 (539)
                      .+.|++.+.+++..+                   |... +.++|+..|-..|+..+|++.|+++++  ++||....
T Consensus       438 v~~A~q~y~rAI~~n-------------------Pt~AeAhsNLasi~kDsGni~~AI~sY~~aLk--lkPDfpdA  492 (966)
T KOG4626|consen  438 VSAAIQCYTRAIQIN-------------------PTFAEAHSNLASIYKDSGNIPEAIQSYRTALK--LKPDFPDA  492 (966)
T ss_pred             HHHHHHHHHHHHhcC-------------------cHHHHHHhhHHHHhhccCCcHHHHHHHHHHHc--cCCCCchh
Confidence            999999999999987                   7766 999999999999999999999999997  78886644

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

Probab=99.96  E-value=1.4e-25  Score=199.27  Aligned_cols=450  Identities=15%  Similarity=0.115  Sum_probs=371.0

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHh
Q 009255           13 YNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCN   92 (539)
Q Consensus        13 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   92 (539)
                      ...+.....+.|++.+|++.-..+-..+ +.+......+-..+.+..+++....--....+..+. -..+|..+.+.+-.
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-PTNTERLLLLSAIFFQGSRLDKSSAGSLLAIRKNPQ-GAEAYSNLANILKE  128 (966)
T ss_pred             HHHHHHHHHhccCHHHHHHHHhHhhccC-CCcccceeeehhhhhcccchhhhhhhhhhhhhccch-HHHHHHHHHHHHHH
Confidence            4556777888999999999888777665 445555556666777777777766555555554433 67899999999999


Q ss_pred             cCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHH-HHHHHHHHhcCCHhHHHH
Q 009255           93 AGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTH-NIMIKWYCKEGKIDKACK  171 (539)
Q Consensus        93 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~g~~~~a~~  171 (539)
                      .|++++|+.+++.+.+.. +.....|..+..++...|+.+.|.+.|.+..+.  .|+.... ..+.......|++++|..
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            999999999999999864 346789999999999999999999999998875  4554433 334455566899999999


Q ss_pred             HHHHHHHcCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHhhcC
Q 009255          172 IVRNMEENGFSPD-CVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRG  250 (539)
Q Consensus       172 ~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  250 (539)
                      .+.+..+.  .|. ...|..|...+..+|+...|++.|++..+... .-...|..+...|...+.++.|...+.++....
T Consensus       206 cYlkAi~~--qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP-~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lr  282 (966)
T KOG4626|consen  206 CYLKAIET--QPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDP-NFLDAYINLGNVYKEARIFDRAVSCYLRALNLR  282 (966)
T ss_pred             HHHHHHhh--CCceeeeehhcchHHhhcchHHHHHHHHHHhhcCCC-cchHHHhhHHHHHHHHhcchHHHHHHHHHHhcC
Confidence            99998876  343 55788999999999999999999999987632 245678899999999999999999999887763


Q ss_pred             CccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHH
Q 009255          251 YYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNT  330 (539)
Q Consensus       251 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  330 (539)
                       +.....+..+...|..+|..+.|+..|++.++..+. -+..|+.+..++-..|++.+|.+.+.+.+...+. .....+.
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 -PNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQPN-FPDAYNNLANALKDKGSVTEAVDCYNKALRLCPN-HADAMNN  359 (966)
T ss_pred             -CcchhhccceEEEEeccccHHHHHHHHHHHHhcCCC-chHHHhHHHHHHHhccchHHHHHHHHHHHHhCCc-cHHHHHH
Confidence             225667888888999999999999999999987554 4789999999999999999999999999886432 5668889


Q ss_pred             HHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-hhhHHHHHHHHHccC
Q 009255          331 IIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVD-SVTYNTLISSLCKER  409 (539)
Q Consensus       331 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~  409 (539)
                      +...+...|.++.|..+|....+.. +.-....+.|...|.++|++++|+..+++.+..  .|+ ...|+.++..|-..|
T Consensus       360 Lgni~~E~~~~e~A~~ly~~al~v~-p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI--~P~fAda~~NmGnt~ke~g  436 (966)
T KOG4626|consen  360 LGNIYREQGKIEEATRLYLKALEVF-PEFAAAHNNLASIYKQQGNLDDAIMCYKEALRI--KPTFADALSNMGNTYKEMG  436 (966)
T ss_pred             HHHHHHHhccchHHHHHHHHHHhhC-hhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhc--CchHHHHHHhcchHHHHhh
Confidence            9999999999999999999999863 234567889999999999999999999999875  455 458999999999999


Q ss_pred             ChHHHHHHHHHHHhCCCCCC-HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChh-hHHH
Q 009255          410 RLEDAFGLLSEMEEKKLGPD-RYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSI-SYSE  487 (539)
Q Consensus       410 ~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~  487 (539)
                      +.+.|++.+.+++.  +.|. ...+..|+..+...|+..+|++-|+.+++..                   ||.. ++.+
T Consensus       437 ~v~~A~q~y~rAI~--~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklk-------------------PDfpdA~cN  495 (966)
T KOG4626|consen  437 DVSAAIQCYTRAIQ--INPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLK-------------------PDFPDAYCN  495 (966)
T ss_pred             hHHHHHHHHHHHHh--cCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccC-------------------CCCchhhhH
Confidence            99999999999995  4676 5788899999999999999999999999987                   7666 7877


Q ss_pred             HHHHHhhcCC
Q 009255          488 KINEHCSQGR  497 (539)
Q Consensus       488 l~~~~~~~g~  497 (539)
                      ++.++.-..+
T Consensus       496 llh~lq~vcd  505 (966)
T KOG4626|consen  496 LLHCLQIVCD  505 (966)
T ss_pred             HHHHHHHHhc
Confidence            7777654433

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.95  E-value=3.1e-22  Score=200.04  Aligned_cols=222  Identities=12%  Similarity=0.013  Sum_probs=142.8

Q ss_pred             CHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHH
Q 009255          289 STFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLS  368 (539)
Q Consensus       289 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  368 (539)
                      +...|..+..++.. +++++|+..+.+.....  |+......+...+...|++++|...|+++...  +|+...+..+..
T Consensus       476 ~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~~--Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~  550 (987)
T PRK09782        476 DAAAWNRLAKCYRD-TLPGVALYAWLQAEQRQ--PDAWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAAN  550 (987)
T ss_pred             CHHHHHHHHHHHHh-CCcHHHHHHHHHHHHhC--CchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHH
Confidence            45556666666655 67777777666666543  34333333344445777788887777776554  333444555666


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHH
Q 009255          369 GLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEE  448 (539)
Q Consensus       369 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  448 (539)
                      ++.+.|++++|...+++.....+ .+...+..+.......|++++|...+++.++.  .|+...+..++.++.+.|++++
T Consensus       551 all~~Gd~~eA~~~l~qAL~l~P-~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l--~P~~~a~~~LA~~l~~lG~~de  627 (987)
T PRK09782        551 TAQAAGNGAARDRWLQQAEQRGL-GDNALYWWLHAQRYIPGQPELALNDLTRSLNI--APSANAYVARATIYRQRHNVPA  627 (987)
T ss_pred             HHHHCCCHHHHHHHHHHHHhcCC-ccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCCHHHHHHHHHHHHHCCCHHH
Confidence            67777777777777777776531 12223333333344557777777777777754  4566667777777777777777


Q ss_pred             HHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 009255          449 AQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGLI  528 (539)
Q Consensus       449 A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~  528 (539)
                      |++.++++++..                  |.+...+..++.++...|++++|++.++++++  ..|+.......++.++
T Consensus       628 A~~~l~~AL~l~------------------Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~--l~P~~~~a~~nLA~al  687 (987)
T PRK09782        628 AVSDLRAALELE------------------PNNSNYQAALGYALWDSGDIAQSREMLERAHK--GLPDDPALIRQLAYVN  687 (987)
T ss_pred             HHHHHHHHHHhC------------------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHH
Confidence            777777777776                  22333777777777777777777777777776  4677776666666666


Q ss_pred             hcCCchhhcc
Q 009255          529 KRRKSISKAV  538 (539)
Q Consensus       529 ~~~~~~~~A~  538 (539)
                      ...|++++|+
T Consensus       688 ~~lGd~~eA~  697 (987)
T PRK09782        688 QRLDDMAATQ  697 (987)
T ss_pred             HHCCCHHHHH
Confidence            6666676664

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.95  E-value=8.7e-22  Score=196.83  Aligned_cols=473  Identities=11%  Similarity=0.019  Sum_probs=300.6

Q ss_pred             hcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChHHHHH
Q 009255           22 KKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFR  101 (539)
Q Consensus        22 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  101 (539)
                      ..|++++|+..|+...+.. |-+..++..+...|...|++++|+..+++..+..+. |...+..+ ..   .++.++|..
T Consensus        56 ~~Gd~~~A~~~l~~Al~~d-P~n~~~~~~LA~~yl~~g~~~~A~~~~~kAv~ldP~-n~~~~~~L-a~---i~~~~kA~~  129 (987)
T PRK09782         56 KNNDEATAIREFEYIHQQV-PDNIPLTLYLAEAYRHFGHDDRARLLLEDQLKRHPG-DARLERSL-AA---IPVEVKSVT  129 (987)
T ss_pred             hCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcc-cHHHHHHH-HH---hccChhHHH
Confidence            3489999999999998886 556888889999999999999999999999887442 44444433 22   288888889


Q ss_pred             HHHHHHhCCCCCChhhHHHHHHH--------HhccCCHhHHHHHHHHHHhCCCCCCHHHHHHH-HHHHHhcCCHhHHHHH
Q 009255          102 LRKEMESLKLLPDVVTYNTLINR--------FFESGRSMEAFKLIDELDEHGIKPNAVTHNIM-IKWYCKEGKIDKACKI  172 (539)
Q Consensus       102 ~~~~~~~~~~~~~~~~~~~l~~~--------~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-~~~~~~~g~~~~a~~~  172 (539)
                      +++++.... +-+..++..+...        |.+.   ++|.+.++ .......|++.+.... ...|.+.|++++|+++
T Consensus       130 ~ye~l~~~~-P~n~~~~~~la~~~~~~~~l~y~q~---eqAl~AL~-lr~~~~~~~~~vL~L~~~rlY~~l~dw~~Ai~l  204 (987)
T PRK09782        130 TVEELLAQQ-KACDAVPTLRCRSEVGQNALRLAQL---PVARAQLN-DATFAASPEGKTLRTDLLQRAIYLKQWSQADTL  204 (987)
T ss_pred             HHHHHHHhC-CCChhHHHHHHHHhhccchhhhhhH---HHHHHHHH-HhhhCCCCCcHHHHHHHHHHHHHHhCHHHHHHH
Confidence            999988764 3334455444444        4444   44555554 3333333344444444 7778888888888888


Q ss_pred             HHHHHHcCCCCChhhHHHHHHHHHh-cCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHhhcCC
Q 009255          173 VRNMEENGFSPDCVTYNTLIDANCK-AGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGY  251 (539)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  251 (539)
                      +.++.+.+ +.+......|..+|.. .++ +++..+++.    ...-+......++..+.+.|+.++|.++++.+.....
T Consensus       205 L~~L~k~~-pl~~~~~~~L~~ay~q~l~~-~~a~al~~~----~lk~d~~l~~ala~~yi~~G~~~~A~~~L~~~~~~~~  278 (987)
T PRK09782        205 YNEARQQN-TLSAAERRQWFDVLLAGQLD-DRLLALQSQ----GIFTDPQSRITYATALAYRGEKARLQHYLIENKPLFT  278 (987)
T ss_pred             HHHHHhcC-CCCHHHHHHHHHHHHHhhCH-HHHHHHhch----hcccCHHHHHHHHHHHHHCCCHHHHHHHHHhCccccc
Confidence            88877764 3334445555555555 244 555555432    2223566666666666677776666666655432110


Q ss_pred             c-c-----------------------------------------------------------------------------
Q 009255          252 Y-L-----------------------------------------------------------------------------  253 (539)
Q Consensus       252 ~-~-----------------------------------------------------------------------------  253 (539)
                      . |                                                                             
T Consensus       279 ~~~~~~~~~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~  358 (987)
T PRK09782        279 TDAQEKSWLYLLSKYSANPVQALANYTVQFADNRQYVVGATLPVLLKEGQYDAAQKLLATLPANEMLEERYAVSVATRNK  358 (987)
T ss_pred             CCCccHHHHHHHHhccCchhhhccchhhhhHHHHHHHHHHHHHHHHhccHHHHHHHHhcCCCcchHHHHHHhhccccCch
Confidence            0 0                                                                             


Q ss_pred             ----------------CHhhHHHHHHHHHccCCHHHHHHHHHHHHHc--CCCCCHhhHHHHHHHHHcCCC---HHHHHHH
Q 009255          254 ----------------DEVSYGTLITGYFRDEKANRALKLWDEMKER--QIMPSTFTYNAMIWGLSQSGK---TEQAIDM  312 (539)
Q Consensus       254 ----------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~---~~~a~~~  312 (539)
                                      +......+.....+.|+.++|..+++.....  +..++......++..|.+.+.   ...+..+
T Consensus       359 ~~~~~~~~~~y~~~~~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l  438 (987)
T PRK09782        359 AEALRLARLLYQQEPANLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPAKVAIL  438 (987)
T ss_pred             hHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchHHHHHh
Confidence                            0011111111122334444444444444331  011122233345555555444   2222222


Q ss_pred             ----------------------HHHHHHC-CC-CC--CHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHH
Q 009255          313 ----------------------LNELLQS-GM-IP--DETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNIL  366 (539)
Q Consensus       313 ----------------------~~~~~~~-~~-~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  366 (539)
                                            ....... +. ++  +...+..+..++.. ++.++|...+.......  |+......+
T Consensus       439 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~~--Pd~~~~L~l  515 (987)
T PRK09782        439 SKPLPLAEQRQWQSQLPGIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQRQ--PDAWQHRAV  515 (987)
T ss_pred             ccccccchhHHHHhhhhhhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHhC--CchHHHHHH
Confidence                                  1111110 11 12  34455556555554 67778888777777653  454444445


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCH
Q 009255          367 LSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRL  446 (539)
Q Consensus       367 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  446 (539)
                      ..++...|++++|...|+++...  +|+...+..++.++...|++++|...++++++.. +++...+..+...+...|++
T Consensus       516 A~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~-P~~~~l~~~La~~l~~~Gr~  592 (987)
T PRK09782        516 AYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRG-LGDNALYWWLHAQRYIPGQP  592 (987)
T ss_pred             HHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHhCCCH
Confidence            55567889999999999987654  4455556777888889999999999999998753 23333344444555667999


Q ss_pred             HHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 009255          447 EEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNG  526 (539)
Q Consensus       447 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~  526 (539)
                      ++|...++++++..                   |+...|..++.++.+.|++++|+..|+++++  +.|+...+...++.
T Consensus       593 ~eAl~~~~~AL~l~-------------------P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~--l~Pd~~~a~~nLG~  651 (987)
T PRK09782        593 ELALNDLTRSLNIA-------------------PSANAYVARATIYRQRHNVPAAVSDLRAALE--LEPNNSNYQAALGY  651 (987)
T ss_pred             HHHHHHHHHHHHhC-------------------CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHH
Confidence            99999999999887                   7777999999999999999999999999997  68999988888887


Q ss_pred             HHhcCCchhhcc
Q 009255          527 LIKRRKSISKAV  538 (539)
Q Consensus       527 ~~~~~~~~~~A~  538 (539)
                      ++...|++++|+
T Consensus       652 aL~~~G~~eeAi  663 (987)
T PRK09782        652 ALWDSGDIAQSR  663 (987)
T ss_pred             HHHHCCCHHHHH
Confidence            777778888885

>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=99.95  E-value=1.1e-21  Score=193.06  Aligned_cols=427  Identities=12%  Similarity=0.010  Sum_probs=290.2

Q ss_pred             HHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhc
Q 009255           48 YNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFE  127 (539)
Q Consensus        48 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  127 (539)
                      +...+..+.+.|+++.|+..|++.+..  .|+...|..+..+|.+.|++++|+..+++..+.. +.+...|..+..+|..
T Consensus       130 ~k~~G~~~~~~~~~~~Ai~~y~~al~~--~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~a~a~~~  206 (615)
T TIGR00990       130 LKEKGNKAYRNKDFNKAIKLYSKAIEC--KPDPVYYSNRAACHNALGDWEKVVEDTTAALELD-PDYSKALNRRANAYDG  206 (615)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHH
Confidence            445666777888888888888887765  3456677777788888888888888888877754 3345677778888888


Q ss_pred             cCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCHHHHHHH
Q 009255          128 SGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRM  207 (539)
Q Consensus       128 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  207 (539)
                      .|++++|+..|..+...+...+.. ...++..+..    ..+........+.. +++...+..+.. +...........-
T Consensus       207 lg~~~eA~~~~~~~~~~~~~~~~~-~~~~~~~~l~----~~a~~~~~~~l~~~-~~~~~~~~~~~~-~~~~~~~~~~~~~  279 (615)
T TIGR00990       207 LGKYADALLDLTASCIIDGFRNEQ-SAQAVERLLK----KFAESKAKEILETK-PENLPSVTFVGN-YLQSFRPKPRPAG  279 (615)
T ss_pred             cCCHHHHHHHHHHHHHhCCCccHH-HHHHHHHHHH----HHHHHHHHHHHhcC-CCCCCCHHHHHH-HHHHccCCcchhh
Confidence            888888887776665442221211 1111111111    12222223332221 222223332222 2211111111111


Q ss_pred             HHHHhhCCCCCC-HHhHHHHHHH---HhccCCHHHHHHHHHHHhhcC--CccCHhhHHHHHHHHHccCCHHHHHHHHHHH
Q 009255          208 MDVMGRKGLKMN-TITLNTILHT---LCCEKKLDEAYMLLNSASKRG--YYLDEVSYGTLITGYFRDEKANRALKLWDEM  281 (539)
Q Consensus       208 ~~~~~~~~~~~~-~~~~~~l~~~---~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  281 (539)
                      +......  .+. ...+..+...   ....+.+++|...|+.+...+  .+.....+..+...+...|++++|+..+++.
T Consensus       280 ~~~~~~~--~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~ka  357 (615)
T TIGR00990       280 LEDSNEL--DEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKS  357 (615)
T ss_pred             hhccccc--ccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            1111111  111 0111111111   123467889999999988764  1224456777888888999999999999999


Q ss_pred             HHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHH
Q 009255          282 KERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIV  361 (539)
Q Consensus       282 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  361 (539)
                      +...+. ....|..+...+...|++++|...++++.+..+ .+...+..+...+...|++++|...|++.++.. +.+..
T Consensus       358 l~l~P~-~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~  434 (615)
T TIGR00990       358 IELDPR-VTQSYIKRASMNLELGDPDKAEEDFDKALKLNS-EDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIF  434 (615)
T ss_pred             HHcCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHH
Confidence            887543 466788888899999999999999999887643 357788888999999999999999999999874 34677


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCH-hh-------H
Q 009255          362 TCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDR-YT-------Y  433 (539)
Q Consensus       362 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~-------~  433 (539)
                      .+..+..++.+.|++++|...|++..... +.++..++.++.++...|++++|+..|+++....  |+. ..       +
T Consensus       435 ~~~~la~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~--p~~~~~~~~~~~l~  511 (615)
T TIGR00990       435 SHIQLGVTQYKEGSIASSMATFRRCKKNF-PEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELE--KETKPMYMNVLPLI  511 (615)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcC--CccccccccHHHHH
Confidence            78888899999999999999999988763 3367788999999999999999999999988653  321 11       1


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChh-hHHHHHHHHhhcCCHHHHHHHHHHHHHc
Q 009255          434 AAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSI-SYSEKINEHCSQGRYKDALQIFEETRQK  511 (539)
Q Consensus       434 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~  511 (539)
                      ......+...|++++|.++++++++.+                   |+.. .+..++.++.+.|++++|++.|+++.+.
T Consensus       512 ~~a~~~~~~~~~~~eA~~~~~kAl~l~-------------------p~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l  571 (615)
T TIGR00990       512 NKALALFQWKQDFIEAENLCEKALIID-------------------PECDIAVATMAQLLLQQGDVDEALKLFERAAEL  571 (615)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHhcC-------------------CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            111222334699999999999999886                   5444 7889999999999999999999999874

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

Probab=99.94  E-value=5.1e-22  Score=185.92  Aligned_cols=492  Identities=16%  Similarity=0.117  Sum_probs=272.3

Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcC---Ch
Q 009255           20 LFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAG---ML   96 (539)
Q Consensus        20 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~   96 (539)
                      ....+++..|+.+|..++.....--+.....+..++++.|+.+.|+..|+...+.++. ++.++..|...-....   .+
T Consensus       174 ~ynkkdY~~al~yyk~al~inp~~~aD~rIgig~Cf~kl~~~~~a~~a~~ralqLdp~-~v~alv~L~~~~l~~~d~~s~  252 (1018)
T KOG2002|consen  174 AYNKKDYRGALKYYKKALRINPACKADVRIGIGHCFWKLGMSEKALLAFERALQLDPT-CVSALVALGEVDLNFNDSDSY  252 (1018)
T ss_pred             HhccccHHHHHHHHHHHHhcCcccCCCccchhhhHHHhccchhhHHHHHHHHHhcChh-hHHHHHHHHHHHHHccchHHH
Confidence            3346788888888888666542222233445567777888888888888877776432 3333333332222222   23


Q ss_pred             HHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCC--CCHHHHHHHHHHHHhcCCHhHHHHHHH
Q 009255           97 EEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIK--PNAVTHNIMIKWYCKEGKIDKACKIVR  174 (539)
Q Consensus        97 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~a~~~~~  174 (539)
                      ..+...+...-... .-++...+.|...|.-.|++..+..+...+......  .-...|..+.++|-..|++++|...|.
T Consensus       253 ~~~~~ll~~ay~~n-~~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~  331 (1018)
T KOG2002|consen  253 KKGVQLLQRAYKEN-NENPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYM  331 (1018)
T ss_pred             HHHHHHHHHHHhhc-CCCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHH
Confidence            34444444444332 334555666666666666666666666655443211  112345556666666666666666665


Q ss_pred             HHHHcCCCCCh--hhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccC----CHHHHHHHHHHHhh
Q 009255          175 NMEENGFSPDC--VTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEK----KLDEAYMLLNSASK  248 (539)
Q Consensus       175 ~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~a~~~~~~~~~  248 (539)
                      +..+.  .++.  ..+.-+...+...|+++.+...|+.+.+. .+.+..+...+...|...+    ..+.|..++.+..+
T Consensus       332 ~s~k~--~~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~-~p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~  408 (1018)
T KOG2002|consen  332 ESLKA--DNDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQ-LPNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLE  408 (1018)
T ss_pred             HHHcc--CCCCccccccchhHHHHHhchHHHHHHHHHHHHHh-CcchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHh
Confidence            55443  2222  22334555566666666666666665554 1223444444444444332    23333334333333


Q ss_pred             c-------------------------------------CCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHc---CCCC
Q 009255          249 R-------------------------------------GYYLDEVSYGTLITGYFRDEKANRALKLWDEMKER---QIMP  288 (539)
Q Consensus       249 ~-------------------------------------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~  288 (539)
                      .                                     +..+.+...|.+...+...|++..|...|......   ...+
T Consensus       409 ~~~~d~~a~l~laql~e~~d~~~sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~  488 (1018)
T KOG2002|consen  409 QTPVDSEAWLELAQLLEQTDPWASLDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANK  488 (1018)
T ss_pred             cccccHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCc
Confidence            3                                     33344455555555555555555555555554433   1111


Q ss_pred             CH------hhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHh
Q 009255          289 ST------FTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVT  362 (539)
Q Consensus       289 ~~------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  362 (539)
                      +.      .+-..+...+-..++.+.|.+.|..+.+..+. -...|..++......+....|...+..+.... ..++..
T Consensus       489 de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilkehp~-YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d-~~np~a  566 (1018)
T KOG2002|consen  489 DEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKEHPG-YIDAYLRLGCMARDKNNLYEASLLLKDALNID-SSNPNA  566 (1018)
T ss_pred             cccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHCch-hHHHHHHhhHHHHhccCcHHHHHHHHHHHhcc-cCCcHH
Confidence            11      11122333334444555555555555543211 22233333322223345555666666555542 335555


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcC-CCCChhhHHHHHHHHHc------------cCChHHHHHHHHHHHhCCCCCC
Q 009255          363 CNILLSGLCREGILEKALKFFRSWILKG-KAVDSVTYNTLISSLCK------------ERRLEDAFGLLSEMEEKKLGPD  429 (539)
Q Consensus       363 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~l~~~~~~------------~~~~~~A~~~~~~~~~~~~~~~  429 (539)
                      +..+...+.+...+.-|.+-|..+.+.- ..+|+.+...|+..|..            .+.+++|+++|.+.++.. +.|
T Consensus       567 rsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~d-pkN  645 (1018)
T KOG2002|consen  567 RSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRND-PKN  645 (1018)
T ss_pred             HHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcC-cch
Confidence            5556666666666666666666555441 12355555556655542            244677888888887653 455


Q ss_pred             HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHH
Q 009255          430 RYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETR  509 (539)
Q Consensus       430 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  509 (539)
                      ..+-+.++-+++..|++.+|+.+|.+..+..                  .....+|.+++++|..+|+|-.|+++|+.++
T Consensus       646 ~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~------------------~~~~dv~lNlah~~~e~~qy~~AIqmYe~~l  707 (1018)
T KOG2002|consen  646 MYAANGIGIVLAEKGRFSEARDIFSQVREAT------------------SDFEDVWLNLAHCYVEQGQYRLAIQMYENCL  707 (1018)
T ss_pred             hhhccchhhhhhhccCchHHHHHHHHHHHHH------------------hhCCceeeeHHHHHHHHHHHHHHHHHHHHHH
Confidence            6666677788888888888888888888765                  2344588999999999999999999999988


Q ss_pred             HcCCCCCHHHHHHHHH-HHHhcCCchhhcc
Q 009255          510 QKGIAINKSTYMNLMN-GLIKRRKSISKAV  538 (539)
Q Consensus       510 ~~~~~p~~~~~~~~l~-~~~~~~~~~~~A~  538 (539)
                      +.-++.+......+|+ ++++.++ +.+|.
T Consensus       708 kkf~~~~~~~vl~~Lara~y~~~~-~~eak  736 (1018)
T KOG2002|consen  708 KKFYKKNRSEVLHYLARAWYEAGK-LQEAK  736 (1018)
T ss_pred             HHhcccCCHHHHHHHHHHHHHhhh-HHHHH
Confidence            7655566665555555 6666655 77764

>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=99.94  E-value=7.2e-21  Score=187.24  Aligned_cols=432  Identities=13%  Similarity=0.019  Sum_probs=311.5

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHH
Q 009255           12 TYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWC   91 (539)
Q Consensus        12 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   91 (539)
                      .+......+.+.|++++|+..|++.+..  .|++..|..+..+|.+.|++++|++.++...+.++. +...+..+..++.
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--KPDPVYYSNRAACHNALGDWEKVVEDTTAALELDPD-YSKALNRRANAYD  205 (615)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHH
Confidence            4557788999999999999999999986  467888999999999999999999999999987543 6778889999999


Q ss_pred             hcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHHH
Q 009255           92 NAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACK  171 (539)
Q Consensus        92 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  171 (539)
                      ..|++++|+..|..+...+.. +......++..+..    ..+........+.. +++...+..+...+ ..........
T Consensus       206 ~lg~~~eA~~~~~~~~~~~~~-~~~~~~~~~~~~l~----~~a~~~~~~~l~~~-~~~~~~~~~~~~~~-~~~~~~~~~~  278 (615)
T TIGR00990       206 GLGKYADALLDLTASCIIDGF-RNEQSAQAVERLLK----KFAESKAKEILETK-PENLPSVTFVGNYL-QSFRPKPRPA  278 (615)
T ss_pred             HcCCHHHHHHHHHHHHHhCCC-ccHHHHHHHHHHHH----HHHHHHHHHHHhcC-CCCCCCHHHHHHHH-HHccCCcchh
Confidence            999999999988877654311 22222222222211    22233333333321 12222232232222 2222222222


Q ss_pred             HHHHHHHcCCCCCh-hhHHHHHHHH---HhcCCHHHHHHHHHHHhhCC-C-CCCHHhHHHHHHHHhccCCHHHHHHHHHH
Q 009255          172 IVRNMEENGFSPDC-VTYNTLIDAN---CKAGNMEEAFRMMDVMGRKG-L-KMNTITLNTILHTLCCEKKLDEAYMLLNS  245 (539)
Q Consensus       172 ~~~~~~~~~~~~~~-~~~~~l~~~~---~~~~~~~~a~~~~~~~~~~~-~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  245 (539)
                      -+....+.  .+.. ..+..+...+   ...+.+++|.+.|+.....+ . +.....+..+...+...|++++|+..++.
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  1111 1111121111   23478999999999998764 2 22445677778888899999999999999


Q ss_pred             HhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCH
Q 009255          246 ASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDE  325 (539)
Q Consensus       246 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  325 (539)
                      +..... .....|..+...+...|++++|+..|+++...++. +..+|..+...+...|++++|...|++..+..+. +.
T Consensus       357 al~l~P-~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P~-~~  433 (615)
T TIGR00990       357 SIELDP-RVTQSYIKRASMNLELGDPDKAEEDFDKALKLNSE-DPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDPD-FI  433 (615)
T ss_pred             HHHcCC-CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCcc-CH
Confidence            988743 24667888888999999999999999999887544 6788999999999999999999999999986533 56


Q ss_pred             HhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhh------HH
Q 009255          326 TTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVT------YN  399 (539)
Q Consensus       326 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~------~~  399 (539)
                      ..+..+..++.+.|++++|...++..++.. +.+...+..+..++...|++++|++.|++........+...      ++
T Consensus       434 ~~~~~la~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~  512 (615)
T TIGR00990       434 FSHIQLGVTQYKEGSIASSMATFRRCKKNF-PEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLIN  512 (615)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHH
Confidence            677788889999999999999999998863 44678899999999999999999999999988643211111      12


Q ss_pred             HHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          400 TLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       400 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      ..+..+...|++++|..+++++.... +.+..++..++.++.+.|++++|+++++++.+..
T Consensus       513 ~a~~~~~~~~~~~eA~~~~~kAl~l~-p~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l~  572 (615)
T TIGR00990       513 KALALFQWKQDFIEAENLCEKALIID-PECDIAVATMAQLLLQQGDVDEALKLFERAAELA  572 (615)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHh
Confidence            22223344699999999999998653 2334567889999999999999999999999876

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.93  E-value=1.4e-20  Score=188.36  Aligned_cols=431  Identities=13%  Similarity=0.029  Sum_probs=290.0

Q ss_pred             CCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHH
Q 009255           42 VPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTL  121 (539)
Q Consensus        42 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l  121 (539)
                      +.++.-..-.+......|+.++|++++....... +.+...+..+...+...|++++|..+|++..+.. +.+...+..+
T Consensus        12 ~~~~~~~~d~~~ia~~~g~~~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~l   89 (765)
T PRK10049         12 ALSNNQIADWLQIALWAGQDAEVITVYNRYRVHM-QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLE-PQNDDYQRGL   89 (765)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHH
Confidence            4455556666677778888888888888877532 2345567777788888888888888888877653 3456667777


Q ss_pred             HHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCH
Q 009255          122 INRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNM  201 (539)
Q Consensus       122 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  201 (539)
                      +..+...|++++|+..++++.+. .+.+.. +..+..++...|+.++|...++++.+.. +.+...+..+..++...+..
T Consensus        90 a~~l~~~g~~~eA~~~l~~~l~~-~P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~-P~~~~~~~~la~~l~~~~~~  166 (765)
T PRK10049         90 ILTLADAGQYDEALVKAKQLVSG-APDKAN-LLALAYVYKRAGRHWDELRAMTQALPRA-PQTQQYPTEYVQALRNNRLS  166 (765)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHh-CCCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCh
Confidence            77788888888888888888776 233455 7777777888888888888888887763 33445556667777777788


Q ss_pred             HHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCH---HHHHHHH
Q 009255          202 EEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKA---NRALKLW  278 (539)
Q Consensus       202 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~---~~a~~~~  278 (539)
                      ++|++.++....   .|+..  .. +       ....+.......              +.......+++   ++|++.+
T Consensus       167 e~Al~~l~~~~~---~p~~~--~~-l-------~~~~~~~~~r~~--------------~~~~~~~~~r~~~ad~Al~~~  219 (765)
T PRK10049        167 APALGAIDDANL---TPAEK--RD-L-------EADAAAELVRLS--------------FMPTRSEKERYAIADRALAQY  219 (765)
T ss_pred             HHHHHHHHhCCC---CHHHH--HH-H-------HHHHHHHHHHhh--------------cccccChhHHHHHHHHHHHHH
Confidence            888877765543   22200  00 0       000000000000              00001111223   6677777


Q ss_pred             HHHHHc-CCCCCHh-hHH----HHHHHHHcCCCHHHHHHHHHHHHHCCCC-CCHHhHHHHHHHHhcCCCHHHHHHHHHHH
Q 009255          279 DEMKER-QIMPSTF-TYN----AMIWGLSQSGKTEQAIDMLNELLQSGMI-PDETTFNTIIHGFCSEGQVEKALQFHNKM  351 (539)
Q Consensus       279 ~~~~~~-~~~~~~~-~~~----~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  351 (539)
                      +.+... ...|+.. .+.    ..+.++...|++++|+..|+.+.+.+.. |+. ....+..++...|++++|...|+.+
T Consensus       220 ~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~~  298 (765)
T PRK10049        220 DALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQSILTEL  298 (765)
T ss_pred             HHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHHH
Confidence            777643 1122221 111    1123445668889999999888876532 322 2222466788889999999999888


Q ss_pred             HhCCCCC---CHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-----------CCC---hhhHHHHHHHHHccCChHHH
Q 009255          352 VEKSFKP---DIVTCNILLSGLCREGILEKALKFFRSWILKGK-----------AVD---SVTYNTLISSLCKERRLEDA  414 (539)
Q Consensus       352 ~~~~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-----------~~~---~~~~~~l~~~~~~~~~~~~A  414 (539)
                      .+.....   .......+..++...|++++|..+++.+....+           .|+   ...+..++..+...|++++|
T Consensus       299 l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA  378 (765)
T PRK10049        299 FYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQA  378 (765)
T ss_pred             hhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHH
Confidence            7653211   134456666677888999999999888876521           122   12445677788899999999


Q ss_pred             HHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCCh-hhHHHHHHHHh
Q 009255          415 FGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSS-ISYSEKINEHC  493 (539)
Q Consensus       415 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~l~~~~~  493 (539)
                      +.+++++.... +.+...+..++.++...|++++|++.++++++..                   |+. ..+...+..+.
T Consensus       379 ~~~l~~al~~~-P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~-------------------Pd~~~l~~~~a~~al  438 (765)
T PRK10049        379 EMRARELAYNA-PGNQGLRIDYASVLQARGWPRAAENELKKAEVLE-------------------PRNINLEVEQAWTAL  438 (765)
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhC-------------------CCChHHHHHHHHHHH
Confidence            99999998753 4556788888999999999999999999999987                   554 48888888999


Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 009255          494 SQGRYKDALQIFEETRQKGIAINKSTYMNLMNGL  527 (539)
Q Consensus       494 ~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~  527 (539)
                      ..|++++|.++++++++  ..|++.....+-..+
T Consensus       439 ~~~~~~~A~~~~~~ll~--~~Pd~~~~~~~~~~~  470 (765)
T PRK10049        439 DLQEWRQMDVLTDDVVA--REPQDPGVQRLARAR  470 (765)
T ss_pred             HhCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHH
Confidence            99999999999999997  578888777665544

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

Probab=99.93  E-value=2.6e-20  Score=174.64  Aligned_cols=482  Identities=13%  Similarity=0.036  Sum_probs=365.4

Q ss_pred             cChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCC--CCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHH
Q 009255            8 PDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLV--PNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNM   85 (539)
Q Consensus         8 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~   85 (539)
                      .++...+.|.+.|.-.|++..+..+...+......  .-...|..+.++|..+|+++.|...|....+....-....+--
T Consensus       268 ~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~~~G  347 (1018)
T KOG2002|consen  268 ENPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNFVLPLVG  347 (1018)
T ss_pred             CCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCccccccc
Confidence            46778888999999999999999999998876411  2334688899999999999999999999988754433455667


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccC----CHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 009255           86 LINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESG----RSMEAFKLIDELDEHGIKPNAVTHNIMIKWYC  161 (539)
Q Consensus        86 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  161 (539)
                      +...+.+.|+.+.+...|+.+.+.. +.+..+...|...|...+    ..+.|..++.+..+.- +.|...|..+...+.
T Consensus       348 lgQm~i~~~dle~s~~~fEkv~k~~-p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~laql~e  425 (1018)
T KOG2002|consen  348 LGQMYIKRGDLEESKFCFEKVLKQL-PNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELAQLLE  425 (1018)
T ss_pred             hhHHHHHhchHHHHHHHHHHHHHhC-cchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHHHHHH
Confidence            8899999999999999999998863 445667777777777664    4567777777777653 457888888888876


Q ss_pred             hcCCHhHHHHHHHHHH----HcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhC---CCC------CCHHhHHHHHH
Q 009255          162 KEGKIDKACKIVRNME----ENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRK---GLK------MNTITLNTILH  228 (539)
Q Consensus       162 ~~g~~~~a~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~------~~~~~~~~l~~  228 (539)
                      ...-+. ++..+....    ..+-++.+...|.+...+...|++++|...|......   ...      ++..+-..+..
T Consensus       426 ~~d~~~-sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlar  504 (1018)
T KOG2002|consen  426 QTDPWA-SLDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLAR  504 (1018)
T ss_pred             hcChHH-HHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHH
Confidence            554443 366665543    4455677888999999999999999999999987654   112      22334455667


Q ss_pred             HHhccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHH
Q 009255          229 TLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQ  308 (539)
Q Consensus       229 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  308 (539)
                      ++-..++.+.|.+.|..+.+..+ .-...|..++.+....+...+|...+......+-. ++..++.+...+.....+..
T Consensus       505 l~E~l~~~~~A~e~Yk~Ilkehp-~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d~~-np~arsl~G~~~l~k~~~~~  582 (1018)
T KOG2002|consen  505 LLEELHDTEVAEEMYKSILKEHP-GYIDAYLRLGCMARDKNNLYEASLLLKDALNIDSS-NPNARSLLGNLHLKKSEWKP  582 (1018)
T ss_pred             HHHhhhhhhHHHHHHHHHHHHCc-hhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcccC-CcHHHHHHHHHHHhhhhhcc
Confidence            77788899999999999988631 12334555554555668889999999998876443 77788888889999999999


Q ss_pred             HHHHHHHHHHCC-CCCCHHhHHHHHHHHhc------------CCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCC
Q 009255          309 AIDMLNELLQSG-MIPDETTFNTIIHGFCS------------EGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGI  375 (539)
Q Consensus       309 a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  375 (539)
                      |.+-|+.+.+.. ..+|..+...|.+.|..            .+..++|+++|.++++.. +-|...-+.+.-+++..|+
T Consensus       583 a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~d-pkN~yAANGIgiVLA~kg~  661 (1018)
T KOG2002|consen  583 AKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRND-PKNMYAANGIGIVLAEKGR  661 (1018)
T ss_pred             cccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcC-cchhhhccchhhhhhhccC
Confidence            988777766542 22466666666665542            245788999999999885 4488888889999999999


Q ss_pred             HHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCC-CCCHhhHHHHHHHHHhcCCHHHHHHHHH
Q 009255          376 LEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKL-GPDRYTYAAIHTALVESGRLEEAQKFTS  454 (539)
Q Consensus       376 ~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~  454 (539)
                      +..|..+|.+..+... -+..+|..++.+|...|+|..|+++|+...+.-. ..+..++..|++++.+.|.+.+|.+.+.
T Consensus       662 ~~~A~dIFsqVrEa~~-~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll  740 (1018)
T KOG2002|consen  662 FSEARDIFSQVREATS-DFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALL  740 (1018)
T ss_pred             chHHHHHHHHHHHHHh-hCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHH
Confidence            9999999999998743 2667899999999999999999999999887633 4467888999999999999999999999


Q ss_pred             HHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHh-------------------hcCCHHHHHHHHHHHHHcCCC
Q 009255          455 IMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHC-------------------SQGRYKDALQIFEETRQKGIA  514 (539)
Q Consensus       455 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~-------------------~~g~~~~A~~~~~~~~~~~~~  514 (539)
                      .+....+.                  +...-.+++-+..                   ..+..+.|.++|..+...+-.
T Consensus       741 ~a~~~~p~------------------~~~v~FN~a~v~kkla~s~lr~~k~t~eev~~a~~~le~a~r~F~~ls~~~d~  801 (1018)
T KOG2002|consen  741 KARHLAPS------------------NTSVKFNLALVLKKLAESILRLEKRTLEEVLEAVKELEEARRLFTELSKNGDK  801 (1018)
T ss_pred             HHHHhCCc------------------cchHHhHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence            99988732                  2222223322222                   234578899999999875533

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.92  E-value=2e-19  Score=176.38  Aligned_cols=445  Identities=13%  Similarity=0.055  Sum_probs=278.1

Q ss_pred             HHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCC
Q 009255           51 LVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGR  130 (539)
Q Consensus        51 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  130 (539)
                      -+....+.|+++.|+..|+++.+..+.-....+ .++..+...|+.++|+..+++..... +........+...+...|+
T Consensus        40 ~aii~~r~Gd~~~Al~~L~qaL~~~P~~~~av~-dll~l~~~~G~~~~A~~~~eka~~p~-n~~~~~llalA~ly~~~gd  117 (822)
T PRK14574         40 SLIIRARAGDTAPVLDYLQEESKAGPLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQSSM-NISSRGLASAARAYRNEKR  117 (822)
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhhCccchhhHH-HHHHHHHHcCCcHHHHHHHHHhccCC-CCCHHHHHHHHHHHHHcCC
Confidence            333445666666666666666655332111222 55555666666666666666665210 1111222222445556666


Q ss_pred             HhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHH
Q 009255          131 SMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDV  210 (539)
Q Consensus       131 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  210 (539)
                      +++|+++|+++.+.... ++..+..++..+...++.++|++.++++...  .|+...+..++..+...++..+|++.+++
T Consensus       118 yd~Aiely~kaL~~dP~-n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~~AL~~~ek  194 (822)
T PRK14574        118 WDQALALWQSSLKKDPT-NPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNYDALQASSE  194 (822)
T ss_pred             HHHHHHHHHHHHhhCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHHHHHHHHHH
Confidence            66666666666665332 3455555566666666666666666666554  34443443333333334444446666666


Q ss_pred             HhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHh-----hHHHHHHHH---H--ccC---CHHHHHHH
Q 009255          211 MGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEV-----SYGTLITGY---F--RDE---KANRALKL  277 (539)
Q Consensus       211 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-----~~~~l~~~~---~--~~~---~~~~a~~~  277 (539)
                      +.+.. +.+...+..+..++.+.|-...|.++...-...-...+..     ....++..-   .  ...   -.+.|+.-
T Consensus       195 ll~~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~  273 (822)
T PRK14574        195 AVRLA-PTSEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKALAD  273 (822)
T ss_pred             HHHhC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHH
Confidence            66653 2345555566666666666666655554332110000000     000011000   0  111   23445555


Q ss_pred             HHHHHHcC-CCCCH-hhH----HHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHH
Q 009255          278 WDEMKERQ-IMPST-FTY----NAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKM  351 (539)
Q Consensus       278 ~~~~~~~~-~~~~~-~~~----~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  351 (539)
                      ++.+...- ..|.. ..|    .-.+-++...|++.++++.++.+...+.+....+...+..+|...+++++|..+|+.+
T Consensus       274 ~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~  353 (822)
T PRK14574        274 YQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSL  353 (822)
T ss_pred             HHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHH
Confidence            66655421 11221 122    1234567788999999999999998876555567788899999999999999999998


Q ss_pred             HhCC-----CCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-----------CCChh---hHHHHHHHHHccCChH
Q 009255          352 VEKS-----FKPDIVTCNILLSGLCREGILEKALKFFRSWILKGK-----------AVDSV---TYNTLISSLCKERRLE  412 (539)
Q Consensus       352 ~~~~-----~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-----------~~~~~---~~~~l~~~~~~~~~~~  412 (539)
                      ....     .+++......|..+|...+++++|..+++.+.+..+           .||+.   .+..++..+...|+..
T Consensus       354 ~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~  433 (822)
T PRK14574        354 YYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLP  433 (822)
T ss_pred             hhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHH
Confidence            7643     123344457788899999999999999999987411           12222   2345677788899999


Q ss_pred             HHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChh-hHHHHHHH
Q 009255          413 DAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSI-SYSEKINE  491 (539)
Q Consensus       413 ~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~  491 (539)
                      +|.+.++++.... +-|......++..+...|.+.+|++.++.+....                   |+.. +....+.+
T Consensus       434 ~Ae~~le~l~~~a-P~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l~-------------------P~~~~~~~~~~~~  493 (822)
T PRK14574        434 TAQKKLEDLSSTA-PANQNLRIALASIYLARDLPRKAEQELKAVESLA-------------------PRSLILERAQAET  493 (822)
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhC-------------------CccHHHHHHHHHH
Confidence            9999999998653 6677888899999999999999999998888776                   5544 88899999


Q ss_pred             HhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 009255          492 HCSQGRYKDALQIFEETRQKGIAINKSTYMNL  523 (539)
Q Consensus       492 ~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~  523 (539)
                      +...|++.+|..+.+.+++  ..|++.....+
T Consensus       494 al~l~e~~~A~~~~~~l~~--~~Pe~~~~~~l  523 (822)
T PRK14574        494 AMALQEWHQMELLTDDVIS--RSPEDIPSQEL  523 (822)
T ss_pred             HHhhhhHHHHHHHHHHHHh--hCCCchhHHHH
Confidence            9999999999999999987  57887766554

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.92  E-value=7.2e-22  Score=184.95  Aligned_cols=300  Identities=13%  Similarity=0.083  Sum_probs=210.6

Q ss_pred             HHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHhhcCCcc---CHhhHHHHHHHHHccCCH
Q 009255          195 NCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYL---DEVSYGTLITGYFRDEKA  271 (539)
Q Consensus       195 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~  271 (539)
                      +...|++++|+..|+++.+.+ +.+..++..+...+...|++++|..+++.+......+   ....+..++..|...|++
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 1233344455555555555555555555554432111   123456667777777778


Q ss_pred             HHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCH----HhHHHHHHHHhcCCCHHHHHHH
Q 009255          272 NRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDE----TTFNTIIHGFCSEGQVEKALQF  347 (539)
Q Consensus       272 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~  347 (539)
                      ++|..+|+++.+..+ ++..++..++..+...|++++|.+.++.+.+.+..+..    ..+..+...+...|++++|...
T Consensus       124 ~~A~~~~~~~l~~~~-~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~  202 (389)
T PRK11788        124 DRAEELFLQLVDEGD-FAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARAL  202 (389)
T ss_pred             HHHHHHHHHHHcCCc-chHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHH
Confidence            888887777776532 35667777888888888888888888887765433221    2345566677888999999999


Q ss_pred             HHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCC
Q 009255          348 HNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLG  427 (539)
Q Consensus       348 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~  427 (539)
                      ++++.+.. +.+...+..++..+.+.|++++|.++++++...++.....+++.++.+|...|++++|...++++.+.  .
T Consensus       203 ~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~--~  279 (389)
T PRK11788        203 LKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEE--Y  279 (389)
T ss_pred             HHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--C
Confidence            99888764 33566777888889999999999999999887643333456788889999999999999999998865  5


Q ss_pred             CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhh---cCCHHHHHHH
Q 009255          428 PDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCS---QGRYKDALQI  504 (539)
Q Consensus       428 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~g~~~~A~~~  504 (539)
                      |+...+..++..+.+.|++++|.++++++++..                   |+...+..+...+..   .|+.++|+.+
T Consensus       280 p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~-------------------P~~~~~~~l~~~~~~~~~~g~~~~a~~~  340 (389)
T PRK11788        280 PGADLLLALAQLLEEQEGPEAAQALLREQLRRH-------------------PSLRGFHRLLDYHLAEAEEGRAKESLLL  340 (389)
T ss_pred             CCchHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-------------------cCHHHHHHHHHHhhhccCCccchhHHHH
Confidence            666666788888999999999999999998876                   888877777766654   5689999999


Q ss_pred             HHHHHHcCCCCCHH
Q 009255          505 FEETRQKGIAINKS  518 (539)
Q Consensus       505 ~~~~~~~~~~p~~~  518 (539)
                      +++++++++.|+..
T Consensus       341 ~~~~~~~~~~~~p~  354 (389)
T PRK11788        341 LRDLVGEQLKRKPR  354 (389)
T ss_pred             HHHHHHHHHhCCCC
Confidence            99998876666543

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.92  E-value=1.1e-19  Score=182.00  Aligned_cols=409  Identities=11%  Similarity=0.050  Sum_probs=259.1

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHH
Q 009255            9 DNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLIN   88 (539)
Q Consensus         9 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (539)
                      +.....-.+......|+.++|+.++.+..... +.+...+..+..++...|++++|.++|+...+..+. +...+..++.
T Consensus        14 ~~~~~~d~~~ia~~~g~~~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~la~   91 (765)
T PRK10049         14 SNNQIADWLQIALWAGQDAEVITVYNRYRVHM-QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLEPQ-NDDYQRGLIL   91 (765)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHH
Confidence            33444556677788999999999999998743 556667999999999999999999999999887543 5667788889


Q ss_pred             HHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhH
Q 009255           89 GWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDK  168 (539)
Q Consensus        89 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  168 (539)
                      .+...|++++|+..++++.+.. +.+.. +..+...+...|+.++|+..++++.+.... +...+..+...+...|..++
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-LLALAYVYKRAGRHWDELRAMTQALPRAPQ-TQQYPTEYVQALRNNRLSAP  168 (765)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhC-CCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCChHH
Confidence            9999999999999999998863 44566 888899999999999999999999987433 56666778888888999999


Q ss_pred             HHHHHHHHHHcCCCCChh------hHHHHHHHHHh-----cCCH---HHHHHHHHHHhhC-CCCCCHH-hHHHHHHHHhc
Q 009255          169 ACKIVRNMEENGFSPDCV------TYNTLIDANCK-----AGNM---EEAFRMMDVMGRK-GLKMNTI-TLNTILHTLCC  232 (539)
Q Consensus       169 a~~~~~~~~~~~~~~~~~------~~~~l~~~~~~-----~~~~---~~a~~~~~~~~~~-~~~~~~~-~~~~l~~~~~~  232 (539)
                      |...++....   .|+..      ....++.....     .+++   ++|++.++.+.+. ...|+.. .+...      
T Consensus       169 Al~~l~~~~~---~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a------  239 (765)
T PRK10049        169 ALGAIDDANL---TPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRA------  239 (765)
T ss_pred             HHHHHHhCCC---CHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHH------
Confidence            9998887664   23310      11111111111     1112   3444444444432 1111110 00000      


Q ss_pred             cCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCC-CCHhhHHHHHHHHHcCCCHHHHHH
Q 009255          233 EKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIM-PSTFTYNAMIWGLSQSGKTEQAID  311 (539)
Q Consensus       233 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~  311 (539)
                                               ....+..+...|++++|+..|+.+...+.. |+. ....+..+|...|++++|+.
T Consensus       240 -------------------------~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~  293 (765)
T PRK10049        240 -------------------------RIDRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQS  293 (765)
T ss_pred             -------------------------HHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHH
Confidence                                     000012223445555555555555544321 111 11113445555555666655


Q ss_pred             HHHHHHHCCCCC---CHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCC-----------CCC---HHhHHHHHHHHHhcC
Q 009255          312 MLNELLQSGMIP---DETTFNTIIHGFCSEGQVEKALQFHNKMVEKSF-----------KPD---IVTCNILLSGLCREG  374 (539)
Q Consensus       312 ~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----------~~~---~~~~~~l~~~~~~~g  374 (539)
                      .|+++.......   .......+..++...|++++|...++.+.....           .|+   ...+..+...+...|
T Consensus       294 ~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g  373 (765)
T PRK10049        294 ILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSN  373 (765)
T ss_pred             HHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcC
Confidence            555554432111   012233344445555666666666555554321           122   224445666677778


Q ss_pred             CHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCC-HhhHHHHHHHHHhcCCHHHHHHHH
Q 009255          375 ILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPD-RYTYAAIHTALVESGRLEEAQKFT  453 (539)
Q Consensus       375 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~  453 (539)
                      ++++|+++++++.... +.+...+..++..+...|++++|++.++++...  .|+ ...+...+..+...|++++|.+.+
T Consensus       374 ~~~eA~~~l~~al~~~-P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l--~Pd~~~l~~~~a~~al~~~~~~~A~~~~  450 (765)
T PRK10049        374 DLPQAEMRARELAYNA-PGNQGLRIDYASVLQARGWPRAAENELKKAEVL--EPRNINLEVEQAWTALDLQEWRQMDVLT  450 (765)
T ss_pred             CHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhh--CCCChHHHHHHHHHHHHhCCHHHHHHHH
Confidence            8888888888777663 335667777777777788888888888877754  344 455556666777778888888888


Q ss_pred             HHHHHcC
Q 009255          454 SIMVETG  460 (539)
Q Consensus       454 ~~~~~~~  460 (539)
                      +.+++..
T Consensus       451 ~~ll~~~  457 (765)
T PRK10049        451 DDVVARE  457 (765)
T ss_pred             HHHHHhC
Confidence            8887775

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.92  E-value=1.8e-21  Score=182.22  Aligned_cols=301  Identities=15%  Similarity=0.114  Sum_probs=155.8

Q ss_pred             HHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC---hhhHHHHHHHHhccCC
Q 009255           54 GYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPD---VVTYNTLINRFFESGR  130 (539)
Q Consensus        54 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~  130 (539)
                      .+...|++++|...|+++.+.++. +..++..+...+...|++++|..+++.+......++   ...+..++..|...|+
T Consensus        44 ~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~  122 (389)
T PRK11788         44 NFLLNEQPDKAIDLFIEMLKVDPE-TVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGL  122 (389)
T ss_pred             HHHhcCChHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCC
Confidence            344555555555555555554322 334455555555555555555555555554321111   1234455555555555


Q ss_pred             HhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHHHHHcCCCCC----hhhHHHHHHHHHhcCCHHHHHH
Q 009255          131 SMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPD----CVTYNTLIDANCKAGNMEEAFR  206 (539)
Q Consensus       131 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~  206 (539)
                      +++|..+|+++.+. .+++..++..++..+.+.|++++|.+.++.+.+.+..+.    ...+..+...+.+.|++++|..
T Consensus       123 ~~~A~~~~~~~l~~-~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~  201 (389)
T PRK11788        123 LDRAEELFLQLVDE-GDFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARA  201 (389)
T ss_pred             HHHHHHHHHHHHcC-CcchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHH
Confidence            55555555555543 122444555555555555555555555555554321111    1123344445555566666666


Q ss_pred             HHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCC
Q 009255          207 MMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQI  286 (539)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  286 (539)
                      .++++.+.. +.+...+..+...+...|++++|.+.++++...+.......+..++..|...|++++|...++++.... 
T Consensus       202 ~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~-  279 (389)
T PRK11788        202 LLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEEY-  279 (389)
T ss_pred             HHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-
Confidence            665555432 223344445555555566666666666655544322223345555666666666666666666665542 


Q ss_pred             CCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhc---CCCHHHHHHHHHHHHhCCCCCCHH
Q 009255          287 MPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCS---EGQVEKALQFHNKMVEKSFKPDIV  361 (539)
Q Consensus       287 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~  361 (539)
                       |+...+..++..+.+.|++++|..+++++.+.  .|+...+..++..+..   .|+.+++..+++.+.+.++.|++.
T Consensus       280 -p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p~  354 (389)
T PRK11788        280 -PGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKPR  354 (389)
T ss_pred             -CCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCCC
Confidence             33344455666666666666666666666554  3455555555544442   345666666666666544444433

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.92  E-value=5.6e-20  Score=180.09  Aligned_cols=333  Identities=10%  Similarity=0.020  Sum_probs=211.5

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHh
Q 009255           13 YNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCN   92 (539)
Q Consensus        13 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   92 (539)
                      ...++..+.+.|++++|..+++..+... +-+...+..++.+....|+++.|...++.+....+. +...+..+...+..
T Consensus        45 ~~~~~~~~~~~g~~~~A~~l~~~~l~~~-p~~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~P~-~~~a~~~la~~l~~  122 (656)
T PRK15174         45 IILFAIACLRKDETDVGLTLLSDRVLTA-KNGRDLLRRWVISPLASSQPDAVLQVVNKLLAVNVC-QPEDVLLVASVLLK  122 (656)
T ss_pred             HHHHHHHHHhcCCcchhHHHhHHHHHhC-CCchhHHHHHhhhHhhcCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHH
Confidence            3445666667777777777777777664 345556666666666777777777777777766443 45566666777777


Q ss_pred             cCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHHHH
Q 009255           93 AGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKI  172 (539)
Q Consensus        93 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  172 (539)
                      .|++++|...+++..... +.+...+..+...+...|++++|...++.+...... +...+..+ ..+...|++++|...
T Consensus       123 ~g~~~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~-~~~a~~~~-~~l~~~g~~~eA~~~  199 (656)
T PRK15174        123 SKQYATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKELQAISLARTQAQEVPP-RGDMIATC-LSFLNKSRLPEDHDL  199 (656)
T ss_pred             cCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCC-CHHHHHHH-HHHHHcCCHHHHHHH
Confidence            777777777777776643 334556666777777777777777777766554322 22233222 235667777777777


Q ss_pred             HHHHHHcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCCHHH----HHHHHHHHhh
Q 009255          173 VRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDE----AYMLLNSASK  248 (539)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~----a~~~~~~~~~  248 (539)
                      ++.+.+....++...+..+...+...|++++|+..++++.... +.+...+..+...+...|++++    |...++.+..
T Consensus       200 ~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~  278 (656)
T PRK15174        200 ARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQ  278 (656)
T ss_pred             HHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHh
Confidence            7776654322233334444566667777777777777776653 3355566666677777777664    6677777666


Q ss_pred             cCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhH
Q 009255          249 RGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTF  328 (539)
Q Consensus       249 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  328 (539)
                      ... .+...+..+...+...|++++|+..+++.....+. +...+..+..++.+.|++++|...++++....+. +...+
T Consensus       279 l~P-~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~-~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~P~-~~~~~  355 (656)
T PRK15174        279 FNS-DNVRIVTLYADALIRTGQNEKAIPLLQQSLATHPD-LPYVRAMYARALRQVGQYTAASDEFVQLAREKGV-TSKWN  355 (656)
T ss_pred             hCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-chHHH
Confidence            532 25566666777777777777777777777665433 4555666667777777777777777776664322 22233


Q ss_pred             HHHHHHHhcCCCHHHHHHHHHHHHhC
Q 009255          329 NTIIHGFCSEGQVEKALQFHNKMVEK  354 (539)
Q Consensus       329 ~~l~~~~~~~~~~~~a~~~~~~~~~~  354 (539)
                      ..+..++...|++++|...|+.+.+.
T Consensus       356 ~~~a~al~~~G~~deA~~~l~~al~~  381 (656)
T PRK15174        356 RYAAAALLQAGKTSEAESVFEHYIQA  381 (656)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            33455666777777777777777665

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.91  E-value=1.5e-19  Score=177.06  Aligned_cols=363  Identities=12%  Similarity=0.036  Sum_probs=288.2

Q ss_pred             HHhcCChHHHHHHHHHHHhCCC--CCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChH
Q 009255           20 LFKKGKLNEVRDLLSDMKKQGL--VPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLE   97 (539)
Q Consensus        20 ~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~   97 (539)
                      +.++.+++..--+|....+..-  ..+..-...++..+.+.|+++.|+.+++......+. +...+..++.+....|+++
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~-~~~~l~~l~~~~l~~g~~~   93 (656)
T PRK15174         15 LLKQEDWEGLCLYFSQHPEKVRDSAGNEQNIILFAIACLRKDETDVGLTLLSDRVLTAKN-GRDLLRRWVISPLASSQPD   93 (656)
T ss_pred             hhhhhchhhHhHHhhcccHhhhhhcccccCHHHHHHHHHhcCCcchhHHHhHHHHHhCCC-chhHHHHHhhhHhhcCCHH
Confidence            4566677766666655443310  112233455677788999999999999999988655 4556666777778899999


Q ss_pred             HHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHHHH
Q 009255           98 EAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNME  177 (539)
Q Consensus        98 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  177 (539)
                      +|...|+++.... +.+...+..+...+...|++++|...++++.... +.+...+..++..+...|++++|...++.+.
T Consensus        94 ~A~~~l~~~l~~~-P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~  171 (656)
T PRK15174         94 AVLQVVNKLLAVN-VCQPEDVLLVASVLLKSKQYATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKELQAISLARTQA  171 (656)
T ss_pred             HHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChHHHHHHHHHHH
Confidence            9999999999874 4567788889999999999999999999998862 3367788889999999999999999999887


Q ss_pred             HcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHhh
Q 009255          178 ENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVS  257 (539)
Q Consensus       178 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  257 (539)
                      ... +.+...+..+ ..+...|++++|...++.+.+....++......+...+...|++++|...++.+..... .+...
T Consensus       172 ~~~-P~~~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p-~~~~~  248 (656)
T PRK15174        172 QEV-PPRGDMIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARGL-DGAAL  248 (656)
T ss_pred             HhC-CCCHHHHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC-CCHHH
Confidence            653 2233333333 34788999999999999987764444455555667788899999999999999998753 36778


Q ss_pred             HHHHHHHHHccCCHHH----HHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHH
Q 009255          258 YGTLITGYFRDEKANR----ALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIH  333 (539)
Q Consensus       258 ~~~l~~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  333 (539)
                      +..+...+...|++++    |...|+++....+. +...+..+...+...|++++|...++++....+. +......+..
T Consensus       249 ~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~P~-~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~-~~~a~~~La~  326 (656)
T PRK15174        249 RRSLGLAYYQSGRSREAKLQAAEHWRHALQFNSD-NVRIVTLYADALIRTGQNEKAIPLLQQSLATHPD-LPYVRAMYAR  326 (656)
T ss_pred             HHHHHHHHHHcCCchhhHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHH
Confidence            8889999999999986    89999999987654 7788999999999999999999999999987543 5667777889


Q ss_pred             HHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 009255          334 GFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGK  391 (539)
Q Consensus       334 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  391 (539)
                      ++...|++++|...++.+...+.. +...+..+..++...|++++|...|+++.+..+
T Consensus       327 ~l~~~G~~~eA~~~l~~al~~~P~-~~~~~~~~a~al~~~G~~deA~~~l~~al~~~P  383 (656)
T PRK15174        327 ALRQVGQYTAASDEFVQLAREKGV-TSKWNRYAAAALLQAGKTSEAESVFEHYIQARA  383 (656)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCcc-chHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCh
Confidence            999999999999999999986422 334444567788999999999999999988743

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.91  E-value=3.4e-18  Score=167.85  Aligned_cols=434  Identities=13%  Similarity=0.046  Sum_probs=319.4

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcC
Q 009255           16 ILDALFKKGKLNEVRDLLSDMKKQGLVPNR-TTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAG   94 (539)
Q Consensus        16 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g   94 (539)
                      -+-...+.|+++.|+..|++.++.. |.++ ..+ .++..+...|+.++|+.++++..... .........+...+...|
T Consensus        40 ~aii~~r~Gd~~~Al~~L~qaL~~~-P~~~~av~-dll~l~~~~G~~~~A~~~~eka~~p~-n~~~~~llalA~ly~~~g  116 (822)
T PRK14574         40 SLIIRARAGDTAPVLDYLQEESKAG-PLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQSSM-NISSRGLASAARAYRNEK  116 (822)
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhhC-ccchhhHH-HHHHHHHHcCCcHHHHHHHHHhccCC-CCCHHHHHHHHHHHHHcC
Confidence            3344568999999999999999875 3232 344 88888889999999999999998321 123333444466888899


Q ss_pred             ChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHHHHHH
Q 009255           95 MLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVR  174 (539)
Q Consensus        95 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  174 (539)
                      ++++|+++|+++.+.. +.+...+..++..+...++.++|++.++++...  .|+...+..++..+...++..+|++.++
T Consensus       117 dyd~Aiely~kaL~~d-P~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~~AL~~~e  193 (822)
T PRK14574        117 RWDQALALWQSSLKKD-PTNPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNYDALQASS  193 (822)
T ss_pred             CHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHHHHHHHHH
Confidence            9999999999999875 445677778889999999999999999999876  4455555555555545666666999999


Q ss_pred             HHHHcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHh------HHHHHHHH---h--ccCC---HHHHH
Q 009255          175 NMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTIT------LNTILHTL---C--CEKK---LDEAY  240 (539)
Q Consensus       175 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~------~~~l~~~~---~--~~~~---~~~a~  240 (539)
                      ++.+.. +.+...+..+..+..+.|-...|.++..+-... +.+....      ....++.-   .  ....   .+.|+
T Consensus       194 kll~~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~-f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~al  271 (822)
T PRK14574        194 EAVRLA-PTSEEVLKNHLEILQRNRIVEPALRLAKENPNL-VSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKAL  271 (822)
T ss_pred             HHHHhC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccc-cCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHH
Confidence            999874 446777788889999999999998877653211 1111110      11111110   0  1112   33455


Q ss_pred             HHHHHHhhcC-CccCH-h----hHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHH
Q 009255          241 MLLNSASKRG-YYLDE-V----SYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLN  314 (539)
Q Consensus       241 ~~~~~~~~~~-~~~~~-~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  314 (539)
                      .-++.+...- ..|.. .    ...-.+.++...++..++++.|+.+...+.+....+-..+..+|...+++++|..+++
T Consensus       272 a~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~  351 (822)
T PRK14574        272 ADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILS  351 (822)
T ss_pred             HHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHH
Confidence            5555555421 11221 1    2223456677889999999999999987755455688889999999999999999999


Q ss_pred             HHHHCCC-----CCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCC-----------CCCH---HhHHHHHHHHHhcCC
Q 009255          315 ELLQSGM-----IPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSF-----------KPDI---VTCNILLSGLCREGI  375 (539)
Q Consensus       315 ~~~~~~~-----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----------~~~~---~~~~~l~~~~~~~g~  375 (539)
                      .+.....     .++......|.-++...+++++|..+++.+.+..+           .|+.   .....++..+...|+
T Consensus       352 ~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gd  431 (822)
T PRK14574        352 SLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALND  431 (822)
T ss_pred             HHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCC
Confidence            9876532     22333356788899999999999999999987421           1222   233456777888999


Q ss_pred             HHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCC-HhhHHHHHHHHHhcCCHHHHHHHHH
Q 009255          376 LEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPD-RYTYAAIHTALVESGRLEEAQKFTS  454 (539)
Q Consensus       376 ~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~  454 (539)
                      +.+|++.++.+....+ -|......+...+...|.+.+|.+.++.+...  .|+ ..+....+.++...|++.+|.++..
T Consensus       432 l~~Ae~~le~l~~~aP-~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l--~P~~~~~~~~~~~~al~l~e~~~A~~~~~  508 (822)
T PRK14574        432 LPTAQKKLEDLSSTAP-ANQNLRIALASIYLARDLPRKAEQELKAVESL--APRSLILERAQAETAMALQEWHQMELLTD  508 (822)
T ss_pred             HHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhh--CCccHHHHHHHHHHHHhhhhHHHHHHHHH
Confidence            9999999999988744 48889999999999999999999999777744  555 5666778888999999999999999


Q ss_pred             HHHHcC
Q 009255          455 IMVETG  460 (539)
Q Consensus       455 ~~~~~~  460 (539)
                      .+++..
T Consensus       509 ~l~~~~  514 (822)
T PRK14574        509 DVISRS  514 (822)
T ss_pred             HHHhhC
Confidence            999987

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

Probab=99.88  E-value=9.3e-17  Score=144.63  Aligned_cols=462  Identities=12%  Similarity=0.037  Sum_probs=314.6

Q ss_pred             HhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChHHHH
Q 009255           21 FKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAF  100 (539)
Q Consensus        21 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  100 (539)
                      ....+.++|+.++.+..+. +|.+...|    .++++..-|+.|..+++...+. ++.+..+|......--.+|+.+...
T Consensus       387 VelE~~~darilL~rAvec-cp~s~dLw----lAlarLetYenAkkvLNkaRe~-iptd~~IWitaa~LEE~ngn~~mv~  460 (913)
T KOG0495|consen  387 VELEEPEDARILLERAVEC-CPQSMDLW----LALARLETYENAKKVLNKAREI-IPTDREIWITAAKLEEANGNVDMVE  460 (913)
T ss_pred             HhccChHHHHHHHHHHHHh-ccchHHHH----HHHHHHHHHHHHHHHHHHHHhh-CCCChhHHHHHHHHHHhcCCHHHHH
Confidence            3445666677777777765 34344444    3445566777788888777765 3336666766666666777777777


Q ss_pred             HHHHH----HHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCCHhHHHHHHH
Q 009255          101 RLRKE----MESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPN--AVTHNIMIKWYCKEGKIDKACKIVR  174 (539)
Q Consensus       101 ~~~~~----~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~  174 (539)
                      ++..+    +...|+..+...|..=...|-..|..-.+..+.......|+...  ..+|+.-...|.+.+.++-|..+|.
T Consensus       461 kii~rgl~~L~~ngv~i~rdqWl~eAe~~e~agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya  540 (913)
T KOG0495|consen  461 KIIDRGLSELQANGVEINRDQWLKEAEACEDAGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYA  540 (913)
T ss_pred             HHHHHHHHHHhhcceeecHHHHHHHHHHHhhcCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHH
Confidence            66554    34456677777777777777777777777777777776665422  3466667777777777777777777


Q ss_pred             HHHHcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHhhcCCccC
Q 009255          175 NMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLD  254 (539)
Q Consensus       175 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  254 (539)
                      ..++. ++.+...|......--..|..+....+|++.... ++-....+......+-..|+...|..++..+.+.... +
T Consensus       541 ~alqv-fp~k~slWlra~~~ek~hgt~Esl~Allqkav~~-~pkae~lwlM~ake~w~agdv~~ar~il~~af~~~pn-s  617 (913)
T KOG0495|consen  541 HALQV-FPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQ-CPKAEILWLMYAKEKWKAGDVPAARVILDQAFEANPN-S  617 (913)
T ss_pred             HHHhh-ccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHh-CCcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCC-c
Confidence            77765 2445556666666555667777777777777765 2334455555566666677777777777777766433 5


Q ss_pred             HhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHH
Q 009255          255 EVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHG  334 (539)
Q Consensus       255 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  334 (539)
                      ...+.+.+.....+.+++.|..+|.+....  .|+...|..-+......++.++|.+++++.++. ++.-...|..+.+.
T Consensus       618 eeiwlaavKle~en~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~-fp~f~Kl~lmlGQi  694 (913)
T KOG0495|consen  618 EEIWLAAVKLEFENDELERARDLLAKARSI--SGTERVWMKSANLERYLDNVEEALRLLEEALKS-FPDFHKLWLMLGQI  694 (913)
T ss_pred             HHHHHHHHHHhhccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh-CCchHHHHHHHhHH
Confidence            666777777777777777777777776664  345666666666666667777777777777665 22244566667777


Q ss_pred             HhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHH
Q 009255          335 FCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDA  414 (539)
Q Consensus       335 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  414 (539)
                      +.+.++.+.|...|..-.+. .+..+..|..+...-.+.|.+-.|..++++..-+++. +...|...++.-.+.|+.+.|
T Consensus       695 ~e~~~~ie~aR~aY~~G~k~-cP~~ipLWllLakleEk~~~~~rAR~ildrarlkNPk-~~~lwle~Ir~ElR~gn~~~a  772 (913)
T KOG0495|consen  695 EEQMENIEMAREAYLQGTKK-CPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKNPK-NALLWLESIRMELRAGNKEQA  772 (913)
T ss_pred             HHHHHHHHHHHHHHHhcccc-CCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcCCC-cchhHHHHHHHHHHcCCHHHH
Confidence            77777777777777666554 3445556666666666777777777777777666443 666777777777777777777


Q ss_pred             HHHHHHHHhCC-----------------------------CCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcc
Q 009255          415 FGLLSEMEEKK-----------------------------LGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQ  465 (539)
Q Consensus       415 ~~~~~~~~~~~-----------------------------~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~  465 (539)
                      ..+..++++.-                             ...|..++..++..+....+++.|+++|.++++.+     
T Consensus       773 ~~lmakALQecp~sg~LWaEaI~le~~~~rkTks~DALkkce~dphVllaia~lfw~e~k~~kar~Wf~Ravk~d-----  847 (913)
T KOG0495|consen  773 ELLMAKALQECPSSGLLWAEAIWLEPRPQRKTKSIDALKKCEHDPHVLLAIAKLFWSEKKIEKAREWFERAVKKD-----  847 (913)
T ss_pred             HHHHHHHHHhCCccchhHHHHHHhccCcccchHHHHHHHhccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHccC-----
Confidence            77666655431                             12345556677777888888999999999999887     


Q ss_pred             cccCCCCCCCCCCCCChh-hHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCH
Q 009255          466 VVQPNTSKTPEEIDPSSI-SYSEKINEHCSQGRYKDALQIFEETRQKGIAINK  517 (539)
Q Consensus       466 ~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~  517 (539)
                                    |+.. +|..+...+.+.|.-+.-.++++++..  -.|..
T Consensus       848 --------------~d~GD~wa~fykfel~hG~eed~kev~~~c~~--~EP~h  884 (913)
T KOG0495|consen  848 --------------PDNGDAWAWFYKFELRHGTEEDQKEVLKKCET--AEPTH  884 (913)
T ss_pred             --------------CccchHHHHHHHHHHHhCCHHHHHHHHHHHhc--cCCCC
Confidence                          6666 888888889999988888888888875  34543

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

Probab=99.86  E-value=3.4e-16  Score=135.73  Aligned_cols=450  Identities=12%  Similarity=0.071  Sum_probs=330.6

Q ss_pred             HHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCh-hhHHHHHHH
Q 009255           46 TTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDV-VTYNTLINR  124 (539)
Q Consensus        46 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~  124 (539)
                      ..|.....--..++++..|..+|+..+.... .+...|...+.+-.++..+..|..++++....  .|.+ ..|-..+..
T Consensus        74 ~~WikYaqwEesq~e~~RARSv~ERALdvd~-r~itLWlkYae~Emknk~vNhARNv~dRAvt~--lPRVdqlWyKY~ym  150 (677)
T KOG1915|consen   74 QVWIKYAQWEESQKEIQRARSVFERALDVDY-RNITLWLKYAEFEMKNKQVNHARNVWDRAVTI--LPRVDQLWYKYIYM  150 (677)
T ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHHHHhccc-ccchHHHHHHHHHHhhhhHhHHHHHHHHHHHh--cchHHHHHHHHHHH
Confidence            3344444444467788899999999987654 37778888888888999999999999998874  3443 345555555


Q ss_pred             HhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCHHHH
Q 009255          125 FFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEA  204 (539)
Q Consensus       125 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  204 (539)
                      --..|++..|.++|++..+.  .|+...|.+.+..-.+-..++.|..++++..-.  .|+...|--....-.+.|+...+
T Consensus       151 EE~LgNi~gaRqiferW~~w--~P~eqaW~sfI~fElRykeieraR~IYerfV~~--HP~v~~wikyarFE~k~g~~~~a  226 (677)
T KOG1915|consen  151 EEMLGNIAGARQIFERWMEW--EPDEQAWLSFIKFELRYKEIERARSIYERFVLV--HPKVSNWIKYARFEEKHGNVALA  226 (677)
T ss_pred             HHHhcccHHHHHHHHHHHcC--CCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhee--cccHHHHHHHHHHHHhcCcHHHH
Confidence            55678999999999998874  789999999999999999999999999998764  68888888888888899999999


Q ss_pred             HHHHHHHhhC-CC-CCCHHhHHHHHHHHhccCCHHHHHHHHHHHhhcCCcc-CHhhHHHHHHHHHccCCHHHHHHH----
Q 009255          205 FRMMDVMGRK-GL-KMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYL-DEVSYGTLITGYFRDEKANRALKL----  277 (539)
Q Consensus       205 ~~~~~~~~~~-~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~----  277 (539)
                      ..+|+..... |- ..+...+......-.++..++.|.-+|.-+++.-... ....|..+...--+.|+.....+.    
T Consensus       227 R~VyerAie~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~K  306 (677)
T KOG1915|consen  227 RSVYERAIEFLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGK  306 (677)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhh
Confidence            9999887653 11 1122334444444456778888888888887763221 134555555555556665444433    


Q ss_pred             ----HHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHH-hHHHHH-----HHH---hcCCCHHHH
Q 009255          278 ----WDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDET-TFNTII-----HGF---CSEGQVEKA  344 (539)
Q Consensus       278 ----~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~-----~~~---~~~~~~~~a  344 (539)
                          ++.++..++. |-.+|--.+......|+.+...++|+++...-++.+.. .+...+     -+|   ....|.+.+
T Consensus       307 Rk~qYE~~v~~np~-nYDsWfdylrL~e~~g~~~~Ire~yErAIanvpp~~ekr~W~RYIYLWinYalyeEle~ed~ert  385 (677)
T KOG1915|consen  307 RKFQYEKEVSKNPY-NYDSWFDYLRLEESVGDKDRIRETYERAIANVPPASEKRYWRRYIYLWINYALYEELEAEDVERT  385 (677)
T ss_pred             hhhHHHHHHHhCCC-CchHHHHHHHHHHhcCCHHHHHHHHHHHHccCCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHH
Confidence                3445555443 77888888888888999999999999998763322221 111111     111   356899999


Q ss_pred             HHHHHHHHhCCCCCCHHhHHHHHHH----HHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHH
Q 009255          345 LQFHNKMVEKSFKPDIVTCNILLSG----LCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSE  420 (539)
Q Consensus       345 ~~~~~~~~~~~~~~~~~~~~~l~~~----~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  420 (539)
                      .++|+..++. ++-...++..+--+    -.++.++..|.+++..++.  ..|...+|...+..-.+.++++.+..++++
T Consensus       386 r~vyq~~l~l-IPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG--~cPK~KlFk~YIelElqL~efDRcRkLYEk  462 (677)
T KOG1915|consen  386 RQVYQACLDL-IPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIG--KCPKDKLFKGYIELELQLREFDRCRKLYEK  462 (677)
T ss_pred             HHHHHHHHhh-cCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhc--cCCchhHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            9999999985 44444555544333    3467899999999988764  578888999999999999999999999999


Q ss_pred             HHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHH
Q 009255          421 MEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKD  500 (539)
Q Consensus       421 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  500 (539)
                      .++.+ +.+..++...+..-...|+.+.|..+|+.+++.+..                .-....|...++.-...|.++.
T Consensus       463 fle~~-Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~l----------------dmpellwkaYIdFEi~~~E~ek  525 (677)
T KOG1915|consen  463 FLEFS-PENCYAWSKYAELETSLGDTDRARAIFELAISQPAL----------------DMPELLWKAYIDFEIEEGEFEK  525 (677)
T ss_pred             HHhcC-hHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCccc----------------ccHHHHHHHhhhhhhhcchHHH
Confidence            99764 556778888888778899999999999999987633                2223389999999999999999


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHH
Q 009255          501 ALQIFEETRQKGIAINKSTYMNLMN  525 (539)
Q Consensus       501 A~~~~~~~~~~~~~p~~~~~~~~l~  525 (539)
                      |..+|+++++.  .+-..+|..+..
T Consensus       526 aR~LYerlL~r--t~h~kvWisFA~  548 (677)
T KOG1915|consen  526 ARALYERLLDR--TQHVKVWISFAK  548 (677)
T ss_pred             HHHHHHHHHHh--cccchHHHhHHH
Confidence            99999999984  455556666544

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

Probab=99.86  E-value=2.5e-15  Score=135.55  Aligned_cols=487  Identities=12%  Similarity=0.024  Sum_probs=385.0

Q ss_pred             CChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChHHHHHHH
Q 009255           24 GKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLR  103 (539)
Q Consensus        24 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  103 (539)
                      .+...=.++++..++. +|.+...|...+    ...+.+.|+-++.+..+-= +.+...|    .++.+..-++.|.+++
T Consensus       360 ~~~~~K~RVlRKALe~-iP~sv~LWKaAV----elE~~~darilL~rAvecc-p~s~dLw----lAlarLetYenAkkvL  429 (913)
T KOG0495|consen  360 SDTKNKKRVLRKALEH-IPRSVRLWKAAV----ELEEPEDARILLERAVECC-PQSMDLW----LALARLETYENAKKVL  429 (913)
T ss_pred             hHHHHHHHHHHHHHHh-CCchHHHHHHHH----hccChHHHHHHHHHHHHhc-cchHHHH----HHHHHHHHHHHHHHHH
Confidence            3455556788888877 466666776554    3456667999999888752 2244444    4556677789999999


Q ss_pred             HHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHH----HhCCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHHHHHc
Q 009255          104 KEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDEL----DEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEEN  179 (539)
Q Consensus       104 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~----~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  179 (539)
                      ++..+. ++.+...|.+....--.+|+.+...+++++-    ...|+..+...|..=...|-..|..-.+..+....+..
T Consensus       430 NkaRe~-iptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e~agsv~TcQAIi~avigi  508 (913)
T KOG0495|consen  430 NKAREI-IPTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEACEDAGSVITCQAIIRAVIGI  508 (913)
T ss_pred             HHHHhh-CCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHHhhcCChhhHHHHHHHHHhh
Confidence            998775 6778889988888778899999999888764    45689999999999999999999999999999999888


Q ss_pred             CCCCC--hhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHhh
Q 009255          180 GFSPD--CVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVS  257 (539)
Q Consensus       180 ~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  257 (539)
                      |+.-.  ..+|..-...|.+.+.++-|..+|....+- ++-+...|......--..|..+....+++++...- +-....
T Consensus       509 gvEeed~~~tw~~da~~~~k~~~~~carAVya~alqv-fp~k~slWlra~~~ek~hgt~Esl~Allqkav~~~-pkae~l  586 (913)
T KOG0495|consen  509 GVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQV-FPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQC-PKAEIL  586 (913)
T ss_pred             ccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhh-ccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CcchhH
Confidence            76533  458888889999999999999999988875 44466677777777778899999999999998873 335556


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhc
Q 009255          258 YGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCS  337 (539)
Q Consensus       258 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  337 (539)
                      |......+...|+...|..++..+.+.++. +...|-.-+........++.|..+|.+....  .|+...|..-+..-.-
T Consensus       587 wlM~ake~w~agdv~~ar~il~~af~~~pn-seeiwlaavKle~en~e~eraR~llakar~~--sgTeRv~mKs~~~er~  663 (913)
T KOG0495|consen  587 WLMYAKEKWKAGDVPAARVILDQAFEANPN-SEEIWLAAVKLEFENDELERARDLLAKARSI--SGTERVWMKSANLERY  663 (913)
T ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHhCCC-cHHHHHHHHHHhhccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHH
Confidence            666677778899999999999999888665 7889999999999999999999999998764  5667777777777777


Q ss_pred             CCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHH
Q 009255          338 EGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGL  417 (539)
Q Consensus       338 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~  417 (539)
                      .+..++|.+++++.++. ++.-...|..+.+.+.+.++++.|...|..-... .+.....|..|...--+.|..-+|..+
T Consensus       664 ld~~eeA~rllEe~lk~-fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~-cP~~ipLWllLakleEk~~~~~rAR~i  741 (913)
T KOG0495|consen  664 LDNVEEALRLLEEALKS-FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKK-CPNSIPLWLLLAKLEEKDGQLVRARSI  741 (913)
T ss_pred             hhhHHHHHHHHHHHHHh-CCchHHHHHHHhHHHHHHHHHHHHHHHHHhcccc-CCCCchHHHHHHHHHHHhcchhhHHHH
Confidence            89999999999999986 3444668888899999999999999999887765 444667888888888899999999999


Q ss_pred             HHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccc------cCC------CCCCCCCCCCChhhH
Q 009255          418 LSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVV------QPN------TSKTPEEIDPSSISY  485 (539)
Q Consensus       418 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~------~~~------~~~~~~~~~~~~~~~  485 (539)
                      +++..-.+ +.+...|...++.-.+.|+.+.|.....++++..+.+...-      ...      +.....+..-|+...
T Consensus       742 ldrarlkN-Pk~~~lwle~Ir~ElR~gn~~~a~~lmakALQecp~sg~LWaEaI~le~~~~rkTks~DALkkce~dphVl  820 (913)
T KOG0495|consen  742 LDRARLKN-PKNALLWLESIRMELRAGNKEQAELLMAKALQECPSSGLLWAEAIWLEPRPQRKTKSIDALKKCEHDPHVL  820 (913)
T ss_pred             HHHHHhcC-CCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccchhHHHHHHhccCcccchHHHHHHHhccCCchhH
Confidence            99998765 55667788889999999999999999999998775432111      000      122334445566677


Q ss_pred             HHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHHhcC
Q 009255          486 SEKINEHCSQGRYKDALQIFEETRQKGIAINKS-TYMNLMNGLIKRR  531 (539)
Q Consensus       486 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~-~~~~~l~~~~~~~  531 (539)
                      ..++..+....+++.|++.|++..+  ..||.. +|.-+..-.+..|
T Consensus       821 laia~lfw~e~k~~kar~Wf~Ravk--~d~d~GD~wa~fykfel~hG  865 (913)
T KOG0495|consen  821 LAIAKLFWSEKKIEKAREWFERAVK--KDPDNGDAWAWFYKFELRHG  865 (913)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHc--cCCccchHHHHHHHHHHHhC
Confidence            8888999999999999999999997  567764 5555555555544

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

Probab=99.85  E-value=2.3e-15  Score=130.71  Aligned_cols=468  Identities=10%  Similarity=0.018  Sum_probs=348.1

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHH
Q 009255           12 TYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWC   91 (539)
Q Consensus        12 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   91 (539)
                      .|-...+-=..++++..|..+|++.+.-. ..+...|...+.+-.+...+..|..+++.....-+..| ..|...+.+--
T Consensus        75 ~WikYaqwEesq~e~~RARSv~ERALdvd-~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVd-qlWyKY~ymEE  152 (677)
T KOG1915|consen   75 VWIKYAQWEESQKEIQRARSVFERALDVD-YRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVD-QLWYKYIYMEE  152 (677)
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHhcc-cccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHH-HHHHHHHHHHH
Confidence            34444444456778899999999999876 45777899999999999999999999999988643323 35566666666


Q ss_pred             hcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHHH
Q 009255           92 NAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACK  171 (539)
Q Consensus        92 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  171 (539)
                      ..|++..|.++|++..+  ..|+...|++.+..-.+-+.++.|..+|++.+-.  .|++.+|....+.--++|.+..+..
T Consensus       153 ~LgNi~gaRqiferW~~--w~P~eqaW~sfI~fElRykeieraR~IYerfV~~--HP~v~~wikyarFE~k~g~~~~aR~  228 (677)
T KOG1915|consen  153 MLGNIAGARQIFERWME--WEPDEQAWLSFIKFELRYKEIERARSIYERFVLV--HPKVSNWIKYARFEEKHGNVALARS  228 (677)
T ss_pred             HhcccHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhee--cccHHHHHHHHHHHHhcCcHHHHHH
Confidence            78999999999999887  4799999999999999999999999999999864  6899999999999999999999999


Q ss_pred             HHHHHHHc-CC-CCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCC--HHhHHHHHHHHhccCCHHHHHHH-----
Q 009255          172 IVRNMEEN-GF-SPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMN--TITLNTILHTLCCEKKLDEAYML-----  242 (539)
Q Consensus       172 ~~~~~~~~-~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~-----  242 (539)
                      +|+...+. |- ..+...+.+....-..+..++.|.-+|+-.+.. ++.+  ...+..+...--+-|+.......     
T Consensus       229 VyerAie~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~-~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KR  307 (677)
T KOG1915|consen  229 VYERAIEFLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDH-IPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKR  307 (677)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-cCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhh
Confidence            99988764 10 112234455555555677889999999887765 2222  33444444444455665443332     


Q ss_pred             ---HHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCH-hhHHHHHH--------HHHcCCCHHHHH
Q 009255          243 ---LNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPST-FTYNAMIW--------GLSQSGKTEQAI  310 (539)
Q Consensus       243 ---~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~--------~~~~~~~~~~a~  310 (539)
                         ++...+.+ +.|-.+|-..+..-...|+.+...++|++.+..-++.+. ..|...|.        .-....+++.+.
T Consensus       308 k~qYE~~v~~n-p~nYDsWfdylrL~e~~g~~~~Ire~yErAIanvpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr  386 (677)
T KOG1915|consen  308 KFQYEKEVSKN-PYNYDSWFDYLRLEESVGDKDRIRETYERAIANVPPASEKRYWRRYIYLWINYALYEELEAEDVERTR  386 (677)
T ss_pred             hhHHHHHHHhC-CCCchHHHHHHHHHHhcCCHHHHHHHHHHHHccCCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHH
Confidence               33344432 346677778888888889999999999999875332111 22332222        124578999999


Q ss_pred             HHHHHHHHCCCCCCHHhHHHHHHHH----hcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHH
Q 009255          311 DMLNELLQSGMIPDETTFNTIIHGF----CSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSW  386 (539)
Q Consensus       311 ~~~~~~~~~~~~~~~~~~~~l~~~~----~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  386 (539)
                      ++++..++. ++....||..+--.|    .++.+...|.+++..++..  -|...++...+..-.+.++++...+++++.
T Consensus       387 ~vyq~~l~l-IPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~--cPK~KlFk~YIelElqL~efDRcRkLYEkf  463 (677)
T KOG1915|consen  387 QVYQACLDL-IPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGK--CPKDKLFKGYIELELQLREFDRCRKLYEKF  463 (677)
T ss_pred             HHHHHHHhh-cCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhcc--CCchhHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            999998884 444555666555444    4778999999999988854  688899999999999999999999999999


Q ss_pred             HHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCC-CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcc
Q 009255          387 ILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKL-GPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQ  465 (539)
Q Consensus       387 ~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~  465 (539)
                      ++-++. +-.+|...+..-...|+.+.|..+|.-+++... ......+...+.--...|.++.|..+|+++++..     
T Consensus       464 le~~Pe-~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~rt-----  537 (677)
T KOG1915|consen  464 LEFSPE-NCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDRT-----  537 (677)
T ss_pred             HhcChH-hhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHhc-----
Confidence            998544 777899988888899999999999999986421 1112233344444457899999999999999986     


Q ss_pred             cccCCCCCCCCCCCCChhhHHHHHHHHh-----hcC-----------CHHHHHHHHHHHHH
Q 009255          466 VVQPNTSKTPEEIDPSSISYSEKINEHC-----SQG-----------RYKDALQIFEETRQ  510 (539)
Q Consensus       466 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~-----~~g-----------~~~~A~~~~~~~~~  510 (539)
                                    +...+|.+.+..-.     +.|           ....|..+|+++..
T Consensus       538 --------------~h~kvWisFA~fe~s~~~~~~~~~~~~~e~~~~~~~~AR~iferAn~  584 (677)
T KOG1915|consen  538 --------------QHVKVWISFAKFEASASEGQEDEDLAELEITDENIKRARKIFERANT  584 (677)
T ss_pred             --------------ccchHHHhHHHHhccccccccccchhhhhcchhHHHHHHHHHHHHHH
Confidence                          55557777666554     334           56788888888764

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

Probab=99.85  E-value=2.6e-15  Score=140.68  Aligned_cols=486  Identities=15%  Similarity=0.084  Sum_probs=347.3

Q ss_pred             CcChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHH
Q 009255            7 LPDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNML   86 (539)
Q Consensus         7 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l   86 (539)
                      .|.....-...+.+...|++++|.+++.++++.. |.+...|.+|...|-.+|+.+.+...+-.+...++. |...|..+
T Consensus       136 ~~~l~~ll~eAN~lfarg~~eeA~~i~~EvIkqd-p~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~-d~e~W~~l  213 (895)
T KOG2076|consen  136 APELRQLLGEANNLFARGDLEEAEEILMEVIKQD-PRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPK-DYELWKRL  213 (895)
T ss_pred             CHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-ccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCC-ChHHHHHH
Confidence            3344445555666777899999999999999986 678889999999999999999999888777766554 67899999


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHH----HHHHHHHHh
Q 009255           87 INGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTH----NIMIKWYCK  162 (539)
Q Consensus        87 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~----~~l~~~~~~  162 (539)
                      .....+.|+++.|.-.|.+.++.. +++...+---...|-+.|+...|.+-|.++.....+.|..-+    ...++.+..
T Consensus       214 adls~~~~~i~qA~~cy~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~  292 (895)
T KOG2076|consen  214 ADLSEQLGNINQARYCYSRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFIT  292 (895)
T ss_pred             HHHHHhcccHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999875 455555556677888999999999999999887443333322    334566777


Q ss_pred             cCCHhHHHHHHHHHHHc-CCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCC-------------------------
Q 009255          163 EGKIDKACKIVRNMEEN-GFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGL-------------------------  216 (539)
Q Consensus       163 ~g~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-------------------------  216 (539)
                      .++-+.|.+.++..... +-..+...++.++..+.+...++.+............                         
T Consensus       293 ~~~~e~a~~~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~  372 (895)
T KOG2076|consen  293 HNERERAAKALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGK  372 (895)
T ss_pred             hhHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCC
Confidence            88889999888887762 2234566788899999999999999998887765211                         


Q ss_pred             --CCCHHhHHHHHHHHhccCCHHHHHHHHHHHhhcC--CccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhh
Q 009255          217 --KMNTITLNTILHTLCCEKKLDEAYMLLNSASKRG--YYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFT  292 (539)
Q Consensus       217 --~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  292 (539)
                        .++..+ ..+.-++......+....+...+....  +.-+...|..+..+|...|++.+|+.+|..+......-+...
T Consensus       373 ~~s~~l~v-~rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~v  451 (895)
T KOG2076|consen  373 ELSYDLRV-IRLMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFV  451 (895)
T ss_pred             CCCccchh-HhHhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhh
Confidence              122222 123334455555566666666666655  333566888999999999999999999999998766667889


Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHh--------CCCCCCHHhHH
Q 009255          293 YNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVE--------KSFKPDIVTCN  364 (539)
Q Consensus       293 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--------~~~~~~~~~~~  364 (539)
                      |-.+..+|...|..+.|...|+.++...+. +...-..|...+.+.|+.++|.+++..+..        ....|+..+..
T Consensus       452 w~~~a~c~~~l~e~e~A~e~y~kvl~~~p~-~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~  530 (895)
T KOG2076|consen  452 WYKLARCYMELGEYEEAIEFYEKVLILAPD-NLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILA  530 (895)
T ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-chhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHH
Confidence            999999999999999999999999886432 455666777888999999999999998652        23456666677


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcC----------------------CCCChhhHHHHHHHHHccCChHHHHHHHHHH-
Q 009255          365 ILLSGLCREGILEKALKFFRSWILKG----------------------KAVDSVTYNTLISSLCKERRLEDAFGLLSEM-  421 (539)
Q Consensus       365 ~l~~~~~~~g~~~~A~~~~~~~~~~~----------------------~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~-  421 (539)
                      .....+.+.|+.++-+.+-.+++...                      ..-..........+-.+.++.....+-...- 
T Consensus       531 ~r~d~l~~~gk~E~fi~t~~~Lv~~~~~~~~~f~~~~k~r~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~l~d~~  610 (895)
T KOG2076|consen  531 HRCDILFQVGKREEFINTASTLVDDFLKKRYIFPRNKKKRRRAIAGTTSKRYSELLKQIIRAREKATDDNVMEKALSDGT  610 (895)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHhhccccccccchhHHHHHHHHhccCchHHhhhcccchh
Confidence            77778888999887665554444321                      1112222333344444444432222211111 


Q ss_pred             -----HhCCCCCCH--hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChh--hHHHHHHHH
Q 009255          422 -----EEKKLGPDR--YTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSI--SYSEKINEH  492 (539)
Q Consensus       422 -----~~~~~~~~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~l~~~~  492 (539)
                           ...++..+.  ..+..++.++.+.+++++|..+...+.+.....+              ++...  .-.....+.
T Consensus       611 ~~~~~e~~~Lsiddwfel~~e~i~~L~k~~r~qeAl~vv~~a~~~~~f~~--------------~~~~~k~l~~~~l~~s  676 (895)
T KOG2076|consen  611 EFRAVELRGLSIDDWFELFRELILSLAKLQRVQEALSVVFTALEAYIFFQ--------------DSEIRKELQFLGLKAS  676 (895)
T ss_pred             hhhhhhhccCcHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhhhhhhc--------------cHHHHHHHHHHHHHHH
Confidence                 111333332  3455677788999999999999999988764310              12211  223344556


Q ss_pred             hhcCCHHHHHHHHHHHHHc
Q 009255          493 CSQGRYKDALQIFEETRQK  511 (539)
Q Consensus       493 ~~~g~~~~A~~~~~~~~~~  511 (539)
                      +..+++..|...++.++..
T Consensus       677 ~~~~d~~~a~~~lR~~i~~  695 (895)
T KOG2076|consen  677 LYARDPGDAFSYLRSVITQ  695 (895)
T ss_pred             HhcCCHHHHHHHHHHHHHH
Confidence            6789999999999998863

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

Probab=99.84  E-value=1.2e-17  Score=144.01  Aligned_cols=459  Identities=12%  Similarity=0.042  Sum_probs=215.1

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHH-HHHHHHHHccCCHhHHHHHHHHHHhCCCCC----ChhhHHHH
Q 009255           12 TYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTY-NILVSGYCKLGWLKEAMRVVDLMTQNKSLP----DVWTYNML   86 (539)
Q Consensus        12 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~----~~~~~~~l   86 (539)
                      .+..|.+.|..+..+.+|+..|+-+.+...-|+.... ..+...+.+...+..|++.++..+..-+..    .+.+.+.+
T Consensus       203 vl~nlaqqy~~ndm~~ealntyeiivknkmf~nag~lkmnigni~~kkr~fskaikfyrmaldqvpsink~~rikil~ni  282 (840)
T KOG2003|consen  203 VLFNLAQQYEANDMTAEALNTYEIIVKNKMFPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQVPSINKDMRIKILNNI  282 (840)
T ss_pred             HHHHHHHHhhhhHHHHHHhhhhhhhhcccccCCCceeeeeecceeeehhhHHHHHHHHHHHHhhccccchhhHHHHHhhc
Confidence            3444556666666777777777777666555555533 345566667777777777777666542211    12334444


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHH--------HHHHH
Q 009255           87 INGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTH--------NIMIK  158 (539)
Q Consensus        87 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~--------~~l~~  158 (539)
                      ...+.+.|+++.|+..|+...+.  .|+..+-..|+-++..-|+-++..+.|.+|...-..||..-|        ..|+.
T Consensus       283 gvtfiq~gqy~dainsfdh~m~~--~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~~ll~  360 (840)
T KOG2003|consen  283 GVTFIQAGQYDDAINSFDHCMEE--APNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDDNLLN  360 (840)
T ss_pred             CeeEEecccchhhHhhHHHHHHh--CccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcchHHHH
Confidence            45566777777777777776664  366655555555566667777777777777654222222111        11111


Q ss_pred             HHHhcCC-----------HhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHH
Q 009255          159 WYCKEGK-----------IDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTIL  227 (539)
Q Consensus       159 ~~~~~g~-----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  227 (539)
                      -..+...           .++++-.--++..--+.|+-..           | .+-.++.++.-....+.  ...-..-.
T Consensus       361 eai~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~-----------g-~dwcle~lk~s~~~~la--~dlei~ka  426 (840)
T KOG2003|consen  361 EAIKNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAA-----------G-CDWCLESLKASQHAELA--IDLEINKA  426 (840)
T ss_pred             HHHhhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchhc-----------c-cHHHHHHHHHhhhhhhh--hhhhhhHH
Confidence            1111111           1111111111111111111100           0 01111111110000000  00000111


Q ss_pred             HHHhccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHH--ccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCC
Q 009255          228 HTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYF--RDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGK  305 (539)
Q Consensus       228 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~--~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  305 (539)
                      ..+.+.|+++.|.+++.-+.+.........-+.|-..+.  .-.++..|...-+..+..+.- ++.....-.......|+
T Consensus       427 ~~~lk~~d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~dry-n~~a~~nkgn~~f~ngd  505 (840)
T KOG2003|consen  427 GELLKNGDIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNIDRY-NAAALTNKGNIAFANGD  505 (840)
T ss_pred             HHHHhccCHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccccc-CHHHhhcCCceeeecCc
Confidence            234455666666666555554432221112222211111  123344444444443332110 11111111122233566


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHH
Q 009255          306 TEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRS  385 (539)
Q Consensus       306 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  385 (539)
                      +++|.+.+++.+...-. -...+-.+...+...|+.++|++.|-++... +..+..++..+...|....+...|++++.+
T Consensus       506 ~dka~~~ykeal~ndas-c~ealfniglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~q  583 (840)
T KOG2003|consen  506 LDKAAEFYKEALNNDAS-CTEALFNIGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLMQ  583 (840)
T ss_pred             HHHHHHHHHHHHcCchH-HHHHHHHhcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHHH
Confidence            66666666665543211 1111222223344556666666666555432 223555555666666666666666666655


Q ss_pred             HHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcc
Q 009255          386 WILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQ  465 (539)
Q Consensus       386 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~  465 (539)
                      .... ++.|+.+...|...|-+.|+-..|.+.+-+--+. ++-+..+...|+.-|....-+++++.+|+++.-..     
T Consensus       584 ~~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyry-fp~nie~iewl~ayyidtqf~ekai~y~ekaaliq-----  656 (840)
T KOG2003|consen  584 ANSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRY-FPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQ-----  656 (840)
T ss_pred             hccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhcccc-cCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcC-----
Confidence            5544 3445556666666666666666666654443322 34455555555555555555666666666655442     


Q ss_pred             cccCCCCCCCCCCCCChhhHHHHHH-HHhhcCCHHHHHHHHHHHHH
Q 009255          466 VVQPNTSKTPEEIDPSSISYSEKIN-EHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       466 ~~~~~~~~~~~~~~~~~~~~~~l~~-~~~~~g~~~~A~~~~~~~~~  510 (539)
                                    |+..-|..++. ++.+.|++++|..+|+....
T Consensus       657 --------------p~~~kwqlmiasc~rrsgnyqka~d~yk~~hr  688 (840)
T KOG2003|consen  657 --------------PNQSKWQLMIASCFRRSGNYQKAFDLYKDIHR  688 (840)
T ss_pred             --------------ccHHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence                          66665554333 33445666666666666554

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

Probab=99.84  E-value=4.3e-17  Score=140.58  Aligned_cols=428  Identities=13%  Similarity=0.062  Sum_probs=289.8

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHH-HHHHHHhccCCHhHHHHHHHHHHhCCCCCCH----HHHHHHHHHH
Q 009255           86 LINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYN-TLINRFFESGRSMEAFKLIDELDEHGIKPNA----VTHNIMIKWY  160 (539)
Q Consensus        86 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~  160 (539)
                      |..-|.......+|+..++-+.+...-|+.-... .+...+.+..++.+|+++|+..+..-...+-    ...+.+...+
T Consensus       207 laqqy~~ndm~~ealntyeiivknkmf~nag~lkmnigni~~kkr~fskaikfyrmaldqvpsink~~rikil~nigvtf  286 (840)
T KOG2003|consen  207 LAQQYEANDMTAEALNTYEIIVKNKMFPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQVPSINKDMRIKILNNIGVTF  286 (840)
T ss_pred             HHHHhhhhHHHHHHhhhhhhhhcccccCCCceeeeeecceeeehhhHHHHHHHHHHHHhhccccchhhHHHHHhhcCeeE
Confidence            4444555667788888888888877777765432 3557788888899999998887765332232    3344455567


Q ss_pred             HhcCCHhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCC------------CCHHhHHHHH-
Q 009255          161 CKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLK------------MNTITLNTIL-  227 (539)
Q Consensus       161 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~------------~~~~~~~~l~-  227 (539)
                      .+.|+++.|+..|+...+.  .|+..+-..|+-++...|+-++..+.|.+|+.....            |+...++..+ 
T Consensus       287 iq~gqy~dainsfdh~m~~--~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~~ll~eai~  364 (840)
T KOG2003|consen  287 IQAGQYDDAINSFDHCMEE--APNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDDNLLNEAIK  364 (840)
T ss_pred             EecccchhhHhhHHHHHHh--CccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcchHHHHHHHh
Confidence            7889999999999988776  578776666777777888889999999888654322            2222222222 


Q ss_pred             ----HHHhccC--CHHHHHHHHHHHhhcCCccCHh-------------hHH--------HHHHHHHccCCHHHHHHHHHH
Q 009255          228 ----HTLCCEK--KLDEAYMLLNSASKRGYYLDEV-------------SYG--------TLITGYFRDEKANRALKLWDE  280 (539)
Q Consensus       228 ----~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~-------------~~~--------~l~~~~~~~~~~~~a~~~~~~  280 (539)
                          .-..+.+  +.+.++..-.+++..-+.|+-.             .+.        .-..-|.++|+++.|++++.-
T Consensus       365 nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~d~~~aieilkv  444 (840)
T KOG2003|consen  365 NDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDLEINKAGELLKNGDIEGAIEILKV  444 (840)
T ss_pred             hHHHHHHHHhhhhhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhccCHHHHHHHHHH
Confidence                1111111  1122222222222211111100             011        112346788999999999988


Q ss_pred             HHHcCCCCCHhhHHHHHHH-HHc-CCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCC
Q 009255          281 MKERQIMPSTFTYNAMIWG-LSQ-SGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKP  358 (539)
Q Consensus       281 ~~~~~~~~~~~~~~~l~~~-~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  358 (539)
                      +.+.+-..-...-+.|-.. |.+ -.++..|..+-+..+... .-+......-.......|++++|.+.|++.+..... 
T Consensus       445 ~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d-ryn~~a~~nkgn~~f~ngd~dka~~~ykeal~ndas-  522 (840)
T KOG2003|consen  445 FEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNID-RYNAAALTNKGNIAFANGDLDKAAEFYKEALNNDAS-  522 (840)
T ss_pred             HHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc-ccCHHHhhcCCceeeecCcHHHHHHHHHHHHcCchH-
Confidence            7766333222222222222 222 345667777666655432 223333333334445679999999999999876422 


Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHH
Q 009255          359 DIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHT  438 (539)
Q Consensus       359 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~  438 (539)
                      -...+..+.-.+...|++++|+..|-++... ...+..+...+...|....+...|++++.+.... ++.|+.++..|+.
T Consensus       523 c~ealfniglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~q~~sl-ip~dp~ilskl~d  600 (840)
T KOG2003|consen  523 CTEALFNIGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLMQANSL-IPNDPAILSKLAD  600 (840)
T ss_pred             HHHHHHHhcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhccc-CCCCHHHHHHHHH
Confidence            2233334455678899999999999877654 3347778888999999999999999999988754 5667888999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHH
Q 009255          439 ALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKS  518 (539)
Q Consensus       439 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~  518 (539)
                      .|-+.|+..+|.+++-..-+-.                  |.+..+...|+..|....-+++|+..|+++.=  +.|+..
T Consensus       601 lydqegdksqafq~~ydsyryf------------------p~nie~iewl~ayyidtqf~ekai~y~ekaal--iqp~~~  660 (840)
T KOG2003|consen  601 LYDQEGDKSQAFQCHYDSYRYF------------------PCNIETIEWLAAYYIDTQFSEKAINYFEKAAL--IQPNQS  660 (840)
T ss_pred             Hhhcccchhhhhhhhhhccccc------------------CcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh--cCccHH
Confidence            9999999999999876665554                  45666888888899999999999999999863  789999


Q ss_pred             HHHHHHHHHHhcCCchhhccC
Q 009255          519 TYMNLMNGLIKRRKSISKAVD  539 (539)
Q Consensus       519 ~~~~~l~~~~~~~~~~~~A~~  539 (539)
                      -|..++.+|+++.|++++|+|
T Consensus       661 kwqlmiasc~rrsgnyqka~d  681 (840)
T KOG2003|consen  661 KWQLMIASCFRRSGNYQKAFD  681 (840)
T ss_pred             HHHHHHHHHHHhcccHHHHHH
Confidence            999999999999999999975

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.84  E-value=1.7e-15  Score=129.82  Aligned_cols=409  Identities=18%  Similarity=0.154  Sum_probs=283.7

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcc--CCHhHH-HHHHHHHHhCC-----------
Q 009255           10 NVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKL--GWLKEA-MRVVDLMTQNK-----------   75 (539)
Q Consensus        10 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--g~~~~a-~~~~~~~~~~~-----------   75 (539)
                      +++=|.|++. ..+|.+.++.-+|+.|...|++.++..-..|++..+..  .++--| .+.|-.|...|           
T Consensus       116 V~~E~nL~km-IS~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S~~sWK~G~  194 (625)
T KOG4422|consen  116 VETENNLLKM-ISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDSTSSWKSGA  194 (625)
T ss_pred             hcchhHHHHH-HhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhcccccccccccccccc
Confidence            4455666654 57889999999999999999999888877776654422  221111 11121221111           


Q ss_pred             --------CCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCC
Q 009255           76 --------SLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIK  147 (539)
Q Consensus        76 --------~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  147 (539)
                              .+-+..++..+|.++++--..+.|..++++......+.+..+||.+|.+-.-.    ...+++.+|....+.
T Consensus       195 vAdL~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~----~~K~Lv~EMisqkm~  270 (625)
T KOG4422|consen  195 VADLLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYS----VGKKLVAEMISQKMT  270 (625)
T ss_pred             HHHHHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhh----ccHHHHHHHHHhhcC
Confidence                    12256789999999999999999999999998887788999999998765433    237899999999999


Q ss_pred             CCHHHHHHHHHHHHhcCCHhH----HHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCHHH-HHHHHHHHhh----CCC--
Q 009255          148 PNAVTHNIMIKWYCKEGKIDK----ACKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEE-AFRMMDVMGR----KGL--  216 (539)
Q Consensus       148 ~~~~~~~~l~~~~~~~g~~~~----a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~~----~~~--  216 (539)
                      ||..|||.++++..+.|+++.    |.+++.+|++.|+.|+..+|..+|..+.+.++..+ +..++.++..    ..+  
T Consensus       271 Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp  350 (625)
T KOG4422|consen  271 PNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKP  350 (625)
T ss_pred             CchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccC
Confidence            999999999999999998765    45788899999999999999999999998888754 4444444432    112  


Q ss_pred             --CCCHHhHHHHHHHHhccCCHHHHHHHHHHHhhcC----CccC---HhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCC
Q 009255          217 --KMNTITLNTILHTLCCEKKLDEAYMLLNSASKRG----YYLD---EVSYGTLITGYFRDEKANRALKLWDEMKERQIM  287 (539)
Q Consensus       217 --~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  287 (539)
                        +.+...+...+..|.+..+.+-|.++..-+....    +.++   ..-|..+....++....+.....|+.+...-..
T Consensus       351 ~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~  430 (625)
T KOG4422|consen  351 ITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYF  430 (625)
T ss_pred             CCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceec
Confidence              2244566777888888999999988876665432    1111   123556677778888899999999999988778


Q ss_pred             CCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCC-CH--------H-----HHHHHH-----
Q 009255          288 PSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEG-QV--------E-----KALQFH-----  348 (539)
Q Consensus       288 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~--------~-----~a~~~~-----  348 (539)
                      |+..+...++++..-.|.++-.-+++.+++..|..-+......++..+++.+ ..        .     -|..++     
T Consensus       431 p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k~hp~tp~r~Ql~~~~ak~aad~~e~~e~  510 (625)
T KOG4422|consen  431 PHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDKLHPLTPEREQLQVAFAKCAADIKEAYES  510 (625)
T ss_pred             CCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHHHHHHh
Confidence            8888999999998889999999899888887664433333333333333332 10        0     011111     


Q ss_pred             --HHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcC-CCCChhhHH---HHHHHHHccCChHHHHHHHHHHH
Q 009255          349 --NKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKG-KAVDSVTYN---TLISSLCKERRLEDAFGLLSEME  422 (539)
Q Consensus       349 --~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~---~l~~~~~~~~~~~~A~~~~~~~~  422 (539)
                        .++.+.  .......+.++-.+.+.|..++|.+++..+...+ ..|-....+   .++......++...|+..++-|.
T Consensus       511 ~~~R~r~~--~~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~~spsqA~~~lQ~a~  588 (625)
T KOG4422|consen  511 QPIRQRAQ--DWPATSLNCIAILLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSAKVSNSPSQAIEVLQLAS  588 (625)
T ss_pred             hHHHHHhc--cCChhHHHHHHHHHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence              112222  2344556666667778888888888887775543 233344444   44555566677777888777776


Q ss_pred             hCC
Q 009255          423 EKK  425 (539)
Q Consensus       423 ~~~  425 (539)
                      ..+
T Consensus       589 ~~n  591 (625)
T KOG4422|consen  589 AFN  591 (625)
T ss_pred             HcC
Confidence            554

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

Probab=99.82  E-value=1.9e-15  Score=134.16  Aligned_cols=487  Identities=12%  Similarity=0.032  Sum_probs=334.1

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHH
Q 009255            9 DNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLIN   88 (539)
Q Consensus         9 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (539)
                      +..-+..+.+-+..+.++..|.-+-+++...+  .++....-+++++.-.|++++|..++..-.-.  ..+..+......
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 SLEKYRRLVRDALMQHRYKTALFWADKVAGLT--NDPADIYWLAQVLYLGRQYERAAHLITTYKLE--KRDIACRYLAAK   90 (611)
T ss_pred             cHHHHHHHHHHHHHHHhhhHHHHHHHHHHhcc--CChHHHHHHHHHHHhhhHHHHHHHHHHHhhhh--hhhHHHHHHHHH
Confidence            45567777777888889999999999988765  56666777889999999999998887765332  347777777888


Q ss_pred             HHHhcCChHHHHHHHHHH----HhCC---------CCCChhh----HHHH-------HHHHhccCCHhHHHHHHHHHHhC
Q 009255           89 GWCNAGMLEEAFRLRKEM----ESLK---------LLPDVVT----YNTL-------INRFFESGRSMEAFKLIDELDEH  144 (539)
Q Consensus        89 ~~~~~g~~~~a~~~~~~~----~~~~---------~~~~~~~----~~~l-------~~~~~~~~~~~~a~~~~~~~~~~  144 (539)
                      ++.+..+++.|..++...    ....         +.+|..-    -+.-       ...|....+.++|...|.+....
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            888999999999888732    1100         0111110    0111       12333445566666666666544


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHhHHHHHHHHHHHcCCC----CChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCH
Q 009255          145 GIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFS----PDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNT  220 (539)
Q Consensus       145 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  220 (539)
                          |+..+..+...-. . ..-.+.+.++.+......    -+......+.........-+.....-.+..-.+..-+.
T Consensus       171 ----D~~c~Ea~~~lvs-~-~mlt~~Ee~~ll~~l~~a~~~~ed~e~l~~lyel~~~k~~n~~~~~r~~~~sl~~l~~~~  244 (611)
T KOG1173|consen  171 ----DAKCFEAFEKLVS-A-HMLTAQEEFELLESLDLAMLTKEDVERLEILYELKLCKNRNEESLTRNEDESLIGLAENL  244 (611)
T ss_pred             ----chhhHHHHHHHHH-H-HhcchhHHHHHHhcccHHhhhhhHHHHHHHHHHhhhhhhccccccccCchhhhhhhhhcH
Confidence                4443333222111 0 111122222222211000    01111111111110000000000001101111234466


Q ss_pred             HhHHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHH
Q 009255          221 ITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGL  300 (539)
Q Consensus       221 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  300 (539)
                      .....-..-+...+++.+..++.+.+.+.. ++....+-.-|.++...|+..+-..+=.++...-+. .+.+|-++.--|
T Consensus       245 dll~~~ad~~y~~c~f~~c~kit~~lle~d-pfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~yP~-~a~sW~aVg~YY  322 (611)
T KOG1173|consen  245 DLLAEKADRLYYGCRFKECLKITEELLEKD-PFHLPCLPLHIACLYELGKSNKLFLLSHKLVDLYPS-KALSWFAVGCYY  322 (611)
T ss_pred             HHHHHHHHHHHHcChHHHHHHHhHHHHhhC-CCCcchHHHHHHHHHHhcccchHHHHHHHHHHhCCC-CCcchhhHHHHH
Confidence            667777778888999999999999998874 335566666677888899988888888888887544 678999999999


Q ss_pred             HcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHH
Q 009255          301 SQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKAL  380 (539)
Q Consensus       301 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  380 (539)
                      ...|+.++|.++|.+...-... -...|......++..|.-++|+..|..+.+.- +....-+.-+..-|.+.++++-|.
T Consensus       323 l~i~k~seARry~SKat~lD~~-fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~-~G~hlP~LYlgmey~~t~n~kLAe  400 (611)
T KOG1173|consen  323 LMIGKYSEARRYFSKATTLDPT-FGPAWLAFGHSFAGEGEHDQAMAAYFTAARLM-PGCHLPSLYLGMEYMRTNNLKLAE  400 (611)
T ss_pred             HHhcCcHHHHHHHHHHhhcCcc-ccHHHHHHhHHhhhcchHHHHHHHHHHHHHhc-cCCcchHHHHHHHHHHhccHHHHH
Confidence            9999999999999987764322 34578888899999999999999999887752 212222333455588899999999


Q ss_pred             HHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhC--CCCC----CHhhHHHHHHHHHhcCCHHHHHHHHH
Q 009255          381 KFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEK--KLGP----DRYTYAAIHTALVESGRLEEAQKFTS  454 (539)
Q Consensus       381 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~  454 (539)
                      ++|.++... .+.|+...+.++......+.+.+|..+|+..+..  .+.+    -..++..|+.++.+.+.+++|+..++
T Consensus       401 ~Ff~~A~ai-~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q  479 (611)
T KOG1173|consen  401 KFFKQALAI-APSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQ  479 (611)
T ss_pred             HHHHHHHhc-CCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHH
Confidence            999999887 3458889999998888999999999999988732  1111    24568899999999999999999999


Q ss_pred             HHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Q 009255          455 IMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGLIKR  530 (539)
Q Consensus       455 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~  530 (539)
                      +++...                  +.+..++.+++-+|...|+++.|++.|.+.+.  ++||+.....+|+.++..
T Consensus       480 ~aL~l~------------------~k~~~~~asig~iy~llgnld~Aid~fhKaL~--l~p~n~~~~~lL~~aie~  535 (611)
T KOG1173|consen  480 KALLLS------------------PKDASTHASIGYIYHLLGNLDKAIDHFHKALA--LKPDNIFISELLKLAIED  535 (611)
T ss_pred             HHHHcC------------------CCchhHHHHHHHHHHHhcChHHHHHHHHHHHh--cCCccHHHHHHHHHHHHh
Confidence            999987                  55666999999999999999999999999995  899999999998877654

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

Probab=99.81  E-value=2e-14  Score=124.67  Aligned_cols=389  Identities=15%  Similarity=0.069  Sum_probs=278.1

Q ss_pred             CCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHHHHHcCCCCChhhH--H
Q 009255          112 LPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTY--N  189 (539)
Q Consensus       112 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~--~  189 (539)
                      ..|...+-...-.+.+.|....|++.|...... .+-.-..|.-|...   ..+.+.    ...+.. +.+.+...+  -
T Consensus       161 ~~D~fllYL~Gvv~k~~~~~s~A~~sfv~~v~~-~P~~W~AWleL~~l---it~~e~----~~~l~~-~l~~~~h~M~~~  231 (559)
T KOG1155|consen  161 EKDEFLLYLYGVVLKELGLLSLAIDSFVEVVNR-YPWFWSAWLELSEL---ITDIEI----LSILVV-GLPSDMHWMKKF  231 (559)
T ss_pred             cchhHHHHHHHHHHHhhchHHHHHHHHHHHHhc-CCcchHHHHHHHHh---hchHHH----HHHHHh-cCcccchHHHHH
Confidence            334444444445556677788888888777654 22233333333322   222222    222221 112222211  1


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHhhcCCc--cCHhhHHHHHHHHHc
Q 009255          190 TLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYY--LDEVSYGTLITGYFR  267 (539)
Q Consensus       190 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~  267 (539)
                      .+..++....+.+++.+-.+.+...|.+.+...-+....+.....++++|+.+|+.+.+..+.  -|..+|+.++-.  +
T Consensus       232 F~~~a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv--~  309 (559)
T KOG1155|consen  232 FLKKAYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYV--K  309 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHH--H
Confidence            234555566678888888888888888877777777777888889999999999999887421  134456555433  2


Q ss_pred             cCCHHHHHHHHHH-HHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHH
Q 009255          268 DEKANRALKLWDE-MKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQ  346 (539)
Q Consensus       268 ~~~~~~a~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  346 (539)
                      ..+..  +..+.+ ....+ +-.+.|...+.+-|.-.+++++|..+|++.++.++. ....|+.+.+-|...++...|.+
T Consensus       310 ~~~sk--Ls~LA~~v~~id-KyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp~-~~~aWTLmGHEyvEmKNt~AAi~  385 (559)
T KOG1155|consen  310 NDKSK--LSYLAQNVSNID-KYRPETCCIIANYYSLRSEHEKAVMYFKRALKLNPK-YLSAWTLMGHEYVEMKNTHAAIE  385 (559)
T ss_pred             hhhHH--HHHHHHHHHHhc-cCCccceeeehhHHHHHHhHHHHHHHHHHHHhcCcc-hhHHHHHhhHHHHHhcccHHHHH
Confidence            22111  112211 11111 124567777888899999999999999999987544 56688889999999999999999


Q ss_pred             HHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCC
Q 009255          347 FHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKL  426 (539)
Q Consensus       347 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~  426 (539)
                      .|+.+++.. +.|...|..+.++|.-.+.+.-|+-+|++.... .+.|+..|..|+.+|.+.++.++|++.|+++...| 
T Consensus       386 sYRrAvdi~-p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~-kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~-  462 (559)
T KOG1155|consen  386 SYRRAVDIN-PRDYRAWYGLGQAYEIMKMHFYALYYFQKALEL-KPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLG-  462 (559)
T ss_pred             HHHHHHhcC-chhHHHHhhhhHHHHHhcchHHHHHHHHHHHhc-CCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcc-
Confidence            999999986 458999999999999999999999999999987 34488999999999999999999999999999875 


Q ss_pred             CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChh-hHHHHHHHHhhcCCHHHHHHHH
Q 009255          427 GPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSI-SYSEKINEHCSQGRYKDALQIF  505 (539)
Q Consensus       427 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~  505 (539)
                      ..+...+..+++.+.+.++.++|.+.+++.++.....            -.+.|... +..-|+.-+.+.+++++|-...
T Consensus       463 dte~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~e------------g~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya  530 (559)
T KOG1155|consen  463 DTEGSALVRLAKLYEELKDLNEAAQYYEKYVEVSELE------------GEIDDETIKARLFLAEYFKKMKDFDEASYYA  530 (559)
T ss_pred             ccchHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhh------------cccchHHHHHHHHHHHHHHhhcchHHHHHHH
Confidence            4567889999999999999999999999988743100            00124333 5556888899999999999999


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHHhcCC
Q 009255          506 EETRQKGIAINKSTYMNLMNGLIKRRK  532 (539)
Q Consensus       506 ~~~~~~~~~p~~~~~~~~l~~~~~~~~  532 (539)
                      .++.. | .+.-....++++.+.+...
T Consensus       531 ~~~~~-~-~~e~eeak~LlReir~~~~  555 (559)
T KOG1155|consen  531 TLVLK-G-ETECEEAKALLREIRKIQA  555 (559)
T ss_pred             HHHhc-C-CchHHHHHHHHHHHHHhcC
Confidence            98886 3 7777888888888876544

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

Probab=99.81  E-value=4.1e-14  Score=132.85  Aligned_cols=341  Identities=13%  Similarity=0.109  Sum_probs=247.3

Q ss_pred             CcChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHH
Q 009255            7 LPDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNML   86 (539)
Q Consensus         7 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l   86 (539)
                      +.+...|..|...|-..|+.+++...+-..-..+ |.|...|..+.....++|.+++|.-+|.++++.++. +...+-.-
T Consensus       170 p~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~-p~d~e~W~~ladls~~~~~i~qA~~cy~rAI~~~p~-n~~~~~er  247 (895)
T KOG2076|consen  170 PRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLN-PKDYELWKRLADLSEQLGNINQARYCYSRAIQANPS-NWELIYER  247 (895)
T ss_pred             ccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCc-chHHHHHH
Confidence            4567789999999999999999988877766664 557789999999999999999999999999998654 55555566


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCCChhhH----HHHHHHHhccCCHhHHHHHHHHHHhCC-CCCCHHHHHHHHHHHH
Q 009255           87 INGWCNAGMLEEAFRLRKEMESLKLLPDVVTY----NTLINRFFESGRSMEAFKLIDELDEHG-IKPNAVTHNIMIKWYC  161 (539)
Q Consensus        87 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~----~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~  161 (539)
                      +..|-+.|+...|...|.++.....+.|..-+    ...++.+...++-+.|.+.++.....+ -.-+...++.++..+.
T Consensus       248 s~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s~~~~~~~~ed~ni~ael~l  327 (895)
T KOG2076|consen  248 SSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGALSKEKDEASLEDLNILAELFL  327 (895)
T ss_pred             HHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhccccccccHHHHHHHHHH
Confidence            78888999999999999999886422222222    234566667777799999988887632 2235567788899999


Q ss_pred             hcCCHhHHHHHHHHHHHcC---------------------------CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 009255          162 KEGKIDKACKIVRNMEENG---------------------------FSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRK  214 (539)
Q Consensus       162 ~~g~~~~a~~~~~~~~~~~---------------------------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (539)
                      +...++.+...........                           ..++..+. .++-++......+....+...+...
T Consensus       328 ~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~-rl~icL~~L~~~e~~e~ll~~l~~~  406 (895)
T KOG2076|consen  328 KNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVI-RLMICLVHLKERELLEALLHFLVED  406 (895)
T ss_pred             HhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhH-hHhhhhhcccccchHHHHHHHHHHh
Confidence            9999999988877766511                           11222221 1222223333333333334444444


Q ss_pred             C--CCCCHHhHHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhh
Q 009255          215 G--LKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFT  292 (539)
Q Consensus       215 ~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  292 (539)
                      .  +.-+...+..+..++...|++.+|..++..+......-+..+|..+..+|...|..+.|.+.|+.++...+. +...
T Consensus       407 n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~~p~-~~D~  485 (895)
T KOG2076|consen  407 NVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEEAIEFYEKVLILAPD-NLDA  485 (895)
T ss_pred             cCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-chhh
Confidence            4  444567788899999999999999999999998866667788999999999999999999999999887543 5666


Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHH--------CCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHH
Q 009255          293 YNAMIWGLSQSGKTEQAIDMLNELLQ--------SGMIPDETTFNTIIHGFCSEGQVEKALQFHNKM  351 (539)
Q Consensus       293 ~~~l~~~~~~~~~~~~a~~~~~~~~~--------~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  351 (539)
                      -..|...+.+.|++++|.+.++.+..        .+..|...........+...|+.++-..+...+
T Consensus       486 Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~~gk~E~fi~t~~~L  552 (895)
T KOG2076|consen  486 RITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQVGKREEFINTASTL  552 (895)
T ss_pred             hhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence            67788889999999999999988542        223344444444555666777766644444443

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.79  E-value=1.4e-14  Score=124.40  Aligned_cols=358  Identities=14%  Similarity=0.182  Sum_probs=170.4

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHH
Q 009255            9 DNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLIN   88 (539)
Q Consensus         9 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (539)
                      +..+|..+|.++++--..+.|.+++.+........+..+||.+|.+-....+    .++..+|.+....||..|+|+++.
T Consensus       206 T~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~----K~Lv~EMisqkm~Pnl~TfNalL~  281 (625)
T KOG4422|consen  206 TDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVG----KKLVAEMISQKMTPNLFTFNALLS  281 (625)
T ss_pred             CchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhcc----HHHHHHHHHhhcCCchHhHHHHHH
Confidence            4445555555555555555555555555554445555555555544332222    445555555555555555555555


Q ss_pred             HHHhcCChHH----HHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhH-HHHHHHHHHh----CCCC----CCHHHHHH
Q 009255           89 GWCNAGMLEE----AFRLRKEMESLKLLPDVVTYNTLINRFFESGRSME-AFKLIDELDE----HGIK----PNAVTHNI  155 (539)
Q Consensus        89 ~~~~~g~~~~----a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~~----~~~~----~~~~~~~~  155 (539)
                      +..+.|+++.    |.+++.+|++.|+.|...+|..+|..+.+.++..+ +..++.++..    ..++    .|...|..
T Consensus       282 c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF~~  361 (625)
T KOG4422|consen  282 CAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKFFQS  361 (625)
T ss_pred             HHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHHHHH
Confidence            5555554432    23444555555555555555555555555444422 2222222221    1111    12333444


Q ss_pred             HHHHHHhcCCHhHHHHHHHHHHHcC----CCCCh---hhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHH
Q 009255          156 MIKWYCKEGKIDKACKIVRNMEENG----FSPDC---VTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILH  228 (539)
Q Consensus       156 l~~~~~~~g~~~~a~~~~~~~~~~~----~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  228 (539)
                      .+..|.+..+.+-|.++..-+....    +.|+.   .-|..+....+.....+.....|+.|.-.-+-|+..+...+++
T Consensus       362 AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~~lr  441 (625)
T KOG4422|consen  362 AMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIHLLR  441 (625)
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhHHHHHH
Confidence            4444555555555544443332110    11221   1223333444444445555555555554444455555555555


Q ss_pred             HHhccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHh---hHHHHHHHHHcCCC
Q 009255          229 TLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTF---TYNAMIWGLSQSGK  305 (539)
Q Consensus       229 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~l~~~~~~~~~  305 (539)
                      +....+.++-..+++..+...|......                --++++..+....+.|+..   -+.....-++.  +
T Consensus       442 A~~v~~~~e~ipRiw~D~~~~ght~r~~----------------l~eeil~~L~~~k~hp~tp~r~Ql~~~~ak~aa--d  503 (625)
T KOG4422|consen  442 ALDVANRLEVIPRIWKDSKEYGHTFRSD----------------LREEILMLLARDKLHPLTPEREQLQVAFAKCAA--D  503 (625)
T ss_pred             HHhhcCcchhHHHHHHHHHHhhhhhhHH----------------HHHHHHHHHhcCCCCCCChHHHHHHHHHHHHHH--H
Confidence            5555555555555544444433211111                1112222222222222211   11111111100  1


Q ss_pred             HHH-HHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCC----CCCCHHhHHHHHHHHHhcCCHHHHH
Q 009255          306 TEQ-AIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKS----FKPDIVTCNILLSGLCREGILEKAL  380 (539)
Q Consensus       306 ~~~-a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~~~~~l~~~~~~~g~~~~A~  380 (539)
                      +.+ ....-.++.+.  .......+.++-.+.+.|..++|.+++..+.+.+    ..|.......++..-...++...|.
T Consensus       504 ~~e~~e~~~~R~r~~--~~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~~spsqA~  581 (625)
T KOG4422|consen  504 IKEAYESQPIRQRAQ--DWPATSLNCIAILLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSAKVSNSPSQAI  581 (625)
T ss_pred             HHHHHHhhHHHHHhc--cCChhHHHHHHHHHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHHHhcCCHHHHH
Confidence            111 11111223333  3345567777778889999999999999986553    2344445556777777788899999


Q ss_pred             HHHHHHHHcC
Q 009255          381 KFFRSWILKG  390 (539)
Q Consensus       381 ~~~~~~~~~~  390 (539)
                      .+++-+...+
T Consensus       582 ~~lQ~a~~~n  591 (625)
T KOG4422|consen  582 EVLQLASAFN  591 (625)
T ss_pred             HHHHHHHHcC
Confidence            9998887653

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

Probab=99.78  E-value=4.3e-14  Score=122.61  Aligned_cols=359  Identities=13%  Similarity=0.084  Sum_probs=263.7

Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHhHH
Q 009255          145 GIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLN  224 (539)
Q Consensus       145 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  224 (539)
                      +...|...+-.....+.+.|....|++.|...... .|..-..|..|....   .+.+.    ...+.. +.+.+...+.
T Consensus       159 ~~~~D~fllYL~Gvv~k~~~~~s~A~~sfv~~v~~-~P~~W~AWleL~~li---t~~e~----~~~l~~-~l~~~~h~M~  229 (559)
T KOG1155|consen  159 GGEKDEFLLYLYGVVLKELGLLSLAIDSFVEVVNR-YPWFWSAWLELSELI---TDIEI----LSILVV-GLPSDMHWMK  229 (559)
T ss_pred             cccchhHHHHHHHHHHHhhchHHHHHHHHHHHHhc-CCcchHHHHHHHHhh---chHHH----HHHHHh-cCcccchHHH
Confidence            34446655556666777888999999999887754 133333444443332   22222    222222 2222222222


Q ss_pred             --HHHHHHhccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCC--CCHhhHHHHHHHH
Q 009255          225 --TILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIM--PSTFTYNAMIWGL  300 (539)
Q Consensus       225 --~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~  300 (539)
                        .+..++......+++..-.+.....|++.+...-+....+.....+++.|+.+|+++.+.++-  .|..+|+.++-.-
T Consensus       230 ~~F~~~a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~  309 (559)
T KOG1155|consen  230 KFFLKKAYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVK  309 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHH
Confidence              334555566688888888888888888877777777777788899999999999999987442  2566777665443


Q ss_pred             HcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHH
Q 009255          301 SQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKAL  380 (539)
Q Consensus       301 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  380 (539)
                      ..  +  ..+.++-+-.-.--+-.+.|...+.+.|.-.++.++|..+|++.++.+. .....|+.+.+-|....+...|+
T Consensus       310 ~~--~--skLs~LA~~v~~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp-~~~~aWTLmGHEyvEmKNt~AAi  384 (559)
T KOG1155|consen  310 ND--K--SKLSYLAQNVSNIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLNP-KYLSAWTLMGHEYVEMKNTHAAI  384 (559)
T ss_pred             hh--h--HHHHHHHHHHHHhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcCc-chhHHHHHhhHHHHHhcccHHHH
Confidence            22  1  1222222222111123456788888999999999999999999999863 36778888999999999999999


Q ss_pred             HHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          381 KFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       381 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      .-++++++..+. |...|-.|+++|.-.+.+.=|+-.|+++.... +.|...|..++.+|.+.++.++|+++|..++..+
T Consensus       385 ~sYRrAvdi~p~-DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~k-PnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~  462 (559)
T KOG1155|consen  385 ESYRRAVDINPR-DYRAWYGLGQAYEIMKMHFYALYYFQKALELK-PNDSRLWVALGECYEKLNRLEEAIKCYKRAILLG  462 (559)
T ss_pred             HHHHHHHhcCch-hHHHHhhhhHHHHHhcchHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcc
Confidence            999999998544 88899999999999999999999999999753 5567889999999999999999999999999987


Q ss_pred             CCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHc----C-CCCCHHHHHHHHHHHHhcCCchh
Q 009255          461 KINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQK----G-IAINKSTYMNLMNGLIKRRKSIS  535 (539)
Q Consensus       461 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~-~~p~~~~~~~~l~~~~~~~~~~~  535 (539)
                                        +.+..++..|++.|-+.++.++|.+.|++.++.    | ..|...-....|..++..-++++
T Consensus       463 ------------------dte~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~  524 (559)
T KOG1155|consen  463 ------------------DTEGSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFD  524 (559)
T ss_pred             ------------------ccchHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchH
Confidence                              456679999999999999999999999998762    3 33434455667888888888888


Q ss_pred             hc
Q 009255          536 KA  537 (539)
Q Consensus       536 ~A  537 (539)
                      +|
T Consensus       525 ~A  526 (559)
T KOG1155|consen  525 EA  526 (559)
T ss_pred             HH
Confidence            87

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

Probab=99.77  E-value=2e-14  Score=125.52  Aligned_cols=221  Identities=14%  Similarity=0.116  Sum_probs=180.8

Q ss_pred             HHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHH
Q 009255          264 GYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEK  343 (539)
Q Consensus       264 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  343 (539)
                      .+.-.|+...+..-|+..+...+.++ ..|-.+..+|...++.++.+..|.+..+.++. ++.+|..-.+...-.++++.
T Consensus       335 F~fL~g~~~~a~~d~~~~I~l~~~~~-~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~-n~dvYyHRgQm~flL~q~e~  412 (606)
T KOG0547|consen  335 FHFLKGDSLGAQEDFDAAIKLDPAFN-SLYIKRAAAYADENQSEKMWKDFNKAEDLDPE-NPDVYYHRGQMRFLLQQYEE  412 (606)
T ss_pred             hhhhcCCchhhhhhHHHHHhcCcccc-hHHHHHHHHHhhhhccHHHHHHHHHHHhcCCC-CCchhHhHHHHHHHHHHHHH
Confidence            34557888999999999988765533 33777788899999999999999999887654 67788888888888999999


Q ss_pred             HHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHh
Q 009255          344 ALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEE  423 (539)
Q Consensus       344 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  423 (539)
                      |..-|++.+... +.+...|-.+..+..+.+.++++...|++...+ ++..+..|+....++..++++++|.+.|+.+++
T Consensus       413 A~aDF~Kai~L~-pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~  490 (606)
T KOG0547|consen  413 AIADFQKAISLD-PENAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIE  490 (606)
T ss_pred             HHHHHHHHhhcC-hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHh
Confidence            999999999875 336667777777777889999999999999887 566888999999999999999999999999986


Q ss_pred             CCCCCC-------HhhH--HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChh-hHHHHHHHHh
Q 009255          424 KKLGPD-------RYTY--AAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSI-SYSEKINEHC  493 (539)
Q Consensus       424 ~~~~~~-------~~~~--~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~  493 (539)
                      .  .|+       ...+  ..++-.-. .+++..|.++++++++.+                   |... ++..++....
T Consensus       491 L--E~~~~~~~v~~~plV~Ka~l~~qw-k~d~~~a~~Ll~KA~e~D-------------------pkce~A~~tlaq~~l  548 (606)
T KOG0547|consen  491 L--EPREHLIIVNAAPLVHKALLVLQW-KEDINQAENLLRKAIELD-------------------PKCEQAYETLAQFEL  548 (606)
T ss_pred             h--ccccccccccchhhhhhhHhhhch-hhhHHHHHHHHHHHHccC-------------------chHHHHHHHHHHHHH
Confidence            4  343       2111  12222222 389999999999999998                   5554 9999999999


Q ss_pred             hcCCHHHHHHHHHHHHH
Q 009255          494 SQGRYKDALQIFEETRQ  510 (539)
Q Consensus       494 ~~g~~~~A~~~~~~~~~  510 (539)
                      ++|+.++|+++|++...
T Consensus       549 Q~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  549 QRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             HHhhHHHHHHHHHHHHH
Confidence            99999999999999875

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.76  E-value=1e-14  Score=134.92  Aligned_cols=283  Identities=11%  Similarity=0.064  Sum_probs=177.8

Q ss_pred             cCCHHHHHHHHHHHhhCCCCCCHHh-HHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHhhHH--HHHHHHHccCCHHHH
Q 009255          198 AGNMEEAFRMMDVMGRKGLKMNTIT-LNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYG--TLITGYFRDEKANRA  274 (539)
Q Consensus       198 ~~~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~a  274 (539)
                      .|++++|.+.+....+...  ++.. +........+.|+.+.+...+.++.+..  |+.....  .....+...|+++.|
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 EGDYQQVEKLMTRNADHAE--QPVVNYLLAAEAAQQRGDEARANQHLERAAELA--DNDQLPVEITRVRIQLARNENHAA  172 (398)
T ss_pred             CCCHHHHHHHHHHHHhccc--chHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CcchHHHHHHHHHHHHHCCCHHHH
Confidence            4555555555554333211  1122 2222333345566666666666555432  2221111  224455666666666


Q ss_pred             HHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHH-------hHHHHHHHHhcCCCHHHHHHH
Q 009255          275 LKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDET-------TFNTIIHGFCSEGQVEKALQF  347 (539)
Q Consensus       275 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-------~~~~l~~~~~~~~~~~~a~~~  347 (539)
                      ...++++.+..+. ++.....+...|.+.|++++|..++..+.+.+..++..       .|..++.......+.+....+
T Consensus       173 l~~l~~~~~~~P~-~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~  251 (398)
T PRK10747        173 RHGVDKLLEVAPR-HPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRW  251 (398)
T ss_pred             HHHHHHHHhcCCC-CHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHH
Confidence            6666666665443 55666666667777777777777777766654432211       222223333334455556666


Q ss_pred             HHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCC
Q 009255          348 HNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLG  427 (539)
Q Consensus       348 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~  427 (539)
                      ++.+.+. .+.++.....+...+...|+.++|.+++++..+.  +|++...  ++.+....++.+++++..++..+.. +
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--QYDERLV--LLIPRLKTNNPEQLEKVLRQQIKQH-G  325 (398)
T ss_pred             HHhCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHH--HHHhhccCCChHHHHHHHHHHHhhC-C
Confidence            6665443 2457778888888888889999999888888774  4444322  2334445688888888888888652 4


Q ss_pred             CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHH
Q 009255          428 PDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEE  507 (539)
Q Consensus       428 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  507 (539)
                      -|......+++.|.+.|++++|.+.|+++++..                   |+...+..++.++.+.|+.++|.++|++
T Consensus       326 ~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~-------------------P~~~~~~~La~~~~~~g~~~~A~~~~~~  386 (398)
T PRK10747        326 DTPLLWSTLGQLLMKHGEWQEASLAFRAALKQR-------------------PDAYDYAWLADALDRLHKPEEAAAMRRD  386 (398)
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-------------------CCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            445667788888888999999999999988876                   8888888888889999999999988888


Q ss_pred             HHH
Q 009255          508 TRQ  510 (539)
Q Consensus       508 ~~~  510 (539)
                      .+.
T Consensus       387 ~l~  389 (398)
T PRK10747        387 GLM  389 (398)
T ss_pred             HHh
Confidence            765

>TIGR00540 hemY_coli hemY protein

Probab=99.75  E-value=1.4e-14  Score=134.95  Aligned_cols=290  Identities=11%  Similarity=0.020  Sum_probs=187.3

Q ss_pred             hcCCHHHHHHHHHHHhhCCCCCC-HHhHHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHH
Q 009255          197 KAGNMEEAFRMMDVMGRKGLKMN-TITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRAL  275 (539)
Q Consensus       197 ~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  275 (539)
                      ..|+++.|.+.+.+..+..  |+ ...+.....+....|+.+.+...+..+.+....+...........+...|+++.|.
T Consensus        96 ~~g~~~~A~~~l~~~~~~~--~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al  173 (409)
T TIGR00540        96 AEGDYAKAEKLIAKNADHA--AEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAAR  173 (409)
T ss_pred             hCCCHHHHHHHHHHHhhcC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHH
Confidence            4667777777766655542  22 22333445556666777777777766655432211123333466667777788888


Q ss_pred             HHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHH-HHHHHH---hcCCCHHHHHHHHHHH
Q 009255          276 KLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFN-TIIHGF---CSEGQVEKALQFHNKM  351 (539)
Q Consensus       276 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~---~~~~~~~~a~~~~~~~  351 (539)
                      ..++.+.+..+. ++..+..+...+.+.|+++.|.+.+..+.+.+.. +...+. .-..++   ...+..+.+.+.+..+
T Consensus       174 ~~l~~l~~~~P~-~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~-~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~  251 (409)
T TIGR00540       174 HGVDKLLEMAPR-HKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLF-DDEEFADLEQKAEIGLLDEAMADEGIDGLLNW  251 (409)
T ss_pred             HHHHHHHHhCCC-CHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHH
Confidence            777777776544 5667777777888888888888888887776543 222221 111111   2222223333344444


Q ss_pred             HhCCC---CCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhh-HHHHHHHHHccCChHHHHHHHHHHHhCCCC
Q 009255          352 VEKSF---KPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVT-YNTLISSLCKERRLEDAFGLLSEMEEKKLG  427 (539)
Q Consensus       352 ~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~  427 (539)
                      .+...   +.+...+..++..+...|+.++|.+++++..+..+.+.... ...........++.+.+.+.+++..+.. +
T Consensus       252 ~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~-p  330 (409)
T TIGR00540       252 WKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKLGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKNV-D  330 (409)
T ss_pred             HHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhCCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHhC-C
Confidence            44321   23778888888899999999999999999888633221111 1222222344578888899888888652 3


Q ss_pred             CCH--hhHHHHHHHHHhcCCHHHHHHHHHH--HHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHH
Q 009255          428 PDR--YTYAAIHTALVESGRLEEAQKFTSI--MVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQ  503 (539)
Q Consensus       428 ~~~--~~~~~l~~~~~~~g~~~~A~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  503 (539)
                      -|.  .....+++.+.+.|++++|.+.|++  +.+..                   |+...+..++..+.+.|+.++|.+
T Consensus       331 ~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~-------------------p~~~~~~~La~ll~~~g~~~~A~~  391 (409)
T TIGR00540       331 DKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQ-------------------LDANDLAMAADAFDQAGDKAEAAA  391 (409)
T ss_pred             CChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcC-------------------CCHHHHHHHHHHHHHcCCHHHHHH
Confidence            334  5667899999999999999999994  55554                   888878899999999999999999


Q ss_pred             HHHHHHH
Q 009255          504 IFEETRQ  510 (539)
Q Consensus       504 ~~~~~~~  510 (539)
                      +|++.+.
T Consensus       392 ~~~~~l~  398 (409)
T TIGR00540       392 MRQDSLG  398 (409)
T ss_pred             HHHHHHH
Confidence            9998764

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

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

Probab=99.75  E-value=1.3e-17  Score=147.49  Aligned_cols=262  Identities=16%  Similarity=0.153  Sum_probs=105.1

Q ss_pred             HHHHHHhccCCHHHHHHHHHHHhhcC-CccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcC
Q 009255          225 TILHTLCCEKKLDEAYMLLNSASKRG-YYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQS  303 (539)
Q Consensus       225 ~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  303 (539)
                      .+...+...|++++|.+++....... .+.++..+..+.......++.+.|+..++++...+.. ++..+..++.. ...
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            33555556666666666664433332 2234444555555566667777777777777665433 45556666666 677


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCC-CCCCHHhHHHHHHHHHhcCCHHHHHHH
Q 009255          304 GKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKS-FKPDIVTCNILLSGLCREGILEKALKF  382 (539)
Q Consensus       304 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~  382 (539)
                      +++++|.+++....+..  +++..+...+..+...++++++..+++.+.... .+.+...|..+...+.+.|+.++|++.
T Consensus        91 ~~~~~A~~~~~~~~~~~--~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~  168 (280)
T PF13429_consen   91 GDPEEALKLAEKAYERD--GDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRD  168 (280)
T ss_dssp             -----------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHH
T ss_pred             ccccccccccccccccc--cccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            88888888887765542  455666777778888888888888888876532 345677788888888889999999999


Q ss_pred             HHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC
Q 009255          383 FRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKI  462 (539)
Q Consensus       383 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  462 (539)
                      +++.++..+. |+.....++..+...|+.+++..+++...+.. +.|...+..++.++...|+.++|..+++++.+..  
T Consensus       169 ~~~al~~~P~-~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~--  244 (280)
T PF13429_consen  169 YRKALELDPD-DPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN--  244 (280)
T ss_dssp             HHHHHHH-TT--HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS--
T ss_pred             HHHHHHcCCC-CHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhcccccccccccccccccccc--
Confidence            9988887332 57778888888888888888888888877653 4455666788888888899999999999988876  


Q ss_pred             CcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHH
Q 009255          463 NHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       463 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  510 (539)
                                      +.|+.....+++++...|+.++|.++++++.+
T Consensus       245 ----------------p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  245 ----------------PDDPLWLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             ----------------TT-HHHHHHHHHHHT-----------------
T ss_pred             ----------------cccccccccccccccccccccccccccccccc
Confidence                            34555778889999999999999988888764

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

Probab=99.74  E-value=1.9e-17  Score=146.54  Aligned_cols=254  Identities=15%  Similarity=0.159  Sum_probs=115.4

Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHcC-CCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcC
Q 009255          260 TLITGYFRDEKANRALKLWDEMKERQ-IMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSE  338 (539)
Q Consensus       260 ~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  338 (539)
                      .+...+.+.|++++|++++.+..... .+.+...|..+.......++.+.|...++++...+.. ++..+..++.. ...
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            55778889999999999997655443 3346667777777888899999999999999887544 56677777776 789


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcC-CCCChhhHHHHHHHHHccCChHHHHHH
Q 009255          339 GQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKG-KAVDSVTYNTLISSLCKERRLEDAFGL  417 (539)
Q Consensus       339 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~  417 (539)
                      +++++|..++....+..  ++...+...+..+...++++++..+++.+.... .++++..|..++..+.+.|++++|+..
T Consensus        91 ~~~~~A~~~~~~~~~~~--~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~  168 (280)
T PF13429_consen   91 GDPEEALKLAEKAYERD--GDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRD  168 (280)
T ss_dssp             -----------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHH
T ss_pred             ccccccccccccccccc--cccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            99999999998877653  566777888889999999999999999987542 245777889999999999999999999


Q ss_pred             HHHHHhCCCCC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcC
Q 009255          418 LSEMEEKKLGP-DRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQG  496 (539)
Q Consensus       418 ~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  496 (539)
                      ++++++.  .| |......++..+...|+.+++.++++...+..                  +.++..|..++.+|...|
T Consensus       169 ~~~al~~--~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~------------------~~~~~~~~~la~~~~~lg  228 (280)
T PF13429_consen  169 YRKALEL--DPDDPDARNALAWLLIDMGDYDEAREALKRLLKAA------------------PDDPDLWDALAAAYLQLG  228 (280)
T ss_dssp             HHHHHHH---TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-------------------HTSCCHCHHHHHHHHHHT
T ss_pred             HHHHHHc--CCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC------------------cCHHHHHHHHHHHhcccc
Confidence            9999975  45 46778889999999999999999999998876                  355568889999999999


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCchhhccC
Q 009255          497 RYKDALQIFEETRQKGIAINKSTYMNLMNGLIKRRKSISKAVD  539 (539)
Q Consensus       497 ~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~A~~  539 (539)
                      ++++|+..|++..+  ..|+++.+...++..+...|+.++|++
T Consensus       229 ~~~~Al~~~~~~~~--~~p~d~~~~~~~a~~l~~~g~~~~A~~  269 (280)
T PF13429_consen  229 RYEEALEYLEKALK--LNPDDPLWLLAYADALEQAGRKDEALR  269 (280)
T ss_dssp             -HHHHHHHHHHHHH--HSTT-HHHHHHHHHHHT----------
T ss_pred             cccccccccccccc--ccccccccccccccccccccccccccc
Confidence            99999999999997  579999888888888888888998863

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

Probab=99.73  E-value=8.3e-14  Score=121.71  Aligned_cols=414  Identities=12%  Similarity=0.073  Sum_probs=257.9

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHH
Q 009255           12 TYNTILDALFKKGKLNEVRDLLSDMKKQGLVPN-RTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGW   90 (539)
Q Consensus        12 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   90 (539)
                      .+-...+-|.++|++++|++.|.+.++.  .|+ +.-|.....+|...|+++.+.+--...++.++. -+..+..-..++
T Consensus       117 ~lK~~GN~~f~~kkY~eAIkyY~~AI~l--~p~epiFYsNraAcY~~lgd~~~Vied~TkALEl~P~-Y~KAl~RRA~A~  193 (606)
T KOG0547|consen  117 ALKTKGNKFFRNKKYDEAIKYYTQAIEL--CPDEPIFYSNRAACYESLGDWEKVIEDCTKALELNPD-YVKALLRRASAH  193 (606)
T ss_pred             HHHhhhhhhhhcccHHHHHHHHHHHHhc--CCCCchhhhhHHHHHHHHhhHHHHHHHHHHHhhcCcH-HHHHHHHHHHHH
Confidence            3555677888999999999999999986  456 777888888999999999998888888876433 344555556667


Q ss_pred             HhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHH--------HHHHHh-CC--CCCCHHHHHHHHHH
Q 009255           91 CNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKL--------IDELDE-HG--IKPNAVTHNIMIKW  159 (539)
Q Consensus        91 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~--------~~~~~~-~~--~~~~~~~~~~l~~~  159 (539)
                      -..|++++|+.=..-             .++...+....-..-+.++        ..+-.+ .+  +-|++....+....
T Consensus       194 E~lg~~~eal~D~tv-------------~ci~~~F~n~s~~~~~eR~Lkk~a~~ka~e~~k~nr~p~lPS~~fi~syf~s  260 (606)
T KOG0547|consen  194 EQLGKFDEALFDVTV-------------LCILEGFQNASIEPMAERVLKKQAMKKAKEKLKENRPPVLPSATFIASYFGS  260 (606)
T ss_pred             HhhccHHHHHHhhhH-------------HHHhhhcccchhHHHHHHHHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHhh
Confidence            777777777532221             1122222111111112222        222222 11  22444333333332


Q ss_pred             HHhcCCHhHHHHHHHHHHHcCCCCChhhHHHHHHH----HHh-cCCHHHHHHHHHHHhhC---CCC---CC------HHh
Q 009255          160 YCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDA----NCK-AGNMEEAFRMMDVMGRK---GLK---MN------TIT  222 (539)
Q Consensus       160 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~----~~~-~~~~~~a~~~~~~~~~~---~~~---~~------~~~  222 (539)
                      +...  +.      ..+.    .+.......+..+    +.. ...+.+|.+.+.+-...   ...   .|      ..+
T Consensus       261 F~~~--~~------~~~~----~~~~ksDa~l~~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~a  328 (606)
T KOG0547|consen  261 FHAD--PK------PLFD----NKSDKSDAALAEALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAELEYMAEA  328 (606)
T ss_pred             cccc--cc------cccc----CCCccchhhHHHHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhHHHHHHH
Confidence            2110  00      0000    0000011111111    100 01233333333322110   000   11      122


Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHc
Q 009255          223 LNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQ  302 (539)
Q Consensus       223 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  302 (539)
                      +......+.-.|+.-.+..-|+.+++.... +...|-.+...|...++.++....|......++. ++.+|.-=.+.+.-
T Consensus       329 l~~~gtF~fL~g~~~~a~~d~~~~I~l~~~-~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~-n~dvYyHRgQm~fl  406 (606)
T KOG0547|consen  329 LLLRGTFHFLKGDSLGAQEDFDAAIKLDPA-FNSLYIKRAAAYADENQSEKMWKDFNKAEDLDPE-NPDVYYHRGQMRFL  406 (606)
T ss_pred             HHHhhhhhhhcCCchhhhhhHHHHHhcCcc-cchHHHHHHHHHhhhhccHHHHHHHHHHHhcCCC-CCchhHhHHHHHHH
Confidence            222233344568888888888888887544 3334777778888999999999999998887765 67777777777777


Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHH
Q 009255          303 SGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKF  382 (539)
Q Consensus       303 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  382 (539)
                      .+++++|..=|++.+...+. +...|..+.-+..+.+.++.++..|++.++. ++.-++.|+.....+..+++++.|.+.
T Consensus       407 L~q~e~A~aDF~Kai~L~pe-~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~  484 (606)
T KOG0547|consen  407 LQQYEEAIADFQKAISLDPE-NAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQ  484 (606)
T ss_pred             HHHHHHHHHHHHHHhhcChh-hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHH
Confidence            88899999999988875432 4445555555666888999999999999886 566788999999999999999999999


Q ss_pred             HHHHHHcCCC-------CChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCC-HhhHHHHHHHHHhcCCHHHHHHHHH
Q 009255          383 FRSWILKGKA-------VDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPD-RYTYAAIHTALVESGRLEEAQKFTS  454 (539)
Q Consensus       383 ~~~~~~~~~~-------~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~  454 (539)
                      |+..++....       +.+.+...++..- -.+++..|..++.++.+.  .|. ...+..++..-.+.|+.++|+++|+
T Consensus       485 YD~ai~LE~~~~~~~v~~~plV~Ka~l~~q-wk~d~~~a~~Ll~KA~e~--Dpkce~A~~tlaq~~lQ~~~i~eAielFE  561 (606)
T KOG0547|consen  485 YDKAIELEPREHLIIVNAAPLVHKALLVLQ-WKEDINQAENLLRKAIEL--DPKCEQAYETLAQFELQRGKIDEAIELFE  561 (606)
T ss_pred             HHHHHhhccccccccccchhhhhhhHhhhc-hhhhHHHHHHHHHHHHcc--CchHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            9988875222       1111222222222 348899999999999865  444 4678889999999999999999999


Q ss_pred             HHHHcC
Q 009255          455 IMVETG  460 (539)
Q Consensus       455 ~~~~~~  460 (539)
                      +....-
T Consensus       562 ksa~lA  567 (606)
T KOG0547|consen  562 KSAQLA  567 (606)
T ss_pred             HHHHHH
Confidence            987654

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.72  E-value=5.5e-14  Score=130.13  Aligned_cols=222  Identities=13%  Similarity=0.030  Sum_probs=135.4

Q ss_pred             HHhccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCH-------hhHHHHHHHHH
Q 009255          229 TLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPST-------FTYNAMIWGLS  301 (539)
Q Consensus       229 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~  301 (539)
                      .+...|+++.|...++.+.+... -++.....+...|.+.|++++|.+++..+.+....++.       .+|..++....
T Consensus       162 l~l~~g~~~~Al~~l~~~~~~~P-~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~  240 (398)
T PRK10747        162 IQLARNENHAARHGVDKLLEVAP-RHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAM  240 (398)
T ss_pred             HHHHCCCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444444331 13344444444444445555555555444443332111       11222222222


Q ss_pred             cCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHH
Q 009255          302 QSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALK  381 (539)
Q Consensus       302 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  381 (539)
                      ...+.+...++++.+.+. .+.++.....+...+...|+.++|...+++..+.  +++.....  +.+....++.+++.+
T Consensus       241 ~~~~~~~l~~~w~~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l~~--l~~~l~~~~~~~al~  315 (398)
T PRK10747        241 ADQGSEGLKRWWKNQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERLVL--LIPRLKTNNPEQLEK  315 (398)
T ss_pred             HhcCHHHHHHHHHhCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHHH--HHhhccCCChHHHHH
Confidence            333445555555554332 2346667777788888888888888888888774  34443222  222334588888888


Q ss_pred             HHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 009255          382 FFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVET  459 (539)
Q Consensus       382 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  459 (539)
                      ..+...+..+ -|+..+..++..+...+++++|.+.|+.+.+.  .|+...+..+..++.+.|+.++|.+++++.+..
T Consensus       316 ~~e~~lk~~P-~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~--~P~~~~~~~La~~~~~~g~~~~A~~~~~~~l~~  390 (398)
T PRK10747        316 VLRQQIKQHG-DTPLLWSTLGQLLMKHGEWQEASLAFRAALKQ--RPDAYDYAWLADALDRLHKPEEAAAMRRDGLML  390 (398)
T ss_pred             HHHHHHhhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            8888887633 36667788888888888888888888888854  688888888888888888888888888887664

>TIGR00540 hemY_coli hemY protein

Probab=99.72  E-value=6.4e-14  Score=130.52  Aligned_cols=134  Identities=13%  Similarity=-0.013  Sum_probs=93.5

Q ss_pred             CHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHH--HHhcCCHHHHHHHHHHHHHcCCCCCh--hhHH
Q 009255          324 DETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSG--LCREGILEKALKFFRSWILKGKAVDS--VTYN  399 (539)
Q Consensus       324 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~g~~~~A~~~~~~~~~~~~~~~~--~~~~  399 (539)
                      +...+..+...+...|+.++|...+++..+.........+. ++..  ....++.+.+.+.+++..+.. +-|+  ....
T Consensus       262 ~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~~~~~~~-~l~~~~~l~~~~~~~~~~~~e~~lk~~-p~~~~~~ll~  339 (409)
T TIGR00540       262 NIALKIALAEHLIDCDDHDSAQEIIFDGLKKLGDDRAISLP-LCLPIPRLKPEDNEKLEKLIEKQAKNV-DDKPKCCINR  339 (409)
T ss_pred             CHHHHHHHHHHHHHCCChHHHHHHHHHHHhhCCCcccchhH-HHHHhhhcCCCChHHHHHHHHHHHHhC-CCChhHHHHH
Confidence            56666777777778888888888888777753221111111 1221  233467788888888877763 2245  5667


Q ss_pred             HHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 009255          400 TLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVET  459 (539)
Q Consensus       400 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  459 (539)
                      .+++.+.+.|++++|.+.|+........|+...+..++..+.+.|+.++|.+++++.+..
T Consensus       340 sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~l~~  399 (409)
T TIGR00540       340 ALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQDSLGL  399 (409)
T ss_pred             HHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            888888999999999999985443345788888888888999999999999999887654

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

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

Probab=99.71  E-value=3.4e-15  Score=135.51  Aligned_cols=273  Identities=17%  Similarity=0.201  Sum_probs=155.9

Q ss_pred             CHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCC--CCCHhhHHHHHHHHHcCCCHHHHHHH
Q 009255          235 KLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQI--MPSTFTYNAMIWGLSQSGKTEQAIDM  312 (539)
Q Consensus       235 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~  312 (539)
                      +..+|...|..+...- .-+..+...+..+|...+++++|.++|+.+....+  ..+..+|++.+..+-+    +-++..
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 NCREALNLFEKLPSHH-YNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQD----EVALSY  408 (638)
T ss_pred             HHHHHHHHHHhhHHhc-CCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHh----hHHHHH
Confidence            3455666666644332 22334555566667777777777777766655422  1244555555544322    222222


Q ss_pred             HHH-HHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 009255          313 LNE-LLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGK  391 (539)
Q Consensus       313 ~~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  391 (539)
                      +.+ +... -+..+.+|..+..+|.-+++.+.|++.|+++++.+ +....+|+.+..=+.....+|.|...|+..+....
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            222 2222 23355666666666666677777777776666653 11455666666656666666666666666654422


Q ss_pred             CCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCC-HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCC
Q 009255          392 AVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPD-RYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPN  470 (539)
Q Consensus       392 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  470 (539)
                      + +...|..++..|.++++++.|.-.|+++.+-  .|. ......++..+-+.|+.++|+++++++...+          
T Consensus       487 r-hYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~I--NP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld----------  553 (638)
T KOG1126|consen  487 R-HYNAWYGLGTVYLKQEKLEFAEFHFQKAVEI--NPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLD----------  553 (638)
T ss_pred             h-hhHHHHhhhhheeccchhhHHHHHHHhhhcC--CccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcC----------
Confidence            1 3334445566666667777777777666643  343 3344455666666667777777777766665          


Q ss_pred             CCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCchhhc
Q 009255          471 TSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGLIKRRKSISKA  537 (539)
Q Consensus       471 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~A  537 (539)
                              +.++..-...+..+...+++++|++.++++.+  +.|++.+...+++..++.-|+...|
T Consensus       554 --------~kn~l~~~~~~~il~~~~~~~eal~~LEeLk~--~vP~es~v~~llgki~k~~~~~~~A  610 (638)
T KOG1126|consen  554 --------PKNPLCKYHRASILFSLGRYVEALQELEELKE--LVPQESSVFALLGKIYKRLGNTDLA  610 (638)
T ss_pred             --------CCCchhHHHHHHHHHhhcchHHHHHHHHHHHH--hCcchHHHHHHHHHHHHHHccchHH
Confidence                    33444555556666666777777777776665  5666666666666666655555555

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

Probab=99.71  E-value=6.5e-15  Score=133.71  Aligned_cols=287  Identities=14%  Similarity=0.048  Sum_probs=226.9

Q ss_pred             CHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHhhcCC--ccCHhhHHHHHHHHHccCCHHHHHHH
Q 009255          200 NMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGY--YLDEVSYGTLITGYFRDEKANRALKL  277 (539)
Q Consensus       200 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~  277 (539)
                      +..+|+..|..+... +.-+..+...+..+|...++++++.++|+.+.+...  .-+...|...+-.+-+    +-++..
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            467888888885444 444567788899999999999999999999987631  1244566665543322    222333


Q ss_pred             H-HHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCC
Q 009255          278 W-DEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSF  356 (539)
Q Consensus       278 ~-~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  356 (539)
                      + +.+..... -.+.+|.++..+|.-+++++.|++.|+++.+..+. ...+|+.+..-+....++|+|...|+..+....
T Consensus       409 Laq~Li~~~~-~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~-faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~~  486 (638)
T KOG1126|consen  409 LAQDLIDTDP-NSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPR-FAYAYTLLGHESIATEEFDKAMKSFRKALGVDP  486 (638)
T ss_pred             HHHHHHhhCC-CCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCc-cchhhhhcCChhhhhHHHHhHHHHHHhhhcCCc
Confidence            3 33344333 37899999999999999999999999999886432 667888888888999999999999999987642


Q ss_pred             CCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHH
Q 009255          357 KPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAI  436 (539)
Q Consensus       357 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l  436 (539)
                      + +..+|..+...|.+.++++.|+-.|+++++.++. +......++..+.+.|+.++|+++++++.... +.|.-.-..-
T Consensus       487 r-hYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~-nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld-~kn~l~~~~~  563 (638)
T KOG1126|consen  487 R-HYNAWYGLGTVYLKQEKLEFAEFHFQKAVEINPS-NSVILCHIGRIQHQLKRKDKALQLYEKAIHLD-PKNPLCKYHR  563 (638)
T ss_pred             h-hhHHHHhhhhheeccchhhHHHHHHHhhhcCCcc-chhHHhhhhHHHHHhhhhhHHHHHHHHHHhcC-CCCchhHHHH
Confidence            2 5567778899999999999999999999987544 77788888999999999999999999999664 3344455566


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChh-hHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCC
Q 009255          437 HTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSI-SYSEKINEHCSQGRYKDALQIFEETRQKGIAI  515 (539)
Q Consensus       437 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p  515 (539)
                      +..+...+++++|.+.++++.+.-                   |+.. .+..++..|.+.|+.+.|+.-|--+.+  +.|
T Consensus       564 ~~il~~~~~~~eal~~LEeLk~~v-------------------P~es~v~~llgki~k~~~~~~~Al~~f~~A~~--ldp  622 (638)
T KOG1126|consen  564 ASILFSLGRYVEALQELEELKELV-------------------PQESSVFALLGKIYKRLGNTDLALLHFSWALD--LDP  622 (638)
T ss_pred             HHHHHhhcchHHHHHHHHHHHHhC-------------------cchHHHHHHHHHHHHHHccchHHHHhhHHHhc--CCC
Confidence            777888999999999999999986                   6655 899999999999999999999999987  444


Q ss_pred             CH
Q 009255          516 NK  517 (539)
Q Consensus       516 ~~  517 (539)
                      ..
T Consensus       623 kg  624 (638)
T KOG1126|consen  623 KG  624 (638)
T ss_pred             cc
Confidence            43

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

Probab=99.70  E-value=4.3e-13  Score=114.66  Aligned_cols=292  Identities=12%  Similarity=0.063  Sum_probs=179.7

Q ss_pred             cCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHH
Q 009255          198 AGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKL  277 (539)
Q Consensus       198 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  277 (539)
                      .|+|.+|++.+.+-.+.+..| ...|....++.-+.|+.+.+-.++.++.+....++....-.........|+++.|..-
T Consensus        97 eG~~~qAEkl~~rnae~~e~p-~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~  175 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQP-VLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAAREN  175 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcch-HHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHH
Confidence            455555555555444433221 2223333444445555555555555555443233334444444555555555555555


Q ss_pred             HHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCH-------HhHHHHHHHHhcCCCHHHHHHHHHH
Q 009255          278 WDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDE-------TTFNTIIHGFCSEGQVEKALQFHNK  350 (539)
Q Consensus       278 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~  350 (539)
                      ..++.+.++. .+........+|.+.|++.....++..+.+.+.-.+.       .++..+++-+...+..+.-...|+.
T Consensus       176 v~~ll~~~pr-~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~  254 (400)
T COG3071         176 VDQLLEMTPR-HPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKN  254 (400)
T ss_pred             HHHHHHhCcC-ChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHh
Confidence            5555554443 4455555556666666666666666666655544332       2455555555555555555556666


Q ss_pred             HHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCH
Q 009255          351 MVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDR  430 (539)
Q Consensus       351 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~  430 (539)
                      .-.. .+.++.....++.-+.++|+.++|.++..+..+.+..|+   .. ..-.+.+-++...-++..++.... .+.++
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---LC-RLIPRLRPGDPEPLIKAAEKWLKQ-HPEDP  328 (400)
T ss_pred             ccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh---HH-HHHhhcCCCCchHHHHHHHHHHHh-CCCCh
Confidence            5543 344667777777788888888888888888887766554   12 222345667777777777766654 24445


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHH
Q 009255          431 YTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       431 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  510 (539)
                      ..+..++..|.+.+.|.+|.+.++.+++..                   |+...|..++++|.+.|++.+|.+..++.+-
T Consensus       329 ~L~~tLG~L~~k~~~w~kA~~~leaAl~~~-------------------~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~  389 (400)
T COG3071         329 LLLSTLGRLALKNKLWGKASEALEAALKLR-------------------PSASDYAELADALDQLGEPEEAEQVRREALL  389 (400)
T ss_pred             hHHHHHHHHHHHhhHHHHHHHHHHHHHhcC-------------------CChhhHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence            677788888888888888888888888875                   8888888888888888888888888888774


Q ss_pred             cCCCCC
Q 009255          511 KGIAIN  516 (539)
Q Consensus       511 ~~~~p~  516 (539)
                      .-..|+
T Consensus       390 ~~~~~~  395 (400)
T COG3071         390 LTRQPN  395 (400)
T ss_pred             HhcCCC
Confidence            333343

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

Probab=99.69  E-value=2.9e-13  Score=112.16  Aligned_cols=299  Identities=13%  Similarity=0.107  Sum_probs=197.7

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCC---hhhHHHHHHH
Q 009255           13 YNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPD---VWTYNMLING   89 (539)
Q Consensus        13 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~   89 (539)
                      |-.=++.+ -+++.++|.++|-+|.+.. +.+..+..+|...|.+.|..++|+.+.+.+..+.--+.   ......|..-
T Consensus        39 Yv~GlNfL-Ls~Q~dKAvdlF~e~l~~d-~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~D  116 (389)
T COG2956          39 YVKGLNFL-LSNQPDKAVDLFLEMLQED-PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRD  116 (389)
T ss_pred             HHhHHHHH-hhcCcchHHHHHHHHHhcC-chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHH
Confidence            33333433 3567888888888888864 44556777888888888888888888888877511111   1233445666


Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCH----HHHHHHHHHHHhcCC
Q 009255           90 WCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNA----VTHNIMIKWYCKEGK  165 (539)
Q Consensus        90 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~g~  165 (539)
                      |...|-++.|.++|..+.+.+ .--......|+..|-...+|++|++.-+++.+.+..+..    ..|.-+...+....+
T Consensus       117 ym~aGl~DRAE~~f~~L~de~-efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~  195 (389)
T COG2956         117 YMAAGLLDRAEDIFNQLVDEG-EFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSD  195 (389)
T ss_pred             HHHhhhhhHHHHHHHHHhcch-hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhh
Confidence            778888888888888887643 223456777888888888888888888888777554432    244555556666778


Q ss_pred             HhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHH
Q 009255          166 IDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNS  245 (539)
Q Consensus       166 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  245 (539)
                      ++.|..++++..+.+ +..+..--.+.+.....|++++|++.++.+.+.+..--+.+...+..+|...|+.++....+..
T Consensus       196 ~d~A~~~l~kAlqa~-~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~  274 (389)
T COG2956         196 VDRARELLKKALQAD-KKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRR  274 (389)
T ss_pred             HHHHHHHHHHHHhhC-ccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            888888888887763 2233444456677788888888888888888876555566777777888888888888888877


Q ss_pred             HhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHc---CCCHHHHHHHHHHHHHC
Q 009255          246 ASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQ---SGKTEQAIDMLNELLQS  319 (539)
Q Consensus       246 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~  319 (539)
                      +.+....  ...-..+........-.+.|...+.+-+.+  .|+...+..++.....   -|...+.+..++.|...
T Consensus       275 ~~~~~~g--~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r--~Pt~~gf~rl~~~~l~daeeg~~k~sL~~lr~mvge  347 (389)
T COG2956         275 AMETNTG--ADAELMLADLIELQEGIDAAQAYLTRQLRR--KPTMRGFHRLMDYHLADAEEGRAKESLDLLRDMVGE  347 (389)
T ss_pred             HHHccCC--ccHHHHHHHHHHHhhChHHHHHHHHHHHhh--CCcHHHHHHHHHhhhccccccchhhhHHHHHHHHHH
Confidence            7765332  223333333333344455555555444433  4677777777776543   34455666666666543

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.69  E-value=3.2e-12  Score=107.41  Aligned_cols=417  Identities=13%  Similarity=0.091  Sum_probs=250.4

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCh
Q 009255           17 LDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGML   96 (539)
Q Consensus        17 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~   96 (539)
                      +.-+..+.++..|+.+++--...+-.....+-.-+..++.+.|++++|...+..+.... .++...+..|..++.-.|.+
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            45566788999999999887766544333455556777889999999999999887753 45666777777777778888


Q ss_pred             HHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHHH
Q 009255           97 EEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNM  176 (539)
Q Consensus        97 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  176 (539)
                      .+|..+-.+..+     ++.....++....+.++-++...+-+.+.+     +..--.+|.......-.+++|++++++.
T Consensus       108 ~eA~~~~~ka~k-----~pL~~RLlfhlahklndEk~~~~fh~~LqD-----~~EdqLSLAsvhYmR~HYQeAIdvYkrv  177 (557)
T KOG3785|consen  108 IEAKSIAEKAPK-----TPLCIRLLFHLAHKLNDEKRILTFHSSLQD-----TLEDQLSLASVHYMRMHYQEAIDVYKRV  177 (557)
T ss_pred             HHHHHHHhhCCC-----ChHHHHHHHHHHHHhCcHHHHHHHHHHHhh-----hHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence            888877665432     344445555556666776666666555543     2233444555555556677778888777


Q ss_pred             HHcCCCCChhhHHHHH-HHHHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhcc--C-------------------
Q 009255          177 EENGFSPDCVTYNTLI-DANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCE--K-------------------  234 (539)
Q Consensus       177 ~~~~~~~~~~~~~~l~-~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--~-------------------  234 (539)
                      ...  .|+-...|..+ -+|.+..-++-+.++++-..++ ++.++...+..+....+.  |                   
T Consensus       178 L~d--n~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q-~pdStiA~NLkacn~fRl~ngr~ae~E~k~ladN~~~~~~  254 (557)
T KOG3785|consen  178 LQD--NPEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQ-FPDSTIAKNLKACNLFRLINGRTAEDEKKELADNIDQEYP  254 (557)
T ss_pred             Hhc--ChhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHh-CCCcHHHHHHHHHHHhhhhccchhHHHHHHHHhcccccch
Confidence            765  24444444333 3445666666666666655554 222222222221111111  1                   


Q ss_pred             --------------CHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHH
Q 009255          235 --------------KLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGL  300 (539)
Q Consensus       235 --------------~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  300 (539)
                                    +-+.|++++-.+.+.    -+..-..|+-.|.++++..+|..+.+++...    ++.-|-.-...+
T Consensus       255 f~~~l~rHNLVvFrngEgALqVLP~L~~~----IPEARlNL~iYyL~q~dVqeA~~L~Kdl~Pt----tP~EyilKgvv~  326 (557)
T KOG3785|consen  255 FIEYLCRHNLVVFRNGEGALQVLPSLMKH----IPEARLNLIIYYLNQNDVQEAISLCKDLDPT----TPYEYILKGVVF  326 (557)
T ss_pred             hHHHHHHcCeEEEeCCccHHHhchHHHhh----ChHhhhhheeeecccccHHHHHHHHhhcCCC----ChHHHHHHHHHH
Confidence                          122233332222222    2333344556677888999988887765432    222222222222


Q ss_pred             HcCC-------CHHHHHHHHHHHHHCCCCCCH-HhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHh
Q 009255          301 SQSG-------KTEQAIDMLNELLQSGMIPDE-TTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCR  372 (539)
Q Consensus       301 ~~~~-------~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  372 (539)
                      ...|       ...-|...|+-.-.++..-|. .--..+...+.-..++++++.++..+..-- ..|......+..+++.
T Consensus       327 aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sYF-~NdD~Fn~N~AQAk~a  405 (557)
T KOG3785|consen  327 AALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESYF-TNDDDFNLNLAQAKLA  405 (557)
T ss_pred             HHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHh-cCcchhhhHHHHHHHH
Confidence            3322       233455555443333322221 122344455556667888888888777653 3344444458888999


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCChhhH-HHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhH-HHHHHHHHhcCCHHHHH
Q 009255          373 EGILEKALKFFRSWILKGKAVDSVTY-NTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTY-AAIHTALVESGRLEEAQ  450 (539)
Q Consensus       373 ~g~~~~A~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~g~~~~A~  450 (539)
                      .|++.+|+++|-++....++ |..+| ..|.++|.+.+.++.|+.++-++.   -+.+..++ ..++..|.+.+.+=-|.
T Consensus       406 tgny~eaEelf~~is~~~ik-n~~~Y~s~LArCyi~nkkP~lAW~~~lk~~---t~~e~fsLLqlIAn~CYk~~eFyyaa  481 (557)
T KOG3785|consen  406 TGNYVEAEELFIRISGPEIK-NKILYKSMLARCYIRNKKPQLAWDMMLKTN---TPSERFSLLQLIANDCYKANEFYYAA  481 (557)
T ss_pred             hcChHHHHHHHhhhcChhhh-hhHHHHHHHHHHHHhcCCchHHHHHHHhcC---CchhHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999887665444 45555 466788999999999988776553   23333333 34567888999988888


Q ss_pred             HHHHHHHHcC
Q 009255          451 KFTSIMVETG  460 (539)
Q Consensus       451 ~~~~~~~~~~  460 (539)
                      +.|..+...+
T Consensus       482 KAFd~lE~lD  491 (557)
T KOG3785|consen  482 KAFDELEILD  491 (557)
T ss_pred             HhhhHHHccC
Confidence            8888887776

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=99.69  E-value=7.1e-11  Score=107.25  Aligned_cols=437  Identities=12%  Similarity=0.081  Sum_probs=274.2

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHH
Q 009255           11 VTYNTILDALFKKGKLNEVRDLLSDMKKQ-GLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLING   89 (539)
Q Consensus        11 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (539)
                      .+|-..++.+.++|++......|++.+.. .+.-...+|...+......|-++.+..++++.++.    ++..-...+..
T Consensus       103 RIwl~Ylq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~----~P~~~eeyie~  178 (835)
T KOG2047|consen  103 RIWLDYLQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKV----APEAREEYIEY  178 (835)
T ss_pred             HHHHHHHHHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhc----CHHHHHHHHHH
Confidence            56777778888889999999999888765 22223347788888888888888999999988875    33446777788


Q ss_pred             HHhcCChHHHHHHHHHHHhCC------CCCChhhHHHHHHHHhccCCHhH---HHHHHHHHHhCCCCCC--HHHHHHHHH
Q 009255           90 WCNAGMLEEAFRLRKEMESLK------LLPDVVTYNTLINRFFESGRSME---AFKLIDELDEHGIKPN--AVTHNIMIK  158 (539)
Q Consensus        90 ~~~~g~~~~a~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~~~~~~---a~~~~~~~~~~~~~~~--~~~~~~l~~  158 (539)
                      +++.+++++|.+.+..+....      .+.+-..|..+.....++-+.-.   ...+++.+...  -+|  ...|++|..
T Consensus       179 L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~r--ftDq~g~Lw~SLAd  256 (835)
T KOG2047|consen  179 LAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRR--FTDQLGFLWCSLAD  256 (835)
T ss_pred             HHhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhccc--CcHHHHHHHHHHHH
Confidence            888899999888888776431      23445566666665555443322   22333333322  233  346889999


Q ss_pred             HHHhcCCHhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhc----------------C------CHHHHHHHHHHHhhCCC
Q 009255          159 WYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKA----------------G------NMEEAFRMMDVMGRKGL  216 (539)
Q Consensus       159 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----------------~------~~~~a~~~~~~~~~~~~  216 (539)
                      .|.+.|.+++|.+++++..+.  .....-|..+..+|+.-                +      +++-.+.-|+.+.....
T Consensus       257 YYIr~g~~ekarDvyeeai~~--v~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~  334 (835)
T KOG2047|consen  257 YYIRSGLFEKARDVYEEAIQT--VMTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRRP  334 (835)
T ss_pred             HHHHhhhhHHHHHHHHHHHHh--heehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhccc
Confidence            999999999999999988765  23333344444443321                1      12223333343332210


Q ss_pred             -----------CCCHHhHHHHHHHHhccCCHHHHHHHHHHHhhcC-----CccCHhhHHHHHHHHHccCCHHHHHHHHHH
Q 009255          217 -----------KMNTITLNTILHTLCCEKKLDEAYMLLNSASKRG-----YYLDEVSYGTLITGYFRDEKANRALKLWDE  280 (539)
Q Consensus       217 -----------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  280 (539)
                                 +.+...|..-+.  ...|+..+-...+.++.+.-     .......|..+...|-..|+++.|..+|++
T Consensus       335 ~~lNsVlLRQn~~nV~eW~kRV~--l~e~~~~~~i~tyteAv~~vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifek  412 (835)
T KOG2047|consen  335 LLLNSVLLRQNPHNVEEWHKRVK--LYEGNAAEQINTYTEAVKTVDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEK  412 (835)
T ss_pred             hHHHHHHHhcCCccHHHHHhhhh--hhcCChHHHHHHHHHHHHccCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHH
Confidence                       112222222222  23455666666676666531     011234677888889999999999999998


Q ss_pred             HHHcCCCCC---HhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCC-----------------CHHhHHHHHHHHhcCCC
Q 009255          281 MKERQIMPS---TFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIP-----------------DETTFNTIIHGFCSEGQ  340 (539)
Q Consensus       281 ~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-----------------~~~~~~~l~~~~~~~~~  340 (539)
                      ......+.-   ..+|......-.+..+++.|+++++++....-.|                 +...|...+..-...|-
T Consensus       413 a~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gt  492 (835)
T KOG2047|consen  413 ATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGT  492 (835)
T ss_pred             hhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhcc
Confidence            877543311   3456666666677888899998888765431111                 22334445555556788


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChh-hHHHHHHHHHc---cCChHHHHH
Q 009255          341 VEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSV-TYNTLISSLCK---ERRLEDAFG  416 (539)
Q Consensus       341 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~-~~~~l~~~~~~---~~~~~~A~~  416 (539)
                      ++....+|+++++..+. ++.+....+..+..+.-++++.+++++-+..-..|++. .|+..+.-+.+   ....+.|..
T Consensus       493 festk~vYdriidLria-TPqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEraRd  571 (835)
T KOG2047|consen  493 FESTKAVYDRIIDLRIA-TPQIIINYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERARD  571 (835)
T ss_pred             HHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHHHH
Confidence            88888889988887654 55555555555666777888888888877764455543 66666555443   236788888


Q ss_pred             HHHHHHhCCCCCCHh--hHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 009255          417 LLSEMEEKKLGPDRY--TYAAIHTALVESGRLEEAQKFTSIMVET  459 (539)
Q Consensus       417 ~~~~~~~~~~~~~~~--~~~~l~~~~~~~g~~~~A~~~~~~~~~~  459 (539)
                      +|+++++ +.+|...  .|...+..-.+.|-...|..+++++...
T Consensus       572 LFEqaL~-~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat~~  615 (835)
T KOG2047|consen  572 LFEQALD-GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERATSA  615 (835)
T ss_pred             HHHHHHh-cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhc
Confidence            8888887 4555532  2223333333557777778888776554

>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]

Probab=99.68  E-value=1.2e-13  Score=129.26  Aligned_cols=484  Identities=17%  Similarity=0.119  Sum_probs=276.6

Q ss_pred             CCCCCCCcChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCCh
Q 009255            1 MEGFGCLPDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDV   80 (539)
Q Consensus         1 m~~~g~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~   80 (539)
                      |+..|+.|+..||.++|..|+..|+.+.|- +|.-|.-...+.+...++.++......++.+.+.           .|.+
T Consensus        16 ~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-----------ep~a   83 (1088)
T KOG4318|consen   16 HEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-----------EPLA   83 (1088)
T ss_pred             HHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-----------CCch
Confidence            456799999999999999999999999998 9999988887878888888888887777777665           4677


Q ss_pred             hhHHHHHHHHHhcCChHH---HHHHHHHHHh----CC-----------------CCCChhhHHHHHHHHhccCCHhHHHH
Q 009255           81 WTYNMLINGWCNAGMLEE---AFRLRKEMES----LK-----------------LLPDVVTYNTLINRFFESGRSMEAFK  136 (539)
Q Consensus        81 ~~~~~l~~~~~~~g~~~~---a~~~~~~~~~----~~-----------------~~~~~~~~~~l~~~~~~~~~~~~a~~  136 (539)
                      .+|..|..+|.+.||...   ..+.+..+..    .|                 .-||..+   ++....-.|-++.+++
T Consensus        84 Dtyt~Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n---~illlv~eglwaqllk  160 (1088)
T KOG4318|consen   84 DTYTNLLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAEN---AILLLVLEGLWAQLLK  160 (1088)
T ss_pred             hHHHHHHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHH---HHHHHHHHHHHHHHHH
Confidence            788888888888887544   2222222211    11                 1122111   1111111112222222


Q ss_pred             H------------------------------HHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHHHHHcCCCCChh
Q 009255          137 L------------------------------IDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCV  186 (539)
Q Consensus       137 ~------------------------------~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  186 (539)
                      +                              ........-.|++.+|..++.+-...|+.+.|..++.+|.+.|++.+.+
T Consensus       161 ll~~~Pvsa~~~p~~vfLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~H  240 (1088)
T KOG4318|consen  161 LLAKVPVSAWNAPFQVFLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAH  240 (1088)
T ss_pred             HHhhCCcccccchHHHHHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccc
Confidence            1                              1111111115889999999999999999999999999999999998888


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHH-----------HHHhh-------
Q 009255          187 TYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLL-----------NSASK-------  248 (539)
Q Consensus       187 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~-----------~~~~~-------  248 (539)
                      -|..|+-+   .++...+..+++-|...|+.|+..|+...+..+..+|....+....           ..+..       
T Consensus       241 yFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~t~~~~e~sq~~hg~tAavrsaa~rg~~a~k~  317 (1088)
T KOG4318|consen  241 YFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQTKYGEEGSQLAHGFTAAVRSAACRGLLANKR  317 (1088)
T ss_pred             cchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchhhhhcccccchhhhhhHHHHHHHhcccHhHHH
Confidence            77777755   7788888889999999999999999988877776644422211100           00000       


Q ss_pred             ------------------cCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcC--CC-CCHhhHHHHHHHHHcCC---
Q 009255          249 ------------------RGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQ--IM-PSTFTYNAMIWGLSQSG---  304 (539)
Q Consensus       249 ------------------~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~-~~~~~~~~l~~~~~~~~---  304 (539)
                                        .|.......|..... ...+|.-+....+-..+..--  .. .+...|..++.-|.+.-   
T Consensus       318 l~~nl~~~v~~s~k~~fLlg~d~~~aiws~c~~-l~hQgk~e~veqlvg~l~npt~r~s~~~V~a~~~~lrqyFrr~e~~  396 (1088)
T KOG4318|consen  318 LRQNLRKSVIGSTKKLFLLGTDILEAIWSMCEK-LRHQGKGEEVEQLVGQLLNPTLRDSGQNVDAFGALLRQYFRRIERH  396 (1088)
T ss_pred             HHHHHHHHHHHHhhHHHHhccccchHHHHHHHH-HHHcCCCchHHHHHhhhcCCccccCcchHHHHHHHHHHHHHHHHhh
Confidence                              011111111111111 111333333333333332110  01 11222323232222110   


Q ss_pred             -------------------CHHHHHHHHHHHHHC----------------CCCC-------CHHhHHHHHHHHhcCCCHH
Q 009255          305 -------------------KTEQAIDMLNELLQS----------------GMIP-------DETTFNTIIHGFCSEGQVE  342 (539)
Q Consensus       305 -------------------~~~~a~~~~~~~~~~----------------~~~~-------~~~~~~~l~~~~~~~~~~~  342 (539)
                                         ......+........                ...|       -...-+.++..|+..-+..
T Consensus       397 ~~~~i~~~~qgls~~l~se~tp~vsell~~lrkns~lr~lv~Lss~Eler~he~~~~~~h~irdi~~ql~l~l~se~n~l  476 (1088)
T KOG4318|consen  397 ICSRIYYAGQGLSLNLNSEDTPRVSELLENLRKNSFLRQLVGLSSTELERSHEPWPLIAHLIRDIANQLHLTLNSEYNKL  476 (1088)
T ss_pred             HHHHHHHHHHHHHhhhchhhhHHHHHHHHHhCcchHHHHHhhhhHHHHhcccccchhhhhHHHHHHHHHHHHHHHHHHHH
Confidence                               011111111110000                0000       0011122233333333333


Q ss_pred             HHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCCChhhHHHHHHHHHccCChHHHHHHHHH
Q 009255          343 KALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKG--KAVDSVTYNTLISSLCKERRLEDAFGLLSE  420 (539)
Q Consensus       343 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  420 (539)
                      +++..-++....-   -...|..+++.+......+.|..+.+++....  ...+...+..+.....+.+....+..++++
T Consensus       477 K~l~~~ekye~~l---f~g~ya~Li~l~~~hdkle~Al~~~~e~d~~d~s~~Ld~~~m~~l~dLL~r~~~l~dl~tiL~e  553 (1088)
T KOG4318|consen  477 KILCDEEKYEDLL---FAGLYALLIKLMDLHDKLEYALSFVDEIDTRDESIHLDLPLMTSLQDLLQRLAILYDLSTILYE  553 (1088)
T ss_pred             HHHHHHHHHHHHH---hhhHHHHHhhhHHHHHHHHHHHhchhhhcccchhhhcccHhHHHHHHHHHHhHHHHHHHHHHhh
Confidence            3333222222211   12456777888888888888888888776442  233555677788888888888999999988


Q ss_pred             HHhCCC-CCC-HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCH
Q 009255          421 MEEKKL-GPD-RYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRY  498 (539)
Q Consensus       421 ~~~~~~-~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  498 (539)
                      +.+.-. .|+ ..++..+.......|+.+.-.+..+-+...+..                 -+    ..+..+..+.++.
T Consensus       554 ~ks~a~n~~~~a~~~f~~lns~a~agqqe~Lkkl~d~lvslgl~-----------------et----gPl~~vhLrkdd~  612 (1088)
T KOG4318|consen  554 DKSSAENEPLVAIILFPLLNSGAPAGQQEKLKKLADILVSLGLS-----------------ET----GPLWMVHLRKDDQ  612 (1088)
T ss_pred             hhHHhhCCchHHHHHHHHHhhhhhccCHHHHHHHHHHHHHhhhh-----------------hc----ccceEEEeeccch
Confidence            876421 232 345566777777888888888888877776633                 11    1223345566666


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 009255          499 KDALQIFEETRQKGIAINKSTYMNLMNGLI  528 (539)
Q Consensus       499 ~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~  528 (539)
                      ..|+++.+..-+. ++|.......++..+.
T Consensus       613 s~a~ea~e~~~qk-yk~~P~~~e~lcrlv~  641 (1088)
T KOG4318|consen  613 SAAQEAPEPEEQK-YKPYPKDLEGLCRLVY  641 (1088)
T ss_pred             hhhhhcchHHHHH-hcCChHHHHHHHHHHH
Confidence            7777666655442 5666666666555554

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.68  E-value=1.9e-12  Score=108.72  Aligned_cols=428  Identities=12%  Similarity=0.082  Sum_probs=264.0

Q ss_pred             HHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCH
Q 009255           52 VSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRS  131 (539)
Q Consensus        52 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  131 (539)
                      +.-+....|+..|+.+++.-...+-+-...+-.-+..++...|++++|+..+.-+.... .++...+..|.-++.-.|.+
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            44456678899999998877654333222333345567789999999999999988754 56777788888888888999


Q ss_pred             hHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 009255          132 MEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVM  211 (539)
Q Consensus       132 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  211 (539)
                      .+|..+..+..+     ++-....++....+.++-++.....+.+...     ..--.+|.......-.+.+|++++...
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            999988766432     4555566677777888877777666665532     233345556656666799999999998


Q ss_pred             hhCCCCCCHHhHHH-HHHHHhccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHH-----------
Q 009255          212 GRKGLKMNTITLNT-ILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWD-----------  279 (539)
Q Consensus       212 ~~~~~~~~~~~~~~-l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~-----------  279 (539)
                      ...+  |+-..++. +.-+|.+..-++-+.+++.-.... ++.++...+.......+.-+-..|..-..           
T Consensus       178 L~dn--~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q-~pdStiA~NLkacn~fRl~ngr~ae~E~k~ladN~~~~~~  254 (557)
T KOG3785|consen  178 LQDN--PEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQ-FPDSTIAKNLKACNLFRLINGRTAEDEKKELADNIDQEYP  254 (557)
T ss_pred             HhcC--hhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHh-CCCcHHHHHHHHHHHhhhhccchhHHHHHHHHhcccccch
Confidence            8753  33334443 344566777777777777665544 22234444433333332111111111111           


Q ss_pred             ---HHHHcC------------CCC-----CHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCC
Q 009255          280 ---EMKERQ------------IMP-----STFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEG  339 (539)
Q Consensus       280 ---~~~~~~------------~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  339 (539)
                         .+..++            +-|     -+..--.++-.|.+.+++.+|..+.+++.-  ..|.......+  .+...|
T Consensus       255 f~~~l~rHNLVvFrngEgALqVLP~L~~~IPEARlNL~iYyL~q~dVqeA~~L~Kdl~P--ttP~EyilKgv--v~aalG  330 (557)
T KOG3785|consen  255 FIEYLCRHNLVVFRNGEGALQVLPSLMKHIPEARLNLIIYYLNQNDVQEAISLCKDLDP--TTPYEYILKGV--VFAALG  330 (557)
T ss_pred             hHHHHHHcCeEEEeCCccHHHhchHHHhhChHhhhhheeeecccccHHHHHHHHhhcCC--CChHHHHHHHH--HHHHhh
Confidence               111110            001     122233455567889999999988876542  12222222222  233333


Q ss_pred             -------CHHHHHHHHHHHHhCCCCCC-HHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCCh
Q 009255          340 -------QVEKALQFHNKMVEKSFKPD-IVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRL  411 (539)
Q Consensus       340 -------~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  411 (539)
                             ...-|.+.|+..-+.+..-| +.--..+..++.-..++++.+..++.+..--.. |-..-..+..+++..|++
T Consensus       331 Qe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sYF~N-dD~Fn~N~AQAk~atgny  409 (557)
T KOG3785|consen  331 QETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESYFTN-DDDFNLNLAQAKLATGNY  409 (557)
T ss_pred             hhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-cchhhhHHHHHHHHhcCh
Confidence                   34456666665544432211 112233444555566789999888888766333 333334578999999999


Q ss_pred             HHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChh--hHHHHH
Q 009255          412 EDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSI--SYSEKI  489 (539)
Q Consensus       412 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~l~  489 (539)
                      .+|.++|-+.....++.+......++++|.+.+.++.|..++   ++.+                  .|...  ....++
T Consensus       410 ~eaEelf~~is~~~ikn~~~Y~s~LArCyi~nkkP~lAW~~~---lk~~------------------t~~e~fsLLqlIA  468 (557)
T KOG3785|consen  410 VEAEELFIRISGPEIKNKILYKSMLARCYIRNKKPQLAWDMM---LKTN------------------TPSERFSLLQLIA  468 (557)
T ss_pred             HHHHHHHhhhcChhhhhhHHHHHHHHHHHHhcCCchHHHHHH---HhcC------------------CchhHHHHHHHHH
Confidence            999999988875444434444456778899999999987655   4444                  23332  556777


Q ss_pred             HHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHH
Q 009255          490 NEHCSQGRYKDALQIFEETRQKGIAINKSTYM  521 (539)
Q Consensus       490 ~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~  521 (539)
                      ..|.+.+.+=-|.+.|+.+..  +.|+..-|.
T Consensus       469 n~CYk~~eFyyaaKAFd~lE~--lDP~pEnWe  498 (557)
T KOG3785|consen  469 NDCYKANEFYYAAKAFDELEI--LDPTPENWE  498 (557)
T ss_pred             HHHHHHHHHHHHHHhhhHHHc--cCCCccccC
Confidence            888899998888888888775  566665554

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

Probab=99.68  E-value=5.4e-13  Score=110.53  Aligned_cols=289  Identities=12%  Similarity=0.128  Sum_probs=204.9

Q ss_pred             cCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHhhcCCccC---HhhHHHHHHHHHccCCHHHH
Q 009255          198 AGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLD---EVSYGTLITGYFRDEKANRA  274 (539)
Q Consensus       198 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a  274 (539)
                      +.+.++|++.|-+|.+.. +.+..+...+.+.|.+.|..+.|+++.+.+.++.-.+.   ......|..-|...|-+|.|
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 SNQPDKAVDLFLEMLQED-PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRA  126 (389)
T ss_pred             hcCcchHHHHHHHHHhcC-chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHH
Confidence            445666666666666532 22444455566666666777777776666665421111   12334566778888888888


Q ss_pred             HHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCH----HhHHHHHHHHhcCCCHHHHHHHHHH
Q 009255          275 LKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDE----TTFNTIIHGFCSEGQVEKALQFHNK  350 (539)
Q Consensus       275 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~  350 (539)
                      +.+|..+.+.+.. -......|+..|-...+|++|++.-+++.+.+..+..    ..|..+...+....+.++|...+.+
T Consensus       127 E~~f~~L~de~ef-a~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~k  205 (389)
T COG2956         127 EDIFNQLVDEGEF-AEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKK  205 (389)
T ss_pred             HHHHHHHhcchhh-hHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHH
Confidence            8888888775332 4556777888888899999999998888876554332    3466677777778899999999999


Q ss_pred             HHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCH
Q 009255          351 MVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDR  430 (539)
Q Consensus       351 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~  430 (539)
                      ..+.+. .....--.+.+.+...|+++.|.+.|+.+.+.++..-+.+...|..+|.+.|+.++....+.++.+..  +..
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 ALQADK-KCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETN--TGA  282 (389)
T ss_pred             HHhhCc-cceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHcc--CCc
Confidence            988753 35556667788888999999999999999987555556677888999999999999999999998764  444


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhh---cCCHHHHHHHHHH
Q 009255          431 YTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCS---QGRYKDALQIFEE  507 (539)
Q Consensus       431 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~g~~~~A~~~~~~  507 (539)
                      .....+...-....-.+.|...+.+-+...                   |+...+..+++....   -|++.+-+.+++.
T Consensus       283 ~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r~-------------------Pt~~gf~rl~~~~l~daeeg~~k~sL~~lr~  343 (389)
T COG2956         283 DAELMLADLIELQEGIDAAQAYLTRQLRRK-------------------PTMRGFHRLMDYHLADAEEGRAKESLDLLRD  343 (389)
T ss_pred             cHHHHHHHHHHHhhChHHHHHHHHHHHhhC-------------------CcHHHHHHHHHhhhccccccchhhhHHHHHH
Confidence            444455555554555677777777777765                   888877777776553   3567778888888


Q ss_pred             HHH
Q 009255          508 TRQ  510 (539)
Q Consensus       508 ~~~  510 (539)
                      |+.
T Consensus       344 mvg  346 (389)
T COG2956         344 MVG  346 (389)
T ss_pred             HHH
Confidence            775

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

Probab=99.68  E-value=2.1e-12  Score=115.30  Aligned_cols=439  Identities=13%  Similarity=0.052  Sum_probs=293.0

Q ss_pred             CCCcChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHH----HhCC-----
Q 009255            5 GCLPDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLM----TQNK-----   75 (539)
Q Consensus         5 g~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~----~~~~-----   75 (539)
                      |+..|+...-.+++.+.-.|++..|..++..-.-.  ..|..+......++.+..++++|..++...    ....     
T Consensus        44 ~l~~dp~d~~~~aq~l~~~~~y~ra~~lit~~~le--~~d~~cryL~~~~l~~lk~~~~al~vl~~~~~~~~~f~yy~~~  121 (611)
T KOG1173|consen   44 GLTNDPADIYWLAQVLYLGRQYERAAHLITTYKLE--KRDIACRYLAAKCLVKLKEWDQALLVLGRGHVETNPFSYYEKD  121 (611)
T ss_pred             hccCChHHHHHHHHHHHhhhHHHHHHHHHHHhhhh--hhhHHHHHHHHHHHHHHHHHHHHHHHhcccchhhcchhhcchh
Confidence            34456666677889999999999998888766443  347778888888999999999999998822    1100     


Q ss_pred             ----CCCChhh----HHHHH-------HHHHhcCChHHHHHHHHHHHhCCCCCChhhHHH---HHHHHhccCCHhHHHHH
Q 009255           76 ----SLPDVWT----YNMLI-------NGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNT---LINRFFESGRSMEAFKL  137 (539)
Q Consensus        76 ----~~~~~~~----~~~l~-------~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~---l~~~~~~~~~~~~a~~~  137 (539)
                          ..++..-    -+.-.       ..|....++++|...|.+....    |...+..   ++....-     .+.+.
T Consensus       122 ~~~~l~~n~~~~~~~~~~essic~lRgk~y~al~n~~~ar~~Y~~Al~~----D~~c~Ea~~~lvs~~ml-----t~~Ee  192 (611)
T KOG1173|consen  122 AANTLELNSAGEDLMINLESSICYLRGKVYVALDNREEARDKYKEALLA----DAKCFEAFEKLVSAHML-----TAQEE  192 (611)
T ss_pred             hhceeccCcccccccccchhceeeeeeehhhhhccHHHHHHHHHHHHhc----chhhHHHHHHHHHHHhc-----chhHH
Confidence                0011111    01111       2233345567777777776643    4433333   2222211     11122


Q ss_pred             HHHHHhCC----CCCCHHHHHHHHHHHHhcCCHhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 009255          138 IDELDEHG----IKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGR  213 (539)
Q Consensus       138 ~~~~~~~~----~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  213 (539)
                      ++.+....    ...+......+.........-+.....-....-.+..-+......-...+...+++.+..++.+.+.+
T Consensus       193 ~~ll~~l~~a~~~~ed~e~l~~lyel~~~k~~n~~~~~r~~~~sl~~l~~~~dll~~~ad~~y~~c~f~~c~kit~~lle  272 (611)
T KOG1173|consen  193 FELLESLDLAMLTKEDVERLEILYELKLCKNRNEESLTRNEDESLIGLAENLDLLAEKADRLYYGCRFKECLKITEELLE  272 (611)
T ss_pred             HHHHhcccHHhhhhhHHHHHHHHHHhhhhhhccccccccCchhhhhhhhhcHHHHHHHHHHHHHcChHHHHHHHhHHHHh
Confidence            22222111    11122222222222100000000100011011112344566666667778888999999999999887


Q ss_pred             CCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhH
Q 009255          214 KGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTY  293 (539)
Q Consensus       214 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  293 (539)
                      . .++....+..-+.++...|+...-..+-.++.+. .+..+.+|-++...|...|+..+|++.|.+....+.. -...|
T Consensus       273 ~-dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~-yP~~a~sW~aVg~YYl~i~k~seARry~SKat~lD~~-fgpaW  349 (611)
T KOG1173|consen  273 K-DPFHLPCLPLHIACLYELGKSNKLFLLSHKLVDL-YPSKALSWFAVGCYYLMIGKYSEARRYFSKATTLDPT-FGPAW  349 (611)
T ss_pred             h-CCCCcchHHHHHHHHHHhcccchHHHHHHHHHHh-CCCCCcchhhHHHHHHHhcCcHHHHHHHHHHhhcCcc-ccHHH
Confidence            6 3556666666677888888887777776777766 3446778889988888899999999999988765433 34678


Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhc
Q 009255          294 NAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCRE  373 (539)
Q Consensus       294 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  373 (539)
                      -.+...|.-.|..++|+..+..+.+.- +-....+.-+..-|.+.++...|.++|..+.... +.|+.+.+.+.-+....
T Consensus       350 l~fghsfa~e~EhdQAmaaY~tAarl~-~G~hlP~LYlgmey~~t~n~kLAe~Ff~~A~ai~-P~Dplv~~Elgvvay~~  427 (611)
T KOG1173|consen  350 LAFGHSFAGEGEHDQAMAAYFTAARLM-PGCHLPSLYLGMEYMRTNNLKLAEKFFKQALAIA-PSDPLVLHELGVVAYTY  427 (611)
T ss_pred             HHHhHHhhhcchHHHHHHHHHHHHHhc-cCCcchHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCcchhhhhhhheeehH
Confidence            888999999999999999998877652 2223334445556888999999999999998764 55788888888888888


Q ss_pred             CCHHHHHHHHHHHHHc--CCC----CChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHH
Q 009255          374 GILEKALKFFRSWILK--GKA----VDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLE  447 (539)
Q Consensus       374 g~~~~A~~~~~~~~~~--~~~----~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  447 (539)
                      +.+.+|..+|+..+..  ...    .-..+++.|+.+|.+.+.+++|+..+++.+... +.+..++..++-.+...|+++
T Consensus       428 ~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~-~k~~~~~asig~iy~llgnld  506 (611)
T KOG1173|consen  428 EEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLLS-PKDASTHASIGYIYHLLGNLD  506 (611)
T ss_pred             hhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHcC-CCchhHHHHHHHHHHHhcChH
Confidence            9999999999887732  011    134468899999999999999999999999763 667888999999999999999


Q ss_pred             HHHHHHHHHHHcC
Q 009255          448 EAQKFTSIMVETG  460 (539)
Q Consensus       448 ~A~~~~~~~~~~~  460 (539)
                      .|++.|.+++-..
T Consensus       507 ~Aid~fhKaL~l~  519 (611)
T KOG1173|consen  507 KAIDHFHKALALK  519 (611)
T ss_pred             HHHHHHHHHHhcC
Confidence            9999999999886

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

Probab=99.67  E-value=2.4e-12  Score=110.21  Aligned_cols=293  Identities=13%  Similarity=0.097  Sum_probs=150.7

Q ss_pred             cCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHHHH
Q 009255           93 AGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKI  172 (539)
Q Consensus        93 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  172 (539)
                      .|++.+|++...+-.+.+ +.....|..-.++.-..|+.+.+-.++.++.+....++........+.....|+.+.|..-
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 EGDFQQAEKLLRRNAEHG-EQPVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAAREN  175 (400)
T ss_pred             cCcHHHHHHHHHHhhhcC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHH
Confidence            466666666666655543 2223334444455555666666666666666553344455555555666666666666666


Q ss_pred             HHHHHHcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHhhcCCc
Q 009255          173 VRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYY  252 (539)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  252 (539)
                      +..+.+.+ +.++.......++|.+.|++.....++..+.+.+.-.+...-..-                          
T Consensus       176 v~~ll~~~-pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le--------------------------  228 (400)
T COG3071         176 VDQLLEMT-PRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLE--------------------------  228 (400)
T ss_pred             HHHHHHhC-cCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHH--------------------------
Confidence            66666553 334555566666666666666666666666666544333211100                          


Q ss_pred             cCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHH
Q 009255          253 LDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTII  332 (539)
Q Consensus       253 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  332 (539)
                        ..++..++.-....+..+.-...|+..... ...++..-..++.-+.+.|+.++|.++.++..+.+..|+   ...+ 
T Consensus       229 --~~a~~glL~q~~~~~~~~gL~~~W~~~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~---L~~~-  301 (400)
T COG3071         229 --QQAWEGLLQQARDDNGSEGLKTWWKNQPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR---LCRL-  301 (400)
T ss_pred             --HHHHHHHHHHHhccccchHHHHHHHhccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh---HHHH-
Confidence              112333333333333333333333333221 112344444555555555666666655555555544333   1111 


Q ss_pred             HHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChH
Q 009255          333 HGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLE  412 (539)
Q Consensus       333 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  412 (539)
                      -.+.+.++...-.+..+...+.. +.++..+..|...|.+.+.+.+|...|+...+.  .|+...|+.+..++.+.|+..
T Consensus       302 ~~~l~~~d~~~l~k~~e~~l~~h-~~~p~L~~tLG~L~~k~~~w~kA~~~leaAl~~--~~s~~~~~~la~~~~~~g~~~  378 (400)
T COG3071         302 IPRLRPGDPEPLIKAAEKWLKQH-PEDPLLLSTLGRLALKNKLWGKASEALEAALKL--RPSASDYAELADALDQLGEPE  378 (400)
T ss_pred             HhhcCCCCchHHHHHHHHHHHhC-CCChhHHHHHHHHHHHhhHHHHHHHHHHHHHhc--CCChhhHHHHHHHHHHcCChH
Confidence            12344455555555555444432 224455555566666666666666666554443  455556666666666666666


Q ss_pred             HHHHHHHHHHh
Q 009255          413 DAFGLLSEMEE  423 (539)
Q Consensus       413 ~A~~~~~~~~~  423 (539)
                      +|.++.++...
T Consensus       379 ~A~~~r~e~L~  389 (400)
T COG3071         379 EAEQVRREALL  389 (400)
T ss_pred             HHHHHHHHHHH
Confidence            66665555543

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.64  E-value=3.9e-14  Score=117.28  Aligned_cols=238  Identities=13%  Similarity=0.104  Sum_probs=204.4

Q ss_pred             hhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHH
Q 009255          256 VSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGF  335 (539)
Q Consensus       256 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  335 (539)
                      .--..+..+|.+.|-+.+|.+.++..++.  .|-+.||-.|-.+|.+..++..|+.++.+-.+. ++-+......+.+.+
T Consensus       224 wWk~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~-fP~~VT~l~g~ARi~  300 (478)
T KOG1129|consen  224 WWKQQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS-FPFDVTYLLGQARIH  300 (478)
T ss_pred             HHHHHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc-CCchhhhhhhhHHHH
Confidence            33467889999999999999999998887  456778888999999999999999999998876 233555556677888


Q ss_pred             hcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHH
Q 009255          336 CSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAF  415 (539)
Q Consensus       336 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  415 (539)
                      ...++.+.|.++|+...+.. +.+++....+...|.-.++++-|..+++++...|.. ++..|+.+.-+|.-.+++|-++
T Consensus       301 eam~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L  378 (478)
T KOG1129|consen  301 EAMEQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVL  378 (478)
T ss_pred             HHHHhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhH
Confidence            89999999999999999874 457888888888888899999999999999999887 8999999999999999999999


Q ss_pred             HHHHHHHhCCCCCC--HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHh
Q 009255          416 GLLSEMEEKKLGPD--RYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHC  493 (539)
Q Consensus       416 ~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  493 (539)
                      .-|++++..--.|+  ..+|..++......||+.-|.+.|+.++..+                  +.+..++++|+-.-.
T Consensus       379 ~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d------------------~~h~ealnNLavL~~  440 (478)
T KOG1129|consen  379 PSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSD------------------AQHGEALNNLAVLAA  440 (478)
T ss_pred             HHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccC------------------cchHHHHHhHHHHHh
Confidence            99999987654455  4688889999999999999999999999887                  334449999999999


Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCCHH
Q 009255          494 SQGRYKDALQIFEETRQKGIAINKS  518 (539)
Q Consensus       494 ~~g~~~~A~~~~~~~~~~~~~p~~~  518 (539)
                      +.|+.++|..+++.+..  +.|+-.
T Consensus       441 r~G~i~~Arsll~~A~s--~~P~m~  463 (478)
T KOG1129|consen  441 RSGDILGARSLLNAAKS--VMPDMA  463 (478)
T ss_pred             hcCchHHHHHHHHHhhh--hCcccc
Confidence            99999999999999986  567643

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=99.60  E-value=1.7e-09  Score=98.48  Aligned_cols=441  Identities=12%  Similarity=0.080  Sum_probs=285.4

Q ss_pred             HHHHHHHHHHHHccCCHhHHHHHHHHHHhC-CCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHH
Q 009255           45 RTTYNILVSGYCKLGWLKEAMRVVDLMTQN-KSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLIN  123 (539)
Q Consensus        45 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  123 (539)
                      +.+|...+.....+|+....+..|+..+.. .+.....+|...+......|-++.+.+++++..+.    ++..-+..+.
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            456777778888899999999999988765 22234567888888888889999999999999873    4455777888


Q ss_pred             HHhccCCHhHHHHHHHHHHhCC------CCCCHHHHHHHHHHHHhcCCH---hHHHHHHHHHHHcCCCCCh--hhHHHHH
Q 009255          124 RFFESGRSMEAFKLIDELDEHG------IKPNAVTHNIMIKWYCKEGKI---DKACKIVRNMEENGFSPDC--VTYNTLI  192 (539)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~g~~---~~a~~~~~~~~~~~~~~~~--~~~~~l~  192 (539)
                      .++..+++++|-+.+..++...      .+.+-..|.-+-....+.-+.   -....+++.+...  -+|.  ..|.+|.
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            8999999999999998876431      233445565555555444332   2334455554433  2443  4789999


Q ss_pred             HHHHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCC----------------------HHHHHHHHHHHhhcC
Q 009255          193 DANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKK----------------------LDEAYMLLNSASKRG  250 (539)
Q Consensus       193 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------------------~~~a~~~~~~~~~~~  250 (539)
                      ..|.+.|.+++|.++|++....-  .+..-+..+..+|+.-..                      ++-....|+.+....
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            99999999999999999987752  233334444444432111                      122223333333321


Q ss_pred             Cc-----------cCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCC------CHhhHHHHHHHHHcCCCHHHHHHHH
Q 009255          251 YY-----------LDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMP------STFTYNAMIWGLSQSGKTEQAIDML  313 (539)
Q Consensus       251 ~~-----------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~------~~~~~~~l~~~~~~~~~~~~a~~~~  313 (539)
                      ..           .+...|..  ..-...|+..+-...|.++... +.|      -...|..+...|-..|+.+.|..+|
T Consensus       334 ~~~lNsVlLRQn~~nV~eW~k--RV~l~e~~~~~~i~tyteAv~~-vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvif  410 (835)
T KOG2047|consen  334 PLLLNSVLLRQNPHNVEEWHK--RVKLYEGNAAEQINTYTEAVKT-VDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIF  410 (835)
T ss_pred             chHHHHHHHhcCCccHHHHHh--hhhhhcCChHHHHHHHHHHHHc-cCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHH
Confidence            10           01111111  1122345666777777776653 111      2346888889999999999999999


Q ss_pred             HHHHHCCCCCC---HHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCC-----------------CHHhHHHHHHHHHhc
Q 009255          314 NELLQSGMIPD---ETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKP-----------------DIVTCNILLSGLCRE  373 (539)
Q Consensus       314 ~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-----------------~~~~~~~l~~~~~~~  373 (539)
                      ++..+...+.-   ..+|..-...-.+..+++.|..+.+.+....-.|                 +..+|...++.-...
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            99887643311   2233333344456678888888888876532111                 233555566666677


Q ss_pred             CCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCH-hhHHHHHHH---HHhcCCHHHH
Q 009255          374 GILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDR-YTYAAIHTA---LVESGRLEEA  449 (539)
Q Consensus       374 g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~l~~~---~~~~g~~~~A  449 (539)
                      |-++....+++++++..+. ++......+..+-.+.-++++.+.|++-+..-..|+. ..|+..+.-   -.....++.|
T Consensus       491 gtfestk~vYdriidLria-TPqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEra  569 (835)
T KOG2047|consen  491 GTFESTKAVYDRIIDLRIA-TPQIIINYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERA  569 (835)
T ss_pred             ccHHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHH
Confidence            8899999999999887554 5555555555666777889999999987765435554 333332222   2234568999


Q ss_pred             HHHHHHHHHcCCCCcccccCCCCCCCCCCCCChh--hHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCC
Q 009255          450 QKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSI--SYSEKINEHCSQGRYKDALQIFEETRQKGIAIN  516 (539)
Q Consensus       450 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~  516 (539)
                      +.+|+++++..                  ||...  .|...+..--+.|--..|+.+|+++.. +..+.
T Consensus       570 RdLFEqaL~~C------------------pp~~aKtiyLlYA~lEEe~GLar~amsiyerat~-~v~~a  619 (835)
T KOG2047|consen  570 RDLFEQALDGC------------------PPEHAKTIYLLYAKLEEEHGLARHAMSIYERATS-AVKEA  619 (835)
T ss_pred             HHHHHHHHhcC------------------CHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh-cCCHH
Confidence            99999999955                  45444  455555556667999999999999875 34443

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=99.60  E-value=6.1e-10  Score=101.55  Aligned_cols=468  Identities=16%  Similarity=0.106  Sum_probs=308.8

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHH
Q 009255           11 VTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGW   90 (539)
Q Consensus        11 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   90 (539)
                      ..|..++..| ..+++...+++.+.+++. .+-...+....+-.+...|+-++|........+..+. +.+.|..+.-.+
T Consensus         9 ~lF~~~lk~y-E~kQYkkgLK~~~~iL~k-~~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d~~-S~vCwHv~gl~~   85 (700)
T KOG1156|consen    9 ALFRRALKCY-ETKQYKKGLKLIKQILKK-FPEHGESLAMKGLTLNCLGKKEEAYELVRLGLRNDLK-SHVCWHVLGLLQ   85 (700)
T ss_pred             HHHHHHHHHH-HHHHHHhHHHHHHHHHHh-CCccchhHHhccchhhcccchHHHHHHHHHHhccCcc-cchhHHHHHHHH
Confidence            3455666655 678999999999999885 4556667777777778899999999999888886554 677888888888


Q ss_pred             HhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHH
Q 009255           91 CNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKAC  170 (539)
Q Consensus        91 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  170 (539)
                      ....++++|++.|......+ +.|...|.-+...-.+.++++.....-..+.+.. +-....|..++.++.-.|+...|.
T Consensus        86 R~dK~Y~eaiKcy~nAl~~~-~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~-~~~ra~w~~~Avs~~L~g~y~~A~  163 (700)
T KOG1156|consen   86 RSDKKYDEAIKCYRNALKIE-KDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLR-PSQRASWIGFAVAQHLLGEYKMAL  163 (700)
T ss_pred             hhhhhHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhh-hhhHHHHHHHHHHHHHHHHHHHHH
Confidence            88899999999999998875 4567777777776777888888877777776652 224567888888888899999999


Q ss_pred             HHHHHHHHcCC-CCChhhHHHHH------HHHHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHH
Q 009255          171 KIVRNMEENGF-SPDCVTYNTLI------DANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLL  243 (539)
Q Consensus       171 ~~~~~~~~~~~-~~~~~~~~~l~------~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  243 (539)
                      .+++...+... .|+...+....      ....+.|.+++|.+.+..-... +.........-...+.+.++.++|..++
T Consensus       164 ~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~-i~Dkla~~e~ka~l~~kl~~lEeA~~~y  242 (700)
T KOG1156|consen  164 EILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQ-IVDKLAFEETKADLLMKLGQLEEAVKVY  242 (700)
T ss_pred             HHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH-HHHHHHHhhhHHHHHHHHhhHHhHHHHH
Confidence            99999887542 45655554332      2345678888888887665433 2212223344556677899999999999


Q ss_pred             HHHhhcCCccCHhh-HHHHHHHHHccCCHHHHH-HHHHHHHHcCCCCCHhhHHHH-HHHHHcCCCHHHHHHHHHHHHHCC
Q 009255          244 NSASKRGYYLDEVS-YGTLITGYFRDEKANRAL-KLWDEMKERQIMPSTFTYNAM-IWGLSQSGKTEQAIDMLNELLQSG  320 (539)
Q Consensus       244 ~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~a~-~~~~~~~~~~~~~~~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~~  320 (539)
                      ..++...  ||... |..+..++....+..++. .+|....+.-  |....-..+ +....-..-.+..-.++....+.|
T Consensus       243 ~~Ll~rn--Pdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y--~r~e~p~Rlplsvl~~eel~~~vdkyL~~~l~Kg  318 (700)
T KOG1156|consen  243 RRLLERN--PDNLDYYEGLEKALGKIKDMLEALKALYAILSEKY--PRHECPRRLPLSVLNGEELKEIVDKYLRPLLSKG  318 (700)
T ss_pred             HHHHhhC--chhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcC--cccccchhccHHHhCcchhHHHHHHHHHHHhhcC
Confidence            9999884  44444 444455554333333333 6666555431  111111111 111111223344555666677777


Q ss_pred             CCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHH--------hCC----------CCCCHHhH--HHHHHHHHhcCCHHHHH
Q 009255          321 MIPDETTFNTIIHGFCSEGQVEKALQFHNKMV--------EKS----------FKPDIVTC--NILLSGLCREGILEKAL  380 (539)
Q Consensus       321 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~--------~~~----------~~~~~~~~--~~l~~~~~~~g~~~~A~  380 (539)
                      +++-.   ..+...|-...   ++. ++++..        ..+          -+|....|  ..++..+-..|+++.|.
T Consensus       319 ~p~vf---~dl~SLyk~p~---k~~-~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~laqh~D~~g~~~~A~  391 (700)
T KOG1156|consen  319 VPSVF---KDLRSLYKDPE---KVA-FLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQHYDKLGDYEVAL  391 (700)
T ss_pred             CCchh---hhhHHHHhchh---HhH-HHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHHHHHHHHHcccHHHHH
Confidence            66533   33333332211   111 222221        111          13444444  34566788899999999


Q ss_pred             HHHHHHHHcCCCCCh-hhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 009255          381 KFFRSWILKGKAVDS-VTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVET  459 (539)
Q Consensus       381 ~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  459 (539)
                      ..++..+..  .|+. ..|..=.+.+.+.|++++|..++++..+.+ .||..+-..-+.-..++++.++|.++..+..+.
T Consensus       392 ~yId~AIdH--TPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD-~aDR~INsKcAKYmLrAn~i~eA~~~~skFTr~  468 (700)
T KOG1156|consen  392 EYIDLAIDH--TPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELD-TADRAINSKCAKYMLRANEIEEAEEVLSKFTRE  468 (700)
T ss_pred             HHHHHHhcc--CchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhcc-chhHHHHHHHHHHHHHccccHHHHHHHHHhhhc
Confidence            999998875  3443 355555688999999999999999999765 556555446677778899999999999999887


Q ss_pred             CCCCcccccCCCCCCCCCCCCChh-hHHHH--HHHHhhcCCHHHHHHHHHHHHH
Q 009255          460 GKINHQVVQPNTSKTPEEIDPSSI-SYSEK--INEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       460 ~~~~~~~~~~~~~~~~~~~~~~~~-~~~~l--~~~~~~~g~~~~A~~~~~~~~~  510 (539)
                      +..   .+.+         -.+.. .|..+  +.+|.++|++.+|++-|..+-+
T Consensus       469 ~~~---~~~~---------L~~mqcmWf~~E~g~ay~r~~k~g~ALKkfh~i~k  510 (700)
T KOG1156|consen  469 GFG---AVNN---------LAEMQCMWFQLEDGEAYLRQNKLGLALKKFHEIEK  510 (700)
T ss_pred             ccc---hhhh---------HHHhhhHHHhHhhhHHHHHHHHHHHHHHHHhhHHH
Confidence            731   0000         01111 56544  6778899999888877666543

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.59  E-value=4.7e-10  Score=104.35  Aligned_cols=409  Identities=13%  Similarity=0.039  Sum_probs=200.7

Q ss_pred             CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCC-CHHHHHHH
Q 009255           78 PDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKP-NAVTHNIM  156 (539)
Q Consensus        78 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l  156 (539)
                      -+...|..+.-+....|+++.+.+.|++....- ......|..+...+...|.-..|..+++.-......| ++..+...
T Consensus       321 nd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~-~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~~Lma  399 (799)
T KOG4162|consen  321 NDAAIFDHLTFALSRCGQFEVLAEQFEQALPFS-FGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVLLMA  399 (799)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhh-hhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchHHHHH
Confidence            345555555555555566666655555554321 2234455555555555555555555555544332222 22222222


Q ss_pred             HHHHH-hcCCHhHHHHHHHHHHHc--C--CCCChhhHHHHHHHHHhc-----------CCHHHHHHHHHHHhhCCCCCCH
Q 009255          157 IKWYC-KEGKIDKACKIVRNMEEN--G--FSPDCVTYNTLIDANCKA-----------GNMEEAFRMMDVMGRKGLKMNT  220 (539)
Q Consensus       157 ~~~~~-~~g~~~~a~~~~~~~~~~--~--~~~~~~~~~~l~~~~~~~-----------~~~~~a~~~~~~~~~~~~~~~~  220 (539)
                      ...|. +.+..+++.+.-.++...  +  -...+..|..+.-+|...           ....++++.+++..+.+.. |+
T Consensus       400 sklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d~~-dp  478 (799)
T KOG4162|consen  400 SKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFDPT-DP  478 (799)
T ss_pred             HHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcCCC-Cc
Confidence            22222 234444444444444331  0  011223333333333211           1123455555555443321 33


Q ss_pred             HhHHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHH
Q 009255          221 ITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGL  300 (539)
Q Consensus       221 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  300 (539)
                      .....+.--|+..++.+.|.+..++..+.+...+...|..|...+...+++.+|+.+.+.....-.. |......-+..-
T Consensus       479 ~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~-N~~l~~~~~~i~  557 (799)
T KOG4162|consen  479 LVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGD-NHVLMDGKIHIE  557 (799)
T ss_pred             hHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhh-hhhhchhhhhhh
Confidence            3333333344555555666655555555544445555555555555556666666555554433110 111111112222


Q ss_pred             HcCCCHHHHHHHHHHHHHCC--CCCCHHhHH--HHHHH----HhcCCCHHHHHHHHHHHH--------hCC---------
Q 009255          301 SQSGKTEQAIDMLNELLQSG--MIPDETTFN--TIIHG----FCSEGQVEKALQFHNKMV--------EKS---------  355 (539)
Q Consensus       301 ~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~--~l~~~----~~~~~~~~~a~~~~~~~~--------~~~---------  355 (539)
                      ...++.++++.....+...-  ..+-..+..  ...+.    ....++..++......+.        ..+         
T Consensus       558 ~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~~~~~se~~Lp~s~  637 (799)
T KOG4162|consen  558 LTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQLKSAGSELKLPSST  637 (799)
T ss_pred             hhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhhhhcccccccCccc
Confidence            23455555555555543210  000000000  00000    000011111111111111        000         


Q ss_pred             C--CCC------HHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCC
Q 009255          356 F--KPD------IVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLG  427 (539)
Q Consensus       356 ~--~~~------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~  427 (539)
                      .  .|+      ...|......+.+.++.++|...+.+.... .+..+..|...+..+...|.+.+|.+.|..+...  .
T Consensus       638 ~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~-~~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~l--d  714 (799)
T KOG4162|consen  638 VLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKI-DPLSASVYYLRGLLLEVKGQLEEAKEAFLVALAL--D  714 (799)
T ss_pred             ccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhc-chhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHhc--C
Confidence            0  111      123444555666777777777777666654 2334556666667777778888888888877743  4


Q ss_pred             CC-HhhHHHHHHHHHhcCCHHHHHH--HHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHH
Q 009255          428 PD-RYTYAAIHTALVESGRLEEAQK--FTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQI  504 (539)
Q Consensus       428 ~~-~~~~~~l~~~~~~~g~~~~A~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  504 (539)
                      |+ ..+..+++.++.+.|+..-|..  ++..+++.+                  +.+..+|..++..+.+.|+.+.|.+.
T Consensus       715 P~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~d------------------p~n~eaW~~LG~v~k~~Gd~~~Aaec  776 (799)
T KOG4162|consen  715 PDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLD------------------PLNHEAWYYLGEVFKKLGDSKQAAEC  776 (799)
T ss_pred             CCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhC------------------CCCHHHHHHHHHHHHHccchHHHHHH
Confidence            44 4667778888888887766666  888888877                  34445888888888888888888888


Q ss_pred             HHHHHH
Q 009255          505 FEETRQ  510 (539)
Q Consensus       505 ~~~~~~  510 (539)
                      |..+.+
T Consensus       777 f~aa~q  782 (799)
T KOG4162|consen  777 FQAALQ  782 (799)
T ss_pred             HHHHHh
Confidence            888776

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=99.59  E-value=7.8e-10  Score=100.87  Aligned_cols=433  Identities=13%  Similarity=0.084  Sum_probs=294.4

Q ss_pred             HHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHh
Q 009255           47 TYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFF  126 (539)
Q Consensus        47 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  126 (539)
                      .|..++.+| ..+++...++..+.+.+..+. ...+.....-.+...|+-++|......-...+ ..+.+.|+.+.-.+.
T Consensus        10 lF~~~lk~y-E~kQYkkgLK~~~~iL~k~~e-HgeslAmkGL~L~~lg~~~ea~~~vr~glr~d-~~S~vCwHv~gl~~R   86 (700)
T KOG1156|consen   10 LFRRALKCY-ETKQYKKGLKLIKQILKKFPE-HGESLAMKGLTLNCLGKKEEAYELVRLGLRND-LKSHVCWHVLGLLQR   86 (700)
T ss_pred             HHHHHHHHH-HHHHHHhHHHHHHHHHHhCCc-cchhHHhccchhhcccchHHHHHHHHHHhccC-cccchhHHHHHHHHh
Confidence            445555554 678899999999988885332 44555555556677899999999988887755 457788999999898


Q ss_pred             ccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCHHHHHH
Q 009255          127 ESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFR  206 (539)
Q Consensus       127 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  206 (539)
                      ..+++++|++.|..+...+. .|...+.-+.-.-++.|+++........+.+.. +.....|..++.++.-.|++..|..
T Consensus        87 ~dK~Y~eaiKcy~nAl~~~~-dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~-~~~ra~w~~~Avs~~L~g~y~~A~~  164 (700)
T KOG1156|consen   87 SDKKYDEAIKCYRNALKIEK-DNLQILRDLSLLQIQMRDYEGYLETRNQLLQLR-PSQRASWIGFAVAQHLLGEYKMALE  164 (700)
T ss_pred             hhhhHHHHHHHHHHHHhcCC-CcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhh-hhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999988743 367778777777778899998888888887752 3344567888888889999999999


Q ss_pred             HHHHHhhCC-CCCCHHhHHHHH------HHHhccCCHHHHHHHHHHHhhcCCccCHhh-HHHHHHHHHccCCHHHHHHHH
Q 009255          207 MMDVMGRKG-LKMNTITLNTIL------HTLCCEKKLDEAYMLLNSASKRGYYLDEVS-YGTLITGYFRDEKANRALKLW  278 (539)
Q Consensus       207 ~~~~~~~~~-~~~~~~~~~~l~------~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~a~~~~  278 (539)
                      ++++..+.. ..|+...+....      ......|..+.|.+.+......  ..|... -..-...+.+.+++++|..++
T Consensus       165 il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~--i~Dkla~~e~ka~l~~kl~~lEeA~~~y  242 (700)
T KOG1156|consen  165 ILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQ--IVDKLAFEETKADLLMKLGQLEEAVKVY  242 (700)
T ss_pred             HHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH--HHHHHHHhhhHHHHHHHHhhHHhHHHHH
Confidence            999988764 345665554332      3344667778887777665543  112222 234456778899999999999


Q ss_pred             HHHHHcCCCCCHhhHHHHHH-HHHcCCCHHHHH-HHHHHHHHCCCCCCHHhHHHH-HHHHhcCCCHHHHHHHHHHHHhCC
Q 009255          279 DEMKERQIMPSTFTYNAMIW-GLSQSGKTEQAI-DMLNELLQSGMIPDETTFNTI-IHGFCSEGQVEKALQFHNKMVEKS  355 (539)
Q Consensus       279 ~~~~~~~~~~~~~~~~~l~~-~~~~~~~~~~a~-~~~~~~~~~~~~~~~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~~  355 (539)
                      ..++..+  ||...|..... ++..-.+..++. .+|....+.-  |.......+ +.......-.+....++...++.|
T Consensus       243 ~~Ll~rn--Pdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y--~r~e~p~Rlplsvl~~eel~~~vdkyL~~~l~Kg  318 (700)
T KOG1156|consen  243 RRLLERN--PDNLDYYEGLEKALGKIKDMLEALKALYAILSEKY--PRHECPRRLPLSVLNGEELKEIVDKYLRPLLSKG  318 (700)
T ss_pred             HHHHhhC--chhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcC--cccccchhccHHHhCcchhHHHHHHHHHHHhhcC
Confidence            9999874  56655555444 443333344444 5666555432  222221111 111122233445556677777777


Q ss_pred             CCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHH----cC----------CCCChhhHH--HHHHHHHccCChHHHHHHHH
Q 009255          356 FKPDIVTCNILLSGLCREGILEKALKFFRSWIL----KG----------KAVDSVTYN--TLISSLCKERRLEDAFGLLS  419 (539)
Q Consensus       356 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~----------~~~~~~~~~--~l~~~~~~~~~~~~A~~~~~  419 (539)
                      +++   ++..+...|-.....+--.++.-.+..    .|          .+|....|.  .++..+...|+++.|...++
T Consensus       319 ~p~---vf~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~laqh~D~~g~~~~A~~yId  395 (700)
T KOG1156|consen  319 VPS---VFKDLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQHYDKLGDYEVALEYID  395 (700)
T ss_pred             CCc---hhhhhHHHHhchhHhHHHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHHHHHHHHHcccHHHHHHHHH
Confidence            654   333444444322222111111111111    10          255555554  56778889999999999999


Q ss_pred             HHHhCCCCCCH-hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCH
Q 009255          420 EMEEKKLGPDR-YTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRY  498 (539)
Q Consensus       420 ~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  498 (539)
                      .++++  .|+. .-|..-++.+...|++++|..+++.+.+.+                  .||...-...+.-..++.+.
T Consensus       396 ~AIdH--TPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD------------------~aDR~INsKcAKYmLrAn~i  455 (700)
T KOG1156|consen  396 LAIDH--TPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELD------------------TADRAINSKCAKYMLRANEI  455 (700)
T ss_pred             HHhcc--CchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhcc------------------chhHHHHHHHHHHHHHcccc
Confidence            99954  6764 556666788999999999999999999988                  56666665778888899999


Q ss_pred             HHHHHHHHHHHHcCC
Q 009255          499 KDALQIFEETRQKGI  513 (539)
Q Consensus       499 ~~A~~~~~~~~~~~~  513 (539)
                      ++|.++.......|.
T Consensus       456 ~eA~~~~skFTr~~~  470 (700)
T KOG1156|consen  456 EEAEEVLSKFTREGF  470 (700)
T ss_pred             HHHHHHHHHhhhccc
Confidence            999999999987663

>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=99.58  E-value=2.3e-10  Score=107.00  Aligned_cols=294  Identities=16%  Similarity=0.096  Sum_probs=203.0

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhc--
Q 009255           16 ILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNA--   93 (539)
Q Consensus        16 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--   93 (539)
                      ....+...|++++|++.++.-... +.............+.+.|+.++|..++..++..++. +..-|..+..+....  
T Consensus        10 ~~~il~e~g~~~~AL~~L~~~~~~-I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rNPd-n~~Yy~~L~~~~g~~~~   87 (517)
T PF12569_consen   10 KNSILEEAGDYEEALEHLEKNEKQ-ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRNPD-NYDYYRGLEEALGLQLQ   87 (517)
T ss_pred             HHHHHHHCCCHHHHHHHHHhhhhh-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHhhhcc
Confidence            345678899999999999886665 3444556778889999999999999999999998754 555566666665332  


Q ss_pred             ---CChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCH-hHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHH
Q 009255           94 ---GMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRS-MEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKA  169 (539)
Q Consensus        94 ---g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  169 (539)
                         .+.+....+++++...  .|.......+...+.....+ ..+..++..+...|++   .+|..+-..|......+-.
T Consensus        88 ~~~~~~~~~~~~y~~l~~~--yp~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvP---slF~~lk~Ly~d~~K~~~i  162 (517)
T PF12569_consen   88 LSDEDVEKLLELYDELAEK--YPRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVP---SLFSNLKPLYKDPEKAAII  162 (517)
T ss_pred             cccccHHHHHHHHHHHHHh--CccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCc---hHHHHHHHHHcChhHHHHH
Confidence               2467778888888765  34444443343333332233 2455666677777765   3456666666655555555


Q ss_pred             HHHHHHHHHc----C----------CCCChh--hHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhcc
Q 009255          170 CKIVRNMEEN----G----------FSPDCV--TYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCE  233 (539)
Q Consensus       170 ~~~~~~~~~~----~----------~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  233 (539)
                      .+++......    +          -+|+..  ++..+...|...|++++|++++++.+... +..+..|..-.+.+-..
T Consensus       163 ~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~ht-Pt~~ely~~KarilKh~  241 (517)
T PF12569_consen  163 ESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHT-PTLVELYMTKARILKHA  241 (517)
T ss_pred             HHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHC
Confidence            5666555432    1          123442  44556777888999999999999888873 22467788888888999


Q ss_pred             CCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHh--------hHHHHHHHHHcCCC
Q 009255          234 KKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTF--------TYNAMIWGLSQSGK  305 (539)
Q Consensus       234 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--------~~~~l~~~~~~~~~  305 (539)
                      |++.+|...++.+...+.. |...-+-.+..+.+.|+.++|.+++......+..|...        -......+|.+.|+
T Consensus       242 G~~~~Aa~~~~~Ar~LD~~-DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~  320 (517)
T PF12569_consen  242 GDLKEAAEAMDEARELDLA-DRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGD  320 (517)
T ss_pred             CCHHHHHHHHHHHHhCChh-hHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhh
Confidence            9999999999998887543 66666677788889999999999988887655322221        12345577888888


Q ss_pred             HHHHHHHHHHHHH
Q 009255          306 TEQAIDMLNELLQ  318 (539)
Q Consensus       306 ~~~a~~~~~~~~~  318 (539)
                      +..|++.|..+.+
T Consensus       321 ~~~ALk~~~~v~k  333 (517)
T PF12569_consen  321 YGLALKRFHAVLK  333 (517)
T ss_pred             HHHHHHHHHHHHH
Confidence            8888888877654

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 [], [].

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.58  E-value=1.8e-09  Score=100.62  Aligned_cols=121  Identities=13%  Similarity=0.078  Sum_probs=101.7

Q ss_pred             hHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCC
Q 009255          397 TYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPE  476 (539)
Q Consensus       397 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~  476 (539)
                      .|......+...++.++|...+.++... .+-....|...+..+...|.+++|.+.|..++..+                
T Consensus       652 lwllaa~~~~~~~~~~~a~~CL~Ea~~~-~~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~ld----------------  714 (799)
T KOG4162|consen  652 LWLLAADLFLLSGNDDEARSCLLEASKI-DPLSASVYYLRGLLLEVKGQLEEAKEAFLVALALD----------------  714 (799)
T ss_pred             HHHHHHHHHHhcCCchHHHHHHHHHHhc-chhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHhcC----------------
Confidence            3556677788889999999999888754 24456677777888889999999999999999987                


Q ss_pred             CCCCChh-hHHHHHHHHhhcCCHHHHHH--HHHHHHHcCCCCCHHHHHHHHHHHHhcCCchhhccC
Q 009255          477 EIDPSSI-SYSEKINEHCSQGRYKDALQ--IFEETRQKGIAINKSTYMNLMNGLIKRRKSISKAVD  539 (539)
Q Consensus       477 ~~~~~~~-~~~~l~~~~~~~g~~~~A~~--~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~A~~  539 (539)
                         |+.. ....++.++.+.|+..-|..  ++..+++  +.|+...+...++..++..|+.++|.|
T Consensus       715 ---P~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr--~dp~n~eaW~~LG~v~k~~Gd~~~Aae  775 (799)
T KOG4162|consen  715 ---PDHVPSMTALAELLLELGSPRLAEKRSLLSDALR--LDPLNHEAWYYLGEVFKKLGDSKQAAE  775 (799)
T ss_pred             ---CCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHh--hCCCCHHHHHHHHHHHHHccchHHHHH
Confidence               5554 99999999999999888877  9999997  679999999999999999998888854

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.55  E-value=1.3e-09  Score=93.89  Aligned_cols=302  Identities=10%  Similarity=-0.036  Sum_probs=209.6

Q ss_pred             cCCHHHHHHHHHHHhh-CCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHH
Q 009255          198 AGNMEEAFRMMDVMGR-KGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALK  276 (539)
Q Consensus       198 ~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  276 (539)
                      .++...+...+-.+.. .-++-|...+..+..++...|+.++|...|++....+.. +........-.+.+.|+.+....
T Consensus       209 ~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dpy-~i~~MD~Ya~LL~~eg~~e~~~~  287 (564)
T KOG1174|consen  209 NFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCANPD-NVEAMDLYAVLLGQEGGCEQDSA  287 (564)
T ss_pred             hcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCChh-hhhhHHHHHHHHHhccCHhhHHH
Confidence            3444444444333322 235667777888888888889999988888887765321 22222223334557788888777


Q ss_pred             HHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCC
Q 009255          277 LWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSF  356 (539)
Q Consensus       277 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  356 (539)
                      +...+....- -....|..-+.......+++.|+.+-++.++.... +...+..-...+...|+.+.|.-.|+...... 
T Consensus       288 L~~~Lf~~~~-~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~~r-~~~alilKG~lL~~~~R~~~A~IaFR~Aq~La-  364 (564)
T KOG1174|consen  288 LMDYLFAKVK-YTASHWFVHAQLLYDEKKFERALNFVEKCIDSEPR-NHEALILKGRLLIALERHTQAVIAFRTAQMLA-  364 (564)
T ss_pred             HHHHHHhhhh-cchhhhhhhhhhhhhhhhHHHHHHHHHHHhccCcc-cchHHHhccHHHHhccchHHHHHHHHHHHhcc-
Confidence            7777655421 13334444445555677888898888888776433 45556555667788899999999998888763 


Q ss_pred             CCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHH-HHHHc-cCChHHHHHHHHHHHhCCCCCC-HhhH
Q 009255          357 KPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLI-SSLCK-ERRLEDAFGLLSEMEEKKLGPD-RYTY  433 (539)
Q Consensus       357 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~-~~~~~-~~~~~~A~~~~~~~~~~~~~~~-~~~~  433 (539)
                      +.+..+|..|+..|...|.+.+|..+-+..... .+.+..+...++ .++.. -.--++|.+++++...  +.|+ ....
T Consensus       365 p~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~--~~P~Y~~AV  441 (564)
T KOG1174|consen  365 PYRLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLK--INPIYTPAV  441 (564)
T ss_pred             hhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHHHHhhhc--cCCccHHHH
Confidence            347889999999999999999988877766654 333555555442 33322 2234788888888874  4666 4566


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCC
Q 009255          434 AAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGI  513 (539)
Q Consensus       434 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  513 (539)
                      ..++..|...|+.++++.++++.+...                   ||....+.|++.+...+.+++|.+.|..++.  +
T Consensus       442 ~~~AEL~~~Eg~~~D~i~LLe~~L~~~-------------------~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr--~  500 (564)
T KOG1174|consen  442 NLIAELCQVEGPTKDIIKLLEKHLIIF-------------------PDVNLHNHLGDIMRAQNEPQKAMEYYYKALR--Q  500 (564)
T ss_pred             HHHHHHHHhhCccchHHHHHHHHHhhc-------------------cccHHHHHHHHHHHHhhhHHHHHHHHHHHHh--c
Confidence            778888899999999999999999886                   8888999999999999999999999999986  5


Q ss_pred             CCCHHHHHHHHHHH
Q 009255          514 AINKSTYMNLMNGL  527 (539)
Q Consensus       514 ~p~~~~~~~~l~~~  527 (539)
                      .|++.-...=+.-+
T Consensus       501 dP~~~~sl~Gl~~l  514 (564)
T KOG1174|consen  501 DPKSKRTLRGLRLL  514 (564)
T ss_pred             CccchHHHHHHHHH
Confidence            78776444434333

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.53  E-value=3.1e-09  Score=91.75  Aligned_cols=289  Identities=12%  Similarity=0.026  Sum_probs=212.3

Q ss_pred             cCCHhHHHHHHHHHHH-cCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHH
Q 009255          163 EGKIDKACKIVRNMEE-NGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYM  241 (539)
Q Consensus       163 ~g~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  241 (539)
                      .++...+...+-.+.. .-++.|......+...+...|+.++|+..|++....+ +-+...+......+.+.|+.+....
T Consensus       209 ~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~d-py~i~~MD~Ya~LL~~eg~~e~~~~  287 (564)
T KOG1174|consen  209 NFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCAN-PDNVEAMDLYAVLLGQEGGCEQDSA  287 (564)
T ss_pred             hcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCC-hhhhhhHHHHHHHHHhccCHhhHHH
Confidence            4444444444433332 2256678888899999999999999999999887652 1133344445556678888888888


Q ss_pred             HHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCC
Q 009255          242 LLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGM  321 (539)
Q Consensus       242 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  321 (539)
                      +...+....- .+...|..-+......+++..|+.+-++.+..+.. +...+-.-...+...+++++|.-.|+.++...+
T Consensus       288 L~~~Lf~~~~-~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~~r-~~~alilKG~lL~~~~R~~~A~IaFR~Aq~Lap  365 (564)
T KOG1174|consen  288 LMDYLFAKVK-YTASHWFVHAQLLYDEKKFERALNFVEKCIDSEPR-NHEALILKGRLLIALERHTQAVIAFRTAQMLAP  365 (564)
T ss_pred             HHHHHHhhhh-cchhhhhhhhhhhhhhhhHHHHHHHHHHHhccCcc-cchHHHhccHHHHhccchHHHHHHHHHHHhcch
Confidence            8777765431 13334444445556678899999998888876443 455666666788899999999999998887532


Q ss_pred             CCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHH-HHHH-hcCCHHHHHHHHHHHHHcCCCCC-hhhH
Q 009255          322 IPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILL-SGLC-REGILEKALKFFRSWILKGKAVD-SVTY  398 (539)
Q Consensus       322 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~-~~~~-~~g~~~~A~~~~~~~~~~~~~~~-~~~~  398 (539)
                       -+..+|..++.+|...|.+.+|...-....+. ++.+..+...+. .++. ....-++|.++++.....  .|+ ....
T Consensus       366 -~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~--~P~Y~~AV  441 (564)
T KOG1174|consen  366 -YRLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKI--NPIYTPAV  441 (564)
T ss_pred             -hhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHHHHhhhcc--CCccHHHH
Confidence             36789999999999999999998887777665 344666666653 3332 233457899999887765  444 3366


Q ss_pred             HHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          399 NTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       399 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      +.+...+...|...+++.++++...  ..||......++..+...+.+++|...|..++..+
T Consensus       442 ~~~AEL~~~Eg~~~D~i~LLe~~L~--~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~d  501 (564)
T KOG1174|consen  442 NLIAELCQVEGPTKDIIKLLEKHLI--IFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQD  501 (564)
T ss_pred             HHHHHHHHhhCccchHHHHHHHHHh--hccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Confidence            7788888899999999999999885  47888888999999999999999999999999987

>PRK12370 invasion protein regulator; Provisional

Probab=99.52  E-value=1.2e-11  Score=119.89  Aligned_cols=148  Identities=11%  Similarity=-0.064  Sum_probs=62.9

Q ss_pred             HHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHH
Q 009255          271 ANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNK  350 (539)
Q Consensus       271 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  350 (539)
                      +++|...+++..+.++. +...+..+...+...|++++|...++++.+..+. +...+..+..++...|++++|...+++
T Consensus       320 ~~~A~~~~~~Al~ldP~-~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~-~~~a~~~lg~~l~~~G~~~eAi~~~~~  397 (553)
T PRK12370        320 MIKAKEHAIKATELDHN-NPQALGLLGLINTIHSEYIVGSLLFKQANLLSPI-SADIKYYYGWNLFMAGQLEEALQTINE  397 (553)
T ss_pred             HHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            44455555544444332 3444444444444445555555555554443221 233344444444445555555555555


Q ss_pred             HHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHH
Q 009255          351 MVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEM  421 (539)
Q Consensus       351 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  421 (539)
                      +++..+. +...+..++..+...|++++|...++++.....+.++..+..+..++...|++++|...+.++
T Consensus       398 Al~l~P~-~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~  467 (553)
T PRK12370        398 CLKLDPT-RAAAGITKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEI  467 (553)
T ss_pred             HHhcCCC-ChhhHHHHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHh
Confidence            4443211 111122222223334444555555444443311112223344444444455555555554444

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.52  E-value=2.2e-11  Score=105.66  Aligned_cols=200  Identities=15%  Similarity=0.097  Sum_probs=136.4

Q ss_pred             HhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHH
Q 009255          290 TFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSG  369 (539)
Q Consensus       290 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  369 (539)
                      ...+..+...+...|++++|...++++.+..+ .+...+..+...+...|++++|...+++..+.. +.+...+..+...
T Consensus        31 ~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p-~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~  108 (234)
T TIGR02521        31 AKIRVQLALGYLEQGDLEVAKENLDKALEHDP-DDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTF  108 (234)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHH
Confidence            44555666666777777777777777665432 244556666677777777777777777777653 2355566667777


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCC-CCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHH
Q 009255          370 LCREGILEKALKFFRSWILKGK-AVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEE  448 (539)
Q Consensus       370 ~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  448 (539)
                      +...|++++|.+.++++..... +.....+..+..++...|++++|...+.+..... +.+...+..++..+...|++++
T Consensus       109 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~  187 (234)
T TIGR02521       109 LCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID-PQRPESLLELAELYYLRGQYKD  187 (234)
T ss_pred             HHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHHHcCCHHH
Confidence            7777788888887777765422 1233456667777778888888888888877643 3345566677777888888888


Q ss_pred             HHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHH
Q 009255          449 AQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       449 A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  510 (539)
                      |.++++++++..                  +.+...+..++..+...|+.++|..+.+.+..
T Consensus       188 A~~~~~~~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       188 ARAYLERYQQTY------------------NQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHHHHhC------------------CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            888888877764                  24445666777777788888888887777654

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.

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.51  E-value=6e-09  Score=94.20  Aligned_cols=453  Identities=13%  Similarity=0.077  Sum_probs=261.7

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHH
Q 009255           12 TYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWC   91 (539)
Q Consensus        12 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   91 (539)
                      .+-+=++.+..+|++++|.+...+++..+ |.+..++..=+.++++.++|++|+.+.+.-.... ..+...| .-.-+..
T Consensus        14 ~l~t~ln~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~~-~~~~~~f-EKAYc~Y   90 (652)
T KOG2376|consen   14 ALLTDLNRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKKNGALL-VINSFFF-EKAYCEY   90 (652)
T ss_pred             HHHHHHHHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchhh-hcchhhH-HHHHHHH
Confidence            34445677788999999999999999886 6678888899999999999999996665433210 0111111 2233445


Q ss_pred             hcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCHhHHH
Q 009255           92 NAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKP-NAVTHNIMIKWYCKEGKIDKAC  170 (539)
Q Consensus        92 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~  170 (539)
                      +.+..++|+..++-..    +.+..+...-...+.+.|++++|+++|+.+.+.+... +...-..++.+-    ..-.+.
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    2344577777888999999999999999998875431 111222222211    111111


Q ss_pred             HHHHHHHHcCCCCChhhHHH---HHHHHHhcCCHHHHHHHHHHHhhC-------CCCCCHH-------hHHHHHHHHhcc
Q 009255          171 KIVRNMEENGFSPDCVTYNT---LIDANCKAGNMEEAFRMMDVMGRK-------GLKMNTI-------TLNTILHTLCCE  233 (539)
Q Consensus       171 ~~~~~~~~~~~~~~~~~~~~---l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~~-------~~~~l~~~~~~~  233 (539)
                       +.+....   .| ..+|..   ..-.+...|++.+|+++++...+.       +-.-+..       +-..+.-++-..
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 -LLQSVPE---VP-EDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQ  237 (652)
T ss_pred             -HHHhccC---CC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHh
Confidence             2222221   22 223332   344567889999999999887221       1111111       223455566788


Q ss_pred             CCHHHHHHHHHHHhhcCCccCHh----hHHHHHHHHHccCCHH-HHHHHHHHHHHcCC----------CCCHhhH-HHHH
Q 009255          234 KKLDEAYMLLNSASKRGYYLDEV----SYGTLITGYFRDEKAN-RALKLWDEMKERQI----------MPSTFTY-NAMI  297 (539)
Q Consensus       234 ~~~~~a~~~~~~~~~~~~~~~~~----~~~~l~~~~~~~~~~~-~a~~~~~~~~~~~~----------~~~~~~~-~~l~  297 (539)
                      |+..+|..++..+++.... |..    ..|.|+.+-....-.+ .++..++.......          .-..... +.++
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 GQTAEASSIYVDIIKRNPA-DEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALL  316 (652)
T ss_pred             cchHHHHHHHHHHHHhcCC-CchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999887643 322    2222332211111111 12222222211100          0001111 1222


Q ss_pred             HHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhc--CCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCC
Q 009255          298 WGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCS--EGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGI  375 (539)
Q Consensus       298 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  375 (539)
                      ..|  .+..+.+.++......  ..|. ..+..++..+.+  .....++.+++....+........+....+......|+
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  2334444444332221  1222 233334433322  22466777777777765433335566667777888999


Q ss_pred             HHHHHHHHH--------HHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhC---CC--CCC-HhhHHHHHHHHH
Q 009255          376 LEKALKFFR--------SWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEK---KL--GPD-RYTYAAIHTALV  441 (539)
Q Consensus       376 ~~~A~~~~~--------~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~---~~--~~~-~~~~~~l~~~~~  441 (539)
                      ++.|.+++.        .+.+.+.  .+.+...+...+.+.++-+.|..++.+++..   ..  .+. ...+..++..-.
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            999999988        4444433  3445566666777777777777777776642   10  111 123333444455


Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHH
Q 009255          442 ESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEE  507 (539)
Q Consensus       442 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  507 (539)
                      +.|+-++|...++++++.+                  +++..+...++.+|+.. +++.|..+-+.
T Consensus       470 r~G~~~ea~s~leel~k~n------------------~~d~~~l~~lV~a~~~~-d~eka~~l~k~  516 (652)
T KOG2376|consen  470 RHGNEEEASSLLEELVKFN------------------PNDTDLLVQLVTAYARL-DPEKAESLSKK  516 (652)
T ss_pred             hcCchHHHHHHHHHHHHhC------------------CchHHHHHHHHHHHHhc-CHHHHHHHhhc
Confidence            7799999999999999987                  56677888888887764 45666655443

>PRK12370 invasion protein regulator; Provisional

Probab=99.50  E-value=2.5e-11  Score=117.63  Aligned_cols=233  Identities=15%  Similarity=0.027  Sum_probs=170.1

Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHH---------cCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCC
Q 009255          269 EKANRALKLWDEMKERQIMPSTFTYNAMIWGLS---------QSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEG  339 (539)
Q Consensus       269 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~---------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  339 (539)
                      +..++|...|++..+..+. +...|..+..++.         ..+++++|...++++.+..+. +...+..+...+...|
T Consensus       275 ~~~~~A~~~~~~Al~ldP~-~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ldP~-~~~a~~~lg~~~~~~g  352 (553)
T PRK12370        275 YSLQQALKLLTQCVNMSPN-SIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELDHN-NPQALGLLGLINTIHS  352 (553)
T ss_pred             HHHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHcc
Confidence            4567888888888877543 4556665555443         234588999999999887543 6677778888888999


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHH
Q 009255          340 QVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLS  419 (539)
Q Consensus       340 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~  419 (539)
                      ++++|...++++++.+ +.+...+..+..++...|++++|...++++....+. ++..+..++..+...|++++|+..++
T Consensus       353 ~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~-~~~~~~~~~~~~~~~g~~eeA~~~~~  430 (553)
T PRK12370        353 EYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINECLKLDPT-RAAAGITKLWITYYHTGIDDAIRLGD  430 (553)
T ss_pred             CHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-ChhhHHHHHHHHHhccCHHHHHHHHH
Confidence            9999999999999875 346778888899999999999999999999887433 33334445555677899999999999


Q ss_pred             HHHhCCCCCC-HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChh-hHHHHHHHHhhcCC
Q 009255          420 EMEEKKLGPD-RYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSI-SYSEKINEHCSQGR  497 (539)
Q Consensus       420 ~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~  497 (539)
                      ++.... +|+ ...+..++.++...|++++|.+.++++....                   |+.. .++.++..|...| 
T Consensus       431 ~~l~~~-~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~-------------------~~~~~~~~~l~~~~~~~g-  489 (553)
T PRK12370        431 ELRSQH-LQDNPILLSMQVMFLSLKGKHELARKLTKEISTQE-------------------ITGLIAVNLLYAEYCQNS-  489 (553)
T ss_pred             HHHHhc-cccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhcc-------------------chhHHHHHHHHHHHhccH-
Confidence            987653 343 4556678888889999999999998876654                   5444 6777777888888 


Q ss_pred             HHHHHHHHHHHHH-cCCCCCHHHHHHHHHHH
Q 009255          498 YKDALQIFEETRQ-KGIAINKSTYMNLMNGL  527 (539)
Q Consensus       498 ~~~A~~~~~~~~~-~~~~p~~~~~~~~l~~~  527 (539)
                       ++|...++++.+ ..-.|....+...+-++
T Consensus       490 -~~a~~~l~~ll~~~~~~~~~~~~~~~~~~~  519 (553)
T PRK12370        490 -ERALPTIREFLESEQRIDNNPGLLPLVLVA  519 (553)
T ss_pred             -HHHHHHHHHHHHHhhHhhcCchHHHHHHHH
Confidence             478777777665 22344444444443333

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.50  E-value=5.2e-12  Score=104.94  Aligned_cols=237  Identities=11%  Similarity=-0.002  Sum_probs=196.3

Q ss_pred             CCHHhHHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHH
Q 009255          218 MNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMI  297 (539)
Q Consensus       218 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  297 (539)
                      .|-..-..+.++|.+.|...+|.+.++...+.  .+.+.+|..|-..|.+..++..|+.++.+-++.-+ .+........
T Consensus       221 ~dwwWk~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~fP-~~VT~l~g~A  297 (478)
T KOG1129|consen  221 LDWWWKQQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDSFP-FDVTYLLGQA  297 (478)
T ss_pred             HhHHHHHHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhcCC-chhhhhhhhH
Confidence            34445567889999999999999999988876  45677888899999999999999999998887632 2444455667


Q ss_pred             HHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHH
Q 009255          298 WGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILE  377 (539)
Q Consensus       298 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  377 (539)
                      ..+...++.++|.++++...+... .+.+....+...|.-.++++-|..+|+++++.|+. +++.|..+.-+|.-.++++
T Consensus       298 Ri~eam~~~~~a~~lYk~vlk~~~-~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D  375 (478)
T KOG1129|consen  298 RIHEAMEQQEDALQLYKLVLKLHP-INVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQID  375 (478)
T ss_pred             HHHHHHHhHHHHHHHHHHHHhcCC-ccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchh
Confidence            788888999999999999888643 36677777778888899999999999999999865 8899999999999999999


Q ss_pred             HHHHHHHHHHHcCCCCC--hhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHH
Q 009255          378 KALKFFRSWILKGKAVD--SVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSI  455 (539)
Q Consensus       378 ~A~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  455 (539)
                      -++.-|++....-..|+  ..+|..+.......||+..|.+.|+-.+..+ ..+...++.|+-.-.+.|+.++|+.++..
T Consensus       376 ~~L~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d-~~h~ealnNLavL~~r~G~i~~Arsll~~  454 (478)
T KOG1129|consen  376 LVLPSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSD-AQHGEALNNLAVLAARSGDILGARSLLNA  454 (478)
T ss_pred             hhHHHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccC-cchHHHHHhHHHHHhhcCchHHHHHHHHH
Confidence            99999999887644444  4478889988899999999999999888653 44567888888888899999999999999


Q ss_pred             HHHcC
Q 009255          456 MVETG  460 (539)
Q Consensus       456 ~~~~~  460 (539)
                      +....
T Consensus       455 A~s~~  459 (478)
T KOG1129|consen  455 AKSVM  459 (478)
T ss_pred             hhhhC
Confidence            88776

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.50  E-value=3.1e-11  Score=104.69  Aligned_cols=201  Identities=16%  Similarity=0.066  Sum_probs=121.6

Q ss_pred             CHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHH
Q 009255           44 NRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLIN  123 (539)
Q Consensus        44 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  123 (539)
                      ....+..+...+...|++++|.+.+++..+..+. +...+..+...+...|++++|.+.+++..+.. +.+...+..+..
T Consensus        30 ~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~  107 (234)
T TIGR02521        30 AAKIRVQLALGYLEQGDLEVAKENLDKALEHDPD-DYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGT  107 (234)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHH
Confidence            3445666666666666777776666666654322 44555666666666667777766666666543 334455566666


Q ss_pred             HHhccCCHhHHHHHHHHHHhCCC-CCCHHHHHHHHHHHHhcCCHhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCHH
Q 009255          124 RFFESGRSMEAFKLIDELDEHGI-KPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNME  202 (539)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  202 (539)
                      .+...|++++|.+.+++...... ......+..+...+...|++++|...+++..+.. +.+...+..+...+...|+++
T Consensus       108 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~  186 (234)
T TIGR02521       108 FLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID-PQRPESLLELAELYYLRGQYK  186 (234)
T ss_pred             HHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHHHcCCHH
Confidence            66666777777777666655321 1233445556666667777777777776666542 223445666666666777777


Q ss_pred             HHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHhh
Q 009255          203 EAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASK  248 (539)
Q Consensus       203 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  248 (539)
                      +|...+++.... .+.+...+......+...|+.+.|..+.+.+..
T Consensus       187 ~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       187 DARAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            777777766654 233455555556666666777777666655543

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.

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=99.49  E-value=7.7e-10  Score=98.79  Aligned_cols=439  Identities=14%  Similarity=0.114  Sum_probs=267.7

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCh
Q 009255           17 LDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGML   96 (539)
Q Consensus        17 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~   96 (539)
                      .++.+..|+++.|+.+|-+.+... |+|-..|+.-..+|...|++++|++=-.+..+.++. =+..|+....++.-.|++
T Consensus         9 gnaa~s~~d~~~ai~~~t~ai~l~-p~nhvlySnrsaa~a~~~~~~~al~da~k~~~l~p~-w~kgy~r~Gaa~~~lg~~   86 (539)
T KOG0548|consen    9 GNAAFSSGDFETAIRLFTEAIMLS-PTNHVLYSNRSAAYASLGSYEKALKDATKTRRLNPD-WAKGYSRKGAALFGLGDY   86 (539)
T ss_pred             HHhhcccccHHHHHHHHHHHHccC-CCccchhcchHHHHHHHhhHHHHHHHHHHHHhcCCc-hhhHHHHhHHHHHhcccH
Confidence            456678899999999999999886 557778888899999999999998877777766433 346788888888889999


Q ss_pred             HHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHH-----HHHhcCCHhHHHH
Q 009255           97 EEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIK-----WYCKEGKIDKACK  171 (539)
Q Consensus        97 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~-----~~~~~g~~~~a~~  171 (539)
                      ++|+..|.+-.+.. +.+...+..+..++    ..+.+.     +.   ...++..|..+..     .+.....+..   
T Consensus        87 ~eA~~ay~~GL~~d-~~n~~L~~gl~~a~----~~~~~~-----~~---~~~~p~~~~~l~~~p~t~~~~~~~~~~~---  150 (539)
T KOG0548|consen   87 EEAILAYSEGLEKD-PSNKQLKTGLAQAY----LEDYAA-----DQ---LFTKPYFHEKLANLPLTNYSLSDPAYVK---  150 (539)
T ss_pred             HHHHHHHHHHhhcC-CchHHHHHhHHHhh----hHHHHh-----hh---hccCcHHHHHhhcChhhhhhhccHHHHH---
Confidence            99999999987753 33455566666665    111111     10   1112222222211     1111111111   


Q ss_pred             HHHHHHHcCCCCChhhHHHHHHHHHhcCCHHHHHHHHH-----HHhhCC-------CCCCHHhHHHHHHHHhccCCHHHH
Q 009255          172 IVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMD-----VMGRKG-------LKMNTITLNTILHTLCCEKKLDEA  239 (539)
Q Consensus       172 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~-----~~~~~~-------~~~~~~~~~~l~~~~~~~~~~~~a  239 (539)
                      +++.+..   .|+.      +..|........+.-.+.     .....+       ..|.    .......-..++..+-
T Consensus       151 ~l~~~~~---~p~~------l~~~l~d~r~m~a~~~l~~~~~~~~~~~~~~~~~~~~~p~----~~~~~~~~~~~d~~ee  217 (539)
T KOG0548|consen  151 ILEIIQK---NPTS------LKLYLNDPRLMKADGQLKGVDELLFYASGIEILASMAEPC----KQEHNGFPIIEDNTEE  217 (539)
T ss_pred             HHHHhhc---CcHh------hhcccccHHHHHHHHHHhcCccccccccccccCCCCCCcc----cccCCCCCccchhHHH
Confidence            1111111   1111      000111000111111110     000001       1111    0000000000011100


Q ss_pred             HHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHC
Q 009255          240 YMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQS  319 (539)
Q Consensus       240 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  319 (539)
                      .+.         ..-..-...+.....+..+++.+++.+....+..  .+..-++....+|...|....+...-....+.
T Consensus       218 ~~~---------k~~a~~ek~lgnaaykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~  286 (539)
T KOG0548|consen  218 RRV---------KEKAHKEKELGNAAYKKKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEV  286 (539)
T ss_pred             HHH---------HHhhhHHHHHHHHHHHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHH
Confidence            000         0012234556777777788888888888877764  25555666677788888888777777776665


Q ss_pred             CCCCCHHh-------HHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC
Q 009255          320 GMIPDETT-------FNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKA  392 (539)
Q Consensus       320 ~~~~~~~~-------~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  392 (539)
                      |.. ...-       +..+..++.+.++++.++..|.+.+...-.|+         ...+....+++.+..+...-.++.
T Consensus       287 gre-~rad~klIak~~~r~g~a~~k~~~~~~ai~~~~kaLte~Rt~~---------~ls~lk~~Ek~~k~~e~~a~~~pe  356 (539)
T KOG0548|consen  287 GRE-LRADYKLIAKALARLGNAYTKREDYEGAIKYYQKALTEHRTPD---------LLSKLKEAEKALKEAERKAYINPE  356 (539)
T ss_pred             hHH-HHHHHHHHHHHHHHhhhhhhhHHhHHHHHHHHHHHhhhhcCHH---------HHHHHHHHHHHHHHHHHHHhhChh
Confidence            433 1222       22344466667889999999998776533322         223334455565555544433222


Q ss_pred             CChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCC
Q 009255          393 VDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTS  472 (539)
Q Consensus       393 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~  472 (539)
                      - ..-...-+..+.+.|++..|+..|.+++... +.|...|...+-+|.+.|.+..|++-.+..++.+            
T Consensus       357 ~-A~e~r~kGne~Fk~gdy~~Av~~YteAIkr~-P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~------------  422 (539)
T KOG0548|consen  357 K-AEEEREKGNEAFKKGDYPEAVKHYTEAIKRD-PEDARLYSNRAACYLKLGEYPEALKDAKKCIELD------------  422 (539)
T ss_pred             H-HHHHHHHHHHHHhccCHHHHHHHHHHHHhcC-CchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC------------
Confidence            1 1122233667888999999999999999875 5567888899999999999999999999999987            


Q ss_pred             CCCCCCCCChh-hHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Q 009255          473 KTPEEIDPSSI-SYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGLIKR  530 (539)
Q Consensus       473 ~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~  530 (539)
                             |+.. .|..=+.++....+|++|++.|++.++  +.|+...+..-+.-|...
T Consensus       423 -------p~~~kgy~RKg~al~~mk~ydkAleay~eale--~dp~~~e~~~~~~rc~~a  472 (539)
T KOG0548|consen  423 -------PNFIKAYLRKGAALRAMKEYDKALEAYQEALE--LDPSNAEAIDGYRRCVEA  472 (539)
T ss_pred             -------chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--cCchhHHHHHHHHHHHHH
Confidence                   6555 888888899999999999999999997  579988888888877764

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.47  E-value=3.8e-09  Score=95.42  Aligned_cols=449  Identities=15%  Similarity=0.077  Sum_probs=253.2

Q ss_pred             HHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhc
Q 009255           48 YNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFE  127 (539)
Q Consensus        48 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  127 (539)
                      ..+=+..+...|++++|.+...++...++. +...+..-+-++.+.+++++|+.+.+.-...  ..+..-+..=..+..+
T Consensus        15 l~t~ln~~~~~~e~e~a~k~~~Kil~~~pd-d~~a~~cKvValIq~~ky~~ALk~ikk~~~~--~~~~~~~fEKAYc~Yr   91 (652)
T KOG2376|consen   15 LLTDLNRHGKNGEYEEAVKTANKILSIVPD-DEDAIRCKVVALIQLDKYEDALKLIKKNGAL--LVINSFFFEKAYCEYR   91 (652)
T ss_pred             HHHHHHHhccchHHHHHHHHHHHHHhcCCC-cHhhHhhhHhhhhhhhHHHHHHHHHHhcchh--hhcchhhHHHHHHHHH
Confidence            334456677899999999999999998744 6667777777889999999999655543211  1111111223445568


Q ss_pred             cCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCHHHHHHH
Q 009255          128 SGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRM  207 (539)
Q Consensus       128 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  207 (539)
                      .+..++|+..++-...    .+..+...-...+.+.|++++|.++|+.+.+.+.+ +.   ...+.+-+..  ...+...
T Consensus        92 lnk~Dealk~~~~~~~----~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~d-d~---d~~~r~nl~a--~~a~l~~  161 (652)
T KOG2376|consen   92 LNKLDEALKTLKGLDR----LDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSD-DQ---DEERRANLLA--VAAALQV  161 (652)
T ss_pred             cccHHHHHHHHhcccc----cchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCc-hH---HHHHHHHHHH--HHHhhhH
Confidence            8999999999883322    24446667778899999999999999999876432 22   2222111100  0111111


Q ss_pred             HHHHhhCCCCC--CHHhHHHHHHHHhccCCHHHHHHHHHHHhhcCC-------ccCH-------hhHHHHHHHHHccCCH
Q 009255          208 MDVMGRKGLKM--NTITLNTILHTLCCEKKLDEAYMLLNSASKRGY-------YLDE-------VSYGTLITGYFRDEKA  271 (539)
Q Consensus       208 ~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-------~~~~-------~~~~~l~~~~~~~~~~  271 (539)
                       +.+......|  +-..+....-.+...|++.+|+++++...+.+.       ..+.       ..-..|...+...|+.
T Consensus       162 -~~~q~v~~v~e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt  240 (652)
T KOG2376|consen  162 -QLLQSVPEVPEDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQT  240 (652)
T ss_pred             -HHHHhccCCCcchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcch
Confidence             0122222222  222333344456688999999999998833210       0011       1223455667789999


Q ss_pred             HHHHHHHHHHHHcCCCCCHhh----HHHHHHHHHcCCCH-H-HHHHHHHHHHHCC-------C---CCCHHhHH-HHHHH
Q 009255          272 NRALKLWDEMKERQIMPSTFT----YNAMIWGLSQSGKT-E-QAIDMLNELLQSG-------M---IPDETTFN-TIIHG  334 (539)
Q Consensus       272 ~~a~~~~~~~~~~~~~~~~~~----~~~l~~~~~~~~~~-~-~a~~~~~~~~~~~-------~---~~~~~~~~-~l~~~  334 (539)
                      .+|..++..++..++. |...    -|.++.. ..-.++ + .++..++......       +   .......+ .++..
T Consensus       241 ~ea~~iy~~~i~~~~~-D~~~~Av~~NNLva~-~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l  318 (652)
T KOG2376|consen  241 AEASSIYVDIIKRNPA-DEPSLAVAVNNLVAL-SKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLAL  318 (652)
T ss_pred             HHHHHHHHHHHHhcCC-CchHHHHHhcchhhh-ccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999887654 4322    2222221 111111 1 1222222111100       0   00011111 12222


Q ss_pred             HhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHH--hcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChH
Q 009255          335 FCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLC--REGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLE  412 (539)
Q Consensus       335 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~--~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  412 (539)
                      +  .+..+.+.++....-.  ..|.. .+..++..+.  +......|..++....+....-...+....+......|+++
T Consensus       319 ~--tnk~~q~r~~~a~lp~--~~p~~-~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~~p~~s~~v~L~~aQl~is~gn~~  393 (652)
T KOG2376|consen  319 F--TNKMDQVRELSASLPG--MSPES-LFPILLQEATKVREKKHKKAIELLLQFADGHPEKSKVVLLLRAQLKISQGNPE  393 (652)
T ss_pred             H--hhhHHHHHHHHHhCCc--cCchH-HHHHHHHHHHHHHHHHHhhhHHHHHHHhccCCchhHHHHHHHHHHHHhcCCHH
Confidence            2  2333344333332221  12332 3333333322  22347778888887776533322445566777788899999


Q ss_pred             HHHHHHH--------HHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhh
Q 009255          413 DAFGLLS--------EMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSIS  484 (539)
Q Consensus       413 ~A~~~~~--------~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  484 (539)
                      .|++++.        ...+.+..|  .+...+...+.+.++.+.|..++..++..-...           ......-...
T Consensus       394 ~A~~il~~~~~~~~ss~~~~~~~P--~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~-----------~t~s~~l~~~  460 (652)
T KOG2376|consen  394 VALEILSLFLESWKSSILEAKHLP--GTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQ-----------QTGSIALLSL  460 (652)
T ss_pred             HHHHHHHHHhhhhhhhhhhhccCh--hHHHHHHHHHHhccCCccHHHHHHHHHHHHHHh-----------cccchHHHhH
Confidence            9999999        554443333  455666677777777777777777766543110           0000111225


Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC
Q 009255          485 YSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGLIKRR  531 (539)
Q Consensus       485 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~  531 (539)
                      |..++..-.+.|+-++|..+++++.+.. .+|......+..++.+-+
T Consensus       461 ~~~aa~f~lr~G~~~ea~s~leel~k~n-~~d~~~l~~lV~a~~~~d  506 (652)
T KOG2376|consen  461 MREAAEFKLRHGNEEEASSLLEELVKFN-PNDTDLLVQLVTAYARLD  506 (652)
T ss_pred             HHHHhHHHHhcCchHHHHHHHHHHHHhC-CchHHHHHHHHHHHHhcC
Confidence            6666777778899999999999999842 344456666666665543

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.45  E-value=1.1e-10  Score=107.57  Aligned_cols=261  Identities=17%  Similarity=0.141  Sum_probs=177.5

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHc-----C-CCCCH-hhHHHHHHHHHcCCCHHHHHHHHHHHHHC-----CCC-C
Q 009255          257 SYGTLITGYFRDEKANRALKLWDEMKER-----Q-IMPST-FTYNAMIWGLSQSGKTEQAIDMLNELLQS-----GMI-P  323 (539)
Q Consensus       257 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~-~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~-~  323 (539)
                      +...+...|...|+++.|+.+++..+..     | ..|.. ...+.+...|...+++++|..+|+++...     |.. |
T Consensus       201 ~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~  280 (508)
T KOG1840|consen  201 TLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDHP  280 (508)
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCH
Confidence            4444666666666776666666655432     1 11222 22334667788888888888888887642     211 1


Q ss_pred             C-HHhHHHHHHHHhcCCCHHHHHHHHHHHHhC-----CC-CCC-HHhHHHHHHHHHhcCCHHHHHHHHHHHHHc---CCC
Q 009255          324 D-ETTFNTIIHGFCSEGQVEKALQFHNKMVEK-----SF-KPD-IVTCNILLSGLCREGILEKALKFFRSWILK---GKA  392 (539)
Q Consensus       324 ~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~-~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~  392 (539)
                      . ..++..|..+|.+.|++++|...++.+.+.     +. .|. ...++.+...|...+++++|..+++...+.   -+.
T Consensus       281 ~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g  360 (508)
T KOG1840|consen  281 AVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPG  360 (508)
T ss_pred             HHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhcc
Confidence            1 236677777888889988888877776542     11 122 224566777888899999999999876643   122


Q ss_pred             CC----hhhHHHHHHHHHccCChHHHHHHHHHHHhC-----C-CCC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 009255          393 VD----SVTYNTLISSLCKERRLEDAFGLLSEMEEK-----K-LGP-DRYTYAAIHTALVESGRLEEAQKFTSIMVETGK  461 (539)
Q Consensus       393 ~~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-----~-~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  461 (539)
                      ++    ..+++.|...|...|++++|.+++++++..     + ..+ ....++.++..|.+.+++++|.++|.+......
T Consensus       361 ~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~  440 (508)
T KOG1840|consen  361 EDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMK  440 (508)
T ss_pred             ccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHH
Confidence            22    347899999999999999999999998754     1 112 245677889999999999999999888765431


Q ss_pred             CCcccccCCCCCCCCCCCCChh-hHHHHHHHHhhcCCHHHHHHHHHHHHH------cCCCCCHHHHHHHHHHHHh
Q 009255          462 INHQVVQPNTSKTPEEIDPSSI-SYSEKINEHCSQGRYKDALQIFEETRQ------KGIAINKSTYMNLMNGLIK  529 (539)
Q Consensus       462 ~~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~------~~~~p~~~~~~~~l~~~~~  529 (539)
                      .            .-.-.|+.. +|.+|+.+|.+.|++++|.++.+.+..      ....|+..+.......+..
T Consensus       441 ~------------~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  503 (508)
T KOG1840|consen  441 L------------CGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVLNAREQRLGTASPTVEDEKLRLADLSK  503 (508)
T ss_pred             H------------hCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHcCCCCCcchhHHHHhhhHHHH
Confidence            0            000135665 899999999999999999999998773      1245666666666655544

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=99.45  E-value=1.8e-10  Score=91.39  Aligned_cols=209  Identities=16%  Similarity=0.066  Sum_probs=134.7

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHh
Q 009255          293 YNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCR  372 (539)
Q Consensus       293 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  372 (539)
                      ...+.-.|.+.|+...|.+-+++.++..+. +..++..+...|.+.|+.+.|.+.|++.++.. +.+..+.|....-+|.
T Consensus        38 rlqLal~YL~~gd~~~A~~nlekAL~~DPs-~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FLC~  115 (250)
T COG3063          38 RLQLALGYLQQGDYAQAKKNLEKALEHDPS-YYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFLCA  115 (250)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHHHh
Confidence            444556677777777777777777766433 45566666777777777777777777777664 2356666777777777


Q ss_pred             cCCHHHHHHHHHHHHHcCCCC-ChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHH
Q 009255          373 EGILEKALKFFRSWILKGKAV-DSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQK  451 (539)
Q Consensus       373 ~g~~~~A~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  451 (539)
                      .|++++|...|++......-+ -..+|..++.+..+.|+.+.|...|++.++.. +-...+...+.+.....|++..|..
T Consensus       116 qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~d-p~~~~~~l~~a~~~~~~~~y~~Ar~  194 (250)
T COG3063         116 QGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELD-PQFPPALLELARLHYKAGDYAPARL  194 (250)
T ss_pred             CCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhC-cCCChHHHHHHHHHHhcccchHHHH
Confidence            777777777777776542111 23466777777777777777777777777652 2234456667777777777777777


Q ss_pred             HHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 009255          452 FTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLM  524 (539)
Q Consensus       452 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l  524 (539)
                      +++.....+                  +++.......++.-...|+-+.|.+.=.++..  ..|..+.+..++
T Consensus       195 ~~~~~~~~~------------------~~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r--~fP~s~e~q~f~  247 (250)
T COG3063         195 YLERYQQRG------------------GAQAESLLLGIRIAKRLGDRAAAQRYQAQLQR--LFPYSEEYQTFL  247 (250)
T ss_pred             HHHHHHhcc------------------cccHHHHHHHHHHHHHhccHHHHHHHHHHHHH--hCCCcHHHHhHh
Confidence            777776665                  45555555556666666777666665555543  466666655543

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.44  E-value=2e-10  Score=101.84  Aligned_cols=242  Identities=11%  Similarity=-0.017  Sum_probs=168.3

Q ss_pred             CCHHHHHHHHHHHHHcCC-CC--CHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHH
Q 009255          269 EKANRALKLWDEMKERQI-MP--STFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKAL  345 (539)
Q Consensus       269 ~~~~~a~~~~~~~~~~~~-~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  345 (539)
                      +..+.++..+.+++.... .|  ....|......+...|+.++|...|++..+..+. +...|..+...+...|+++.|.
T Consensus        40 ~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~-~~~a~~~lg~~~~~~g~~~~A~  118 (296)
T PRK11189         40 LQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRPD-MADAYNYLGIYLTQAGNFDAAY  118 (296)
T ss_pred             hHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHCCCHHHHH
Confidence            455667777777765322 11  2455777788889999999999999999887543 6788889999999999999999


Q ss_pred             HHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCC
Q 009255          346 QFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKK  425 (539)
Q Consensus       346 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  425 (539)
                      ..|+..++... .+..++..+..++...|++++|.+.|++.....  |+..........+...+++++|...+.+.... 
T Consensus       119 ~~~~~Al~l~P-~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~--P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~-  194 (296)
T PRK11189        119 EAFDSVLELDP-TYNYAYLNRGIALYYGGRYELAQDDLLAFYQDD--PNDPYRALWLYLAESKLDPKQAKENLKQRYEK-  194 (296)
T ss_pred             HHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHccCCHHHHHHHHHHHHhh-
Confidence            99999998742 356788888888999999999999999998863  33222222222344567899999999776643 


Q ss_pred             CCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCC-hhhHHHHHHHHhhcCCHHHHHHH
Q 009255          426 LGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPS-SISYSEKINEHCSQGRYKDALQI  504 (539)
Q Consensus       426 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~  504 (539)
                      ..|+...   ...+....|+..++ +.++.+.+....            .....|+ ..+|..++..+.+.|++++|+..
T Consensus       195 ~~~~~~~---~~~~~~~lg~~~~~-~~~~~~~~~~~~------------~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~  258 (296)
T PRK11189        195 LDKEQWG---WNIVEFYLGKISEE-TLMERLKAGATD------------NTELAERLCETYFYLAKYYLSLGDLDEAAAL  258 (296)
T ss_pred             CCccccH---HHHHHHHccCCCHH-HHHHHHHhcCCC------------cHHHHHHHHHHHHHHHHHHHHCCCHHHHHHH
Confidence            2333222   23334445666554 345555432211            0000122 34899999999999999999999


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHhcCC
Q 009255          505 FEETRQKGIAINKSTYMNLMNGLIKRRK  532 (539)
Q Consensus       505 ~~~~~~~~~~p~~~~~~~~l~~~~~~~~  532 (539)
                      |+++++.+ .||...++..+..+....+
T Consensus       259 ~~~Al~~~-~~~~~e~~~~~~e~~~~~~  285 (296)
T PRK11189        259 FKLALANN-VYNFVEHRYALLELALLGQ  285 (296)
T ss_pred             HHHHHHhC-CchHHHHHHHHHHHHHHHh
Confidence            99999742 4588888887776665544

>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=99.44  E-value=3.3e-09  Score=99.40  Aligned_cols=305  Identities=15%  Similarity=0.078  Sum_probs=139.5

Q ss_pred             HHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc----
Q 009255           88 NGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKE----  163 (539)
Q Consensus        88 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----  163 (539)
                      ..+...|++++|++.+++-... +.............+.+.|+.++|..+|..+.+.+. .+..-|..+..+..-.    
T Consensus        12 ~il~e~g~~~~AL~~L~~~~~~-I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rNP-dn~~Yy~~L~~~~g~~~~~~   89 (517)
T PF12569_consen   12 SILEEAGDYEEALEHLEKNEKQ-ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRNP-DNYDYYRGLEEALGLQLQLS   89 (517)
T ss_pred             HHHHHCCCHHHHHHHHHhhhhh-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHhhhcccc
Confidence            4445666777777666654432 222233444555666666666666666666666532 1333333333333111    


Q ss_pred             -CCHhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCH-HHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHH
Q 009255          164 -GKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNM-EEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYM  241 (539)
Q Consensus       164 -g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  241 (539)
                       .+.+...++++.+.+.  -|.......+.-.+.....+ ..+..++..+...|+++   ++..+-..|.......-...
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             2345555566655544  23333222222222221122 23334444555555432   23333333333333333333


Q ss_pred             HHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCH--hhHHHHHHHHHcCCCHHHHHHHHHHHHHC
Q 009255          242 LLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPST--FTYNAMIWGLSQSGKTEQAIDMLNELLQS  319 (539)
Q Consensus       242 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  319 (539)
                      ++......--.               .+......      ....-+|+.  +++..+...|...|++++|++++++.+.+
T Consensus       165 l~~~~~~~l~~---------------~~~~~~~~------~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~h  223 (517)
T PF12569_consen  165 LVEEYVNSLES---------------NGSFSNGD------DEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEH  223 (517)
T ss_pred             HHHHHHHhhcc---------------cCCCCCcc------ccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc
Confidence            33322211000               00000000      000012232  23344455555666666666666666655


Q ss_pred             CCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChh---
Q 009255          320 GMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSV---  396 (539)
Q Consensus       320 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~---  396 (539)
                      .+. .+..|..-...+-+.|++.+|.+.++.+..... -|..+-+..+..+.+.|++++|.+++..+...+..|...   
T Consensus       224 tPt-~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~-~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~  301 (517)
T PF12569_consen  224 TPT-LVELYMTKARILKHAGDLKEAAEAMDEARELDL-ADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLND  301 (517)
T ss_pred             CCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCCh-hhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHH
Confidence            322 344555555666666666666666666665542 255555555666666666666666666655543322111   


Q ss_pred             ---hH--HHHHHHHHccCChHHHHHHHHHHH
Q 009255          397 ---TY--NTLISSLCKERRLEDAFGLLSEME  422 (539)
Q Consensus       397 ---~~--~~l~~~~~~~~~~~~A~~~~~~~~  422 (539)
                         .|  ...+.+|.+.|++..|+..|....
T Consensus       302 mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v~  332 (517)
T PF12569_consen  302 MQCMWFETECAEAYLRQGDYGLALKRFHAVL  332 (517)
T ss_pred             HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence               11  233455566666666655554443

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 [], [].

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.44  E-value=5.1e-10  Score=92.19  Aligned_cols=430  Identities=15%  Similarity=0.116  Sum_probs=263.9

Q ss_pred             CCCCCCCcChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCCh
Q 009255            1 MEGFGCLPDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDV   80 (539)
Q Consensus         1 m~~~g~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~   80 (539)
                      |-..|......-+++++..+.+..++.+|++++..-.++. +.+....+.+..+|-+..++..|-+.++++...-  |..
T Consensus         1 M~~~g~~i~EGeftaviy~lI~d~ry~DaI~~l~s~~Er~-p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~--P~~   77 (459)
T KOG4340|consen    1 MAGSGAQIPEGEFTAVVYRLIRDARYADAIQLLGSELERS-PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQLH--PEL   77 (459)
T ss_pred             CCcccccCCCCchHHHHHHHHHHhhHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC--hHH
Confidence            5566776666778899999999999999999999988885 4478889999999999999999999999998763  333


Q ss_pred             hhHHH-HHHHHHhcCChHHHHHHHHHHHhCCCCCChhh--HHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHH
Q 009255           81 WTYNM-LINGWCNAGMLEEAFRLRKEMESLKLLPDVVT--YNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMI  157 (539)
Q Consensus        81 ~~~~~-l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  157 (539)
                      .-|.. -...+.+.+.+..|+++...|...   ++...  ...-..+....+++..+..+.++....|   +..+.+...
T Consensus        78 ~qYrlY~AQSLY~A~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en---~Ad~~in~g  151 (459)
T KOG4340|consen   78 EQYRLYQAQSLYKACIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSEN---EADGQINLG  151 (459)
T ss_pred             HHHHHHHHHHHHHhcccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCC---ccchhccch
Confidence            33332 235566889999999999988753   22222  2222233456788888888888876432   455555566


Q ss_pred             HHHHhcCCHhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHhH----HHHHHHHhcc
Q 009255          158 KWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITL----NTILHTLCCE  233 (539)
Q Consensus       158 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~----~~l~~~~~~~  233 (539)
                      -...+.|+++.|.+-|+...+.+--.....|+ +.-+..+.|+++.|++...+++++|++..+..-    ...+.+- ..
T Consensus       152 CllykegqyEaAvqkFqaAlqvsGyqpllAYn-iALaHy~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvr-sv  229 (459)
T KOG4340|consen  152 CLLYKEGQYEAAVQKFQAALQVSGYQPLLAYN-LALAHYSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVR-SV  229 (459)
T ss_pred             heeeccccHHHHHHHHHHHHhhcCCCchhHHH-HHHHHHhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchh-cc
Confidence            66778999999999999988754333344555 444566789999999999999988765332210    0000000 00


Q ss_pred             CCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcC-CCCCHhhHHHHHHHHHcCCCHHHHHHH
Q 009255          234 KKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQ-IMPSTFTYNAMIWGLSQSGKTEQAIDM  312 (539)
Q Consensus       234 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~  312 (539)
                      |+   -..+....       -...++.-...+.+.++.+.|.+.+.+|..+. ...|+.|...+.-.-. .+++-....-
T Consensus       230 gN---t~~lh~Sa-------l~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n~-~~~p~~g~~K  298 (459)
T KOG4340|consen  230 GN---TLVLHQSA-------LVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMNM-DARPTEGFEK  298 (459)
T ss_pred             cc---hHHHHHHH-------HHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhcc-cCCccccHHH
Confidence            00   00000000       12234444456678899999999888875432 2235666554433222 3445555555


Q ss_pred             HHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCC-CCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 009255          313 LNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFK-PDIVTCNILLSGLCREGILEKALKFFRSWILKGK  391 (539)
Q Consensus       313 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  391 (539)
                      +.-+....+. ...||..++-.|++..-++.|-+++.+-...... .+...|+.+-..-...-..++|.+-++.+... .
T Consensus       299 LqFLL~~nPf-P~ETFANlLllyCKNeyf~lAADvLAEn~~lTyk~L~~Yly~LLdaLIt~qT~pEea~KKL~~La~~-l  376 (459)
T KOG4340|consen  299 LQFLLQQNPF-PPETFANLLLLYCKNEYFDLAADVLAENAHLTYKFLTPYLYDLLDALITCQTAPEEAFKKLDGLAGM-L  376 (459)
T ss_pred             HHHHHhcCCC-ChHHHHHHHHHHhhhHHHhHHHHHHhhCcchhHHHhhHHHHHHHHHHHhCCCCHHHHHHHHHHHHHH-H
Confidence            5555555443 4678888888999998888888887654332111 13333433322223345677777766655432 0


Q ss_pred             CCChhhHHHHHHH--HHccCChH---HHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          392 AVDSVTYNTLISS--LCKERRLE---DAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       392 ~~~~~~~~~l~~~--~~~~~~~~---~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                        ....-...+..  -...++-.   .+++-+++..+.    -..+...-++.+++..++..+.+.|...++..
T Consensus       377 --~~kLRklAi~vQe~r~~~dd~a~R~ai~~Yd~~LE~----YLPVlMa~AkiyW~~~Dy~~vEk~Fr~SvefC  444 (459)
T KOG4340|consen  377 --TEKLRKLAIQVQEARHNRDDEAIRKAVNEYDETLEK----YLPVLMAQAKIYWNLEDYPMVEKIFRKSVEFC  444 (459)
T ss_pred             --HHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHH----HHHHHHHHHHhhccccccHHHHHHHHHHHhhh
Confidence              00001111111  11122211   122223333221    12344455667888999999999999988765

>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]

Probab=99.43  E-value=1.8e-10  Score=108.58  Aligned_cols=271  Identities=15%  Similarity=0.157  Sum_probs=124.4

Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 009255           31 DLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLK  110 (539)
Q Consensus        31 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  110 (539)
                      .++..+...|+.|+..+|..++.-|+..|+.+.|- +|.-|.....+.+...|+.++....+.++.+.+.          
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            34455555566666666666666666666666655 6666655544445555666666555555555443          


Q ss_pred             CCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHHHHH-cCCCCChhhHH
Q 009255          111 LLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEE-NGFSPDCVTYN  189 (539)
Q Consensus       111 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~~  189 (539)
                       .|...+|..|..+|...|+...    |+...+        ....+...+...|--.....++..+.- .+.-||..   
T Consensus        80 -ep~aDtyt~Ll~ayr~hGDli~----fe~veq--------dLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~---  143 (1088)
T KOG4318|consen   80 -EPLADTYTNLLKAYRIHGDLIL----FEVVEQ--------DLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAE---  143 (1088)
T ss_pred             -CCchhHHHHHHHHHHhccchHH----HHHHHH--------HHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHH---
Confidence             3555566666666666665544    211111        111222333344444433344333211 11122222   


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHhhCC-CCCCHHhHHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHcc
Q 009255          190 TLIDANCKAGNMEEAFRMMDVMGRKG-LKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRD  268 (539)
Q Consensus       190 ~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  268 (539)
                      ..+....-.|-++.+++++..+.... ..|..    .+++-+..  +..-.+++........-.+++.++.+++..-...
T Consensus       144 n~illlv~eglwaqllkll~~~Pvsa~~~p~~----vfLrqnv~--~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaa  217 (1088)
T KOG4318|consen  144 NAILLLVLEGLWAQLLKLLAKVPVSAWNAPFQ----VFLRQNVV--DNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAA  217 (1088)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhCCcccccchHH----HHHHHhcc--CCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhc
Confidence            23333344455555555554433211 01110    11222111  1112222222222211134555555555555555


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhc
Q 009255          269 EKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCS  337 (539)
Q Consensus       269 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  337 (539)
                      |+.+.|..++.+|.+.|++.+..-|-.++-+   .++...+..++.-|.+.|+.|+..|+...+-.+..
T Consensus       218 g~~d~Ak~ll~emke~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~  283 (1088)
T KOG4318|consen  218 GDVDGAKNLLYEMKEKGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLS  283 (1088)
T ss_pred             CchhhHHHHHHHHHHcCCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhc
Confidence            5555555555555555555444433333333   44555555555555555555555555544444444

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=99.39  E-value=1.1e-09  Score=86.98  Aligned_cols=200  Identities=14%  Similarity=0.073  Sum_probs=166.9

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHh
Q 009255          257 SYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFC  336 (539)
Q Consensus       257 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  336 (539)
                      ....|...|.+.|+...|..-+++.++.++. +..+|..+...|.+.|..+.|.+.|++.....+. +..+.|.....+|
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~DPs-~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~-~GdVLNNYG~FLC  114 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEHDPS-YYLAHLVRAHYYQKLGENDLADESYRKALSLAPN-NGDVLNNYGAFLC  114 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCC-ccchhhhhhHHHH
Confidence            4456777899999999999999999988665 6788899999999999999999999999887543 6677888888889


Q ss_pred             cCCCHHHHHHHHHHHHhCCC-CCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHH
Q 009255          337 SEGQVEKALQFHNKMVEKSF-KPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAF  415 (539)
Q Consensus       337 ~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  415 (539)
                      ..|.+++|...|+....... ..-..+|..+.-+..+.|+++.|...|++.++.... .+.....+.......|++-.|.
T Consensus       115 ~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~-~~~~~l~~a~~~~~~~~y~~Ar  193 (250)
T COG3063         115 AQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQ-FPPALLELARLHYKAGDYAPAR  193 (250)
T ss_pred             hCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcC-CChHHHHHHHHHHhcccchHHH
Confidence            99999999999999987642 223557888888888999999999999999987443 5667788888899999999999


Q ss_pred             HHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          416 GLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       416 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      .+++.....+ .++..++...++.-...||-+.+.++=.++.+..
T Consensus       194 ~~~~~~~~~~-~~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~f  237 (250)
T COG3063         194 LYLERYQQRG-GAQAESLLLGIRIAKRLGDRAAAQRYQAQLQRLF  237 (250)
T ss_pred             HHHHHHHhcc-cccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC
Confidence            9999988765 4888888888888888999998888877777776

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.36  E-value=1.1e-09  Score=101.19  Aligned_cols=240  Identities=18%  Similarity=0.176  Sum_probs=165.8

Q ss_pred             HHhHHHHHHHHhccCCHHHHHHHHHHHhhc-----C--CccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHc-----CCC
Q 009255          220 TITLNTILHTLCCEKKLDEAYMLLNSASKR-----G--YYLDEVSYGTLITGYFRDEKANRALKLWDEMKER-----QIM  287 (539)
Q Consensus       220 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~  287 (539)
                      ..+...+...|...|+++.|..+++.....     |  .+.-....+.+...|...+++++|..+|+++...     |..
T Consensus       199 ~~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~  278 (508)
T KOG1840|consen  199 LRTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGED  278 (508)
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCC
Confidence            334455666666666666666666655443     1  1111123344667788888888888888887642     111


Q ss_pred             -C-CHhhHHHHHHHHHcCCCHHHHHHHHHHHHHC-----CC-CCCH-HhHHHHHHHHhcCCCHHHHHHHHHHHHhC---C
Q 009255          288 -P-STFTYNAMIWGLSQSGKTEQAIDMLNELLQS-----GM-IPDE-TTFNTIIHGFCSEGQVEKALQFHNKMVEK---S  355 (539)
Q Consensus       288 -~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~-~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~  355 (539)
                       | -..+++.|..+|.+.|++++|...++++.+-     +. .|.. ..++.+...|...++++.|..+++...+.   -
T Consensus       279 h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~  358 (508)
T KOG1840|consen  279 HPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDA  358 (508)
T ss_pred             CHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhh
Confidence             1 2346777778899999999888888876532     11 1222 24566777888899999999988876642   1


Q ss_pred             CCC----CHHhHHHHHHHHHhcCCHHHHHHHHHHHHHc----CC--CC-ChhhHHHHHHHHHccCChHHHHHHHHHHHhC
Q 009255          356 FKP----DIVTCNILLSGLCREGILEKALKFFRSWILK----GK--AV-DSVTYNTLISSLCKERRLEDAFGLLSEMEEK  424 (539)
Q Consensus       356 ~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~--~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  424 (539)
                      +.+    -..++..+...|...|++++|.+++++++..    +.  .+ ....++.+...|.+.+++.+|.++|.+...-
T Consensus       359 ~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i  438 (508)
T KOG1840|consen  359 PGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDI  438 (508)
T ss_pred             ccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHH
Confidence            112    2458889999999999999999999988754    11  11 1346788999999999999999998876532


Q ss_pred             ----CC-CCC-HhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 009255          425 ----KL-GPD-RYTYAAIHTALVESGRLEEAQKFTSIMVET  459 (539)
Q Consensus       425 ----~~-~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  459 (539)
                          |. .|+ ..+|..|+.+|...|+++.|.++.+.+...
T Consensus       439 ~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~~  479 (508)
T KOG1840|consen  439 MKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVLNA  479 (508)
T ss_pred             HHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHHHH
Confidence                21 233 467889999999999999999999988743

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.34  E-value=2.9e-09  Score=94.45  Aligned_cols=218  Identities=12%  Similarity=-0.011  Sum_probs=145.7

Q ss_pred             CCHHHHHHHHHHHhhcCC---ccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHH
Q 009255          234 KKLDEAYMLLNSASKRGY---YLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAI  310 (539)
Q Consensus       234 ~~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  310 (539)
                      +..+.++.-+.+++....   ......|..+...|...|+.+.|...|++..+..+. +...|+.+...+...|++++|.
T Consensus        40 ~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~-~~~a~~~lg~~~~~~g~~~~A~  118 (296)
T PRK11189         40 LQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRPD-MADAYNYLGIYLTQAGNFDAAY  118 (296)
T ss_pred             hHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHCCCHHHHH
Confidence            344555555555554321   112345667777888888899998888888887654 6788888888899999999999


Q ss_pred             HHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          311 DMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKG  390 (539)
Q Consensus       311 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  390 (539)
                      ..|++..+..+. +...+..+..++...|++++|.+.++...+..  |+..........+...+++++|...|.+.....
T Consensus       119 ~~~~~Al~l~P~-~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~--P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~~  195 (296)
T PRK11189        119 EAFDSVLELDPT-YNYAYLNRGIALYYGGRYELAQDDLLAFYQDD--PNDPYRALWLYLAESKLDPKQAKENLKQRYEKL  195 (296)
T ss_pred             HHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHccCCHHHHHHHHHHHHhhC
Confidence            999988876433 45667777788888899999999999888764  332212222223445678999999997655432


Q ss_pred             CCCChhhHHHHHHHHHccCChHHHHHHHHHHHhC---C--CCC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          391 KAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEK---K--LGP-DRYTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       391 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~---~--~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                       .|+.  |. ........|+...+ +.++.+.+.   .  +.| ...+|..++.++...|++++|+..|+++++.+
T Consensus       196 -~~~~--~~-~~~~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~  266 (296)
T PRK11189        196 -DKEQ--WG-WNIVEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANN  266 (296)
T ss_pred             -Cccc--cH-HHHHHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence             2222  22 12233345555444 344444422   1  111 23578888999999999999999999999887

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=99.30  E-value=1.6e-08  Score=96.94  Aligned_cols=438  Identities=12%  Similarity=0.020  Sum_probs=244.2

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCC-CChhhHHHHHHH
Q 009255           11 VTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSL-PDVWTYNMLING   89 (539)
Q Consensus        11 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~   89 (539)
                      ..|..|...|....+...|.+.|+...+.+ +.+......+...|+...+++.|..+.-...+..+. .-...|....-.
T Consensus       493 paf~~LG~iYrd~~Dm~RA~kCf~KAFeLD-atdaeaaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~nW~~rG~y  571 (1238)
T KOG1127|consen  493 PAFAFLGQIYRDSDDMKRAKKCFDKAFELD-ATDAEAAAASADTYAEESTWEEAFEICLRAAQKAPAFACKENWVQRGPY  571 (1238)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-chhhhhHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhhhhhcccc
Confidence            357777777777777788888888887775 446667778888888888888887773333222111 111223334445


Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHhcCCHhH
Q 009255           90 WCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNA-VTHNIMIKWYCKEGKIDK  168 (539)
Q Consensus        90 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~  168 (539)
                      |.+.++...++.-|+...... +.|...|..++.+|...|++..|+++|.++...  .|+. ..--.....-+..|.+.+
T Consensus       572 yLea~n~h~aV~~fQsALR~d-PkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~L--rP~s~y~~fk~A~~ecd~GkYke  648 (1238)
T KOG1127|consen  572 YLEAHNLHGAVCEFQSALRTD-PKDYNLWLGLGEAYPESGRYSHALKVFTKASLL--RPLSKYGRFKEAVMECDNGKYKE  648 (1238)
T ss_pred             ccCccchhhHHHHHHHHhcCC-chhHHHHHHHHHHHHhcCceehHHHhhhhhHhc--CcHhHHHHHHHHHHHHHhhhHHH
Confidence            667778888888888877754 457778889999999999999999999887664  3322 122222334567788888


Q ss_pred             HHHHHHHHHHcC------CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHh-------hCCCCCCHHhHHHHHHHHh---c
Q 009255          169 ACKIVRNMEENG------FSPDCVTYNTLIDANCKAGNMEEAFRMMDVMG-------RKGLKMNTITLNTILHTLC---C  232 (539)
Q Consensus       169 a~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-------~~~~~~~~~~~~~l~~~~~---~  232 (539)
                      +.+.+.......      ...-..++..+...+...|-..++.+++++.+       ......+...+..+..+|.   .
T Consensus       649 ald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~l~h~~~~~~~~Wi~asdac~~f~q  728 (1238)
T KOG1127|consen  649 ALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSLIHSLQSDRLQWIVASDACYIFSQ  728 (1238)
T ss_pred             HHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHhhhhhHHHHHHHhHHHHHHHH
Confidence            888887765421      01112233333333334444444444444322       1111112222211111111   1


Q ss_pred             cC-CH--HHHHHHH-HHHhhcCC--------------------ccCHhhHHHHHHHHHc--------cCCHHHHHHHHHH
Q 009255          233 EK-KL--DEAYMLL-NSASKRGY--------------------YLDEVSYGTLITGYFR--------DEKANRALKLWDE  280 (539)
Q Consensus       233 ~~-~~--~~a~~~~-~~~~~~~~--------------------~~~~~~~~~l~~~~~~--------~~~~~~a~~~~~~  280 (539)
                      .. ++  .....++ .+....+.                    ..+...|..++..|.+        ..+...|+..+.+
T Consensus       729 ~e~~~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~hlsl~~~~~~WyNLGinylr~f~~l~et~~~~~~Ai~c~Kk  808 (1238)
T KOG1127|consen  729 EEPSIVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIAHLSLAIHMYPWYNLGINYLRYFLLLGETMKDACTAIRCCKK  808 (1238)
T ss_pred             hcccchHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhHHHHHhhccchHHHHhHHHHHHHHHcCCcchhHHHHHHHHHH
Confidence            00 00  0000011 11111111                    1123334444443332        1223456777777


Q ss_pred             HHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCH
Q 009255          281 MKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDI  360 (539)
Q Consensus       281 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  360 (539)
                      .++..-. +..+|+.|.-. ...|++.-+...|-+.....+ ....+|..+.-.+....+++.|...|....... +.+.
T Consensus       809 aV~L~an-n~~~WnaLGVl-sg~gnva~aQHCfIks~~sep-~~~~~W~NlgvL~l~n~d~E~A~~af~~~qSLd-P~nl  884 (1238)
T KOG1127|consen  809 AVSLCAN-NEGLWNALGVL-SGIGNVACAQHCFIKSRFSEP-TCHCQWLNLGVLVLENQDFEHAEPAFSSVQSLD-PLNL  884 (1238)
T ss_pred             HHHHhhc-cHHHHHHHHHh-hccchhhhhhhhhhhhhhccc-cchhheeccceeEEecccHHHhhHHHHhhhhcC-chhh
Confidence            6654333 66777777665 555777777777766655433 356677777777888889999999999888764 2355


Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHH----cCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhC---------CCC
Q 009255          361 VTCNILLSGLCREGILEKALKFFRSWIL----KGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEK---------KLG  427 (539)
Q Consensus       361 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~---------~~~  427 (539)
                      ..|..........|+.-++..+|..-.+    .|..++..-|..........|+.++-+...+.+...         +.+
T Consensus       885 ~~WlG~Ali~eavG~ii~~~~lfaHs~el~~~~gka~~f~Yw~c~te~h~~Ng~~e~~I~t~~ki~sAs~al~~yf~~~p  964 (1238)
T KOG1127|consen  885 VQWLGEALIPEAVGRIIERLILFAHSDELCSKEGKAKKFQYWLCATEIHLQNGNIEESINTARKISSASLALSYYFLGHP  964 (1238)
T ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHhhHHhhccccccchhhHHHHHHHHHHhccchHHHHHHhhhhhhhHHHHHHHHhcCc
Confidence            5555555555567777777777765221    233444444444444455666666655544443321         323


Q ss_pred             CCHhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 009255          428 PDRYTYAAIHTALVESGRLEEAQKFTSIM  456 (539)
Q Consensus       428 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  456 (539)
                      .+...|...+...-..+.+.+|.+...+.
T Consensus       965 ~~~fAy~~~gstlEhL~ey~~a~ela~Rl  993 (1238)
T KOG1127|consen  965 QLCFAYAANGSTLEHLEEYRAALELATRL  993 (1238)
T ss_pred             chhHHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence            33455666665666666666665555443

>PF13041 PPR_2: PPR repeat family

Probab=99.26  E-value=1.8e-11  Score=75.28  Aligned_cols=50  Identities=50%  Similarity=0.914  Sum_probs=42.6

Q ss_pred             cChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHc
Q 009255            8 PDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCK   57 (539)
Q Consensus         8 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   57 (539)
                      ||+.+||.+|.+|.+.|++++|.++|++|.+.|++||..+|+.++.+|++
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            78888888888888888888888888888888888888888888888764

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.26  E-value=2.7e-08  Score=82.28  Aligned_cols=428  Identities=12%  Similarity=0.073  Sum_probs=248.0

Q ss_pred             HHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHH-HHH
Q 009255           45 RTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNT-LIN  123 (539)
Q Consensus        45 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~-l~~  123 (539)
                      ..-+.+.+..+++..+++.|++++..-.++.++ +....+.+..+|....++..|-..++++...  .|...-|.. -..
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 EGEFTAVVYRLIRDARYADAIQLLGSELERSPR-SRAGLSLLGYCYYRLQEFALAAECYEQLGQL--HPELEQYRLYQAQ   86 (459)
T ss_pred             CCchHHHHHHHHHHhhHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--ChHHHHHHHHHHH
Confidence            334667777778888888888888877776543 6667778888888888888888888888764  355544433 346


Q ss_pred             HHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHH--HHHHhcCCHhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCH
Q 009255          124 RFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMI--KWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNM  201 (539)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~--~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  201 (539)
                      .+.+.+.+..|+++...|...   |+...-..-+  ......+++-.+..++++....|   +..+.+...-...+.|++
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            667778888888888777653   2222211112  22335677778887777765432   334444444455678888


Q ss_pred             HHHHHHHHHHhhC-CCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHhhHHH----HHHHHHccCCHHHHHH
Q 009255          202 EEAFRMMDVMGRK-GLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGT----LITGYFRDEKANRALK  276 (539)
Q Consensus       202 ~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~----l~~~~~~~~~~~~a~~  276 (539)
                      +.|++-|+...+- |..| ...|+.. -+..+.++.+.|++...+++++|+...+..--.    .+..-. .|+   -+.
T Consensus       161 EaAvqkFqaAlqvsGyqp-llAYniA-LaHy~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrs-vgN---t~~  234 (459)
T KOG4340|consen  161 EAAVQKFQAALQVSGYQP-LLAYNLA-LAHYSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRS-VGN---TLV  234 (459)
T ss_pred             HHHHHHHHHHHhhcCCCc-hhHHHHH-HHHHhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhc-ccc---hHH
Confidence            8888888877664 3432 3334433 345567888888888888888876543332100    000000 000   000


Q ss_pred             HHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHC-CCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCC
Q 009255          277 LWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQS-GMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKS  355 (539)
Q Consensus       277 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  355 (539)
                      +-    ..   .-...+|.-...+.+.++.+.|.+.+..|.-. .-..|+.|...+.-. -..+++....+-+.-++..+
T Consensus       235 lh----~S---al~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~-n~~~~p~~g~~KLqFLL~~n  306 (459)
T KOG4340|consen  235 LH----QS---ALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALM-NMDARPTEGFEKLQFLLQQN  306 (459)
T ss_pred             HH----HH---HHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHh-cccCCccccHHHHHHHHhcC
Confidence            00    00   01123444445567889999999888877532 223466666655422 23455666666667677665


Q ss_pred             CCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-CChhhHHHHHHHHH-ccCChHHHHHHHHHHHhCCCCCCHhhH
Q 009255          356 FKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKA-VDSVTYNTLISSLC-KERRLEDAFGLLSEMEEKKLGPDRYTY  433 (539)
Q Consensus       356 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~l~~~~~-~~~~~~~A~~~~~~~~~~~~~~~~~~~  433 (539)
                      + -..++|..++-.|++..-++-|..++-+-...... .++..|+ |+.++. ..-..++|.+-+..+...- .......
T Consensus       307 P-fP~ETFANlLllyCKNeyf~lAADvLAEn~~lTyk~L~~Yly~-LLdaLIt~qT~pEea~KKL~~La~~l-~~kLRkl  383 (459)
T KOG4340|consen  307 P-FPPETFANLLLLYCKNEYFDLAADVLAENAHLTYKFLTPYLYD-LLDALITCQTAPEEAFKKLDGLAGML-TEKLRKL  383 (459)
T ss_pred             C-CChHHHHHHHHHHhhhHHHhHHHHHHhhCcchhHHHhhHHHHH-HHHHHHhCCCCHHHHHHHHHHHHHHH-HHHHHHH
Confidence            3 45678888999999999999998887553221110 1222333 334443 3446777777666554210 0000000


Q ss_pred             HHHHHHHHhcCC---HHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHH
Q 009255          434 AAIHTALVESGR---LEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       434 ~~l~~~~~~~g~---~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  510 (539)
                      ..-+.--...++   ...+++-|+..++..                  -|   .....++.|++..++..+.+.|..-.+
T Consensus       384 Ai~vQe~r~~~dd~a~R~ai~~Yd~~LE~Y------------------LP---VlMa~AkiyW~~~Dy~~vEk~Fr~Sve  442 (459)
T KOG4340|consen  384 AIQVQEARHNRDDEAIRKAVNEYDETLEKY------------------LP---VLMAQAKIYWNLEDYPMVEKIFRKSVE  442 (459)
T ss_pred             HHHHHHHHhcccHHHHHHHHHHHHHHHHHH------------------HH---HHHHHHHhhccccccHHHHHHHHHHHh
Confidence            011111111121   223344444444443                  12   344457778999999999999999886


Q ss_pred             cCCCCCHHHHH
Q 009255          511 KGIAINKSTYM  521 (539)
Q Consensus       511 ~~~~p~~~~~~  521 (539)
                        +..+..+|.
T Consensus       443 --fC~ehd~Wk  451 (459)
T KOG4340|consen  443 --FCNDHDVWK  451 (459)
T ss_pred             --hhcccceee
Confidence              456666664

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.25  E-value=5.9e-09  Score=94.18  Aligned_cols=244  Identities=12%  Similarity=0.116  Sum_probs=179.8

Q ss_pred             HHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCH
Q 009255          262 ITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQV  341 (539)
Q Consensus       262 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  341 (539)
                      ..-+.+.|++.+|.-.|+..+..++. +...|..|.......++-..|+..+.+.++..+. +......|.-.|...|.-
T Consensus       292 G~~lm~nG~L~~A~LafEAAVkqdP~-haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~-NleaLmaLAVSytNeg~q  369 (579)
T KOG1125|consen  292 GCNLMKNGDLSEAALAFEAAVKQDPQ-HAEAWQKLGITQAENENEQNAISALRRCLELDPT-NLEALMALAVSYTNEGLQ  369 (579)
T ss_pred             HHHHHhcCCchHHHHHHHHHHhhChH-HHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCc-cHHHHHHHHHHHhhhhhH
Confidence            34456788899999999988887665 7788999998888999989999999988886543 667777788888888888


Q ss_pred             HHHHHHHHHHHhCCCCCCHHhHHH-----HH--HHHHhcCCHHHHHHHHHHHH-HcCCCCChhhHHHHHHHHHccCChHH
Q 009255          342 EKALQFHNKMVEKSFKPDIVTCNI-----LL--SGLCREGILEKALKFFRSWI-LKGKAVDSVTYNTLISSLCKERRLED  413 (539)
Q Consensus       342 ~~a~~~~~~~~~~~~~~~~~~~~~-----l~--~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~  413 (539)
                      ..|...++..+...++ -...-..     ..  ..+.....+....++|-++. ..+..+|+.+...|...|.-.|++++
T Consensus       370 ~~Al~~L~~Wi~~~p~-y~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdr  448 (579)
T KOG1125|consen  370 NQALKMLDKWIRNKPK-YVHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDR  448 (579)
T ss_pred             HHHHHHHHHHHHhCcc-chhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHH
Confidence            8899888888664321 0000000     00  00011112333444444443 34444788899999999999999999


Q ss_pred             HHHHHHHHHhCCCCCC-HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChh-hHHHHHHH
Q 009255          414 AFGLLSEMEEKKLGPD-RYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSI-SYSEKINE  491 (539)
Q Consensus       414 A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~  491 (539)
                      |+..|+.++..  .|+ ...|+.|+..+....+.++|+..|.++++..                   |+.+ ++++|+-.
T Consensus       449 aiDcf~~AL~v--~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLq-------------------P~yVR~RyNlgIS  507 (579)
T KOG1125|consen  449 AVDCFEAALQV--KPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQ-------------------PGYVRVRYNLGIS  507 (579)
T ss_pred             HHHHHHHHHhc--CCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcC-------------------CCeeeeehhhhhh
Confidence            99999999965  555 5778899999999999999999999999986                   8888 99999999


Q ss_pred             HhhcCCHHHHHHHHHHHHHcC---C------CCCHHHHHHHHHHHHh
Q 009255          492 HCSQGRYKDALQIFEETRQKG---I------AINKSTYMNLMNGLIK  529 (539)
Q Consensus       492 ~~~~g~~~~A~~~~~~~~~~~---~------~p~~~~~~~~l~~~~~  529 (539)
                      |...|.+++|...|-+++...   .      .++..+|..+-.++.-
T Consensus       508 ~mNlG~ykEA~~hlL~AL~mq~ks~~~~~~~~~se~iw~tLR~als~  554 (579)
T KOG1125|consen  508 CMNLGAYKEAVKHLLEALSMQRKSRNHNKAPMASENIWQTLRLALSA  554 (579)
T ss_pred             hhhhhhHHHHHHHHHHHHHhhhcccccccCCcchHHHHHHHHHHHHH
Confidence            999999999999998876521   1      1234466666555543

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=99.24  E-value=2.4e-07  Score=78.41  Aligned_cols=308  Identities=14%  Similarity=0.105  Sum_probs=144.8

Q ss_pred             HHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHH---HHHHHhcCCHhHHHHHHHHHHHcCCCCChhh-HHHHHHHH
Q 009255          120 TLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIM---IKWYCKEGKIDKACKIVRNMEENGFSPDCVT-YNTLIDAN  195 (539)
Q Consensus       120 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l---~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~  195 (539)
                      -+...+...|++..|+.-|...++.    |+..|..+   ...|...|+...|+.-+.+.++.  .||-.. ...-...+
T Consensus        43 ElGk~lla~~Q~sDALt~yHaAve~----dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlel--KpDF~~ARiQRg~vl  116 (504)
T KOG0624|consen   43 ELGKELLARGQLSDALTHYHAAVEG----DPNNYQAIFRRATVYLAMGKSKAALQDLSRVLEL--KPDFMAARIQRGVVL  116 (504)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHcC----CchhHHHHHHHHHHHhhhcCCccchhhHHHHHhc--CccHHHHHHHhchhh
Confidence            3444455555555565555555543    22223222   33455555555555555555543  344321 11223344


Q ss_pred             HhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHH
Q 009255          196 CKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRAL  275 (539)
Q Consensus       196 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  275 (539)
                      .+.|.+++|..=|+.+.+..  |+..+.   ..++.+.-..++-+                .....+..+...|+...|+
T Consensus       117 lK~Gele~A~~DF~~vl~~~--~s~~~~---~eaqskl~~~~e~~----------------~l~~ql~s~~~~GD~~~ai  175 (504)
T KOG0624|consen  117 LKQGELEQAEADFDQVLQHE--PSNGLV---LEAQSKLALIQEHW----------------VLVQQLKSASGSGDCQNAI  175 (504)
T ss_pred             hhcccHHHHHHHHHHHHhcC--CCcchh---HHHHHHHHhHHHHH----------------HHHHHHHHHhcCCchhhHH
Confidence            55666666666666555542  111110   00010000000000                1111222334445555555


Q ss_pred             HHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCC
Q 009255          276 KLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKS  355 (539)
Q Consensus       276 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  355 (539)
                      .....+++..+- |...+..=..+|...|++..|+.=++...+... .+...+..+-..+...|+.+.++...++.++. 
T Consensus       176 ~~i~~llEi~~W-da~l~~~Rakc~i~~~e~k~AI~Dlk~askLs~-DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKl-  252 (504)
T KOG0624|consen  176 EMITHLLEIQPW-DASLRQARAKCYIAEGEPKKAIHDLKQASKLSQ-DNTEGHYKISQLLYTVGDAENSLKEIRECLKL-  252 (504)
T ss_pred             HHHHHHHhcCcc-hhHHHHHHHHHHHhcCcHHHHHHHHHHHHhccc-cchHHHHHHHHHHHhhhhHHHHHHHHHHHHcc-
Confidence            555555554332 444444445555555555555555544443322 13333444444455555555555555555543 


Q ss_pred             CCCCHHhHHHH-------------HHHHHhcCCHHHHHHHHHHHHHcCCCCChh---hHHHHHHHHHccCChHHHHHHHH
Q 009255          356 FKPDIVTCNIL-------------LSGLCREGILEKALKFFRSWILKGKAVDSV---TYNTLISSLCKERRLEDAFGLLS  419 (539)
Q Consensus       356 ~~~~~~~~~~l-------------~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~---~~~~l~~~~~~~~~~~~A~~~~~  419 (539)
                       .|+.......             +......++|.++....+...+..+.....   .+..+-.++...+++.+|++...
T Consensus       253 -dpdHK~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~  331 (504)
T KOG0624|consen  253 -DPDHKLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCK  331 (504)
T ss_pred             -CcchhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHH
Confidence             2332211110             111223455555555555555542221111   23344455566667777777777


Q ss_pred             HHHhCCCCCC-HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          420 EMEEKKLGPD-RYTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       420 ~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      +.++  +.|+ ..++.--+.+|.-...++.|+.-|+++.+.+
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            7664  3444 5666666667776677777777777777765

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=99.23  E-value=1.4e-07  Score=87.38  Aligned_cols=210  Identities=13%  Similarity=0.140  Sum_probs=115.5

Q ss_pred             hHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCC-CCCH--HhHHHHHH
Q 009255          292 TYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSF-KPDI--VTCNILLS  368 (539)
Q Consensus       292 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~--~~~~~l~~  368 (539)
                      ....+...+...|++++|...+++..+..+. +...+..+..++...|++++|...+++...... .++.  ..+..+..
T Consensus       116 ~~~~~a~~~~~~G~~~~A~~~~~~al~~~p~-~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~  194 (355)
T cd05804         116 LLGMLAFGLEEAGQYDRAEEAARRALELNPD-DAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLAL  194 (355)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-CcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHH
Confidence            3344555666777777777777777665432 445566666777777777777777777665422 1222  23445667


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCC-CChhhH-H--HHHHHHHccCChHHHHHH--HHHHHhCCCCCC--HhhHHHHHHHH
Q 009255          369 GLCREGILEKALKFFRSWILKGKA-VDSVTY-N--TLISSLCKERRLEDAFGL--LSEMEEKKLGPD--RYTYAAIHTAL  440 (539)
Q Consensus       369 ~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~-~--~l~~~~~~~~~~~~A~~~--~~~~~~~~~~~~--~~~~~~l~~~~  440 (539)
                      .+...|++++|..++++....... +..... +  .++.-+...|..+.+...  +........+..  .........++
T Consensus       195 ~~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~  274 (355)
T cd05804         195 FYLERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALAL  274 (355)
T ss_pred             HHHHCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHH
Confidence            777778888888888776543211 111111 1  222223333432222222  111111110111  11122456677


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHc
Q 009255          441 VESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQK  511 (539)
Q Consensus       441 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  511 (539)
                      ...|+.++|.+.++.+........         ...............+-++...|++++|.+.+.+++..
T Consensus       275 ~~~~~~~~a~~~L~~l~~~~~~~~---------~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~~  336 (355)
T cd05804         275 AGAGDKDALDKLLAALKGRASSAD---------DNKQPARDVGLPLAEALYAFAEGNYATALELLGPVRDD  336 (355)
T ss_pred             hcCCCHHHHHHHHHHHHHHHhccC---------chhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            888999999999988866431100         00000112224455566778999999999999998863

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.

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=99.21  E-value=1.1e-06  Score=74.58  Aligned_cols=203  Identities=12%  Similarity=0.062  Sum_probs=107.4

Q ss_pred             HHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHH
Q 009255          195 NCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRA  274 (539)
Q Consensus       195 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  274 (539)
                      +...|+...|+.....+.+.. +.|...+..-..+|...|+...|+.=++...+.... +...+..+-..+...|+.+.+
T Consensus       165 ~~~~GD~~~ai~~i~~llEi~-~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs~D-nTe~~ykis~L~Y~vgd~~~s  242 (504)
T KOG0624|consen  165 ASGSGDCQNAIEMITHLLEIQ-PWDASLRQARAKCYIAEGEPKKAIHDLKQASKLSQD-NTEGHYKISQLLYTVGDAENS  242 (504)
T ss_pred             HhcCCchhhHHHHHHHHHhcC-cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhcccc-chHHHHHHHHHHHhhhhHHHH
Confidence            344566666666666665542 345555555566666666666666555555544322 334444445555556666666


Q ss_pred             HHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhC
Q 009255          275 LKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEK  354 (539)
Q Consensus       275 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  354 (539)
                      +...++.++.+  ||..                .+...|+++.+.  .   ..+ .-+......++|.++.+..+..++.
T Consensus       243 L~~iRECLKld--pdHK----------------~Cf~~YKklkKv--~---K~l-es~e~~ie~~~~t~cle~ge~vlk~  298 (504)
T KOG0624|consen  243 LKEIRECLKLD--PDHK----------------LCFPFYKKLKKV--V---KSL-ESAEQAIEEKHWTECLEAGEKVLKN  298 (504)
T ss_pred             HHHHHHHHccC--cchh----------------hHHHHHHHHHHH--H---HHH-HHHHHHHhhhhHHHHHHHHHHHHhc
Confidence            66555555542  2221                111111111110  0   000 0011223456666666666666665


Q ss_pred             CCCCC---HHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhC
Q 009255          355 SFKPD---IVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEK  424 (539)
Q Consensus       355 ~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  424 (539)
                      .....   ...+..+-.++...|++.+|++...++++.. +.|+.++..-..+|.-...|+.|+.-|+.+.+.
T Consensus       299 ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~d-~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~  370 (504)
T KOG0624|consen  299 EPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDID-PDDVQVLCDRAEAYLGDEMYDDAIHDYEKALEL  370 (504)
T ss_pred             CCcccceeeeeeheeeecccccCCHHHHHHHHHHHHhcC-chHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhc
Confidence            32211   2233344455566677777777777777652 224667777777777777777787777777754

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=99.21  E-value=2.1e-07  Score=86.25  Aligned_cols=200  Identities=12%  Similarity=0.022  Sum_probs=125.1

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhCCC-CCCH-HHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHH
Q 009255           11 VTYNTILDALFKKGKLNEVRDLLSDMKKQGL-VPNR-TTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLIN   88 (539)
Q Consensus        11 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (539)
                      ..|..+...+...|+.+.+...+........ .++. .........+...|++++|.++++......+. +...+.. ..
T Consensus         7 ~a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~P~-~~~a~~~-~~   84 (355)
T cd05804           7 LGHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDYPR-DLLALKL-HL   84 (355)
T ss_pred             HHHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-cHHHHHH-hH
Confidence            3456666666677888887777776665432 1122 22333344566788999999999888876433 3333332 22


Q ss_pred             HHHh----cCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 009255           89 GWCN----AGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEG  164 (539)
Q Consensus        89 ~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  164 (539)
                      .+..    .+....+.+.+.... ...+........+...+...|++++|.+.+++..+.. +.+...+..+..++...|
T Consensus        85 ~~~~~~~~~~~~~~~~~~l~~~~-~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g  162 (355)
T cd05804          85 GAFGLGDFSGMRDHVARVLPLWA-PENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQG  162 (355)
T ss_pred             HHHHhcccccCchhHHHHHhccC-cCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcC
Confidence            2222    344445555544411 1112223344455667788888888988888888764 335667777888888888


Q ss_pred             CHhHHHHHHHHHHHcCC-CCCh--hhHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 009255          165 KIDKACKIVRNMEENGF-SPDC--VTYNTLIDANCKAGNMEEAFRMMDVMGRK  214 (539)
Q Consensus       165 ~~~~a~~~~~~~~~~~~-~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (539)
                      ++++|...+++...... .++.  ..|..+...+...|++++|..++++....
T Consensus       163 ~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~  215 (355)
T cd05804         163 RFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAP  215 (355)
T ss_pred             CHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhcc
Confidence            88888888888776421 1222  23456777888888888888888887543

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.

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=99.20  E-value=2.5e-07  Score=89.20  Aligned_cols=474  Identities=11%  Similarity=-0.001  Sum_probs=280.9

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcC
Q 009255           15 TILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAG   94 (539)
Q Consensus        15 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g   94 (539)
                      ..+..|.+. +...|...|-+..+..+ .=...|..|+..|....+..+|.+.|...-+.+.. +..........|++..
T Consensus       464 w~a~~~~rK-~~~~al~ali~alrld~-~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLDat-daeaaaa~adtyae~~  540 (1238)
T KOG1127|consen  464 WVALGCMRK-NSALALHALIRALRLDV-SLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELDAT-DAEAAAASADTYAEES  540 (1238)
T ss_pred             HHHHHHhhh-hHHHHHHHHHHHHhccc-chhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCch-hhhhHHHHHHHhhccc
Confidence            344455444 37778888877777653 23458899999999888999999999999887543 6677888899999999


Q ss_pred             ChHHHHHHHHHHHhCC-CCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHHHHH
Q 009255           95 MLEEAFRLRKEMESLK-LLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIV  173 (539)
Q Consensus        95 ~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  173 (539)
                      +++.|..+.-...+.. ...-...|..+.-.|...++...++.-|+......++ |...|..++.+|...|++..|.++|
T Consensus       541 ~we~a~~I~l~~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~dPk-D~n~W~gLGeAY~~sGry~~AlKvF  619 (1238)
T KOG1127|consen  541 TWEEAFEICLRAAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTDPK-DYNLWLGLGEAYPESGRYSHALKVF  619 (1238)
T ss_pred             cHHHHHHHHHHHhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCCch-hHHHHHHHHHHHHhcCceehHHHhh
Confidence            9999998844433321 0111233445566677889999999999998887544 8889999999999999999999999


Q ss_pred             HHHHHcCCCCChh-hHHHHHHHHHhcCCHHHHHHHHHHHhhCC------CCCCHHhHHHHHHHHhccCCHHHHHHHHHHH
Q 009255          174 RNMEENGFSPDCV-TYNTLIDANCKAGNMEEAFRMMDVMGRKG------LKMNTITLNTILHTLCCEKKLDEAYMLLNSA  246 (539)
Q Consensus       174 ~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  246 (539)
                      .+....  .|+.. .-.......+..|.+.+++..+.......      ..--..++..+...+...|-...+...++..
T Consensus       620 ~kAs~L--rP~s~y~~fk~A~~ecd~GkYkeald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eks  697 (1238)
T KOG1127|consen  620 TKASLL--RPLSKYGRFKEAVMECDNGKYKEALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKS  697 (1238)
T ss_pred             hhhHhc--CcHhHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHH
Confidence            988775  34432 22223334567899999999888775421      1111222333333333333333333333322


Q ss_pred             h-------hcCCccCHhhHHHHHHHH-------------------H----ccCCH---H---HHHHHHHHHHHcCCCCCH
Q 009255          247 S-------KRGYYLDEVSYGTLITGY-------------------F----RDEKA---N---RALKLWDEMKERQIMPST  290 (539)
Q Consensus       247 ~-------~~~~~~~~~~~~~l~~~~-------------------~----~~~~~---~---~a~~~~~~~~~~~~~~~~  290 (539)
                      +       ......+...|..+..++                   .    ..+..   +   -+.+.+-.-+  ....+.
T Consensus       698 ie~f~~~l~h~~~~~~~~Wi~asdac~~f~q~e~~~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~hl--sl~~~~  775 (1238)
T KOG1127|consen  698 IESFIVSLIHSLQSDRLQWIVASDACYIFSQEEPSIVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIAHL--SLAIHM  775 (1238)
T ss_pred             HHHHHHHHHHhhhhhHHHHHHHhHHHHHHHHhcccchHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhHHH--HHhhcc
Confidence            1       111111111111111111                   1    11111   1   0111111000  111123


Q ss_pred             hhHHHHHHHHHc-------C-CCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHh
Q 009255          291 FTYNAMIWGLSQ-------S-GKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVT  362 (539)
Q Consensus       291 ~~~~~l~~~~~~-------~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  362 (539)
                      .+|..++..|.+       . .+...|+..+.+.++.. ..+..+++.+. .....|.+.-+...|-+.+... +....+
T Consensus       776 ~~WyNLGinylr~f~~l~et~~~~~~Ai~c~KkaV~L~-ann~~~WnaLG-Vlsg~gnva~aQHCfIks~~se-p~~~~~  852 (1238)
T KOG1127|consen  776 YPWYNLGINYLRYFLLLGETMKDACTAIRCCKKAVSLC-ANNEGLWNALG-VLSGIGNVACAQHCFIKSRFSE-PTCHCQ  852 (1238)
T ss_pred             chHHHHhHHHHHHHHHcCCcchhHHHHHHHHHHHHHHh-hccHHHHHHHH-Hhhccchhhhhhhhhhhhhhcc-ccchhh
Confidence            344444433322       1 22346677777766542 22445555544 3466677777777776666553 345667


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHh----CCCCCCHhhHHHHHH
Q 009255          363 CNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEE----KKLGPDRYTYAAIHT  438 (539)
Q Consensus       363 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~----~~~~~~~~~~~~l~~  438 (539)
                      |..+.-.+.+..+++.|...|.......+. |...|..........|+.-++..+|..--.    .|-.|+...+.....
T Consensus       853 W~NlgvL~l~n~d~E~A~~af~~~qSLdP~-nl~~WlG~Ali~eavG~ii~~~~lfaHs~el~~~~gka~~f~Yw~c~te  931 (1238)
T KOG1127|consen  853 WLNLGVLVLENQDFEHAEPAFSSVQSLDPL-NLVQWLGEALIPEAVGRIIERLILFAHSDELCSKEGKAKKFQYWLCATE  931 (1238)
T ss_pred             eeccceeEEecccHHHhhHHHHhhhhcCch-hhHHHHHHHHhHHHHHHHHHHHHHHHhhHHhhccccccchhhHHHHHHH
Confidence            777777788888999999999888776433 666777666666677888888887776221    133444444444444


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChh-hHHHHHHHHhhcCCHHHHHHHHHHHH
Q 009255          439 ALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSI-SYSEKINEHCSQGRYKDALQIFEETR  509 (539)
Q Consensus       439 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~  509 (539)
                      .....|+.++-+...+++........        .-..+ .|+.. +|...+...-..+.+.+|..+..+.+
T Consensus       932 ~h~~Ng~~e~~I~t~~ki~sAs~al~--------~yf~~-~p~~~fAy~~~gstlEhL~ey~~a~ela~Rli  994 (1238)
T KOG1127|consen  932 IHLQNGNIEESINTARKISSASLALS--------YYFLG-HPQLCFAYAANGSTLEHLEEYRAALELATRLI  994 (1238)
T ss_pred             HHHhccchHHHHHHhhhhhhhHHHHH--------HHHhc-CcchhHHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence            55566766665444333321110000        00011 25544 88888888889999999999888865

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=99.20  E-value=3.2e-08  Score=88.73  Aligned_cols=414  Identities=16%  Similarity=0.124  Sum_probs=234.5

Q ss_pred             HHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC-hhhHHHHHHHHhccCCH
Q 009255           53 SGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPD-VVTYNTLINRFFESGRS  131 (539)
Q Consensus        53 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~  131 (539)
                      .+.+..|+++.|...|...+...+. +-..|+.-..+|...|++++|++=-.+-.+.  .|+ ...|.-...++.-.|++
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            4456778888888888888877554 7777888888888888888887766666654  455 34677888888888888


Q ss_pred             hHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHHHHHcCCCCChhhHHHH-----HHHHHhcCCHHHHHH
Q 009255          132 MEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTL-----IDANCKAGNMEEAFR  206 (539)
Q Consensus       132 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l-----~~~~~~~~~~~~a~~  206 (539)
                      ++|+..|.+-++... .+...+.-+..++    ..+.+.     +..   --++..|..+     .+.+.....+...++
T Consensus        87 ~eA~~ay~~GL~~d~-~n~~L~~gl~~a~----~~~~~~-----~~~---~~~p~~~~~l~~~p~t~~~~~~~~~~~~l~  153 (539)
T KOG0548|consen   87 EEAILAYSEGLEKDP-SNKQLKTGLAQAY----LEDYAA-----DQL---FTKPYFHEKLANLPLTNYSLSDPAYVKILE  153 (539)
T ss_pred             HHHHHHHHHHhhcCC-chHHHHHhHHHhh----hHHHHh-----hhh---ccCcHHHHHhhcChhhhhhhccHHHHHHHH
Confidence            888888888776522 2455555555555    111111     111   0112222211     122222222222222


Q ss_pred             HHHHHhhCCCCCCHHhH---HHHHHHHhccCCHHHHHHHHHHHhhcCCcc-----CHhhHHHHHHHHHccCCHHHHHHHH
Q 009255          207 MMDVMGRKGLKMNTITL---NTILHTLCCEKKLDEAYMLLNSASKRGYYL-----DEVSYGTLITGYFRDEKANRALKLW  278 (539)
Q Consensus       207 ~~~~~~~~~~~~~~~~~---~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~  278 (539)
                      .+   .+.  +.+...+   ..++.+.......+.-     .....+..+     .+.  .......-..++..+-.+  
T Consensus       154 ~~---~~~--p~~l~~~l~d~r~m~a~~~l~~~~~~-----~~~~~~~~~~~~~~~p~--~~~~~~~~~~~d~~ee~~--  219 (539)
T KOG0548|consen  154 II---QKN--PTSLKLYLNDPRLMKADGQLKGVDEL-----LFYASGIEILASMAEPC--KQEHNGFPIIEDNTEERR--  219 (539)
T ss_pred             Hh---hcC--cHhhhcccccHHHHHHHHHHhcCccc-----cccccccccCCCCCCcc--cccCCCCCccchhHHHHH--
Confidence            22   111  0000000   0111111100000000     000001000     000  000000000000000000  


Q ss_pred             HHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCC
Q 009255          279 DEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKP  358 (539)
Q Consensus       279 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  358 (539)
                         .    ..-..-...+..+..+..+++.+++-+....+..  .+..-++....++...|.+..+...-....+.|.. 
T Consensus       220 ---~----k~~a~~ek~lgnaaykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre-  289 (539)
T KOG0548|consen  220 ---V----KEKAHKEKELGNAAYKKKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRE-  289 (539)
T ss_pred             ---H----HHhhhHHHHHHHHHHHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHH-
Confidence               0    0012234556777777888999999998888764  35556677777888888888877777776665422 


Q ss_pred             CHHhH-------HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCH-
Q 009255          359 DIVTC-------NILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDR-  430 (539)
Q Consensus       359 ~~~~~-------~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-  430 (539)
                      ...-+       ..+..+|.+.++++.|+..+++.......|+.         ..+....+++........-  +.|.. 
T Consensus       290 ~rad~klIak~~~r~g~a~~k~~~~~~ai~~~~kaLte~Rt~~~---------ls~lk~~Ek~~k~~e~~a~--~~pe~A  358 (539)
T KOG0548|consen  290 LRADYKLIAKALARLGNAYTKREDYEGAIKYYQKALTEHRTPDL---------LSKLKEAEKALKEAERKAY--INPEKA  358 (539)
T ss_pred             HHHHHHHHHHHHHHhhhhhhhHHhHHHHHHHHHHHhhhhcCHHH---------HHHHHHHHHHHHHHHHHHh--hChhHH
Confidence            22222       22444666778899999999887765333221         2233445666665555442  34543 


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChh-hHHHHHHHHhhcCCHHHHHHHHHHHH
Q 009255          431 YTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSI-SYSEKINEHCSQGRYKDALQIFEETR  509 (539)
Q Consensus       431 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~  509 (539)
                      .-...-+..+.+.|++..|++.|.+++..+                   |+.. .|.+.+.+|.+.|.+..|++-.+..+
T Consensus       359 ~e~r~kGne~Fk~gdy~~Av~~YteAIkr~-------------------P~Da~lYsNRAac~~kL~~~~~aL~Da~~~i  419 (539)
T KOG0548|consen  359 EEEREKGNEAFKKGDYPEAVKHYTEAIKRD-------------------PEDARLYSNRAACYLKLGEYPEALKDAKKCI  419 (539)
T ss_pred             HHHHHHHHHHHhccCHHHHHHHHHHHHhcC-------------------CchhHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            223344778889999999999999999997                   5554 99999999999999999999999999


Q ss_pred             HcCCCCCHHHHHHHHHHHHhcCCchhhcc
Q 009255          510 QKGIAINKSTYMNLMNGLIKRRKSISKAV  538 (539)
Q Consensus       510 ~~~~~p~~~~~~~~l~~~~~~~~~~~~A~  538 (539)
                      +  +.|+...-..--+.++..-++|.+|.
T Consensus       420 e--L~p~~~kgy~RKg~al~~mk~ydkAl  446 (539)
T KOG0548|consen  420 E--LDPNFIKAYLRKGAALRAMKEYDKAL  446 (539)
T ss_pred             h--cCchHHHHHHHHHHHHHHHHHHHHHH
Confidence            8  57776544333345555555566654

>PF13041 PPR_2: PPR repeat family

Probab=99.20  E-value=6.1e-11  Score=72.95  Aligned_cols=47  Identities=43%  Similarity=0.759  Sum_probs=20.5

Q ss_pred             CHHHHHHHHHHHHhcCCHhHHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 009255          149 NAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDAN  195 (539)
Q Consensus       149 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  195 (539)
                      |..+|+.++.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|
T Consensus         2 ~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~   48 (50)
T PF13041_consen    2 DVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGL   48 (50)
T ss_pred             chHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            44444444444444444444444444444444444444444444443

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.20  E-value=1.2e-06  Score=84.69  Aligned_cols=124  Identities=12%  Similarity=0.081  Sum_probs=79.5

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCC------CCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHH
Q 009255           13 YNTILDALFKKGKLNEVRDLLSDMKKQG------LVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNML   86 (539)
Q Consensus        13 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l   86 (539)
                      +..+.+.|.+.|-+..|++.+..+..-.      ...++.   - +..|.-.-.++.+.+.+..|...+...+..+...+
T Consensus       609 ra~IAqLCEKAGL~qraLehytDl~DIKR~vVhth~L~pE---w-Lv~yFg~lsve~s~eclkaml~~NirqNlQi~VQv  684 (1666)
T KOG0985|consen  609 RAEIAQLCEKAGLLQRALEHYTDLYDIKRVVVHTHLLNPE---W-LVNYFGSLSVEDSLECLKAMLSANIRQNLQIVVQV  684 (1666)
T ss_pred             HHHHHHHHHhcchHHHHHHhcccHHHHHHHHHHhccCCHH---H-HHHHHHhcCHHHHHHHHHHHHHHHHHhhhHHHHHH
Confidence            5677888888898888887776654321      001111   1 12233444677888888888877777676666666


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhC-----------CCCCChhhHHHHHHHHhccCCHhHHHHHHHH
Q 009255           87 INGWCNAGMLEEAFRLRKEMESL-----------KLLPDVVTYNTLINRFFESGRSMEAFKLIDE  140 (539)
Q Consensus        87 ~~~~~~~g~~~~a~~~~~~~~~~-----------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  140 (539)
                      ..-|..+=-.+..+++|+.....           ++..|+.+....|.+.++.|++.+..++.++
T Consensus       685 atky~eqlg~~~li~lFE~fks~eGL~yfLgSivn~seDpevh~KYIqAA~kt~QikEvERicre  749 (1666)
T KOG0985|consen  685 ATKYHEQLGAQALIELFESFKSYEGLYYFLGSIVNFSEDPEVHFKYIQAACKTGQIKEVERICRE  749 (1666)
T ss_pred             HHHHHHHhCHHHHHHHHHhhccchhHHHHHHHHhccccCchHHHHHHHHHHhhccHHHHHHHHhc
Confidence            66666555555666666655432           2455666777778888888888887776644

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=99.20  E-value=1.8e-06  Score=81.72  Aligned_cols=208  Identities=14%  Similarity=0.196  Sum_probs=107.1

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHHHhCC--------C-CCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCCh
Q 009255           10 NVTYNTILDALFKKGKLNEVRDLLSDMKKQG--------L-VPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDV   80 (539)
Q Consensus        10 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--------~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~   80 (539)
                      ...|..+...|.+.++.+-|.-.+..|....        . .++ .+-..........|-.++|+.++.+..+.      
T Consensus       757 ~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~-e~eakvAvLAieLgMlEeA~~lYr~ckR~------  829 (1416)
T KOG3617|consen  757 DSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE-EDEAKVAVLAIELGMLEEALILYRQCKRY------  829 (1416)
T ss_pred             hHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc-chhhHHHHHHHHHhhHHHHHHHHHHHHHH------
Confidence            3466777777777776666665555544321        0 111 11122223334566777777777766542      


Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHH----------hCC-----
Q 009255           81 WTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELD----------EHG-----  145 (539)
Q Consensus        81 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----------~~~-----  145 (539)
                         ..|=..|-..|.+++|+++-+.-....+   ..||......+-..++.+.|++.|++.-          ...     
T Consensus       830 ---DLlNKlyQs~g~w~eA~eiAE~~DRiHL---r~Tyy~yA~~Lear~Di~~AleyyEK~~~hafev~rmL~e~p~~~e  903 (1416)
T KOG3617|consen  830 ---DLLNKLYQSQGMWSEAFEIAETKDRIHL---RNTYYNYAKYLEARRDIEAALEYYEKAGVHAFEVFRMLKEYPKQIE  903 (1416)
T ss_pred             ---HHHHHHHHhcccHHHHHHHHhhccceeh---hhhHHHHHHHHHhhccHHHHHHHHHhcCChHHHHHHHHHhChHHHH
Confidence               2233445556777777766554333221   2355555555666677777777776531          110     


Q ss_pred             ----CCCCHHHHHHHHHHHHhcCCHhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHH
Q 009255          146 ----IKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTI  221 (539)
Q Consensus       146 ----~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  221 (539)
                          -..|...|.......-..|+.+.|+.+|.....         |.++++..+-.|+.++|-++-++-      -|..
T Consensus       904 ~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D---------~fs~VrI~C~qGk~~kAa~iA~es------gd~A  968 (1416)
T KOG3617|consen  904 QYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD---------YFSMVRIKCIQGKTDKAARIAEES------GDKA  968 (1416)
T ss_pred             HHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh---------hhhheeeEeeccCchHHHHHHHhc------ccHH
Confidence                112444555555555667777777777766543         233344444444444444443331      1333


Q ss_pred             hHHHHHHHHhccCCHHHHHHHHHH
Q 009255          222 TLNTILHTLCCEKKLDEAYMLLNS  245 (539)
Q Consensus       222 ~~~~l~~~~~~~~~~~~a~~~~~~  245 (539)
                      ....+.+.|...|++.+|...|.+
T Consensus       969 AcYhlaR~YEn~g~v~~Av~FfTr  992 (1416)
T KOG3617|consen  969 ACYHLARMYENDGDVVKAVKFFTR  992 (1416)
T ss_pred             HHHHHHHHhhhhHHHHHHHHHHHH
Confidence            344445555555555555554443

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=99.18  E-value=1.9e-07  Score=88.07  Aligned_cols=250  Identities=17%  Similarity=0.163  Sum_probs=114.3

Q ss_pred             CHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHH
Q 009255          254 DEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIH  333 (539)
Q Consensus       254 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  333 (539)
                      ++..|......+-..|+.+.|+.+|.....         |..++...+-+|+.++|-.+-++   .   -|......+.+
T Consensus       911 d~~L~~WWgqYlES~GemdaAl~~Y~~A~D---------~fs~VrI~C~qGk~~kAa~iA~e---s---gd~AAcYhlaR  975 (1416)
T KOG3617|consen  911 DESLYSWWGQYLESVGEMDAALSFYSSAKD---------YFSMVRIKCIQGKTDKAARIAEE---S---GDKAACYHLAR  975 (1416)
T ss_pred             chHHHHHHHHHHhcccchHHHHHHHHHhhh---------hhhheeeEeeccCchHHHHHHHh---c---ccHHHHHHHHH
Confidence            334444444445556666666666654432         33444555556666666555443   1   14444455666


Q ss_pred             HHhcCCCHHHHHHHHHHHHhCC--CC--CCHHhHHHHHHHHHh--cCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHc
Q 009255          334 GFCSEGQVEKALQFHNKMVEKS--FK--PDIVTCNILLSGLCR--EGILEKALKFFRSWILKGKAVDSVTYNTLISSLCK  407 (539)
Q Consensus       334 ~~~~~~~~~~a~~~~~~~~~~~--~~--~~~~~~~~l~~~~~~--~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~  407 (539)
                      .|...|++.+|..+|.++....  +.  .....-..|...+..  ..+.-.|.++|++.-        .-+...+..|.+
T Consensus       976 ~YEn~g~v~~Av~FfTrAqafsnAIRlcKEnd~~d~L~nlal~s~~~d~v~aArYyEe~g--------~~~~~AVmLYHk 1047 (1416)
T KOG3617|consen  976 MYENDGDVVKAVKFFTRAQAFSNAIRLCKENDMKDRLANLALMSGGSDLVSAARYYEELG--------GYAHKAVMLYHK 1047 (1416)
T ss_pred             HhhhhHHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhhcCchhHHHHHHHHHHcc--------hhhhHHHHHHHh
Confidence            6777777777776666553210  00  000001112222211  122333334443311        112223344555


Q ss_pred             cCChHHHHHHHHH--------HHhCCCC--CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC----------CCCcccc
Q 009255          408 ERRLEDAFGLLSE--------MEEKKLG--PDRYTYAAIHTALVESGRLEEAQKFTSIMVETG----------KINHQVV  467 (539)
Q Consensus       408 ~~~~~~A~~~~~~--------~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~----------~~~~~~~  467 (539)
                      +|.+.+|+++--+        ++..++.  .|+..+.....-+....++++|..++-.+.+..          ...-..+
T Consensus      1048 AGm~~kALelAF~tqQf~aL~lIa~DLd~~sDp~ll~RcadFF~~~~qyekAV~lL~~ar~~~~AlqlC~~~nv~vtee~ 1127 (1416)
T KOG3617|consen 1048 AGMIGKALELAFRTQQFSALDLIAKDLDAGSDPKLLRRCADFFENNQQYEKAVNLLCLAREFSGALQLCKNRNVRVTEEF 1127 (1416)
T ss_pred             hcchHHHHHHHHhhcccHHHHHHHHhcCCCCCHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhcCCCchhHHH
Confidence            5665555554221        1111222  234444455555555555666555443332211          0000000


Q ss_pred             cCCCCCCCCCCCCChh---hHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCchhh
Q 009255          468 QPNTSKTPEEIDPSSI---SYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGLIKRRKSISK  536 (539)
Q Consensus       468 ~~~~~~~~~~~~~~~~---~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~  536 (539)
                      ........-+.+|...   ..-.++..+.++|.|..|-+-|.++=+         =...+.+++++|+ .++
T Consensus      1128 aE~mTp~Kd~~~~e~~R~~vLeqvae~c~qQG~Yh~AtKKfTQAGd---------Kl~AMraLLKSGd-t~K 1189 (1416)
T KOG3617|consen 1128 AELMTPTKDDMPNEQERKQVLEQVAELCLQQGAYHAATKKFTQAGD---------KLSAMRALLKSGD-TQK 1189 (1416)
T ss_pred             HHhcCcCcCCCccHHHHHHHHHHHHHHHHhccchHHHHHHHhhhhh---------HHHHHHHHHhcCC-cce
Confidence            0001111112222222   677889999999999999877766532         1245566777765 443

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.14  E-value=4.9e-07  Score=94.99  Aligned_cols=341  Identities=12%  Similarity=0.007  Sum_probs=214.2

Q ss_pred             HHHhcCCHhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCC------CCC--HHhHHHHHHHH
Q 009255          159 WYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGL------KMN--TITLNTILHTL  230 (539)
Q Consensus       159 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~------~~~--~~~~~~l~~~~  230 (539)
                      .....|+++.+...++.+.......+..........+...|+++++...+......-.      .+.  ..........+
T Consensus       383 ~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~  462 (903)
T PRK04841        383 SLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVA  462 (903)
T ss_pred             HHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHH
Confidence            3445677777666666542211112233334445556778999999999987754211      111  11222233455


Q ss_pred             hccCCHHHHHHHHHHHhhcCCccCH----hhHHHHHHHHHccCCHHHHHHHHHHHHHcCC---CC--CHhhHHHHHHHHH
Q 009255          231 CCEKKLDEAYMLLNSASKRGYYLDE----VSYGTLITGYFRDEKANRALKLWDEMKERQI---MP--STFTYNAMIWGLS  301 (539)
Q Consensus       231 ~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~--~~~~~~~l~~~~~  301 (539)
                      ...|+++.|...++.........+.    .....+...+...|++++|...+++......   .+  ...++..+...+.
T Consensus       463 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~  542 (903)
T PRK04841        463 INDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILF  542 (903)
T ss_pred             HhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHH
Confidence            6889999999999987763211121    2345566677889999999999988764211   11  1234455667788


Q ss_pred             cCCCHHHHHHHHHHHHHC----CCC--C-CHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCC--CCC--CHHhHHHHHHHH
Q 009255          302 QSGKTEQAIDMLNELLQS----GMI--P-DETTFNTIIHGFCSEGQVEKALQFHNKMVEKS--FKP--DIVTCNILLSGL  370 (539)
Q Consensus       302 ~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~--~~~~~~~l~~~~  370 (539)
                      ..|+++.|...+++....    +..  + ....+..+...+...|+++.|...+.+.....  ..+  ....+..+...+
T Consensus       543 ~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~  622 (903)
T PRK04841        543 AQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKIS  622 (903)
T ss_pred             HCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHH
Confidence            999999999998886542    211  1 12234445566777899999999998876531  112  233444566678


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCC-ChhhH-----HHHHHHHHccCChHHHHHHHHHHHhCCCCCCH---hhHHHHHHHHH
Q 009255          371 CREGILEKALKFFRSWILKGKAV-DSVTY-----NTLISSLCKERRLEDAFGLLSEMEEKKLGPDR---YTYAAIHTALV  441 (539)
Q Consensus       371 ~~~g~~~~A~~~~~~~~~~~~~~-~~~~~-----~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~---~~~~~l~~~~~  441 (539)
                      ...|+++.|...++++....... ....+     ...+..+...|+.+.|...+............   .....++.++.
T Consensus       623 ~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~  702 (903)
T PRK04841        623 LARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQI  702 (903)
T ss_pred             HHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHH
Confidence            88999999999998876531111 11111     11223445578999999988776542111111   11345777888


Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCCh-hhHHHHHHHHhhcCCHHHHHHHHHHHHHcC
Q 009255          442 ESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSS-ISYSEKINEHCSQGRYKDALQIFEETRQKG  512 (539)
Q Consensus       442 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  512 (539)
                      ..|++++|...+++++.....             .+..+.. .+...++.++.+.|+.++|.+.+.++++..
T Consensus       703 ~~g~~~~A~~~l~~al~~~~~-------------~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~la  761 (903)
T PRK04841        703 LLGQFDEAEIILEELNENARS-------------LRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALKLA  761 (903)
T ss_pred             HcCCHHHHHHHHHHHHHHHHH-------------hCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh
Confidence            999999999999998875311             0001222 267788999999999999999999998854

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.13  E-value=2.1e-08  Score=90.74  Aligned_cols=264  Identities=15%  Similarity=0.100  Sum_probs=193.8

Q ss_pred             HHHhccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHH
Q 009255          228 HTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTE  307 (539)
Q Consensus       228 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  307 (539)
                      .-+.+.|++.+|.-.|+..++.... +...|..|.......++-..|+..+++.++.++. +......|...|...|.-.
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            3456788999999999999887533 6778888888899999999999999999988765 7888888889999999999


Q ss_pred             HHHHHHHHHHHCCCCCCH-------HhHHHHHHHHhcCCCHHHHHHHHHHH-HhCCCCCCHHhHHHHHHHHHhcCCHHHH
Q 009255          308 QAIDMLNELLQSGMIPDE-------TTFNTIIHGFCSEGQVEKALQFHNKM-VEKSFKPDIVTCNILLSGLCREGILEKA  379 (539)
Q Consensus       308 ~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~g~~~~A  379 (539)
                      .|++.++.-+...++--.       ..+.. -..+..........++|-.+ ...+..+|+.+...|.-.|--.|++++|
T Consensus       371 ~Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~-~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdra  449 (579)
T KOG1125|consen  371 QALKMLDKWIRNKPKYVHLVSAGENEDFEN-TKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRA  449 (579)
T ss_pred             HHHHHHHHHHHhCccchhccccCccccccC-CcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHH
Confidence            999999987664321000       00000 00111112233444444444 4455457888888998889999999999


Q ss_pred             HHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCC-HhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 009255          380 LKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPD-RYTYAAIHTALVESGRLEEAQKFTSIMVE  458 (539)
Q Consensus       380 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  458 (539)
                      +..|+.++... +.|...||.|+..+....+..+|+..|+++++  +.|+ ..+...++-+|...|.+.+|.+.|-.++.
T Consensus       450 iDcf~~AL~v~-Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALq--LqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~  526 (579)
T KOG1125|consen  450 VDCFEAALQVK-PNDYLLWNRLGATLANGNRSEEAISAYNRALQ--LQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALS  526 (579)
T ss_pred             HHHHHHHHhcC-CchHHHHHHhhHHhcCCcccHHHHHHHHHHHh--cCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHH
Confidence            99999999874 33788999999999999999999999999996  4787 46677899999999999999999998887


Q ss_pred             cCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHH
Q 009255          459 TGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIF  505 (539)
Q Consensus       459 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  505 (539)
                      ....+..        ......++..+|..|-.++...++.+-+.+..
T Consensus       527 mq~ks~~--------~~~~~~~se~iw~tLR~als~~~~~D~l~~a~  565 (579)
T KOG1125|consen  527 MQRKSRN--------HNKAPMASENIWQTLRLALSAMNRSDLLQEAA  565 (579)
T ss_pred             hhhcccc--------cccCCcchHHHHHHHHHHHHHcCCchHHHHhc
Confidence            6522100        00111123447888777777778877555543

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.12  E-value=7.8e-07  Score=93.48  Aligned_cols=337  Identities=12%  Similarity=0.054  Sum_probs=212.1

Q ss_pred             HHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHHHHHcCC------CCC--hhhHHHHHHHH
Q 009255          124 RFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGF------SPD--CVTYNTLIDAN  195 (539)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~------~~~--~~~~~~l~~~~  195 (539)
                      .....|+++.+..+++.+.......++.........+...|+++++...+......--      .+.  ......+...+
T Consensus       383 ~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~  462 (903)
T PRK04841        383 SLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVA  462 (903)
T ss_pred             HHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHH
Confidence            3445677777666666542211111233334445556678999999999887754310      111  11222334456


Q ss_pred             HhcCCHHHHHHHHHHHhhCCCCCCH----HhHHHHHHHHhccCCHHHHHHHHHHHhhcCCc-----cCHhhHHHHHHHHH
Q 009255          196 CKAGNMEEAFRMMDVMGRKGLKMNT----ITLNTILHTLCCEKKLDEAYMLLNSASKRGYY-----LDEVSYGTLITGYF  266 (539)
Q Consensus       196 ~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----~~~~~~~~l~~~~~  266 (539)
                      ...|++++|...++.....-...+.    .....+...+...|+++.|...+.........     ........+...+.
T Consensus       463 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~  542 (903)
T PRK04841        463 INDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILF  542 (903)
T ss_pred             HhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHH
Confidence            6899999999999987663111121    23345556677899999999998887653111     11234455667788


Q ss_pred             ccCCHHHHHHHHHHHHHc----CCC--C-CHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCC--CCC--CHHhHHHHHHHH
Q 009255          267 RDEKANRALKLWDEMKER----QIM--P-STFTYNAMIWGLSQSGKTEQAIDMLNELLQSG--MIP--DETTFNTIIHGF  335 (539)
Q Consensus       267 ~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~--~~~~~~~l~~~~  335 (539)
                      ..|+++.|...+++....    +..  + ....+..+...+...|++++|...+.+.....  ..+  ....+..+....
T Consensus       543 ~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~  622 (903)
T PRK04841        543 AQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKIS  622 (903)
T ss_pred             HCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHH
Confidence            999999999998876542    211  1 12334455666777899999999998875431  111  233444466677


Q ss_pred             hcCCCHHHHHHHHHHHHhCC--CCCCHHh----HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCh---hhHHHHHHHHH
Q 009255          336 CSEGQVEKALQFHNKMVEKS--FKPDIVT----CNILLSGLCREGILEKALKFFRSWILKGKAVDS---VTYNTLISSLC  406 (539)
Q Consensus       336 ~~~~~~~~a~~~~~~~~~~~--~~~~~~~----~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~---~~~~~l~~~~~  406 (539)
                      ...|+++.|...+.......  .......    ....+..+...|+.+.|...+............   ..+..+..++.
T Consensus       623 ~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~  702 (903)
T PRK04841        623 LARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQI  702 (903)
T ss_pred             HHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHH
Confidence            88999999999998875421  1111110    011224455689999999998775542111111   11346777888


Q ss_pred             ccCChHHHHHHHHHHHhC----CCCCC-HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          407 KERRLEDAFGLLSEMEEK----KLGPD-RYTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       407 ~~~~~~~A~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      ..|++++|...++++...    +..++ ..+...++.++...|+.++|...+.++++..
T Consensus       703 ~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~la  761 (903)
T PRK04841        703 LLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALKLA  761 (903)
T ss_pred             HcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh
Confidence            999999999999988753    22222 2456677788999999999999999999876

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=99.12  E-value=5.5e-09  Score=81.29  Aligned_cols=121  Identities=9%  Similarity=-0.045  Sum_probs=96.4

Q ss_pred             HHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 009255          380 LKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVET  459 (539)
Q Consensus       380 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  459 (539)
                      ..++++.++.    ++..+..++.++...|++++|...|+++.... +.+...+..++.++...|++++|+..|+++++.
T Consensus        13 ~~~~~~al~~----~p~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l   87 (144)
T PRK15359         13 EDILKQLLSV----DPETVYASGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALML   87 (144)
T ss_pred             HHHHHHHHHc----CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            3456666654    33346667888889999999999999988653 446778888999999999999999999999988


Q ss_pred             CCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 009255          460 GKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMN  525 (539)
Q Consensus       460 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~  525 (539)
                      +                  +.+...+..++.++...|++++|+..|+++++  +.|+...+....+
T Consensus        88 ~------------------p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~--~~p~~~~~~~~~~  133 (144)
T PRK15359         88 D------------------ASHPEPVYQTGVCLKMMGEPGLAREAFQTAIK--MSYADASWSEIRQ  133 (144)
T ss_pred             C------------------CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCChHHHHHHH
Confidence            7                  44555899999999999999999999999987  6788776665554

>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=99.12  E-value=1.1e-08  Score=89.29  Aligned_cols=152  Identities=18%  Similarity=0.132  Sum_probs=89.6

Q ss_pred             HHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHh----c
Q 009255          298 WGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCR----E  373 (539)
Q Consensus       298 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~  373 (539)
                      ..+...|++++|++++...      .+.......++.+.+.++++.|.+.++.|.+..  .| .+...++.++..    .
T Consensus       110 ~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~~--eD-~~l~qLa~awv~l~~g~  180 (290)
T PF04733_consen  110 TILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQQID--ED-SILTQLAEAWVNLATGG  180 (290)
T ss_dssp             HHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCCS--CC-HHHHHHHHHHHHHHHTT
T ss_pred             HHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--Cc-HHHHHHHHHHHHHHhCc
Confidence            3455567777776666431      245555666677777777777777777776542  22 333334443332    2


Q ss_pred             CCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCH-HHHHHH
Q 009255          374 GILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRL-EEAQKF  452 (539)
Q Consensus       374 g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~A~~~  452 (539)
                      +.+.+|..+|+++.+. .++++.+.+.++.++...|++++|.+++.++...+ +-+..++..++-+....|+. +.+.++
T Consensus       181 e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~-~~~~d~LaNliv~~~~~gk~~~~~~~~  258 (290)
T PF04733_consen  181 EKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKD-PNDPDTLANLIVCSLHLGKPTEAAERY  258 (290)
T ss_dssp             TCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC--CCHHHHHHHHHHHHHHTT-TCHHHHHH
T ss_pred             hhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhc-cCCHHHHHHHHHHHHHhCCChhHHHHH
Confidence            3577777777776554 44566677777777777777777777777776543 33455666666666666666 556667


Q ss_pred             HHHHHHcC
Q 009255          453 TSIMVETG  460 (539)
Q Consensus       453 ~~~~~~~~  460 (539)
                      +.++....
T Consensus       259 l~qL~~~~  266 (290)
T PF04733_consen  259 LSQLKQSN  266 (290)
T ss_dssp             HHHCHHHT
T ss_pred             HHHHHHhC
Confidence            76666654

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.

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=99.10  E-value=1.6e-06  Score=81.07  Aligned_cols=169  Identities=15%  Similarity=0.174  Sum_probs=108.9

Q ss_pred             HHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCH
Q 009255          297 IWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGIL  376 (539)
Q Consensus       297 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  376 (539)
                      +.+......+.+|+.+++.++.+..  ...-|..+.+.|...|+++.|.++|-+.         ..++..+.+|.+.|++
T Consensus       739 ieaai~akew~kai~ildniqdqk~--~s~yy~~iadhyan~~dfe~ae~lf~e~---------~~~~dai~my~k~~kw  807 (1636)
T KOG3616|consen  739 IEAAIGAKEWKKAISILDNIQDQKT--ASGYYGEIADHYANKGDFEIAEELFTEA---------DLFKDAIDMYGKAGKW  807 (1636)
T ss_pred             HHHHhhhhhhhhhHhHHHHhhhhcc--ccccchHHHHHhccchhHHHHHHHHHhc---------chhHHHHHHHhccccH
Confidence            4445556677777777777766532  3345666777777778888777777543         1234556777788888


Q ss_pred             HHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 009255          377 EKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIM  456 (539)
Q Consensus       377 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  456 (539)
                      ++|.++-.+..  |+......|..-..-+-.+|++.+|.++|-..   | .|+.     .+..|-+.|..++.+++.++-
T Consensus       808 ~da~kla~e~~--~~e~t~~~yiakaedldehgkf~eaeqlyiti---~-~p~~-----aiqmydk~~~~ddmirlv~k~  876 (1636)
T KOG3616|consen  808 EDAFKLAEECH--GPEATISLYIAKAEDLDEHGKFAEAEQLYITI---G-EPDK-----AIQMYDKHGLDDDMIRLVEKH  876 (1636)
T ss_pred             HHHHHHHHHhc--CchhHHHHHHHhHHhHHhhcchhhhhheeEEc---c-CchH-----HHHHHHhhCcchHHHHHHHHh
Confidence            87777766543  22333445555555666777777777766543   2 4443     345667777777777665443


Q ss_pred             HHcCCCCcccccCCCCCCCCCCCCChh--hHHHHHHHHhhcCCHHHHHHHHHHHH
Q 009255          457 VETGKINHQVVQPNTSKTPEEIDPSSI--SYSEKINEHCSQGRYKDALQIFEETR  509 (539)
Q Consensus       457 ~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~g~~~~A~~~~~~~~  509 (539)
                                            .|+..  +...++.-|-..|+..+|...|-++.
T Consensus       877 ----------------------h~d~l~dt~~~f~~e~e~~g~lkaae~~flea~  909 (1636)
T KOG3616|consen  877 ----------------------HGDHLHDTHKHFAKELEAEGDLKAAEEHFLEAG  909 (1636)
T ss_pred             ----------------------ChhhhhHHHHHHHHHHHhccChhHHHHHHHhhh
Confidence                                  23332  67778888888999999988887765

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.09  E-value=1.5e-05  Score=77.59  Aligned_cols=334  Identities=14%  Similarity=0.135  Sum_probs=178.1

Q ss_pred             HHHHHHhCCCC--CCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCC--CChhhHHHHHHHHHhcCChHHHHHHHHHHH
Q 009255           32 LLSDMKKQGLV--PNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSL--PDVWTYNMLINGWCNAGMLEEAFRLRKEME  107 (539)
Q Consensus        32 ~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  107 (539)
                      +.++..+.+++  .|+...+..+.++...+-..+.+++++++.-.+..  -+....+.|+-... .-+..+..++.+++.
T Consensus       969 LiDqVv~tal~E~~dPe~vS~tVkAfMtadLp~eLIELLEKIvL~~S~Fse~~nLQnLLiLtAi-kad~trVm~YI~rLd 1047 (1666)
T KOG0985|consen  969 LIDQVVQTALPETQDPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSENRNLQNLLILTAI-KADRTRVMEYINRLD 1047 (1666)
T ss_pred             HHHHHHHhcCCccCChHHHHHHHHHHHhcCCcHHHHHHHHHHhcCCcccccchhhhhhHHHHHh-hcChHHHHHHHHHhc
Confidence            34444444332  35556666777777777777777777777643211  12222333333332 334455555555554


Q ss_pred             hCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHHHHHcCCCCChhh
Q 009255          108 SLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVT  187 (539)
Q Consensus       108 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  187 (539)
                      .-+ .|+      +...+..++-+++|..+|++...     +....+.|+.-   -+.++.|.+.-++..      .+..
T Consensus      1048 nyD-a~~------ia~iai~~~LyEEAF~ifkkf~~-----n~~A~~VLie~---i~~ldRA~efAe~~n------~p~v 1106 (1666)
T KOG0985|consen 1048 NYD-APD------IAEIAIENQLYEEAFAIFKKFDM-----NVSAIQVLIEN---IGSLDRAYEFAERCN------EPAV 1106 (1666)
T ss_pred             cCC-chh------HHHHHhhhhHHHHHHHHHHHhcc-----cHHHHHHHHHH---hhhHHHHHHHHHhhC------ChHH
Confidence            432 122      23445556667777777766432     44444444432   345555555544432      3446


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHc
Q 009255          188 YNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFR  267 (539)
Q Consensus       188 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  267 (539)
                      |..+..+-.+.|...+|++-|-+.      .|+..|..++....+.|.+++-.+.+..+.+....|  ..-..|+.+|.+
T Consensus      1107 WsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~--~id~eLi~AyAk 1178 (1666)
T KOG0985|consen 1107 WSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREP--YIDSELIFAYAK 1178 (1666)
T ss_pred             HHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCc--cchHHHHHHHHH
Confidence            777777777777777777666432      255667777777777777777777776666654332  233466777777


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHH
Q 009255          268 DEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQF  347 (539)
Q Consensus       268 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  347 (539)
                      .++..+..+.+.       .|+......+..-|...+.++.|.-+|...         ..|..+...+...|+++.|.+.
T Consensus      1179 t~rl~elE~fi~-------gpN~A~i~~vGdrcf~~~~y~aAkl~y~~v---------SN~a~La~TLV~LgeyQ~AVD~ 1242 (1666)
T KOG0985|consen 1179 TNRLTELEEFIA-------GPNVANIQQVGDRCFEEKMYEAAKLLYSNV---------SNFAKLASTLVYLGEYQGAVDA 1242 (1666)
T ss_pred             hchHHHHHHHhc-------CCCchhHHHHhHHHhhhhhhHHHHHHHHHh---------hhHHHHHHHHHHHHHHHHHHHH
Confidence            776665444331       245555555566666666666665555422         2344455555555555555543


Q ss_pred             HHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHH
Q 009255          348 HNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEME  422 (539)
Q Consensus       348 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  422 (539)
                      -+++      .+..+|..+-.+|...+.+.-|     ++....+.....-...++.-|-..|-+++-+.+++...
T Consensus      1243 aRKA------ns~ktWK~VcfaCvd~~EFrlA-----QiCGL~iivhadeLeeli~~Yq~rGyFeElIsl~Ea~L 1306 (1666)
T KOG0985|consen 1243 ARKA------NSTKTWKEVCFACVDKEEFRLA-----QICGLNIIVHADELEELIEYYQDRGYFEELISLLEAGL 1306 (1666)
T ss_pred             hhhc------cchhHHHHHHHHHhchhhhhHH-----HhcCceEEEehHhHHHHHHHHHhcCcHHHHHHHHHhhh
Confidence            3332      2445555555555544443322     12222222233334455556666666666666665544

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=99.08  E-value=9.1e-06  Score=73.51  Aligned_cols=410  Identities=10%  Similarity=0.086  Sum_probs=238.4

Q ss_pred             CcChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHH
Q 009255            7 LPDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNML   86 (539)
Q Consensus         7 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l   86 (539)
                      +-|+.+|+.||+-+..+ .++++++.++++... +|.++..|..-+..-.+.++++....+|.+++..  ..+...|...
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            45889999999987666 999999999999987 5778889999999999999999999999999876  3467777777


Q ss_pred             HHHHHh-cCChHH----HHHHHHHH-HhCCCCCC-hhhHHHHHHHH---------hccCCHhHHHHHHHHHHhCCCCCCH
Q 009255           87 INGWCN-AGMLEE----AFRLRKEM-ESLKLLPD-VVTYNTLINRF---------FESGRSMEAFKLIDELDEHGIKPNA  150 (539)
Q Consensus        87 ~~~~~~-~g~~~~----a~~~~~~~-~~~~~~~~-~~~~~~l~~~~---------~~~~~~~~a~~~~~~~~~~~~~~~~  150 (539)
                      ++--.+ .|+...    ..+.|+-. .+.|+.+- -..|+..+..+         ..+.+.+...++|+++...-+.-=.
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            664332 233322    22333332 23343332 23355444332         3344566677788887654211111


Q ss_pred             HHHHH------HH-----HHH--HhcCCHhHHHHHHHHHHH--cCCCCChhh---------------HHHHHHHHHhc--
Q 009255          151 VTHNI------MI-----KWY--CKEGKIDKACKIVRNMEE--NGFSPDCVT---------------YNTLIDANCKA--  198 (539)
Q Consensus       151 ~~~~~------l~-----~~~--~~~g~~~~a~~~~~~~~~--~~~~~~~~~---------------~~~l~~~~~~~--  198 (539)
                      ..|+-      -+     +-+  -+...+..|.++++++..  .|......+               |..+|.---..  
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            11211      11     111  123346677777777654  232211111               32233211111  


Q ss_pred             ----CCH--HHHHHHHHHHh-hCCCCCCHHhHHHHH-------HHHhccCC-------HHHHHHHHHHHhhcCCccCHhh
Q 009255          199 ----GNM--EEAFRMMDVMG-RKGLKMNTITLNTIL-------HTLCCEKK-------LDEAYMLLNSASKRGYYLDEVS  257 (539)
Q Consensus       199 ----~~~--~~a~~~~~~~~-~~~~~~~~~~~~~l~-------~~~~~~~~-------~~~a~~~~~~~~~~~~~~~~~~  257 (539)
                          |..  ....-.+++.. -.+..|+  .|....       ..+...|+       .+++..+++..+..-..-+..+
T Consensus       253 ~t~~~~~~~~Rv~yayeQ~ll~l~~~pe--iWy~~s~yl~~~s~l~~~~~d~~~a~~~t~e~~~~yEr~I~~l~~~~~~L  330 (656)
T KOG1914|consen  253 RTLDGTMLTRRVMYAYEQCLLYLGYHPE--IWYDYSMYLIEISDLLTEKGDVPDAKSLTDEAASIYERAIEGLLKENKLL  330 (656)
T ss_pred             ccccccHHHHHHHHHHHHHHHHHhcCHH--HHHHHHHHHHHhhHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHH
Confidence                000  11111122211 1122222  222211       12222333       3445555555544322223333


Q ss_pred             HHHHHHHHHc---cCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCC-CHHhHHHHHH
Q 009255          258 YGTLITGYFR---DEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIP-DETTFNTIIH  333 (539)
Q Consensus       258 ~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~  333 (539)
                      |..+...--.   .+..+.....+++++......-..+|..++....+..-...|..+|.++.+.+..+ +..+...++.
T Consensus       331 y~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mE  410 (656)
T KOG1914|consen  331 YFALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALME  410 (656)
T ss_pred             HHHHHhhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHH
Confidence            3333322111   11355556666666554322234567778888888888889999999988876665 4555666666


Q ss_pred             HHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC--hhhHHHHHHHHHccCCh
Q 009255          334 GFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVD--SVTYNTLISSLCKERRL  411 (539)
Q Consensus       334 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~  411 (539)
                      .++ .+|...|.++|+.-++. +..++.-....+.-+...++-..|..+|++....+..|+  ..+|..++.--..-|+.
T Consensus       411 y~c-skD~~~AfrIFeLGLkk-f~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL  488 (656)
T KOG1914|consen  411 YYC-SKDKETAFRIFELGLKK-FGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDL  488 (656)
T ss_pred             HHh-cCChhHHHHHHHHHHHh-cCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccH
Confidence            554 57888899999877665 233445555667777788888889999999888755544  35888888888888998


Q ss_pred             HHHHHHHHHHHhC
Q 009255          412 EDAFGLLSEMEEK  424 (539)
Q Consensus       412 ~~A~~~~~~~~~~  424 (539)
                      ..++++-+++...
T Consensus       489 ~si~~lekR~~~a  501 (656)
T KOG1914|consen  489 NSILKLEKRRFTA  501 (656)
T ss_pred             HHHHHHHHHHHHh
Confidence            8888888777643

>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=99.07  E-value=8.6e-09  Score=89.93  Aligned_cols=227  Identities=19%  Similarity=0.172  Sum_probs=147.3

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCC-CHHhHHHHHHHHh
Q 009255          258 YGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIP-DETTFNTIIHGFC  336 (539)
Q Consensus       258 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~  336 (539)
                      ...+.+++...|+++.++.   ++.... .|.......+...+...++-+.++.-+++.......+ +..........+.
T Consensus        38 ~~~~~Rs~iAlg~~~~vl~---ei~~~~-~~~l~av~~la~y~~~~~~~e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~  113 (290)
T PF04733_consen   38 DFYQYRSYIALGQYDSVLS---EIKKSS-SPELQAVRLLAEYLSSPSDKESALEELKELLADQAGESNEIVQLLAATILF  113 (290)
T ss_dssp             HHHHHHHHHHTT-HHHHHH---HS-TTS-SCCCHHHHHHHHHHCTSTTHHCHHHHHHHCCCTS---CHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHcCChhHHHH---HhccCC-ChhHHHHHHHHHHHhCccchHHHHHHHHHHHHhccccccHHHHHHHHHHHH
Confidence            3445566666666554332   222222 4555555555554444345555655555444333222 2233333345567


Q ss_pred             cCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHH----ccCChH
Q 009255          337 SEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLC----KERRLE  412 (539)
Q Consensus       337 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~----~~~~~~  412 (539)
                      ..|+++.|++++...      .+.+.....+.+|.+.++++.|.+.++.|.+.  ..|. +...++.++.    -.+.+.
T Consensus       114 ~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~--~eD~-~l~qLa~awv~l~~g~e~~~  184 (290)
T PF04733_consen  114 HEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQQI--DEDS-ILTQLAEAWVNLATGGEKYQ  184 (290)
T ss_dssp             CCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCC--SCCH-HHHHHHHHHHHHHHTTTCCC
T ss_pred             HcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcH-HHHHHHHHHHHHHhCchhHH
Confidence            789999998877643      36777788899999999999999999999875  3343 3334444433    234699


Q ss_pred             HHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHH
Q 009255          413 DAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEH  492 (539)
Q Consensus       413 ~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  492 (539)
                      +|..+|+++.+. ..++..+++.++.++...|++++|.+.++++++.+                  +-++.+..+++.+.
T Consensus       185 ~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~------------------~~~~d~LaNliv~~  245 (290)
T PF04733_consen  185 DAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKD------------------PNDPDTLANLIVCS  245 (290)
T ss_dssp             HHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-------------------CCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhc------------------cCCHHHHHHHHHHH
Confidence            999999998764 57888888889999999999999999999998776                  33444888899888


Q ss_pred             hhcCCH-HHHHHHHHHHHHcCCCCCHH
Q 009255          493 CSQGRY-KDALQIFEETRQKGIAINKS  518 (539)
Q Consensus       493 ~~~g~~-~~A~~~~~~~~~~~~~p~~~  518 (539)
                      ...|+. +.+.+.+.++..  ..|+.+
T Consensus       246 ~~~gk~~~~~~~~l~qL~~--~~p~h~  270 (290)
T PF04733_consen  246 LHLGKPTEAAERYLSQLKQ--SNPNHP  270 (290)
T ss_dssp             HHTT-TCHHHHHHHHHCHH--HTTTSH
T ss_pred             HHhCCChhHHHHHHHHHHH--hCCCCh
Confidence            889998 667788888876  356644

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.

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=99.05  E-value=1.2e-07  Score=94.46  Aligned_cols=206  Identities=13%  Similarity=0.060  Sum_probs=170.2

Q ss_pred             CHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCC-----HHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhH
Q 009255          289 STFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPD-----ETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTC  363 (539)
Q Consensus       289 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  363 (539)
                      +...|-..+....+.++.++|.++.++++.. +.+.     ...|..+++.-..-|.-+...++|+++.+.  .....+|
T Consensus      1457 SSi~WI~YMaf~LelsEiekAR~iaerAL~t-IN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqy--cd~~~V~ 1533 (1710)
T KOG1070|consen 1457 SSILWIRYMAFHLELSEIEKARKIAERALKT-INFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQY--CDAYTVH 1533 (1710)
T ss_pred             cchHHHHHHHHHhhhhhhHHHHHHHHHHhhh-CCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHh--cchHHHH
Confidence            5678889999999999999999999998865 2221     235666666666677888899999999875  2245678


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCC---HhhHHHHHHHH
Q 009255          364 NILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPD---RYTYAAIHTAL  440 (539)
Q Consensus       364 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~---~~~~~~l~~~~  440 (539)
                      ..|...|.+.+.+++|.++++.|.++ +......|..++..+.++++-+.|..+++++++.  -|.   .......+..-
T Consensus      1534 ~~L~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~--lPk~eHv~~IskfAqLE 1610 (1710)
T KOG1070|consen 1534 LKLLGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKS--LPKQEHVEFISKFAQLE 1610 (1710)
T ss_pred             HHHHHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhh--cchhhhHHHHHHHHHHH
Confidence            88999999999999999999999987 3357789999999999999999999999999875  333   34555666777


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHH
Q 009255          441 VESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKS  518 (539)
Q Consensus       441 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~  518 (539)
                      .+.|+.+.++.+|+..+..+                  |.....|+.+++.-.++|+.+.++.+|+|+++.++.|-..
T Consensus      1611 Fk~GDaeRGRtlfEgll~ay------------------PKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkm 1670 (1710)
T KOG1070|consen 1611 FKYGDAERGRTLFEGLLSAY------------------PKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKM 1670 (1710)
T ss_pred             hhcCCchhhHHHHHHHHhhC------------------ccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHh
Confidence            88999999999999999988                  4455699999999999999999999999999987777654

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=99.04  E-value=2.6e-06  Score=79.81  Aligned_cols=267  Identities=15%  Similarity=0.117  Sum_probs=123.7

Q ss_pred             HHHHHhcCCHhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCCH
Q 009255          157 IKWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKL  236 (539)
Q Consensus       157 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  236 (539)
                      +.+......+.+|+.+++.+....  .....|..+..-|...|+++.|.++|-+.         ..+...+.+|.+.|++
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--TASGYYGEIADHYANKGDFEIAEELFTEA---------DLFKDAIDMYGKAGKW  807 (1636)
T ss_pred             HHHHhhhhhhhhhHhHHHHhhhhc--cccccchHHHHHhccchhHHHHHHHHHhc---------chhHHHHHHHhccccH
Confidence            344445555666666666555432  22333445555566666666666666432         1234445556666666


Q ss_pred             HHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHH
Q 009255          237 DEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNEL  316 (539)
Q Consensus       237 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  316 (539)
                      +.|.++-.+....  ......|-+-..-.-..|++.+|.++|-.+..    |+     ..|.+|-+.|..+..+++.++-
T Consensus       808 ~da~kla~e~~~~--e~t~~~yiakaedldehgkf~eaeqlyiti~~----p~-----~aiqmydk~~~~ddmirlv~k~  876 (1636)
T KOG3616|consen  808 EDAFKLAEECHGP--EATISLYIAKAEDLDEHGKFAEAEQLYITIGE----PD-----KAIQMYDKHGLDDDMIRLVEKH  876 (1636)
T ss_pred             HHHHHHHHHhcCc--hhHHHHHHHhHHhHHhhcchhhhhheeEEccC----ch-----HHHHHHHhhCcchHHHHHHHHh
Confidence            6666555444321  22333344444444455555555555533221    22     1244555555555555555432


Q ss_pred             HHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHH---------
Q 009255          317 LQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWI---------  387 (539)
Q Consensus       317 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---------  387 (539)
                      ...   .-..|-..+..-+...|+...|..-|-+.-         -|.+.+++|...+-+++|.++-+.--         
T Consensus       877 h~d---~l~dt~~~f~~e~e~~g~lkaae~~flea~---------d~kaavnmyk~s~lw~dayriaktegg~n~~k~v~  944 (1636)
T KOG3616|consen  877 HGD---HLHDTHKHFAKELEAEGDLKAAEEHFLEAG---------DFKAAVNMYKASELWEDAYRIAKTEGGANAEKHVA  944 (1636)
T ss_pred             Chh---hhhHHHHHHHHHHHhccChhHHHHHHHhhh---------hHHHHHHHhhhhhhHHHHHHHHhccccccHHHHHH
Confidence            211   112333444555556666666655443322         13334444555555555544432200         


Q ss_pred             -----HcCCCCCh------hhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 009255          388 -----LKGKAVDS------VTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIM  456 (539)
Q Consensus       388 -----~~~~~~~~------~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  456 (539)
                           ..|-..-+      .....-+...+..+-++-|..+-+-..+.. .|  .+...+...+...|++++|-+.|-.+
T Consensus       945 flwaksiggdaavkllnk~gll~~~id~a~d~~afd~afdlari~~k~k-~~--~vhlk~a~~ledegk~edaskhyvea 1021 (1636)
T KOG3616|consen  945 FLWAKSIGGDAAVKLLNKHGLLEAAIDFAADNCAFDFAFDLARIAAKDK-MG--EVHLKLAMFLEDEGKFEDASKHYVEA 1021 (1636)
T ss_pred             HHHHHhhCcHHHHHHHHhhhhHHHHhhhhhcccchhhHHHHHHHhhhcc-Cc--cchhHHhhhhhhccchhhhhHhhHHH
Confidence                 00000000      011111222334444555555444333221 12  23334555566677777777777777


Q ss_pred             HHcC
Q 009255          457 VETG  460 (539)
Q Consensus       457 ~~~~  460 (539)
                      ++.+
T Consensus      1022 ikln 1025 (1636)
T KOG3616|consen 1022 IKLN 1025 (1636)
T ss_pred             hhcc
Confidence            7765

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=99.04  E-value=6.7e-08  Score=79.58  Aligned_cols=152  Identities=11%  Similarity=0.114  Sum_probs=108.8

Q ss_pred             HHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChH
Q 009255          333 HGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLE  412 (539)
Q Consensus       333 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  412 (539)
                      -.|...|+++.+....+.+...    .        ..+...++.+++...+++..... +.+...|..++..|...|+++
T Consensus        24 ~~Y~~~g~~~~v~~~~~~~~~~----~--------~~~~~~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~   90 (198)
T PRK10370         24 GSYLLSPKWQAVRAEYQRLADP----L--------HQFASQQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYD   90 (198)
T ss_pred             HHHHHcchHHHHHHHHHHHhCc----c--------ccccCchhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHH
Confidence            4567777777765444332211    0        01223566777777788777764 347888899999999999999


Q ss_pred             HHHHHHHHHHhCCCCCCHhhHHHHHHHH-HhcCC--HHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHH
Q 009255          413 DAFGLLSEMEEKKLGPDRYTYAAIHTAL-VESGR--LEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKI  489 (539)
Q Consensus       413 ~A~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~g~--~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~  489 (539)
                      +|...|+++.+.. +.+...+..++.++ ...|+  .++|.++++++++.+                  +.+..++..++
T Consensus        91 ~A~~a~~~Al~l~-P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~d------------------P~~~~al~~LA  151 (198)
T PRK10370         91 NALLAYRQALQLR-GENAELYAALATVLYYQAGQHMTPQTREMIDKALALD------------------ANEVTALMLLA  151 (198)
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhC------------------CCChhHHHHHH
Confidence            9999999888653 34567777777764 56676  589999999999887                  33445888889


Q ss_pred             HHHhhcCCHHHHHHHHHHHHHcCCCCCH
Q 009255          490 NEHCSQGRYKDALQIFEETRQKGIAINK  517 (539)
Q Consensus       490 ~~~~~~g~~~~A~~~~~~~~~~~~~p~~  517 (539)
                      ..+.+.|++++|+..|+++++. ..|+.
T Consensus       152 ~~~~~~g~~~~Ai~~~~~aL~l-~~~~~  178 (198)
T PRK10370        152 SDAFMQADYAQAIELWQKVLDL-NSPRV  178 (198)
T ss_pred             HHHHHcCCHHHHHHHHHHHHhh-CCCCc
Confidence            9999999999999999999874 24444

>PLN02789 farnesyltranstransferase

Probab=99.03  E-value=1.2e-06  Score=77.71  Aligned_cols=233  Identities=12%  Similarity=0.084  Sum_probs=161.2

Q ss_pred             HHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCC-CHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCH-
Q 009255          264 GYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSG-KTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQV-  341 (539)
Q Consensus       264 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-  341 (539)
                      .+...+..++|+.+..+++..++. +..+|+.-..++...| ++++++..++++.+..+. +..+|......+.+.|+. 
T Consensus        46 ~l~~~e~serAL~lt~~aI~lnP~-~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npk-nyqaW~~R~~~l~~l~~~~  123 (320)
T PLN02789         46 VYASDERSPRALDLTADVIRLNPG-NYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPK-NYQIWHHRRWLAEKLGPDA  123 (320)
T ss_pred             HHHcCCCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCc-chHHhHHHHHHHHHcCchh
Confidence            344456778888888888876544 4556666666666666 578899999888876544 445565554445555553 


Q ss_pred             -HHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcc---CCh----HH
Q 009255          342 -EKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKE---RRL----ED  413 (539)
Q Consensus       342 -~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~----~~  413 (539)
                       +.+..+++.+++... -+..+|.....++...|+++++++.++++++.++. |...|+....++.+.   |..    ++
T Consensus       124 ~~~el~~~~kal~~dp-kNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~-N~sAW~~R~~vl~~~~~l~~~~~~~e~  201 (320)
T PLN02789        124 ANKELEFTRKILSLDA-KNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVR-NNSAWNQRYFVITRSPLLGGLEAMRDS  201 (320)
T ss_pred             hHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCC-chhHHHHHHHHHHhccccccccccHHH
Confidence             677888888887753 47888888888888889999999999999988655 677888777666554   222    46


Q ss_pred             HHHHHHHHHhCCCCCCHhhHHHHHHHHHhc----CCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHH
Q 009255          414 AFGLLSEMEEKKLGPDRYTYAAIHTALVES----GRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKI  489 (539)
Q Consensus       414 A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~  489 (539)
                      .+....+++... +-|...|..+..++...    ++..+|.+.+..+....                  +.+..+...|+
T Consensus       202 el~y~~~aI~~~-P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~------------------~~s~~al~~l~  262 (320)
T PLN02789        202 ELKYTIDAILAN-PRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKD------------------SNHVFALSDLL  262 (320)
T ss_pred             HHHHHHHHHHhC-CCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhccc------------------CCcHHHHHHHH
Confidence            777777777653 44566777777777663    44567888888877654                  24445888888


Q ss_pred             HHHhhcC------------------CHHHHHHHHHHHHHcCCCCCHHHHH
Q 009255          490 NEHCSQG------------------RYKDALQIFEETRQKGIAINKSTYM  521 (539)
Q Consensus       490 ~~~~~~g------------------~~~~A~~~~~~~~~~~~~p~~~~~~  521 (539)
                      +.|+...                  ..++|.++++.+.  ...|=..-|-
T Consensus       263 d~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~l~--~~d~ir~~yw  310 (320)
T PLN02789        263 DLLCEGLQPTAEFRDTVDTLAEELSDSTLAQAVCSELE--VADPMRRNYW  310 (320)
T ss_pred             HHHHhhhccchhhhhhhhccccccccHHHHHHHHHHHH--hhCcHHHHHH
Confidence            9888642                  3467888888874  2455444333

>PLN02789 farnesyltranstransferase

Probab=98.98  E-value=6.1e-07  Score=79.52  Aligned_cols=209  Identities=11%  Similarity=0.049  Sum_probs=155.4

Q ss_pred             HHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCC-CHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCH
Q 009255          298 WGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEG-QVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGIL  376 (539)
Q Consensus       298 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  376 (539)
                      ..+...++.++|+....++++..+. +..++..-..++...| ++++++..++++++.+. .+..+|.....++.+.|..
T Consensus        45 a~l~~~e~serAL~lt~~aI~lnP~-~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~np-knyqaW~~R~~~l~~l~~~  122 (320)
T PLN02789         45 AVYASDERSPRALDLTADVIRLNPG-NYTVWHFRRLCLEALDADLEEELDFAEDVAEDNP-KNYQIWHHRRWLAEKLGPD  122 (320)
T ss_pred             HHHHcCCCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCC-cchHHhHHHHHHHHHcCch
Confidence            3444567889999999999886432 4445555555566666 67999999999998754 3666777666666667763


Q ss_pred             --HHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhc---CCH----H
Q 009255          377 --EKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVES---GRL----E  447 (539)
Q Consensus       377 --~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---g~~----~  447 (539)
                        +++..+++++++.+.. |..+|+....++...|+++++++.+.++++.+ +-|..+|...+.++.+.   |+.    +
T Consensus       123 ~~~~el~~~~kal~~dpk-Ny~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d-~~N~sAW~~R~~vl~~~~~l~~~~~~~e  200 (320)
T PLN02789        123 AANKELEFTRKILSLDAK-NYHAWSHRQWVLRTLGGWEDELEYCHQLLEED-VRNNSAWNQRYFVITRSPLLGGLEAMRD  200 (320)
T ss_pred             hhHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHC-CCchhHHHHHHHHHHhccccccccccHH
Confidence              6788999899887554 88899999999999999999999999999875 44566777766666554   323    5


Q ss_pred             HHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhc----CCHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 009255          448 EAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQ----GRYKDALQIFEETRQKGIAINKSTYMNL  523 (539)
Q Consensus       448 ~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----g~~~~A~~~~~~~~~~~~~p~~~~~~~~  523 (539)
                      ++.++..+++...                  |-+..+|+.+..++...    ++..+|.+.+.++++  ..|+..-...+
T Consensus       201 ~el~y~~~aI~~~------------------P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~--~~~~s~~al~~  260 (320)
T PLN02789        201 SELKYTIDAILAN------------------PRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLS--KDSNHVFALSD  260 (320)
T ss_pred             HHHHHHHHHHHhC------------------CCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhc--ccCCcHHHHHH
Confidence            7888888999887                  34445999999999883    456789999999876  46777666666


Q ss_pred             HHHHHhc
Q 009255          524 MNGLIKR  530 (539)
Q Consensus       524 l~~~~~~  530 (539)
                      +.-++..
T Consensus       261 l~d~~~~  267 (320)
T PLN02789        261 LLDLLCE  267 (320)
T ss_pred             HHHHHHh
Confidence            6655544

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.97  E-value=1.7e-07  Score=80.89  Aligned_cols=186  Identities=11%  Similarity=0.009  Sum_probs=117.9

Q ss_pred             CHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCC-CC-HHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCH---HhH
Q 009255          289 STFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMI-PD-ETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDI---VTC  363 (539)
Q Consensus       289 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~  363 (539)
                      ....+..++..+...|+++.|...++++....+. |. ...+..+..++...|+++.|...++.+++.... +.   ..+
T Consensus        32 ~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~a~  110 (235)
T TIGR03302        32 PAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPN-HPDADYAY  110 (235)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcC-CCchHHHH
Confidence            4556666677777778888888888777665322 11 134556667777778888888888877765321 11   134


Q ss_pred             HHHHHHHHhc--------CCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHH
Q 009255          364 NILLSGLCRE--------GILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAA  435 (539)
Q Consensus       364 ~~l~~~~~~~--------g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~  435 (539)
                      ..+..++...        |+++.|.+.++++....+. +...+..+.....    ...       ..       ......
T Consensus       111 ~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~a~~~~~~----~~~-------~~-------~~~~~~  171 (235)
T TIGR03302       111 YLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYPN-SEYAPDAKKRMDY----LRN-------RL-------AGKELY  171 (235)
T ss_pred             HHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHCCC-ChhHHHHHHHHHH----HHH-------HH-------HHHHHH
Confidence            4445555543        5677777777777665221 2222221111100    000       00       011235


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCC-hhhHHHHHHHHhhcCCHHHHHHHHHHHHH
Q 009255          436 IHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPS-SISYSEKINEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       436 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  510 (539)
                      ++..+...|++++|+..++.+++....                .|. ..++..++.++...|++++|...++.+..
T Consensus       172 ~a~~~~~~g~~~~A~~~~~~al~~~p~----------------~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~  231 (235)
T TIGR03302       172 VARFYLKRGAYVAAINRFETVVENYPD----------------TPATEEALARLVEAYLKLGLKDLAQDAAAVLGA  231 (235)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHHCCC----------------CcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            667788999999999999999998732                232 34899999999999999999999998875

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).

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.92  E-value=3e-07  Score=75.18  Aligned_cols=184  Identities=14%  Similarity=0.086  Sum_probs=143.6

Q ss_pred             CHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHH
Q 009255          324 DETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLIS  403 (539)
Q Consensus       324 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~  403 (539)
                      +... ..+-..+...|+-+....+........ +.+.......+....+.|++..|...+++.... -++|...|+.+.-
T Consensus        66 d~~i-~~~a~a~~~~G~a~~~l~~~~~~~~~~-~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l-~p~d~~~~~~lga  142 (257)
T COG5010          66 DLSI-AKLATALYLRGDADSSLAVLQKSAIAY-PKDRELLAAQGKNQIRNGNFGEAVSVLRKAARL-APTDWEAWNLLGA  142 (257)
T ss_pred             hHHH-HHHHHHHHhcccccchHHHHhhhhccC-cccHHHHHHHHHHHHHhcchHHHHHHHHHHhcc-CCCChhhhhHHHH
Confidence            3344 666777888888888888887765542 446777777889999999999999999999877 4568999999999


Q ss_pred             HHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChh
Q 009255          404 SLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSI  483 (539)
Q Consensus       404 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  483 (539)
                      +|.+.|+++.|..-|.++.+.. .-+...++.++-.+.-.|+++.|..++.......                  +-+..
T Consensus       143 aldq~Gr~~~Ar~ay~qAl~L~-~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~------------------~ad~~  203 (257)
T COG5010         143 ALDQLGRFDEARRAYRQALELA-PNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSP------------------AADSR  203 (257)
T ss_pred             HHHHccChhHHHHHHHHHHHhc-cCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCC------------------CCchH
Confidence            9999999999999999999752 3345677888888999999999999999998875                  23556


Q ss_pred             hHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC
Q 009255          484 SYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGLIKRRK  532 (539)
Q Consensus       484 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~~  532 (539)
                      .-.+++.+....|+.++|..+...-..   .+.......++.+-....+
T Consensus       204 v~~NLAl~~~~~g~~~~A~~i~~~e~~---~~~~~~~~~~l~~~~~~~~  249 (257)
T COG5010         204 VRQNLALVVGLQGDFREAEDIAVQELL---SEQAANNVAALRAAASQSG  249 (257)
T ss_pred             HHHHHHHHHhhcCChHHHHhhcccccc---chhHhhHHHHHHHhhcccc
Confidence            888999999999999999998877652   3333444445554444433

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.92  E-value=8.8e-07  Score=86.75  Aligned_cols=148  Identities=9%  Similarity=0.038  Sum_probs=106.4

Q ss_pred             CCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHH
Q 009255          357 KPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAI  436 (539)
Q Consensus       357 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l  436 (539)
                      ..+...+..|..+..+.|.+++|..+++.+.+..+. +...+..++.++.+.+++++|+..+++..... +-+......+
T Consensus        83 ~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd-~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~-p~~~~~~~~~  160 (694)
T PRK15179         83 PHTELFQVLVARALEAAHRSDEGLAVWRGIHQRFPD-SSEAFILMLRGVKRQQGIEAGRAEIELYFSGG-SSSAREILLE  160 (694)
T ss_pred             cccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCC-cHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC-CCCHHHHHHH
Confidence            446777777888888888888888888888776222 44566777778888888888888888887653 3345566677


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChh-hHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCC
Q 009255          437 HTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSI-SYSEKINEHCSQGRYKDALQIFEETRQKGIAI  515 (539)
Q Consensus       437 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p  515 (539)
                      +.++.+.|++++|..+|++++..+                   |+.. ++.+++..+...|+.++|...|+++++. ..|
T Consensus       161 a~~l~~~g~~~~A~~~y~~~~~~~-------------------p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~-~~~  220 (694)
T PRK15179        161 AKSWDEIGQSEQADACFERLSRQH-------------------PEFENGYVGWAQSLTRRGALWRARDVLQAGLDA-IGD  220 (694)
T ss_pred             HHHHHHhcchHHHHHHHHHHHhcC-------------------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-hCc
Confidence            777888888888888888888754                   5544 7888888888888888888888888763 345


Q ss_pred             CHHHHHHHHHH
Q 009255          516 NKSTYMNLMNG  526 (539)
Q Consensus       516 ~~~~~~~~l~~  526 (539)
                      ....+..++..
T Consensus       221 ~~~~~~~~~~~  231 (694)
T PRK15179        221 GARKLTRRLVD  231 (694)
T ss_pred             chHHHHHHHHH
Confidence            55555555443

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.90  E-value=9.8e-07  Score=72.28  Aligned_cols=164  Identities=17%  Similarity=0.127  Sum_probs=134.6

Q ss_pred             CHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHH
Q 009255          289 STFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLS  368 (539)
Q Consensus       289 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  368 (539)
                      |... ..+-..+...|+-+....+........ ..+.......+....+.|++..|...+.+..... ++|...|+.+.-
T Consensus        66 d~~i-~~~a~a~~~~G~a~~~l~~~~~~~~~~-~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~-p~d~~~~~~lga  142 (257)
T COG5010          66 DLSI-AKLATALYLRGDADSSLAVLQKSAIAY-PKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLGA  142 (257)
T ss_pred             hHHH-HHHHHHHHhcccccchHHHHhhhhccC-cccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHHHH
Confidence            4444 566677888888888888887765442 3355666668888899999999999999998875 679999999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHH
Q 009255          369 GLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEE  448 (539)
Q Consensus       369 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  448 (539)
                      +|.+.|+++.|..-|.+..+.. +.++...+.+...+.-.|+++.|..++......+ .-|..+-..+..+....|++++
T Consensus       143 aldq~Gr~~~Ar~ay~qAl~L~-~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~-~ad~~v~~NLAl~~~~~g~~~~  220 (257)
T COG5010         143 ALDQLGRFDEARRAYRQALELA-PNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSP-AADSRVRQNLALVVGLQGDFRE  220 (257)
T ss_pred             HHHHccChhHHHHHHHHHHHhc-cCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCC-CCchHHHHHHHHHHhhcCChHH
Confidence            9999999999999999999873 3377788999999999999999999999988653 4467777888889999999999


Q ss_pred             HHHHHHHHH
Q 009255          449 AQKFTSIMV  457 (539)
Q Consensus       449 A~~~~~~~~  457 (539)
                      |..+...-+
T Consensus       221 A~~i~~~e~  229 (257)
T COG5010         221 AEDIAVQEL  229 (257)
T ss_pred             HHhhccccc
Confidence            998775544

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.89  E-value=1.9e-06  Score=80.62  Aligned_cols=217  Identities=18%  Similarity=0.178  Sum_probs=126.7

Q ss_pred             hhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 009255          116 VTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDAN  195 (539)
Q Consensus       116 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  195 (539)
                      ..-..+...+...|-..+|..+++++..         |.-.+.+|+..|+..+|..+..+..+.  +|++..|..+....
T Consensus       399 q~q~~laell~slGitksAl~I~Erlem---------w~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc~LGDv~  467 (777)
T KOG1128|consen  399 QLQRLLAELLLSLGITKSALVIFERLEM---------WDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYCLLGDVL  467 (777)
T ss_pred             hHHHHHHHHHHHcchHHHHHHHHHhHHH---------HHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHHHhhhhc
Confidence            3344555666666667777776665532         444566666677777777666666553  56666666666666


Q ss_pred             HhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHH
Q 009255          196 CKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRAL  275 (539)
Q Consensus       196 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  275 (539)
                      ....-+++|.++.+.....       .-..+.....+.++++++.+.++...+.+ +....+|..+..+..+.+++..|.
T Consensus       468 ~d~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~n-plq~~~wf~~G~~ALqlek~q~av  539 (777)
T KOG1128|consen  468 HDPSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEIN-PLQLGTWFGLGCAALQLEKEQAAV  539 (777)
T ss_pred             cChHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcC-ccchhHHHhccHHHHHHhhhHHHH
Confidence            5555566666666543221       11222222334566666666666655543 224455666666666666666666


Q ss_pred             HHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHh
Q 009255          276 KLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVE  353 (539)
Q Consensus       276 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  353 (539)
                      +.|.......+. +...||.+-.+|.+.++-.+|...+.+..+.+ ..+...+...+......|.+++|.+.+.++..
T Consensus       540 ~aF~rcvtL~Pd-~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~~rll~  615 (777)
T KOG1128|consen  540 KAFHRCVTLEPD-NAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRLLD  615 (777)
T ss_pred             HHHHHHhhcCCC-chhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHHHHHHHH
Confidence            666666554332 45566666666666666666666666666655 22444455555555666666666666666553

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.88  E-value=1.7e-07  Score=72.96  Aligned_cols=109  Identities=10%  Similarity=0.026  Sum_probs=85.4

Q ss_pred             HHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCC
Q 009255          346 QFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKK  425 (539)
Q Consensus       346 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  425 (539)
                      .++++.++.  .|+  .+..+..++...|++++|...|+......+ .+...|..++.++...|++++|+..|+++...+
T Consensus        14 ~~~~~al~~--~p~--~~~~~g~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~   88 (144)
T PRK15359         14 DILKQLLSV--DPE--TVYASGYASWQEGDYSRAVIDFSWLVMAQP-WSWRAHIALAGTWMMLKEYTTAINFYGHALMLD   88 (144)
T ss_pred             HHHHHHHHc--CHH--HHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            455555554  233  355567778888999999999988887743 377788888888999999999999999988753


Q ss_pred             CCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          426 LGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       426 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                       +.+...+..++.++...|++++|++.++.+++..
T Consensus        89 -p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~~  122 (144)
T PRK15359         89 -ASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKMS  122 (144)
T ss_pred             -CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence             4456778888888889999999999999998886

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.88  E-value=2.5e-06  Score=85.51  Aligned_cols=205  Identities=13%  Similarity=0.038  Sum_probs=125.6

Q ss_pred             ChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCC-----CHHHHHHHHHHHHhcCCHhHHHHHHHHHHHcCCCCChhhH
Q 009255          114 DVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKP-----NAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTY  188 (539)
Q Consensus       114 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  188 (539)
                      +...|...|......++.+.|.++.++++.. +.+     -...|.+++..-..-|.-+...++|+++.+..  ..-..|
T Consensus      1457 SSi~WI~YMaf~LelsEiekAR~iaerAL~t-IN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqyc--d~~~V~ 1533 (1710)
T KOG1070|consen 1457 SSILWIRYMAFHLELSEIEKARKIAERALKT-INFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYC--DAYTVH 1533 (1710)
T ss_pred             cchHHHHHHHHHhhhhhhHHHHHHHHHHhhh-CCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhc--chHHHH
Confidence            3456666777777777777777777776543 211     12345555555555666666777777776641  223356


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHhhcCCc-cCHhhHHHHHHHHHc
Q 009255          189 NTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYY-LDEVSYGTLITGYFR  267 (539)
Q Consensus       189 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~  267 (539)
                      ..|...|.+.+.+++|.++|+.|.+. ..-....|...+..+.++.+-+.|..++.++.+.-.. -......-.+..-.+
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            66777777777777777777777664 2235566677777777777777777777766654211 012233344445556


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCC
Q 009255          268 DEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIP  323 (539)
Q Consensus       268 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  323 (539)
                      .|+.+++..+|+..+...+. -...|+.+++.-.+.|+.+.+..+|+++...++.|
T Consensus      1613 ~GDaeRGRtlfEgll~ayPK-RtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~ 1667 (1710)
T KOG1070|consen 1613 YGDAERGRTLFEGLLSAYPK-RTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSI 1667 (1710)
T ss_pred             cCCchhhHHHHHHHHhhCcc-chhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCCh
Confidence            67777777777666655433 45667777777677777777777777666655543

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.87  E-value=4.4e-07  Score=84.72  Aligned_cols=217  Identities=12%  Similarity=0.092  Sum_probs=169.0

Q ss_pred             HhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHH
Q 009255          255 EVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHG  334 (539)
Q Consensus       255 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  334 (539)
                      ...-..+...+...|-...|..+|++.         ..|..++.+|...|+..+|..+..+..+  -+|++..|..++..
T Consensus       398 Wq~q~~laell~slGitksAl~I~Erl---------emw~~vi~CY~~lg~~~kaeei~~q~le--k~~d~~lyc~LGDv  466 (777)
T KOG1128|consen  398 WQLQRLLAELLLSLGITKSALVIFERL---------EMWDPVILCYLLLGQHGKAEEINRQELE--KDPDPRLYCLLGDV  466 (777)
T ss_pred             chHHHHHHHHHHHcchHHHHHHHHHhH---------HHHHHHHHHHHHhcccchHHHHHHHHhc--CCCcchhHHHhhhh
Confidence            344456777888888888999888754         4567788899999999999999888777  35788888888877


Q ss_pred             HhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHH
Q 009255          335 FCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDA  414 (539)
Q Consensus       335 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  414 (539)
                      .....-+++|.++.+.....       .-..+.....+.++++++.+.|+.-.+.. +.-..+|..+..+..+.++++.|
T Consensus       467 ~~d~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~n-plq~~~wf~~G~~ALqlek~q~a  538 (777)
T KOG1128|consen  467 LHDPSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEIN-PLQLGTWFGLGCAALQLEKEQAA  538 (777)
T ss_pred             ccChHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcC-ccchhHHHhccHHHHHHhhhHHH
Confidence            77766778888777665432       22233333345789999999999887763 23566888888888999999999


Q ss_pred             HHHHHHHHhCCCCCC-HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHh
Q 009255          415 FGLLSEMEEKKLGPD-RYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHC  493 (539)
Q Consensus       415 ~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  493 (539)
                      .+.|......  .|+ ...|+.+..+|.+.|+..+|...+.++++-+.                  .+...|-+......
T Consensus       539 v~aF~rcvtL--~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~------------------~~w~iWENymlvsv  598 (777)
T KOG1128|consen  539 VKAFHRCVTL--EPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNY------------------QHWQIWENYMLVSV  598 (777)
T ss_pred             HHHHHHHhhc--CCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCC------------------CCCeeeechhhhhh
Confidence            9999998853  565 57899999999999999999999999998772                  34447777788888


Q ss_pred             hcCCHHHHHHHHHHHHH
Q 009255          494 SQGRYKDALQIFEETRQ  510 (539)
Q Consensus       494 ~~g~~~~A~~~~~~~~~  510 (539)
                      ..|.+++|++.+.++..
T Consensus       599 dvge~eda~~A~~rll~  615 (777)
T KOG1128|consen  599 DVGEFEDAIKAYHRLLD  615 (777)
T ss_pred             hcccHHHHHHHHHHHHH
Confidence            99999999999999876

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.85  E-value=1.4e-07  Score=73.37  Aligned_cols=122  Identities=12%  Similarity=0.116  Sum_probs=87.3

Q ss_pred             HHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 009255          382 FFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGK  461 (539)
Q Consensus       382 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  461 (539)
                      .++++....+. +......++..+...|++++|...++++...+ +.+...+..++.++...|++++|..+++++++.+ 
T Consensus         5 ~~~~~l~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-   81 (135)
T TIGR02552         5 TLKDLLGLDSE-QLEQIYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-   81 (135)
T ss_pred             hHHHHHcCChh-hHHHHHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-
Confidence            34455544222 34455667777788888888888888887653 4456677778888888888888888888888776 


Q ss_pred             CCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 009255          462 INHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMN  525 (539)
Q Consensus       462 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~  525 (539)
                                       +.+...+..++.+|...|++++|...|+++++  +.|+...+..+..
T Consensus        82 -----------------p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~~~  126 (135)
T TIGR02552        82 -----------------PDDPRPYFHAAECLLALGEPESALKALDLAIE--ICGENPEYSELKE  126 (135)
T ss_pred             -----------------CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hccccchHHHHHH
Confidence                             34455788888888888888888888888887  4577666544433

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.85  E-value=6.8e-06  Score=67.43  Aligned_cols=265  Identities=15%  Similarity=0.137  Sum_probs=161.4

Q ss_pred             CCCCCCCcChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCCh
Q 009255            1 MEGFGCLPDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDV   80 (539)
Q Consensus         1 m~~~g~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~   80 (539)
                      |...+.-|+-+.|+.  +-+.-.|++..++..-.......  .+...-..+.++|...|.+....   ..+.... .|..
T Consensus         1 m~~~~~g~~d~LF~i--Rn~fY~Gnyq~~ine~~~~~~~~--~~~e~d~y~~raylAlg~~~~~~---~eI~~~~-~~~l   72 (299)
T KOG3081|consen    1 MSSMEAGPEDELFNI--RNYFYLGNYQQCINEAEKFSSSK--TDVELDVYMYRAYLALGQYQIVI---SEIKEGK-ATPL   72 (299)
T ss_pred             CCccccCcchhHHHH--HHHHHhhHHHHHHHHHHhhcccc--chhHHHHHHHHHHHHcccccccc---ccccccc-CChH
Confidence            445555566566654  55666888888887776665442  35555566778888888765443   3333322 2334


Q ss_pred             hhHHHHHHHHHhcCChHHHH-HHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 009255           81 WTYNMLINGWCNAGMLEEAF-RLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKW  159 (539)
Q Consensus        81 ~~~~~l~~~~~~~g~~~~a~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  159 (539)
                      ..+..+......-++.+.-+ .+.+.+.......+......-...|++.+++++|++......      +......=...
T Consensus        73 qAvr~~a~~~~~e~~~~~~~~~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~------~lE~~Al~VqI  146 (299)
T KOG3081|consen   73 QAVRLLAEYLELESNKKSILASLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGE------NLEAAALNVQI  146 (299)
T ss_pred             HHHHHHHHHhhCcchhHHHHHHHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccc------hHHHHHHHHHH
Confidence            44444444443344444433 344444444333333333344567788888999888876621      33344444556


Q ss_pred             HHhcCCHhHHHHHHHHHHHcCCCCChhhHHHHHHHHHh----cCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCC
Q 009255          160 YCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCK----AGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKK  235 (539)
Q Consensus       160 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  235 (539)
                      +.+..+++-|...+++|.+.   .+..+.+.|..++.+    .+.+..|.-+|++|..+ ..|++.+.+..+.++...++
T Consensus       147 ~lk~~r~d~A~~~lk~mq~i---ded~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~  222 (299)
T KOG3081|consen  147 LLKMHRFDLAEKELKKMQQI---DEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGR  222 (299)
T ss_pred             HHHHHHHHHHHHHHHHHHcc---chHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcC
Confidence            66778888888888888874   355666767666653    34678888888888664 57788888888888888888


Q ss_pred             HHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCH-HHHHHHHHHHHHc
Q 009255          236 LDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKA-NRALKLWDEMKER  284 (539)
Q Consensus       236 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~  284 (539)
                      +++|..+++.+...... ++.+...++..-...|.. +...+.+.++...
T Consensus       223 ~eeAe~lL~eaL~kd~~-dpetL~Nliv~a~~~Gkd~~~~~r~l~QLk~~  271 (299)
T KOG3081|consen  223 YEEAESLLEEALDKDAK-DPETLANLIVLALHLGKDAEVTERNLSQLKLS  271 (299)
T ss_pred             HHHHHHHHHHHHhccCC-CHHHHHHHHHHHHHhCCChHHHHHHHHHHHhc
Confidence            88888888888777544 455554444444444443 3334444444443

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.84  E-value=9.4e-07  Score=76.27  Aligned_cols=185  Identities=17%  Similarity=0.110  Sum_probs=115.9

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH---HHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCCh--hhH
Q 009255            9 DNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNR---TTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDV--WTY   83 (539)
Q Consensus         9 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~--~~~   83 (539)
                      ....+..++..+...|++++|...|+++.... |.++   .++..+..++...|++++|...++.+.+..+....  .++
T Consensus        32 ~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~  110 (235)
T TIGR03302        32 PAEELYEEAKEALDSGDYTEAIKYFEALESRY-PFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAY  110 (235)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHH
Confidence            34456667777777888888888888777654 2222   35666777777888888888888877765432111  134


Q ss_pred             HHHHHHHHhc--------CChHHHHHHHHHHHhCCCCCCh-hhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHH
Q 009255           84 NMLINGWCNA--------GMLEEAFRLRKEMESLKLLPDV-VTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHN  154 (539)
Q Consensus        84 ~~l~~~~~~~--------g~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  154 (539)
                      ..+..++...        |+.++|.+.|+.+....  |+. ..+..+.....    .      ....        .....
T Consensus       111 ~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~a~~~~~~----~------~~~~--------~~~~~  170 (235)
T TIGR03302       111 YLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRY--PNSEYAPDAKKRMDY----L------RNRL--------AGKEL  170 (235)
T ss_pred             HHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHC--CCChhHHHHHHHHHH----H------HHHH--------HHHHH
Confidence            4444444443        56777777777776642  332 22222111100    0      0000        01112


Q ss_pred             HHHHHHHhcCCHhHHHHHHHHHHHcCC--CCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 009255          155 IMIKWYCKEGKIDKACKIVRNMEENGF--SPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRK  214 (539)
Q Consensus       155 ~l~~~~~~~g~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (539)
                      .+...+.+.|++++|...++...+...  +.....+..+..++.+.|++++|..+++.+...
T Consensus       171 ~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       171 YVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            456778899999999999999887521  123467888999999999999999999888764

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).

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.83  E-value=1.5e-06  Score=71.74  Aligned_cols=120  Identities=9%  Similarity=0.069  Sum_probs=88.7

Q ss_pred             CCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHH-HccCC--hHHH
Q 009255          338 EGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSL-CKERR--LEDA  414 (539)
Q Consensus       338 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~~--~~~A  414 (539)
                      .++.+++...++..++.+ +.+...|..+...|...|++++|...+++.....+. +...+..+..++ ...|+  .++|
T Consensus        52 ~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P~-~~~~~~~lA~aL~~~~g~~~~~~A  129 (198)
T PRK10370         52 QQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNALLAYRQALQLRGE-NAELYAALATVLYYQAGQHMTPQT  129 (198)
T ss_pred             chhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCCCCcHHH
Confidence            556677777777777664 447778888888888888888888888888776433 666777777764 56666  4788


Q ss_pred             HHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          415 FGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       415 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      .++++++.+.+ +.+..++..++..+...|++++|+..|+++++..
T Consensus       130 ~~~l~~al~~d-P~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~  174 (198)
T PRK10370        130 REMIDKALALD-ANEVTALMLLASDAFMQADYAQAIELWQKVLDLN  174 (198)
T ss_pred             HHHHHHHHHhC-CCChhHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            88888888653 3356677777788888888888888888888876

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.81  E-value=0.0001  Score=67.01  Aligned_cols=410  Identities=12%  Similarity=0.086  Sum_probs=244.0

Q ss_pred             CCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHH
Q 009255           42 VPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTL  121 (539)
Q Consensus        42 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l  121 (539)
                      |.|..+|+.|++-+..+ ..+++++.++++...- +.....|..-|..-....+++....+|.+....  ..+...|...
T Consensus        17 P~di~sw~~lire~qt~-~~~~~R~~YEq~~~~F-P~s~r~W~~yi~~El~skdfe~VEkLF~RCLvk--vLnlDLW~lY   92 (656)
T KOG1914|consen   17 PYDIDSWSQLIREAQTQ-PIDKVRETYEQLVNVF-PSSPRAWKLYIERELASKDFESVEKLFSRCLVK--VLNLDLWKLY   92 (656)
T ss_pred             CccHHHHHHHHHHHccC-CHHHHHHHHHHHhccC-CCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH--HhhHhHHHHH
Confidence            77999999999987666 9999999999998752 336678999999999999999999999998765  3456667666


Q ss_pred             HHHHhcc-CCHh----HHHHHHHHHH-hCCCCC-CHHHHHHHHHH---------HHhcCCHhHHHHHHHHHHHcCCCCCh
Q 009255          122 INRFFES-GRSM----EAFKLIDELD-EHGIKP-NAVTHNIMIKW---------YCKEGKIDKACKIVRNMEENGFSPDC  185 (539)
Q Consensus       122 ~~~~~~~-~~~~----~a~~~~~~~~-~~~~~~-~~~~~~~l~~~---------~~~~g~~~~a~~~~~~~~~~~~~~~~  185 (539)
                      +.--.+. +...    ...+.|+-.. +.|+.+ +...|+..+..         |....+++...++++++....+..=.
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            6533322 2222    2233344333 334322 22234433332         23344667777888887754211111


Q ss_pred             hhHH------HHHHHH-------HhcCCHHHHHHHHHHHhh--CCCCCCHH------h---------HHHHHHHHhccCC
Q 009255          186 VTYN------TLIDAN-------CKAGNMEEAFRMMDVMGR--KGLKMNTI------T---------LNTILHTLCCEKK  235 (539)
Q Consensus       186 ~~~~------~l~~~~-------~~~~~~~~a~~~~~~~~~--~~~~~~~~------~---------~~~l~~~~~~~~~  235 (539)
                      ..|+      .-+...       -+...+..|.++++++..  .|......      |         |..++.- -+.+.
T Consensus       173 kLW~DY~~fE~~IN~~tarK~i~e~s~~Ym~AR~~~qel~~lt~GL~r~~~~vp~~~T~~e~~qv~~W~n~I~w-EksNp  251 (656)
T KOG1914|consen  173 KLWKDYEAFEQEINIITARKFIGERSPEYMNARRVYQELQNLTRGLNRNAPAVPPKGTKDEIQQVELWKNWIKW-EKSNP  251 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCChHHHHHHHHHHHHHHH-HhcCC
Confidence            1222      111111       123456778888877643  22211111      1         1112211 11110


Q ss_pred             HH---------HHHHHHHHHhh-cCCccCHhhHHHHH-------HHHHccCC-------HHHHHHHHHHHHHcCCCCCHh
Q 009255          236 LD---------EAYMLLNSASK-RGYYLDEVSYGTLI-------TGYFRDEK-------ANRALKLWDEMKERQIMPSTF  291 (539)
Q Consensus       236 ~~---------~a~~~~~~~~~-~~~~~~~~~~~~l~-------~~~~~~~~-------~~~a~~~~~~~~~~~~~~~~~  291 (539)
                      ..         ...-.+++... .+.  .+..|..-.       ..+...|+       .+++..+++.....-..-+..
T Consensus       252 L~t~~~~~~~~Rv~yayeQ~ll~l~~--~peiWy~~s~yl~~~s~l~~~~~d~~~a~~~t~e~~~~yEr~I~~l~~~~~~  329 (656)
T KOG1914|consen  252 LRTLDGTMLTRRVMYAYEQCLLYLGY--HPEIWYDYSMYLIEISDLLTEKGDVPDAKSLTDEAASIYERAIEGLLKENKL  329 (656)
T ss_pred             cccccccHHHHHHHHHHHHHHHHHhc--CHHHHHHHHHHHHHhhHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHH
Confidence            00         11111222111 111  222221111       12223333       345556666554432222333


Q ss_pred             hHHHHHHHHHc---CCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCC-CHHhHHHHH
Q 009255          292 TYNAMIWGLSQ---SGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKP-DIVTCNILL  367 (539)
Q Consensus       292 ~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~  367 (539)
                      +|..+...--.   -+..+....+++++.......-.-+|...++...+..-...|+.+|.++.+.+..+ ++.+..+++
T Consensus       330 Ly~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~m  409 (656)
T KOG1914|consen  330 LYFALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALM  409 (656)
T ss_pred             HHHHHHhhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHH
Confidence            34333322111   12355666666666554222233467778888888888999999999999876555 667778888


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCC--HhhHHHHHHHHHhcCC
Q 009255          368 SGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPD--RYTYAAIHTALVESGR  445 (539)
Q Consensus       368 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~  445 (539)
                      ..|+ .++.+-|.++|+--... ...++.--...+.-+.+.|+-..+..+|++.+..+++|+  ..+|..++.--..-|+
T Consensus       410 Ey~c-skD~~~AfrIFeLGLkk-f~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGd  487 (656)
T KOG1914|consen  410 EYYC-SKDKETAFRIFELGLKK-FGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGD  487 (656)
T ss_pred             HHHh-cCChhHHHHHHHHHHHh-cCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhccc
Confidence            8666 57889999999887766 333444556777888888999999999999998866766  4788888888888999


Q ss_pred             HHHHHHHHHHHHHcC
Q 009255          446 LEEAQKFTSIMVETG  460 (539)
Q Consensus       446 ~~~A~~~~~~~~~~~  460 (539)
                      ...+.++-++.....
T Consensus       488 L~si~~lekR~~~af  502 (656)
T KOG1914|consen  488 LNSILKLEKRRFTAF  502 (656)
T ss_pred             HHHHHHHHHHHHHhc
Confidence            999999888877665

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.73  E-value=1.1e-05  Score=80.07  Aligned_cols=238  Identities=10%  Similarity=0.065  Sum_probs=119.4

Q ss_pred             CHHHHHHHHHHHHhcCCHhHHHHHHHHHHHcCCCCCh-hhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHH
Q 009255          149 NAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDC-VTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTIL  227 (539)
Q Consensus       149 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  227 (539)
                      +...+..|+..+...+++++|.++.+...+.  .|+. ..|..+...+...++...+..+                 .++
T Consensus        30 n~~a~~~Li~~~~~~~~~deai~i~~~~l~~--~P~~i~~yy~~G~l~~q~~~~~~~~lv-----------------~~l   90 (906)
T PRK14720         30 KFKELDDLIDAYKSENLTDEAKDICEEHLKE--HKKSISALYISGILSLSRRPLNDSNLL-----------------NLI   90 (906)
T ss_pred             hHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CCcceehHHHHHHHHHhhcchhhhhhh-----------------hhh
Confidence            3456666777777777777777777765554  3333 2333333445555554443333                 122


Q ss_pred             HHHhccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHH
Q 009255          228 HTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTE  307 (539)
Q Consensus       228 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  307 (539)
                      .......++..+..+...+...+  -+...+..+..+|-+.|+.+++..+|+++++.++. ++.+.|.+...|... +.+
T Consensus        91 ~~~~~~~~~~~ve~~~~~i~~~~--~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~~-n~~aLNn~AY~~ae~-dL~  166 (906)
T PRK14720         91 DSFSQNLKWAIVEHICDKILLYG--ENKLALRTLAEAYAKLNENKKLKGVWERLVKADRD-NPEIVKKLATSYEEE-DKE  166 (906)
T ss_pred             hhcccccchhHHHHHHHHHHhhh--hhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHh-hHH
Confidence            22222233333333333333321  13345556666666666666666666666666533 566666666666666 666


Q ss_pred             HHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 009255          308 QAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWI  387 (539)
Q Consensus       308 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  387 (539)
                      +|..++.++...               +...+++..+.++|.++....+ .+...+..+.+.....-             
T Consensus       167 KA~~m~~KAV~~---------------~i~~kq~~~~~e~W~k~~~~~~-~d~d~f~~i~~ki~~~~-------------  217 (906)
T PRK14720        167 KAITYLKKAIYR---------------FIKKKQYVGIEEIWSKLVHYNS-DDFDFFLRIERKVLGHR-------------  217 (906)
T ss_pred             HHHHHHHHHHHH---------------HHhhhcchHHHHHHHHHHhcCc-ccchHHHHHHHHHHhhh-------------
Confidence            666666655442               4444566666666666665531 12222222222211110             


Q ss_pred             HcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHH
Q 009255          388 LKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALV  441 (539)
Q Consensus       388 ~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~  441 (539)
                        +..--..++..+-..|...++|++++.+++.+++.. +.|......++.+|.
T Consensus       218 --~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~-~~n~~a~~~l~~~y~  268 (906)
T PRK14720        218 --EFTRLVGLLEDLYEPYKALEDWDEVIYILKKILEHD-NKNNKAREELIRFYK  268 (906)
T ss_pred             --ccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcC-CcchhhHHHHHHHHH
Confidence              111122233444445556666677777777666542 223444444554443

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.73  E-value=2.3e-05  Score=63.94  Aligned_cols=190  Identities=16%  Similarity=0.164  Sum_probs=142.8

Q ss_pred             ccCCHHHHHHHHHHHHHc---C-CCCCHh-hHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCH
Q 009255          267 RDEKANRALKLWDEMKER---Q-IMPSTF-TYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQV  341 (539)
Q Consensus       267 ~~~~~~~a~~~~~~~~~~---~-~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  341 (539)
                      ...+.++..+++.++...   + ..++.. .|..++-+....|+.+.|...++++...- +-+...-..-...+...|.+
T Consensus        24 ~~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f-p~S~RV~~lkam~lEa~~~~  102 (289)
T KOG3060|consen   24 TVRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF-PGSKRVGKLKAMLLEATGNY  102 (289)
T ss_pred             cccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHhhch
Confidence            356788899999887643   2 334443 45556667778899999999999988763 33444433334445678999


Q ss_pred             HHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHH
Q 009255          342 EKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEM  421 (539)
Q Consensus       342 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  421 (539)
                      ++|.++|+.+++.+ +.|..++..-+-+....|+.-+|++-+....+. +..|...|..+...|...|++++|.-.++++
T Consensus       103 ~~A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~  180 (289)
T KOG3060|consen  103 KEAIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEEL  180 (289)
T ss_pred             hhHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHH
Confidence            99999999999875 446666766666667788888999988888887 5569999999999999999999999999999


Q ss_pred             HhCCCCCCHhhHHHHHHHHHhcC---CHHHHHHHHHHHHHcC
Q 009255          422 EEKKLGPDRYTYAAIHTALVESG---RLEEAQKFTSIMVETG  460 (539)
Q Consensus       422 ~~~~~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~  460 (539)
                      +-.. |.+...+..++..+.-.|   +.+-|.++|.++++..
T Consensus       181 ll~~-P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~  221 (289)
T KOG3060|consen  181 LLIQ-PFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLN  221 (289)
T ss_pred             HHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhC
Confidence            8542 334566667887766544   5677899999999987

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.72  E-value=9.2e-06  Score=72.80  Aligned_cols=152  Identities=14%  Similarity=0.133  Sum_probs=120.2

Q ss_pred             HHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-hhhHHHHHHHHHccCC
Q 009255          332 IHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVD-SVTYNTLISSLCKERR  410 (539)
Q Consensus       332 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~  410 (539)
                      ...+...|+++.|+..++.++... +.|+..+......+.+.++..+|.+.++++...  .|+ ...+..+..++.+.|+
T Consensus       313 A~~~~~~~~~d~A~~~l~~L~~~~-P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all~~g~  389 (484)
T COG4783         313 ALQTYLAGQYDEALKLLQPLIAAQ-PDNPYYLELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALLKGGK  389 (484)
T ss_pred             HHHHHHhcccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHHhcCC
Confidence            334567788999999999988763 446667777788899999999999999999887  344 5667788899999999


Q ss_pred             hHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHH
Q 009255          411 LEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKIN  490 (539)
Q Consensus       411 ~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~  490 (539)
                      +.+|+.+++..... .+.|...|..|.++|...|+..++...+.                                   .
T Consensus       390 ~~eai~~L~~~~~~-~p~dp~~w~~LAqay~~~g~~~~a~~A~A-----------------------------------E  433 (484)
T COG4783         390 PQEAIRILNRYLFN-DPEDPNGWDLLAQAYAELGNRAEALLARA-----------------------------------E  433 (484)
T ss_pred             hHHHHHHHHHHhhc-CCCCchHHHHHHHHHHHhCchHHHHHHHH-----------------------------------H
Confidence            99999999988865 36677888899999999998888876553                                   3


Q ss_pred             HHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 009255          491 EHCSQGRYKDALQIFEETRQKGIAINKSTYMNL  523 (539)
Q Consensus       491 ~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~  523 (539)
                      .|.-.|+++.|+..+.++.++ .+++..+|..+
T Consensus       434 ~~~~~G~~~~A~~~l~~A~~~-~~~~~~~~aR~  465 (484)
T COG4783         434 GYALAGRLEQAIIFLMRASQQ-VKLGFPDWARA  465 (484)
T ss_pred             HHHhCCCHHHHHHHHHHHHHh-ccCCcHHHHHH
Confidence            455689999999999999875 46777776554

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.72  E-value=1.1e-05  Score=79.97  Aligned_cols=151  Identities=10%  Similarity=0.003  Sum_probs=82.2

Q ss_pred             hhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 009255          116 VTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDAN  195 (539)
Q Consensus       116 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  195 (539)
                      ..+..+..+|-+.|+.+++..+|+++.+.. +-|+.+.|.++..|... ++++|..++.+....               +
T Consensus       117 ~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~---------------~  179 (906)
T PRK14720        117 LALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKKAIYR---------------F  179 (906)
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHHHHHH---------------H
Confidence            355556666666666666666666666654 23566666666666666 666666666555442               3


Q ss_pred             HhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHhhc-CCccCHhhHHHHHHHHHccCCHHHH
Q 009255          196 CKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKR-GYYLDEVSYGTLITGYFRDEKANRA  274 (539)
Q Consensus       196 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a  274 (539)
                      ...+++.++.+++.++....+ .+.                +.-.++.+.+... +..--..++..+-..|...++++++
T Consensus       180 i~~kq~~~~~e~W~k~~~~~~-~d~----------------d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~  242 (906)
T PRK14720        180 IKKKQYVGIEEIWSKLVHYNS-DDF----------------DFFLRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDEV  242 (906)
T ss_pred             HhhhcchHHHHHHHHHHhcCc-ccc----------------hHHHHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHH
Confidence            344455555555555554321 122                2222222222222 1111233444455666677777778


Q ss_pred             HHHHHHHHHcCCCCCHhhHHHHHHHHH
Q 009255          275 LKLWDEMKERQIMPSTFTYNAMIWGLS  301 (539)
Q Consensus       275 ~~~~~~~~~~~~~~~~~~~~~l~~~~~  301 (539)
                      ..+++.+++.... |..+..-++..|.
T Consensus       243 i~iLK~iL~~~~~-n~~a~~~l~~~y~  268 (906)
T PRK14720        243 IYILKKILEHDNK-NNKAREELIRFYK  268 (906)
T ss_pred             HHHHHHHHhcCCc-chhhHHHHHHHHH
Confidence            8887777776544 5555666666554

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.71  E-value=2.2e-05  Score=64.51  Aligned_cols=153  Identities=16%  Similarity=0.092  Sum_probs=92.7

Q ss_pred             HHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHh----
Q 009255          297 IWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCR----  372 (539)
Q Consensus       297 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----  372 (539)
                      ...|...|++++|++..+...      +......=+..+.+..+++-|...+++|.+..   +..+.+.|+.++.+    
T Consensus       115 a~i~~~~~~~deAl~~~~~~~------~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~id---ed~tLtQLA~awv~la~g  185 (299)
T KOG3081|consen  115 AIIYMHDGDFDEALKALHLGE------NLEAAALNVQILLKMHRFDLAEKELKKMQQID---EDATLTQLAQAWVKLATG  185 (299)
T ss_pred             hHHhhcCCChHHHHHHHhccc------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc---hHHHHHHHHHHHHHHhcc
Confidence            345667777777776665411      22233333344556666777777777776642   45556656665554    


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHH-HHH
Q 009255          373 EGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEE-AQK  451 (539)
Q Consensus       373 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~-A~~  451 (539)
                      .+.+.+|.-+|+++.++ .+|++.+.+..+.++...|++++|..+++.++... ..++.++..++-+-...|...+ ..+
T Consensus       186 gek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd-~~dpetL~Nliv~a~~~Gkd~~~~~r  263 (299)
T KOG3081|consen  186 GEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKD-AKDPETLANLIVLALHLGKDAEVTER  263 (299)
T ss_pred             chhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhcc-CCCHHHHHHHHHHHHHhCCChHHHHH
Confidence            34577777777777765 45677777777777777777777777777777653 4455666655554444554433 344


Q ss_pred             HHHHHHHcC
Q 009255          452 FTSIMVETG  460 (539)
Q Consensus       452 ~~~~~~~~~  460 (539)
                      .+.++....
T Consensus       264 ~l~QLk~~~  272 (299)
T KOG3081|consen  264 NLSQLKLSH  272 (299)
T ss_pred             HHHHHHhcC
Confidence            555555443

>PF12854 PPR_1: PPR repeat

Probab=98.71  E-value=2e-08  Score=55.14  Aligned_cols=34  Identities=47%  Similarity=0.864  Sum_probs=29.2

Q ss_pred             CCCCcChhhHHHHHHHHHhcCChHHHHHHHHHHH
Q 009255            4 FGCLPDNVTYNTILDALFKKGKLNEVRDLLSDMK   37 (539)
Q Consensus         4 ~g~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   37 (539)
                      .|++||..+|+.+|.+|++.|++++|.++|++|.
T Consensus         1 ~G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~   34 (34)
T PF12854_consen    1 RGCEPDVVTYNTLIDGYCKAGRVDEAFELFDEMK   34 (34)
T ss_pred             CCCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            3788999999999999999999999999888873

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.68  E-value=2.3e-05  Score=63.97  Aligned_cols=189  Identities=17%  Similarity=0.150  Sum_probs=143.3

Q ss_pred             ccCCHHHHHHHHHHHhhc---C-CccCHh-hHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCH
Q 009255          232 CEKKLDEAYMLLNSASKR---G-YYLDEV-SYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKT  306 (539)
Q Consensus       232 ~~~~~~~a~~~~~~~~~~---~-~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  306 (539)
                      ...+.++..+++..+...   | ..++.. .+..++-+....++.+.|...++++..+- +.+...-..-...+-..|++
T Consensus        24 ~~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f-p~S~RV~~lkam~lEa~~~~  102 (289)
T KOG3060|consen   24 TVRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF-PGSKRVGKLKAMLLEATGNY  102 (289)
T ss_pred             cccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHhhch
Confidence            456788888888887653   3 333332 45556666778899999999999988764 22444444344456678999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHH
Q 009255          307 EQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSW  386 (539)
Q Consensus       307 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  386 (539)
                      ++|+++++.+.+..+ .|..++..-+...-..|..-.|++-+....+. +..|.+.|..+...|...|++++|.-.++++
T Consensus       103 ~~A~e~y~~lL~ddp-t~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~  180 (289)
T KOG3060|consen  103 KEAIEYYESLLEDDP-TDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEEL  180 (289)
T ss_pred             hhHHHHHHHHhccCc-chhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHH
Confidence            999999999998763 36667766666677778888888888888876 5679999999999999999999999999999


Q ss_pred             HHcCCCCChhhHHHHHHHHHccC---ChHHHHHHHHHHHhC
Q 009255          387 ILKGKAVDSVTYNTLISSLCKER---RLEDAFGLLSEMEEK  424 (539)
Q Consensus       387 ~~~~~~~~~~~~~~l~~~~~~~~---~~~~A~~~~~~~~~~  424 (539)
                      +-.. |.++..+..+...+...|   +...+.++|.+.++.
T Consensus       181 ll~~-P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl  220 (289)
T KOG3060|consen  181 LLIQ-PFNPLYFQRLAEVLYTQGGAENLELARKYYERALKL  220 (289)
T ss_pred             HHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHh
Confidence            8763 336667777777766554   567799999999865

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.66  E-value=4.7e-07  Score=75.65  Aligned_cols=103  Identities=17%  Similarity=0.258  Sum_probs=84.7

Q ss_pred             HHHccCChHHHHHHHHHHHhCCCCCC-HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCCh
Q 009255          404 SLCKERRLEDAFGLLSEMEEKKLGPD-RYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSS  482 (539)
Q Consensus       404 ~~~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  482 (539)
                      -..+.++|.+|+..|.++++.  .|+ ...|..-+.+|.+.|.++.|++-.+.++..+                   |..
T Consensus        90 ~~m~~~~Y~eAv~kY~~AI~l--~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iD-------------------p~y  148 (304)
T KOG0553|consen   90 KLMKNKDYQEAVDKYTEAIEL--DPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSID-------------------PHY  148 (304)
T ss_pred             HHHHhhhHHHHHHHHHHHHhc--CCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcC-------------------hHH
Confidence            356778999999999999865  454 4555677888999999999999999999887                   766


Q ss_pred             h-hHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 009255          483 I-SYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGLIK  529 (539)
Q Consensus       483 ~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~  529 (539)
                      . +|..|+.+|...|++++|++.|+++++  +.|++.+|..-|...-.
T Consensus       149 skay~RLG~A~~~~gk~~~A~~aykKaLe--ldP~Ne~~K~nL~~Ae~  194 (304)
T KOG0553|consen  149 SKAYGRLGLAYLALGKYEEAIEAYKKALE--LDPDNESYKSNLKIAEQ  194 (304)
T ss_pred             HHHHHHHHHHHHccCcHHHHHHHHHhhhc--cCCCcHHHHHHHHHHHH
Confidence            6 999999999999999999999999997  78999988887775433

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.65  E-value=2e-05  Score=77.44  Aligned_cols=134  Identities=11%  Similarity=0.069  Sum_probs=78.2

Q ss_pred             CHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHH
Q 009255          324 DETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLIS  403 (539)
Q Consensus       324 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~  403 (539)
                      +...+..|.....+.|.+++|..+++.+.+.. +-+......++.++.+.+++++|...+++.....+. +......+..
T Consensus        85 ~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~-Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~-~~~~~~~~a~  162 (694)
T PRK15179         85 TELFQVLVARALEAAHRSDEGLAVWRGIHQRF-PDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGSS-SAREILLEAK  162 (694)
T ss_pred             cHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCCC-CHHHHHHHHH
Confidence            45555566666666666666666666666542 223445555566666666666666666666655322 4445555566


Q ss_pred             HHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          404 SLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       404 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      ++.+.|++++|..+|+++...+ +-+..++..++.++...|+.++|...|+++++..
T Consensus       163 ~l~~~g~~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~  218 (694)
T PRK15179        163 SWDEIGQSEQADACFERLSRQH-PEFENGYVGWAQSLTRRGALWRARDVLQAGLDAI  218 (694)
T ss_pred             HHHHhcchHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhh
Confidence            6666666666666666666521 2234556666666666666666666666666554

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.62  E-value=2.3e-06  Score=67.07  Aligned_cols=126  Identities=13%  Similarity=0.125  Sum_probs=83.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC---hhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCH--hhHHHH
Q 009255          362 TCNILLSGLCREGILEKALKFFRSWILKGKAVD---SVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDR--YTYAAI  436 (539)
Q Consensus       362 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~--~~~~~l  436 (539)
                      .|..++..+ ..++...+...++.+...... +   ......+...+...|++++|...|+........|+.  .....+
T Consensus        14 ~y~~~~~~~-~~~~~~~~~~~~~~l~~~~~~-s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~L   91 (145)
T PF09976_consen   14 LYEQALQAL-QAGDPAKAEAAAEQLAKDYPS-SPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRL   91 (145)
T ss_pred             HHHHHHHHH-HCCCHHHHHHHHHHHHHHCCC-ChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHH
Confidence            344444444 367777777778877776322 2   223445567777888888888888888876422221  234456


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHH
Q 009255          437 HTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEET  508 (539)
Q Consensus       437 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  508 (539)
                      +.++...|++++|...++.....                   +.....+...+++|.+.|++++|++.|+++
T Consensus        92 A~~~~~~~~~d~Al~~L~~~~~~-------------------~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen   92 ARILLQQGQYDEALATLQQIPDE-------------------AFKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHHcCCHHHHHHHHHhccCc-------------------chHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            77788888888888888653221                   233446777888888888888888888765

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.61  E-value=2.7e-06  Score=66.09  Aligned_cols=111  Identities=17%  Similarity=0.159  Sum_probs=82.0

Q ss_pred             HHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCC
Q 009255          347 FHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKL  426 (539)
Q Consensus       347 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~  426 (539)
                      .++.++... +.+......+...+...|++++|...|+.+...++ .+...|..++..+...|++++|...+++..+.+ 
T Consensus         5 ~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-   81 (135)
T TIGR02552         5 TLKDLLGLD-SEQLEQIYALAYNLYQQGRYDEALKLFQLLAAYDP-YNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-   81 (135)
T ss_pred             hHHHHHcCC-hhhHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-
Confidence            445555543 22445566677777888888888888888877643 366777888888888888888888888877653 


Q ss_pred             CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          427 GPDRYTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       427 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      +.+...+..++.++...|++++|.++++.+++..
T Consensus        82 p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  115 (135)
T TIGR02552        82 PDDPRPYFHAAECLLALGEPESALKALDLAIEIC  115 (135)
T ss_pred             CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhc
Confidence            4456677777888888888888888888888876

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>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=98.61  E-value=2e-06  Score=77.72  Aligned_cols=126  Identities=17%  Similarity=0.146  Sum_probs=101.1

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHH
Q 009255          361 VTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTAL  440 (539)
Q Consensus       361 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~  440 (539)
                      .....++..+...++++.|+.+++++.+.    ++.....++..+...++..+|++++++.++.. +.+...+..-+..|
T Consensus       170 yLv~~Ll~~l~~t~~~~~ai~lle~L~~~----~pev~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fL  244 (395)
T PF09295_consen  170 YLVDTLLKYLSLTQRYDEAIELLEKLRER----DPEVAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFL  244 (395)
T ss_pred             HHHHHHHHHHhhcccHHHHHHHHHHHHhc----CCcHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            34455667777788899999999998876    33455667888888888899999999988652 44566666667778


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChh-hHHHHHHHHhhcCCHHHHHHHHHHHHH
Q 009255          441 VESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSI-SYSEKINEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       441 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~  510 (539)
                      .+.++++.|.++.+++++..                   |+.. +|..|+.+|...|++++|+..++.+.-
T Consensus       245 l~k~~~~lAL~iAk~av~ls-------------------P~~f~~W~~La~~Yi~~~d~e~ALlaLNs~Pm  296 (395)
T PF09295_consen  245 LSKKKYELALEIAKKAVELS-------------------PSEFETWYQLAECYIQLGDFENALLALNSCPM  296 (395)
T ss_pred             HhcCCHHHHHHHHHHHHHhC-------------------chhHHHHHHHHHHHHhcCCHHHHHHHHhcCcC
Confidence            89999999999999999986                   6555 999999999999999999999998763

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.61  E-value=0.00073  Score=65.58  Aligned_cols=95  Identities=19%  Similarity=0.126  Sum_probs=50.0

Q ss_pred             HHHHHHHHhcCCHH---HHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHH
Q 009255          364 NILLSGLCREGILE---KALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTAL  440 (539)
Q Consensus       364 ~~l~~~~~~~g~~~---~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~  440 (539)
                      +.++.+|.+.++..   +|+-+++...... +-|..+-..+++.|+-.|-+..|.++|+.+--+++..|...+. +.+.+
T Consensus       440 ~~Lid~~rktnd~~~l~eaI~LLE~glt~s-~hnf~~KLlLiriY~~lGa~p~a~~~y~tLdIK~IQ~DTlgh~-~~~~~  517 (932)
T KOG2053|consen  440 NHLIDLWRKTNDLTDLFEAITLLENGLTKS-PHNFQTKLLLIRIYSYLGAFPDAYELYKTLDIKNIQTDTLGHL-IFRRA  517 (932)
T ss_pred             HHHHHHHHhcCcHHHHHHHHHHHHHHhhcC-CccHHHHHHHHHHHHHhcCChhHHHHHHhcchHHhhhccchHH-HHHHH
Confidence            44556666666544   3333333333331 1233344566677777777777777777765554444432221 22344


Q ss_pred             HhcCCHHHHHHHHHHHHHcC
Q 009255          441 VESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       441 ~~~g~~~~A~~~~~~~~~~~  460 (539)
                      ...|++..+...+....+..
T Consensus       518 ~t~g~~~~~s~~~~~~lkfy  537 (932)
T KOG2053|consen  518 ETSGRSSFASNTFNEHLKFY  537 (932)
T ss_pred             HhcccchhHHHHHHHHHHHH
Confidence            45566666666666555544

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.61  E-value=0.00073  Score=65.56  Aligned_cols=455  Identities=16%  Similarity=0.125  Sum_probs=248.3

Q ss_pred             HhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHH--HHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChHH
Q 009255           21 FKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVS--GYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEE   98 (539)
Q Consensus        21 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~   98 (539)
                      ...+++..|......+.+..  |+.. +..++.  .+.+.|+.++|..+++.....+.. |..+...+-.+|...|+.++
T Consensus        20 ld~~qfkkal~~~~kllkk~--Pn~~-~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~   95 (932)
T KOG2053|consen   20 LDSSQFKKALAKLGKLLKKH--PNAL-YAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDE   95 (932)
T ss_pred             hhhHHHHHHHHHHHHHHHHC--CCcH-HHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhH
Confidence            46789999999999999874  4443 233333  346999999999999988776554 77888999999999999999


Q ss_pred             HHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC-C---------HhH
Q 009255           99 AFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEG-K---------IDK  168 (539)
Q Consensus        99 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~---------~~~  168 (539)
                      |..+|++..+.  .|+..-...+..+|++.+++.+-.+.--++-+. .+-++..|=++++.....- .         ..-
T Consensus        96 ~~~~Ye~~~~~--~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~-~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~L  172 (932)
T KOG2053|consen   96 AVHLYERANQK--YPSEELLYHLFMAYVREKSYKKQQKAALQLYKN-FPKRAYYFWSVISLILQSIFSENELLDPILLAL  172 (932)
T ss_pred             HHHHHHHHHhh--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCcccchHHHHHHHHHHhccCCcccccchhHHH
Confidence            99999999875  577777777888888888776644443333332 2334444444444443321 1         234


Q ss_pred             HHHHHHHHHHcCCCC-ChhhHHHHHHHHHhcCCHHHHHHHHH-HHhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHH
Q 009255          169 ACKIVRNMEENGFSP-DCVTYNTLIDANCKAGNMEEAFRMMD-VMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSA  246 (539)
Q Consensus       169 a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  246 (539)
                      |.+.++.+.+.+.+. +..-...........|.+++|.+++. ...+.-...+...-+.-+..+...+++.+..++..++
T Consensus       173 A~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~L  252 (932)
T KOG2053|consen  173 AEKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRL  252 (932)
T ss_pred             HHHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHH
Confidence            556666666543111 11112222334456788999999984 3333323334445556677777888888888888888


Q ss_pred             hhcCCccCHhhHHHHHHHH----------------HccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHH
Q 009255          247 SKRGYYLDEVSYGTLITGY----------------FRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAI  310 (539)
Q Consensus       247 ~~~~~~~~~~~~~~l~~~~----------------~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  310 (539)
                      ...+.. |   |...+..+                ...+..+...+...+...........++-.+..-+-.-|+.+++.
T Consensus       253 l~k~~D-d---y~~~~~sv~klLe~~~~~~a~~~~s~~~~l~~~~ek~~~~i~~~~Rgp~LA~lel~kr~~~~gd~ee~~  328 (932)
T KOG2053|consen  253 LEKGND-D---YKIYTDSVFKLLELLNKEPAEAAHSLSKSLDECIEKAQKNIGSKSRGPYLARLELDKRYKLIGDSEEML  328 (932)
T ss_pred             HHhCCc-c---hHHHHHHHHHHHHhcccccchhhhhhhhhHHHHHHHHHHhhcccccCcHHHHHHHHHHhcccCChHHHH
Confidence            887643 2   22222211                112233334443333333211111111222222233557787776


Q ss_pred             HHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCC--CCHHh---HHHHHHHHHhcCC-----HHHHH
Q 009255          311 DMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFK--PDIVT---CNILLSGLCREGI-----LEKAL  380 (539)
Q Consensus       311 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~---~~~l~~~~~~~g~-----~~~A~  380 (539)
                      ..|-+-.  |-.|   .+..=+..|...=..++-..++.........  .+...   +...+..-...|.     -+.-.
T Consensus       329 ~~y~~kf--g~kp---cc~~Dl~~yl~~l~~~q~~~l~~~l~~~~~~~s~~~k~l~~h~c~l~~~rl~G~~~~l~ad~i~  403 (932)
T KOG2053|consen  329 SYYFKKF--GDKP---CCAIDLNHYLGHLNIDQLKSLMSKLVLADDDSSGDEKVLQQHLCVLLLLRLLGLYEKLPADSIL  403 (932)
T ss_pred             HHHHHHh--CCCc---HhHhhHHHhhccCCHHHHHHHHHHhhccCCcchhhHHHHHHHHHHHHHHHHhhccccCChHHHH
Confidence            6554322  2222   2222222232222333333444433322100  00000   1111111111221     11222


Q ss_pred             HHHHHHH---HcC------CCCChh---------hHHHHHHHHHccCChH---HHHHHHHHHHhCCCCCCHhhHHHHHHH
Q 009255          381 KFFRSWI---LKG------KAVDSV---------TYNTLISSLCKERRLE---DAFGLLSEMEEKKLGPDRYTYAAIHTA  439 (539)
Q Consensus       381 ~~~~~~~---~~~------~~~~~~---------~~~~l~~~~~~~~~~~---~A~~~~~~~~~~~~~~~~~~~~~l~~~  439 (539)
                      .++++..   +.|      .-|+..         +.+.|+..+.+.++..   +|+-+++.-.... +.|..+-..+++.
T Consensus       404 a~~~kl~~~ye~gls~~K~ll~TE~~~g~~~llLav~~Lid~~rktnd~~~l~eaI~LLE~glt~s-~hnf~~KLlLiri  482 (932)
T KOG2053|consen  404 AYVRKLKLTYEKGLSLSKDLLPTEYSFGDELLLLAVNHLIDLWRKTNDLTDLFEAITLLENGLTKS-PHNFQTKLLLIRI  482 (932)
T ss_pred             HHHHHHHHHHhccccccccccccccccHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhcC-CccHHHHHHHHHH
Confidence            2222221   111      122211         3456778888888765   4666666655442 3445566678899


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHH
Q 009255          440 LVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       440 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  510 (539)
                      |.-.|-+..|.+.|..+--.+..                 -|...| .+...+...|++..|...++..++
T Consensus       483 Y~~lGa~p~a~~~y~tLdIK~IQ-----------------~DTlgh-~~~~~~~t~g~~~~~s~~~~~~lk  535 (932)
T KOG2053|consen  483 YSYLGAFPDAYELYKTLDIKNIQ-----------------TDTLGH-LIFRRAETSGRSSFASNTFNEHLK  535 (932)
T ss_pred             HHHhcCChhHHHHHHhcchHHhh-----------------hccchH-HHHHHHHhcccchhHHHHHHHHHH
Confidence            99999999999999877544421                 222222 223344556777777777776664

>PF12854 PPR_1: PPR repeat

Probab=98.56  E-value=1.1e-07  Score=52.20  Aligned_cols=32  Identities=41%  Similarity=0.814  Sum_probs=14.3

Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHhHHHHHHHHH
Q 009255          145 GIKPNAVTHNIMIKWYCKEGKIDKACKIVRNM  176 (539)
Q Consensus       145 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  176 (539)
                      |+.||..+|+.++.+|++.|++++|.++|++|
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            34444444444444444444444444444443

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.50  E-value=6.6e-05  Score=67.50  Aligned_cols=127  Identities=14%  Similarity=0.103  Sum_probs=106.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCC-HhhHHHHHHHHH
Q 009255          363 CNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPD-RYTYAAIHTALV  441 (539)
Q Consensus       363 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~~  441 (539)
                      .......+...|.+++|+..++.++.. .+-|+..+......+...|+..+|.+.+++++..  .|+ ......++.++.
T Consensus       309 ~YG~A~~~~~~~~~d~A~~~l~~L~~~-~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all  385 (484)
T COG4783         309 QYGRALQTYLAGQYDEALKLLQPLIAA-QPDNPYYLELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALL  385 (484)
T ss_pred             HHHHHHHHHHhcccchHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHH
Confidence            333444566789999999999998887 3336666677888999999999999999999965  566 455668899999


Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHH
Q 009255          442 ESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       442 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  510 (539)
                      +.|++.+|++++.......                  +.++..|..|+.+|..+|+..+|...+-+...
T Consensus       386 ~~g~~~eai~~L~~~~~~~------------------p~dp~~w~~LAqay~~~g~~~~a~~A~AE~~~  436 (484)
T COG4783         386 KGGKPQEAIRILNRYLFND------------------PEDPNGWDLLAQAYAELGNRAEALLARAEGYA  436 (484)
T ss_pred             hcCChHHHHHHHHHHhhcC------------------CCCchHHHHHHHHHHHhCchHHHHHHHHHHHH
Confidence            9999999999999999887                  44556999999999999999999999998876

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=98.48  E-value=4.2e-06  Score=76.23  Aligned_cols=105  Identities=16%  Similarity=0.154  Sum_probs=65.9

Q ss_pred             HHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCC
Q 009255          402 ISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPS  481 (539)
Q Consensus       402 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  481 (539)
                      +..+...|++++|+.+|+++++.. +.+...+..++.++...|++++|+..++++++.+                  +.+
T Consensus         9 a~~a~~~~~~~~Ai~~~~~Al~~~-P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~------------------P~~   69 (356)
T PLN03088          9 AKEAFVDDDFALAVDLYTQAIDLD-PNNAELYADRAQANIKLGNFTEAVADANKAIELD------------------PSL   69 (356)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC------------------cCC
Confidence            344555667777777777766542 3344556666666677777777777777777665                  223


Q ss_pred             hhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 009255          482 SISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGL  527 (539)
Q Consensus       482 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~  527 (539)
                      ...|..++.+|...|++++|+..|+++++  +.|+...+...+..|
T Consensus        70 ~~a~~~lg~~~~~lg~~~eA~~~~~~al~--l~P~~~~~~~~l~~~  113 (356)
T PLN03088         70 AKAYLRKGTACMKLEEYQTAKAALEKGAS--LAPGDSRFTKLIKEC  113 (356)
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHH
Confidence            33666667777777777777777777765  456666555555544

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.47  E-value=1.1e-05  Score=63.11  Aligned_cols=127  Identities=10%  Similarity=0.149  Sum_probs=84.8

Q ss_pred             hHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCC--CHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC--hhhHHHHH
Q 009255          327 TFNTIIHGFCSEGQVEKALQFHNKMVEKSFKP--DIVTCNILLSGLCREGILEKALKFFRSWILKGKAVD--SVTYNTLI  402 (539)
Q Consensus       327 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~--~~~~~~l~  402 (539)
                      .|..++..+ ..++...+...++.+.+.....  .......+...+...|++++|...|+.+......|.  ......+.
T Consensus        14 ~y~~~~~~~-~~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA   92 (145)
T PF09976_consen   14 LYEQALQAL-QAGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLA   92 (145)
T ss_pred             HHHHHHHHH-HCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHH
Confidence            344444444 4677788887788877753221  123344456677788888888888888887643222  22445677


Q ss_pred             HHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 009255          403 SSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIM  456 (539)
Q Consensus       403 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  456 (539)
                      ..+...|++++|+..++.....  ..........+.++.+.|++++|++.|+++
T Consensus        93 ~~~~~~~~~d~Al~~L~~~~~~--~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen   93 RILLQQGQYDEALATLQQIPDE--AFKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHcCCHHHHHHHHHhccCc--chHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            7888888888888888664322  233455667788888888888888888765

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.46  E-value=4e-05  Score=58.61  Aligned_cols=107  Identities=7%  Similarity=-0.108  Sum_probs=71.8

Q ss_pred             hHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCC
Q 009255          397 TYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPE  476 (539)
Q Consensus       397 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~  476 (539)
                      ..-.+...+...|++++|..+|+-+.... +-+...|..|+.++...|++++|+..|..+...+                
T Consensus        37 ~lY~~A~~ly~~G~l~~A~~~f~~L~~~D-p~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~----------------   99 (157)
T PRK15363         37 TLYRYAMQLMEVKEFAGAARLFQLLTIYD-AWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK----------------   99 (157)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC----------------
Confidence            34445555667788888888888777542 2334556677777777888888888888888776                


Q ss_pred             CCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcC-CCCCHHHHHH
Q 009255          477 EIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKG-IAINKSTYMN  522 (539)
Q Consensus       477 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~p~~~~~~~  522 (539)
                        +-++..+.+++.++...|+.+.|++.|+.++... -.|.......
T Consensus       100 --~ddp~~~~~ag~c~L~lG~~~~A~~aF~~Ai~~~~~~~~~~~l~~  144 (157)
T PRK15363        100 --IDAPQAPWAAAECYLACDNVCYAIKALKAVVRICGEVSEHQILRQ  144 (157)
T ss_pred             --CCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHHhccChhHHHHHH
Confidence              2333477777888888888888888888777622 3344444433

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.36  E-value=1.6e-05  Score=60.12  Aligned_cols=103  Identities=15%  Similarity=0.083  Sum_probs=74.2

Q ss_pred             hHHHHHHHHHccCChHHHHHHHHHHHhCCCCCC----HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCC
Q 009255          397 TYNTLISSLCKERRLEDAFGLLSEMEEKKLGPD----RYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTS  472 (539)
Q Consensus       397 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~  472 (539)
                      ++..++..+...|++++|...+.++.+..  |+    ......++.++...|++++|.+.++.++...+.          
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~----------   71 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKY--PKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPK----------   71 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCC----------
Confidence            45566677778888888888888887542  22    345666788888888888888888888876521          


Q ss_pred             CCCCCCCCC-hhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHH
Q 009255          473 KTPEEIDPS-SISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKST  519 (539)
Q Consensus       473 ~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~  519 (539)
                            .|. ..++..++.++.+.|++++|.+.++++++.  .|+...
T Consensus        72 ------~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~  111 (119)
T TIGR02795        72 ------SPKAPDALLKLGMSLQELGDKEKAKATLQQVIKR--YPGSSA  111 (119)
T ss_pred             ------CCcccHHHHHHHHHHHHhCChHHHHHHHHHHHHH--CcCChh
Confidence                  121 336778888888888888888888888874  465543

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.

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.32  E-value=4e-05  Score=58.62  Aligned_cols=100  Identities=11%  Similarity=-0.050  Sum_probs=81.0

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHH
Q 009255          359 DIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHT  438 (539)
Q Consensus       359 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~  438 (539)
                      +......+...+...|++++|.++|+.+...++. +..-|..|..++-..|++.+|+..|..+...+ +.|+..+..++.
T Consensus        34 ~l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~-~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~-~ddp~~~~~ag~  111 (157)
T PRK15363         34 PLNTLYRYAMQLMEVKEFAGAARLFQLLTIYDAW-SFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAAAE  111 (157)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHH
Confidence            3445555666677889999999999988876433 66678888888999999999999999998765 345677888889


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcC
Q 009255          439 ALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       439 ~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      ++...|+.+.|++.|+.++...
T Consensus       112 c~L~lG~~~~A~~aF~~Ai~~~  133 (157)
T PRK15363        112 CYLACDNVCYAIKALKAVVRIC  133 (157)
T ss_pred             HHHHcCCHHHHHHHHHHHHHHh
Confidence            9999999999999999988875

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=98.32  E-value=3e-06  Score=55.73  Aligned_cols=63  Identities=22%  Similarity=0.314  Sum_probs=54.1

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChh-hHHHHHHHHhhcCCHHHHHHHHHHHHHcCC
Q 009255          435 AIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSI-SYSEKINEHCSQGRYKDALQIFEETRQKGI  513 (539)
Q Consensus       435 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  513 (539)
                      .++..+...|++++|++.++.+++..                   |+.. .|..++.++...|++++|+..|+++++  .
T Consensus         2 ~~a~~~~~~g~~~~A~~~~~~~l~~~-------------------P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~--~   60 (65)
T PF13432_consen    2 ALARALYQQGDYDEAIAAFEQALKQD-------------------PDNPEAWYLLGRILYQQGRYDEALAYYERALE--L   60 (65)
T ss_dssp             HHHHHHHHCTHHHHHHHHHHHHHCCS-------------------TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH--H
T ss_pred             hHHHHHHHcCCHHHHHHHHHHHHHHC-------------------CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--H
Confidence            35678899999999999999999987                   6555 999999999999999999999999997  4


Q ss_pred             CCCHH
Q 009255          514 AINKS  518 (539)
Q Consensus       514 ~p~~~  518 (539)
                      .|+++
T Consensus        61 ~P~~p   65 (65)
T PF13432_consen   61 DPDNP   65 (65)
T ss_dssp             STT-H
T ss_pred             CcCCC
Confidence            67753

>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=98.31  E-value=1.3e-05  Score=57.99  Aligned_cols=94  Identities=18%  Similarity=0.191  Sum_probs=65.1

Q ss_pred             HHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCC
Q 009255          398 YNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEE  477 (539)
Q Consensus       398 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~  477 (539)
                      +..++..+...|++++|...++++.+.. +.+...+..++..+...|++++|.+.++......                 
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-----------------   64 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELD-----------------   64 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-----------------
Confidence            4455666677777777777777776542 2333556667777777788888888887777765                 


Q ss_pred             CCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHH
Q 009255          478 IDPSSISYSEKINEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       478 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  510 (539)
                       +.+...+..++..+...|++++|...++++.+
T Consensus        65 -~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~   96 (100)
T cd00189          65 -PDNAKAYYNLGLAYYKLGKYEEALEAYEKALE   96 (100)
T ss_pred             -CcchhHHHHHHHHHHHHHhHHHHHHHHHHHHc
Confidence             23334777777777788888888888777765

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=98.29  E-value=1.3e-06  Score=60.96  Aligned_cols=81  Identities=15%  Similarity=0.202  Sum_probs=43.2

Q ss_pred             cCChHHHHHHHHHHHhCCC-CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHH
Q 009255          408 ERRLEDAFGLLSEMEEKKL-GPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYS  486 (539)
Q Consensus       408 ~~~~~~A~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  486 (539)
                      .|+++.|+.+++++.+... .++...+..++.++.+.|++++|.+++++ .+.+                  +.+.....
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~------------------~~~~~~~~   62 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLD------------------PSNPDIHY   62 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHH------------------HCHHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCC------------------CCCHHHHH
Confidence            3566666666666665421 11333444456666666666666666666 3332                  12223444


Q ss_pred             HHHHHHhhcCCHHHHHHHHHH
Q 009255          487 EKINEHCSQGRYKDALQIFEE  507 (539)
Q Consensus       487 ~l~~~~~~~g~~~~A~~~~~~  507 (539)
                      .++.++.+.|++++|+++|++
T Consensus        63 l~a~~~~~l~~y~eAi~~l~~   83 (84)
T PF12895_consen   63 LLARCLLKLGKYEEAIKALEK   83 (84)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHhc
Confidence            456666666666666666654

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=98.28  E-value=5.9e-05  Score=55.68  Aligned_cols=105  Identities=20%  Similarity=0.133  Sum_probs=78.3

Q ss_pred             HHHHHHHHHccCChHHHHHHHHHHHhCCCCCC--HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCC
Q 009255          398 YNTLISSLCKERRLEDAFGLLSEMEEKKLGPD--RYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTP  475 (539)
Q Consensus       398 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~  475 (539)
                      .-.+..++...|+.++|+.+|++....|+...  ...+..++.++...|++++|..++++.....               
T Consensus         4 ~~~~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~---------------   68 (120)
T PF12688_consen    4 LYELAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEF---------------   68 (120)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC---------------
Confidence            34566778888999999999999998876554  3566778888999999999999999998875               


Q ss_pred             CCCCCC---hh-hHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 009255          476 EEIDPS---SI-SYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMN  525 (539)
Q Consensus       476 ~~~~~~---~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~  525 (539)
                          |+   .. ....++-++...|++++|++.+-..+.    ++...|..-+.
T Consensus        69 ----p~~~~~~~l~~f~Al~L~~~gr~~eAl~~~l~~la----~~~~~y~ra~~  114 (120)
T PF12688_consen   69 ----PDDELNAALRVFLALALYNLGRPKEALEWLLEALA----ETLPRYRRAIR  114 (120)
T ss_pred             ----CCccccHHHHHHHHHHHHHCCCHHHHHHHHHHHHH----HHHHHHHHHHH
Confidence                43   22 444566678889999999999887764    33334444444

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=98.28  E-value=0.00046  Score=53.66  Aligned_cols=133  Identities=15%  Similarity=0.140  Sum_probs=106.9

Q ss_pred             CCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCC---HhhH
Q 009255          357 KPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPD---RYTY  433 (539)
Q Consensus       357 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~---~~~~  433 (539)
                      .|+...-..|..+....|+..+|...|++...--..-|+.....+..+....+++..|...++++-+.+  |.   +.+.
T Consensus        86 ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~--pa~r~pd~~  163 (251)
T COG4700          86 APTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYN--PAFRSPDGH  163 (251)
T ss_pred             chhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcC--CccCCCCch
Confidence            567777777888899999999999999988775556678888888999999999999999999988763  32   3455


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHH
Q 009255          434 AAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       434 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  510 (539)
                      ..+++++...|++++|+..|+.++...                   |+...-...+..+.++|+..+|..-+..+.+
T Consensus       164 Ll~aR~laa~g~~a~Aesafe~a~~~y-------------------pg~~ar~~Y~e~La~qgr~~ea~aq~~~v~d  221 (251)
T COG4700         164 LLFARTLAAQGKYADAESAFEVAISYY-------------------PGPQARIYYAEMLAKQGRLREANAQYVAVVD  221 (251)
T ss_pred             HHHHHHHHhcCCchhHHHHHHHHHHhC-------------------CCHHHHHHHHHHHHHhcchhHHHHHHHHHHH
Confidence            678889999999999999999999887                   7777666667788899988888766665544

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=98.24  E-value=9.3e-05  Score=70.57  Aligned_cols=143  Identities=10%  Similarity=0.030  Sum_probs=81.0

Q ss_pred             CCCHHhHHHHHHHHHh--c---CCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcc--------CChHHHHHHHHHHHh
Q 009255          357 KPDIVTCNILLSGLCR--E---GILEKALKFFRSWILKGKAVDSVTYNTLISSLCKE--------RRLEDAFGLLSEMEE  423 (539)
Q Consensus       357 ~~~~~~~~~l~~~~~~--~---g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------~~~~~A~~~~~~~~~  423 (539)
                      +.+...|..++++...  .   ++.+.|..+|+++++..+. ....|..+..++...        .+...+.+..++...
T Consensus       334 ~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~ldP~-~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~a  412 (517)
T PRK10153        334 PHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKSEPD-FTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIVA  412 (517)
T ss_pred             CCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhhh
Confidence            3455555555554322  1   2255666666666665221 223333333333221        112233333443332


Q ss_pred             CC-CCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHH
Q 009255          424 KK-LGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDAL  502 (539)
Q Consensus       424 ~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  502 (539)
                      .. ...+..++..++-.....|++++|...++++++.+                   |+...|..++.++...|++++|.
T Consensus       413 l~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~-------------------ps~~a~~~lG~~~~~~G~~~eA~  473 (517)
T PRK10153        413 LPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLE-------------------MSWLNYVLLGKVYELKGDNRLAA  473 (517)
T ss_pred             cccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC-------------------CCHHHHHHHHHHHHHcCCHHHHH
Confidence            21 23344556666555566788888888888888876                   66667888888888888888888


Q ss_pred             HHHHHHHHcCCCCCHHHHH
Q 009255          503 QIFEETRQKGIAINKSTYM  521 (539)
Q Consensus       503 ~~~~~~~~~~~~p~~~~~~  521 (539)
                      +.|+++..  +.|..++|.
T Consensus       474 ~~~~~A~~--L~P~~pt~~  490 (517)
T PRK10153        474 DAYSTAFN--LRPGENTLY  490 (517)
T ss_pred             HHHHHHHh--cCCCCchHH
Confidence            88888776  566665554

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=98.23  E-value=0.00034  Score=54.37  Aligned_cols=127  Identities=17%  Similarity=0.082  Sum_probs=99.6

Q ss_pred             CCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCC
Q 009255          392 AVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNT  471 (539)
Q Consensus       392 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~  471 (539)
                      .|+...-..|..+..+.|++.+|...|++...--+..|...+..+.++....+++..|...++.+.+.+..         
T Consensus        86 ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa---------  156 (251)
T COG4700          86 APTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPA---------  156 (251)
T ss_pred             chhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCc---------
Confidence            56777778899999999999999999999986444667788889999999999999999999999998733         


Q ss_pred             CCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCchhhc
Q 009255          472 SKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGLIKRRKSISKA  537 (539)
Q Consensus       472 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~A  537 (539)
                             ..++.....++++|...|++..|...|+.++.  ..|+...-..+.--+.+.+ +..+|
T Consensus       157 -------~r~pd~~Ll~aR~laa~g~~a~Aesafe~a~~--~ypg~~ar~~Y~e~La~qg-r~~ea  212 (251)
T COG4700         157 -------FRSPDGHLLFARTLAAQGKYADAESAFEVAIS--YYPGPQARIYYAEMLAKQG-RLREA  212 (251)
T ss_pred             -------cCCCCchHHHHHHHHhcCCchhHHHHHHHHHH--hCCCHHHHHHHHHHHHHhc-chhHH
Confidence                   22334566778999999999999999999997  6777665544444344443 34443

>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=98.23  E-value=5.3e-06  Score=55.16  Aligned_cols=66  Identities=15%  Similarity=0.221  Sum_probs=56.2

Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHH
Q 009255          441 VESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTY  520 (539)
Q Consensus       441 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~  520 (539)
                      ...|++++|++.++++++..                  |-+...+..++.+|.+.|++++|.+++++++.  ..|+...+
T Consensus         2 l~~~~~~~A~~~~~~~l~~~------------------p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~--~~~~~~~~   61 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRN------------------PDNPEARLLLAQCYLKQGQYDEAEELLERLLK--QDPDNPEY   61 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHT------------------TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHG--GGTTHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHC------------------CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--HCcCHHHH
Confidence            56899999999999999997                  33555899999999999999999999999997  47998888


Q ss_pred             HHHHHH
Q 009255          521 MNLMNG  526 (539)
Q Consensus       521 ~~~l~~  526 (539)
                      ..++..
T Consensus        62 ~~l~a~   67 (68)
T PF14559_consen   62 QQLLAQ   67 (68)
T ss_dssp             HHHHHH
T ss_pred             HHHHhc
Confidence            777654

...

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=98.23  E-value=0.003  Score=55.43  Aligned_cols=222  Identities=13%  Similarity=0.117  Sum_probs=120.1

Q ss_pred             ccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCC-CCCCHHh--HHHHHHHH---hcCCC
Q 009255          267 RDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSG-MIPDETT--FNTIIHGF---CSEGQ  340 (539)
Q Consensus       267 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~--~~~l~~~~---~~~~~  340 (539)
                      +.|..+.|..+-+..-..-+. -...+...+...+..|+++.|+++++.-.... +.++..-  -..++.+-   .-..+
T Consensus       166 r~GareaAr~yAe~Aa~~Ap~-l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldad  244 (531)
T COG3898         166 RLGAREAARHYAERAAEKAPQ-LPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDAD  244 (531)
T ss_pred             hcccHHHHHHHHHHHHhhccC-CchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCC
Confidence            455555555555555443222 34556666666666666666666666544322 1222111  11111111   11234


Q ss_pred             HHHHHHHHHHHHhCCCCCCHH-hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHH
Q 009255          341 VEKALQFHNKMVEKSFKPDIV-TCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLS  419 (539)
Q Consensus       341 ~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~  419 (539)
                      ...|...-.+..+.  .|+.. .-..-..++.+.|+..++-++++.+-+.  .|.+.++..++  +.+.|+  .++.-++
T Consensus       245 p~~Ar~~A~~a~KL--~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~--ePHP~ia~lY~--~ar~gd--ta~dRlk  316 (531)
T COG3898         245 PASARDDALEANKL--APDLVPAAVVAARALFRDGNLRKGSKILETAWKA--EPHPDIALLYV--RARSGD--TALDRLK  316 (531)
T ss_pred             hHHHHHHHHHHhhc--CCccchHHHHHHHHHHhccchhhhhhHHHHHHhc--CCChHHHHHHH--HhcCCC--cHHHHHH
Confidence            55555555555443  33322 2223345677778888888888777765  34444443322  234443  3444444


Q ss_pred             HHHhC-CCCCC-HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhc-C
Q 009255          420 EMEEK-KLGPD-RYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQ-G  496 (539)
Q Consensus       420 ~~~~~-~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g  496 (539)
                      ++... .++|| ......+..+....|++..|..--+.+....                   |....|..+++.-... |
T Consensus       317 Ra~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r~~-------------------pres~~lLlAdIeeAetG  377 (531)
T COG3898         317 RAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAAREA-------------------PRESAYLLLADIEEAETG  377 (531)
T ss_pred             HHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHhhhC-------------------chhhHHHHHHHHHhhccC
Confidence            43321 23444 4555666777777788888777777776664                   7777777777775544 8


Q ss_pred             CHHHHHHHHHHHHHcCCCCC
Q 009255          497 RYKDALQIFEETRQKGIAIN  516 (539)
Q Consensus       497 ~~~~A~~~~~~~~~~~~~p~  516 (539)
                      +-.++.+.+-+.++..-.|+
T Consensus       378 Dqg~vR~wlAqav~APrdPa  397 (531)
T COG3898         378 DQGKVRQWLAQAVKAPRDPA  397 (531)
T ss_pred             chHHHHHHHHHHhcCCCCCc
Confidence            88888888877776443343

>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=98.23  E-value=5.5e-05  Score=68.69  Aligned_cols=128  Identities=14%  Similarity=0.107  Sum_probs=96.9

Q ss_pred             HHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHH
Q 009255           45 RTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINR  124 (539)
Q Consensus        45 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  124 (539)
                      -.....|+..+...++++.|.++|+++.+..  |+  ....++..+...++-.+|.+++.+..+.. +.+......-...
T Consensus       169 NyLv~~Ll~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~f  243 (395)
T PF09295_consen  169 NYLVDTLLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEF  243 (395)
T ss_pred             hHHHHHHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            3344566777777888999999999988763  33  44557777777888888888888887653 4456666666777


Q ss_pred             HhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHHHHH
Q 009255          125 FFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEE  178 (539)
Q Consensus       125 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  178 (539)
                      +.+.++++.|+++.+++.... +-+-.+|..|..+|.+.|+++.|+-.++.+.-
T Consensus       244 Ll~k~~~~lAL~iAk~av~ls-P~~f~~W~~La~~Yi~~~d~e~ALlaLNs~Pm  296 (395)
T PF09295_consen  244 LLSKKKYELALEIAKKAVELS-PSEFETWYQLAECYIQLGDFENALLALNSCPM  296 (395)
T ss_pred             HHhcCCHHHHHHHHHHHHHhC-chhHHHHHHHHHHHHhcCCHHHHHHHHhcCcC
Confidence            888889999999999888762 22556888899999999999999988887653

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=98.23  E-value=7.9e-05  Score=63.15  Aligned_cols=121  Identities=12%  Similarity=0.071  Sum_probs=93.6

Q ss_pred             HHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhc---CCHHHHHHHHHHHHHc
Q 009255          383 FRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVES---GRLEEAQKFTSIMVET  459 (539)
Q Consensus       383 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---g~~~~A~~~~~~~~~~  459 (539)
                      ++.-...+ +-|...|..|..+|...|+++.|..-|.++.+.. +++...+..++.++..+   ....++.+++++++..
T Consensus       145 Le~~L~~n-P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~-g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~  222 (287)
T COG4235         145 LETHLQQN-PGDAEGWDLLGRAYMALGRASDALLAYRNALRLA-GDNPEILLGLAEALYYQAGQQMTAKARALLRQALAL  222 (287)
T ss_pred             HHHHHHhC-CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhc
Confidence            34434443 3488899999999999999999999999998763 55677777888776643   3467899999999999


Q ss_pred             CCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 009255          460 GKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMN  525 (539)
Q Consensus       460 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~  525 (539)
                      +                  +-++.+...|+..+...|++.+|...|+.|++.  -|.+..+..++.
T Consensus       223 D------------------~~~iral~lLA~~afe~g~~~~A~~~Wq~lL~~--lp~~~~rr~~ie  268 (287)
T COG4235         223 D------------------PANIRALSLLAFAAFEQGDYAEAAAAWQMLLDL--LPADDPRRSLIE  268 (287)
T ss_pred             C------------------CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhc--CCCCCchHHHHH
Confidence            8                  344458888999999999999999999999974  455555555544

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.23  E-value=7e-05  Score=60.71  Aligned_cols=101  Identities=13%  Similarity=0.161  Sum_probs=65.0

Q ss_pred             hHHHHHHHHHccCChHHHHHHHHHHHhCCCCCC--HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCC
Q 009255          397 TYNTLISSLCKERRLEDAFGLLSEMEEKKLGPD--RYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKT  474 (539)
Q Consensus       397 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~  474 (539)
                      .+..++..+...|++++|+..|+++.+....+.  ...+..++.++...|++++|++.++++++..              
T Consensus        37 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--------------  102 (172)
T PRK02603         37 VYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELN--------------  102 (172)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--------------
Confidence            455666666667777777777777664422221  2456666777777777777777777777765              


Q ss_pred             CCCCCCChhhHHHHHHHHhhcCC--------------HHHHHHHHHHHHHcCCCCCH
Q 009255          475 PEEIDPSSISYSEKINEHCSQGR--------------YKDALQIFEETRQKGIAINK  517 (539)
Q Consensus       475 ~~~~~~~~~~~~~l~~~~~~~g~--------------~~~A~~~~~~~~~~~~~p~~  517 (539)
                          +.+...+..++.+|...|+              +++|.+.++++..  ..|+.
T Consensus       103 ----p~~~~~~~~lg~~~~~~g~~~~a~~~~~~A~~~~~~A~~~~~~a~~--~~p~~  153 (172)
T PRK02603        103 ----PKQPSALNNIAVIYHKRGEKAEEAGDQDEAEALFDKAAEYWKQAIR--LAPNN  153 (172)
T ss_pred             ----cccHHHHHHHHHHHHHcCChHhHhhCHHHHHHHHHHHHHHHHHHHh--hCchh
Confidence                2233366666777766665              5777788888775  45665

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=98.20  E-value=0.00036  Score=61.39  Aligned_cols=158  Identities=15%  Similarity=0.111  Sum_probs=109.5

Q ss_pred             HHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChh-------------hHH
Q 009255          333 HGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSV-------------TYN  399 (539)
Q Consensus       333 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~-------------~~~  399 (539)
                      .++.-.|+.+.|...--.+++... .+......-..++.-.++.+.|...|++.+..+  |+..             .+.
T Consensus       177 ~cl~~~~~~~~a~~ea~~ilkld~-~n~~al~vrg~~~yy~~~~~ka~~hf~qal~ld--pdh~~sk~~~~~~k~le~~k  253 (486)
T KOG0550|consen  177 ECLAFLGDYDEAQSEAIDILKLDA-TNAEALYVRGLCLYYNDNADKAINHFQQALRLD--PDHQKSKSASMMPKKLEVKK  253 (486)
T ss_pred             hhhhhcccchhHHHHHHHHHhccc-chhHHHHhcccccccccchHHHHHHHhhhhccC--hhhhhHHhHhhhHHHHHHHH
Confidence            345567888888887777776532 233332222334445677888888888877653  2322             122


Q ss_pred             HHHHHHHccCChHHHHHHHHHHHhC---CCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCC
Q 009255          400 TLISSLCKERRLEDAFGLLSEMEEK---KLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPE  476 (539)
Q Consensus       400 ~l~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~  476 (539)
                      .-..-..+.|++.+|.+.|.+.+..   ++.|+...|.....+..+.|+..+|+.-.+.+++.+                
T Consensus       254 ~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD----------------  317 (486)
T KOG0550|consen  254 ERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKID----------------  317 (486)
T ss_pred             hhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcC----------------
Confidence            2233456789999999999998843   223344556677777888999999999999998876                


Q ss_pred             CCCCChh-hHHHHHHHHhhcCCHHHHHHHHHHHHHcC
Q 009255          477 EIDPSSI-SYSEKINEHCSQGRYKDALQIFEETRQKG  512 (539)
Q Consensus       477 ~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  512 (539)
                         |... .+..-+.++...++|++|.+-|+++.+..
T Consensus       318 ---~syikall~ra~c~l~le~~e~AV~d~~~a~q~~  351 (486)
T KOG0550|consen  318 ---SSYIKALLRRANCHLALEKWEEAVEDYEKAMQLE  351 (486)
T ss_pred             ---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence               5554 77788888888999999999999998743

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.19  E-value=2.6e-05  Score=65.49  Aligned_cols=96  Identities=19%  Similarity=0.159  Sum_probs=59.0

Q ss_pred             HhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHH
Q 009255          335 FCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDA  414 (539)
Q Consensus       335 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  414 (539)
                      ..+.+++.+|+..|.++++.. +.|..-|..-..+|.+.|.++.|++-.+..+..+.. ...+|..|..+|...|++.+|
T Consensus        91 ~m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~-yskay~RLG~A~~~~gk~~~A  168 (304)
T KOG0553|consen   91 LMKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPH-YSKAYGRLGLAYLALGKYEEA  168 (304)
T ss_pred             HHHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChH-HHHHHHHHHHHHHccCcHHHH
Confidence            445666777777777776653 235555556666677777777777666666654211 233666666677777777777


Q ss_pred             HHHHHHHHhCCCCCCHhhHH
Q 009255          415 FGLLSEMEEKKLGPDRYTYA  434 (539)
Q Consensus       415 ~~~~~~~~~~~~~~~~~~~~  434 (539)
                      ++.|++.++  +.|+..+|.
T Consensus       169 ~~aykKaLe--ldP~Ne~~K  186 (304)
T KOG0553|consen  169 IEAYKKALE--LDPDNESYK  186 (304)
T ss_pred             HHHHHhhhc--cCCCcHHHH
Confidence            777766663  456655443

>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=98.18  E-value=1.1e-05  Score=53.86  Aligned_cols=63  Identities=19%  Similarity=0.318  Sum_probs=57.0

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChh-hHHHHHHHHhhcC-CHHHHHHHHH
Q 009255          429 DRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSI-SYSEKINEHCSQG-RYKDALQIFE  506 (539)
Q Consensus       429 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g-~~~~A~~~~~  506 (539)
                      +..++..++..+...|++++|+..|+++++.+                   |+.. .|..++.+|...| ++++|++.++
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-------------------p~~~~~~~~~g~~~~~~~~~~~~A~~~~~   62 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELD-------------------PNNAEAYYNLGLAYMKLGKDYEEAIEDFE   62 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS-------------------TTHHHHHHHHHHHHHHTTTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-------------------CCCHHHHHHHHHHHHHhCccHHHHHHHHH
Confidence            45678889999999999999999999999997                   5554 9999999999999 7999999999


Q ss_pred             HHHH
Q 009255          507 ETRQ  510 (539)
Q Consensus       507 ~~~~  510 (539)
                      ++++
T Consensus        63 ~al~   66 (69)
T PF13414_consen   63 KALK   66 (69)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            9987

...

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=98.16  E-value=8.2e-05  Score=65.25  Aligned_cols=162  Identities=12%  Similarity=0.066  Sum_probs=110.7

Q ss_pred             CCHHhHHHH-HHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHH-
Q 009255          358 PDIVTCNIL-LSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAA-  435 (539)
Q Consensus       358 ~~~~~~~~l-~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~-  435 (539)
                      |....+..+ ..++.-.|+.++|.+.--.+.+.+.. +......-..++.-.++.+.|+..|++.+..  .|+...... 
T Consensus       166 pac~~a~~lka~cl~~~~~~~~a~~ea~~ilkld~~-n~~al~vrg~~~yy~~~~~ka~~hf~qal~l--dpdh~~sk~~  242 (486)
T KOG0550|consen  166 PACFKAKLLKAECLAFLGDYDEAQSEAIDILKLDAT-NAEALYVRGLCLYYNDNADKAINHFQQALRL--DPDHQKSKSA  242 (486)
T ss_pred             chhhHHHHhhhhhhhhcccchhHHHHHHHHHhcccc-hhHHHHhcccccccccchHHHHHHHhhhhcc--ChhhhhHHhH
Confidence            333444433 44566789999999988887776322 3333333334455678899999999999854  566432221 


Q ss_pred             ------------HHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHH
Q 009255          436 ------------IHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQ  503 (539)
Q Consensus       436 ------------l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  503 (539)
                                  -+.-..+.|++..|.+.|..++..++.              ...|+...|.+.+.+..+.|+..+|+.
T Consensus       243 ~~~~k~le~~k~~gN~~fk~G~y~~A~E~Yteal~idP~--------------n~~~naklY~nra~v~~rLgrl~eais  308 (486)
T KOG0550|consen  243 SMMPKKLEVKKERGNDAFKNGNYRKAYECYTEALNIDPS--------------NKKTNAKLYGNRALVNIRLGRLREAIS  308 (486)
T ss_pred             hhhHHHHHHHHhhhhhHhhccchhHHHHHHHHhhcCCcc--------------ccchhHHHHHHhHhhhcccCCchhhhh
Confidence                        223456789999999999999998733              123455578899999999999999999


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhcCCchhhcc
Q 009255          504 IFEETRQKGIAINKSTYMNLMNGLIKRRKSISKAV  538 (539)
Q Consensus       504 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~A~  538 (539)
                      --+++++  +.|.-.-.....+.|.-.-++|++||
T Consensus       309 dc~~Al~--iD~syikall~ra~c~l~le~~e~AV  341 (486)
T KOG0550|consen  309 DCNEALK--IDSSYIKALLRRANCHLALEKWEEAV  341 (486)
T ss_pred             hhhhhhh--cCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999986  44444333444446666666688886

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.15  E-value=0.0001  Score=55.68  Aligned_cols=100  Identities=13%  Similarity=0.038  Sum_probs=68.2

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC--CChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCC--CCHhhHHHH
Q 009255          361 VTCNILLSGLCREGILEKALKFFRSWILKGKA--VDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLG--PDRYTYAAI  436 (539)
Q Consensus       361 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~--~~~~~~~~l  436 (539)
                      .++..++..+.+.|++++|.+.|+.+......  .....+..++.++...|+++.|...++++......  ....++..+
T Consensus         3 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~   82 (119)
T TIGR02795         3 EAYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKL   82 (119)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHH
Confidence            34556666777778888888888877765321  11335566777788888888888888887754211  113456677


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          437 HTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       437 ~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      +.++...|++++|.+.++++++..
T Consensus        83 ~~~~~~~~~~~~A~~~~~~~~~~~  106 (119)
T TIGR02795        83 GMSLQELGDKEKAKATLQQVIKRY  106 (119)
T ss_pred             HHHHHHhCChHHHHHHHHHHHHHC
Confidence            777778888888888888888776

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=98.12  E-value=5.7e-06  Score=57.69  Aligned_cols=81  Identities=22%  Similarity=0.306  Sum_probs=55.1

Q ss_pred             cCCHHHHHHHHHHHHHcCCC-CChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCC-HhhHHHHHHHHHhcCCHHHHH
Q 009255          373 EGILEKALKFFRSWILKGKA-VDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPD-RYTYAAIHTALVESGRLEEAQ  450 (539)
Q Consensus       373 ~g~~~~A~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~  450 (539)
                      .|+++.|+.+++++.+.... ++...+..++.++.+.|++++|+.++++ ..  ..|+ ......++.++.+.|++++|+
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~--~~~~~~~~~~l~a~~~~~l~~y~eAi   78 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LK--LDPSNPDIHYLLARCLLKLGKYEEAI   78 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HT--HHHCHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hC--CCCCCHHHHHHHHHHHHHhCCHHHHH
Confidence            47788888888888876432 2444556678888888888888888877 32  2332 344455678888888888888


Q ss_pred             HHHHHH
Q 009255          451 KFTSIM  456 (539)
Q Consensus       451 ~~~~~~  456 (539)
                      ++++++
T Consensus        79 ~~l~~~   84 (84)
T PF12895_consen   79 KALEKA   84 (84)
T ss_dssp             HHHHHH
T ss_pred             HHHhcC
Confidence            887753

>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=98.09  E-value=6.7e-05  Score=54.04  Aligned_cols=96  Identities=18%  Similarity=0.156  Sum_probs=65.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHh
Q 009255          363 CNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVE  442 (539)
Q Consensus       363 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~  442 (539)
                      +..++..+...|++++|...++++..... .+...+..++..+...+++++|.+.+++..... +.+..++..++..+..
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~   80 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELDP-DNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYK   80 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcCC-ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHH
Confidence            44556666677777778777777766522 234566667777777778888888887777543 3334566677777777


Q ss_pred             cCCHHHHHHHHHHHHHcC
Q 009255          443 SGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       443 ~g~~~~A~~~~~~~~~~~  460 (539)
                      .|++++|...+..+.+..
T Consensus        81 ~~~~~~a~~~~~~~~~~~   98 (100)
T cd00189          81 LGKYEEALEAYEKALELD   98 (100)
T ss_pred             HHhHHHHHHHHHHHHccC
Confidence            788888888777776654

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=98.08  E-value=0.00013  Score=66.72  Aligned_cols=91  Identities=11%  Similarity=-0.003  Sum_probs=52.7

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHH
Q 009255          368 SGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLE  447 (539)
Q Consensus       368 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  447 (539)
                      ..+...|++++|+..|++++..... +...|..++.+|...|++++|+..++++++.. +.+...+..++.+|...|+++
T Consensus        10 ~~a~~~~~~~~Ai~~~~~Al~~~P~-~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~~~   87 (356)
T PLN03088         10 KEAFVDDDFALAVDLYTQAIDLDPN-NAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEEYQ   87 (356)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCCHH
Confidence            3344556666666666666655322 44555566666666666666666666666442 223445555666666666666


Q ss_pred             HHHHHHHHHHHcC
Q 009255          448 EAQKFTSIMVETG  460 (539)
Q Consensus       448 ~A~~~~~~~~~~~  460 (539)
                      +|+..++++++.+
T Consensus        88 eA~~~~~~al~l~  100 (356)
T PLN03088         88 TAKAALEKGASLA  100 (356)
T ss_pred             HHHHHHHHHHHhC
Confidence            6666666666655

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.06  E-value=8.5e-06  Score=45.18  Aligned_cols=33  Identities=39%  Similarity=0.620  Sum_probs=25.4

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC
Q 009255           11 VTYNTILDALFKKGKLNEVRDLLSDMKKQGLVP   43 (539)
Q Consensus        11 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~   43 (539)
                      .+|+.++.+|.+.|+++.|..+|+.|.+.|+.|
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            567778888888888888888888887777665

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.05  E-value=1e-05  Score=45.26  Aligned_cols=33  Identities=39%  Similarity=0.814  Sum_probs=25.1

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC
Q 009255           12 TYNTILDALFKKGKLNEVRDLLSDMKKQGLVPN   44 (539)
Q Consensus        12 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~   44 (539)
                      +||.+|.+|.+.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            677777777777777777777777777777765

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.

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.05  E-value=0.00034  Score=56.76  Aligned_cols=97  Identities=9%  Similarity=0.042  Sum_probs=43.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC--hhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHH
Q 009255          363 CNILLSGLCREGILEKALKFFRSWILKGKAVD--SVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTAL  440 (539)
Q Consensus       363 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~  440 (539)
                      +..+...+...|++++|...|++.......+.  ...+..++..+...|++++|+..++++.+.. +.+...+..++.++
T Consensus        38 ~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~  116 (172)
T PRK02603         38 YYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELN-PKQPSALNNIAVIY  116 (172)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHH
Confidence            33344444444444444444444443321111  1234444444444455555555544444321 11223333334444


Q ss_pred             HhcCC--------------HHHHHHHHHHHHHcC
Q 009255          441 VESGR--------------LEEAQKFTSIMVETG  460 (539)
Q Consensus       441 ~~~g~--------------~~~A~~~~~~~~~~~  460 (539)
                      ...|+              +++|.++++++...+
T Consensus       117 ~~~g~~~~a~~~~~~A~~~~~~A~~~~~~a~~~~  150 (172)
T PRK02603        117 HKRGEKAEEAGDQDEAEALFDKAAEYWKQAIRLA  150 (172)
T ss_pred             HHcCChHhHhhCHHHHHHHHHHHHHHHHHHHhhC
Confidence            43333              566777777777765

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=98.04  E-value=0.013  Score=55.69  Aligned_cols=236  Identities=14%  Similarity=0.060  Sum_probs=123.0

Q ss_pred             CCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhC-CCCC--------ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCC
Q 009255           42 VPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQN-KSLP--------DVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLL  112 (539)
Q Consensus        42 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-~~~~--------~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  112 (539)
                      .|.+..|..+.......-.++.|...|-+.... |++.        +...-.+=+.+|  -|++++|.++|-++..++  
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 NPHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRAEISAF--YGEFEEAEKLYLDADRRD--  764 (1189)
T ss_pred             CCchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhHhHhhh--hcchhHhhhhhhccchhh--
Confidence            467778888877776766777777777655432 2110        001111112222  477777777777765532  


Q ss_pred             CChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCC----HHHHHHHHHHHHhcCCHhHHHHHHHHHHHcCCCCChhhH
Q 009255          113 PDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPN----AVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTY  188 (539)
Q Consensus       113 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  188 (539)
                             ..+..+.+.|++-...++++.-   |...|    ...|+.+...+.....+++|.+.+..-..      .   
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---GSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCGD------T---  825 (1189)
T ss_pred             -------hhHHHHHhhhhHHHHHHHHHcc---CCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc------h---
Confidence                   2345556666666666655431   11111    23566666666666666666666554321      1   


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHcc
Q 009255          189 NTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRD  268 (539)
Q Consensus       189 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  268 (539)
                      ...+.++.+..++++-..+.+.     .+.+...+-.+..++.+.|.-++|.+.+-+....         .+.+..+...
T Consensus       826 e~~~ecly~le~f~~LE~la~~-----Lpe~s~llp~~a~mf~svGMC~qAV~a~Lr~s~p---------kaAv~tCv~L  891 (1189)
T KOG2041|consen  826 ENQIECLYRLELFGELEVLART-----LPEDSELLPVMADMFTSVGMCDQAVEAYLRRSLP---------KAAVHTCVEL  891 (1189)
T ss_pred             HhHHHHHHHHHhhhhHHHHHHh-----cCcccchHHHHHHHHHhhchHHHHHHHHHhccCc---------HHHHHHHHHH
Confidence            1244455555555544433333     2335556666777777777777776655332211         1234455555


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHhhH--------------HHHHHHHHcCCCHHHHHHHHHHHHH
Q 009255          269 EKANRALKLWDEMKERQIMPSTFTY--------------NAMIWGLSQSGKTEQAIDMLNELLQ  318 (539)
Q Consensus       269 ~~~~~a~~~~~~~~~~~~~~~~~~~--------------~~l~~~~~~~~~~~~a~~~~~~~~~  318 (539)
                      ++|.+|.++-+...-    |...+.              ..-|..+.+.|++-.|.+++.+|.+
T Consensus       892 nQW~~avelaq~~~l----~qv~tliak~aaqll~~~~~~eaIe~~Rka~~~~daarll~qmae  951 (1189)
T KOG2041|consen  892 NQWGEAVELAQRFQL----PQVQTLIAKQAAQLLADANHMEAIEKDRKAGRHLDAARLLSQMAE  951 (1189)
T ss_pred             HHHHHHHHHHHhccc----hhHHHHHHHHHHHHHhhcchHHHHHHhhhcccchhHHHHHHHHhH
Confidence            666666665543321    111111              1123445566666666666666654

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=98.03  E-value=0.00016  Score=62.19  Aligned_cols=104  Identities=14%  Similarity=0.134  Sum_probs=78.7

Q ss_pred             hHHHHHHHHHccCChHHHHHHHHHHHhCCCCCC----HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCC
Q 009255          397 TYNTLISSLCKERRLEDAFGLLSEMEEKKLGPD----RYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTS  472 (539)
Q Consensus       397 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~  472 (539)
                      .|..........|++++|+..|+.+++.  .|+    ..++..++.++...|++++|...|+.+++..+.          
T Consensus       145 ~Y~~A~~l~~~~~~y~~Ai~af~~fl~~--yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~----------  212 (263)
T PRK10803        145 DYNAAIALVQDKSRQDDAIVAFQNFVKK--YPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPK----------  212 (263)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHH--CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC----------
Confidence            3444444445678999999999998875  343    256778889999999999999999999987732          


Q ss_pred             CCCCCCCCCh-hhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHH
Q 009255          473 KTPEEIDPSS-ISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTY  520 (539)
Q Consensus       473 ~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~  520 (539)
                            .|.. .++..++.++...|++++|.++|+++++  ..|+....
T Consensus       213 ------s~~~~dAl~klg~~~~~~g~~~~A~~~~~~vi~--~yP~s~~a  253 (263)
T PRK10803        213 ------SPKAADAMFKVGVIMQDKGDTAKAKAVYQQVIK--KYPGTDGA  253 (263)
T ss_pred             ------CcchhHHHHHHHHHHHHcCCHHHHHHHHHHHHH--HCcCCHHH
Confidence                  2223 3778888889999999999999999987  46776543

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=98.02  E-value=0.0024  Score=54.65  Aligned_cols=183  Identities=12%  Similarity=0.041  Sum_probs=92.6

Q ss_pred             CHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhH---HHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHH
Q 009255           44 NRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTY---NMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNT  120 (539)
Q Consensus        44 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~---~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  120 (539)
                      ++..+......+...|++++|.+.|+.+....+.. ....   -.++.++.+.+++++|...+++..+....-....+..
T Consensus        31 ~~~~~Y~~A~~~~~~g~y~~Ai~~f~~l~~~yP~s-~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~  109 (243)
T PRK10866         31 PPSEIYATAQQKLQDGNWKQAITQLEALDNRYPFG-PYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVL  109 (243)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC-hHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHH
Confidence            34444445555667788888888888887764332 2222   3455667778888888888888776531111122222


Q ss_pred             HHHHHh--cc---------------CC---HhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHHHHHcC
Q 009255          121 LINRFF--ES---------------GR---SMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENG  180 (539)
Q Consensus       121 l~~~~~--~~---------------~~---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  180 (539)
                      .+.+.+  ..               .+   ...|++.|+++++.  -|+.             .-..+|...+..+... 
T Consensus       110 Y~~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~--yP~S-------------~ya~~A~~rl~~l~~~-  173 (243)
T PRK10866        110 YMRGLTNMALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRG--YPNS-------------QYTTDATKRLVFLKDR-  173 (243)
T ss_pred             HHHHHhhhhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHH--CcCC-------------hhHHHHHHHHHHHHHH-
Confidence            222221  11               11   22444555555543  1222             1123333322222211 


Q ss_pred             CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhC--CCCCCHHhHHHHHHHHhccCCHHHHHHHHHHH
Q 009255          181 FSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRK--GLKMNTITLNTILHTLCCEKKLDEAYMLLNSA  246 (539)
Q Consensus       181 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  246 (539)
                        .-. .-..+...|.+.|.+..|+.-++.+.+.  +.+.....+..+..+|...|..++|......+
T Consensus       174 --la~-~e~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l  238 (243)
T PRK10866        174 --LAK-YELSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKII  238 (243)
T ss_pred             --HHH-HHHHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHH
Confidence              000 0113445566666666666666666653  23334445556666666666666666655444

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=98.02  E-value=0.00016  Score=63.64  Aligned_cols=131  Identities=13%  Similarity=0.046  Sum_probs=75.2

Q ss_pred             hHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHh-cCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 009255          327 TFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCR-EGILEKALKFFRSWILKGKAVDSVTYNTLISSL  405 (539)
Q Consensus       327 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~  405 (539)
                      +|..++....+.+..+.|+.+|.++.+.+ ..+..+|...+..-.. .++.+.|.++|+...+. .+.+...|...+..+
T Consensus         3 v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~l   80 (280)
T PF05843_consen    3 VWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDFL   80 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHH
Confidence            45556666666666777777777776432 2344555555544333 45555577777766665 344566666666666


Q ss_pred             HccCChHHHHHHHHHHHhCCCCCCH---hhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          406 CKERRLEDAFGLLSEMEEKKLGPDR---YTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       406 ~~~~~~~~A~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      ...|+.+.|..+|++.+.. +.++.   ..|..++.--.+.|+.+...++.+++.+..
T Consensus        81 ~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~~  137 (280)
T PF05843_consen   81 IKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEELF  137 (280)
T ss_dssp             HHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHT
T ss_pred             HHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh
Confidence            6677777777777776644 22222   355556665566666666666666666654

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.

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=98.01  E-value=4.5e-05  Score=51.53  Aligned_cols=69  Identities=16%  Similarity=0.199  Sum_probs=58.8

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCC
Q 009255          437 HTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAIN  516 (539)
Q Consensus       437 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~  516 (539)
                      ...+.+.+++++|.++++.++..+                  |.+...|...+.++...|++++|.+.++++++  ..|+
T Consensus         2 ~~~~~~~~~~~~A~~~~~~~l~~~------------------p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~--~~p~   61 (73)
T PF13371_consen    2 KQIYLQQEDYEEALEVLERALELD------------------PDDPELWLQRARCLFQLGRYEEALEDLERALE--LSPD   61 (73)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhC------------------cccchhhHHHHHHHHHhccHHHHHHHHHHHHH--HCCC
Confidence            457889999999999999999997                  34445999999999999999999999999997  5688


Q ss_pred             HHHHHHHHH
Q 009255          517 KSTYMNLMN  525 (539)
Q Consensus       517 ~~~~~~~l~  525 (539)
                      ..+...+..
T Consensus        62 ~~~~~~~~a   70 (73)
T PF13371_consen   62 DPDARALRA   70 (73)
T ss_pred             cHHHHHHHH
Confidence            777665543

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.99  E-value=7.4e-05  Score=55.19  Aligned_cols=88  Identities=17%  Similarity=0.149  Sum_probs=70.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChh-hHHHHHHHHhhcCCHHHHHHHHHHHHHc
Q 009255          433 YAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSI-SYSEKINEHCSQGRYKDALQIFEETRQK  511 (539)
Q Consensus       433 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~  511 (539)
                      ...+++++-..|+.++|+.+|++++..+..                .+... .+..++..|...|++++|..++++....
T Consensus         4 ~~~~A~a~d~~G~~~~Ai~~Y~~Al~~gL~----------------~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~   67 (120)
T PF12688_consen    4 LYELAWAHDSLGREEEAIPLYRRALAAGLS----------------GADRRRALIQLASTLRNLGRYDEALALLEEALEE   67 (120)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCC----------------chHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            446778888999999999999999998733                23223 8889999999999999999999999873


Q ss_pred             CCCCC---HHHHHHHHHHHHhcCCchhhcc
Q 009255          512 GIAIN---KSTYMNLMNGLIKRRKSISKAV  538 (539)
Q Consensus       512 ~~~p~---~~~~~~~l~~~~~~~~~~~~A~  538 (539)
                        .|+   ......++.-.+...|+.++|+
T Consensus        68 --~p~~~~~~~l~~f~Al~L~~~gr~~eAl   95 (120)
T PF12688_consen   68 --FPDDELNAALRVFLALALYNLGRPKEAL   95 (120)
T ss_pred             --CCCccccHHHHHHHHHHHHHCCCHHHHH
Confidence              466   6666666666666667788886

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=97.97  E-value=0.012  Score=52.87  Aligned_cols=144  Identities=17%  Similarity=0.152  Sum_probs=108.1

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHHcC-CCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHH-HHHH
Q 009255          361 VTCNILLSGLCREGILEKALKFFRSWILKG-KAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYA-AIHT  438 (539)
Q Consensus       361 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~-~l~~  438 (539)
                      .+|...+.+..+...++.|.++|-++.+.+ ..+++.++++++..++ .|++..|..+|+--...  -||...|. ..+.
T Consensus       398 ~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~--f~d~~~y~~kyl~  474 (660)
T COG5107         398 FVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLK--FPDSTLYKEKYLL  474 (660)
T ss_pred             hHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHh--CCCchHHHHHHHH
Confidence            355666777777788999999999999887 5677778888887654 57889999999876654  45655443 4555


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCC--hhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCC
Q 009255          439 ALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPS--SISYSEKINEHCSQGRYKDALQIFEETRQKGIAIN  516 (539)
Q Consensus       439 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~  516 (539)
                      -+..-++-+.|+.+|+..++.-                  ..+  ...|..++..-..-|+...|..+=+++.+  +.|.
T Consensus       475 fLi~inde~naraLFetsv~r~------------------~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e--~~pQ  534 (660)
T COG5107         475 FLIRINDEENARALFETSVERL------------------EKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRE--LVPQ  534 (660)
T ss_pred             HHHHhCcHHHHHHHHHHhHHHH------------------HHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHH--HcCc
Confidence            6677899999999999887654                  122  33888888888889999999999888887  5777


Q ss_pred             HHHHHHHHHHH
Q 009255          517 KSTYMNLMNGL  527 (539)
Q Consensus       517 ~~~~~~~l~~~  527 (539)
                      ..+...+++-+
T Consensus       535 en~~evF~Sry  545 (660)
T COG5107         535 ENLIEVFTSRY  545 (660)
T ss_pred             HhHHHHHHHHH
Confidence            76666555544

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.95  E-value=0.00023  Score=62.55  Aligned_cols=131  Identities=13%  Similarity=0.078  Sum_probs=103.4

Q ss_pred             hhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHH-HhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHH
Q 009255          291 FTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHG-FCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSG  369 (539)
Q Consensus       291 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  369 (539)
                      .+|..++....+.+..+.|..+|.++.+.+ ..+..+|...... +...++.+.|..+|+..++. +..+...|...+..
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 LVWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHH
Confidence            468888999999999999999999998543 2345556555555 33467888899999999986 56688899999999


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCh---hhHHHHHHHHHccCChHHHHHHHHHHHhC
Q 009255          370 LCREGILEKALKFFRSWILKGKAVDS---VTYNTLISSLCKERRLEDAFGLLSEMEEK  424 (539)
Q Consensus       370 ~~~~g~~~~A~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  424 (539)
                      +...++.+.|..+|++.+.. ..++.   ..|..++..-.+.|+.+.+..+.+++.+.
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            99999999999999999876 33333   48999999999999999999999999875

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.

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.95  E-value=0.0036  Score=53.62  Aligned_cols=178  Identities=11%  Similarity=0.101  Sum_probs=102.1

Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhH---HHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHh
Q 009255          260 TLITGYFRDEKANRALKLWDEMKERQIMPSTFTY---NAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFC  336 (539)
Q Consensus       260 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~---~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  336 (539)
                      .....+...|++++|.+.|+++....+.+ ....   -.++.++.+.++++.|...+++..+..+.....-+...+.+.+
T Consensus        37 ~~A~~~~~~g~y~~Ai~~f~~l~~~yP~s-~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~~g~~  115 (243)
T PRK10866         37 ATAQQKLQDGNWKQAITQLEALDNRYPFG-PYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYMRGLT  115 (243)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCCCC-hHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHHHHHh
Confidence            34444556777777777777777654332 2222   3455667777788888888877776543322222222222222


Q ss_pred             c--C---------------CC---HHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChh
Q 009255          337 S--E---------------GQ---VEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSV  396 (539)
Q Consensus       337 ~--~---------------~~---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  396 (539)
                      .  .               .|   ..+|...|+.+++.  -|+.             .-..+|...+..+...    -..
T Consensus       116 ~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~--yP~S-------------~ya~~A~~rl~~l~~~----la~  176 (243)
T PRK10866        116 NMALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRG--YPNS-------------QYTTDATKRLVFLKDR----LAK  176 (243)
T ss_pred             hhhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHH--CcCC-------------hhHHHHHHHHHHHHHH----HHH
Confidence            1  1               11   12344555555544  1222             2233444433333221    111


Q ss_pred             hHHHHHHHHHccCChHHHHHHHHHHHhC--CCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 009255          397 TYNTLISSLCKERRLEDAFGLLSEMEEK--KLGPDRYTYAAIHTALVESGRLEEAQKFTSIMV  457 (539)
Q Consensus       397 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  457 (539)
                      .-..++.-|.+.|.+..|+.-++.+++.  +.+.....+..+..++...|..++|.++...+.
T Consensus       177 ~e~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        177 YELSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             HHHHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence            1224567788899999999999999875  223335667788899999999999988876654

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.95  E-value=4.6e-05  Score=66.70  Aligned_cols=138  Identities=11%  Similarity=-0.020  Sum_probs=92.5

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHH----cCC-CCChhhHHHHHHHHHccCChHHHHHHHHHHHhC----C-CCCCH
Q 009255          361 VTCNILLSGLCREGILEKALKFFRSWIL----KGK-AVDSVTYNTLISSLCKERRLEDAFGLLSEMEEK----K-LGPDR  430 (539)
Q Consensus       361 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~----~-~~~~~  430 (539)
                      ..|..|...|.-.|+++.|+..-+.-+.    .|- ......+..+..++.-.|+++.|.+.|+.....    | -....
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            3556666666677889999877654332    121 112346778889999999999999999876533    2 12233


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHH
Q 009255          431 YTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       431 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  510 (539)
                      ....+|+.+|.-..+++.|+.++.+=+..-....+.            --..-++.+|+.+|...|..+.|+...+..++
T Consensus       276 QscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~Dr------------iGe~RacwSLgna~~alg~h~kAl~fae~hl~  343 (639)
T KOG1130|consen  276 QSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDR------------IGELRACWSLGNAFNALGEHRKALYFAELHLR  343 (639)
T ss_pred             HHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHh------------hhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            455678888888888999999887754332110000            01223788999999999999999988777654

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.94  E-value=0.00087  Score=64.11  Aligned_cols=138  Identities=9%  Similarity=0.007  Sum_probs=93.2

Q ss_pred             CCCCCHHhHHHHHHHHhc--C---CCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhc--------CCHHHHHHHHHHH
Q 009255          320 GMIPDETTFNTIIHGFCS--E---GQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCRE--------GILEKALKFFRSW  386 (539)
Q Consensus       320 ~~~~~~~~~~~l~~~~~~--~---~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------g~~~~A~~~~~~~  386 (539)
                      ..+.+...|...+++...  .   ++...|..+|+++++..+ .....+..+..++...        .+...+.+..++.
T Consensus       332 ~~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~ldP-~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a  410 (517)
T PRK10153        332 GLPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKSEP-DFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNI  410 (517)
T ss_pred             cCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHh
Confidence            344566677766665432  2   236678888888887632 2344454444433321        1233444444444


Q ss_pred             HHc-CCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          387 ILK-GKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       387 ~~~-~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      ... ..+.++..|..+...+...|++++|...++++.+.  .|+...|..++.++...|+.++|.+.++++...+
T Consensus       411 ~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L--~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~  483 (517)
T PRK10153        411 VALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDL--EMSWLNYVLLGKVYELKGDNRLAADAYSTAFNLR  483 (517)
T ss_pred             hhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHc--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            332 12335567887877777889999999999999976  4788889999999999999999999999999987

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=97.93  E-value=2.2e-05  Score=43.85  Aligned_cols=31  Identities=52%  Similarity=0.797  Sum_probs=13.5

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCC
Q 009255           83 YNMLINGWCNAGMLEEAFRLRKEMESLKLLP  113 (539)
Q Consensus        83 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  113 (539)
                      |+.++.+|++.|++++|.++|++|.+.|+.|
T Consensus         3 ~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p   33 (35)
T TIGR00756         3 YNTLIDGLCKAGRVEEALELFKEMLERGIEP   33 (35)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHcCCCC
Confidence            4444444444444444444444444444443

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=97.92  E-value=0.00025  Score=64.78  Aligned_cols=122  Identities=17%  Similarity=0.143  Sum_probs=75.5

Q ss_pred             CCChhhHHHHHHHHhccCCHhHHHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcCCHhHHHHHHHHHHHcCCCCChhhHH
Q 009255          112 LPDVVTYNTLINRFFESGRSMEAFKLIDELDEH--GIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTYN  189 (539)
Q Consensus       112 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  189 (539)
                      +.+......+++.+....+.+.+..++.+....  ....-+.|..++++.|.+.|..+++..+++.=...|+-||..+++
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            344445555566666666666666666666543  122223444567777777777777777777766777777777777


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhcc
Q 009255          190 TLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCE  233 (539)
Q Consensus       190 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  233 (539)
                      .|+..+.+.|++..|.++...|..++...++.|....+.+|.+.
T Consensus       143 ~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  143 LLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            77777777777777777776666665555555555555444433

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of small ribosomal proteins possessing one of three conserved sequence blocks found in proteins that stimulate the dissociation of guanine nucleotides from G-proteins. This leaves open the possibility that they may be functional partners of GTP-binding ribosomal proteins [].

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.91  E-value=0.00036  Score=63.76  Aligned_cols=121  Identities=17%  Similarity=0.169  Sum_probs=81.8

Q ss_pred             CChhhHHHHHHHHHhcCChHHHHHHHHHHHhC--CCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHH
Q 009255           78 PDVWTYNMLINGWCNAGMLEEAFRLRKEMESL--KLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNI  155 (539)
Q Consensus        78 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  155 (539)
                      .+......+++.+....+++.+..++-+....  ....-..|.+++++.|.+.|..+.++.+++.=...|+-||..+++.
T Consensus        64 vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n~  143 (429)
T PF10037_consen   64 VSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFNL  143 (429)
T ss_pred             CcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHHH
Confidence            35555666666666666677777777666554  1222234556777777777777778777777777777778888888


Q ss_pred             HHHHHHhcCCHhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhc
Q 009255          156 MIKWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKA  198 (539)
Q Consensus       156 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  198 (539)
                      |+..+.+.|++..|.++...|...+...+..++..-+.+|.+-
T Consensus       144 Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  144 LMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            8888888888887777777776655555555655555555544

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 [].

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.91  E-value=0.00033  Score=56.61  Aligned_cols=95  Identities=17%  Similarity=0.101  Sum_probs=66.8

Q ss_pred             hhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCC--CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCC
Q 009255          395 SVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGP--DRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTS  472 (539)
Q Consensus       395 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~  472 (539)
                      ...|..++..+...|++++|+..|+++......|  ...++..++.++...|++++|++.++++++..            
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~------------  102 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERN------------  102 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC------------
Confidence            3456677777778888888888888887543222  13467788888889999999999999988875            


Q ss_pred             CCCCCCCCChhhHHHHHHHHh-------hcCCHHHHHHHHHH
Q 009255          473 KTPEEIDPSSISYSEKINEHC-------SQGRYKDALQIFEE  507 (539)
Q Consensus       473 ~~~~~~~~~~~~~~~l~~~~~-------~~g~~~~A~~~~~~  507 (539)
                            +.....+..++.++.       ..|++++|+..+++
T Consensus       103 ------~~~~~~~~~la~i~~~~~~~~~~~g~~~~A~~~~~~  138 (168)
T CHL00033        103 ------PFLPQALNNMAVICHYRGEQAIEQGDSEIAEAWFDQ  138 (168)
T ss_pred             ------cCcHHHHHHHHHHHHHhhHHHHHcccHHHHHHHHHH
Confidence                  223336677777777       77787755444443

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.89  E-value=0.00056  Score=60.49  Aligned_cols=155  Identities=12%  Similarity=0.090  Sum_probs=96.1

Q ss_pred             CHHHHHHHHHHHHh----CCC-CCCHHhHHHHHHHHHhc-CCHHHHHHHHHHHHHcCC---CCC--hhhHHHHHHHHHcc
Q 009255          340 QVEKALQFHNKMVE----KSF-KPDIVTCNILLSGLCRE-GILEKALKFFRSWILKGK---AVD--SVTYNTLISSLCKE  408 (539)
Q Consensus       340 ~~~~a~~~~~~~~~----~~~-~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~~~---~~~--~~~~~~l~~~~~~~  408 (539)
                      +++.|...+++...    .|- ..-...+..+...|... |+++.|.+.|++..+.-.   .+.  ..++..++..+...
T Consensus        89 ~~~~Ai~~~~~A~~~y~~~G~~~~aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l  168 (282)
T PF14938_consen   89 DPDEAIECYEKAIEIYREAGRFSQAAKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARL  168 (282)
T ss_dssp             THHHHHHHHHHHHHHHHHCT-HHHHHHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHh
Confidence            55555555555443    121 11133555667777777 899999999988775411   111  23567788889999


Q ss_pred             CChHHHHHHHHHHHhCCCCC-----CH-hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCCh
Q 009255          409 RRLEDAFGLLSEMEEKKLGP-----DR-YTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSS  482 (539)
Q Consensus       409 ~~~~~A~~~~~~~~~~~~~~-----~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  482 (539)
                      |++++|+++|++........     +. ..+...+-++...||...|.+.+++.....+..               ..+.
T Consensus       169 ~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F---------------~~s~  233 (282)
T PF14938_consen  169 GRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSF---------------ASSR  233 (282)
T ss_dssp             T-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTS---------------TTSH
T ss_pred             CCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCC---------------CCcH
Confidence            99999999999988653222     12 233444556777899999999999998776210               1122


Q ss_pred             h--hHHHHHHHHhh--cCCHHHHHHHHHHHH
Q 009255          483 I--SYSEKINEHCS--QGRYKDALQIFEETR  509 (539)
Q Consensus       483 ~--~~~~l~~~~~~--~g~~~~A~~~~~~~~  509 (539)
                      .  ....|+.++-.  ...++.|+.-|+++.
T Consensus       234 E~~~~~~l~~A~~~~D~e~f~~av~~~d~~~  264 (282)
T PF14938_consen  234 EYKFLEDLLEAYEEGDVEAFTEAVAEYDSIS  264 (282)
T ss_dssp             HHHHHHHHHHHHHTT-CCCHHHHCHHHTTSS
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHcccC
Confidence            2  55667777654  355777777787775

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=97.86  E-value=3.3e-05  Score=42.74  Aligned_cols=29  Identities=31%  Similarity=0.470  Sum_probs=11.8

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 009255           83 YNMLINGWCNAGMLEEAFRLRKEMESLKL  111 (539)
Q Consensus        83 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  111 (539)
                      |+.++.+|++.|+++.|.++|++|.+.|+
T Consensus         4 y~~ll~a~~~~g~~~~a~~~~~~M~~~gv   32 (34)
T PF13812_consen    4 YNALLRACAKAGDPDAALQLFDEMKEQGV   32 (34)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCC
Confidence            34444444444444444444444443333

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.84  E-value=9.9e-05  Score=48.38  Aligned_cols=59  Identities=15%  Similarity=0.264  Sum_probs=42.4

Q ss_pred             HHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          401 LISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       401 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      ++..+...|++++|+..|+++++.. +-+...+..++.++...|++++|..+++++++..
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            4556777788888888888887653 3345677777777888888888888888887765

>PRK15331 chaperone protein SicA; Provisional

Probab=97.84  E-value=0.0019  Score=49.94  Aligned_cols=105  Identities=8%  Similarity=-0.069  Sum_probs=70.2

Q ss_pred             HHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCC
Q 009255          402 ISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPS  481 (539)
Q Consensus       402 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  481 (539)
                      ..-+...|++++|..+|+-+...+ .-+...+..|+.++-..+++++|+..|..+....                  .-|
T Consensus        44 Ay~~y~~Gk~~eA~~~F~~L~~~d-~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~------------------~~d  104 (165)
T PRK15331         44 AYEFYNQGRLDEAETFFRFLCIYD-FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLL------------------KND  104 (165)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc------------------cCC
Confidence            334456788888888888777554 3344556677777777888888888888777665                  223


Q ss_pred             hhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 009255          482 SISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGLI  528 (539)
Q Consensus       482 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~  528 (539)
                      +......+.+|...|+.+.|+..|+.+++   .|.......-...++
T Consensus       105 p~p~f~agqC~l~l~~~~~A~~~f~~a~~---~~~~~~l~~~A~~~L  148 (165)
T PRK15331        105 YRPVFFTGQCQLLMRKAAKARQCFELVNE---RTEDESLRAKALVYL  148 (165)
T ss_pred             CCccchHHHHHHHhCCHHHHHHHHHHHHh---CcchHHHHHHHHHHH
Confidence            33455667788888888888888888876   455555544444333

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.83  E-value=0.0038  Score=55.24  Aligned_cols=92  Identities=13%  Similarity=0.096  Sum_probs=42.5

Q ss_pred             HHHHcC-CCHHHHHHHHHHHHHC----CCC-CCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCC-----CHH-hHHH
Q 009255          298 WGLSQS-GKTEQAIDMLNELLQS----GMI-PDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKP-----DIV-TCNI  365 (539)
Q Consensus       298 ~~~~~~-~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-----~~~-~~~~  365 (539)
                      ..|... |+++.|++.|++..+.    +.. .-..++..+...+.+.|++++|.++|+++.......     +.. .+..
T Consensus       122 ~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~  201 (282)
T PF14938_consen  122 EIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLK  201 (282)
T ss_dssp             HHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHH
Confidence            344444 5666666666554432    100 012234455556666666666666666665432111     111 1222


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHc
Q 009255          366 LLSGLCREGILEKALKFFRSWILK  389 (539)
Q Consensus       366 l~~~~~~~g~~~~A~~~~~~~~~~  389 (539)
                      .+-++...|++-.|.+.+++....
T Consensus       202 a~l~~L~~~D~v~A~~~~~~~~~~  225 (282)
T PF14938_consen  202 AILCHLAMGDYVAARKALERYCSQ  225 (282)
T ss_dssp             HHHHHHHTT-HHHHHHHHHHHGTT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhh
Confidence            233444556666666666666544

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.82  E-value=0.0017  Score=55.25  Aligned_cols=102  Identities=16%  Similarity=0.083  Sum_probs=72.6

Q ss_pred             CCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccC---ChHHHHHHHHHHHhCCCCCCHhhH
Q 009255          357 KPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKER---RLEDAFGLLSEMEEKKLGPDRYTY  433 (539)
Q Consensus       357 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~A~~~~~~~~~~~~~~~~~~~  433 (539)
                      +.|..-|..|..+|...|+++.|..-|.+..... ++++..+..+..++....   .-.++..+|++++... +-|..+.
T Consensus       153 P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~-g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D-~~~iral  230 (287)
T COG4235         153 PGDAEGWDLLGRAYMALGRASDALLAYRNALRLA-GDNPEILLGLAEALYYQAGQQMTAKARALLRQALALD-PANIRAL  230 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcC-CccHHHH
Confidence            4477788888888888888888888888777762 346666666666655432   3456777888887653 3455666


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          434 AAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       434 ~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      ..++..+...|++.+|...|+.+++..
T Consensus       231 ~lLA~~afe~g~~~~A~~~Wq~lL~~l  257 (287)
T COG4235         231 SLLAFAAFEQGDYAEAAAAWQMLLDLL  257 (287)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcC
Confidence            677777888888888888888888776

>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=8.1e-05  Score=49.54  Aligned_cols=66  Identities=15%  Similarity=0.145  Sum_probs=48.9

Q ss_pred             ChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcC-CHHHHHHHHHHHHHcC
Q 009255          394 DSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESG-RLEEAQKFTSIMVETG  460 (539)
Q Consensus       394 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~~  460 (539)
                      ++..|..++..+...|++++|+..|+++++.+ +.+...+..++.++...| ++++|++.++++++.+
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l~   68 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKLD   68 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHcC
Confidence            45567777778888888888888888887653 334567777777888887 6888888888887765

...

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.82  E-value=0.00052  Score=55.44  Aligned_cols=100  Identities=12%  Similarity=-0.081  Sum_probs=53.8

Q ss_pred             hHHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCC--ChhhHHHHHHHHHhcCChHHHHHH
Q 009255           26 LNEVRDLLSDMKKQ-GLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLP--DVWTYNMLINGWCNAGMLEEAFRL  102 (539)
Q Consensus        26 ~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~a~~~  102 (539)
                      +..+...+..+.+. +.......+..++..+...|++++|...|+........+  ...++..+...+...|++++|+..
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 212223355666666667777777777777776543222  123566666667777777777777


Q ss_pred             HHHHHhCCCCCChhhHHHHHHHHh
Q 009255          103 RKEMESLKLLPDVVTYNTLINRFF  126 (539)
Q Consensus       103 ~~~~~~~~~~~~~~~~~~l~~~~~  126 (539)
                      +++..... +....++..+...+.
T Consensus        95 ~~~Al~~~-~~~~~~~~~la~i~~  117 (168)
T CHL00033         95 YFQALERN-PFLPQALNNMAVICH  117 (168)
T ss_pred             HHHHHHhC-cCcHHHHHHHHHHHH
Confidence            77766542 222334444444444

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.73  E-value=0.00088  Score=59.02  Aligned_cols=131  Identities=13%  Similarity=0.125  Sum_probs=60.7

Q ss_pred             HHHHHHHHhcCCCHHHHHHHHHHHHh----CCC-CCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCC-CChhh
Q 009255          328 FNTIIHGFCSEGQVEKALQFHNKMVE----KSF-KPDIVTCNILLSGLCREGILEKALKFFRSWILK----GKA-VDSVT  397 (539)
Q Consensus       328 ~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~-~~~~~  397 (539)
                      |..+...|.-.|+++.|+...+.-+.    -|- ......+..+..++.-.|+++.|.+.++.....    |-+ ....+
T Consensus       198 ~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEAQs  277 (639)
T KOG1130|consen  198 YGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEAQS  277 (639)
T ss_pred             hcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHHHH
Confidence            34444444455555555554443221    111 012234445555555566666666555543321    111 11223


Q ss_pred             HHHHHHHHHccCChHHHHHHHHHHHhC-----CCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 009255          398 YNTLISSLCKERRLEDAFGLLSEMEEK-----KLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVE  458 (539)
Q Consensus       398 ~~~l~~~~~~~~~~~~A~~~~~~~~~~-----~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  458 (539)
                      -..|...|.-..++++|+.++.+-+.-     ...-....+.+|+.++...|..++|..+.+..++
T Consensus       278 cYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~  343 (639)
T KOG1130|consen  278 CYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLR  343 (639)
T ss_pred             HHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            334555555555566666555543211     1112334555666666666666666655555443

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.70  E-value=0.0007  Score=48.02  Aligned_cols=72  Identities=17%  Similarity=0.243  Sum_probs=32.5

Q ss_pred             HHHhcCChHHHHHHHHHHHhCCC-CCChhhHHHHHHHHhccC--------CHhHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 009255           89 GWCNAGMLEEAFRLRKEMESLKL-LPDVVTYNTLINRFFESG--------RSMEAFKLIDELDEHGIKPNAVTHNIMIKW  159 (539)
Q Consensus        89 ~~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  159 (539)
                      -+...+++.....+|+.+++.|+ .|+..+|+.++.+..+..        ..-+.+.+|+.|...+++|+..+|+.++..
T Consensus        34 ~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYnivl~~  113 (120)
T PF08579_consen   34 SCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNIVLGS  113 (120)
T ss_pred             HHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHHHHHH
Confidence            33344555555555555555554 445555555544443321        112233444444444444444444444443


Q ss_pred             H
Q 009255          160 Y  160 (539)
Q Consensus       160 ~  160 (539)
                      +
T Consensus       114 L  114 (120)
T PF08579_consen  114 L  114 (120)
T ss_pred             H
Confidence            3

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 [, , ].

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.68  E-value=7e-05  Score=40.33  Aligned_cols=29  Identities=28%  Similarity=0.709  Sum_probs=20.5

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 009255           12 TYNTILDALFKKGKLNEVRDLLSDMKKQG   40 (539)
Q Consensus        12 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   40 (539)
                      +|+.++++|.+.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            56777777777777777777777776655

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.

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.67  E-value=0.011  Score=49.26  Aligned_cols=169  Identities=21%  Similarity=0.206  Sum_probs=86.2

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCCC--CCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHH
Q 009255           14 NTILDALFKKGKLNEVRDLLSDMKKQGL--VPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWC   91 (539)
Q Consensus        14 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   91 (539)
                      -.....+...|++.+|...|+.+.....  +-...+...++.++.+.|+++.|...++...+..+......+...+.+.+
T Consensus         9 Y~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~~g~~   88 (203)
T PF13525_consen    9 YQKALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYMLGLS   88 (203)
T ss_dssp             HHHHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHHHHH
Confidence            3455666788899999999999887631  22333566777888889999999999988877644322222222222222


Q ss_pred             hcCC-------------hHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 009255           92 NAGM-------------LEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIK  158 (539)
Q Consensus        92 ~~g~-------------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  158 (539)
                      ....             ..+|...               +..++.-|=.+.-..+|.+.+..+...    =...-..+..
T Consensus        89 ~~~~~~~~~~~~~D~~~~~~A~~~---------------~~~li~~yP~S~y~~~A~~~l~~l~~~----la~~e~~ia~  149 (203)
T PF13525_consen   89 YYKQIPGILRSDRDQTSTRKAIEE---------------FEELIKRYPNSEYAEEAKKRLAELRNR----LAEHELYIAR  149 (203)
T ss_dssp             HHHHHHHHH-TT---HHHHHHHHH---------------HHHHHHH-TTSTTHHHHHHHHHHHHHH----HHHHHHHHHH
T ss_pred             HHHhCccchhcccChHHHHHHHHH---------------HHHHHHHCcCchHHHHHHHHHHHHHHH----HHHHHHHHHH
Confidence            1111             1122222               223333333334444444444443321    1111123456


Q ss_pred             HHHhcCCHhHHHHHHHHHHHcCCCCChh----hHHHHHHHHHhcCCHHH
Q 009255          159 WYCKEGKIDKACKIVRNMEENGFSPDCV----TYNTLIDANCKAGNMEE  203 (539)
Q Consensus       159 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~----~~~~l~~~~~~~~~~~~  203 (539)
                      .|.+.|.+..|..-++.+.+.  -|++.    ....++.+|.+.|..+.
T Consensus       150 ~Y~~~~~y~aA~~r~~~v~~~--yp~t~~~~~al~~l~~~y~~l~~~~~  196 (203)
T PF13525_consen  150 FYYKRGKYKAAIIRFQYVIEN--YPDTPAAEEALARLAEAYYKLGLKQA  196 (203)
T ss_dssp             HHHCTT-HHHHHHHHHHHHHH--STTSHHHHHHHHHHHHHHHHTT-HHH
T ss_pred             HHHHcccHHHHHHHHHHHHHH--CCCCchHHHHHHHHHHHHHHhCChHH
Confidence            666777777777777766665  23322    33445556666665553

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.66  E-value=0.06  Score=51.44  Aligned_cols=372  Identities=15%  Similarity=0.087  Sum_probs=185.4

Q ss_pred             CcChhhHHHHHHHHHhcCChHHHHHHHHHHHhC-CCCC--------CHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCC
Q 009255            7 LPDNVTYNTILDALFKKGKLNEVRDLLSDMKKQ-GLVP--------NRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSL   77 (539)
Q Consensus         7 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~--------~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~   77 (539)
                      .|-+..|..+...-...-.++.|+..|-+.... |+..        +...-.  ...-..-|++++|.+++-.+.++.  
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 NPHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQR--AEISAFYGEFEEAEKLYLDADRRD--  764 (1189)
T ss_pred             CCchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHh--HhHhhhhcchhHhhhhhhccchhh--
Confidence            578889999998888888888888888776543 2211        111111  122234588999998887776542  


Q ss_pred             CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCC-CCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHH
Q 009255           78 PDVWTYNMLINGWCNAGMLEEAFRLRKEMESLK-LLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIM  156 (539)
Q Consensus        78 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  156 (539)
                             ..|..+.+.|++-...++++.--... -..-...|+.+...+.....+++|.++|..-...         ...
T Consensus       765 -------LAielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~~~---------e~~  828 (1189)
T KOG2041|consen  765 -------LAIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCGDT---------ENQ  828 (1189)
T ss_pred             -------hhHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccch---------HhH
Confidence                   24566677788777666655421100 0111346777788888778888888777653221         123


Q ss_pred             HHHHHhcCCHhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCCH
Q 009255          157 IKWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKL  236 (539)
Q Consensus       157 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  236 (539)
                      +.++.+..++++-+.+.+.+     +.+....-.+..++...|.-++|.+.+-+-   +. |     ...+..|...+++
T Consensus       829 ~ecly~le~f~~LE~la~~L-----pe~s~llp~~a~mf~svGMC~qAV~a~Lr~---s~-p-----kaAv~tCv~LnQW  894 (1189)
T KOG2041|consen  829 IECLYRLELFGELEVLARTL-----PEDSELLPVMADMFTSVGMCDQAVEAYLRR---SL-P-----KAAVHTCVELNQW  894 (1189)
T ss_pred             HHHHHHHHhhhhHHHHHHhc-----CcccchHHHHHHHHHhhchHHHHHHHHHhc---cC-c-----HHHHHHHHHHHHH
Confidence            45555555555544444443     234445555666666777777666655332   11 1     1233445555555


Q ss_pred             HHHHHHHHHHhhcCCcc----------CHhhHHHHHHHHHccCCHHHHHHHHHHHHHcC---CCCCHhhHHHHHHHHHcC
Q 009255          237 DEAYMLLNSASKRGYYL----------DEVSYGTLITGYFRDEKANRALKLWDEMKERQ---IMPSTFTYNAMIWGLSQS  303 (539)
Q Consensus       237 ~~a~~~~~~~~~~~~~~----------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~  303 (539)
                      .+|.++-+...-..+..          ...-....|..+.+.|.+-+|-+++.+|.++.   ..|-...-...+-+..-.
T Consensus       895 ~~avelaq~~~l~qv~tliak~aaqll~~~~~~eaIe~~Rka~~~~daarll~qmae~e~~K~~p~lr~KklYVL~AlLv  974 (1189)
T KOG2041|consen  895 GEAVELAQRFQLPQVQTLIAKQAAQLLADANHMEAIEKDRKAGRHLDAARLLSQMAEREQEKYVPYLRLKKLYVLGALLV  974 (1189)
T ss_pred             HHHHHHHHhccchhHHHHHHHHHHHHHhhcchHHHHHHhhhcccchhHHHHHHHHhHHHhhccCCHHHHHHHHHHHHHHH
Confidence            55554443221110000          00001123445566667666777776665431   112111111111111112


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHH
Q 009255          304 GKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFF  383 (539)
Q Consensus       304 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  383 (539)
                      .++.++++-.+....+|...+...   +    ...+-...+-++.+..-+   -.....|..+..--...|.++.|.+.-
T Consensus       975 E~h~~~ik~~~~~~~~g~~~dat~---l----les~~l~~~~ri~~n~Wr---gAEAyHFmilAQrql~eg~v~~Al~Ta 1044 (1189)
T KOG2041|consen  975 ENHRQTIKELRKIDKHGFLEDATD---L----LESGLLAEQSRILENTWR---GAEAYHFMILAQRQLFEGRVKDALQTA 1044 (1189)
T ss_pred             HHHHHHHHHhhhhhhcCcchhhhh---h----hhhhhhhhHHHHHHhhhh---hHHHHHHHHHHHHHHHhchHHHHHHHH
Confidence            234444444444444444322221   1    111222222222222111   012334444444455567777777654


Q ss_pred             HHHHHc-CCCCChhhHHHHHHHHHccCChHHHHHHHHHHH
Q 009255          384 RSWILK-GKAVDSVTYNTLISSLCKERRLEDAFGLLSEME  422 (539)
Q Consensus       384 ~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  422 (539)
                      -.+.+. .+-|....|..+.-+.+..+.+...-+.|-++.
T Consensus      1045 l~L~DYEd~lpP~eiySllALaaca~raFGtCSKAfmkLe 1084 (1189)
T KOG2041|consen 1045 LILSDYEDFLPPAEIYSLLALAACAVRAFGTCSKAFMKLE 1084 (1189)
T ss_pred             hhhccHhhcCCHHHHHHHHHHHHhhhhhhhhhHHHHHHHH
Confidence            433322 345566677777666665555555444444443

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.65  E-value=0.0057  Score=57.40  Aligned_cols=89  Identities=18%  Similarity=0.183  Sum_probs=54.4

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHh-------
Q 009255          359 DIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRY-------  431 (539)
Q Consensus       359 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~-------  431 (539)
                      +.++...+...+.+...+.-|.++|..+-+.         ..++......++|++|..+-++..+.  .||..       
T Consensus       746 ere~l~~~a~ylk~l~~~gLAaeIF~k~gD~---------ksiVqlHve~~~W~eAFalAe~hPe~--~~dVy~pyaqwL  814 (1081)
T KOG1538|consen  746 EREPLLLCATYLKKLDSPGLAAEIFLKMGDL---------KSLVQLHVETQRWDEAFALAEKHPEF--KDDVYMPYAQWL  814 (1081)
T ss_pred             hhhHHHHHHHHHhhccccchHHHHHHHhccH---------HHHhhheeecccchHhHhhhhhCccc--cccccchHHHHh
Confidence            4555566666666677778888888776432         34566777888888888887776532  34321       


Q ss_pred             ----hHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 009255          432 ----TYAAIHTALVESGRLEEAQKFTSIMVE  458 (539)
Q Consensus       432 ----~~~~l~~~~~~~g~~~~A~~~~~~~~~  458 (539)
                          -|...-+++-++|+..+|.++++++..
T Consensus       815 AE~DrFeEAqkAfhkAGr~~EA~~vLeQLtn  845 (1081)
T KOG1538|consen  815 AENDRFEEAQKAFHKAGRQREAVQVLEQLTN  845 (1081)
T ss_pred             hhhhhHHHHHHHHHHhcchHHHHHHHHHhhh
Confidence                122233455556666666666665543

>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=0.00017  Score=47.84  Aligned_cols=53  Identities=13%  Similarity=0.286  Sum_probs=32.5

Q ss_pred             ccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          407 KERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       407 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      ..|++++|+.+|+++.... +.+..+...++.++.+.|++++|.++++++....
T Consensus         3 ~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~   55 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRN-PDNPEARLLLAQCYLKQGQYDEAEELLERLLKQD   55 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHT-TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGG
T ss_pred             hccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            4566666666666666542 3345555566666666666666666666666665

...

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.65  E-value=0.0014  Score=56.49  Aligned_cols=99  Identities=9%  Similarity=0.038  Sum_probs=69.4

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC--hhhHHHHHHHHHccCChHHHHHHHHHHHhCC--CCCCHhhHHHHH
Q 009255          362 TCNILLSGLCREGILEKALKFFRSWILKGKAVD--SVTYNTLISSLCKERRLEDAFGLLSEMEEKK--LGPDRYTYAAIH  437 (539)
Q Consensus       362 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~l~  437 (539)
                      .|......+.+.|++++|...|+.++...+...  +..+..++.+|...|++++|...|+.+.+.-  -+.....+..++
T Consensus       145 ~Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg  224 (263)
T PRK10803        145 DYNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVG  224 (263)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHH
Confidence            344444444556888888888888887632211  2467778888888888888888888887541  111245566677


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcC
Q 009255          438 TALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       438 ~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      .++...|++++|.++++.+++..
T Consensus       225 ~~~~~~g~~~~A~~~~~~vi~~y  247 (263)
T PRK10803        225 VIMQDKGDTAKAKAVYQQVIKKY  247 (263)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHC
Confidence            77878888888888888888877

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=97.63  E-value=0.00081  Score=59.49  Aligned_cols=82  Identities=10%  Similarity=0.062  Sum_probs=71.0

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHH
Q 009255          431 YTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       431 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  510 (539)
                      .++..++.++.+.+++.+|++...+.++.+                  +++.-+...-+.+|...|+++.|+..|+++++
T Consensus       258 ~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~------------------~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k  319 (397)
T KOG0543|consen  258 ACHLNLAACYLKLKEYKEAIESCNKVLELD------------------PNNVKALYRRGQALLALGEYDLARDDFQKALK  319 (397)
T ss_pred             HHhhHHHHHHHhhhhHHHHHHHHHHHHhcC------------------CCchhHHHHHHHHHHhhccHHHHHHHHHHHHH
Confidence            456778889999999999999999999998                  45555999999999999999999999999998


Q ss_pred             cCCCCCHHHHHHHHHHHHhcCC
Q 009255          511 KGIAINKSTYMNLMNGLIKRRK  532 (539)
Q Consensus       511 ~~~~p~~~~~~~~l~~~~~~~~  532 (539)
                        +.|++.....-+..|...-+
T Consensus       320 --~~P~Nka~~~el~~l~~k~~  339 (397)
T KOG0543|consen  320 --LEPSNKAARAELIKLKQKIR  339 (397)
T ss_pred             --hCCCcHHHHHHHHHHHHHHH
Confidence              78999988887777765444

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.61  E-value=0.0014  Score=46.54  Aligned_cols=77  Identities=18%  Similarity=0.244  Sum_probs=43.2

Q ss_pred             HHHHHHccCCHhHHHHHHHHHHhCCC-CCChhhHHHHHHHHHhcC--------ChHHHHHHHHHHHhCCCCCChhhHHHH
Q 009255           51 LVSGYCKLGWLKEAMRVVDLMTQNKS-LPDVWTYNMLINGWCNAG--------MLEEAFRLRKEMESLKLLPDVVTYNTL  121 (539)
Q Consensus        51 l~~~~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g--------~~~~a~~~~~~~~~~~~~~~~~~~~~l  121 (539)
                      .+..+...+++...-.+|+.+.+.|. .|+..+|+.++...++..        +.-..+.+|+.|...+++|+..+|+.+
T Consensus        31 ~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYniv  110 (120)
T PF08579_consen   31 NINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNIV  110 (120)
T ss_pred             HHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHHH
Confidence            33344444555555555555555555 455555555555444321        233456667777777777777777777


Q ss_pred             HHHHhc
Q 009255          122 INRFFE  127 (539)
Q Consensus       122 ~~~~~~  127 (539)
                      +..+.+
T Consensus       111 l~~Llk  116 (120)
T PF08579_consen  111 LGSLLK  116 (120)
T ss_pred             HHHHHH
Confidence            766554

Rpm2 is a protein subunit of the yeast mitochondrial RNase P. It has the ability to act as a transcriptional activator in the nucleus, where it plays a role in defining the steady-state levels of mRNAs for some nucleus-encoded mitochondrial components. Rpm2p is also involved in maturation of Rpm1 and in translation of mitochondrial mRNAs [, , ].

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.60  E-value=0.032  Score=50.31  Aligned_cols=40  Identities=13%  Similarity=0.170  Sum_probs=29.7

Q ss_pred             hHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 009255          484 SYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMN  525 (539)
Q Consensus       484 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~  525 (539)
                      .+..++.+..-.|++++|.+.+++|.+  +.|...-....+.
T Consensus       307 d~ATl~Ea~vL~~d~~ka~~a~e~~~~--l~~~~W~l~St~~  346 (374)
T PF13281_consen  307 DVATLLEASVLAGDYEKAIQAAEKAFK--LKPPAWELESTLE  346 (374)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhh--cCCcchhHHHHHH
Confidence            445778888889999999999999997  3565544444433

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.59  E-value=0.03  Score=46.66  Aligned_cols=133  Identities=11%  Similarity=0.057  Sum_probs=96.7

Q ss_pred             hHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhH-----HHH
Q 009255          327 TFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTY-----NTL  401 (539)
Q Consensus       327 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~-----~~l  401 (539)
                      ....++....-.|.+.-....+.+.++...+.++.....++++-.+.|+.+.|...|++..+.....+....     ...
T Consensus       179 Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~  258 (366)
T KOG2796|consen  179 VMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNS  258 (366)
T ss_pred             HHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhh
Confidence            345566666777888888899999988776778888889999999999999999999977654333333333     334


Q ss_pred             HHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          402 ISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       402 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      ...|.-++++..|...+.+....+ +.|+...+.-+-++.-.|+..+|++.++.+++..
T Consensus       259 a~i~lg~nn~a~a~r~~~~i~~~D-~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~~  316 (366)
T KOG2796|consen  259 AFLHLGQNNFAEAHRFFTEILRMD-PRNAVANNNKALCLLYLGKLKDALKQLEAMVQQD  316 (366)
T ss_pred             hhheecccchHHHHHHHhhccccC-CCchhhhchHHHHHHHHHHHHHHHHHHHHHhccC
Confidence            455667788888888888887653 3344444444444555788999999999998876

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.59  E-value=0.014  Score=48.80  Aligned_cols=171  Identities=12%  Similarity=0.108  Sum_probs=82.0

Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHcCCCC--CHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhc-
Q 009255          261 LITGYFRDEKANRALKLWDEMKERQIMP--STFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCS-  337 (539)
Q Consensus       261 l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-  337 (539)
                      ....+...|++.+|...|+.+...-+..  .....-.++.++.+.|+++.|...+++..+..+......+...+.+.+. 
T Consensus        11 ~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~~g~~~~   90 (203)
T PF13525_consen   11 KALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYMLGLSYY   90 (203)
T ss_dssp             HHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHH
Confidence            3444555666666666666665542211  1223444555666666666666666666654322111111111111111 


Q ss_pred             ------------CCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 009255          338 ------------EGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSL  405 (539)
Q Consensus       338 ------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~  405 (539)
                                  .+...+|...|+.+++               -|=...-..+|...+..+...    =...-..++..|
T Consensus        91 ~~~~~~~~~~~D~~~~~~A~~~~~~li~---------------~yP~S~y~~~A~~~l~~l~~~----la~~e~~ia~~Y  151 (203)
T PF13525_consen   91 KQIPGILRSDRDQTSTRKAIEEFEELIK---------------RYPNSEYAEEAKKRLAELRNR----LAEHELYIARFY  151 (203)
T ss_dssp             HHHHHHH-TT---HHHHHHHHHHHHHHH---------------H-TTSTTHHHHHHHHHHHHHH----HHHHHHHHHHHH
T ss_pred             HhCccchhcccChHHHHHHHHHHHHHHH---------------HCcCchHHHHHHHHHHHHHHH----HHHHHHHHHHHH
Confidence                        1112233333333333               333333444444444443322    111122356778


Q ss_pred             HccCChHHHHHHHHHHHhCCCCCC---HhhHHHHHHHHHhcCCHHHHHH
Q 009255          406 CKERRLEDAFGLLSEMEEKKLGPD---RYTYAAIHTALVESGRLEEAQK  451 (539)
Q Consensus       406 ~~~~~~~~A~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~  451 (539)
                      .+.|.+..|..-++.+++. .+-+   ...+..++.++.+.|..+.+..
T Consensus       152 ~~~~~y~aA~~r~~~v~~~-yp~t~~~~~al~~l~~~y~~l~~~~~a~~  199 (203)
T PF13525_consen  152 YKRGKYKAAIIRFQYVIEN-YPDTPAAEEALARLAEAYYKLGLKQAADT  199 (203)
T ss_dssp             HCTT-HHHHHHHHHHHHHH-STTSHHHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             HHcccHHHHHHHHHHHHHH-CCCCchHHHHHHHHHHHHHHhCChHHHHH
Confidence            8888888888888888875 2222   3455667788888888775443

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=97.57  E-value=0.049  Score=48.24  Aligned_cols=281  Identities=12%  Similarity=0.056  Sum_probs=161.8

Q ss_pred             cCCHhHHHHHHHHHHHcCCCCChhhHHHHHHH--HHhcCCHHHHHHHHHHHhhCCCCCCHHhHHH----HHHHHhccCCH
Q 009255          163 EGKIDKACKIVRNMEENGFSPDCVTYNTLIDA--NCKAGNMEEAFRMMDVMGRKGLKMNTITLNT----ILHTLCCEKKL  236 (539)
Q Consensus       163 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~----l~~~~~~~~~~  236 (539)
                      .|+-..|.++-.+..+. +..|....-.++.+  -.-.|+++.|.+-|+.|..     |+.+-..    +.-..-+.|+.
T Consensus        97 AGda~lARkmt~~~~~l-lssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~-----dPEtRllGLRgLyleAqr~Gar  170 (531)
T COG3898          97 AGDASLARKMTARASKL-LSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLD-----DPETRLLGLRGLYLEAQRLGAR  170 (531)
T ss_pred             cCchHHHHHHHHHHHhh-hhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhc-----ChHHHHHhHHHHHHHHHhcccH
Confidence            45555555555443321 12233333333332  3345777777777777754     2222222    22222356667


Q ss_pred             HHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCC-CCCHh--hHHHHHHHH---HcCCCHHHHH
Q 009255          237 DEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQI-MPSTF--TYNAMIWGL---SQSGKTEQAI  310 (539)
Q Consensus       237 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~--~~~~l~~~~---~~~~~~~~a~  310 (539)
                      +.|.++-+........ -+......+...+..|+++.|+++.+.-+...+ .++..  .-..|+.+-   .-..+...|.
T Consensus       171 eaAr~yAe~Aa~~Ap~-l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar  249 (531)
T COG3898         171 EAARHYAERAAEKAPQ-LPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASAR  249 (531)
T ss_pred             HHHHHHHHHHHhhccC-CchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHH
Confidence            7776666665544322 344556677777777777777777766544321 12221  111122111   1123456666


Q ss_pred             HHHHHHHHCCCCCCHH-hHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 009255          311 DMLNELLQSGMIPDET-TFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILK  389 (539)
Q Consensus       311 ~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  389 (539)
                      ..-.+..+.  .|+.. .-.....++.+.|+..++-.+++.+-+...  .+.++..  ..+.+.|+  .+..-+++....
T Consensus       250 ~~A~~a~KL--~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~eP--HP~ia~l--Y~~ar~gd--ta~dRlkRa~~L  321 (531)
T COG3898         250 DDALEANKL--APDLVPAAVVAARALFRDGNLRKGSKILETAWKAEP--HPDIALL--YVRARSGD--TALDRLKRAKKL  321 (531)
T ss_pred             HHHHHHhhc--CCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCC--ChHHHHH--HHHhcCCC--cHHHHHHHHHHH
Confidence            665555543  34432 223345678899999999999999988754  4443332  22344554  333333332221


Q ss_pred             -CCC-CChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHh-cCCHHHHHHHHHHHHHcC
Q 009255          390 -GKA-VDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVE-SGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       390 -~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~g~~~~A~~~~~~~~~~~  460 (539)
                       ..+ .+..+...+..+....|++..|..--+....  ..|....|..+.+.-.. .||-.++.+++.+.++..
T Consensus       322 ~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r--~~pres~~lLlAdIeeAetGDqg~vR~wlAqav~AP  393 (531)
T COG3898         322 ESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAAR--EAPRESAYLLLADIEEAETGDQGKVRQWLAQAVKAP  393 (531)
T ss_pred             HhcCccchHHHHHHHHHHHhccchHHHHHHHHHHhh--hCchhhHHHHHHHHHhhccCchHHHHHHHHHHhcCC
Confidence             122 3566777888888899999999887777764  47888888888876654 499999999999998764

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.57  E-value=0.056  Score=48.92  Aligned_cols=450  Identities=14%  Similarity=0.106  Sum_probs=232.6

Q ss_pred             HHHhcCChHHHHHHHHHHHhCCCCCCHHHH------HHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHH--H
Q 009255           19 ALFKKGKLNEVRDLLSDMKKQGLVPNRTTY------NILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLING--W   90 (539)
Q Consensus        19 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~------~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--~   90 (539)
                      .+.+.+++.+|.++|.+..+.. ..++..+      +.++.+|. .++.+.....+....+..+   ...|..+..+  +
T Consensus        15 ~Lqkq~~~~esEkifskI~~e~-~~~~f~lkeEvl~grilnAff-l~nld~Me~~l~~l~~~~~---~s~~l~LF~~L~~   89 (549)
T PF07079_consen   15 ILQKQKKFQESEKIFSKIYDEK-ESSPFLLKEEVLGGRILNAFF-LNNLDLMEKQLMELRQQFG---KSAYLPLFKALVA   89 (549)
T ss_pred             HHHHHhhhhHHHHHHHHHHHHh-hcchHHHHHHHHhhHHHHHHH-HhhHHHHHHHHHHHHHhcC---CchHHHHHHHHHH
Confidence            3557889999999999987763 2232322      34556664 4566666666666665422   2234444433  3


Q ss_pred             HhcCChHHHHHHHHHHHhC--CCCCC------------hhhHHHHHHHHhccCCHhHHHHHHHHHHhCC----CCCCHHH
Q 009255           91 CNAGMLEEAFRLRKEMESL--KLLPD------------VVTYNTLINRFFESGRSMEAFKLIDELDEHG----IKPNAVT  152 (539)
Q Consensus        91 ~~~g~~~~a~~~~~~~~~~--~~~~~------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~~  152 (539)
                      .+.+.+.+|++.+......  +..|.            -.-=+..+.++...|++.++..+++++...=    ...+..+
T Consensus        90 Y~~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~  169 (549)
T PF07079_consen   90 YKQKEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDM  169 (549)
T ss_pred             HHhhhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHH
Confidence            5788899998888776554  21111            1112445677778888888888888775542    2357777


Q ss_pred             HHHHHHHHHhcCCHhHHHHHHHHHHHc---CCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHH
Q 009255          153 HNIMIKWYCKEGKIDKACKIVRNMEEN---GFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHT  229 (539)
Q Consensus       153 ~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  229 (539)
                      |+.++-.+.+.        .|-++.+.   .+-|+   |.-++..|.+.=..      ++.-.=..+.|.......++..
T Consensus       170 yd~~vlmlsrS--------YfLEl~e~~s~dl~pd---yYemilfY~kki~~------~d~~~Y~k~~peeeL~s~imqh  232 (549)
T PF07079_consen  170 YDRAVLMLSRS--------YFLELKESMSSDLYPD---YYEMILFYLKKIHA------FDQRPYEKFIPEEELFSTIMQH  232 (549)
T ss_pred             HHHHHHHHhHH--------HHHHHHHhcccccChH---HHHHHHHHHHHHHH------HhhchHHhhCcHHHHHHHHHHH
Confidence            77766555432        22222221   11121   22333333322110      1100000122333333333332


Q ss_pred             Hhcc--CCHHHHHHHHHHHhhcCCccCHh-hHHHHHHHHHccCCHHHHHHHHHHHHHcCCC----CCHhhHHHHHHHHHc
Q 009255          230 LCCE--KKLDEAYMLLNSASKRGYYLDEV-SYGTLITGYFRDEKANRALKLWDEMKERQIM----PSTFTYNAMIWGLSQ  302 (539)
Q Consensus       230 ~~~~--~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~----~~~~~~~~l~~~~~~  302 (539)
                      ..-.  ....--.+++......-+.|+.. +...+...+..  +.+++..+.+.+......    .-..+|..++....+
T Consensus       233 lfi~p~e~l~~~mq~l~~We~~yv~p~~~LVi~~L~~~f~~--~~e~~~~~ce~ia~~~i~~Lke~li~~F~~~Ls~~Vk  310 (549)
T PF07079_consen  233 LFIVPKERLPPLMQILENWENFYVHPNYDLVIEPLKQQFMS--DPEQVGHFCEAIASSKIEKLKEELIDRFGNLLSFKVK  310 (549)
T ss_pred             HHhCCHhhccHHHHHHHHHHhhccCCchhHHHHHHHHHHhc--ChHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence            2211  11122223333333333333322 22333333333  444444444433322110    024567777788888


Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCHHhHH-------HHHHHHh-cCCCHH---HHHHHHHHHHhCCCCCCHH-hHHHH---H
Q 009255          303 SGKTEQAIDMLNELLQSGMIPDETTFN-------TIIHGFC-SEGQVE---KALQFHNKMVEKSFKPDIV-TCNIL---L  367 (539)
Q Consensus       303 ~~~~~~a~~~~~~~~~~~~~~~~~~~~-------~l~~~~~-~~~~~~---~a~~~~~~~~~~~~~~~~~-~~~~l---~  367 (539)
                      .++...|...+.-+....+  +...-.       .+-...+ ...++.   .=..+|+.+...++  |.. ....+   +
T Consensus       311 ~~~T~~a~q~l~lL~~ldp--~~svs~Kllls~~~lq~Iv~~DD~~~Tklr~yL~lwe~~qs~Di--DrqQLvh~L~~~A  386 (549)
T PF07079_consen  311 QVQTEEAKQYLALLKILDP--RISVSEKLLLSPKVLQDIVCEDDESYTKLRDYLNLWEEIQSYDI--DRQQLVHYLVFGA  386 (549)
T ss_pred             HHhHHHHHHHHHHHHhcCC--cchhhhhhhcCHHHHHHHHhcchHHHHHHHHHHHHHHHHHhhcc--cHHHHHHHHHHHH
Confidence            8888888888876665432  221111       1111112 111222   22344444444322  222 22222   3


Q ss_pred             HHHHhcCC-HHHHHHHHHHHHHcCCCCChhhHHHHH----HHHHc---cCChHHHHHHHHHHHhCCCCCC----HhhHHH
Q 009255          368 SGLCREGI-LEKALKFFRSWILKGKAVDSVTYNTLI----SSLCK---ERRLEDAFGLLSEMEEKKLGPD----RYTYAA  435 (539)
Q Consensus       368 ~~~~~~g~-~~~A~~~~~~~~~~~~~~~~~~~~~l~----~~~~~---~~~~~~A~~~~~~~~~~~~~~~----~~~~~~  435 (539)
                      .-+.+.|. -++|..+++.+.... +-|...-|...    .+|..   ...+.+-+.+-.-..+.|++|-    ...-+.
T Consensus       387 k~lW~~g~~dekalnLLk~il~ft-~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~~i~i~e~eian~  465 (549)
T PF07079_consen  387 KHLWEIGQCDEKALNLLKLILQFT-NYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLTPITISEEEIANF  465 (549)
T ss_pred             HHHHhcCCccHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCcccccHHHHHHH
Confidence            34555665 788999998887652 22433333222    22222   1223333333333345577664    233344


Q ss_pred             HHHH--HHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCC
Q 009255          436 IHTA--LVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGI  513 (539)
Q Consensus       436 l~~~--~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  513 (539)
                      +..|  +...|++.++.-.-..+.+..                   |++.+|..+|-++....++++|...+..+     
T Consensus       466 LaDAEyLysqgey~kc~~ys~WL~~ia-------------------PS~~~~RLlGl~l~e~k~Y~eA~~~l~~L-----  521 (549)
T PF07079_consen  466 LADAEYLYSQGEYHKCYLYSSWLTKIA-------------------PSPQAYRLLGLCLMENKRYQEAWEYLQKL-----  521 (549)
T ss_pred             HHHHHHHHhcccHHHHHHHHHHHHHhC-------------------CcHHHHHHHHHHHHHHhhHHHHHHHHHhC-----
Confidence            4443  567899999988888787775                   88889999999999999999999999885     


Q ss_pred             CCCHHHHH
Q 009255          514 AINKSTYM  521 (539)
Q Consensus       514 ~p~~~~~~  521 (539)
                      .|+...+.
T Consensus       522 P~n~~~~d  529 (549)
T PF07079_consen  522 PPNERMRD  529 (549)
T ss_pred             CCchhhHH
Confidence            45555544

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>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=97.54  E-value=0.00031  Score=48.11  Aligned_cols=69  Identities=16%  Similarity=0.277  Sum_probs=53.1

Q ss_pred             HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChh-hHHHHHHHHhhcCCHHHHHHHHHHH
Q 009255          430 RYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSI-SYSEKINEHCSQGRYKDALQIFEET  508 (539)
Q Consensus       430 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~  508 (539)
                      ..++..++.++...|++++|+++++++++.... .+           ...|... ++..++.+|...|++++|++.++++
T Consensus         5 a~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~-~~-----------~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~a   72 (78)
T PF13424_consen    5 ANAYNNLARVYRELGRYDEALDYYEKALDIEEQ-LG-----------DDHPDTANTLNNLGECYYRLGDYEEALEYYQKA   72 (78)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHH-TT-----------THHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHH-HC-----------CCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            356788999999999999999999999865211 00           0023322 8899999999999999999999998


Q ss_pred             HH
Q 009255          509 RQ  510 (539)
Q Consensus       509 ~~  510 (539)
                      ++
T Consensus        73 l~   74 (78)
T PF13424_consen   73 LD   74 (78)
T ss_dssp             HH
T ss_pred             Hh
Confidence            75

...

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=97.52  E-value=0.005  Score=46.50  Aligned_cols=100  Identities=15%  Similarity=0.104  Sum_probs=67.7

Q ss_pred             HHHHHHccCChHHHHHHHHHHHhCCC--CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCC
Q 009255          401 LISSLCKERRLEDAFGLLSEMEEKKL--GPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEI  478 (539)
Q Consensus       401 l~~~~~~~~~~~~A~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  478 (539)
                      -+....+.|++++|++.|+.+...-.  +-...+...++.++.+.|++++|...+++.++.++.                
T Consensus        16 ~a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~----------------   79 (142)
T PF13512_consen   16 EAQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPT----------------   79 (142)
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC----------------
Confidence            34445677888888888888776511  112355667788888888888888888888888744                


Q ss_pred             CCChh-hHHHHHHHHhhcCC---------------HHHHHHHHHHHHHcCCCCCHH
Q 009255          479 DPSSI-SYSEKINEHCSQGR---------------YKDALQIFEETRQKGIAINKS  518 (539)
Q Consensus       479 ~~~~~-~~~~l~~~~~~~g~---------------~~~A~~~~~~~~~~~~~p~~~  518 (539)
                      .|++. ++...+-++..+..               ...|...|+++++  ..|++.
T Consensus        80 hp~vdYa~Y~~gL~~~~~~~~~~~~~~~~drD~~~~~~A~~~f~~lv~--~yP~S~  133 (142)
T PF13512_consen   80 HPNVDYAYYMRGLSYYEQDEGSLQSFFRSDRDPTPARQAFRDFEQLVR--RYPNSE  133 (142)
T ss_pred             CCCccHHHHHHHHHHHHHhhhHHhhhcccccCcHHHHHHHHHHHHHHH--HCcCCh
Confidence            45544 55554544555444               7788888888886  467654

>PRK15331 chaperone protein SicA; Provisional

Probab=97.50  E-value=0.01  Score=46.05  Aligned_cols=91  Identities=13%  Similarity=0.054  Sum_probs=68.2

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCH
Q 009255          367 LSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRL  446 (539)
Q Consensus       367 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  446 (539)
                      ..-+...|++++|..+|+-+...++- ++.-|..|+.++-..+++++|+..|..+...+ ..|+..+...+.++...|+.
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 AYEFYNQGRLDEAETFFRFLCIYDFY-NPDYTMGLAAVCQLKKQFQKACDLYAVAFTLL-KNDYRPVFFTGQCQLLMRKA  121 (165)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc-cCCCCccchHHHHHHHhCCH
Confidence            33455688888998888877766443 56667788888888888888888888776554 23444456677888888888


Q ss_pred             HHHHHHHHHHHHc
Q 009255          447 EEAQKFTSIMVET  459 (539)
Q Consensus       447 ~~A~~~~~~~~~~  459 (539)
                      +.|+..|+.+++.
T Consensus       122 ~~A~~~f~~a~~~  134 (165)
T PRK15331        122 AKARQCFELVNER  134 (165)
T ss_pred             HHHHHHHHHHHhC
Confidence            9998888888874

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.47  E-value=0.00021  Score=38.44  Aligned_cols=28  Identities=36%  Similarity=0.634  Sum_probs=13.0

Q ss_pred             HHHHHHHHHHhcCCHhHHHHHHHHHHHc
Q 009255          152 THNIMIKWYCKEGKIDKACKIVRNMEEN  179 (539)
Q Consensus       152 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~  179 (539)
                      +|+.++++|++.|++++|.++|++|.+.
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~   29 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRER   29 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHC
Confidence            3444444444444444444444444443

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.

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=97.44  E-value=0.0056  Score=51.56  Aligned_cols=106  Identities=14%  Similarity=0.097  Sum_probs=73.9

Q ss_pred             hHHHHHHHHHccCChHHHHHHHHHHHhCCC--CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCC
Q 009255          397 TYNTLISSLCKERRLEDAFGLLSEMEEKKL--GPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKT  474 (539)
Q Consensus       397 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~  474 (539)
                      .|+.-+. +...|++..|...|...++...  .-....+..|+.++...|++++|..+|..+.+..+.            
T Consensus       144 ~Y~~A~~-~~ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~------------  210 (262)
T COG1729         144 LYNAALD-LYKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPK------------  210 (262)
T ss_pred             HHHHHHH-HHHcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCC------------
Confidence            3554444 4466778888888888886521  111345566888888888888888888888887644            


Q ss_pred             CCCCCCCh-hhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHH
Q 009255          475 PEEIDPSS-ISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYM  521 (539)
Q Consensus       475 ~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~  521 (539)
                          .|.. ..+.-|+.+..+.|+.++|..+|++++++  .|+.....
T Consensus       211 ----s~KApdallKlg~~~~~l~~~d~A~atl~qv~k~--YP~t~aA~  252 (262)
T COG1729         211 ----SPKAPDALLKLGVSLGRLGNTDEACATLQQVIKR--YPGTDAAK  252 (262)
T ss_pred             ----CCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHH--CCCCHHHH
Confidence                3444 37788888888888888888888888873  56655443

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.41  E-value=0.057  Score=45.08  Aligned_cols=140  Identities=14%  Similarity=0.116  Sum_probs=96.7

Q ss_pred             hHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCC-----CCCCHHhHHHH
Q 009255          292 TYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKS-----FKPDIVTCNIL  366 (539)
Q Consensus       292 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~l  366 (539)
                      ..+.++..+.-.+.+.-....+++..+...+.++.....+++.-.+.||.+.|..+|++..+..     +..+..+....
T Consensus       179 Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~  258 (366)
T KOG2796|consen  179 VMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNS  258 (366)
T ss_pred             HHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhh
Confidence            3455666667777888888888888887666677788888888888888888888888776532     22233333344


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHH
Q 009255          367 LSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYA  434 (539)
Q Consensus       367 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~  434 (539)
                      ...|.-++++..|...+.++...+.. ++...|.-+-+..-.|+..+|++.++.|.+.  .|...+-.
T Consensus       259 a~i~lg~nn~a~a~r~~~~i~~~D~~-~~~a~NnKALcllYlg~l~DAiK~~e~~~~~--~P~~~l~e  323 (366)
T KOG2796|consen  259 AFLHLGQNNFAEAHRFFTEILRMDPR-NAVANNNKALCLLYLGKLKDALKQLEAMVQQ--DPRHYLHE  323 (366)
T ss_pred             hhheecccchHHHHHHHhhccccCCC-chhhhchHHHHHHHHHHHHHHHHHHHHHhcc--CCccchhh
Confidence            44556677888888888888776433 5555565555566678888888888888864  45444333

>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=97.38  E-value=0.021  Score=44.77  Aligned_cols=72  Identities=25%  Similarity=0.354  Sum_probs=54.4

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHH--
Q 009255          432 TYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETR--  509 (539)
Q Consensus       432 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--  509 (539)
                      +...++..+...|++++|.++++.++..+                  |-+...|..++.+|...|+..+|++.|+++.  
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~d------------------P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~  125 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALD------------------PYDEEAYRLLMRALAAQGRRAEALRVYERYRRR  125 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS------------------TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcC------------------CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHH
Confidence            45567778889999999999999999998                  3455599999999999999999999999864  


Q ss_pred             ---HcCCCCCHHHHH
Q 009255          510 ---QKGIAINKSTYM  521 (539)
Q Consensus       510 ---~~~~~p~~~~~~  521 (539)
                         +.|+.|+..+-.
T Consensus       126 l~~elg~~Ps~~~~~  140 (146)
T PF03704_consen  126 LREELGIEPSPETRA  140 (146)
T ss_dssp             HHHHHS----HHHHH
T ss_pred             HHHHhCcCcCHHHHH
Confidence               358888877654

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=97.37  E-value=0.13  Score=48.49  Aligned_cols=184  Identities=13%  Similarity=0.016  Sum_probs=113.5

Q ss_pred             HhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHH
Q 009255          255 EVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHG  334 (539)
Q Consensus       255 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  334 (539)
                      ...|..-+......|+.+.+.-+|+...-..-. -...|-..+.-....|+.+-|..++....+-..+..+.+-..-...
T Consensus       297 l~nw~~yLdf~i~~g~~~~~~~l~ercli~cA~-Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~~~~i~L~~a~f  375 (577)
T KOG1258|consen  297 LKNWRYYLDFEITLGDFSRVFILFERCLIPCAL-YDEFWIKYARWMESSGDVSLANNVLARACKIHVKKTPIIHLLEARF  375 (577)
T ss_pred             HHHHHHHhhhhhhcccHHHHHHHHHHHHhHHhh-hHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCCCCcHHHHHHHHH
Confidence            346666777777889999998888887642111 2345555666666669999888888776654333222222222223


Q ss_pred             HhcCCCHHHHHHHHHHHHhCCCCCCH-HhHHHHHHHHHhcCCHHHHH---HHHHHHHHcCCCCChhhHHHHHHH-----H
Q 009255          335 FCSEGQVEKALQFHNKMVEKSFKPDI-VTCNILLSGLCREGILEKAL---KFFRSWILKGKAVDSVTYNTLISS-----L  405 (539)
Q Consensus       335 ~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~---~~~~~~~~~~~~~~~~~~~~l~~~-----~  405 (539)
                      +-..|+++.|..+++.+...-  |+. ..-..-+....+.|+.+.+.   .++...... .. +......+..-     +
T Consensus       376 ~e~~~n~~~A~~~lq~i~~e~--pg~v~~~l~~~~~e~r~~~~~~~~~~~~l~s~~~~~-~~-~~~i~~~l~~~~~r~~~  451 (577)
T KOG1258|consen  376 EESNGNFDDAKVILQRIESEY--PGLVEVVLRKINWERRKGNLEDANYKNELYSSIYEG-KE-NNGILEKLYVKFARLRY  451 (577)
T ss_pred             HHhhccHHHHHHHHHHHHhhC--CchhhhHHHHHhHHHHhcchhhhhHHHHHHHHhccc-cc-CcchhHHHHHHHHHHHH
Confidence            456689999999999998763  443 33333455566788888887   333333222 11 22333322222     2


Q ss_pred             HccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcC
Q 009255          406 CKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESG  444 (539)
Q Consensus       406 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  444 (539)
                      .-.++.+.|..++.++.+. ++++...|..++..+...+
T Consensus       452 ~i~~d~~~a~~~l~~~~~~-~~~~k~~~~~~~~~~~~~~  489 (577)
T KOG1258|consen  452 KIREDADLARIILLEANDI-LPDCKVLYLELIRFELIQP  489 (577)
T ss_pred             HHhcCHHHHHHHHHHhhhc-CCccHHHHHHHHHHHHhCC
Confidence            3367889999999999875 4666677777777665544

>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=97.37  E-value=0.0061  Score=49.38  Aligned_cols=115  Identities=13%  Similarity=0.215  Sum_probs=67.6

Q ss_pred             CCHHHHHHHHHHHH-----ccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhh
Q 009255           43 PNRTTYNILVSGYC-----KLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVT  117 (539)
Q Consensus        43 ~~~~~~~~l~~~~~-----~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  117 (539)
                      .+-.+|..++..|.     +.|.++-....+..|.+-|+..|..+|+.|++.+=+ |.+- -..+|+.+-          
T Consensus        45 k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPK-g~fv-p~n~fQ~~F----------  112 (228)
T PF06239_consen   45 KDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPK-GKFV-PRNFFQAEF----------  112 (228)
T ss_pred             ccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC-CCcc-cccHHHHHh----------
Confidence            35556666666665     345566666666666666766677777777666543 2221 011111110          


Q ss_pred             HHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCH-hHHHHHHHHH
Q 009255          118 YNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKI-DKACKIVRNM  176 (539)
Q Consensus       118 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~a~~~~~~~  176 (539)
                           .  -.-.+-+-|++++++|...|+-||..++..++..+.+.+.. .+..++.=.|
T Consensus       113 -----~--hyp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~p~~K~~rmmYWm  165 (228)
T PF06239_consen  113 -----M--HYPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSHPMKKYRRMMYWM  165 (228)
T ss_pred             -----c--cCcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccHHHHHHHHHHHHH
Confidence                 0  01123456888899999999999999999888888776652 3344433333

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=97.36  E-value=0.012  Score=42.98  Aligned_cols=55  Identities=22%  Similarity=0.137  Sum_probs=28.1

Q ss_pred             HHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          405 LCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       405 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      ....|+.+.|++.|.+.+.. .+.....|+.-..++.-+|+.++|..-++++++..
T Consensus        53 laE~g~Ld~AlE~F~qal~l-~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLa  107 (175)
T KOG4555|consen   53 LAEAGDLDGALELFGQALCL-APERASAYNNRAQALRLQGDDEEALDDLNKALELA  107 (175)
T ss_pred             HHhccchHHHHHHHHHHHHh-cccchHhhccHHHHHHHcCChHHHHHHHHHHHHhc
Confidence            34455555555555555532 12334455555555555555555555555555543

>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=97.35  E-value=0.0059  Score=49.44  Aligned_cols=87  Identities=20%  Similarity=0.334  Sum_probs=48.7

Q ss_pred             ChhhHHHHHHHHhc-----cCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----------------cCCHhHHHHH
Q 009255          114 DVVTYNTLINRFFE-----SGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCK----------------EGKIDKACKI  172 (539)
Q Consensus       114 ~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----------------~g~~~~a~~~  172 (539)
                      +..+|..++..+.+     .|..+-....+..|.+-|+.-|..+|+.|+.++=+                -.+-+-|+++
T Consensus        46 ~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i~l  125 (228)
T PF06239_consen   46 DKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAIDL  125 (228)
T ss_pred             cHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHHHH
Confidence            44444444444432     24445555555555555555555555555554432                1233456677


Q ss_pred             HHHHHHcCCCCChhhHHHHHHHHHhcCC
Q 009255          173 VRNMEENGFSPDCVTYNTLIDANCKAGN  200 (539)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~  200 (539)
                      +++|...|+-||..++..++..+.+.+.
T Consensus       126 L~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  126 LEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             HHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence            7777777777777777777777666554

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PRK11906 transcriptional regulator; Provisional

Probab=97.34  E-value=0.015  Score=53.16  Aligned_cols=147  Identities=11%  Similarity=0.071  Sum_probs=98.2

Q ss_pred             CHHHHHHHHHHHHhC-CCCCC-HHhHHHHHHHHHhc---------CCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcc
Q 009255          340 QVEKALQFHNKMVEK-SFKPD-IVTCNILLSGLCRE---------GILEKALKFFRSWILKGKAVDSVTYNTLISSLCKE  408 (539)
Q Consensus       340 ~~~~a~~~~~~~~~~-~~~~~-~~~~~~l~~~~~~~---------g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  408 (539)
                      +.+.|..+|.+.... ...|+ ...|..+..++...         .+..+|.++.++.++.+.. |+.....++.+....
T Consensus       273 ~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAveld~~-Da~a~~~~g~~~~~~  351 (458)
T PRK11906        273 SIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDITTV-DGKILAIMGLITGLS  351 (458)
T ss_pred             HHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHhh
Confidence            456777888888722 22333 44555555554331         2345677777777777544 777777777777778


Q ss_pred             CChHHHHHHHHHHHhCCCCCC-HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChh---h
Q 009255          409 RRLEDAFGLLSEMEEKKLGPD-RYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSI---S  484 (539)
Q Consensus       409 ~~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~  484 (539)
                      ++++.|...|+++...  .|| ..++...+..+.-.|+.++|.+.++++++..                   |...   .
T Consensus       352 ~~~~~a~~~f~rA~~L--~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLs-------------------P~~~~~~~  410 (458)
T PRK11906        352 GQAKVSHILFEQAKIH--STDIASLYYYRALVHFHNEKIEEARICIDKSLQLE-------------------PRRRKAVV  410 (458)
T ss_pred             cchhhHHHHHHHHhhc--CCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC-------------------chhhHHHH
Confidence            8888888888888854  555 4566667777777888899988888888876                   4332   4


Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHHHH
Q 009255          485 YSEKINEHCSQGRYKDALQIFEETR  509 (539)
Q Consensus       485 ~~~l~~~~~~~g~~~~A~~~~~~~~  509 (539)
                      ....++.|+..+ .++|+++|-+-.
T Consensus       411 ~~~~~~~~~~~~-~~~~~~~~~~~~  434 (458)
T PRK11906        411 IKECVDMYVPNP-LKNNIKLYYKET  434 (458)
T ss_pred             HHHHHHHHcCCc-hhhhHHHHhhcc
Confidence            455555666554 567777766544

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.29  E-value=0.0022  Score=43.15  Aligned_cols=57  Identities=21%  Similarity=0.191  Sum_probs=32.4

Q ss_pred             HHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          403 SSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       403 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      ..|.+.+++++|+.+++.++..+ +.+...+...+.++...|++++|.+.++.+++..
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~   59 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELD-PDDPELWLQRARCLFQLGRYEEALEDLERALELS   59 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhC-cccchhhHHHHHHHHHhccHHHHHHHHHHHHHHC
Confidence            34555666666666666666442 2234445555556666666666666666666554

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=97.25  E-value=0.0018  Score=58.77  Aligned_cols=64  Identities=16%  Similarity=0.095  Sum_probs=46.0

Q ss_pred             ChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHh----hHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 009255          394 DSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRY----TYAAIHTALVESGRLEEAQKFTSIMVET  459 (539)
Q Consensus       394 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~----~~~~l~~~~~~~g~~~~A~~~~~~~~~~  459 (539)
                      +...|+.+..+|...|++++|+..|++.++.  .|+..    ++..++.+|...|+.++|++.++++++.
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL--~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALEL--NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            4556777777777777777777777777753  56632    3677777777777777777777777775

>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=97.15  E-value=0.0011  Score=45.40  Aligned_cols=64  Identities=22%  Similarity=0.335  Sum_probs=42.1

Q ss_pred             hhHHHHHHHHHccCChHHHHHHHHHHHhC--CCC---CC-HhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 009255          396 VTYNTLISSLCKERRLEDAFGLLSEMEEK--KLG---PD-RYTYAAIHTALVESGRLEEAQKFTSIMVET  459 (539)
Q Consensus       396 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~---~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  459 (539)
                      .+++.+..+|...|++++|+..|+++.+.  ...   |+ ..++..++.++...|++++|+++++++++.
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~i   75 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALDI   75 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            35667777777777777777777776643  111   11 345667777788888888888888777653

...

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=97.14  E-value=0.0087  Score=53.24  Aligned_cols=96  Identities=14%  Similarity=0.090  Sum_probs=76.9

Q ss_pred             hhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCC
Q 009255          395 SVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKT  474 (539)
Q Consensus       395 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~  474 (539)
                      ..+++.+..++.+.+++..|++.-.+.+..+ ++|...+..-+.++...|+++.|+..|+++++..              
T Consensus       257 ~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~--------------  321 (397)
T KOG0543|consen  257 LACHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKALYRRGQALLALGEYDLARDDFQKALKLE--------------  321 (397)
T ss_pred             HHHhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhC--------------
Confidence            3467788889999999999999999999875 6778888888999999999999999999999987              


Q ss_pred             CCCCCCChh-hHHHHHHHHhhcCCH-HHHHHHHHHHHH
Q 009255          475 PEEIDPSSI-SYSEKINEHCSQGRY-KDALQIFEETRQ  510 (539)
Q Consensus       475 ~~~~~~~~~-~~~~l~~~~~~~g~~-~~A~~~~~~~~~  510 (539)
                           |+.. +-..++.+-.+..++ +...++|.+|..
T Consensus       322 -----P~Nka~~~el~~l~~k~~~~~~kekk~y~~mF~  354 (397)
T KOG0543|consen  322 -----PSNKAARAELIKLKQKIREYEEKEKKMYANMFA  354 (397)
T ss_pred             -----CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence                 5554 566666665555444 444788888875

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=97.11  E-value=0.0064  Score=44.36  Aligned_cols=83  Identities=16%  Similarity=0.152  Sum_probs=63.6

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCC
Q 009255          437 HTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAIN  516 (539)
Q Consensus       437 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~  516 (539)
                      +-++...|+.+.|++.|.+++..-                  |....+|++-+.++.-+|+.++|+.-++++++..-...
T Consensus        50 ~valaE~g~Ld~AlE~F~qal~l~------------------P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~t  111 (175)
T KOG4555|consen   50 AIALAEAGDLDGALELFGQALCLA------------------PERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQT  111 (175)
T ss_pred             HHHHHhccchHHHHHHHHHHHHhc------------------ccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccc
Confidence            346778999999999999999987                  45566999999999999999999999999998432223


Q ss_pred             HHHHHHHH--HHHHhcCCchhhc
Q 009255          517 KSTYMNLM--NGLIKRRKSISKA  537 (539)
Q Consensus       517 ~~~~~~~l--~~~~~~~~~~~~A  537 (539)
                      .+....+.  +.+++..|+.+.|
T Consensus       112 rtacqa~vQRg~lyRl~g~dd~A  134 (175)
T KOG4555|consen  112 RTACQAFVQRGLLYRLLGNDDAA  134 (175)
T ss_pred             hHHHHHHHHHHHHHHHhCchHHH
Confidence            34444433  3566666766665

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=97.09  E-value=0.0013  Score=38.78  Aligned_cols=41  Identities=5%  Similarity=0.067  Sum_probs=34.8

Q ss_pred             hhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 009255          483 ISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMN  525 (539)
Q Consensus       483 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~  525 (539)
                      .+|..++..|.+.|++++|+++|+++++  ..|++......++
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~--~~P~~~~a~~~La   42 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRALA--LDPDDPEAWRALA   42 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHH--HCcCCHHHHHHhh
Confidence            3688899999999999999999999998  5788876665554

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=97.07  E-value=0.28  Score=46.42  Aligned_cols=186  Identities=11%  Similarity=-0.008  Sum_probs=114.7

Q ss_pred             CHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHH
Q 009255          324 DETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLIS  403 (539)
Q Consensus       324 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~  403 (539)
                      +..+|...+..-...|+.+.+.-.++...-. +..=...|-..+......|+.+-|..++....+...+-.+.+...-..
T Consensus       296 ql~nw~~yLdf~i~~g~~~~~~~l~ercli~-cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~~~~i~L~~a~  374 (577)
T KOG1258|consen  296 QLKNWRYYLDFEITLGDFSRVFILFERCLIP-CALYDEFWIKYARWMESSGDVSLANNVLARACKIHVKKTPIIHLLEAR  374 (577)
T ss_pred             HHHHHHHHhhhhhhcccHHHHHHHHHHHHhH-HhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCCCCcHHHHHHHH
Confidence            3456777777778888998888888887642 122234555566666667888888888877666544433433333344


Q ss_pred             HHHccCChHHHHHHHHHHHhCCCCCCH-hhHHHHHHHHHhcCCHHHHH---HHHHHHHHcCCCCcccccCCCCCCCCCCC
Q 009255          404 SLCKERRLEDAFGLLSEMEEKKLGPDR-YTYAAIHTALVESGRLEEAQ---KFTSIMVETGKINHQVVQPNTSKTPEEID  479 (539)
Q Consensus       404 ~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  479 (539)
                      ..-..|+++.|..+++...+. . |+. ..-..-+....+.|+.+.+.   +++........                 .
T Consensus       375 f~e~~~n~~~A~~~lq~i~~e-~-pg~v~~~l~~~~~e~r~~~~~~~~~~~~l~s~~~~~~~-----------------~  435 (577)
T KOG1258|consen  375 FEESNGNFDDAKVILQRIESE-Y-PGLVEVVLRKINWERRKGNLEDANYKNELYSSIYEGKE-----------------N  435 (577)
T ss_pred             HHHhhccHHHHHHHHHHHHhh-C-CchhhhHHHHHhHHHHhcchhhhhHHHHHHHHhccccc-----------------C
Confidence            445678999999999998875 3 553 33334455667788888887   33333332211                 1


Q ss_pred             CChh--hHHHHHHH-HhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Q 009255          480 PSSI--SYSEKINE-HCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGLIKR  530 (539)
Q Consensus       480 ~~~~--~~~~l~~~-~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~  530 (539)
                      +...  .+...++. +.-.++.+.|..++.++.+. +.++..-|..++.-+...
T Consensus       436 ~~i~~~l~~~~~r~~~~i~~d~~~a~~~l~~~~~~-~~~~k~~~~~~~~~~~~~  488 (577)
T KOG1258|consen  436 NGILEKLYVKFARLRYKIREDADLARIILLEANDI-LPDCKVLYLELIRFELIQ  488 (577)
T ss_pred             cchhHHHHHHHHHHHHHHhcCHHHHHHHHHHhhhc-CCccHHHHHHHHHHHHhC
Confidence            2222  23333333 33458899999999999873 344455666666644443

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.07  E-value=0.21  Score=45.18  Aligned_cols=170  Identities=15%  Similarity=0.078  Sum_probs=100.9

Q ss_pred             CCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCC---CChhhHHHHHHHHHh---cCChHHHHHHHHHHHhCCCCCChh
Q 009255           43 PNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSL---PDVWTYNMLINGWCN---AGMLEEAFRLRKEMESLKLLPDVV  116 (539)
Q Consensus        43 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~---~~~~~~~~l~~~~~~---~g~~~~a~~~~~~~~~~~~~~~~~  116 (539)
                      .++.+...++-+|....+++...++.+.+......   .....--...-++.+   .|+.++|++++..+......+++.
T Consensus       139 ls~div~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d  218 (374)
T PF13281_consen  139 LSPDIVINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPD  218 (374)
T ss_pred             cChhHHHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChH
Confidence            34555556666688888888888888888765211   122222233344555   778888888888855555567777


Q ss_pred             hHHHHHHHHhc---------cCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC-Hh---HHHHHH---HH-HHHc
Q 009255          117 TYNTLINRFFE---------SGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGK-ID---KACKIV---RN-MEEN  179 (539)
Q Consensus       117 ~~~~l~~~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-~~---~a~~~~---~~-~~~~  179 (539)
                      +|..+...|-.         ....++|+..|.+.-+.  .|+..+-..++..+.-.|. .+   +..++-   .. +.+.
T Consensus       219 ~~gL~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~--~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~k  296 (374)
T PF13281_consen  219 TLGLLGRIYKDLFLESNFTDRESLDKAIEWYRKGFEI--EPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRK  296 (374)
T ss_pred             HHHHHHHHHHHHHHHcCccchHHHHHHHHHHHHHHcC--CccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhh
Confidence            77777766532         22367788888776554  2443332223333333332 11   222222   11 1123


Q ss_pred             CC---CCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 009255          180 GF---SPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRK  214 (539)
Q Consensus       180 ~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (539)
                      |.   ..+-..+.+++.++.-.|++++|.+.+++|.+.
T Consensus       297 g~~~~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l  334 (374)
T PF13281_consen  297 GSLEKMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKL  334 (374)
T ss_pred             ccccccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Confidence            31   245556678888889999999999999999876

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=96.98  E-value=0.25  Score=44.25  Aligned_cols=83  Identities=17%  Similarity=0.177  Sum_probs=50.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHh
Q 009255          363 CNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVE  442 (539)
Q Consensus       363 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~  442 (539)
                      .+..+.-+...|+...|.++-.++.    .|+...|..-+.+++..++|++-..+...      .-++..|...+.+|.+
T Consensus       180 l~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~~  249 (319)
T PF04840_consen  180 LNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACLK  249 (319)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHHH
Confidence            3444455556677666666655442    35666777777777777777666554321      1123556667777777


Q ss_pred             cCCHHHHHHHHHH
Q 009255          443 SGRLEEAQKFTSI  455 (539)
Q Consensus       443 ~g~~~~A~~~~~~  455 (539)
                      .|+..+|..++.+
T Consensus       250 ~~~~~eA~~yI~k  262 (319)
T PF04840_consen  250 YGNKKEASKYIPK  262 (319)
T ss_pred             CCCHHHHHHHHHh
Confidence            7777777776655

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

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.94  E-value=0.02  Score=48.31  Aligned_cols=98  Identities=20%  Similarity=0.187  Sum_probs=74.8

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC--CChhhHHHHHHHHHccCChHHHHHHHHHHHhCC-CCCC-HhhHHHHH
Q 009255          362 TCNILLSGLCREGILEKALKFFRSWILKGKA--VDSVTYNTLISSLCKERRLEDAFGLLSEMEEKK-LGPD-RYTYAAIH  437 (539)
Q Consensus       362 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~-~~~~~~l~  437 (539)
                      .|+.-+. +.+.|++..|...|...++..+.  -.+..+-.|+.++...|++++|...|..+.+.- -.|. +..+..|+
T Consensus       144 ~Y~~A~~-~~ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg  222 (262)
T COG1729         144 LYNAALD-LYKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLG  222 (262)
T ss_pred             HHHHHHH-HHHcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHH
Confidence            4555554 44667899999999998887432  123466778889999999999999999888752 1222 46778888


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcC
Q 009255          438 TALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       438 ~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      .+..+.|+.++|...|+++++..
T Consensus       223 ~~~~~l~~~d~A~atl~qv~k~Y  245 (262)
T COG1729         223 VSLGRLGNTDEACATLQQVIKRY  245 (262)
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHC
Confidence            88999999999999999999988

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.93  E-value=0.092  Score=44.97  Aligned_cols=50  Identities=12%  Similarity=0.084  Sum_probs=24.4

Q ss_pred             hcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHH
Q 009255          336 CSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSW  386 (539)
Q Consensus       336 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  386 (539)
                      ...|++..|...|+....... -+......++.+|...|+.+.|..++..+
T Consensus       145 ~~~e~~~~a~~~~~~al~~~~-~~~~~~~~la~~~l~~g~~e~A~~iL~~l  194 (304)
T COG3118         145 IEAEDFGEAAPLLKQALQAAP-ENSEAKLLLAECLLAAGDVEAAQAILAAL  194 (304)
T ss_pred             hhccchhhHHHHHHHHHHhCc-ccchHHHHHHHHHHHcCChHHHHHHHHhC
Confidence            444555555555555554421 13344444555555555555555555443

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=96.91  E-value=0.029  Score=49.01  Aligned_cols=169  Identities=13%  Similarity=0.081  Sum_probs=84.5

Q ss_pred             HHHHHHHHhcCCCHHHHHHHHHHHHhC-CCCC---CHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-----CCChhhH
Q 009255          328 FNTIIHGFCSEGQVEKALQFHNKMVEK-SFKP---DIVTCNILLSGLCREGILEKALKFFRSWILKGK-----AVDSVTY  398 (539)
Q Consensus       328 ~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-----~~~~~~~  398 (539)
                      |..+.+++.+..++.+++.+-..-... |..|   .......+..++...+.++++.+.|+.......     -....++
T Consensus        86 ~lnlar~~e~l~~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvc  165 (518)
T KOG1941|consen   86 YLNLARSNEKLCEFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVC  165 (518)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehh
Confidence            444444444444455554444433322 1111   112333455555556666777776666554311     1112356


Q ss_pred             HHHHHHHHccCChHHHHHHHHHHHhC--CCCC-C------HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccC
Q 009255          399 NTLISSLCKERRLEDAFGLLSEMEEK--KLGP-D------RYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQP  469 (539)
Q Consensus       399 ~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~-~------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  469 (539)
                      ..|...|....|+++|..+..++.+.  .+.. |      ..+...+.-++...|+.-+|.+..+++.+......     
T Consensus       166 v~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~G-----  240 (518)
T KOG1941|consen  166 VSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHG-----  240 (518)
T ss_pred             hhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhC-----
Confidence            66666777777777776666655432  1111 1      12233344556667777777766666554332100     


Q ss_pred             CCCCCCCCCCCChh-hHHHHHHHHhhcCCHHHHHHHHHHHH
Q 009255          470 NTSKTPEEIDPSSI-SYSEKINEHCSQGRYKDALQIFEETR  509 (539)
Q Consensus       470 ~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~  509 (539)
                              ..+... ....+++.|...|+.+.|..-|+.+.
T Consensus       241 --------dra~~arc~~~~aDIyR~~gd~e~af~rYe~Am  273 (518)
T KOG1941|consen  241 --------DRALQARCLLCFADIYRSRGDLERAFRRYEQAM  273 (518)
T ss_pred             --------ChHHHHHHHHHHHHHHHhcccHhHHHHHHHHHH
Confidence                    011111 44566777777777777777776654

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.89  E-value=0.48  Score=46.13  Aligned_cols=112  Identities=13%  Similarity=0.154  Sum_probs=77.8

Q ss_pred             HhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHH
Q 009255          290 TFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSG  369 (539)
Q Consensus       290 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  369 (539)
                      ..+.+--+.-+...|+..+|.++-.+.+    .|+...|..-+.+++..++|++-+++-+...      .+.-|..++.+
T Consensus       684 dlSl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekfAkskk------sPIGy~PFVe~  753 (829)
T KOG2280|consen  684 DLSLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKFAKSKK------SPIGYLPFVEA  753 (829)
T ss_pred             cCcHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHHHhccC------CCCCchhHHHH
Confidence            3445555666777788888877766543    4677788888888888888887555443332      23446667888


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHH
Q 009255          370 LCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSE  420 (539)
Q Consensus       370 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  420 (539)
                      |.+.|+.++|.+++-+....     +    ..+.+|.+.|++.+|.++--+
T Consensus       754 c~~~~n~~EA~KYiprv~~l-----~----ekv~ay~~~~~~~eAad~A~~  795 (829)
T KOG2280|consen  754 CLKQGNKDEAKKYIPRVGGL-----Q----EKVKAYLRVGDVKEAADLAAE  795 (829)
T ss_pred             HHhcccHHHHhhhhhccCCh-----H----HHHHHHHHhccHHHHHHHHHH
Confidence            88999999999988775332     1    566778888888888876544

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.87  E-value=0.12  Score=49.42  Aligned_cols=162  Identities=14%  Similarity=0.102  Sum_probs=102.8

Q ss_pred             HHHHHHHHhcCCCHHHHHHHHHHHHhCC-CCCCHH------hHHHHHHHHH----hcCCHHHHHHHHHHHHHcCCCCChh
Q 009255          328 FNTIIHGFCSEGQVEKALQFHNKMVEKS-FKPDIV------TCNILLSGLC----REGILEKALKFFRSWILKGKAVDSV  396 (539)
Q Consensus       328 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~------~~~~l~~~~~----~~g~~~~A~~~~~~~~~~~~~~~~~  396 (539)
                      +..++....-.||-+.+++.+....+.+ +. .+.      .|..++..+.    ...+.+.|.++++.+...  -|+..
T Consensus       191 ~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~-~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--yP~s~  267 (468)
T PF10300_consen  191 VLKLLSFVGFSGDRELGLRLLWEASKSENIR-SPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--YPNSA  267 (468)
T ss_pred             HHHHHhhcCcCCcHHHHHHHHHHHhccCCcc-hHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--CCCcH
Confidence            4445555555666666666666655432 11 111      1222222221    245678888888888876  45666


Q ss_pred             hHH-HHHHHHHccCChHHHHHHHHHHHhCC-C--CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCC
Q 009255          397 TYN-TLISSLCKERRLEDAFGLLSEMEEKK-L--GPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTS  472 (539)
Q Consensus       397 ~~~-~l~~~~~~~~~~~~A~~~~~~~~~~~-~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~  472 (539)
                      .|. .-.+.+...|+.++|++.|+++.... -  ......+..+++.+.-..+|++|.+.+..+.+..            
T Consensus       268 lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s------------  335 (468)
T PF10300_consen  268 LFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKES------------  335 (468)
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcc------------
Confidence            554 34566777889999999999766321 0  1123455667788888999999999999999876            


Q ss_pred             CCCCCCCCChhhHH-HHHHHHhhcCCH-------HHHHHHHHHHHH
Q 009255          473 KTPEEIDPSSISYS-EKINEHCSQGRY-------KDALQIFEETRQ  510 (539)
Q Consensus       473 ~~~~~~~~~~~~~~-~l~~~~~~~g~~-------~~A~~~~~~~~~  510 (539)
                            ..+...|. ..+.++...|+.       ++|.+++.++..
T Consensus       336 ------~WSka~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  336 ------KWSKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             ------ccHHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHHH
Confidence                  34444443 445556677888       888888888765

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.

>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=96.81  E-value=0.014  Score=45.83  Aligned_cols=71  Identities=20%  Similarity=0.280  Sum_probs=45.3

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHh-----CCCCCCHhhH
Q 009255          362 TCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEE-----KKLGPDRYTY  433 (539)
Q Consensus       362 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-----~~~~~~~~~~  433 (539)
                      +...++..+...|++++|..+.+.+.... +.+...|..++.+|...|+..+|++.|+++.+     .|+.|+..+-
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~  139 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETR  139 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHH
Confidence            44556666777788888888888877763 33666778888888888888888888777653     2777776543

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.77  E-value=0.66  Score=45.87  Aligned_cols=180  Identities=17%  Similarity=0.124  Sum_probs=111.9

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH--HHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHH
Q 009255           10 NVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNR--TTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLI   87 (539)
Q Consensus        10 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~   87 (539)
                      ......-+..+.+...++.|+.+...-.   .+++.  ..+...+.-+.+.|++++|...+-+.... .+|     ..++
T Consensus       334 ek~le~kL~iL~kK~ly~~Ai~LAk~~~---~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~-----s~Vi  404 (933)
T KOG2114|consen  334 EKDLETKLDILFKKNLYKVAINLAKSQH---LDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEP-----SEVI  404 (933)
T ss_pred             eccHHHHHHHHHHhhhHHHHHHHHHhcC---CCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CCh-----HHHH
Confidence            3455677888888999999988765432   22222  23344445556889999998877666542 122     2355


Q ss_pred             HHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCC-CCCHHHHHHHHHHHHhcCCH
Q 009255           88 NGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGI-KPNAVTHNIMIKWYCKEGKI  166 (539)
Q Consensus        88 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~  166 (539)
                      .-|....++..-..+++.+.+.|+. +...-..|+.+|.+.++.+.-.++.+... .|. .-|   ....+..+.+.+-.
T Consensus       405 ~kfLdaq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI~~~~-~g~~~fd---~e~al~Ilr~snyl  479 (933)
T KOG2114|consen  405 KKFLDAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFISKCD-KGEWFFD---VETALEILRKSNYL  479 (933)
T ss_pred             HHhcCHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHHhcCC-Ccceeee---HHHHHHHHHHhChH
Confidence            6666667777777888888888754 55556678889999998888777766654 221 112   23445666666667


Q ss_pred             hHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 009255          167 DKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVM  211 (539)
Q Consensus       167 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  211 (539)
                      ++|..+-.+...     +......+   +-..+++++|++++..+
T Consensus       480 ~~a~~LA~k~~~-----he~vl~il---le~~~ny~eAl~yi~sl  516 (933)
T KOG2114|consen  480 DEAELLATKFKK-----HEWVLDIL---LEDLHNYEEALRYISSL  516 (933)
T ss_pred             HHHHHHHHHhcc-----CHHHHHHH---HHHhcCHHHHHHHHhcC
Confidence            777665554432     22222222   33456777777777654

>PRK11906 transcriptional regulator; Provisional

Probab=96.75  E-value=0.12  Score=47.51  Aligned_cols=163  Identities=15%  Similarity=0.102  Sum_probs=111.0

Q ss_pred             hhH--HHHHHHHHc-----CCCHHHHHHHHHHHHH-CCCCCC-HHhHHHHHHHHhc---------CCCHHHHHHHHHHHH
Q 009255          291 FTY--NAMIWGLSQ-----SGKTEQAIDMLNELLQ-SGMIPD-ETTFNTIIHGFCS---------EGQVEKALQFHNKMV  352 (539)
Q Consensus       291 ~~~--~~l~~~~~~-----~~~~~~a~~~~~~~~~-~~~~~~-~~~~~~l~~~~~~---------~~~~~~a~~~~~~~~  352 (539)
                      ..|  ..++.+...     ....+.|..+|.+... +...|+ ...|..+..++..         ..+..+|.+.-++..
T Consensus       252 ~a~~~d~ylrg~~~~~~~t~~~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAv  331 (458)
T PRK11906        252 NHYLSDEMLAGKKELYDFTPESIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVS  331 (458)
T ss_pred             cchhhHHHHHHHHHhhccCHHHHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHH
Confidence            455  555554433     1245678889999882 223444 3445444443321         234566778888888


Q ss_pred             hCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCH--
Q 009255          353 EKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDR--  430 (539)
Q Consensus       353 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~--  430 (539)
                      +.+ +.|+.....+..+....++++.|...|++....++. ....|......+...|+.++|.+.+++..+.  .|..  
T Consensus       332 eld-~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~Pn-~A~~~~~~~~~~~~~G~~~~a~~~i~~alrL--sP~~~~  407 (458)
T PRK11906        332 DIT-TVDGKILAIMGLITGLSGQAKVSHILFEQAKIHSTD-IASLYYYRALVHFHNEKIEEARICIDKSLQL--EPRRRK  407 (458)
T ss_pred             hcC-CCCHHHHHHHHHHHHhhcchhhHHHHHHHHhhcCCc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc--CchhhH
Confidence            876 458888888888888889999999999999987432 5567778888888999999999999998854  5653  


Q ss_pred             -hhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 009255          431 -YTYAAIHTALVESGRLEEAQKFTSIMVE  458 (539)
Q Consensus       431 -~~~~~l~~~~~~~g~~~~A~~~~~~~~~  458 (539)
                       .+...++..|+. ...++|+++|-+-.+
T Consensus       408 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~~  435 (458)
T PRK11906        408 AVVIKECVDMYVP-NPLKNNIKLYYKETE  435 (458)
T ss_pred             HHHHHHHHHHHcC-CchhhhHHHHhhccc
Confidence             233334445654 457888888865443

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=96.71  E-value=0.28  Score=45.47  Aligned_cols=181  Identities=17%  Similarity=0.164  Sum_probs=98.6

Q ss_pred             ccCCHHHHHHHHHHHHHcCCCCCH-hhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHH
Q 009255          267 RDEKANRALKLWDEMKERQIMPST-FTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKAL  345 (539)
Q Consensus       267 ~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  345 (539)
                      +..+...-++.-++.++..  |+- ..|..|  +--......++.+++++..+.+-.    .+.       +....+..-
T Consensus       180 RERnp~aRIkaA~eALei~--pdCAdAYILL--AEEeA~Ti~Eae~l~rqAvkAgE~----~lg-------~s~~~~~~g  244 (539)
T PF04184_consen  180 RERNPQARIKAAKEALEIN--PDCADAYILL--AEEEASTIVEAEELLRQAVKAGEA----SLG-------KSQFLQHHG  244 (539)
T ss_pred             hcCCHHHHHHHHHHHHHhh--hhhhHHHhhc--ccccccCHHHHHHHHHHHHHHHHH----hhc-------hhhhhhccc
Confidence            3445555555555555542  221 222222  222345578888888887764311    111       000000111


Q ss_pred             HHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-CChhhHHHHHHHHHccCChHHHHHHHHHHHhC
Q 009255          346 QFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKA-VDSVTYNTLISSLCKERRLEDAFGLLSEMEEK  424 (539)
Q Consensus       346 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  424 (539)
                      ..++........+-..+-..+..++.+.|+.++|++.++++.+.... .+..+...|+.++...+.+.++..++.+-.+.
T Consensus       245 ~~~e~~~~Rdt~~~~y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi  324 (539)
T PF04184_consen  245 HFWEAWHRRDTNVLVYAKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDI  324 (539)
T ss_pred             chhhhhhccccchhhhhHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccc
Confidence            11222223223344555566788888899999999999999875332 23446778899999999999999999987543


Q ss_pred             CCCCCH-hhHHHHHHHHHhcCC---------------HHHHHHHHHHHHHcCCC
Q 009255          425 KLGPDR-YTYAAIHTALVESGR---------------LEEAQKFTSIMVETGKI  462 (539)
Q Consensus       425 ~~~~~~-~~~~~l~~~~~~~g~---------------~~~A~~~~~~~~~~~~~  462 (539)
                      ..+.+. .+|...+-.....++               -..|.+.+.++++.++.
T Consensus       325 ~lpkSAti~YTaALLkaRav~d~fs~e~a~rRGls~ae~~aveAi~RAvefNPH  378 (539)
T PF04184_consen  325 SLPKSATICYTAALLKARAVGDKFSPEAASRRGLSPAEMNAVEAIHRAVEFNPH  378 (539)
T ss_pred             cCCchHHHHHHHHHHHHHhhccccCchhhhhcCCChhHHHHHHHHHHHHHhCCC
Confidence            333332 233322211111222               12356778888887743

The molecular function of this protein is uncertain.

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.71  E-value=0.14  Score=40.84  Aligned_cols=94  Identities=12%  Similarity=0.102  Sum_probs=68.5

Q ss_pred             HHHHHHHccCChHHHHHHHHHHHhCCCCCCH--hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCC
Q 009255          400 TLISSLCKERRLEDAFGLLSEMEEKKLGPDR--YTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEE  477 (539)
Q Consensus       400 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~  477 (539)
                      .+...+...|++++|...++.........+.  .+-..|.+.....|.+++|...+......+                 
T Consensus        94 ~lAk~~ve~~~~d~A~aqL~~~l~~t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~~~-----------------  156 (207)
T COG2976          94 ELAKAEVEANNLDKAEAQLKQALAQTKDENLKALAALRLARVQLQQKKADAALKTLDTIKEES-----------------  156 (207)
T ss_pred             HHHHHHHhhccHHHHHHHHHHHHccchhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhcccccc-----------------
Confidence            3456778899999999999988743211111  122356778889999999999887665543                 


Q ss_pred             CCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcC
Q 009255          478 IDPSSISYSEKINEHCSQGRYKDALQIFEETRQKG  512 (539)
Q Consensus       478 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  512 (539)
                        -.......-++++...|+.++|+..|++.++.+
T Consensus       157 --w~~~~~elrGDill~kg~k~~Ar~ay~kAl~~~  189 (207)
T COG2976         157 --WAAIVAELRGDILLAKGDKQEARAAYEKALESD  189 (207)
T ss_pred             --HHHHHHHHhhhHHHHcCchHHHHHHHHHHHHcc
Confidence              233345567899999999999999999999864

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=96.69  E-value=0.31  Score=41.08  Aligned_cols=53  Identities=17%  Similarity=0.160  Sum_probs=24.5

Q ss_pred             hcCChHHHHHHHHHHHhCCC--CCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhC
Q 009255           22 KKGKLNEVRDLLSDMKKQGL--VPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQN   74 (539)
Q Consensus        22 ~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~   74 (539)
                      +.|++++|.+.|+.+..+.+  +-...+...++-++-+.++++.|+..+++..+.
T Consensus        46 ~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~l  100 (254)
T COG4105          46 QKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRL  100 (254)
T ss_pred             hcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHh
Confidence            45555555555555554421  112223333444444555555555555555444

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.68  E-value=0.35  Score=41.58  Aligned_cols=125  Identities=14%  Similarity=0.056  Sum_probs=76.1

Q ss_pred             HHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCH
Q 009255          297 IWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGIL  376 (539)
Q Consensus       297 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  376 (539)
                      .......|+..+|...|......... +......++.+|...|+.+.|..++..+-..--.........-+..+.+....
T Consensus       141 ~~~~~~~e~~~~a~~~~~~al~~~~~-~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~  219 (304)
T COG3118         141 AKELIEAEDFGEAAPLLKQALQAAPE-NSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAAT  219 (304)
T ss_pred             hhhhhhccchhhHHHHHHHHHHhCcc-cchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcC
Confidence            34556789999999999998876444 45566778889999999999999998875432111111212223334444443


Q ss_pred             HHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhC
Q 009255          377 EKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEK  424 (539)
Q Consensus       377 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  424 (539)
                      .+...+-.++...  +-|...-..+...+...|+.++|.+.+-.+...
T Consensus       220 ~~~~~l~~~~aad--Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~  265 (304)
T COG3118         220 PEIQDLQRRLAAD--PDDVEAALALADQLHLVGRNEAALEHLLALLRR  265 (304)
T ss_pred             CCHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            3333333333321  125555566666777777777777766666544

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.66  E-value=0.026  Score=51.58  Aligned_cols=66  Identities=14%  Similarity=0.042  Sum_probs=57.5

Q ss_pred             CCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCh----hhHHHHHHHHHccCChHHHHHHHHHHHhC
Q 009255          357 KPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDS----VTYNTLISSLCKERRLEDAFGLLSEMEEK  424 (539)
Q Consensus       357 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  424 (539)
                      +.+...+..+..+|.+.|++++|+..|++.++..  |+.    .+|..+..+|...|+.++|+..++++++.
T Consensus        72 P~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~--Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         72 VKTAEDAVNLGLSLFSKGRVKDALAQFETALELN--PNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            3467789999999999999999999999999874  443    35899999999999999999999999975

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.64  E-value=0.088  Score=45.69  Aligned_cols=165  Identities=16%  Similarity=0.138  Sum_probs=92.8

Q ss_pred             cCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhH----HHHHHHHHccCChH
Q 009255          337 SEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTY----NTLISSLCKERRLE  412 (539)
Q Consensus       337 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~----~~l~~~~~~~~~~~  412 (539)
                      ..|...+|-..++++++. .+.|...+.-.-.+|.-.|+.+.-...++++... ..++...|    ..+..++...|-++
T Consensus       115 ~~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~-wn~dlp~~sYv~GmyaFgL~E~g~y~  192 (491)
T KOG2610|consen  115 GRGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK-WNADLPCYSYVHGMYAFGLEECGIYD  192 (491)
T ss_pred             ccccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccc-cCCCCcHHHHHHHHHHhhHHHhccch
Confidence            445566666666666664 3445555665566666677766666666666654 22333322    23445556677777


Q ss_pred             HHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHH
Q 009255          413 DAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEH  492 (539)
Q Consensus       413 ~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  492 (539)
                      +|.+.-++..+.+ +.|......+..++.-.|++.++.++..+-...=..              +--.-...|-..+-.+
T Consensus       193 dAEk~A~ralqiN-~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~--------------s~mlasHNyWH~Al~~  257 (491)
T KOG2610|consen  193 DAEKQADRALQIN-RFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQ--------------SWMLASHNYWHTALFH  257 (491)
T ss_pred             hHHHHHHhhccCC-CcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhh--------------hhHHHhhhhHHHHHhh
Confidence            7777777776543 444555556666677777777777765543221100              0000111344455556


Q ss_pred             hhcCCHHHHHHHHHHHHHcCCCCCHH
Q 009255          493 CSQGRYKDALQIFEETRQKGIAINKS  518 (539)
Q Consensus       493 ~~~g~~~~A~~~~~~~~~~~~~p~~~  518 (539)
                      ...+.++.|+++|++-+-..+..++.
T Consensus       258 iE~aeye~aleIyD~ei~k~l~k~Da  283 (491)
T KOG2610|consen  258 IEGAEYEKALEIYDREIWKRLEKDDA  283 (491)
T ss_pred             hcccchhHHHHHHHHHHHHHhhccch
Confidence            66677888888877654333444443

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.63  E-value=0.23  Score=47.23  Aligned_cols=52  Identities=12%  Similarity=-0.038  Sum_probs=25.6

Q ss_pred             HhHHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHH
Q 009255          221 ITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEM  281 (539)
Q Consensus       221 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  281 (539)
                      .++..+...+.+...+..|.++|..+-..         ..++......++|.+|..+-+..
T Consensus       748 e~l~~~a~ylk~l~~~gLAaeIF~k~gD~---------ksiVqlHve~~~W~eAFalAe~h  799 (1081)
T KOG1538|consen  748 EPLLLCATYLKKLDSPGLAAEIFLKMGDL---------KSLVQLHVETQRWDEAFALAEKH  799 (1081)
T ss_pred             hHHHHHHHHHhhccccchHHHHHHHhccH---------HHHhhheeecccchHhHhhhhhC
Confidence            33444444444445555555555544322         23445555566666666555543

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.57  E-value=0.094  Score=50.08  Aligned_cols=167  Identities=20%  Similarity=0.148  Sum_probs=113.5

Q ss_pred             HHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChh------hHHHHHHHHHc----cCChHHH
Q 009255          345 LQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSV------TYNTLISSLCK----ERRLEDA  414 (539)
Q Consensus       345 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~------~~~~l~~~~~~----~~~~~~A  414 (539)
                      .-+|.-++.. +||.   +..++...+-.|+-+.+.+.+.+..+.+---.+.      .|...+..++.    ..+.+.|
T Consensus       177 ~G~f~L~lSl-LPp~---~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a  252 (468)
T PF10300_consen  177 FGLFNLVLSL-LPPK---VLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEA  252 (468)
T ss_pred             HHHHHHHHHh-CCHH---HHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHH
Confidence            3455555554 3333   4456666677889999999888876542111121      23333333332    4577889


Q ss_pred             HHHHHHHHhCCCCCCHhhHH-HHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCCh--hhHHHHHHH
Q 009255          415 FGLLSEMEEKKLGPDRYTYA-AIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSS--ISYSEKINE  491 (539)
Q Consensus       415 ~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~l~~~  491 (539)
                      .++++.+.+.  -|+...|. .-++.+...|+.++|++.++.+......                -|..  ..+.-++..
T Consensus       253 ~~lL~~~~~~--yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~----------------~~Ql~~l~~~El~w~  314 (468)
T PF10300_consen  253 EELLEEMLKR--YPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSE----------------WKQLHHLCYFELAWC  314 (468)
T ss_pred             HHHHHHHHHh--CCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhh----------------HHhHHHHHHHHHHHH
Confidence            9999999965  57765554 4567788899999999999987753321                1222  367788999


Q ss_pred             HhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCch
Q 009255          492 HCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGLIKRRKSI  534 (539)
Q Consensus       492 ~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~  534 (539)
                      +.-.++|++|...+.++.+.. +.....|.-+.++|+...++.
T Consensus       315 ~~~~~~w~~A~~~f~~L~~~s-~WSka~Y~Y~~a~c~~~l~~~  356 (468)
T PF10300_consen  315 HMFQHDWEEAAEYFLRLLKES-KWSKAFYAYLAAACLLMLGRE  356 (468)
T ss_pred             HHHHchHHHHHHHHHHHHhcc-ccHHHHHHHHHHHHHHhhccc
Confidence            999999999999999999853 556677777777777666655

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.

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=96.52  E-value=0.0078  Score=35.39  Aligned_cols=30  Identities=17%  Similarity=0.236  Sum_probs=27.3

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          431 YTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       431 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      .++..++.++...|++++|+++++++++..
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~~~   31 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRALALD   31 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            356788999999999999999999999997

>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=0.11  Score=38.93  Aligned_cols=98  Identities=16%  Similarity=0.140  Sum_probs=71.0

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHH
Q 009255          429 DRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEET  508 (539)
Q Consensus       429 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  508 (539)
                      |..++..++-++++.|+.+....+++..-..+.......  .......+..|+.....+++.+|+..|+...|+++.+..
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~WgI~~~~~~~~--~~~~~~spl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~f   78 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVWGIDVNGKKKE--GDYPPSSPLYPTSRLLIAIVHSFGYNGDIFSALKLVDFF   78 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhcCCCCCCcccc--CccCCCCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHH
Confidence            345667777788888888888777766654432211100  003445566788889999999999999999999999999


Q ss_pred             HH-cCCCCCHHHHHHHHHHHH
Q 009255          509 RQ-KGIAINKSTYMNLMNGLI  528 (539)
Q Consensus       509 ~~-~~~~p~~~~~~~~l~~~~  528 (539)
                      .+ -++.-+...|..++.-++
T Consensus        79 s~~Y~I~i~~~~W~~Ll~W~~   99 (126)
T PF12921_consen   79 SRKYPIPIPKEFWRRLLEWAY   99 (126)
T ss_pred             HHHcCCCCCHHHHHHHHHHHH
Confidence            86 556777889999988544

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=96.50  E-value=0.06  Score=40.81  Aligned_cols=80  Identities=16%  Similarity=0.180  Sum_probs=60.6

Q ss_pred             HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChh-hHHHHHHHHhhcCCHHHHHHHHHHH
Q 009255          430 RYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSI-SYSEKINEHCSQGRYKDALQIFEET  508 (539)
Q Consensus       430 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~  508 (539)
                      ...+..-+....+.|++++|++.|+.+....+.                +|-.. +...++.+|.+.|++++|+..+++.
T Consensus        10 ~~~ly~~a~~~l~~~~Y~~A~~~le~L~~ryP~----------------g~ya~qAqL~l~yayy~~~~y~~A~a~~~rF   73 (142)
T PF13512_consen   10 PQELYQEAQEALQKGNYEEAIKQLEALDTRYPF----------------GEYAEQAQLDLAYAYYKQGDYEEAIAAYDRF   73 (142)
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCC----------------CcccHHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            334445566777899999999999999998843                23222 7788999999999999999999999


Q ss_pred             HHcCCCCCH--HHHHHHHHHH
Q 009255          509 RQKGIAINK--STYMNLMNGL  527 (539)
Q Consensus       509 ~~~~~~p~~--~~~~~~l~~~  527 (539)
                      ++  +.|+.  ..+..++.++
T Consensus        74 ir--LhP~hp~vdYa~Y~~gL   92 (142)
T PF13512_consen   74 IR--LHPTHPNVDYAYYMRGL   92 (142)
T ss_pred             HH--hCCCCCCccHHHHHHHH
Confidence            98  45554  3555555544

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.39  E-value=0.44  Score=39.61  Aligned_cols=205  Identities=16%  Similarity=0.071  Sum_probs=104.8

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHc
Q 009255          223 LNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQ  302 (539)
Q Consensus       223 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  302 (539)
                      |.....+|...++++.|...+.+..+. ...+...|.       ..+.++.|.-+.+++...  .--...|+.-...|.+
T Consensus        34 yekAAvafRnAk~feKakdcLlkA~~~-yEnnrslfh-------AAKayEqaamLake~~kl--sEvvdl~eKAs~lY~E  103 (308)
T KOG1585|consen   34 YEKAAVAFRNAKKFEKAKDCLLKASKG-YENNRSLFH-------AAKAYEQAAMLAKELSKL--SEVVDLYEKASELYVE  103 (308)
T ss_pred             HHHHHHHHHhhccHHHHHHHHHHHHHH-HHhcccHHH-------HHHHHHHHHHHHHHHHHh--HHHHHHHHHHHHHHHH
Confidence            334444555666666666655554431 011111111       112233344444444332  0112334455566777


Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhC---C--CCCCHHhHHHHHHHHHhcCCHH
Q 009255          303 SGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEK---S--FKPDIVTCNILLSGLCREGILE  377 (539)
Q Consensus       303 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~--~~~~~~~~~~l~~~~~~~g~~~  377 (539)
                      .|.++.|-..+++.-+.                ....+++.|+++|++....   +  ..--...+....+.+.+...++
T Consensus       104 ~GspdtAAmaleKAak~----------------lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl~kf~  167 (308)
T KOG1585|consen  104 CGSPDTAAMALEKAAKA----------------LENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRLEKFT  167 (308)
T ss_pred             hCCcchHHHHHHHHHHH----------------hhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhhHHhh
Confidence            77777776666654331                1223444455555443321   0  0111223444555666777777


Q ss_pred             HHHHHHHHHHHc----CCCCCh-hhHHHHHHHHHccCChHHHHHHHHHHHhCC---CCCCHhhHHHHHHHHHhcCCHHHH
Q 009255          378 KALKFFRSWILK----GKAVDS-VTYNTLISSLCKERRLEDAFGLLSEMEEKK---LGPDRYTYAAIHTALVESGRLEEA  449 (539)
Q Consensus       378 ~A~~~~~~~~~~----~~~~~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~g~~~~A  449 (539)
                      +|-..+.+-...    ..-++. ..|...+-.+....++..|...++.-.+.+   -+.+..+...|+.+|- .|+.+++
T Consensus       168 Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ayd-~gD~E~~  246 (308)
T KOG1585|consen  168 EAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAYD-EGDIEEI  246 (308)
T ss_pred             HHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHhc-cCCHHHH
Confidence            776665443211    111122 235666667778889999999998855431   1234567777777664 6888888


Q ss_pred             HHHHH
Q 009255          450 QKFTS  454 (539)
Q Consensus       450 ~~~~~  454 (539)
                      .+++.
T Consensus       247 ~kvl~  251 (308)
T KOG1585|consen  247 KKVLS  251 (308)
T ss_pred             HHHHc
Confidence            77654

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=96.38  E-value=0.56  Score=40.39  Aligned_cols=200  Identities=19%  Similarity=0.184  Sum_probs=124.5

Q ss_pred             HhhHHHHHHHHHcCCCHHHHHHHHHHHHHC-CCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHH
Q 009255          290 TFTYNAMIWGLSQSGKTEQAIDMLNELLQS-GMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLS  368 (539)
Q Consensus       290 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  368 (539)
                      ...+......+...+....+...+...... ........+......+...+++..+...+.........+ .........
T Consensus        59 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~  137 (291)
T COG0457          59 AGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDP-DLAEALLAL  137 (291)
T ss_pred             hHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCc-chHHHHHHH
Confidence            345555666666677777777766666542 122344455555566666667777777777776643222 122222222


Q ss_pred             -HHHhcCCHHHHHHHHHHHHHcCC--CCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCC-CHhhHHHHHHHHHhcC
Q 009255          369 -GLCREGILEKALKFFRSWILKGK--AVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGP-DRYTYAAIHTALVESG  444 (539)
Q Consensus       369 -~~~~~g~~~~A~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g  444 (539)
                       ++...|+++.|...+.+......  ......+......+...++++.+...+.++.... .. ....+..+...+...+
T Consensus       138 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~  216 (291)
T COG0457         138 GALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKLN-PDDDAEALLNLGLLYLKLG  216 (291)
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhC-cccchHHHHHhhHHHHHcc
Confidence             56777888888888877754311  0122233334444566778888888888887542 22 3566677777777888


Q ss_pred             CHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCC-hhhHHHHHHHHhhcCCHHHHHHHHHHHHH
Q 009255          445 RLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPS-SISYSEKINEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       445 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  510 (539)
                      +++.|...+.......                   |+ ...+..+...+...|..+++...+.+..+
T Consensus       217 ~~~~a~~~~~~~~~~~-------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  264 (291)
T COG0457         217 KYEEALEYYEKALELD-------------------PDNAEALYNLALLLLELGRYEEALEALEKALE  264 (291)
T ss_pred             cHHHHHHHHHHHHhhC-------------------cccHHHHhhHHHHHHHcCCHHHHHHHHHHHHH
Confidence            8888888888888775                   44 33555566666666778888888888876

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=96.37  E-value=0.0035  Score=34.24  Aligned_cols=24  Identities=29%  Similarity=0.534  Sum_probs=20.8

Q ss_pred             CCh-hhHHHHHHHHhhcCCHHHHHH
Q 009255          480 PSS-ISYSEKINEHCSQGRYKDALQ  503 (539)
Q Consensus       480 ~~~-~~~~~l~~~~~~~g~~~~A~~  503 (539)
                      |+. .+|+.++.+|...|++++|++
T Consensus        10 P~n~~a~~nla~~~~~~g~~~~A~~   34 (34)
T PF13431_consen   10 PNNAEAYNNLANLYLNQGDYEEAIA   34 (34)
T ss_pred             CCCHHHHHHHHHHHHHCcCHHhhcC
Confidence            555 499999999999999999963

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=96.36  E-value=0.52  Score=39.77  Aligned_cols=59  Identities=19%  Similarity=0.182  Sum_probs=43.1

Q ss_pred             HHHHHHHccCChHHHHHHHHHHHhCCCCCC---HhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 009255          400 TLISSLCKERRLEDAFGLLSEMEEKKLGPD---RYTYAAIHTALVESGRLEEAQKFTSIMVET  459 (539)
Q Consensus       400 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  459 (539)
                      .+.+.|.+.|.+-.|..-+++|++. .+-+   ...+..+..+|...|-.++|.+.-.-+...
T Consensus       172 ~IaryY~kr~~~~AA~nR~~~v~e~-y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~N  233 (254)
T COG4105         172 AIARYYLKRGAYVAAINRFEEVLEN-YPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGAN  233 (254)
T ss_pred             HHHHHHHHhcChHHHHHHHHHHHhc-cccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHhc
Confidence            4567788889999999999999876 2222   345566778888999999988866555444

>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=96.34  E-value=0.089  Score=39.51  Aligned_cols=29  Identities=21%  Similarity=0.362  Sum_probs=21.2

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHH
Q 009255            9 DNVTYNTILDALFKKGKLNEVRDLLSDMK   37 (539)
Q Consensus         9 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   37 (539)
                      |..++.+++.++++.|+.+....+++..-
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~W   29 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVW   29 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhc
Confidence            45677778888888888887777776553

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=96.27  E-value=0.81  Score=41.08  Aligned_cols=104  Identities=14%  Similarity=0.137  Sum_probs=57.8

Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCC
Q 009255          260 TLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEG  339 (539)
Q Consensus       260 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  339 (539)
                      .-+.-+...|+...|.++-.+..    .|+...|-..+.+++..++|++-..+...      .-++.-|..++.+|...|
T Consensus       182 ~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~~~~  251 (319)
T PF04840_consen  182 DTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACLKYG  251 (319)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHHHCC
Confidence            33444455566655555544432    24666666666777777776665554321      113345666666666667


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHH
Q 009255          340 QVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFF  383 (539)
Q Consensus       340 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  383 (539)
                      +..+|..+..++     + +    ..-+..|.++|++.+|.+.-
T Consensus       252 ~~~eA~~yI~k~-----~-~----~~rv~~y~~~~~~~~A~~~A  285 (319)
T PF04840_consen  252 NKKEASKYIPKI-----P-D----EERVEMYLKCGDYKEAAQEA  285 (319)
T ss_pred             CHHHHHHHHHhC-----C-h----HHHHHHHHHCCCHHHHHHHH
Confidence            666666665551     1 1    33455566666666666543

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

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=96.18  E-value=0.005  Score=34.28  Aligned_cols=27  Identities=19%  Similarity=0.285  Sum_probs=23.6

Q ss_pred             hHHHHHHHHhhcCCHHHHHHHHHHHHH
Q 009255          484 SYSEKINEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       484 ~~~~l~~~~~~~g~~~~A~~~~~~~~~  510 (539)
                      +|..|+.+|.+.|++++|+++|++++.
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            478999999999999999999999664

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=96.17  E-value=0.012  Score=32.20  Aligned_cols=32  Identities=19%  Similarity=0.343  Sum_probs=27.9

Q ss_pred             hhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCC
Q 009255          483 ISYSEKINEHCSQGRYKDALQIFEETRQKGIAIN  516 (539)
Q Consensus       483 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~  516 (539)
                      .+|..++.+|...|++++|+..|+++++  +.|+
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~--~~p~   33 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALE--LDPD   33 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHH--HSTT
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHH--HCcC
Confidence            3789999999999999999999999998  5676

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 ....

>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=96.16  E-value=0.15  Score=47.90  Aligned_cols=155  Identities=18%  Similarity=0.229  Sum_probs=77.5

Q ss_pred             HHhcCChHHHHHHHH--HHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChH
Q 009255           20 LFKKGKLNEVRDLLS--DMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLE   97 (539)
Q Consensus        20 ~~~~~~~~~a~~~~~--~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~   97 (539)
                      ..-+++++++.++.+  ++... +|  ..-.+.++..+.+.|-.+.|+++-..-.            .-.....+.|+++
T Consensus       271 av~~~d~~~v~~~i~~~~ll~~-i~--~~~~~~i~~fL~~~G~~e~AL~~~~D~~------------~rFeLAl~lg~L~  335 (443)
T PF04053_consen  271 AVLRGDFEEVLRMIAASNLLPN-IP--KDQGQSIARFLEKKGYPELALQFVTDPD------------HRFELALQLGNLD  335 (443)
T ss_dssp             HHHTT-HHH-----HHHHTGGG-----HHHHHHHHHHHHHTT-HHHHHHHSS-HH------------HHHHHHHHCT-HH
T ss_pred             HHHcCChhhhhhhhhhhhhccc-CC--hhHHHHHHHHHHHCCCHHHHHhhcCChH------------HHhHHHHhcCCHH
Confidence            344666666655554  12211 12  3345566666666676666666533211            1233444566666


Q ss_pred             HHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHHHH
Q 009255           98 EAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNME  177 (539)
Q Consensus        98 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  177 (539)
                      .|.++.++.      .+...|..|.......|+++-|.+.|.+...         +..|+-.|...|+.+...++.+...
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            666543332      3555677777777777777777776666432         4455556666666666666665555


Q ss_pred             HcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHH
Q 009255          178 ENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDV  210 (539)
Q Consensus       178 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  210 (539)
                      ..|      -++....++.-.|+.++..+++.+
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            443      134444445555666666665544

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.

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=96.14  E-value=2  Score=44.51  Aligned_cols=245  Identities=20%  Similarity=0.203  Sum_probs=116.0

Q ss_pred             HHHHHHHHHHHcCCCCChhhHHHHHHHHHhcC--CHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHH
Q 009255          168 KACKIVRNMEENGFSPDCVTYNTLIDANCKAG--NMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNS  245 (539)
Q Consensus       168 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  245 (539)
                      ...+.++...... .|+ .-...++.+|++.+  .++.++....+......   .......+..++-.-   .+..+|+.
T Consensus       775 ~vc~~vr~~l~~~-~~~-~~~~~ilTs~vk~~~~~ie~aL~kI~~l~~~~~---~~~ad~al~hll~Lv---dvn~lfn~  846 (1265)
T KOG1920|consen  775 SVCDAVRNALERR-APD-KFNLFILTSYVKSNPPEIEEALQKIKELQLAQV---AVSADEALKHLLFLV---DVNELFNS  846 (1265)
T ss_pred             HHHHHHHHHHhhc-Ccc-hhhHHHHHHHHhcCcHHHHHHHHHHHHHHhccc---chhHHHHHHHHHhhc---cHHHHHHh
Confidence            3334444433332 445 34456777888877  66777777666654211   111112222211111   11222222


Q ss_pred             HhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCH
Q 009255          246 ASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDE  325 (539)
Q Consensus       246 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  325 (539)
                      +...     -..--+++-+-..+.++.+-+-+++++...  .++..-|  .|+.|  .++++.|+.-+..+-       .
T Consensus       847 ALgt-----YDl~Lal~VAq~SqkDPkEyLP~L~el~~m--~~~~rkF--~ID~~--L~ry~~AL~hLs~~~-------~  908 (1265)
T KOG1920|consen  847 ALGT-----YDLDLALLVAQKSQKDPKEYLPFLNELKKM--ETLLRKF--KIDDY--LKRYEDALSHLSECG-------E  908 (1265)
T ss_pred             hhcc-----cchHHHHHHHHHhccChHHHHHHHHHHhhc--hhhhhhe--eHHHH--HHHHHHHHHHHHHcC-------c
Confidence            2211     000112333344455566655555555532  1111111  12222  245555555444332       1


Q ss_pred             HhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhH----HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHH
Q 009255          326 TTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTC----NILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTL  401 (539)
Q Consensus       326 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~----~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l  401 (539)
                      ..|.-.+..-.+.|.+..|..++        .|+.+.+    ...+.-+...+.+++|.-+|+..-+         ....
T Consensus       909 ~~~~e~~n~I~kh~Ly~~aL~ly--------~~~~e~~k~i~~~ya~hL~~~~~~~~Aal~Ye~~Gk---------lekA  971 (1265)
T KOG1920|consen  909 TYFPECKNYIKKHGLYDEALALY--------KPDSEKQKVIYEAYADHLREELMSDEAALMYERCGK---------LEKA  971 (1265)
T ss_pred             cccHHHHHHHHhcccchhhhhee--------ccCHHHHHHHHHHHHHHHHHhccccHHHHHHHHhcc---------HHHH
Confidence            12333344445566666665544        3344433    3334444455667777766655422         2334


Q ss_pred             HHHHHccCChHHHHHHHHHHHhCCCCCCHhh--HHHHHHHHHhcCCHHHHHHHHHHHHH
Q 009255          402 ISSLCKERRLEDAFGLLSEMEEKKLGPDRYT--YAAIHTALVESGRLEEAQKFTSIMVE  458 (539)
Q Consensus       402 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~g~~~~A~~~~~~~~~  458 (539)
                      +.+|...|+|.+|+.+..++..   ..+...  -..+..-+..++++-+|-++......
T Consensus       972 l~a~~~~~dWr~~l~~a~ql~~---~~de~~~~a~~L~s~L~e~~kh~eAa~il~e~~s 1027 (1265)
T KOG1920|consen  972 LKAYKECGDWREALSLAAQLSE---GKDELVILAEELVSRLVEQRKHYEAAKILLEYLS 1027 (1265)
T ss_pred             HHHHHHhccHHHHHHHHHhhcC---CHHHHHHHHHHHHHHHHHcccchhHHHHHHHHhc
Confidence            5667777888888877776641   122211  14566667777777777777766654

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=96.14  E-value=0.17  Score=40.53  Aligned_cols=96  Identities=18%  Similarity=0.182  Sum_probs=58.0

Q ss_pred             HHccCChHHHHHHHHHHHhCCCCCCH-----hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCC
Q 009255          405 LCKERRLEDAFGLLSEMEEKKLGPDR-----YTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEID  479 (539)
Q Consensus       405 ~~~~~~~~~A~~~~~~~~~~~~~~~~-----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  479 (539)
                      +...|++++|..-|..++..- ++..     ..|..-+.++.+.+.++.|+.-..++++.+                   
T Consensus       105 ~F~ngdyeeA~skY~~Ale~c-p~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~-------------------  164 (271)
T KOG4234|consen  105 LFKNGDYEEANSKYQEALESC-PSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELN-------------------  164 (271)
T ss_pred             hhhcccHHHHHHHHHHHHHhC-ccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcC-------------------
Confidence            456677777777777766542 2221     223334455666777777777777777766                   


Q ss_pred             CChh-hHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHH
Q 009255          480 PSSI-SYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMN  522 (539)
Q Consensus       480 ~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~  522 (539)
                      |+.. +.-..+.+|-+..++++|++-|+++++  ..|.....+.
T Consensus       165 pty~kAl~RRAeayek~ek~eealeDyKki~E--~dPs~~ear~  206 (271)
T KOG4234|consen  165 PTYEKALERRAEAYEKMEKYEEALEDYKKILE--SDPSRREARE  206 (271)
T ss_pred             chhHHHHHHHHHHHHhhhhHHHHHHHHHHHHH--hCcchHHHHH
Confidence            5444 555556667777777777777777776  3455544433

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=96.09  E-value=0.31  Score=45.16  Aligned_cols=59  Identities=15%  Similarity=0.127  Sum_probs=35.2

Q ss_pred             HHHHHHHHccCChHHHHHHHHHHHhCCCC-CCHhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 009255          399 NTLISSLCKERRLEDAFGLLSEMEEKKLG-PDRYTYAAIHTALVESGRLEEAQKFTSIMV  457 (539)
Q Consensus       399 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  457 (539)
                      ..+..++.+.|+.++|++.++++.+.... .+..+...|+.++...+.+.++..++.+.-
T Consensus       263 rRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYd  322 (539)
T PF04184_consen  263 RRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYD  322 (539)
T ss_pred             HHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhc
Confidence            34555556667777777777776643211 123345566667777777777777666653

The molecular function of this protein is uncertain.

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.00  E-value=1.7  Score=42.53  Aligned_cols=344  Identities=12%  Similarity=0.119  Sum_probs=176.2

Q ss_pred             CCCCCChhhHHH-----HHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCH--hHHHHHH-HHHHHcC
Q 009255          109 LKLLPDVVTYNT-----LINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKI--DKACKIV-RNMEENG  180 (539)
Q Consensus       109 ~~~~~~~~~~~~-----l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~--~~a~~~~-~~~~~~~  180 (539)
                      .|++.+..-|..     ++.-+...+.+..|+++-.-+...-.. ....|.....-+.+..+.  +.+.+.+ +++... 
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            456666555543     566677788888888887776433222 145566666666665322  2222222 232221 


Q ss_pred             CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCC----CCHHhHHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHh
Q 009255          181 FSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLK----MNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEV  256 (539)
Q Consensus       181 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  256 (539)
                      . ....+|....+.....|+++-|..+++.=...+..    .+..-+...+.-+...|+.+-...++-.+...-   +..
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-TPGISYAAIARRAYQEGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHLKNKL---NRS  579 (829)
T ss_pred             C-CCceeHHHHHHHHHhcCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHHHHHH---HHH
Confidence            1 33446777777777889988888877642211100    011112222333334444444444333333220   000


Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHH-HH-CCCCCCHHhHHHHHHH
Q 009255          257 SYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNEL-LQ-SGMIPDETTFNTIIHG  334 (539)
Q Consensus       257 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~-~~~~~~~~~~~~l~~~  334 (539)
                            ..+....+...|..+|.+..++.   +..+   +-..|....+...+-.+.-+- .. ..+.+...........
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 ------SLFMTLRNQPLALSLYRQFMRHQ---DRAT---LYDFYNQDDNHQALASFHLQASYAAETIEGRIPALKTAANA  647 (829)
T ss_pred             ------HHHHHHHhchhhhHHHHHHHHhh---chhh---hhhhhhcccchhhhhhhhhhhhhhhhhhcccchhHHHHHHH
Confidence                  01111223445555665544421   1111   112222222222222111111 00 0011222233344445


Q ss_pred             HhcCCCHHHHH----------HHHHHHHh-CCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHH
Q 009255          335 FCSEGQVEKAL----------QFHNKMVE-KSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLIS  403 (539)
Q Consensus       335 ~~~~~~~~~a~----------~~~~~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~  403 (539)
                      +.+.....-..          .+.+.+.. .+..-..-+.+.-+.-+..-|+..+|.++-.++.    -||...|-.=+.
T Consensus       648 ~a~sk~~s~e~ka~ed~~kLl~lQ~~Le~q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~  723 (829)
T KOG2280|consen  648 FAKSKEKSFEAKALEDQMKLLKLQRTLEDQFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLT  723 (829)
T ss_pred             HhhhhhhhhHHHHHHHHHHHHHHHHHHHHHhccccccCcHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHH
Confidence            55444322111          11122211 1222233344555566677899999988877654    468888888888


Q ss_pred             HHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChh
Q 009255          404 SLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSI  483 (539)
Q Consensus       404 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  483 (539)
                      ++...++|++-.++-+...      ++..|.-...+|.+.|+.++|.+++-+.-                          
T Consensus       724 aLa~~~kweeLekfAkskk------sPIGy~PFVe~c~~~~n~~EA~KYiprv~--------------------------  771 (829)
T KOG2280|consen  724 ALADIKKWEELEKFAKSKK------SPIGYLPFVEACLKQGNKDEAKKYIPRVG--------------------------  771 (829)
T ss_pred             HHHhhhhHHHHHHHHhccC------CCCCchhHHHHHHhcccHHHHhhhhhccC--------------------------
Confidence            9999999987776655432      24567778899999999999999875432                          


Q ss_pred             hHHHHHHHHhhcCCHHHHHHHHH
Q 009255          484 SYSEKINEHCSQGRYKDALQIFE  506 (539)
Q Consensus       484 ~~~~l~~~~~~~g~~~~A~~~~~  506 (539)
                      -+.-...+|.+.|++.+|.+..-
T Consensus       772 ~l~ekv~ay~~~~~~~eAad~A~  794 (829)
T KOG2280|consen  772 GLQEKVKAYLRVGDVKEAADLAA  794 (829)
T ss_pred             ChHHHHHHHHHhccHHHHHHHHH
Confidence            11256778888888888877643

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=95.91  E-value=1.4  Score=40.52  Aligned_cols=417  Identities=14%  Similarity=0.132  Sum_probs=199.2

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHH--HHccCCHhHHHHHHHHHHhC--CCCC---------
Q 009255           12 TYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSG--YCKLGWLKEAMRVVDLMTQN--KSLP---------   78 (539)
Q Consensus        12 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~g~~~~a~~~~~~~~~~--~~~~---------   78 (539)
                      ..+.++++|.. ++.+.....+..+.+.. +  ...|..+..+  +-+.+.++.|.+.+......  +..+         
T Consensus        48 l~grilnAffl-~nld~Me~~l~~l~~~~-~--~s~~l~LF~~L~~Y~~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~  123 (549)
T PF07079_consen   48 LGGRILNAFFL-NNLDLMEKQLMELRQQF-G--KSAYLPLFKALVAYKQKEYRKALQALSVWKEQIKGTESPWLDTNIQQ  123 (549)
T ss_pred             HhhHHHHHHHH-hhHHHHHHHHHHHHHhc-C--CchHHHHHHHHHHHHhhhHHHHHHHHHHHHhhhcccccchhhhhHHH
Confidence            45677888864 46777777777776652 2  2234444433  34889999999888766554  2221         


Q ss_pred             ---ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCC----CChhhHHHHHHHHhccCCHhHHHHHHHHHHhCC-CCCCH
Q 009255           79 ---DVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLL----PDVVTYNTLINRFFESGRSMEAFKLIDELDEHG-IKPNA  150 (539)
Q Consensus        79 ---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~  150 (539)
                         +...=+..+..+...|++.++..+++++...=++    .+..+|+.++-.+.+        .+|-++.+.. ...-+
T Consensus       124 l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~~vlmlsr--------SYfLEl~e~~s~dl~p  195 (549)
T PF07079_consen  124 LFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDRAVLMLSR--------SYFLELKESMSSDLYP  195 (549)
T ss_pred             HhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHHHHHHHhH--------HHHHHHHHhcccccCh
Confidence               1112234567788999999999999888764333    677888876655433        2333442221 11111


Q ss_pred             HHHHHHHHHHHhc-CCHhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhc--CCHHHHHHHHHHHhhCCCCCCHHhH-HHH
Q 009255          151 VTHNIMIKWYCKE-GKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKA--GNMEEAFRMMDVMGRKGLKMNTITL-NTI  226 (539)
Q Consensus       151 ~~~~~l~~~~~~~-g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~a~~~~~~~~~~~~~~~~~~~-~~l  226 (539)
                      . |.-++..|.+. ...+.       ..-..+.|.......++....-.  ....--.++++.....-+.|+.... ..+
T Consensus       196 d-yYemilfY~kki~~~d~-------~~Y~k~~peeeL~s~imqhlfi~p~e~l~~~mq~l~~We~~yv~p~~~LVi~~L  267 (549)
T PF07079_consen  196 D-YYEMILFYLKKIHAFDQ-------RPYEKFIPEEELFSTIMQHLFIVPKERLPPLMQILENWENFYVHPNYDLVIEPL  267 (549)
T ss_pred             H-HHHHHHHHHHHHHHHhh-------chHHhhCcHHHHHHHHHHHHHhCCHhhccHHHHHHHHHHhhccCCchhHHHHHH
Confidence            2 22233333221 11111       00000112222222222211110  0111112222222222233332221 122


Q ss_pred             HHHHhccCCHHHHHHHHHHHhhcCCcc----CHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHH-------H
Q 009255          227 LHTLCCEKKLDEAYMLLNSASKRGYYL----DEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYN-------A  295 (539)
Q Consensus       227 ~~~~~~~~~~~~a~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-------~  295 (539)
                      ...+.+  +.+++..+.+.+......+    -...+..++....+.++...|...+.-+...++.  ...-.       .
T Consensus       268 ~~~f~~--~~e~~~~~ce~ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~ldp~--~svs~Kllls~~~  343 (549)
T PF07079_consen  268 KQQFMS--DPEQVGHFCEAIASSKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYLALLKILDPR--ISVSEKLLLSPKV  343 (549)
T ss_pred             HHHHhc--ChHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcCCc--chhhhhhhcCHHH
Confidence            222222  3333333333332221000    1224555555666666666666666555443222  11111       1


Q ss_pred             HHHHHHc----CCCHHHHHHHHHHHHHCCCCCCHHhHH---HHHHHHhcCCC-HHHHHHHHHHHHhCCCCCCHHhHHHHH
Q 009255          296 MIWGLSQ----SGKTEQAIDMLNELLQSGMIPDETTFN---TIIHGFCSEGQ-VEKALQFHNKMVEKSFKPDIVTCNILL  367 (539)
Q Consensus       296 l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~---~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~  367 (539)
                      +.+..+.    .-+...=+.+|+......+. ......   ....-+.+.|. -++|..+++.+++-. +-|...-+.+.
T Consensus       344 lq~Iv~~DD~~~Tklr~yL~lwe~~qs~DiD-rqQLvh~L~~~Ak~lW~~g~~dekalnLLk~il~ft-~yD~ec~n~v~  421 (549)
T PF07079_consen  344 LQDIVCEDDESYTKLRDYLNLWEEIQSYDID-RQQLVHYLVFGAKHLWEIGQCDEKALNLLKLILQFT-NYDIECENIVF  421 (549)
T ss_pred             HHHHHhcchHHHHHHHHHHHHHHHHHhhccc-HHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHhc-cccHHHHHHHH
Confidence            1111110    11223334445554443322 111112   22233455555 788888888887752 22444333322


Q ss_pred             H----HHHh---cCCHHHHHHHHHHHHHcCCCCChh----hHHHHHHH--HHccCChHHHHHHHHHHHhCCCCCCHhhHH
Q 009255          368 S----GLCR---EGILEKALKFFRSWILKGKAVDSV----TYNTLISS--LCKERRLEDAFGLLSEMEEKKLGPDRYTYA  434 (539)
Q Consensus       368 ~----~~~~---~g~~~~A~~~~~~~~~~~~~~~~~----~~~~l~~~--~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~  434 (539)
                      .    +|..   ...+..-.++-+-+.+.|.+|-..    .-|.|..+  +..+|++.++.-.-.-..  .+.|+..++.
T Consensus       422 ~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~~i~i~e~eian~LaDAEyLysqgey~kc~~ys~WL~--~iaPS~~~~R  499 (549)
T PF07079_consen  422 LFVKQAYKQALSMHAIPRLLKLEDFITEVGLTPITISEEEIANFLADAEYLYSQGEYHKCYLYSSWLT--KIAPSPQAYR  499 (549)
T ss_pred             HHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCcccccHHHHHHHHHHHHHHHhcccHHHHHHHHHHHH--HhCCcHHHHH
Confidence            2    2222   123344444444445556665433    33444433  346789888876544444  4789999999


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHH
Q 009255          435 AIHTALVESGRLEEAQKFTSIM  456 (539)
Q Consensus       435 ~l~~~~~~~g~~~~A~~~~~~~  456 (539)
                      .++-++....++++|..++..+
T Consensus       500 LlGl~l~e~k~Y~eA~~~l~~L  521 (549)
T PF07079_consen  500 LLGLCLMENKRYQEAWEYLQKL  521 (549)
T ss_pred             HHHHHHHHHhhHHHHHHHHHhC
Confidence            9999999999999999888654

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=95.81  E-value=0.19  Score=44.23  Aligned_cols=169  Identities=11%  Similarity=0.053  Sum_probs=106.8

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHHc-CCCC---ChhhHHHHHHHHHccCChHHHHHHHHHHHhCCC---CC--CHh
Q 009255          361 VTCNILLSGLCREGILEKALKFFRSWILK-GKAV---DSVTYNTLISSLCKERRLEDAFGLLSEMEEKKL---GP--DRY  431 (539)
Q Consensus       361 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~---~~--~~~  431 (539)
                      ..|..+.+.+.+..++.+++.+-+.-... |..|   .......+..++.-.+.++++++.|+.+.....   .|  ...
T Consensus        84 ea~lnlar~~e~l~~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElq  163 (518)
T KOG1941|consen   84 EAYLNLARSNEKLCEFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQ  163 (518)
T ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeee
Confidence            34555666666666677777666554433 2222   112344567777778899999999998875411   11  235


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHH-
Q 009255          432 TYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQ-  510 (539)
Q Consensus       432 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-  510 (539)
                      ++..+...+.+..|+++|.-+..++.+......        ...+...-...+...++-++...|+.-.|.+.-++..+ 
T Consensus       164 vcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~--------l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~kl  235 (518)
T KOG1941|consen  164 VCVSLGSLFAQLKDYEKALFFPCKAAELVNSYG--------LKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKL  235 (518)
T ss_pred             hhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcC--------cCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHH
Confidence            778899999999999999998888776542100        00000001112456777888899999999999888765 


Q ss_pred             ---cCCCCCHHHHHHHHHHHHhcCCchhhc
Q 009255          511 ---KGIAINKSTYMNLMNGLIKRRKSISKA  537 (539)
Q Consensus       511 ---~~~~p~~~~~~~~l~~~~~~~~~~~~A  537 (539)
                         .|-+|-..-....++-.+++.++.+.|
T Consensus       236 al~~Gdra~~arc~~~~aDIyR~~gd~e~a  265 (518)
T KOG1941|consen  236 ALQHGDRALQARCLLCFADIYRSRGDLERA  265 (518)
T ss_pred             HHHhCChHHHHHHHHHHHHHHHhcccHhHH
Confidence               343343343444556678888877765

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=95.79  E-value=0.02  Score=31.23  Aligned_cols=32  Identities=19%  Similarity=0.296  Sum_probs=27.3

Q ss_pred             hhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCC
Q 009255          483 ISYSEKINEHCSQGRYKDALQIFEETRQKGIAIN  516 (539)
Q Consensus       483 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~  516 (539)
                      ..|..++.++...|++++|++.|+++++  +.|+
T Consensus         2 ~~~~~lg~~~~~~~~~~~A~~~~~~al~--l~p~   33 (34)
T PF07719_consen    2 EAWYYLGQAYYQLGNYEEAIEYFEKALE--LDPN   33 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHH--HSTT
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHH--HCcC
Confidence            3688899999999999999999999997  5665

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 ....

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=95.78  E-value=0.054  Score=47.05  Aligned_cols=95  Identities=14%  Similarity=0.105  Sum_probs=50.6

Q ss_pred             HHHccCChHHHHHHHHHHHhCCCCC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCCh
Q 009255          404 SLCKERRLEDAFGLLSEMEEKKLGP-DRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSS  482 (539)
Q Consensus       404 ~~~~~~~~~~A~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  482 (539)
                      -|.++|.+++|+..|...+..  .| |..++..-+.+|.+..++..|..-...++..+                  ..-.
T Consensus       106 ~yFKQgKy~EAIDCYs~~ia~--~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd------------------~~Y~  165 (536)
T KOG4648|consen  106 TYFKQGKYEEAIDCYSTAIAV--YPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALD------------------KLYV  165 (536)
T ss_pred             hhhhccchhHHHHHhhhhhcc--CCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhh------------------HHHH
Confidence            355566666666666655532  33 44445555555666666666655555555543                  1112


Q ss_pred             hhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHH
Q 009255          483 ISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTY  520 (539)
Q Consensus       483 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~  520 (539)
                      -+|..-+.+-...|+..+|.+-++.+++  +.|+.-.+
T Consensus       166 KAYSRR~~AR~~Lg~~~EAKkD~E~vL~--LEP~~~EL  201 (536)
T KOG4648|consen  166 KAYSRRMQARESLGNNMEAKKDCETVLA--LEPKNIEL  201 (536)
T ss_pred             HHHHHHHHHHHHHhhHHHHHHhHHHHHh--hCcccHHH
Confidence            2555555555555666666666666664  45554433

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.76  E-value=0.37  Score=42.07  Aligned_cols=157  Identities=12%  Similarity=0.023  Sum_probs=107.7

Q ss_pred             HHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhH----HHHHHHHhcc
Q 009255           53 SGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTY----NTLINRFFES  128 (539)
Q Consensus        53 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~----~~l~~~~~~~  128 (539)
                      ....-+|+..+|-..++++.+.-| .|...+...=.++...|+.......++++.-. ..++...|    ..+.-++...
T Consensus       111 ai~~~~g~~h~a~~~wdklL~d~P-tDlla~kfsh~a~fy~G~~~~~k~ai~kIip~-wn~dlp~~sYv~GmyaFgL~E~  188 (491)
T KOG2610|consen  111 AILWGRGKHHEAAIEWDKLLDDYP-TDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK-WNADLPCYSYVHGMYAFGLEEC  188 (491)
T ss_pred             HHhhccccccHHHHHHHHHHHhCc-hhhhhhhhhhhHHHhccchhhhhhHHHHhccc-cCCCCcHHHHHHHHHHhhHHHh
Confidence            344577888888888988887643 36667776677888899988888888888654 12343332    3334455678


Q ss_pred             CCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHHHHHc---CCCCChhhHHHHHHHHHhcCCHHHHH
Q 009255          129 GRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEEN---GFSPDCVTYNTLIDANCKAGNMEEAF  205 (539)
Q Consensus       129 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~~a~  205 (539)
                      |-+++|.+.-++..+.+. .|..........+-..|++.++.+.+.+-...   +--.-..-|-...-.+...+.++.|+
T Consensus       189 g~y~dAEk~A~ralqiN~-~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~al  267 (491)
T KOG2610|consen  189 GIYDDAEKQADRALQINR-FDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKAL  267 (491)
T ss_pred             ccchhHHHHHHhhccCCC-cchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHH
Confidence            999999999988877643 36667777788888889999888877654321   10011223444455566778999999


Q ss_pred             HHHHHHh
Q 009255          206 RMMDVMG  212 (539)
Q Consensus       206 ~~~~~~~  212 (539)
                      ++|+.-.
T Consensus       268 eIyD~ei  274 (491)
T KOG2610|consen  268 EIYDREI  274 (491)
T ss_pred             HHHHHHH
Confidence            9997543

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.74  E-value=0.69  Score=35.85  Aligned_cols=86  Identities=19%  Similarity=0.183  Sum_probs=48.2

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHh
Q 009255           13 YNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCN   92 (539)
Q Consensus        13 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   92 (539)
                      ...++..+.+.+.+.....+++.+...+ +.++..++.++..|++.+. ....+.++.  .    .+......++..|.+
T Consensus        10 ~~~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~~-~~ll~~l~~--~----~~~yd~~~~~~~c~~   81 (140)
T smart00299       10 VSEVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYDP-QKEIERLDN--K----SNHYDIEKVGKLCEK   81 (140)
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHCH-HHHHHHHHh--c----cccCCHHHHHHHHHH
Confidence            3456666666667777777777776665 3566667777777765432 233333331  1    122333445566666


Q ss_pred             cCChHHHHHHHHHH
Q 009255           93 AGMLEEAFRLRKEM  106 (539)
Q Consensus        93 ~g~~~~a~~~~~~~  106 (539)
                      .+.++++.-++.++
T Consensus        82 ~~l~~~~~~l~~k~   95 (140)
T smart00299       82 AKLYEEAVELYKKD   95 (140)
T ss_pred             cCcHHHHHHHHHhh
Confidence            66666666665554

>KOG2396 consensus HAT (Half-A-TPR) repeat-containing protein [General function prediction only]

Probab=95.72  E-value=1.8  Score=40.38  Aligned_cols=105  Identities=14%  Similarity=0.107  Sum_probs=77.3

Q ss_pred             CCChhhH-HHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHH--HhcCCHHHHHHHHHHHHHcCCCCccccc
Q 009255          392 AVDSVTY-NTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTAL--VESGRLEEAQKFTSIMVETGKINHQVVQ  468 (539)
Q Consensus       392 ~~~~~~~-~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~--~~~g~~~~A~~~~~~~~~~~~~~~~~~~  468 (539)
                      .|+..++ +.++..+.+.|-+.+|...+..+... .+|+...+..++..-  ...-+...++++|+.++...        
T Consensus       456 ~~~~~tl~s~~l~~~~e~~~~~~ark~y~~l~~l-pp~sl~l~r~miq~e~~~~sc~l~~~r~~yd~a~~~f--------  526 (568)
T KOG2396|consen  456 GADSVTLKSKYLDWAYESGGYKKARKVYKSLQEL-PPFSLDLFRKMIQFEKEQESCNLANIREYYDRALREF--------  526 (568)
T ss_pred             CCceeehhHHHHHHHHHhcchHHHHHHHHHHHhC-CCccHHHHHHHHHHHhhHhhcCchHHHHHHHHHHHHh--------
Confidence            4455554 56777888889999999999998865 356666666655432  22233888999999999877        


Q ss_pred             CCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCC
Q 009255          469 PNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAIN  516 (539)
Q Consensus       469 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~  516 (539)
                                ..++..|......-...|+.+.+-.++.++.+. +.|.
T Consensus       527 ----------g~d~~lw~~y~~~e~~~g~~en~~~~~~ra~kt-l~~~  563 (568)
T KOG2396|consen  527 ----------GADSDLWMDYMKEELPLGRPENCGQIYWRAMKT-LQGE  563 (568)
T ss_pred             ----------CCChHHHHHHHHhhccCCCcccccHHHHHHHHh-hChh
Confidence                      467778888888888899999999998888762 4443

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.70  E-value=0.72  Score=35.74  Aligned_cols=85  Identities=12%  Similarity=0.016  Sum_probs=46.3

Q ss_pred             HHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhcc
Q 009255           49 NILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFES  128 (539)
Q Consensus        49 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  128 (539)
                      ..++..+...+........++.+...+. .+...++.++..|++.+ ..+....++.      ..+......++..|.+.
T Consensus        11 ~~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~~-~~~ll~~l~~------~~~~yd~~~~~~~c~~~   82 (140)
T smart00299       11 SEVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKYD-PQKEIERLDN------KSNHYDIEKVGKLCEKA   82 (140)
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHHC-HHHHHHHHHh------ccccCCHHHHHHHHHHc
Confidence            3455556666667777777777766653 45566677777776543 2333333332      12233344455555555


Q ss_pred             CCHhHHHHHHHHH
Q 009255          129 GRSMEAFKLIDEL  141 (539)
Q Consensus       129 ~~~~~a~~~~~~~  141 (539)
                      +.++++.-++.++
T Consensus        83 ~l~~~~~~l~~k~   95 (140)
T smart00299       83 KLYEEAVELYKKD   95 (140)
T ss_pred             CcHHHHHHHHHhh
Confidence            5555555555443

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.67  E-value=1.1  Score=37.49  Aligned_cols=22  Identities=14%  Similarity=-0.118  Sum_probs=11.3

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHH
Q 009255          189 NTLIDANCKAGNMEEAFRMMDV  210 (539)
Q Consensus       189 ~~l~~~~~~~~~~~~a~~~~~~  210 (539)
                      ...|-.+.-..++..|...++.
T Consensus       194 va~ilv~L~~~Dyv~aekc~r~  215 (308)
T KOG1585|consen  194 VAAILVYLYAHDYVQAEKCYRD  215 (308)
T ss_pred             HHHHHHHhhHHHHHHHHHHhcc
Confidence            3334444445555566655555

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=95.63  E-value=1.3  Score=38.09  Aligned_cols=202  Identities=21%  Similarity=0.134  Sum_probs=127.1

Q ss_pred             hhHHHHHHHHHccCCHHHHHHHHHHHHHc-CCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHH-
Q 009255          256 VSYGTLITGYFRDEKANRALKLWDEMKER-QIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIH-  333 (539)
Q Consensus       256 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~-  333 (539)
                      .........+...+....+...+...... ........+......+...++...+...+.........+. ........ 
T Consensus        60 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~  138 (291)
T COG0457          60 GLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDPD-LAEALLALG  138 (291)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCcc-hHHHHHHHH
Confidence            44455555666666666666666665541 1222445555556666666677777777777665433321 11222222 


Q ss_pred             HHhcCCCHHHHHHHHHHHHhCCC--CCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCCh
Q 009255          334 GFCSEGQVEKALQFHNKMVEKSF--KPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRL  411 (539)
Q Consensus       334 ~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  411 (539)
                      .+...|+++.+...+........  ......+......+...++.+.+...+..............+..+...+...+++
T Consensus       139 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  218 (291)
T COG0457         139 ALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLGLLYLKLGKY  218 (291)
T ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhCcccchHHHHHhhHHHHHcccH
Confidence            56777888888888887755321  1233334444444667788888888888887762211356677778888888888


Q ss_pred             HHHHHHHHHHHhCCCCCC-HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          412 EDAFGLLSEMEEKKLGPD-RYTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       412 ~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      +.|...+......  .|+ ...+......+...+..+++...+.+.....
T Consensus       219 ~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  266 (291)
T COG0457         219 EEALEYYEKALEL--DPDNAEALYNLALLLLELGRYEEALEALEKALELD  266 (291)
T ss_pred             HHHHHHHHHHHhh--CcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            9999988888854  343 4445555555556777899999998888876

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.60  E-value=0.83  Score=35.81  Aligned_cols=121  Identities=10%  Similarity=-0.005  Sum_probs=57.8

Q ss_pred             HccCCHhHHHHHHHHHHhCCCCCChh-hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHH-----HHHHHhccC
Q 009255           56 CKLGWLKEAMRVVDLMTQNKSLPDVW-TYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNT-----LINRFFESG  129 (539)
Q Consensus        56 ~~~g~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~-----l~~~~~~~~  129 (539)
                      .+.+..++|+.-|..+.+.|...-+. ............|+-..|...|+++-.....|  ....-     -...+...|
T Consensus        69 A~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P--~~~rd~ARlraa~lLvD~g  146 (221)
T COG4649          69 AQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIP--QIGRDLARLRAAYLLVDNG  146 (221)
T ss_pred             HHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCc--chhhHHHHHHHHHHHhccc
Confidence            34455556666666665554331111 11122233445566666666666655432122  11111     112234556


Q ss_pred             CHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHHHHH
Q 009255          130 RSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEE  178 (539)
Q Consensus       130 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  178 (539)
                      .++....-.+-+-..+-+.-...-..|.-+-.+.|++.+|.+.|..+..
T Consensus       147 sy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~  195 (221)
T COG4649         147 SYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAN  195 (221)
T ss_pred             cHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHc
Confidence            6666555555554443333344444555555566666666666666554

>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=95.47  E-value=0.16  Score=40.12  Aligned_cols=93  Identities=16%  Similarity=0.053  Sum_probs=55.8

Q ss_pred             HHHHHHHHHHhCCCCCCHhhHHHHHHHHHhc----------CCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCCh
Q 009255          413 DAFGLLSEMEEKKLGPDRYTYAAIHTALVES----------GRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSS  482 (539)
Q Consensus       413 ~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----------g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  482 (539)
                      .|.+.++.....+ +.|...+..++.++...          .-+++|+.-++.++..+                   |+.
T Consensus         9 ~ark~aea~y~~n-P~DadnL~~WG~ALLELAqfk~g~es~~miedAisK~eeAL~I~-------------------P~~   68 (186)
T PF06552_consen    9 HARKKAEAAYAKN-PLDADNLTNWGGALLELAQFKQGPESKKMIEDAISKFEEALKIN-------------------PNK   68 (186)
T ss_dssp             HHHHHHHHHHHH--TT-HHHHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHHHHHHHH--------------------TT-
T ss_pred             HHHHHHHHHHHhC-cHhHHHHHHHHHHHHHHHhccCcchHHHHHHHHHHHHHHHHhcC-------------------Cch
Confidence            3444444433322 34455555555444322          22456677777778876                   776


Q ss_pred             h-hHHHHHHHHhhcCC-----------HHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 009255          483 I-SYSEKINEHCSQGR-----------YKDALQIFEETRQKGIAINKSTYMNLMNGL  527 (539)
Q Consensus       483 ~-~~~~l~~~~~~~g~-----------~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~  527 (539)
                      . ++..++.+|...+.           +++|...|+++.+  ..|++..|+.-|...
T Consensus        69 hdAlw~lGnA~ts~A~l~~d~~~A~~~F~kA~~~FqkAv~--~~P~ne~Y~ksLe~~  123 (186)
T PF06552_consen   69 HDALWCLGNAYTSLAFLTPDTAEAEEYFEKATEYFQKAVD--EDPNNELYRKSLEMA  123 (186)
T ss_dssp             HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHH--H-TT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHh--cCCCcHHHHHHHHHH
Confidence            5 88899999886643           6777777888776  589999998877654

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.

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=95.33  E-value=0.27  Score=42.47  Aligned_cols=79  Identities=15%  Similarity=0.204  Sum_probs=66.7

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHH
Q 009255          431 YTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       431 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  510 (539)
                      .++..++.++...|+++.+...++.++...                  |-+...|..++.+|.+.|+...|+..|+++.+
T Consensus       154 ~~l~~lae~~~~~~~~~~~~~~l~~Li~~d------------------p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~  215 (280)
T COG3629         154 KALTKLAEALIACGRADAVIEHLERLIELD------------------PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKK  215 (280)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhcC------------------ccchHHHHHHHHHHHHcCCchHHHHHHHHHHH
Confidence            356678888999999999999999999998                  45566999999999999999999999998754


Q ss_pred             -----cCCCCCHHHHHHHHHHH
Q 009255          511 -----KGIAINKSTYMNLMNGL  527 (539)
Q Consensus       511 -----~~~~p~~~~~~~~l~~~  527 (539)
                           .|+.|...+...+...+
T Consensus       216 ~~~edlgi~P~~~~~~~y~~~~  237 (280)
T COG3629         216 TLAEELGIDPAPELRALYEEIL  237 (280)
T ss_pred             HhhhhcCCCccHHHHHHHHHHh
Confidence                 67888888777666553

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=95.32  E-value=1.9  Score=38.16  Aligned_cols=102  Identities=12%  Similarity=0.072  Sum_probs=50.0

Q ss_pred             hHHHHHHHHhccCCHh---HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHHHHHcCCCCChhhHHHHHH
Q 009255          117 TYNTLINRFFESGRSM---EAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLID  193 (539)
Q Consensus       117 ~~~~l~~~~~~~~~~~---~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  193 (539)
                      ++..++.+|...+..+   +|..+++.+... .+-.+..+..-++.+.+.++.+.+.+++.+|...- .-....+...+.
T Consensus        86 iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e-~~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~-~~~e~~~~~~l~  163 (278)
T PF08631_consen   86 ILRLLANAYLEWDTYESVEKALNALRLLESE-YGNKPEVFLLKLEILLKSFDEEEYEEILMRMIRSV-DHSESNFDSILH  163 (278)
T ss_pred             HHHHHHHHHHcCCChHHHHHHHHHHHHHHHh-CCCCcHHHHHHHHHHhccCChhHHHHHHHHHHHhc-ccccchHHHHHH
Confidence            3455666666655543   344455555333 22234445455666666777777777777777642 112233333333


Q ss_pred             HHH--hcCCHHHHHHHHHHHhhCCCCCCH
Q 009255          194 ANC--KAGNMEEAFRMMDVMGRKGLKMNT  220 (539)
Q Consensus       194 ~~~--~~~~~~~a~~~~~~~~~~~~~~~~  220 (539)
                      .+-  .......+...+..+....+.|..
T Consensus       164 ~i~~l~~~~~~~a~~~ld~~l~~r~~~~~  192 (278)
T PF08631_consen  164 HIKQLAEKSPELAAFCLDYLLLNRFKSSE  192 (278)
T ss_pred             HHHHHHhhCcHHHHHHHHHHHHHHhCCCh
Confidence            331  112234455555555444333333

It is also involved in sporulation [].

>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=95.31  E-value=0.62  Score=43.98  Aligned_cols=27  Identities=19%  Similarity=0.228  Sum_probs=12.4

Q ss_pred             CHHhHHHHHHHHhcCCCHHHHHHHHHH
Q 009255          324 DETTFNTIIHGFCSEGQVEKALQFHNK  350 (539)
Q Consensus       324 ~~~~~~~l~~~~~~~~~~~~a~~~~~~  350 (539)
                      +...|..|.......|+++-|.+.|.+
T Consensus       346 ~~~~W~~Lg~~AL~~g~~~lAe~c~~k  372 (443)
T PF04053_consen  346 DPEKWKQLGDEALRQGNIELAEECYQK  372 (443)
T ss_dssp             THHHHHHHHHHHHHTTBHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHh
Confidence            333444444444444444444444444

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.

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=95.28  E-value=3.7  Score=41.25  Aligned_cols=182  Identities=13%  Similarity=0.110  Sum_probs=89.8

Q ss_pred             HHHHHHHHHh-CCCCC--ChhhHHHHHHHHH-hcCChHHHHHHHHHHHhCCCCCChh-----hHHHHHHHHhccCCHhHH
Q 009255           64 AMRVVDLMTQ-NKSLP--DVWTYNMLINGWC-NAGMLEEAFRLRKEMESLKLLPDVV-----TYNTLINRFFESGRSMEA  134 (539)
Q Consensus        64 a~~~~~~~~~-~~~~~--~~~~~~~l~~~~~-~~g~~~~a~~~~~~~~~~~~~~~~~-----~~~~l~~~~~~~~~~~~a  134 (539)
                      |++.++.+.+ ..+.|  ...++..+...+. ...+++.|...+++.....-.++..     ....++..+.+.+... |
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            5566666663 22222  2334455555555 5677888888877764432222211     1223455555555544 7


Q ss_pred             HHHHHHHHhCC----CCCCHHHHHHH-HHHHHhcCCHhHHHHHHHHHHHcC---CCCChhhHHHHHHHH--HhcCCHHHH
Q 009255          135 FKLIDELDEHG----IKPNAVTHNIM-IKWYCKEGKIDKACKIVRNMEENG---FSPDCVTYNTLIDAN--CKAGNMEEA  204 (539)
Q Consensus       135 ~~~~~~~~~~~----~~~~~~~~~~l-~~~~~~~g~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~--~~~~~~~~a  204 (539)
                      ...+++..+.-    ..+-...|..+ +..+...++...|.+.++.+...-   ..|...++..++.+.  ...+..+.+
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            77777654431    11222233333 222333367777887777765431   123333444444433  244555666


Q ss_pred             HHHHHHHhhCC---------CCCCHHhHHHHHHHHh--ccCCHHHHHHHHHHH
Q 009255          205 FRMMDVMGRKG---------LKMNTITLNTILHTLC--CEKKLDEAYMLLNSA  246 (539)
Q Consensus       205 ~~~~~~~~~~~---------~~~~~~~~~~l~~~~~--~~~~~~~a~~~~~~~  246 (539)
                      .+.++.+....         ..|-..++..++..++  ..|+.+.+...++.+
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         1233445555555444  556655665555444

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 [].

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=95.18  E-value=4.8  Score=42.01  Aligned_cols=143  Identities=17%  Similarity=0.215  Sum_probs=82.2

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHh
Q 009255          257 SYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFC  336 (539)
Q Consensus       257 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  336 (539)
                      .|...++.-.+.+.+.+|+.++..-.+.    -...|.+....+.+...+++|.-.|+..-+         ....+.+|.
T Consensus       910 ~~~e~~n~I~kh~Ly~~aL~ly~~~~e~----~k~i~~~ya~hL~~~~~~~~Aal~Ye~~Gk---------lekAl~a~~  976 (1265)
T KOG1920|consen  910 YFPECKNYIKKHGLYDEALALYKPDSEK----QKVIYEAYADHLREELMSDEAALMYERCGK---------LEKALKAYK  976 (1265)
T ss_pred             ccHHHHHHHHhcccchhhhheeccCHHH----HHHHHHHHHHHHHHhccccHHHHHHHHhcc---------HHHHHHHHH
Confidence            3444555555666677776666421111    123344445555666777777776654321         223456777


Q ss_pred             cCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHH
Q 009255          337 SEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFG  416 (539)
Q Consensus       337 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  416 (539)
                      .+|+|.+|..+..++.... .--..+-..|+.-+...+++-+|-++..+....        ....+..+++...|++|+.
T Consensus       977 ~~~dWr~~l~~a~ql~~~~-de~~~~a~~L~s~L~e~~kh~eAa~il~e~~sd--------~~~av~ll~ka~~~~eAlr 1047 (1265)
T KOG1920|consen  977 ECGDWREALSLAAQLSEGK-DELVILAEELVSRLVEQRKHYEAAKILLEYLSD--------PEEAVALLCKAKEWEEALR 1047 (1265)
T ss_pred             HhccHHHHHHHHHhhcCCH-HHHHHHHHHHHHHHHHcccchhHHHHHHHHhcC--------HHHHHHHHhhHhHHHHHHH
Confidence            8888888888877764321 001112255666777788888888887776543        1233445566667777776


Q ss_pred             HHHHH
Q 009255          417 LLSEM  421 (539)
Q Consensus       417 ~~~~~  421 (539)
                      +....
T Consensus      1048 va~~~ 1052 (1265)
T KOG1920|consen 1048 VASKA 1052 (1265)
T ss_pred             HHHhc
Confidence            65544

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.08  E-value=1.3  Score=34.84  Aligned_cols=134  Identities=11%  Similarity=0.086  Sum_probs=82.3

Q ss_pred             HhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHH-hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChh---hHHHH
Q 009255          326 TTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIV-TCNILLSGLCREGILEKALKFFRSWILKGKAVDSV---TYNTL  401 (539)
Q Consensus       326 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~---~~~~l  401 (539)
                      ..|...++ ..+.+..++|+.-|..+.+.|...-+. ............|+-..|...|+++-.....|-..   .-..-
T Consensus        60 d~flaAL~-lA~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlra  138 (221)
T COG4649          60 DAFLAALK-LAQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRA  138 (221)
T ss_pred             HHHHHHHH-HHHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHH
Confidence            34444443 345566778888888887765432111 12223344566788888888888877653333222   11122


Q ss_pred             HHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          402 ISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       402 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      ...+...|.|+......+.+...+-+-....-..|+-+-.+.|++..|.++|..+....
T Consensus       139 a~lLvD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~Da  197 (221)
T COG4649         139 AYLLVDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIANDA  197 (221)
T ss_pred             HHHHhccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHccc
Confidence            34456788888888877776644322233445567777888899999999998888754

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=95.01  E-value=1.9  Score=38.26  Aligned_cols=24  Identities=21%  Similarity=0.452  Sum_probs=12.2

Q ss_pred             HHHHHHHHHHHcCCCCChhhHHHH
Q 009255          168 KACKIVRNMEENGFSPDCVTYNTL  191 (539)
Q Consensus       168 ~a~~~~~~~~~~~~~~~~~~~~~l  191 (539)
                      .+.++++.+.+.|+++....|..+
T Consensus       200 r~~~l~~~l~~~~~kik~~~yp~l  223 (297)
T PF13170_consen  200 RVIELYNALKKNGVKIKYMHYPTL  223 (297)
T ss_pred             HHHHHHHHHHHcCCccccccccHH
Confidence            445555555555555554444433

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.00  E-value=4.4  Score=40.54  Aligned_cols=178  Identities=16%  Similarity=0.195  Sum_probs=111.6

Q ss_pred             HHHHHHHHHccCCHhHHHHHHHHHHhCCCCCC--hhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHH
Q 009255           48 YNILVSGYCKLGWLKEAMRVVDLMTQNKSLPD--VWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRF  125 (539)
Q Consensus        48 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  125 (539)
                      ...-+..+.+..-++-|..+.+.-.   ..++  ..........+.+.|++++|...|-+.... +.|.     .++.-|
T Consensus       337 le~kL~iL~kK~ly~~Ai~LAk~~~---~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~s-----~Vi~kf  407 (933)
T KOG2114|consen  337 LETKLDILFKKNLYKVAINLAKSQH---LDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEPS-----EVIKKF  407 (933)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHhcC---CCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CChH-----HHHHHh
Confidence            3445566667777777777655432   2222  123344445566789999998887776543 1222     345666


Q ss_pred             hccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCHHHHH
Q 009255          126 FESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAF  205 (539)
Q Consensus       126 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  205 (539)
                      ....+..+-..+++.+.+.|.. +...-..|+.+|.+.++.++-.+..+... .|..  ..-....+..+.+.+-.++|.
T Consensus       408 Ldaq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI~~~~-~g~~--~fd~e~al~Ilr~snyl~~a~  483 (933)
T KOG2114|consen  408 LDAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFISKCD-KGEW--FFDVETALEILRKSNYLDEAE  483 (933)
T ss_pred             cCHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHHhcCC-Ccce--eeeHHHHHHHHHHhChHHHHH
Confidence            7777777888888888888876 55556778899999999888777766644 3211  112445667777777777777


Q ss_pred             HHHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHH
Q 009255          206 RMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSA  246 (539)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  246 (539)
                      .+-.+...     +...+..++   -..+++++|.+.+..+
T Consensus       484 ~LA~k~~~-----he~vl~ill---e~~~ny~eAl~yi~sl  516 (933)
T KOG2114|consen  484 LLATKFKK-----HEWVLDILL---EDLHNYEEALRYISSL  516 (933)
T ss_pred             HHHHHhcc-----CHHHHHHHH---HHhcCHHHHHHHHhcC
Confidence            66555432     333333333   3457777777776654

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=94.97  E-value=0.29  Score=41.57  Aligned_cols=116  Identities=20%  Similarity=0.201  Sum_probs=66.7

Q ss_pred             CChhhHHHHHHHHHhc-----CChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHH
Q 009255           78 PDVWTYNMLINGWCNA-----GMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVT  152 (539)
Q Consensus        78 ~~~~~~~~l~~~~~~~-----g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  152 (539)
                      .+-..|...+..+...     +.++=....++.|.+.|+..|..+|+.|++.+=+..                +.|. ..
T Consensus        65 RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgk----------------fiP~-nv  127 (406)
T KOG3941|consen   65 RDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGK----------------FIPQ-NV  127 (406)
T ss_pred             ccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccc----------------cccH-HH
Confidence            3555666666555432     445555566777777777778888877776653322                1111 11


Q ss_pred             HHHHHHHHHhcCCHhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCH-HHHHHHHHHHh
Q 009255          153 HNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNM-EEAFRMMDVMG  212 (539)
Q Consensus       153 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~  212 (539)
                      +....-.|-  .+-+-+++++++|...|+.||..+-..|+.++.+.+.. .+..+++-.|.
T Consensus       128 fQ~~F~HYP--~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p~~K~~Rm~yWmP  186 (406)
T KOG3941|consen  128 FQKVFLHYP--QQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNFPTKKVKRMLYWMP  186 (406)
T ss_pred             HHHHHhhCc--hhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhccccccHHHHHHHHHhhh
Confidence            221111121  12234677788888888888888877888887777653 33444444443

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.92  E-value=1.4  Score=35.41  Aligned_cols=93  Identities=15%  Similarity=0.153  Sum_probs=65.1

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCCC--hhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhc
Q 009255          366 LLSGLCREGILEKALKFFRSWILKGKAVD--SVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVES  443 (539)
Q Consensus       366 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  443 (539)
                      +...+..++++++|+.-++........-+  ...-..|.+.....|.+|+|+..+......+.  .......-+.++...
T Consensus        95 lAk~~ve~~~~d~A~aqL~~~l~~t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~~~w--~~~~~elrGDill~k  172 (207)
T COG2976          95 LAKAEVEANNLDKAEAQLKQALAQTKDENLKALAALRLARVQLQQKKADAALKTLDTIKEESW--AAIVAELRGDILLAK  172 (207)
T ss_pred             HHHHHHhhccHHHHHHHHHHHHccchhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccccccH--HHHHHHHhhhHHHHc
Confidence            45567788999999988887765411111  12234566777888999999998887653321  223344567888899


Q ss_pred             CCHHHHHHHHHHHHHcC
Q 009255          444 GRLEEAQKFTSIMVETG  460 (539)
Q Consensus       444 g~~~~A~~~~~~~~~~~  460 (539)
                      |+.++|+.-|+++++..
T Consensus       173 g~k~~Ar~ay~kAl~~~  189 (207)
T COG2976         173 GDKQEARAAYEKALESD  189 (207)
T ss_pred             CchHHHHHHHHHHHHcc
Confidence            99999999999999876

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=94.72  E-value=0.4  Score=41.47  Aligned_cols=79  Identities=15%  Similarity=0.149  Sum_probs=58.6

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHh-----CCCCCCHhhHH
Q 009255          360 IVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEE-----KKLGPDRYTYA  434 (539)
Q Consensus       360 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-----~~~~~~~~~~~  434 (539)
                      ..++..++..+...|+.+.+...++++....+ -+...|..++.+|.+.|+...|+..|+++.+     .|+.|...+..
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            34566777788888888888888888887743 3777888888888888888888888888765     36677665554


Q ss_pred             HHHHH
Q 009255          435 AIHTA  439 (539)
Q Consensus       435 ~l~~~  439 (539)
                      ....+
T Consensus       232 ~y~~~  236 (280)
T COG3629         232 LYEEI  236 (280)
T ss_pred             HHHHH
Confidence            44443

>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=94.71  E-value=0.048  Score=29.69  Aligned_cols=31  Identities=23%  Similarity=0.348  Sum_probs=27.4

Q ss_pred             hHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCC
Q 009255          484 SYSEKINEHCSQGRYKDALQIFEETRQKGIAIN  516 (539)
Q Consensus       484 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~  516 (539)
                      +|..++..|...|++++|...|+++++  +.||
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~--~~~~   33 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKALE--LNPD   33 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHHH--HHTT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHh--hCCC
Confidence            688899999999999999999999987  4454

...

>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=94.61  E-value=0.56  Score=37.17  Aligned_cols=110  Identities=19%  Similarity=0.276  Sum_probs=58.9

Q ss_pred             HHHHHHHHHHHHcCCCCChhhHHHHHHHHHcc---CC-------hHHHHHHHHHHHhCCCCCCH-hhHHHHHHHHHhcC-
Q 009255          377 EKALKFFRSWILKGKAVDSVTYNTLISSLCKE---RR-------LEDAFGLLSEMEEKKLGPDR-YTYAAIHTALVESG-  444 (539)
Q Consensus       377 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~-------~~~A~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g-  444 (539)
                      +.|.+..+.....+ +.|...++....++...   ..       +++|+.-|++++  .+.|+. .++..++.++...+ 
T Consensus         8 E~ark~aea~y~~n-P~DadnL~~WG~ALLELAqfk~g~es~~miedAisK~eeAL--~I~P~~hdAlw~lGnA~ts~A~   84 (186)
T PF06552_consen    8 EHARKKAEAAYAKN-PLDADNLTNWGGALLELAQFKQGPESKKMIEDAISKFEEAL--KINPNKHDALWCLGNAYTSLAF   84 (186)
T ss_dssp             HHHHHHHHHHHHH--TT-HHHHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHHHHHH--HH-TT-HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-cHhHHHHHHHHHHHHHHHhccCcchHHHHHHHHHHHHHHHH--hcCCchHHHHHHHHHHHHHHHh
Confidence            44455554433332 23555544444444332   22       334444555555  356764 67777777775433 


Q ss_pred             ----------CHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCC
Q 009255          445 ----------RLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIA  514 (539)
Q Consensus       445 ----------~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  514 (539)
                                .+++|.++|+++....                   |+...|..-.....      +|-++..++.+.+..
T Consensus        85 l~~d~~~A~~~F~kA~~~FqkAv~~~-------------------P~ne~Y~ksLe~~~------kap~lh~e~~~~~~~  139 (186)
T PF06552_consen   85 LTPDTAEAEEYFEKATEYFQKAVDED-------------------PNNELYRKSLEMAA------KAPELHMEIHKQGLG  139 (186)
T ss_dssp             H---HHHHHHHHHHHHHHHHHHHHH--------------------TT-HHHHHHHHHHH------THHHHHHHHHHSSS-
T ss_pred             hcCChHHHHHHHHHHHHHHHHHHhcC-------------------CCcHHHHHHHHHHH------hhHHHHHHHHHHHhh
Confidence                      3667777888888876                   99998876655543      466666666665433

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.

>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=94.59  E-value=1.8  Score=34.27  Aligned_cols=33  Identities=18%  Similarity=0.407  Sum_probs=19.7

Q ss_pred             HHHHHHHHcCCCCChhhHHHHHHHHHhcCCHHH
Q 009255          171 KIVRNMEENGFSPDCVTYNTLIDANCKAGNMEE  203 (539)
Q Consensus       171 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  203 (539)
                      +.++.+.+.+++|+...+..++..+.+.|++..
T Consensus        15 EYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~   47 (167)
T PF07035_consen   15 EYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQ   47 (167)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHH
Confidence            344445555666666666666666666666544

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=94.57  E-value=0.096  Score=29.02  Aligned_cols=27  Identities=11%  Similarity=0.196  Sum_probs=20.4

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 009255          432 TYAAIHTALVESGRLEEAQKFTSIMVE  458 (539)
Q Consensus       432 ~~~~l~~~~~~~g~~~~A~~~~~~~~~  458 (539)
                      ++..++.+|.+.|++++|++++++++.
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            356788888888888888888888554

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=94.45  E-value=2.3  Score=34.87  Aligned_cols=29  Identities=24%  Similarity=0.062  Sum_probs=18.2

Q ss_pred             HhHHHHHHHHhccCCHHHHHHHHHHHhhc
Q 009255          221 ITLNTILHTLCCEKKLDEAYMLLNSASKR  249 (539)
Q Consensus       221 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  249 (539)
                      .||.-+.+.+...|+.++|..+|+-....
T Consensus       238 EtyFYL~K~~l~~G~~~~A~~LfKLaian  266 (297)
T COG4785         238 ETYFYLGKYYLSLGDLDEATALFKLAVAN  266 (297)
T ss_pred             HHHHHHHHHHhccccHHHHHHHHHHHHHH
Confidence            45566666666666666666666666554

>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=94.44  E-value=1.5  Score=32.67  Aligned_cols=138  Identities=16%  Similarity=0.205  Sum_probs=65.4

Q ss_pred             cCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHH
Q 009255          337 SEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFG  416 (539)
Q Consensus       337 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  416 (539)
                      -.|..++..++..+....   .+..-++.++.-....-+-+-..++++.+   |.-.|.          ...|+....+.
T Consensus        14 ldG~V~qGveii~k~v~S---sni~E~NWvICNiiDaa~C~yvv~~LdsI---GkiFDi----------s~C~NlKrVi~   77 (161)
T PF09205_consen   14 LDGDVKQGVEIIEKTVNS---SNIKEYNWVICNIIDAADCDYVVETLDSI---GKIFDI----------SKCGNLKRVIE   77 (161)
T ss_dssp             HTT-HHHHHHHHHHHHHH---S-HHHHTHHHHHHHHH--HHHHHHHHHHH---GGGS-G----------GG-S-THHHHH
T ss_pred             HhchHHHHHHHHHHHcCc---CCccccceeeeecchhhchhHHHHHHHHH---hhhcCc----------hhhcchHHHHH
Confidence            356666666666666553   24444444443333332333333333332   222222          12334444444


Q ss_pred             HHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcC
Q 009255          417 LLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQG  496 (539)
Q Consensus       417 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  496 (539)
                      .+-.+     ..+...+...+..+..+|+.+.-.+++..+.+.+                  .+++.....++.+|.+.|
T Consensus        78 C~~~~-----n~~se~vD~ALd~lv~~~kkDqLdki~~~l~kn~------------------~~~p~~L~kia~Ay~klg  134 (161)
T PF09205_consen   78 CYAKR-----NKLSEYVDLALDILVKQGKKDQLDKIYNELKKNE------------------EINPEFLVKIANAYKKLG  134 (161)
T ss_dssp             HHHHT-----T---HHHHHHHHHHHHTT-HHHHHHHHHHH-----------------------S-HHHHHHHHHHHHHTT
T ss_pred             HHHHh-----cchHHHHHHHHHHHHHhccHHHHHHHHHHHhhcc------------------CCCHHHHHHHHHHHHHhc
Confidence            33322     1233344455566667777777777777766543                  466667777777777777


Q ss_pred             CHHHHHHHHHHHHHcCC
Q 009255          497 RYKDALQIFEETRQKGI  513 (539)
Q Consensus       497 ~~~~A~~~~~~~~~~~~  513 (539)
                      +..+|.++++++-+.|+
T Consensus       135 ~~r~~~ell~~ACekG~  151 (161)
T PF09205_consen  135 NTREANELLKEACEKGL  151 (161)
T ss_dssp             -HHHHHHHHHHHHHTT-
T ss_pred             chhhHHHHHHHHHHhch
Confidence            77777777777776663

Their exact function has not, as yet, been determined. ; PDB: 1WY6_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=94.34  E-value=1.6  Score=32.55  Aligned_cols=58  Identities=19%  Similarity=0.181  Sum_probs=24.4

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCC
Q 009255          367 LSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKK  425 (539)
Q Consensus       367 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  425 (539)
                      +......|.-+.-.++...+.+. ..+++.....+..+|.+.|+..++.+++.++-+.|
T Consensus        93 Ld~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG  150 (161)
T PF09205_consen   93 LDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREANELLKEACEKG  150 (161)
T ss_dssp             HHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT
T ss_pred             HHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhc
Confidence            33444444444444444444331 23344444455555555555555555555554444

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=94.32  E-value=6.7  Score=39.68  Aligned_cols=230  Identities=15%  Similarity=0.024  Sum_probs=125.6

Q ss_pred             HHhccCCHHHHHHHHHHHhhcCCccCHh-------hHHHHH-HHHHccCCHHHHHHHHHHHHHc----CCCCCHhhHHHH
Q 009255          229 TLCCEKKLDEAYMLLNSASKRGYYLDEV-------SYGTLI-TGYFRDEKANRALKLWDEMKER----QIMPSTFTYNAM  296 (539)
Q Consensus       229 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~-------~~~~l~-~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~l  296 (539)
                      ......++++|..++.++...-..|+..       .+..|- ......|+++.|.++.+.....    ...+....+..+
T Consensus       424 ~~~s~~r~~ea~~li~~l~~~l~~~~~~~~~~l~ae~~aL~a~val~~~~~e~a~~lar~al~~L~~~~~~~r~~~~sv~  503 (894)
T COG2909         424 LLASQHRLAEAETLIARLEHFLKAPMHSRQGDLLAEFQALRAQVALNRGDPEEAEDLARLALVQLPEAAYRSRIVALSVL  503 (894)
T ss_pred             HHHHccChHHHHHHHHHHHHHhCcCcccchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcccccchhhhhhhhhh
Confidence            3456788889988888876643222211       223222 2234578899999988877654    222345567777


Q ss_pred             HHHHHcCCCHHHHHHHHHHHHHCCCCCCHHh---HHHH--HHHHhcCCCHHHH--HHHHHHHHhC-----C-CCCCHHhH
Q 009255          297 IWGLSQSGKTEQAIDMLNELLQSGMIPDETT---FNTI--IHGFCSEGQVEKA--LQFHNKMVEK-----S-FKPDIVTC  363 (539)
Q Consensus       297 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~l--~~~~~~~~~~~~a--~~~~~~~~~~-----~-~~~~~~~~  363 (539)
                      ..+..-.|++++|..+..+..+..-..+...   +..+  ...+...|+...+  ...+......     + ..+-..+.
T Consensus       504 ~~a~~~~G~~~~Al~~~~~a~~~a~~~~~~~l~~~~~~~~s~il~~qGq~~~a~~~~~~~~~~~q~l~q~~~~~f~~~~r  583 (894)
T COG2909         504 GEAAHIRGELTQALALMQQAEQMARQHDVYHLALWSLLQQSEILEAQGQVARAEQEKAFNLIREQHLEQKPRHEFLVRIR  583 (894)
T ss_pred             hHHHHHhchHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhhhcccchhHHHHH
Confidence            7888889999999999887665422222222   2222  2334556643322  2223322221     1 01223344


Q ss_pred             HHHHHHHHhc-CCHHHHHHHHHHHHHcCCCCChhh--HHHHHHHHHccCChHHHHHHHHHHHhCCCCCC----HhhHHHH
Q 009255          364 NILLSGLCRE-GILEKALKFFRSWILKGKAVDSVT--YNTLISSLCKERRLEDAFGLLSEMEEKKLGPD----RYTYAAI  436 (539)
Q Consensus       364 ~~l~~~~~~~-g~~~~A~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~----~~~~~~l  436 (539)
                      ..+..++.+. +...++..-+.-.......|-...  +..|+..+...|+.++|...+.++......+.    ..+....
T Consensus       584 ~~ll~~~~r~~~~~~ear~~~~~~~~~~~~~~~~~~~~~~LA~l~~~~Gdl~~A~~~l~~~~~l~~~~~~~~~~~a~~~~  663 (894)
T COG2909         584 AQLLRAWLRLDLAEAEARLGIEVGSVYTPQPLLSRLALSMLAELEFLRGDLDKALAQLDELERLLLNGQYHVDYLAAAYK  663 (894)
T ss_pred             HHHHHHHHHHhhhhHHhhhcchhhhhcccchhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcCCCCCchHHHHHHH
Confidence            5555555542 222233333322222222222222  23677888889999999999999876533332    2222222


Q ss_pred             HH--HHHhcCCHHHHHHHHHHHHH
Q 009255          437 HT--ALVESGRLEEAQKFTSIMVE  458 (539)
Q Consensus       437 ~~--~~~~~g~~~~A~~~~~~~~~  458 (539)
                      ++  .....|+.+.+..+..+...
T Consensus       664 v~~~lwl~qg~~~~a~~~l~~s~~  687 (894)
T COG2909         664 VKLILWLAQGDKELAAEWLLKSGD  687 (894)
T ss_pred             hhHHHhcccCCHHHHHHHHHhccC
Confidence            22  23468999999888777443

>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=94.28  E-value=3.6  Score=36.43  Aligned_cols=166  Identities=13%  Similarity=0.094  Sum_probs=88.4

Q ss_pred             HhHHHHHHHHhcCCCHH---HHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHH
Q 009255          326 TTFNTIIHGFCSEGQVE---KALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLI  402 (539)
Q Consensus       326 ~~~~~l~~~~~~~~~~~---~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~  402 (539)
                      .++..++.++...+..+   +|..+++.+... .+..+.++..-++.+.+.++.+.+.+.+.+|+..- .-....+...+
T Consensus        85 ~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e-~~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~-~~~e~~~~~~l  162 (278)
T PF08631_consen   85 SILRLLANAYLEWDTYESVEKALNALRLLESE-YGNKPEVFLLKLEILLKSFDEEEYEEILMRMIRSV-DHSESNFDSIL  162 (278)
T ss_pred             HHHHHHHHHHHcCCChHHHHHHHHHHHHHHHh-CCCCcHHHHHHHHHHhccCChhHHHHHHHHHHHhc-ccccchHHHHH
Confidence            35666777777766544   455555555443 22235555556666767888888888888888762 21223444444


Q ss_pred             HHHH--ccCChHHHHHHHHHHHhCCCCCCHh-hHHHH-H-H--HHHhcCC------HHHHHHHHHHHHHcCCCCcccccC
Q 009255          403 SSLC--KERRLEDAFGLLSEMEEKKLGPDRY-TYAAI-H-T--ALVESGR------LEEAQKFTSIMVETGKINHQVVQP  469 (539)
Q Consensus       403 ~~~~--~~~~~~~A~~~~~~~~~~~~~~~~~-~~~~l-~-~--~~~~~g~------~~~A~~~~~~~~~~~~~~~~~~~~  469 (539)
                      ..+.  .......|...+..+....+.|... ....+ + .  .....++      .+...++++.+.+....       
T Consensus       163 ~~i~~l~~~~~~~a~~~ld~~l~~r~~~~~~~~~e~~vl~~~~~~~~~~~~~~~~~i~~l~~~~~~v~~~~~~-------  235 (278)
T PF08631_consen  163 HHIKQLAEKSPELAAFCLDYLLLNRFKSSEDQWLEKLVLTRVLLTTQSKDLSSSEKIESLEELLSIVEHSLGK-------  235 (278)
T ss_pred             HHHHHHHhhCcHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHcCCccccchhHHHHHHHHHHHHHHHhcC-------
Confidence            4432  1233456777777766555555543 21111 1 1  1222222      33344444433322211       


Q ss_pred             CCCCCCCCCCCChhh---HH----HHHHHHhhcCCHHHHHHHHHHHH
Q 009255          470 NTSKTPEEIDPSSIS---YS----EKINEHCSQGRYKDALQIFEETR  509 (539)
Q Consensus       470 ~~~~~~~~~~~~~~~---~~----~l~~~~~~~g~~~~A~~~~~~~~  509 (539)
                               +.+..+   ..    .-+....++++|+.|.+.|+-.+
T Consensus       236 ---------~ls~~~~~a~~~LLW~~~~~~~~~k~y~~A~~w~~~al  273 (278)
T PF08631_consen  236 ---------QLSAEAASAIHTLLWNKGKKHYKAKNYDEAIEWYELAL  273 (278)
T ss_pred             ---------CCCHHHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHH
Confidence                     122222   11    22556678899999999999665

It is also involved in sporulation [].

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=94.18  E-value=0.092  Score=30.52  Aligned_cols=39  Identities=15%  Similarity=0.207  Sum_probs=28.7

Q ss_pred             HHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 009255          486 SEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLM  524 (539)
Q Consensus       486 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l  524 (539)
                      ..++.+|...|+.+.|.+++++++..|-.|-......++
T Consensus         3 LdLA~ayie~Gd~e~Ar~lL~evl~~~~~~q~~eA~~LL   41 (44)
T TIGR03504         3 LDLARAYIEMGDLEGARELLEEVIEEGDEAQRQEARALL   41 (44)
T ss_pred             hHHHHHHHHcCChHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            468899999999999999999999755333333444443

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.

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=94.13  E-value=0.17  Score=27.37  Aligned_cols=30  Identities=20%  Similarity=0.226  Sum_probs=24.2

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          431 YTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       431 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      ..+..++.++...|++++|++.++++++..
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            356678888889999999999999998876

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 ....

>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=94.11  E-value=0.75  Score=37.22  Aligned_cols=99  Identities=15%  Similarity=0.128  Sum_probs=62.9

Q ss_pred             hHHHHHHHHHccCChHHHHHHHHHHHhCCCCCC--HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCC
Q 009255          397 TYNTLISSLCKERRLEDAFGLLSEMEEKKLGPD--RYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKT  474 (539)
Q Consensus       397 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~  474 (539)
                      .+..++..|.+.|+.+.|++.|.++.+....+.  ...+..+++.....+++..+...+.++........          
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~----------  107 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGG----------  107 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccc----------
Confidence            566777888888888888888888877654444  34556777777788888888888777765532100          


Q ss_pred             CCCCCCChhhHH--HHHHHHhhcCCHHHHHHHHHHHH
Q 009255          475 PEEIDPSSISYS--EKINEHCSQGRYKDALQIFEETR  509 (539)
Q Consensus       475 ~~~~~~~~~~~~--~l~~~~~~~g~~~~A~~~~~~~~  509 (539)
                          +++...-.  .-+-.+...+++.+|.+.|-...
T Consensus       108 ----d~~~~nrlk~~~gL~~l~~r~f~~AA~~fl~~~  140 (177)
T PF10602_consen  108 ----DWERRNRLKVYEGLANLAQRDFKEAAELFLDSL  140 (177)
T ss_pred             ----hHHHHHHHHHHHHHHHHHhchHHHHHHHHHccC
Confidence                01111111  11223445788888888877665

This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=94.09  E-value=0.18  Score=27.35  Aligned_cols=30  Identities=23%  Similarity=0.304  Sum_probs=24.4

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          431 YTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       431 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      .+|..++.++...|++++|++.++++++.+
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            457778888888999999999999988876

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=93.98  E-value=1.1  Score=36.33  Aligned_cols=96  Identities=18%  Similarity=0.054  Sum_probs=58.0

Q ss_pred             HHHHHHHHHHccCCHhHHHHHHHHHHhCCCCC--ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHH---HH
Q 009255           47 TYNILVSGYCKLGWLKEAMRVVDLMTQNKSLP--DVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYN---TL  121 (539)
Q Consensus        47 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~---~l  121 (539)
                      .+..++..|.+.|+.+.|.+.|.++......+  -...+-.+|......|++..+.....+....--.+......   ..
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk~  117 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLKV  117 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHHH
Confidence            66677788888888888888888877653322  23455667777777788877777776655431111111111   11


Q ss_pred             --HHHHhccCCHhHHHHHHHHHH
Q 009255          122 --INRFFESGRSMEAFKLIDELD  142 (539)
Q Consensus       122 --~~~~~~~~~~~~a~~~~~~~~  142 (539)
                        .-.+...+++..|-+.|-...
T Consensus       118 ~~gL~~l~~r~f~~AA~~fl~~~  140 (177)
T PF10602_consen  118 YEGLANLAQRDFKEAAELFLDSL  140 (177)
T ss_pred             HHHHHHHHhchHHHHHHHHHccC
Confidence              122344677877777776654

This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=93.86  E-value=5.4  Score=36.88  Aligned_cols=65  Identities=15%  Similarity=0.043  Sum_probs=47.9

Q ss_pred             CHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCC---CHHhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 009255          324 DETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKP---DIVTCNILLSGLCREGILEKALKFFRSWIL  388 (539)
Q Consensus       324 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  388 (539)
                      ...++..++..+.+.|.++.|...+..+...+...   .+.+...-++.....|+..+|...++....
T Consensus       145 ~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~  212 (352)
T PF02259_consen  145 LAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLK  212 (352)
T ss_pred             HHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            44577778888888899998888888887643211   345555566777788888888888888776

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=93.82  E-value=3.2  Score=34.13  Aligned_cols=182  Identities=13%  Similarity=0.047  Sum_probs=105.8

Q ss_pred             ccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHH
Q 009255          267 RDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQ  346 (539)
Q Consensus       267 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  346 (539)
                      ..|-+.-|.--|.+.....+. -+..||.+.-.+...|+++.|.+.|+...+..+.-+-...+.-+. +.--|++.-|.+
T Consensus        77 SlGL~~LAR~DftQaLai~P~-m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi~-~YY~gR~~LAq~  154 (297)
T COG4785          77 SLGLRALARNDFSQALAIRPD-MPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIA-LYYGGRYKLAQD  154 (297)
T ss_pred             hhhHHHHHhhhhhhhhhcCCC-cHHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhcccee-eeecCchHhhHH
Confidence            334455555556665554433 467788888888888999999999988887655544444444443 334578888887


Q ss_pred             HHHHHHhCCCC-CCHHhHHHHHHHHHhcCCHHHHHHHHH-HHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhC
Q 009255          347 FHNKMVEKSFK-PDIVTCNILLSGLCREGILEKALKFFR-SWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEK  424 (539)
Q Consensus       347 ~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  424 (539)
                      -+...-+.... |-...|..+.   ...-++.+|..-+. +....    +..-|...+..+.- |... ...+++++...
T Consensus       155 d~~~fYQ~D~~DPfR~LWLYl~---E~k~dP~~A~tnL~qR~~~~----d~e~WG~~iV~~yL-gkiS-~e~l~~~~~a~  225 (297)
T COG4785         155 DLLAFYQDDPNDPFRSLWLYLN---EQKLDPKQAKTNLKQRAEKS----DKEQWGWNIVEFYL-GKIS-EETLMERLKAD  225 (297)
T ss_pred             HHHHHHhcCCCChHHHHHHHHH---HhhCCHHHHHHHHHHHHHhc----cHhhhhHHHHHHHH-hhcc-HHHHHHHHHhh
Confidence            77766665322 2122222222   23446666665443 33322    44555444333322 2211 12233343322


Q ss_pred             CCCCC-------HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          425 KLGPD-------RYTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       425 ~~~~~-------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                       -..+       ..+|..+++-+...|+.++|..+|+.++..+
T Consensus       226 -a~~n~~~Ae~LTEtyFYL~K~~l~~G~~~~A~~LfKLaiann  267 (297)
T COG4785         226 -ATDNTSLAEHLTETYFYLGKYYLSLGDLDEATALFKLAVANN  267 (297)
T ss_pred             -ccchHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHh
Confidence             1211       2467778888899999999999999988765

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=93.73  E-value=3.9  Score=34.81  Aligned_cols=58  Identities=14%  Similarity=0.046  Sum_probs=28.2

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHc-----CCC------CChhhHHHHHHHHHccCChHHHHHHHHHHH
Q 009255          365 ILLSGLCREGILEKALKFFRSWILK-----GKA------VDSVTYNTLISSLCKERRLEDAFGLLSEME  422 (539)
Q Consensus       365 ~l~~~~~~~g~~~~A~~~~~~~~~~-----~~~------~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  422 (539)
                      .+...|...|++..-.++++++...     |..      .-...|..-+..|..+.+-.+-..+|++.+
T Consensus       150 KLgkl~fd~~e~~kl~KIlkqLh~SCq~edGedD~kKGtQLLEiYAlEIQmYT~qKnNKkLK~lYeqal  218 (440)
T KOG1464|consen  150 KLGKLYFDRGEYTKLQKILKQLHQSCQTEDGEDDQKKGTQLLEIYALEIQMYTEQKNNKKLKALYEQAL  218 (440)
T ss_pred             hHhhhheeHHHHHHHHHHHHHHHHHhccccCchhhhccchhhhhHhhHhhhhhhhcccHHHHHHHHHHH
Confidence            4455555555555555555554432     000      012234444555655555555555666554

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=93.73  E-value=6.2  Score=37.14  Aligned_cols=95  Identities=17%  Similarity=0.155  Sum_probs=42.3

Q ss_pred             CHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHH
Q 009255          254 DEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIH  333 (539)
Q Consensus       254 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  333 (539)
                      |.....+++..+..+..+.-...+..+|+..+  .+...+..++..|... ..+.-..+|+++.+..+. +...-..+..
T Consensus        65 ~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~dfn-Dvv~~ReLa~  140 (711)
T COG1747          65 DDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDFN-DVVIGRELAD  140 (711)
T ss_pred             cchHHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcch-hHHHHHHHHH
Confidence            33444445555555544555555555554432  1344455555555544 344445555555544322 2222222333


Q ss_pred             HHhcCCCHHHHHHHHHHHHh
Q 009255          334 GFCSEGQVEKALQFHNKMVE  353 (539)
Q Consensus       334 ~~~~~~~~~~a~~~~~~~~~  353 (539)
                      .|.+ ++.+++..+|.++..
T Consensus       141 ~yEk-ik~sk~a~~f~Ka~y  159 (711)
T COG1747         141 KYEK-IKKSKAAEFFGKALY  159 (711)
T ss_pred             HHHH-hchhhHHHHHHHHHH
Confidence            2222 444555555554443

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=93.70  E-value=0.46  Score=43.63  Aligned_cols=123  Identities=12%  Similarity=0.046  Sum_probs=66.6

Q ss_pred             HhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHH
Q 009255          335 FCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDA  414 (539)
Q Consensus       335 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  414 (539)
                      -...||.-.|-+-+...++.. +.++.............|+++.+...+...... ......+...+++.....|++++|
T Consensus       299 ~~~~gd~~aas~~~~~~lr~~-~~~p~~i~l~~~i~~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~l~r~~~a  376 (831)
T PRK15180        299 QLADGDIIAASQQLFAALRNQ-QQDPVLIQLRSVIFSHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHGLARWREA  376 (831)
T ss_pred             HhhccCHHHHHHHHHHHHHhC-CCCchhhHHHHHHHHHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhchhhHHHH
Confidence            345566666554444444331 222233333333455667777777766554332 222444566666777777777777


Q ss_pred             HHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          415 FGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       415 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      ..+-.-|....+. +.++....+......|-++++.-.|++....+
T Consensus       377 ~s~a~~~l~~eie-~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~~  421 (831)
T PRK15180        377 LSTAEMMLSNEIE-DEEVLTVAAGSADALQLFDKSYHYWKRVLLLN  421 (831)
T ss_pred             HHHHHHHhccccC-ChhheeeecccHHHHhHHHHHHHHHHHHhccC
Confidence            7777766654432 33333333333444566777777777776665

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=93.64  E-value=0.74  Score=39.23  Aligned_cols=36  Identities=22%  Similarity=0.232  Sum_probs=30.1

Q ss_pred             hHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCH
Q 009255           96 LEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRS  131 (539)
Q Consensus        96 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  131 (539)
                      -+-++.++++|...|+.||..+-..|++++.+.+-.
T Consensus       139 Q~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p  174 (406)
T KOG3941|consen  139 QNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNFP  174 (406)
T ss_pred             hhHHHHHHHHHHHcCCCCchHHHHHHHHHhcccccc
Confidence            456889999999999999999999999988776653

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=93.40  E-value=2.1  Score=34.58  Aligned_cols=88  Identities=22%  Similarity=0.195  Sum_probs=60.4

Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCC-----hhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCC-HhhHHHHHHHHHhc
Q 009255          370 LCREGILEKALKFFRSWILKGKAVD-----SVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPD-RYTYAAIHTALVES  443 (539)
Q Consensus       370 ~~~~g~~~~A~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~  443 (539)
                      +...|++++|..-|..+++. .++.     ...|..-+.+..+.+.++.|+.-..++++.  .|+ ...+..-+.+|.+.
T Consensus       105 ~F~ngdyeeA~skY~~Ale~-cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel--~pty~kAl~RRAeayek~  181 (271)
T KOG4234|consen  105 LFKNGDYEEANSKYQEALES-CPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIEL--NPTYEKALERRAEAYEKM  181 (271)
T ss_pred             hhhcccHHHHHHHHHHHHHh-CccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhc--CchhHHHHHHHHHHHHhh
Confidence            45567777777777777765 2222     224555556777788888888877777754  343 34445556678888


Q ss_pred             CCHHHHHHHHHHHHHcC
Q 009255          444 GRLEEAQKFTSIMVETG  460 (539)
Q Consensus       444 g~~~~A~~~~~~~~~~~  460 (539)
                      ..+++|++-|.++++.+
T Consensus       182 ek~eealeDyKki~E~d  198 (271)
T KOG4234|consen  182 EKYEEALEDYKKILESD  198 (271)
T ss_pred             hhHHHHHHHHHHHHHhC
Confidence            88888888888888876

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=93.30  E-value=0.12  Score=27.74  Aligned_cols=31  Identities=13%  Similarity=0.220  Sum_probs=26.5

Q ss_pred             hHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCC
Q 009255          484 SYSEKINEHCSQGRYKDALQIFEETRQKGIAIN  516 (539)
Q Consensus       484 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~  516 (539)
                      ++..++.++.+.|++++|.+.|+++++.  .|+
T Consensus         2 a~~~~a~~~~~~g~~~~A~~~~~~~~~~--~P~   32 (33)
T PF13174_consen    2 ALYRLARCYYKLGDYDEAIEYFQRLIKR--YPD   32 (33)
T ss_dssp             HHHHHHHHHHHHCHHHHHHHHHHHHHHH--STT
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHH--CcC
Confidence            4567889999999999999999999974  565

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=93.29  E-value=0.094  Score=28.59  Aligned_cols=33  Identities=12%  Similarity=0.229  Sum_probs=27.0

Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHhcCCchhhccC
Q 009255          505 FEETRQKGIAINKSTYMNLMNGLIKRRKSISKAVD  539 (539)
Q Consensus       505 ~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~A~~  539 (539)
                      |+++++  +.|++......++.++...|++++|+.
T Consensus         2 y~kAie--~~P~n~~a~~nla~~~~~~g~~~~A~~   34 (34)
T PF13431_consen    2 YKKAIE--LNPNNAEAYNNLANLYLNQGDYEEAIA   34 (34)
T ss_pred             hHHHHH--HCCCCHHHHHHHHHHHHHCcCHHhhcC
Confidence            677887  679998888888878888888999974

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=93.27  E-value=1.4  Score=33.77  Aligned_cols=73  Identities=14%  Similarity=0.021  Sum_probs=48.8

Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChh-hHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCH
Q 009255          439 ALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSI-SYSEKINEHCSQGRYKDALQIFEETRQKGIAINK  517 (539)
Q Consensus       439 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~  517 (539)
                      .-...++.+++..++..+.-..                   |+.. .-..-+..+...|+|.+|+++++++.+.+  +..
T Consensus        19 ~aL~~~d~~D~e~lLdALrvLr-------------------P~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~--~~~   77 (153)
T TIGR02561        19 YALRSADPYDAQAMLDALRVLR-------------------PNLKELDMFDGWLLIARGNYDEAARILRELLSSA--GAP   77 (153)
T ss_pred             HHHhcCCHHHHHHHHHHHHHhC-------------------CCccccchhHHHHHHHcCCHHHHHHHHHhhhccC--CCc
Confidence            3345788999999988888776                   4443 33334556788999999999999988743  343


Q ss_pred             HHHHHHHHHHHhcCC
Q 009255          518 STYMNLMNGLIKRRK  532 (539)
Q Consensus       518 ~~~~~~l~~~~~~~~  532 (539)
                      .-...++..|+...+
T Consensus        78 p~~kAL~A~CL~al~   92 (153)
T TIGR02561        78 PYGKALLALCLNAKG   92 (153)
T ss_pred             hHHHHHHHHHHHhcC
Confidence            444455555554433

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>KOG3364 consensus Membrane protein involved in organellar division [Cell wall/membrane/envelope biogenesis]

Probab=93.15  E-value=2.6  Score=31.62  Aligned_cols=79  Identities=14%  Similarity=0.146  Sum_probs=53.0

Q ss_pred             CCCHhhHHHHHHHHHhcCC---HHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChh--hHHHHHHHHhhcCCHHHH
Q 009255          427 GPDRYTYAAIHTALVESGR---LEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSI--SYSEKINEHCSQGRYKDA  501 (539)
Q Consensus       427 ~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~g~~~~A  501 (539)
                      .++..+...+++++.+..+   ..+.+.+++.+.+..                  +|+..  -.+.|+-++.+.|+|+.+
T Consensus        29 ~~s~~s~f~lAwaLV~S~~~~dv~~GI~iLe~l~~~~------------------~~~~rRe~lyYLAvg~yRlkeY~~s   90 (149)
T KOG3364|consen   29 DVSKQSQFNLAWALVRSRDTEDVQEGIVILEDLLKSA------------------HPERRRECLYYLAVGHYRLKEYSKS   90 (149)
T ss_pred             cchHHHHHHHHHHHHcccchHHHHHhHHHHHHHhhhc------------------CcccchhhhhhhHHHHHHHhhHHHH
Confidence            5666777778888876654   445667777777622                  23332  445566678888888888


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHH
Q 009255          502 LQIFEETRQKGIAINKSTYMNLMN  525 (539)
Q Consensus       502 ~~~~~~~~~~~~~p~~~~~~~~l~  525 (539)
                      +++.+.+++  ..||+.....+-.
T Consensus        91 ~~yvd~ll~--~e~~n~Qa~~Lk~  112 (149)
T KOG3364|consen   91 LRYVDALLE--TEPNNRQALELKE  112 (149)
T ss_pred             HHHHHHHHh--hCCCcHHHHHHHH
Confidence            888888887  4677766555433

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=93.13  E-value=0.2  Score=28.76  Aligned_cols=28  Identities=32%  Similarity=0.532  Sum_probs=24.8

Q ss_pred             hhHHHHHHHHhhcCCHHHHHHHHHHHHH
Q 009255          483 ISYSEKINEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       483 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~  510 (539)
                      .++++++..|...|++++|..+++++++
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            4788999999999999999999999876

>KOG2396 consensus HAT (Half-A-TPR) repeat-containing protein [General function prediction only]

Probab=92.87  E-value=8.4  Score=36.21  Aligned_cols=224  Identities=12%  Similarity=0.153  Sum_probs=118.1

Q ss_pred             HHHHHHHHHHHcCCCCCHhhHHHHHHHHHcC------CCHHHHHHHHHHHHHCC-CCC-CHHhHHHHHHHHhcCCCHHH-
Q 009255          273 RALKLWDEMKERQIMPSTFTYNAMIWGLSQS------GKTEQAIDMLNELLQSG-MIP-DETTFNTIIHGFCSEGQVEK-  343 (539)
Q Consensus       273 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~------~~~~~a~~~~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~-  343 (539)
                      ....+|++....  .|+...|+..|..|...      ......+.+++.....+ ..+ ....|..+...+........ 
T Consensus       300 ~~~~v~ee~v~~--l~t~sm~e~YI~~~lE~~~~~r~~~I~h~~~~~~~~~~~~~l~~~~~~~ys~~~l~~~t~~~~r~~  377 (568)
T KOG2396|consen  300 RCCAVYEEAVKT--LPTESMWECYITFCLERFTFLRGKRILHTMCVFRKAHELKLLSECLYKQYSVLLLCLNTLNEAREV  377 (568)
T ss_pred             HHHHHHHHHHHH--hhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHhccchHhHH
Confidence            334666665553  34566666666655432      13444555555554432 222 23455555555555444333 


Q ss_pred             HHHHHHHHHhCCCCCCHHhHHHHHHHHHhc-CCHHH-HHHHHHHHHHcCCCCChhhHHHHHHHHHccCC-hHHH-HH-HH
Q 009255          344 ALQFHNKMVEKSFKPDIVTCNILLSGLCRE-GILEK-ALKFFRSWILKGKAVDSVTYNTLISSLCKERR-LEDA-FG-LL  418 (539)
Q Consensus       344 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~-A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~A-~~-~~  418 (539)
                      |..+....    +..+...|..-+....+. .+++- -..+|..+...-..+....|+...     .|+ .+.. .. ++
T Consensus       378 a~~l~~e~----f~~s~k~~~~kl~~~~~s~sD~q~~f~~l~n~~r~~~~s~~~~~w~s~~-----~~dsl~~~~~~~Ii  448 (568)
T KOG2396|consen  378 AVKLTTEL----FRDSGKMWQLKLQVLIESKSDFQMLFEELFNHLRKQVCSELLISWASAS-----EGDSLQEDTLDLII  448 (568)
T ss_pred             HHHhhHHH----hcchHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHhcchhHHHHHHHh-----hccchhHHHHHHHH
Confidence            33333233    334556665555444422 12211 111222222221122223333333     222 1111 11 22


Q ss_pred             HHHHhCCCCCCHhhHH-HHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhh--c
Q 009255          419 SEMEEKKLGPDRYTYA-AIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCS--Q  495 (539)
Q Consensus       419 ~~~~~~~~~~~~~~~~-~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~  495 (539)
                      ..... -..|+..++. .+.+-+.+.|-..+|.+.+..+....                  ||+...+..++..--.  .
T Consensus       449 ~a~~s-~~~~~~~tl~s~~l~~~~e~~~~~~ark~y~~l~~lp------------------p~sl~l~r~miq~e~~~~s  509 (568)
T KOG2396|consen  449 SALLS-VIGADSVTLKSKYLDWAYESGGYKKARKVYKSLQELP------------------PFSLDLFRKMIQFEKEQES  509 (568)
T ss_pred             HHHHH-hcCCceeehhHHHHHHHHHhcchHHHHHHHHHHHhCC------------------CccHHHHHHHHHHHhhHhh
Confidence            22222 2356655554 56677788899999999999999987                  6777788877766443  3


Q ss_pred             CCHHHHHHHHHHHHH-cCCCCCHHHHHHHHHHHH
Q 009255          496 GRYKDALQIFEETRQ-KGIAINKSTYMNLMNGLI  528 (539)
Q Consensus       496 g~~~~A~~~~~~~~~-~~~~p~~~~~~~~l~~~~  528 (539)
                      .+...++..|+.|.. -|  .|...|..++..-.
T Consensus       510 c~l~~~r~~yd~a~~~fg--~d~~lw~~y~~~e~  541 (568)
T KOG2396|consen  510 CNLANIREYYDRALREFG--ADSDLWMDYMKEEL  541 (568)
T ss_pred             cCchHHHHHHHHHHHHhC--CChHHHHHHHHhhc
Confidence            458899999999986 44  67778887776444

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=92.84  E-value=7.9  Score=35.78  Aligned_cols=66  Identities=18%  Similarity=0.154  Sum_probs=52.6

Q ss_pred             CHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCC---CHHhHHHHHHHHhcCCCHHHHHHHHHHHHhC
Q 009255          289 STFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIP---DETTFNTIIHGFCSEGQVEKALQFHNKMVEK  354 (539)
Q Consensus       289 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  354 (539)
                      ...+|..++..+.+.|.++.|...+.++.......   .+.....-+......|+..+|...++..+..
T Consensus       145 ~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~  213 (352)
T PF02259_consen  145 LAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKC  213 (352)
T ss_pred             HHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            55678889999999999999999999988754222   3445555667788899999999999988873

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=92.73  E-value=8.2  Score=35.73  Aligned_cols=96  Identities=18%  Similarity=0.239  Sum_probs=76.9

Q ss_pred             hhhHHHHHHHHHccCChHHHHHHHHHHHhCC-CCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCC
Q 009255          395 SVTYNTLISSLCKERRLEDAFGLLSEMEEKK-LGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSK  473 (539)
Q Consensus       395 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~  473 (539)
                      ...|..++..-.+..-.+.|..+|-++.+.+ +.++..++.+.+.-++ .|+...|-.+|+..+...             
T Consensus       397 t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~f-------------  462 (660)
T COG5107         397 TFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLKF-------------  462 (660)
T ss_pred             hhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHhC-------------
Confidence            4467777777777788899999999999887 5677777777776554 789999999999998887             


Q ss_pred             CCCCCCCChhhH-HHHHHHHhhcCCHHHHHHHHHHHHH
Q 009255          474 TPEEIDPSSISY-SEKINEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       474 ~~~~~~~~~~~~-~~l~~~~~~~g~~~~A~~~~~~~~~  510 (539)
                            ||...| +-....+...++-+.|..+|++.++
T Consensus       463 ------~d~~~y~~kyl~fLi~inde~naraLFetsv~  494 (660)
T COG5107         463 ------PDSTLYKEKYLLFLIRINDEENARALFETSVE  494 (660)
T ss_pred             ------CCchHHHHHHHHHHHHhCcHHHHHHHHHHhHH
Confidence                  777754 4566778889999999999996665

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=92.69  E-value=6.3  Score=34.29  Aligned_cols=137  Identities=12%  Similarity=0.098  Sum_probs=75.6

Q ss_pred             CCHhHHHHHHHHHHh-CCCCCChhhHHHHHHHHHh-cCC-hHHHHHHHHHHHh-CCCCCChhhHHHHHHHHhccCCHhHH
Q 009255           59 GWLKEAMRVVDLMTQ-NKSLPDVWTYNMLINGWCN-AGM-LEEAFRLRKEMES-LKLLPDVVTYNTLINRFFESGRSMEA  134 (539)
Q Consensus        59 g~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~-~g~-~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a  134 (539)
                      ..+.+|+.+|+.... ..+-.|..+...+++.... .+. ...-.++.+-+.. .+..++..+...++..++..+++..-
T Consensus       142 ~~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl  221 (292)
T PF13929_consen  142 KIVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNKL  221 (292)
T ss_pred             HHHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHHH
Confidence            344556666653221 1122355555555555544 111 1222222222222 22456667777777888888888887


Q ss_pred             HHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCCHhHHHHHHHH-----HHHcCCCCChhhHHHHHHHH
Q 009255          135 FKLIDELDEH-GIKPNAVTHNIMIKWYCKEGKIDKACKIVRN-----MEENGFSPDCVTYNTLIDAN  195 (539)
Q Consensus       135 ~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~-----~~~~~~~~~~~~~~~l~~~~  195 (539)
                      .++++..... +..-|...|..+++.....|+..-...+..+     +.+.++..+...-..+-+.+
T Consensus       222 ~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~GhLLwikR~~V~v~~~L~~~L~~LF  288 (292)
T PF13929_consen  222 FQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDDGHLLWIKRNNVDVTDELRSQLSELF  288 (292)
T ss_pred             HHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhCCCeEEeeecCCcCCHHHHHHHHHHH
Confidence            7777776554 4555777788888888888887666665543     23345555555544444443

>PF14853 Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repeat; PDB: 1IYG_A 1PC2_A 1NZN_A 3UUX_C 1Y8M_A 2PQR_A 2PQN_A 3O48_A

Probab=92.64  E-value=0.56  Score=28.69  Aligned_cols=41  Identities=15%  Similarity=0.118  Sum_probs=32.6

Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 009255          485 YSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGL  527 (539)
Q Consensus       485 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~  527 (539)
                      ...++-++.+.|++++|.+..+.+++  ..|++.....+...+
T Consensus         4 lY~lAig~ykl~~Y~~A~~~~~~lL~--~eP~N~Qa~~L~~~i   44 (53)
T PF14853_consen    4 LYYLAIGHYKLGEYEKARRYCDALLE--IEPDNRQAQSLKELI   44 (53)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHH--HTTS-HHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHh--hCCCcHHHHHHHHHH
Confidence            45677789999999999999999998  689998887776544

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=92.57  E-value=0.25  Score=26.47  Aligned_cols=29  Identities=10%  Similarity=0.186  Sum_probs=24.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          432 TYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       432 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      ++..++.++.+.|++++|.+.++++++..
T Consensus         2 a~~~~a~~~~~~g~~~~A~~~~~~~~~~~   30 (33)
T PF13174_consen    2 ALYRLARCYYKLGDYDEAIEYFQRLIKRY   30 (33)
T ss_dssp             HHHHHHHHHHHHCHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence            34567788888999999999999999887

>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=92.50  E-value=4.2  Score=31.83  Aligned_cols=50  Identities=22%  Similarity=0.282  Sum_probs=21.6

Q ss_pred             ccCCHhHHHHHHHHHHhCCCC-CChhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 009255           57 KLGWLKEAMRVVDLMTQNKSL-PDVWTYNMLINGWCNAGMLEEAFRLRKEMES  108 (539)
Q Consensus        57 ~~g~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  108 (539)
                      +.++.+.+..++..+.-..+. +...++.  ...+...|++.+|.++|+++..
T Consensus        22 ~~~~~~D~e~lL~ALrvLRP~~~e~~~~~--~~l~i~r~~w~dA~rlLr~l~~   72 (160)
T PF09613_consen   22 RLGDPDDAEALLDALRVLRPEFPELDLFD--GWLHIVRGDWDDALRLLRELEE   72 (160)
T ss_pred             ccCChHHHHHHHHHHHHhCCCchHHHHHH--HHHHHHhCCHHHHHHHHHHHhc
Confidence            444555555555555443221 1111222  1223445555555555555544

>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=92.45  E-value=4.3  Score=31.80  Aligned_cols=77  Identities=17%  Similarity=0.029  Sum_probs=43.8

Q ss_pred             HhHHHHHHH---HHhcCCHHHHHHHHHHHHHcCCCCChhhH-HHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHH
Q 009255          361 VTCNILLSG---LCREGILEKALKFFRSWILKGKAVDSVTY-NTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAI  436 (539)
Q Consensus       361 ~~~~~l~~~---~~~~g~~~~A~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l  436 (539)
                      .+...|+..   -.+.++.+++..+++.+.-.  .|..... ..-+..+...|+|.+|+.+|+++.+.  .|....-..+
T Consensus         8 ~iv~gLie~~~~al~~~~~~D~e~lL~ALrvL--RP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~--~~~~p~~kAL   83 (160)
T PF09613_consen    8 EIVGGLIEVLSVALRLGDPDDAEALLDALRVL--RPEFPELDLFDGWLHIVRGDWDDALRLLRELEER--APGFPYAKAL   83 (160)
T ss_pred             HHHHHHHHHHHHHHccCChHHHHHHHHHHHHh--CCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhcc--CCCChHHHHH
Confidence            344444443   34567788888888777665  3443322 23345567778888888888887654  3433333344


Q ss_pred             HHHHH
Q 009255          437 HTALV  441 (539)
Q Consensus       437 ~~~~~  441 (539)
                      ...|.
T Consensus        84 lA~CL   88 (160)
T PF09613_consen   84 LALCL   88 (160)
T ss_pred             HHHHH
Confidence            43333

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=92.05  E-value=3.2  Score=29.37  Aligned_cols=77  Identities=13%  Similarity=0.240  Sum_probs=44.6

Q ss_pred             hhHHHHHHHHHhcCChH--HHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHH
Q 009255           11 VTYNTILDALFKKGKLN--EVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLIN   88 (539)
Q Consensus        11 ~~~~~l~~~~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (539)
                      ..|..--..+....+.+  +..+-++.+...++.|++.+..+.+++|.+.+++..|..+|+.+...- .+....|..++.
T Consensus         9 eeF~ary~~~F~~~~iD~we~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~-~~~~~~Y~~~lq   87 (108)
T PF02284_consen    9 EEFDARYEKYFNRPDIDGWELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKC-GNKKEIYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHHHH-TT--HHHHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHT-TT-TTHHHHHHH
T ss_pred             HHHHHHHHHHhCCccccHHHHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHc-cChHHHHHHHHH
Confidence            33444444444444433  567777777777778888888888888888888888888888776541 112225555543

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 ....

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=92.05  E-value=4.5  Score=31.13  Aligned_cols=51  Identities=16%  Similarity=0.111  Sum_probs=24.2

Q ss_pred             ccCCHhHHHHHHHHHHhCCCC-CChhhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 009255           57 KLGWLKEAMRVVDLMTQNKSL-PDVWTYNMLINGWCNAGMLEEAFRLRKEMESL  109 (539)
Q Consensus        57 ~~g~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  109 (539)
                      ..++.+++..+++.+.-..+. +...++...  .+...|++.+|.++|+++.+.
T Consensus        22 ~~~d~~D~e~lLdALrvLrP~~~e~d~~dg~--l~i~rg~w~eA~rvlr~l~~~   73 (153)
T TIGR02561        22 RSADPYDAQAMLDALRVLRPNLKELDMFDGW--LLIARGNYDEAARILRELLSS   73 (153)
T ss_pred             hcCCHHHHHHHHHHHHHhCCCccccchhHHH--HHHHcCCHHHHHHHHHhhhcc
Confidence            355555555555555543222 122222222  234556666666666665543

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.88  E-value=6.7  Score=32.79  Aligned_cols=132  Identities=10%  Similarity=0.041  Sum_probs=68.7

Q ss_pred             cCCHHHHHHHHHHHHHc----C-CCCChhhHHHHHHHHHcc-CChHHHHHHHHHHHhC--C---CCCCHhhHHHHHHHHH
Q 009255          373 EGILEKALKFFRSWILK----G-KAVDSVTYNTLISSLCKE-RRLEDAFGLLSEMEEK--K---LGPDRYTYAAIHTALV  441 (539)
Q Consensus       373 ~g~~~~A~~~~~~~~~~----~-~~~~~~~~~~l~~~~~~~-~~~~~A~~~~~~~~~~--~---~~~~~~~~~~l~~~~~  441 (539)
                      .+++++|...++..++.    | +..-...+..+...|-.. .++++|+..|++.-+.  |   .......+..++.--.
T Consensus        86 k~~~~eAv~cL~~aieIyt~~Grf~~aAk~~~~iaEiyEsdl~d~ekaI~~YE~Aae~yk~ees~ssANKC~lKvA~yaa  165 (288)
T KOG1586|consen   86 KVDPEEAVNCLEKAIEIYTDMGRFTMAAKHHIEIAEIYESDLQDFEKAIAHYEQAAEYYKGEESVSSANKCLLKVAQYAA  165 (288)
T ss_pred             ccChHHHHHHHHHHHHHHHhhhHHHHHHhhhhhHHHHHhhhHHHHHHHHHHHHHHHHHHcchhhhhhHHHHHHHHHHHHH
Confidence            34666666665554432    0 000111222344445433 6778888888877653  1   1112234445555556


Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChh-hHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHH
Q 009255          442 ESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSI-SYSEKINEHCSQGRYKDALQIFEETRQKGIAINKS  518 (539)
Q Consensus       442 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~  518 (539)
                      ..+++.+|+++|++.......+ ..           ..-..- .+..-+-++...++.-.+...+++-.+  +.|+..
T Consensus       166 ~leqY~~Ai~iyeqva~~s~~n-~L-----------LKys~KdyflkAgLChl~~~D~v~a~~ALeky~~--~dP~F~  229 (288)
T KOG1586|consen  166 QLEQYSKAIDIYEQVARSSLDN-NL-----------LKYSAKDYFLKAGLCHLCKADEVNAQRALEKYQE--LDPAFT  229 (288)
T ss_pred             HHHHHHHHHHHHHHHHHHhccc-hH-----------HHhHHHHHHHHHHHHhHhcccHHHHHHHHHHHHh--cCCccc
Confidence            7899999999999988765210 00           000111 111222233334677777777777776  456543

>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=91.85  E-value=3.4  Score=33.69  Aligned_cols=75  Identities=11%  Similarity=0.004  Sum_probs=37.0

Q ss_pred             HHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHH
Q 009255          412 EDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINE  491 (539)
Q Consensus       412 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~  491 (539)
                      +.|.+.|-++...+.-.++.....++. +....+.+++++++-++++.....+              .+++..+.+|+..
T Consensus       123 ~~A~~~fL~~E~~~~l~t~elq~aLAt-yY~krD~~Kt~~ll~~~L~l~~~~~--------------~~n~eil~sLas~  187 (203)
T PF11207_consen  123 QEALRRFLQLEGTPELETAELQYALAT-YYTKRDPEKTIQLLLRALELSNPDD--------------NFNPEILKSLASI  187 (203)
T ss_pred             HHHHHHHHHHcCCCCCCCHHHHHHHHH-HHHccCHHHHHHHHHHHHHhcCCCC--------------CCCHHHHHHHHHH
Confidence            455555555554433333333333333 3334555666666666655542210              2444556666666


Q ss_pred             HhhcCCHHHH
Q 009255          492 HCSQGRYKDA  501 (539)
Q Consensus       492 ~~~~g~~~~A  501 (539)
                      |.+.|+++.|
T Consensus       188 ~~~~~~~e~A  197 (203)
T PF11207_consen  188 YQKLKNYEQA  197 (203)
T ss_pred             HHHhcchhhh
Confidence            6666666555

>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=91.77  E-value=0.27  Score=24.72  Aligned_cols=24  Identities=13%  Similarity=0.115  Sum_probs=20.7

Q ss_pred             hHHHHHHHHhhcCCHHHHHHHHHH
Q 009255          484 SYSEKINEHCSQGRYKDALQIFEE  507 (539)
Q Consensus       484 ~~~~l~~~~~~~g~~~~A~~~~~~  507 (539)
                      ....++.++...|++++|.+++++
T Consensus         3 a~~~la~~~~~~G~~~eA~~~l~~   26 (26)
T PF07721_consen    3 ARLALARALLAQGDPDEAERLLRR   26 (26)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHhC
Confidence            456789999999999999998863

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

>COG0790 FOG: TPR repeat, SEL1 subfamily [General function prediction only]

Probab=91.75  E-value=9.3  Score=34.17  Aligned_cols=155  Identities=14%  Similarity=0.030  Sum_probs=92.0

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcc-----C-
Q 009255          340 QVEKALQFHNKMVEKSFKPDIVTCNILLSGLCR----EGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKE-----R-  409 (539)
Q Consensus       340 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----~-  409 (539)
                      +...|..+|....+.|   .......+..+|..    ..+..+|.+.++++...|..+-......+...|...     - 
T Consensus        92 ~~~~A~~~~~~~a~~g---~~~a~~~lg~~~~~G~gv~~d~~~A~~~~~~Aa~~g~~~a~~~~~~l~~~~~~g~~~~~~~  168 (292)
T COG0790          92 DKTKAADWYRCAAADG---LAEALFNLGLMYANGRGVPLDLVKALKYYEKAAKLGNVEAALAMYRLGLAYLSGLQALAVA  168 (292)
T ss_pred             cHHHHHHHHHHHhhcc---cHHHHHhHHHHHhcCCCcccCHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHcChhhhccc
Confidence            4566666666555544   23333334444444    236677777777777765443222233444444332     1 


Q ss_pred             -ChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhh
Q 009255          410 -RLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVE----SGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSIS  484 (539)
Q Consensus       410 -~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  484 (539)
                       +...|...+.++...+   +......++..|..    ..++++|..+|.++.+.+                   . ...
T Consensus       169 ~~~~~A~~~~~~aa~~~---~~~a~~~lg~~y~~G~Gv~~d~~~A~~wy~~Aa~~g-------------------~-~~a  225 (292)
T COG0790         169 YDDKKALYLYRKAAELG---NPDAQLLLGRMYEKGLGVPRDLKKAFRWYKKAAEQG-------------------D-GAA  225 (292)
T ss_pred             HHHHhHHHHHHHHHHhc---CHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC-------------------C-HHH
Confidence             2236888888887765   44445555555543    347889999999998887                   3 445


Q ss_pred             HHHHHHHHhhcC---------------CHHHHHHHHHHHHHcCCCCCHHHHH
Q 009255          485 YSEKINEHCSQG---------------RYKDALQIFEETRQKGIAINKSTYM  521 (539)
Q Consensus       485 ~~~l~~~~~~~g---------------~~~~A~~~~~~~~~~~~~p~~~~~~  521 (539)
                      ...+. .+...|               +...|...+......+.........
T Consensus       226 ~~~~~-~~~~~g~g~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  276 (292)
T COG0790         226 CYNLG-LMYLNGEGVKKAAFLTAAKEEDKKQALEWLQKACELGFDNACEALR  276 (292)
T ss_pred             HHHHH-HHHhcCCCchhhhhcccccCCCHHHHHHHHHHHHHcCChhHHHHHH
Confidence            55555 555444               8888999999988876444444444

>KOG1308 consensus Hsp70-interacting protein Hip/Transient component of progesterone receptor complexes and an Hsp70-binding protein [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=91.68  E-value=0.14  Score=44.70  Aligned_cols=85  Identities=21%  Similarity=0.174  Sum_probs=39.5

Q ss_pred             cCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCH-hhHHHHHHHHHhcCCHHHHHH
Q 009255          373 EGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDR-YTYAAIHTALVESGRLEEAQK  451 (539)
Q Consensus       373 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~  451 (539)
                      .|.++.|+..|...+... ++....|..-..++.+.+.+..|+.=+..+..  +.||. ..|-.-..+....|++++|..
T Consensus       127 ~G~~~~ai~~~t~ai~ln-p~~a~l~~kr~sv~lkl~kp~~airD~d~A~e--in~Dsa~~ykfrg~A~rllg~~e~aa~  203 (377)
T KOG1308|consen  127 DGEFDTAIELFTSAIELN-PPLAILYAKRASVFLKLKKPNAAIRDCDFAIE--INPDSAKGYKFRGYAERLLGNWEEAAH  203 (377)
T ss_pred             CcchhhhhcccccccccC-CchhhhcccccceeeeccCCchhhhhhhhhhc--cCcccccccchhhHHHHHhhchHHHHH
Confidence            445555555555555441 22333444444555555555555555544443  23332 222223333444455555555


Q ss_pred             HHHHHHHcC
Q 009255          452 FTSIMVETG  460 (539)
Q Consensus       452 ~~~~~~~~~  460 (539)
                      .+..+.+.+
T Consensus       204 dl~~a~kld  212 (377)
T KOG1308|consen  204 DLALACKLD  212 (377)
T ss_pred             HHHHHHhcc
Confidence            555555554

>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function

Probab=91.64  E-value=3  Score=34.96  Aligned_cols=104  Identities=15%  Similarity=0.062  Sum_probs=61.3

Q ss_pred             HccCChHHHHHHHHHHHhC----CCCCC--HhhHHHHHHHHHhcCCHHHHHHHH-------HHHHHcCCCCcccccCCCC
Q 009255          406 CKERRLEDAFGLLSEMEEK----KLGPD--RYTYAAIHTALVESGRLEEAQKFT-------SIMVETGKINHQVVQPNTS  472 (539)
Q Consensus       406 ~~~~~~~~A~~~~~~~~~~----~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~-------~~~~~~~~~~~~~~~~~~~  472 (539)
                      .....+++|++.+.-+.-.    +.+|.  ...+..+++.|...|+.+....++       +++.+....          
T Consensus        88 ~~~Rt~~~ai~~YkLAll~~~~~~~~~s~~A~l~LrlAWlyR~~~~~~~E~~fl~~Al~~y~~a~~~e~~----------  157 (214)
T PF09986_consen   88 SGERTLEEAIESYKLALLCAQIKKEKPSKKAGLCLRLAWLYRDLGDEENEKRFLRKALEFYEEAYENEDF----------  157 (214)
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhccCCHHHHHHHHHHHHHHHHHHHHhCcC----------
Confidence            3344556666655544321    22344  345667788888888865544444       444443311          


Q ss_pred             CCCCCCC-CChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHH
Q 009255          473 KTPEEID-PSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMN  522 (539)
Q Consensus       473 ~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~  522 (539)
                         ...+ ........++....+.|++++|.+.|.+++..+-.+....+..
T Consensus       158 ---~~~~~~~~~l~YLigeL~rrlg~~~eA~~~fs~vi~~~~~s~~~~l~~  205 (214)
T PF09986_consen  158 ---PIEGMDEATLLYLIGELNRRLGNYDEAKRWFSRVIGSKKASKEPKLKD  205 (214)
T ss_pred             ---CCCCchHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCCCCCCcHHHHH
Confidence               0001 1123666788889999999999999999997554444333333

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=91.64  E-value=5.8  Score=31.54  Aligned_cols=133  Identities=13%  Similarity=0.241  Sum_probs=59.5

Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 009255           31 DLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLK  110 (539)
Q Consensus        31 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  110 (539)
                      +.++.+.+.+++|+...+..++..+.+.|++.....++    +.++-+|.......+-.+  .+....+.++=-+|.++ 
T Consensus        15 EYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~qll----q~~Vi~DSk~lA~~LLs~--~~~~~~~~Ql~lDMLkR-   87 (167)
T PF07035_consen   15 EYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLHQLL----QYHVIPDSKPLACQLLSL--GNQYPPAYQLGLDMLKR-   87 (167)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHH----hhcccCCcHHHHHHHHHh--HccChHHHHHHHHHHHH-
Confidence            44455555666666666667777777666654443333    233333433333222111  12222333333333221 


Q ss_pred             CCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHHHH
Q 009255          111 LLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNME  177 (539)
Q Consensus       111 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  177 (539)
                         =...+..+++.+...|++-+|+++.+.....    +......++.+..+.+|...-..+++-..
T Consensus        88 ---L~~~~~~iievLL~~g~vl~ALr~ar~~~~~----~~~~~~~fLeAA~~~~D~~lf~~V~~ff~  147 (167)
T PF07035_consen   88 ---LGTAYEEIIEVLLSKGQVLEALRYARQYHKV----DSVPARKFLEAAANSNDDQLFYAVFRFFE  147 (167)
T ss_pred             ---hhhhHHHHHHHHHhCCCHHHHHHHHHHcCCc----ccCCHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence               0013444555566666666666666554221    11112334444444555444444444433

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=91.60  E-value=9.6  Score=33.99  Aligned_cols=21  Identities=24%  Similarity=0.369  Sum_probs=10.4

Q ss_pred             HHHHHHHHHHcCCCCChhhHH
Q 009255          169 ACKIVRNMEENGFSPDCVTYN  189 (539)
Q Consensus       169 a~~~~~~~~~~~~~~~~~~~~  189 (539)
                      ..++++.+.+.|+..+..+|-
T Consensus        81 ~~~~y~~L~~~gFk~~~y~~l  101 (297)
T PF13170_consen   81 VLDIYEKLKEAGFKRSEYLYL  101 (297)
T ss_pred             HHHHHHHHHHhccCccChHHH
Confidence            344555555555554444433

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=91.43  E-value=8.9  Score=33.29  Aligned_cols=60  Identities=15%  Similarity=0.187  Sum_probs=51.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHH
Q 009255          433 YAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       433 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  510 (539)
                      +......|..+|.+.+|.++.++++..+                  +.+...|..++..|...|+--+|...|+++-+
T Consensus       282 lgkva~~yle~g~~neAi~l~qr~ltld------------------pL~e~~nk~lm~~la~~gD~is~~khyerya~  341 (361)
T COG3947         282 LGKVARAYLEAGKPNEAIQLHQRALTLD------------------PLSEQDNKGLMASLATLGDEISAIKHYERYAE  341 (361)
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHhhcC------------------hhhhHHHHHHHHHHHHhccchhhhhHHHHHHH
Confidence            4456678899999999999999999998                  45666999999999999998889888887653

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=91.20  E-value=18  Score=36.40  Aligned_cols=16  Identities=19%  Similarity=0.208  Sum_probs=8.3

Q ss_pred             HHhcCCHHHHHHHHHH
Q 009255          195 NCKAGNMEEAFRMMDV  210 (539)
Q Consensus       195 ~~~~~~~~~a~~~~~~  210 (539)
                      +.-.|+++.|++.+..
T Consensus       268 LlLtgqFE~AI~~L~~  283 (613)
T PF04097_consen  268 LLLTGQFEAAIEFLYR  283 (613)
T ss_dssp             HHHTT-HHHHHHHHHT
T ss_pred             HHHHhhHHHHHHHHHh
Confidence            3445666666665544

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=90.87  E-value=2.5  Score=35.31  Aligned_cols=122  Identities=11%  Similarity=-0.028  Sum_probs=76.6

Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCChh-hHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCH-hhHHHHHHHHHhcCCHH
Q 009255          370 LCREGILEKALKFFRSWILKGKAVDSV-TYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDR-YTYAAIHTALVESGRLE  447 (539)
Q Consensus       370 ~~~~g~~~~A~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~  447 (539)
                      |.....+..|+..+.+.+..  .|++. -|..-+.++.+.++++.+..--.++++  +.||. .....++.+......++
T Consensus        20 ~f~~k~y~~ai~~y~raI~~--nP~~~~Y~tnralchlk~~~~~~v~~dcrralq--l~~N~vk~h~flg~~~l~s~~~~   95 (284)
T KOG4642|consen   20 CFIPKRYDDAIDCYSRAICI--NPTVASYYTNRALCHLKLKHWEPVEEDCRRALQ--LDPNLVKAHYFLGQWLLQSKGYD   95 (284)
T ss_pred             ccchhhhchHHHHHHHHHhc--CCCcchhhhhHHHHHHHhhhhhhhhhhHHHHHh--cChHHHHHHHHHHHHHHhhcccc
Confidence            45556788888877777764  45554 345666777778888888777666664  35553 34445666777778888


Q ss_pred             HHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHH
Q 009255          448 EAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEET  508 (539)
Q Consensus       448 ~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  508 (539)
                      +|+..+.++......             ..+++....+..|..+--..=...++.++.++.
T Consensus        96 eaI~~Lqra~sl~r~-------------~~~~~~~di~~~L~~ak~~~w~v~e~~Ri~Q~~  143 (284)
T KOG4642|consen   96 EAIKVLQRAYSLLRE-------------QPFTFGDDIPKALRDAKKKRWEVSEEKRIRQEL  143 (284)
T ss_pred             HHHHHHHHHHHHHhc-------------CCCCCcchHHHHHHHHHhCccchhHHHHHHHHh
Confidence            888888888554421             111334447777666554444455555555544

>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=90.78  E-value=3.9  Score=33.36  Aligned_cols=77  Identities=17%  Similarity=0.061  Sum_probs=47.5

Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhC---CCCCCHhhHHHHHHHHHhcCCHHH
Q 009255          372 REGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEK---KLGPDRYTYAAIHTALVESGRLEE  448 (539)
Q Consensus       372 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~g~~~~  448 (539)
                      +.|+ +.|.+.|-.+...+.--++.....|+..|. ..+.++++.++-++.+.   +-.+|+..+..|+..+.+.|+++.
T Consensus       119 r~~d-~~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~  196 (203)
T PF11207_consen  119 RFGD-QEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQ  196 (203)
T ss_pred             ccCc-HHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhh
Confidence            3344 556666666655544445555555555444 45677777777776654   224566777777777777777777


Q ss_pred             HH
Q 009255          449 AQ  450 (539)
Q Consensus       449 A~  450 (539)
                      |-
T Consensus       197 AY  198 (203)
T PF11207_consen  197 AY  198 (203)
T ss_pred             hh
Confidence            63

>KOG0376 consensus Serine-threonine phosphatase 2A, catalytic subunit [General function prediction only]

Probab=90.70  E-value=0.73  Score=42.56  Aligned_cols=103  Identities=19%  Similarity=0.213  Sum_probs=76.5

Q ss_pred             HHHHccCChHHHHHHHHHHHhCCCCCCHhhHH-HHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCC
Q 009255          403 SSLCKERRLEDAFGLLSEMEEKKLGPDRYTYA-AIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPS  481 (539)
Q Consensus       403 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  481 (539)
                      ......+.++.|+.++.++++.  .||...|. .-..++.+.+++..|..=..++++..                   |+
T Consensus        12 n~~l~~~~fd~avdlysKaI~l--dpnca~~~anRa~a~lK~e~~~~Al~Da~kaie~d-------------------P~   70 (476)
T KOG0376|consen   12 NEALKDKVFDVAVDLYSKAIEL--DPNCAIYFANRALAHLKVESFGGALHDALKAIELD-------------------PT   70 (476)
T ss_pred             hhhcccchHHHHHHHHHHHHhc--CCcceeeechhhhhheeechhhhHHHHHHhhhhcC-------------------ch
Confidence            3445667888888888888854  67655444 33467778888888888888888876                   55


Q ss_pred             hh-hHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 009255          482 SI-SYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGLI  528 (539)
Q Consensus       482 ~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~  528 (539)
                      .. .|..-+.++.+.+++.+|+..|+....  +.|+...+...+..|-
T Consensus        71 ~~K~Y~rrg~a~m~l~~~~~A~~~l~~~~~--l~Pnd~~~~r~~~Ec~  116 (476)
T KOG0376|consen   71 YIKAYVRRGTAVMALGEFKKALLDLEKVKK--LAPNDPDATRKIDECN  116 (476)
T ss_pred             hhheeeeccHHHHhHHHHHHHHHHHHHhhh--cCcCcHHHHHHHHHHH
Confidence            55 777777778888888888888888875  6788888877777664

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=90.57  E-value=9.3  Score=32.01  Aligned_cols=95  Identities=12%  Similarity=0.061  Sum_probs=50.0

Q ss_pred             HHHHHHhc-CCHHHHHHHHHHHHHc--CCCCChh---hHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhH------
Q 009255          366 LLSGLCRE-GILEKALKFFRSWILK--GKAVDSV---TYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTY------  433 (539)
Q Consensus       366 l~~~~~~~-g~~~~A~~~~~~~~~~--~~~~~~~---~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~------  433 (539)
                      +...|... .+++.|+..+++.-+-  |-..+..   .+.....--...+++.+|+.+|++.....+..+.--|      
T Consensus       119 iaEiyEsdl~d~ekaI~~YE~Aae~yk~ees~ssANKC~lKvA~yaa~leqY~~Ai~iyeqva~~s~~n~LLKys~Kdyf  198 (288)
T KOG1586|consen  119 IAEIYESDLQDFEKAIAHYEQAAEYYKGEESVSSANKCLLKVAQYAAQLEQYSKAIDIYEQVARSSLDNNLLKYSAKDYF  198 (288)
T ss_pred             HHHHHhhhHHHHHHHHHHHHHHHHHHcchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccchHHHhHHHHHH
Confidence            34444433 4556666666555432  1111222   2222333334567888999999888765443332222      


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          434 AAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       434 ~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      ...+-++.-..+.-.+...+++..+.+
T Consensus       199 lkAgLChl~~~D~v~a~~ALeky~~~d  225 (288)
T KOG1586|consen  199 LKAGLCHLCKADEVNAQRALEKYQELD  225 (288)
T ss_pred             HHHHHHhHhcccHHHHHHHHHHHHhcC
Confidence            112222333467777778888888876

>KOG2471 consensus TPR repeat-containing protein [General function prediction only]

Probab=90.54  E-value=15  Score=34.48  Aligned_cols=123  Identities=11%  Similarity=-0.058  Sum_probs=78.0

Q ss_pred             HHHHccCChHHHHHHHHHHHhC---CCCCCH-----hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCC--CC
Q 009255          403 SSLCKERRLEDAFGLLSEMEEK---KLGPDR-----YTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPN--TS  472 (539)
Q Consensus       403 ~~~~~~~~~~~A~~~~~~~~~~---~~~~~~-----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~--~~  472 (539)
                      ..+.-.|++.+|.+++...--.   |...+.     ..++.++-.+.+.|.+.-+..+|.++++....  +.-.+.  ..
T Consensus       248 q~eY~~gn~~kA~KlL~~sni~~~~g~~~T~q~~~cif~NNlGcIh~~~~~y~~~~~~F~kAL~N~c~--qL~~g~~~~~  325 (696)
T KOG2471|consen  248 QLEYAHGNHPKAMKLLLVSNIHKEAGGTITPQLSSCIFNNNLGCIHYQLGCYQASSVLFLKALRNSCS--QLRNGLKPAK  325 (696)
T ss_pred             HHHHHhcchHHHHHHHHhcccccccCccccchhhhheeecCcceEeeehhhHHHHHHHHHHHHHHHHH--HHhccCCCCc
Confidence            4455678999998887654211   212221     12345666667888888888888888862110  000000  11


Q ss_pred             CCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 009255          473 KTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGLI  528 (539)
Q Consensus       473 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~  528 (539)
                      .............++.+-.|...|++-.|.+.|.+..+. +..+.-.|..+.-+|.
T Consensus       326 ~~tls~nks~eilYNcG~~~Lh~grPl~AfqCf~~av~v-fh~nPrlWLRlAEcCi  380 (696)
T KOG2471|consen  326 TFTLSQNKSMEILYNCGLLYLHSGRPLLAFQCFQKAVHV-FHRNPRLWLRLAECCI  380 (696)
T ss_pred             ceehhcccchhhHHhhhHHHHhcCCcHHHHHHHHHHHHH-HhcCcHHHHHHHHHHH
Confidence            112222234446677888999999999999999999874 6777788888887775

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=90.51  E-value=21  Score=36.02  Aligned_cols=184  Identities=10%  Similarity=0.042  Sum_probs=105.1

Q ss_pred             HHHHHHHHHH-hCCCCCCHH--HHHHHHHHHH-ccCCHhHHHHHHHHHHhCCCCCChh-----hHHHHHHHHHhcCChHH
Q 009255           28 EVRDLLSDMK-KQGLVPNRT--TYNILVSGYC-KLGWLKEAMRVVDLMTQNKSLPDVW-----TYNMLINGWCNAGMLEE   98 (539)
Q Consensus        28 ~a~~~~~~~~-~~~~~~~~~--~~~~l~~~~~-~~g~~~~a~~~~~~~~~~~~~~~~~-----~~~~l~~~~~~~g~~~~   98 (539)
                      .|+..++.+. +..++|...  ++..++..+. ...+++.|...+++.......++..     ....++..+.+.+... 
T Consensus        39 ~ai~CL~~~~~~~~l~p~~ea~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~~~~~~~d~k~~~~~ll~~i~~~~~~~~-  117 (608)
T PF10345_consen   39 TAIKCLEAVLKQFKLSPRQEARVRLRLASILLEETENLDLAETYLEKAILLCERHRLTDLKFRCQFLLARIYFKTNPKA-  117 (608)
T ss_pred             HHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHHhcCHHH-
Confidence            3567777777 334444333  5566676666 7889999999999875442222221     2234556666666555 


Q ss_pred             HHHHHHHHHhCCCC----CChhhHHHH-HHHHhccCCHhHHHHHHHHHHhCC---CCCCHHHHHHHHHHHH--hcCCHhH
Q 009255           99 AFRLRKEMESLKLL----PDVVTYNTL-INRFFESGRSMEAFKLIDELDEHG---IKPNAVTHNIMIKWYC--KEGKIDK  168 (539)
Q Consensus        99 a~~~~~~~~~~~~~----~~~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~--~~g~~~~  168 (539)
                      |.+.+++..+.--.    +-...+..+ +..+...+++..|.+.++.+....   ..|...++..++.+..  +.+..++
T Consensus       118 a~~~l~~~I~~~~~~~~~~w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~~~~v~~~l~~~~l~l~~~~~~d  197 (608)
T PF10345_consen  118 ALKNLDKAIEDSETYGHSAWYYAFRLLKIQLALQHKDYNAALENLQSIAQLANQRGDPAVFVLASLSEALLHLRRGSPDD  197 (608)
T ss_pred             HHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHhcCCCchh
Confidence            88888886653111    112223333 233333479999999998886542   2333444444544443  4555666


Q ss_pred             HHHHHHHHHHcC---------CCCChhhHHHHHHHH--HhcCCHHHHHHHHHHHh
Q 009255          169 ACKIVRNMEENG---------FSPDCVTYNTLIDAN--CKAGNMEEAFRMMDVMG  212 (539)
Q Consensus       169 a~~~~~~~~~~~---------~~~~~~~~~~l~~~~--~~~~~~~~a~~~~~~~~  212 (539)
                      +.+.++.+....         ..|...+|..++..+  ...|+++.+...++++.
T Consensus       198 ~~~~l~~~~~~~~~~q~~~~~~~~qL~~~~lll~l~~~l~~~~~~~~~~~L~~lq  252 (608)
T PF10345_consen  198 VLELLQRAIAQARSLQLDPSVHIPQLKALFLLLDLCCSLQQGDVKNSKQKLKQLQ  252 (608)
T ss_pred             HHHHHHHHHHHHhhcccCCCCCcHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            777776663321         123445666666554  46777777777666553

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 [].

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=90.50  E-value=0.77  Score=26.19  Aligned_cols=30  Identities=23%  Similarity=0.257  Sum_probs=23.6

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          431 YTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       431 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      .++..++.+|...|++++|.++++++++..
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al~~~   32 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEALEIR   32 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHHHHH
Confidence            467788888888899999999888887654

>PF07575 Nucleopor_Nup85: Nup85 Nucleoporin; InterPro: IPR011502 This is a family of nucleoporins conserved from yeast to human

Probab=90.43  E-value=14  Score=36.81  Aligned_cols=25  Identities=16%  Similarity=0.283  Sum_probs=14.4

Q ss_pred             HHHHHHHHHHHHccCCHhHHHHHHHH
Q 009255           45 RTTYNILVSGYCKLGWLKEAMRVVDL   70 (539)
Q Consensus        45 ~~~~~~l~~~~~~~g~~~~a~~~~~~   70 (539)
                      +.-|. .+..+.-+|.++.|.+++..
T Consensus       149 p~FW~-~v~~lvlrG~~~~a~~lL~~  173 (566)
T PF07575_consen  149 PDFWD-YVQRLVLRGLFDQARQLLRL  173 (566)
T ss_dssp             HHHHH-HHHHHHHTT-HHHHHHHH-T
T ss_pred             hhHHH-HHHHHHHcCCHHHHHHHHHh
Confidence            44554 45566667777777777643

Nup85 Nucleoporin is an essential component of the nuclear pore complex (NPC) that seems to be required for NPC assembly and maintenance. As part of the NPC Nup107-160 subcomplex plays a role in RNA export and in tethering NUP98/Nup98 and NUP153 to the nucleus. The Nup107-160 complex seems to be required for spindle assembly during mitosis. NUP85 is required for membrane clustering of CCL2-activated CCR2. Seems to be involved in CCR2-mediated chemotaxis of monocytes and may link activated CCR2 to the phosphatidyl-inositol-3-kinase-Rac-lammellipodium protrusion cascade [, , ]. ; PDB: 3F3F_D 3F3P_G 3F3G_G 3EWE_B.

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=90.34  E-value=21  Score=35.76  Aligned_cols=102  Identities=14%  Similarity=0.137  Sum_probs=62.8

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCC---CHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhc
Q 009255           17 LDALFKKGKLNEVRDLLSDMKKQGLVP---NRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNA   93 (539)
Q Consensus        17 ~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   93 (539)
                      ++.+.+.+.+++|+...+.....  .+   -......++..+...|++++|-...-.|...    +..-|...+..+...
T Consensus       363 i~Wll~~k~yeeAl~~~k~~~~~--~~~~~i~kv~~~yI~HLl~~~~y~~Aas~~p~m~gn----~~~eWe~~V~~f~e~  436 (846)
T KOG2066|consen  363 IDWLLEKKKYEEALDAAKASIGN--EERFVIKKVGKTYIDHLLFEGKYDEAASLCPKMLGN----NAAEWELWVFKFAEL  436 (846)
T ss_pred             HHHHHHhhHHHHHHHHHHhccCC--ccccchHHHHHHHHHHHHhcchHHHHHhhhHHHhcc----hHHHHHHHHHHhccc
Confidence            45566778888888777765543  22   2335667777777888888888887777753    555666666666666


Q ss_pred             CChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhc
Q 009255           94 GMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFE  127 (539)
Q Consensus        94 g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  127 (539)
                      ++......+   +.......+...|..++..+..
T Consensus       437 ~~l~~Ia~~---lPt~~~rL~p~vYemvLve~L~  467 (846)
T KOG2066|consen  437 DQLTDIAPY---LPTGPPRLKPLVYEMVLVEFLA  467 (846)
T ss_pred             cccchhhcc---CCCCCcccCchHHHHHHHHHHH
Confidence            655433222   2222112345567777766655

>KOG2471 consensus TPR repeat-containing protein [General function prediction only]

Probab=90.01  E-value=17  Score=34.19  Aligned_cols=109  Identities=14%  Similarity=-0.003  Sum_probs=76.3

Q ss_pred             HHHhcCCHHHHHHHHHHHHH---cCCCCC-----hhhHHHHHHHHHccCChHHHHHHHHHHHh-------CCCCCCH---
Q 009255          369 GLCREGILEKALKFFRSWIL---KGKAVD-----SVTYNTLISSLCKERRLEDAFGLLSEMEE-------KKLGPDR---  430 (539)
Q Consensus       369 ~~~~~g~~~~A~~~~~~~~~---~~~~~~-----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-------~~~~~~~---  430 (539)
                      .+...|++..|.+++...--   .|...+     -..||.|...+.+.|.+.-+..+|.++.+       .|++|..   
T Consensus       249 ~eY~~gn~~kA~KlL~~sni~~~~g~~~T~q~~~cif~NNlGcIh~~~~~y~~~~~~F~kAL~N~c~qL~~g~~~~~~~t  328 (696)
T KOG2471|consen  249 LEYAHGNHPKAMKLLLVSNIHKEAGGTITPQLSSCIFNNNLGCIHYQLGCYQASSVLFLKALRNSCSQLRNGLKPAKTFT  328 (696)
T ss_pred             HHHHhcchHHHHHHHHhcccccccCccccchhhhheeecCcceEeeehhhHHHHHHHHHHHHHHHHHHHhccCCCCccee
Confidence            44557888888888754321   121112     22457787777888888888888887764       3555432   


Q ss_pred             -------hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhc
Q 009255          431 -------YTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQ  495 (539)
Q Consensus       431 -------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  495 (539)
                             .+....+-.+...|++-.|.++|.+.+...                  ..++..|..++.+|...
T Consensus       329 ls~nks~eilYNcG~~~Lh~grPl~AfqCf~~av~vf------------------h~nPrlWLRlAEcCima  382 (696)
T KOG2471|consen  329 LSQNKSMEILYNCGLLYLHSGRPLLAFQCFQKAVHVF------------------HRNPRLWLRLAECCIMA  382 (696)
T ss_pred             hhcccchhhHHhhhHHHHhcCCcHHHHHHHHHHHHHH------------------hcCcHHHHHHHHHHHHH
Confidence                   334456667888999999999999999987                  57778999999888753

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=89.97  E-value=3.1  Score=29.08  Aligned_cols=45  Identities=13%  Similarity=0.025  Sum_probs=26.8

Q ss_pred             HHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 009255          414 AFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVE  458 (539)
Q Consensus       414 A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  458 (539)
                      +.+-++.+....+-|++.+..+.+++|.+.+|+..|.++++....
T Consensus        26 ~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~   70 (103)
T cd00923          26 LRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKD   70 (103)
T ss_pred             HHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            334444444445566666666666666666666666666665553

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=89.69  E-value=2.7  Score=36.63  Aligned_cols=105  Identities=16%  Similarity=0.132  Sum_probs=65.2

Q ss_pred             hCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCC---CCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC
Q 009255           38 KQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNK---SLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPD  114 (539)
Q Consensus        38 ~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  114 (539)
                      ..|.+.+..+...++..-....+++.+...+-++....   ..|+. +-..+++.+. .-+.++++.++..=++.|+-||
T Consensus        57 ~~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~-~~~~~irlll-ky~pq~~i~~l~npIqYGiF~d  134 (418)
T KOG4570|consen   57 ERGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNW-TIHTWIRLLL-KYDPQKAIYTLVNPIQYGIFPD  134 (418)
T ss_pred             hcCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccc-cHHHHHHHHH-ccChHHHHHHHhCcchhccccc
Confidence            34555555555556655556677777777766665431   11221 1122333332 3356677777777777788888


Q ss_pred             hhhHHHHHHHHhccCCHhHHHHHHHHHHhC
Q 009255          115 VVTYNTLINRFFESGRSMEAFKLIDELDEH  144 (539)
Q Consensus       115 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  144 (539)
                      ..+++.++..+.+.+++.+|.++.-.|...
T Consensus       135 qf~~c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  135 QFTFCLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             hhhHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            888888888888888888877777666554

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=89.62  E-value=3.8  Score=28.99  Aligned_cols=45  Identities=13%  Similarity=0.052  Sum_probs=20.3

Q ss_pred             HHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 009255          345 LQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILK  389 (539)
Q Consensus       345 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  389 (539)
                      .+-+..+.....-|++.+..+.+++|.+.+++.-|.++|+.+..+
T Consensus        30 rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K   74 (108)
T PF02284_consen   30 RRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDK   74 (108)
T ss_dssp             HHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            333444444444455555555555555555555555555554443

9.3.1 from EC) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptidic subunits. One of these subunits is known as Va.; GO: 0004129 cytochrome-c oxidase activity; PDB: 2DYR_R 3AG1_E 3ABL_E 1V54_R 2EIJ_R 1OCR_E 2DYS_E 2EIM_E 2OCC_E 3ASN_R ....

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=89.42  E-value=2.7  Score=37.07  Aligned_cols=56  Identities=11%  Similarity=0.024  Sum_probs=29.1

Q ss_pred             HHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 009255          332 IHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWIL  388 (539)
Q Consensus       332 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  388 (539)
                      ..-|.+.|.+++|+..|...+... +-++.++..-..+|.+...+..|+.-...++.
T Consensus       104 GN~yFKQgKy~EAIDCYs~~ia~~-P~NpV~~~NRA~AYlk~K~FA~AE~DC~~Aia  159 (536)
T KOG4648|consen  104 GNTYFKQGKYEEAIDCYSTAIAVY-PHNPVYHINRALAYLKQKSFAQAEEDCEAAIA  159 (536)
T ss_pred             hhhhhhccchhHHHHHhhhhhccC-CCCccchhhHHHHHHHHHHHHHHHHhHHHHHH
Confidence            344555566666666665555442 11445555555555555555555554444443

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=89.41  E-value=24  Score=35.04  Aligned_cols=79  Identities=20%  Similarity=0.164  Sum_probs=38.0

Q ss_pred             hHHHHHHHHHHHhCCCCCChhhHHHHHHH-----HhccCCHhHHHHHHHHHHh-------CCCCCCHHHHHHHHHHHHhc
Q 009255           96 LEEAFRLRKEMESLKLLPDVVTYNTLINR-----FFESGRSMEAFKLIDELDE-------HGIKPNAVTHNIMIKWYCKE  163 (539)
Q Consensus        96 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-----~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~  163 (539)
                      ...+.+.++...+.|   +......+..+     +....+.+.|+.+|+.+.+       .|   .+....-+..+|.+.
T Consensus       228 ~~~a~~~~~~~a~~g---~~~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g  301 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLG---HSEAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQG  301 (552)
T ss_pred             hhHHHHHHHHHHhhc---chHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcC
Confidence            345666666666554   22222222222     2234566667766666655       22   222333444444442


Q ss_pred             C-----CHhHHHHHHHHHHHcC
Q 009255          164 G-----KIDKACKIVRNMEENG  180 (539)
Q Consensus       164 g-----~~~~a~~~~~~~~~~~  180 (539)
                      .     +.+.|..++....+.|
T Consensus       302 ~~~~~~d~~~A~~~~~~aA~~g  323 (552)
T KOG1550|consen  302 LGVEKIDYEKALKLYTKAAELG  323 (552)
T ss_pred             CCCccccHHHHHHHHHHHHhcC
Confidence            2     3444555555555544

>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=89.32  E-value=0.92  Score=24.42  Aligned_cols=29  Identities=21%  Similarity=0.284  Sum_probs=23.0

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          432 TYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       432 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      ++..++..+...|++++|.+.++++++..
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~~~   31 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKALELN   31 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            56677788888888888888888888765

...

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=89.24  E-value=25  Score=34.96  Aligned_cols=178  Identities=16%  Similarity=0.099  Sum_probs=96.8

Q ss_pred             hHHHHHHHHHHHhCCCCCCHHHHHHHHHHH-----HccCCHhHHHHHHHHHHh-------CCCCCChhhHHHHHHHHHhc
Q 009255           26 LNEVRDLLSDMKKQGLVPNRTTYNILVSGY-----CKLGWLKEAMRVVDLMTQ-------NKSLPDVWTYNMLINGWCNA   93 (539)
Q Consensus        26 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~-----~~~g~~~~a~~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~   93 (539)
                      ...|..+++.....|   +......++.+|     ....|.+.|..+|+.+..       .+   .+.....+..+|.+.
T Consensus       228 ~~~a~~~~~~~a~~g---~~~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g  301 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLG---HSEAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQG  301 (552)
T ss_pred             hhHHHHHHHHHHhhc---chHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcC
Confidence            456888888887776   333333333333     355688888888888766       43   233455566666653


Q ss_pred             C-----ChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhc-cCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHH----hc
Q 009255           94 G-----MLEEAFRLRKEMESLKLLPDVVTYNTLINRFFE-SGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYC----KE  163 (539)
Q Consensus        94 g-----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~----~~  163 (539)
                      .     +.+.|..++.+....| .|+.......+..... ..+...|.++|......|..   ..+..+..+|.    ..
T Consensus       302 ~~~~~~d~~~A~~~~~~aA~~g-~~~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~~---~A~~~la~~y~~G~gv~  377 (552)
T KOG1550|consen  302 LGVEKIDYEKALKLYTKAAELG-NPDAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGHI---LAIYRLALCYELGLGVE  377 (552)
T ss_pred             CCCccccHHHHHHHHHHHHhcC-CchHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCCh---HHHHHHHHHHHhCCCcC
Confidence            3     5566888888877766 3333332222221111 23567788888887776543   22222222222    12


Q ss_pred             CCHhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 009255          164 GKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKG  215 (539)
Q Consensus       164 g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  215 (539)
                      .+...|..++++..+.| .|...--...+..+.. +.++.+.-.+..+...|
T Consensus       378 r~~~~A~~~~k~aA~~g-~~~A~~~~~~~~~~g~-~~~~~~~~~~~~~a~~g  427 (552)
T KOG1550|consen  378 RNLELAFAYYKKAAEKG-NPSAAYLLGAFYEYGV-GRYDTALALYLYLAELG  427 (552)
T ss_pred             CCHHHHHHHHHHHHHcc-ChhhHHHHHHHHHHcc-ccccHHHHHHHHHHHhh
Confidence            35677777777777765 2222222222233333 55565555555555444

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=89.16  E-value=4.3  Score=28.39  Aligned_cols=40  Identities=13%  Similarity=0.125  Sum_probs=17.3

Q ss_pred             HHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 009255          348 HNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWI  387 (539)
Q Consensus       348 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  387 (539)
                      +..+.....-|++.+..+.+++|.+.+++.-|.++|+.+.
T Consensus        30 mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK   69 (103)
T cd00923          30 LNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIK   69 (103)
T ss_pred             HHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            3333333344444444444444444444444444444333

Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Va is one of three mammalian subunits that lacks a transmembrane region. Subunit Va is located on the matrix side of the membrane and binds thyroid hormone T2, releasing allosteric inhibition caused by the binding of ATP to subunit IV and allowing high turnover at elevated intramitochondrial ATP/ADP ratios.

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=89.05  E-value=0.41  Score=37.31  Aligned_cols=84  Identities=15%  Similarity=0.182  Sum_probs=45.7

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCC
Q 009255          366 LLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGR  445 (539)
Q Consensus       366 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  445 (539)
                      ++..+.+.+.++....+++.+...+...+....+.++..|++.++.++..++++...  +     .-...++..|.+.|.
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~--~-----yd~~~~~~~c~~~~l   85 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTSN--N-----YDLDKALRLCEKHGL   85 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSS--S-----S-CTHHHHHHHTTTS
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHccccc--c-----cCHHHHHHHHHhcch
Confidence            344455556666666666666655444455666666677766666566666555211  1     112345555666666


Q ss_pred             HHHHHHHHHHH
Q 009255          446 LEEAQKFTSIM  456 (539)
Q Consensus       446 ~~~A~~~~~~~  456 (539)
                      +++|.-++.++
T Consensus        86 ~~~a~~Ly~~~   96 (143)
T PF00637_consen   86 YEEAVYLYSKL   96 (143)
T ss_dssp             HHHHHHHHHCC
T ss_pred             HHHHHHHHHHc
Confidence            66666655543

These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. This entry represents the 7-fold alpha-alpha-superhelical ARM-type repeat found at the C-terminal of clathrin heavy chains and in VPS (vacuolar protein sorting-associated) proteins. In clathrin heavy chains, the C-terminal 7-fold ARM-type repeats interact to form the central hub of the triskelion. VPS proteins are required for vacuolar assembly and vacuolar traffick, and contain one clathrin-type repeat []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport; PDB: 3LVH_A 3LVG_C 1B89_A 3QIL_L.

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=88.92  E-value=4.9  Score=33.14  Aligned_cols=65  Identities=12%  Similarity=0.172  Sum_probs=48.0

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCC
Q 009255          434 AAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGI  513 (539)
Q Consensus       434 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  513 (539)
                      ...+..+.+.+...+|+...+.-++..                  |.+...-..+...|+-.|+|++|.--++-+-+  +
T Consensus         5 ~~t~seLL~~~sL~dai~~a~~qVkak------------------Ptda~~RhflfqLlcvaGdw~kAl~Ql~l~a~--l   64 (273)
T COG4455           5 RDTISELLDDNSLQDAIGLARDQVKAK------------------PTDAGGRHFLFQLLCVAGDWEKALAQLNLAAT--L   64 (273)
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHhcC------------------CccccchhHHHHHHhhcchHHHHHHHHHHHhh--c
Confidence            344566777888899998888888776                  33444777888889999999999888877665  4


Q ss_pred             CCCHH
Q 009255          514 AINKS  518 (539)
Q Consensus       514 ~p~~~  518 (539)
                      .|+..
T Consensus        65 ~p~~t   69 (273)
T COG4455          65 SPQDT   69 (273)
T ss_pred             Ccccc
Confidence            55544

>PRK10941 hypothetical protein; Provisional

Probab=88.78  E-value=5.9  Score=34.59  Aligned_cols=70  Identities=10%  Similarity=0.035  Sum_probs=56.5

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCC
Q 009255          434 AAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGI  513 (539)
Q Consensus       434 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  513 (539)
                      ..+-.++.+.++++.|.++.+.++...                  |.++.-+.-.+-.|.+.|.+..|..-++..++.  
T Consensus       185 ~nLK~~~~~~~~~~~AL~~~e~ll~l~------------------P~dp~e~RDRGll~~qL~c~~~A~~DL~~fl~~--  244 (269)
T PRK10941        185 DTLKAALMEEKQMELALRASEALLQFD------------------PEDPYEIRDRGLIYAQLDCEHVALSDLSYFVEQ--  244 (269)
T ss_pred             HHHHHHHHHcCcHHHHHHHHHHHHHhC------------------CCCHHHHHHHHHHHHHcCCcHHHHHHHHHHHHh--
Confidence            456677889999999999999999997                  334447888899999999999999999999873  


Q ss_pred             CCCHHHHHHH
Q 009255          514 AINKSTYMNL  523 (539)
Q Consensus       514 ~p~~~~~~~~  523 (539)
                      .|+.+....+
T Consensus       245 ~P~dp~a~~i  254 (269)
T PRK10941        245 CPEDPISEMI  254 (269)
T ss_pred             CCCchhHHHH
Confidence            5555544433

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=88.74  E-value=3.9  Score=33.71  Aligned_cols=77  Identities=18%  Similarity=0.210  Sum_probs=52.0

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCC--CChhhHHHHHHH
Q 009255           12 TYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSL--PDVWTYNMLING   89 (539)
Q Consensus        12 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~   89 (539)
                      |.+..+..+.+.++.++++...+.=.+.. |.+......++..++-.|++++|..-++.+.+..+.  +...+|..+|.+
T Consensus         3 Tl~~t~seLL~~~sL~dai~~a~~qVkak-Ptda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir~   81 (273)
T COG4455           3 TLRDTISELLDDNSLQDAIGLARDQVKAK-PTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIRC   81 (273)
T ss_pred             chHHHHHHHHHhccHHHHHHHHHHHHhcC-CccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHHH
Confidence            44556677777888888888877766654 556667777888888888888888777776654322  234455555543

>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=88.41  E-value=1.1  Score=29.77  Aligned_cols=52  Identities=15%  Similarity=0.142  Sum_probs=40.8

Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChh-hHHHHHHHHhhcCCHHHHHHHHHH
Q 009255          440 LVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSI-SYSEKINEHCSQGRYKDALQIFEE  507 (539)
Q Consensus       440 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~  507 (539)
                      +....+.++|+..|+++++....                +|+-. ++..++.+|+..|++.++++.--+
T Consensus        16 LY~~~~~~~Al~~W~~aL~k~~~----------------~~~rf~~lG~l~qA~~e~Gkyr~~L~fA~~   68 (80)
T PF10579_consen   16 LYHQNETQQALQKWRKALEKITD----------------REDRFRVLGYLIQAHMEWGKYREMLAFALQ   68 (80)
T ss_pred             HhccchHHHHHHHHHHHHhhcCC----------------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34778899999999999998743                33333 777889999999999999887544

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

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=88.16  E-value=31  Score=34.77  Aligned_cols=154  Identities=16%  Similarity=0.160  Sum_probs=60.7

Q ss_pred             HHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCC-CCCCHHhHHHHHHHHHh---
Q 009255          297 IWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKS-FKPDIVTCNILLSGLCR---  372 (539)
Q Consensus       297 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~---  372 (539)
                      ..++.-.|+++.|++++-+  ......+..++...+..|.-.+-.....   ..+.... -.|..--+..++..|.+   
T Consensus       265 f~~LlLtgqFE~AI~~L~~--~~~~~~dAVH~AIaL~~~gLL~~~~~~~---~~lls~~~~~~~~ln~arLI~~Y~~~F~  339 (613)
T PF04097_consen  265 FQVLLLTGQFEAAIEFLYR--NEFNRVDAVHFAIALAYYGLLRVSDSSS---APLLSVDPGDPPPLNFARLIGQYTRSFE  339 (613)
T ss_dssp             HHHHHHTT-HHHHHHHHHT----T-HHHHHHHHHHHHHTT---------------------------HHHHHHHHHHTTT
T ss_pred             HHHHHHHhhHHHHHHHHHh--hccCcccHHHHHHHHHHcCCCCCCCccc---cceeeecCCCCCCcCHHHHHHHHHHHHh
Confidence            4455667888888888765  1122334444444433332211111111   2222211 01111345566666665   


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCChh-hH-HHHHHHHHccCChHHHH-----------HHHHH---HHhCCCC-CCH---hh
Q 009255          373 EGILEKALKFFRSWILKGKAVDSV-TY-NTLISSLCKERRLEDAF-----------GLLSE---MEEKKLG-PDR---YT  432 (539)
Q Consensus       373 ~g~~~~A~~~~~~~~~~~~~~~~~-~~-~~l~~~~~~~~~~~~A~-----------~~~~~---~~~~~~~-~~~---~~  432 (539)
                      ..++.+|..++--+....- |+.. .+ ..+-......++++.-+           .++++   ++  ++. ++.   .+
T Consensus       340 ~td~~~Al~Y~~li~~~~~-~~~~~l~~~~l~eLvletref~~LLG~i~~dG~r~~G~i~~~~~Li--~~~~~~~~~~~i  416 (613)
T PF04097_consen  340 ITDPREALQYLYLICLFKD-PEQRNLFHECLRELVLETREFDLLLGDINPDGSRTPGLIERRLSLI--KFDDDEDFLREI  416 (613)
T ss_dssp             TT-HHHHHHHHHGGGGS-S-CCHHHHHHHHHHHHHHHH--HHHHHEEE-TTS-EEE-HHHHTGGGG--T-SSSSHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHcCC-chHHHHHHHHHHHHHHccCCHHHHCCCCCCCCccccceeecccccc--CCCCcHHHHHHH
Confidence            4567777777755544311 1211 11 12222222233222211           12222   11  122 121   33


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHH
Q 009255          433 YAAIHTALVESGRLEEAQKFTSIMVE  458 (539)
Q Consensus       433 ~~~l~~~~~~~g~~~~A~~~~~~~~~  458 (539)
                      ....+.-+...|++++|+.+|..+-+
T Consensus       417 ~~~~A~~~e~~g~~~dAi~Ly~La~~  442 (613)
T PF04097_consen  417 IEQAAREAEERGRFEDAILLYHLAEE  442 (613)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHTT-
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHhh
Confidence            44556667788999999998876654

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.

>KOG0545 consensus Aryl-hydrocarbon receptor-interacting protein [Posttranslational modification, protein turnover, chaperones]

Probab=88.02  E-value=12  Score=31.54  Aligned_cols=66  Identities=11%  Similarity=0.146  Sum_probs=52.8

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChh-hHHHHHHHHhhcCCHHHHHHHHHHHHH
Q 009255          432 TYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSI-SYSEKINEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       432 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~  510 (539)
                      .+.....++...|++-++++....++...                   |++. +|..-+.+.+..=+..+|.+-|.++++
T Consensus       232 LllNy~QC~L~~~e~yevleh~seiL~~~-------------------~~nvKA~frRakAhaa~Wn~~eA~~D~~~vL~  292 (329)
T KOG0545|consen  232 LLLNYCQCLLKKEEYYEVLEHCSEILRHH-------------------PGNVKAYFRRAKAHAAVWNEAEAKADLQKVLE  292 (329)
T ss_pred             HHHhHHHHHhhHHHHHHHHHHHHHHHhcC-------------------CchHHHHHHHHHHHHhhcCHHHHHHHHHHHHh
Confidence            34455567778899999999999999887                   5555 898889999888899999999999987


Q ss_pred             cCCCCCHH
Q 009255          511 KGIAINKS  518 (539)
Q Consensus       511 ~~~~p~~~  518 (539)
                        +.|...
T Consensus       293 --ldpsla  298 (329)
T KOG0545|consen  293 --LDPSLA  298 (329)
T ss_pred             --cChhhH
Confidence              456643

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=87.81  E-value=9.2  Score=33.57  Aligned_cols=100  Identities=17%  Similarity=0.178  Sum_probs=60.0

Q ss_pred             CCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCC---CCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHH
Q 009255          323 PDETTFNTIIHGFCSEGQVEKALQFHNKMVEKS---FKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYN  399 (539)
Q Consensus       323 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  399 (539)
                      ....+...++..-....+++.+...+-++....   ..|+...+ ..++.+. .-++++++.++..=+..|+-||..+++
T Consensus        62 ~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~-~~irlll-ky~pq~~i~~l~npIqYGiF~dqf~~c  139 (418)
T KOG4570|consen   62 VSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIH-TWIRLLL-KYDPQKAIYTLVNPIQYGIFPDQFTFC  139 (418)
T ss_pred             cceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHH-HHHHHHH-ccChHHHHHHHhCcchhccccchhhHH
Confidence            344455555555555667777777776665431   11121111 1222222 235667777777767777777888888


Q ss_pred             HHHHHHHccCChHHHHHHHHHHHhC
Q 009255          400 TLISSLCKERRLEDAFGLLSEMEEK  424 (539)
Q Consensus       400 ~l~~~~~~~~~~~~A~~~~~~~~~~  424 (539)
                      .++..+.+.+++.+|.++.-.|...
T Consensus       140 ~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  140 LLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             HHHHHHHhcccHHHHHHHHHHHHHH
Confidence            8888888888887777777666644

>smart00028 TPR Tetratricopeptide repeats

Probab=87.79  E-value=1.1  Score=23.25  Aligned_cols=27  Identities=22%  Similarity=0.332  Sum_probs=24.8

Q ss_pred             hHHHHHHHHhhcCCHHHHHHHHHHHHH
Q 009255          484 SYSEKINEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       484 ~~~~l~~~~~~~g~~~~A~~~~~~~~~  510 (539)
                      .|..++..+...|++++|...+++.++
T Consensus         3 ~~~~~a~~~~~~~~~~~a~~~~~~~~~   29 (34)
T smart00028        3 ALYNLGNAYLKLGDYDEALEYYEKALE   29 (34)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHc
Confidence            577889999999999999999999986

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.

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=87.64  E-value=26  Score=33.30  Aligned_cols=164  Identities=12%  Similarity=0.117  Sum_probs=75.9

Q ss_pred             CHHhHHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHH
Q 009255          219 NTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIW  298 (539)
Q Consensus       219 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  298 (539)
                      |...+..++..+.......-+..+..++...|-  +...+..++.+|... ..+.-..+|+++.+..+. |...-..|+.
T Consensus        65 ~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~e--~kmal~el~q~y~en-~n~~l~~lWer~ve~dfn-Dvv~~ReLa~  140 (711)
T COG1747          65 DDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYGE--SKMALLELLQCYKEN-GNEQLYSLWERLVEYDFN-DVVIGRELAD  140 (711)
T ss_pred             cchHHHHHHHHhccchHHHHHHHHHHHHHHhcc--hHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcch-hHHHHHHHHH
Confidence            444445555555555555555555555555432  344555555555555 444555555555555443 3333334444


Q ss_pred             HHHcCCCHHHHHHHHHHHHHCCCCC-C----HHhHHHHHHHHhcCCCHHHHHHHHHHHHhC-CCCCCHHhHHHHHHHHHh
Q 009255          299 GLSQSGKTEQAIDMLNELLQSGMIP-D----ETTFNTIIHGFCSEGQVEKALQFHNKMVEK-SFKPDIVTCNILLSGLCR  372 (539)
Q Consensus       299 ~~~~~~~~~~a~~~~~~~~~~~~~~-~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~  372 (539)
                      .|-+ ++.+.+..+|.++...-++. .    ...|..+...  -..+.+....+..++.+. |..--...+..+-.-|..
T Consensus       141 ~yEk-ik~sk~a~~f~Ka~yrfI~~~q~~~i~evWeKL~~~--i~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Ys~  217 (711)
T COG1747         141 KYEK-IKKSKAAEFFGKALYRFIPRRQNAAIKEVWEKLPEL--IGDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKYSE  217 (711)
T ss_pred             HHHH-hchhhHHHHHHHHHHHhcchhhhhhHHHHHHHHHHh--ccccHHHHHHHHHHHHHhhccchHHHHHHHHHHHhcc
Confidence            3333 55555555555554431110 0    0122222211  123445555554444432 222223333444445555


Q ss_pred             cCCHHHHHHHHHHHHHc
Q 009255          373 EGILEKALKFFRSWILK  389 (539)
Q Consensus       373 ~g~~~~A~~~~~~~~~~  389 (539)
                      ..++.+|++++..+.+.
T Consensus       218 ~eN~~eai~Ilk~il~~  234 (711)
T COG1747         218 NENWTEAIRILKHILEH  234 (711)
T ss_pred             ccCHHHHHHHHHHHhhh
Confidence            56666666666655544

>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]

Probab=87.34  E-value=36  Score=34.55  Aligned_cols=107  Identities=11%  Similarity=0.138  Sum_probs=58.4

Q ss_pred             HHHHHHHHHHHhCCCCCCHhhHHHHHHHH-HhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChh-hHHHHH
Q 009255          412 EDAFGLLSEMEEKKLGPDRYTYAAIHTAL-VESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSI-SYSEKI  489 (539)
Q Consensus       412 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~l~  489 (539)
                      +.|...|.+.......+...+...++... ...++.+.++.++...+..+                  .-+.. .|...+
T Consensus       443 ~~A~~eLt~~~~~~~Dt~~~~~q~wA~~E~sl~~nmd~~R~iWn~imty~------------------~~~iag~Wle~~  504 (881)
T KOG0128|consen  443 NHAWEELTELYGDQLDTRTEVLQLWAQVEASLLKNMDKAREIWNFIMTYG------------------GGSIAGKWLEAI  504 (881)
T ss_pred             HHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHhhchhhhhHhhhccccCC------------------cchHHHHHHHHH
Confidence            44555555444332233333333444333 24567777777777776655                  23444 566666


Q ss_pred             HHHhhcCCHHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHhcCCchhh
Q 009255          490 NEHCSQGRYKDALQIFEETRQKGIAINK-STYMNLMNGLIKRRKSISK  536 (539)
Q Consensus       490 ~~~~~~g~~~~A~~~~~~~~~~~~~p~~-~~~~~~l~~~~~~~~~~~~  536 (539)
                      +.-...|+...++.+++++...-..|+. .........+-+..+.++.
T Consensus       505 ~lE~~~g~~~~~R~~~R~ay~~~~~~~~~~ev~~~~~r~Ere~gtl~~  552 (881)
T KOG0128|consen  505 NLEREYGDGPSARKVLRKAYSQVVDPEDALEVLEFFRRFEREYGTLES  552 (881)
T ss_pred             hHHHHhCCchhHHHHHHHHHhcCcCchhHHHHHHHHHHHHhccccHHH
Confidence            6666677777777777777765455542 2333334445555555543

>KOG4642 consensus Chaperone-dependent E3 ubiquitin protein ligase (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]

Probab=87.33  E-value=2  Score=35.85  Aligned_cols=80  Identities=13%  Similarity=0.123  Sum_probs=62.0

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChh-hHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCC
Q 009255          438 TALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSI-SYSEKINEHCSQGRYKDALQIFEETRQKGIAIN  516 (539)
Q Consensus       438 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~  516 (539)
                      +-|....+++.|+..|.+++..+                   |+.. -|.+-+-++.+..+++.+..--.++++  +.||
T Consensus        18 nk~f~~k~y~~ai~~y~raI~~n-------------------P~~~~Y~tnralchlk~~~~~~v~~dcrralq--l~~N   76 (284)
T KOG4642|consen   18 NKCFIPKRYDDAIDCYSRAICIN-------------------PTVASYYTNRALCHLKLKHWEPVEEDCRRALQ--LDPN   76 (284)
T ss_pred             ccccchhhhchHHHHHHHHHhcC-------------------CCcchhhhhHHHHHHHhhhhhhhhhhHHHHHh--cChH
Confidence            34556678899999999999887                   7775 667788888888999999888888887  7888


Q ss_pred             HHHHHHHHHHHHhcCCchhhcc
Q 009255          517 KSTYMNLMNGLIKRRKSISKAV  538 (539)
Q Consensus       517 ~~~~~~~l~~~~~~~~~~~~A~  538 (539)
                      .+--...++.++-..+.+.+|+
T Consensus        77 ~vk~h~flg~~~l~s~~~~eaI   98 (284)
T KOG4642|consen   77 LVKAHYFLGQWLLQSKGYDEAI   98 (284)
T ss_pred             HHHHHHHHHHHHHhhccccHHH
Confidence            8877777776655555577664

>KOG4507 consensus Uncharacterized conserved protein, contains TPR repeats [Function unknown]

Probab=87.24  E-value=3.1  Score=39.69  Aligned_cols=93  Identities=12%  Similarity=0.084  Sum_probs=74.3

Q ss_pred             HccCChHHHHHHHHHHHhCCCCCC--HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChh
Q 009255          406 CKERRLEDAFGLLSEMEEKKLGPD--RYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSI  483 (539)
Q Consensus       406 ~~~~~~~~A~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  483 (539)
                      ...|+...|...+..+...  .|-  ......++....+.|-..+|-.++.+.+....                  ..+.
T Consensus       618 r~~gn~~~a~~cl~~a~~~--~p~~~~v~~v~la~~~~~~~~~~da~~~l~q~l~~~~------------------sepl  677 (886)
T KOG4507|consen  618 RAVGNSTFAIACLQRALNL--APLQQDVPLVNLANLLIHYGLHLDATKLLLQALAINS------------------SEPL  677 (886)
T ss_pred             eecCCcHHHHHHHHHHhcc--ChhhhcccHHHHHHHHHHhhhhccHHHHHHHHHhhcc------------------cCch
Confidence            4578999999999988743  443  34456788888899999999999999988772                  4455


Q ss_pred             hHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHH
Q 009255          484 SYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTY  520 (539)
Q Consensus       484 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~  520 (539)
                      ++..++++|....+.+.|++.|+.+++  ..|+....
T Consensus       678 ~~~~~g~~~l~l~~i~~a~~~~~~a~~--~~~~~~~~  712 (886)
T KOG4507|consen  678 TFLSLGNAYLALKNISGALEAFRQALK--LTTKCPEC  712 (886)
T ss_pred             HHHhcchhHHHHhhhHHHHHHHHHHHh--cCCCChhh
Confidence            888899999999999999999999997  46665544

>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]

Probab=86.95  E-value=38  Score=34.41  Aligned_cols=200  Identities=11%  Similarity=0.017  Sum_probs=111.3

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH---ccCCHhHHHHHHHHHHhCCCCCChhhHHH
Q 009255            9 DNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYC---KLGWLKEAMRVVDLMTQNKSLPDVWTYNM   85 (539)
Q Consensus         9 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~---~~g~~~~a~~~~~~~~~~~~~~~~~~~~~   85 (539)
                      +...+..||..+.+.|++++...--..|.+. .|.++..|..-+....   ..++..++..+|++......  ++..|.-
T Consensus       112 ~~~~~v~Li~llrk~~dl~kl~~ar~~~~~~-~pl~~~lWl~Wl~d~~~mt~s~~~~~v~~~~ekal~dy~--~v~iw~e  188 (881)
T KOG0128|consen  112 KYAQMVQLIGLLRKLGDLEKLRQARLEMSEI-APLPPHLWLEWLKDELSMTQSEERKEVEELFEKALGDYN--SVPIWEE  188 (881)
T ss_pred             chHHHHHHHHHHHHhcchHHHHHHHHHHHHh-cCCChHHHHHHHHHHHhhccCcchhHHHHHHHHHhcccc--cchHHHH
Confidence            4556788999999999999888877777776 3667777766554443   45777888888888876532  4445555


Q ss_pred             HHHHHHh-------cCChHHHHHHHHHHHhC-CCCCC--hhhHHH---HHHHHhccCCHhHHHHHHHHHHhCCCCCCHHH
Q 009255           86 LINGWCN-------AGMLEEAFRLRKEMESL-KLLPD--VVTYNT---LINRFFESGRSMEAFKLIDELDEHGIKPNAVT  152 (539)
Q Consensus        86 l~~~~~~-------~g~~~~a~~~~~~~~~~-~~~~~--~~~~~~---l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  152 (539)
                      .+..+..       .++++....+|.+.... |...+  ...|..   +-..|..+-..++...++..-...+  .|..+
T Consensus       189 ~~~y~~~~~~~~~~~~d~k~~R~vf~ral~s~g~~~t~G~~~we~~~E~e~~~l~n~~~~qv~a~~~~el~~~--~D~~~  266 (881)
T KOG0128|consen  189 VVNYLVGFGNVAKKSEDYKKERSVFERALRSLGSHITEGAAIWEMYREFEVTYLCNVEQRQVIALFVRELKQP--LDEDT  266 (881)
T ss_pred             HHHHHHhccccccccccchhhhHHHHHHHhhhhhhhcccHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhcc--chhhh
Confidence            5544433       35677777788776643 21111  112222   2233444444456666666655543  23322


Q ss_pred             HHHHHHHHHh-------cCCHhHHHHH-------HHHHHHcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 009255          153 HNIMIKWYCK-------EGKIDKACKI-------VRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRK  214 (539)
Q Consensus       153 ~~~l~~~~~~-------~g~~~~a~~~-------~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (539)
                      -..-+.-..+       ..+++.+..-       +++..+. .++-...|..++..+.+.|++-.....++++...
T Consensus       267 ~~~~~~~~sk~h~~~~~~~~~~~a~~~l~~~~~~~e~~~q~-~~~~~q~~~~yidfe~~~G~p~ri~l~~eR~~~E  341 (881)
T KOG0128|consen  267 RGWDLSEQSKAHVYDVETKKLDDALKNLAKILFKFERLVQK-EPIKDQEWMSYIDFEKKSGDPVRIQLIEERAVAE  341 (881)
T ss_pred             hHHHHHHHHhcchHHHHhccHHHHHHHHHHHHHHHHHHhhh-hHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHh
Confidence            2211111111       1222333222       2222222 1233445667777777888877766666666543

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=86.95  E-value=20  Score=31.32  Aligned_cols=115  Identities=12%  Similarity=0.222  Sum_probs=67.1

Q ss_pred             HHHHHHHHHHHhh-CCCCCCHHhHHHHHHHHhc-cCC-HHHHHHHHHHHhh-cCCccCHhhHHHHHHHHHccCCHHHHHH
Q 009255          201 MEEAFRMMDVMGR-KGLKMNTITLNTILHTLCC-EKK-LDEAYMLLNSASK-RGYYLDEVSYGTLITGYFRDEKANRALK  276 (539)
Q Consensus       201 ~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~-~~~-~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~  276 (539)
                      +.+|+++|+.... ..+-.|..+...+++.... .+. ...-.++.+.+.. .+..++..+...++..++..+++..-.+
T Consensus       144 Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl~~  223 (292)
T PF13929_consen  144 VVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNKLFQ  223 (292)
T ss_pred             HHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHHHHH
Confidence            4566666653222 2244466666666666654 221 2222222333222 2344566667777777777777777777


Q ss_pred             HHHHHHHc-CCCCCHhhHHHHHHHHHcCCCHHHHHHHHHH
Q 009255          277 LWDEMKER-QIMPSTFTYNAMIWGLSQSGKTEQAIDMLNE  315 (539)
Q Consensus       277 ~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  315 (539)
                      ++...... ++..|...|..++......|+..-..++..+
T Consensus       224 fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~  263 (292)
T PF13929_consen  224 FWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDD  263 (292)
T ss_pred             HHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhC
Confidence            77766554 4455777777778777777777666665554

>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function

Probab=86.07  E-value=19  Score=30.26  Aligned_cols=66  Identities=20%  Similarity=0.094  Sum_probs=43.4

Q ss_pred             hHHHHHHHHHccCChH-------HHHHHHHHHHhCCCCC----C-HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC
Q 009255          397 TYNTLISSLCKERRLE-------DAFGLLSEMEEKKLGP----D-RYTYAAIHTALVESGRLEEAQKFTSIMVETGKI  462 (539)
Q Consensus       397 ~~~~l~~~~~~~~~~~-------~A~~~~~~~~~~~~~~----~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  462 (539)
                      .+..+++.|...|+.+       .|.+.|.+..+..-.|    + ......++....+.|++++|.++|.+++.....
T Consensus       120 l~LrlAWlyR~~~~~~~E~~fl~~Al~~y~~a~~~e~~~~~~~~~~~l~YLigeL~rrlg~~~eA~~~fs~vi~~~~~  197 (214)
T PF09986_consen  120 LCLRLAWLYRDLGDEENEKRFLRKALEFYEEAYENEDFPIEGMDEATLLYLIGELNRRLGNYDEAKRWFSRVIGSKKA  197 (214)
T ss_pred             HHHHHHHHhhccCCHHHHHHHHHHHHHHHHHHHHhCcCCCCCchHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCCCC
Confidence            4555666676666633       4555566555442222    2 234445677888999999999999999987643

>PF08424 NRDE-2: NRDE-2, necessary for RNA interference; InterPro: IPR013633 This is domain is found in eukaryotic proteins of unknown function

Probab=85.87  E-value=27  Score=31.74  Aligned_cols=119  Identities=13%  Similarity=0.078  Sum_probs=64.5

Q ss_pred             HHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHc---cCChHHHHHHH
Q 009255          342 EKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCK---ERRLEDAFGLL  418 (539)
Q Consensus       342 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~~~~~~A~~~~  418 (539)
                      +.-+.+++++++.+ +.+......++..+.+..+.+...+-|+++....+. +...|..++.....   .-.++....+|
T Consensus        48 E~klsilerAL~~n-p~~~~L~l~~l~~~~~~~~~~~l~~~we~~l~~~~~-~~~LW~~yL~~~q~~~~~f~v~~~~~~y  125 (321)
T PF08424_consen   48 ERKLSILERALKHN-PDSERLLLGYLEEGEKVWDSEKLAKKWEELLFKNPG-SPELWREYLDFRQSNFASFTVSDVRDVY  125 (321)
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHCCC-ChHHHHHHHHHHHHHhccCcHHHHHHHH
Confidence            34445555555553 234555555566666666666666666666655222 44555555544332   12344444444


Q ss_pred             HHHHhC------CC------CCC-----HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC
Q 009255          419 SEMEEK------KL------GPD-----RYTYAAIHTALVESGRLEEAQKFTSIMVETGKI  462 (539)
Q Consensus       419 ~~~~~~------~~------~~~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  462 (539)
                      .+.++.      +.      .++     ..++..+...+.++|-.+.|..+++.+++.+..
T Consensus       126 ~~~l~~L~~~~~~~~~~~~~~~~~e~~~l~v~~r~~~fl~~aG~~E~Ava~~Qa~lE~n~~  186 (321)
T PF08424_consen  126 EKCLRALSRRRSGRMTSHPDLPELEEFMLYVFLRLCRFLRQAGYTERAVALWQALLEFNFF  186 (321)
T ss_pred             HHHHHHHHHhhccccccccchhhHHHHHHHHHHHHHHHHHHCCchHHHHHHHHHHHHHHcC
Confidence            444321      11      111     123334445566889999999999999988754

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=85.76  E-value=0.42  Score=37.23  Aligned_cols=83  Identities=16%  Similarity=0.223  Sum_probs=46.9

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCC
Q 009255           16 ILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGM   95 (539)
Q Consensus        16 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~   95 (539)
                      ++..+.+.+.+.....+++.+...+...++..++.++..|++.++.+...++++..       +..-...++..|.+.|.
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~-------~~yd~~~~~~~c~~~~l   85 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTS-------NNYDLDKALRLCEKHGL   85 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSS-------SSS-CTHHHHHHHTTTS
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccc-------cccCHHHHHHHHHhcch
Confidence            45556666677777777777776554555666777777777776666666655511       11222334555555555


Q ss_pred             hHHHHHHHHH
Q 009255           96 LEEAFRLRKE  105 (539)
Q Consensus        96 ~~~a~~~~~~  105 (539)
                      ++++.-++.+
T Consensus        86 ~~~a~~Ly~~   95 (143)
T PF00637_consen   86 YEEAVYLYSK   95 (143)
T ss_dssp             HHHHHHHHHC
T ss_pred             HHHHHHHHHH
Confidence            5555555444

These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. This entry represents the 7-fold alpha-alpha-superhelical ARM-type repeat found at the C-terminal of clathrin heavy chains and in VPS (vacuolar protein sorting-associated) proteins. In clathrin heavy chains, the C-terminal 7-fold ARM-type repeats interact to form the central hub of the triskelion. VPS proteins are required for vacuolar assembly and vacuolar traffick, and contain one clathrin-type repeat []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport; PDB: 3LVH_A 3LVG_C 1B89_A 3QIL_L.

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=85.03  E-value=36  Score=33.16  Aligned_cols=75  Identities=16%  Similarity=0.128  Sum_probs=43.6

Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHH
Q 009255          371 CREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQ  450 (539)
Q Consensus       371 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  450 (539)
                      .+.|+++.|.++..+..      +..-|..|..+....+++..|.+.|.+..+.         ..|+-.+...|+.+.-.
T Consensus       648 l~lgrl~iA~~la~e~~------s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d~---------~~LlLl~t~~g~~~~l~  712 (794)
T KOG0276|consen  648 LKLGRLDIAFDLAVEAN------SEVKWRQLGDAALSAGELPLASECFLRARDL---------GSLLLLYTSSGNAEGLA  712 (794)
T ss_pred             hhcCcHHHHHHHHHhhc------chHHHHHHHHHHhhcccchhHHHHHHhhcch---------hhhhhhhhhcCChhHHH
Confidence            45677777766655432      4556777777777777777777777766532         23444444555554444


Q ss_pred             HHHHHHHHcC
Q 009255          451 KFTSIMVETG  460 (539)
Q Consensus       451 ~~~~~~~~~~  460 (539)
                      .+-....+.+
T Consensus       713 ~la~~~~~~g  722 (794)
T KOG0276|consen  713 VLASLAKKQG  722 (794)
T ss_pred             HHHHHHHhhc
Confidence            4444444443

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=84.44  E-value=5  Score=34.71  Aligned_cols=60  Identities=12%  Similarity=0.051  Sum_probs=39.7

Q ss_pred             HHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHH
Q 009255           47 TYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEME  107 (539)
Q Consensus        47 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  107 (539)
                      ++....+.|...|.+.+|.++.+...+.++ .+...+-.++..+...|+--.+.+-++++.
T Consensus       281 llgkva~~yle~g~~neAi~l~qr~ltldp-L~e~~nk~lm~~la~~gD~is~~khyerya  340 (361)
T COG3947         281 LLGKVARAYLEAGKPNEAIQLHQRALTLDP-LSEQDNKGLMASLATLGDEISAIKHYERYA  340 (361)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHhhcCh-hhhHHHHHHHHHHHHhccchhhhhHHHHHH
Confidence            445556667777777777777777776643 356666677777777777666666555554

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=84.20  E-value=2.8  Score=24.44  Aligned_cols=24  Identities=25%  Similarity=0.508  Sum_probs=13.6

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhC
Q 009255           16 ILDALFKKGKLNEVRDLLSDMKKQ   39 (539)
Q Consensus        16 l~~~~~~~~~~~~a~~~~~~~~~~   39 (539)
                      +..+|...|+.+.|.++++++...
T Consensus         5 LA~ayie~Gd~e~Ar~lL~evl~~   28 (44)
T TIGR03504         5 LARAYIEMGDLEGARELLEEVIEE   28 (44)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHc
Confidence            445555556666666666555543

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.

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=84.14  E-value=21  Score=34.58  Aligned_cols=150  Identities=19%  Similarity=0.135  Sum_probs=78.4

Q ss_pred             ccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHH
Q 009255           57 KLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFK  136 (539)
Q Consensus        57 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  136 (539)
                      -.|+++.|..++..+.+       ...+.++..+.++|..++|+++         .+|..--   .....+.|+++.|.+
T Consensus       598 mrrd~~~a~~vLp~I~k-------~~rt~va~Fle~~g~~e~AL~~---------s~D~d~r---Felal~lgrl~iA~~  658 (794)
T KOG0276|consen  598 LRRDLEVADGVLPTIPK-------EIRTKVAHFLESQGMKEQALEL---------STDPDQR---FELALKLGRLDIAFD  658 (794)
T ss_pred             hhccccccccccccCch-------hhhhhHHhHhhhccchHhhhhc---------CCChhhh---hhhhhhcCcHHHHHH
Confidence            45666666665544432       1234455555666666666543         1222111   222345666777666


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCC
Q 009255          137 LIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGL  216 (539)
Q Consensus       137 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (539)
                      +..+..      +..-|..|..+..+.|++..|.+.|.+...         |..|+-.+...|+.+....+-....+.|.
T Consensus       659 la~e~~------s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~~la~~~~~~g~  723 (794)
T KOG0276|consen  659 LAVEAN------SEVKWRQLGDAALSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLAVLASLAKKQGK  723 (794)
T ss_pred             HHHhhc------chHHHHHHHHHHhhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHHHHHHHHHhhcc
Confidence            655432      445567777777777777777777665443         33455555556665544444444444432


Q ss_pred             CCCHHhHHHHHHHHhccCCHHHHHHHHHHH
Q 009255          217 KMNTITLNTILHTLCCEKKLDEAYMLLNSA  246 (539)
Q Consensus       217 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  246 (539)
                      . |     ....++...|+++++.+++..-
T Consensus       724 ~-N-----~AF~~~~l~g~~~~C~~lLi~t  747 (794)
T KOG0276|consen  724 N-N-----LAFLAYFLSGDYEECLELLIST  747 (794)
T ss_pred             c-c-----hHHHHHHHcCCHHHHHHHHHhc
Confidence            1 2     2223444566666666655443

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=84.05  E-value=55  Score=33.70  Aligned_cols=223  Identities=12%  Similarity=0.070  Sum_probs=118.0

Q ss_pred             HHhcCCHhHHHHHHHHHHHcCCCCChh-------hHHHHH-HHHHhcCCHHHHHHHHHHHhhC----CCCCCHHhHHHHH
Q 009255          160 YCKEGKIDKACKIVRNMEENGFSPDCV-------TYNTLI-DANCKAGNMEEAFRMMDVMGRK----GLKMNTITLNTIL  227 (539)
Q Consensus       160 ~~~~g~~~~a~~~~~~~~~~~~~~~~~-------~~~~l~-~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~l~  227 (539)
                      .....++++|..++.++...-..|+..       .++.+- ......|++++|.++.+.....    -..+....+..+.
T Consensus       425 ~~s~~r~~ea~~li~~l~~~l~~~~~~~~~~l~ae~~aL~a~val~~~~~e~a~~lar~al~~L~~~~~~~r~~~~sv~~  504 (894)
T COG2909         425 LASQHRLAEAETLIARLEHFLKAPMHSRQGDLLAEFQALRAQVALNRGDPEEAEDLARLALVQLPEAAYRSRIVALSVLG  504 (894)
T ss_pred             HHHccChHHHHHHHHHHHHHhCcCcccchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcccccchhhhhhhhhhh
Confidence            345788999999988876542222221       222222 2234578899999888877654    1223444556667


Q ss_pred             HHHhccCCHHHHHHHHHHHhhcCCccCHhhH---HHH--HHHHHccCCH--HHHHHHHHHHHHc----CCC--CCHhhHH
Q 009255          228 HTLCCEKKLDEAYMLLNSASKRGYYLDEVSY---GTL--ITGYFRDEKA--NRALKLWDEMKER----QIM--PSTFTYN  294 (539)
Q Consensus       228 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~---~~l--~~~~~~~~~~--~~a~~~~~~~~~~----~~~--~~~~~~~  294 (539)
                      .+..-.|+++.|..+.....+.....+...+   ..+  ...+..+|+.  .+....|......    .+.  +-..+..
T Consensus       505 ~a~~~~G~~~~Al~~~~~a~~~a~~~~~~~l~~~~~~~~s~il~~qGq~~~a~~~~~~~~~~~q~l~q~~~~~f~~~~r~  584 (894)
T COG2909         505 EAAHIRGELTQALALMQQAEQMARQHDVYHLALWSLLQQSEILEAQGQVARAEQEKAFNLIREQHLEQKPRHEFLVRIRA  584 (894)
T ss_pred             HHHHHhchHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHH
Confidence            7777889999999888877665322233322   222  1234456632  2333333333221    111  1123344


Q ss_pred             HHHHHHHcCCCHHHHHHHHHH----HHHCCCCCCHHhH--HHHHHHHhcCCCHHHHHHHHHHHHhCCCCC----CHHhHH
Q 009255          295 AMIWGLSQSGKTEQAIDMLNE----LLQSGMIPDETTF--NTIIHGFCSEGQVEKALQFHNKMVEKSFKP----DIVTCN  364 (539)
Q Consensus       295 ~l~~~~~~~~~~~~a~~~~~~----~~~~~~~~~~~~~--~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~----~~~~~~  364 (539)
                      .+..++.+   .+.+..-...    .......|-....  ..++......|+.++|...+.++......+    +.....
T Consensus       585 ~ll~~~~r---~~~~~~ear~~~~~~~~~~~~~~~~~~~~~~LA~l~~~~Gdl~~A~~~l~~~~~l~~~~~~~~~~~a~~  661 (894)
T COG2909         585 QLLRAWLR---LDLAEAEARLGIEVGSVYTPQPLLSRLALSMLAELEFLRGDLDKALAQLDELERLLLNGQYHVDYLAAA  661 (894)
T ss_pred             HHHHHHHH---HhhhhHHhhhcchhhhhcccchhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcCCCCCchHHHHH
Confidence            44444444   3333222222    1222222222222  366777888999999999998887643222    222222


Q ss_pred             HHHH--HHHhcCCHHHHHHHHHH
Q 009255          365 ILLS--GLCREGILEKALKFFRS  385 (539)
Q Consensus       365 ~l~~--~~~~~g~~~~A~~~~~~  385 (539)
                      ..+.  .....|+.+.+.....+
T Consensus       662 ~~v~~~lwl~qg~~~~a~~~l~~  684 (894)
T COG2909         662 YKVKLILWLAQGDKELAAEWLLK  684 (894)
T ss_pred             HHhhHHHhcccCCHHHHHHHHHh
Confidence            2222  23356888887776655

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=83.54  E-value=28  Score=29.95  Aligned_cols=91  Identities=16%  Similarity=0.149  Sum_probs=47.7

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHcCCCC-----------CHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCC-CCCCHH
Q 009255          259 GTLITGYFRDEKANRALKLWDEMKERQIMP-----------STFTYNAMIWGLSQSGKTEQAIDMLNELLQSG-MIPDET  326 (539)
Q Consensus       259 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-----------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~  326 (539)
                      ..|...|...+.+.+..++++++.......           -...|..-|..|..+.+-.+...++++...-. -.|.+.
T Consensus       149 tKLgkl~fd~~e~~kl~KIlkqLh~SCq~edGedD~kKGtQLLEiYAlEIQmYT~qKnNKkLK~lYeqalhiKSAIPHPl  228 (440)
T KOG1464|consen  149 TKLGKLYFDRGEYTKLQKILKQLHQSCQTEDGEDDQKKGTQLLEIYALEIQMYTEQKNNKKLKALYEQALHIKSAIPHPL  228 (440)
T ss_pred             chHhhhheeHHHHHHHHHHHHHHHHHhccccCchhhhccchhhhhHhhHhhhhhhhcccHHHHHHHHHHHHhhccCCchH
Confidence            345566666666666666666654321110           12345556667777766666666777654321 123332


Q ss_pred             hHHHHHHHH-----hcCCCHHHHHHHHHH
Q 009255          327 TFNTIIHGF-----CSEGQVEKALQFHNK  350 (539)
Q Consensus       327 ~~~~l~~~~-----~~~~~~~~a~~~~~~  350 (539)
                      . ..+++-|     .+.|++++|..-|-+
T Consensus       229 I-mGvIRECGGKMHlreg~fe~AhTDFFE  256 (440)
T KOG1464|consen  229 I-MGVIRECGGKMHLREGEFEKAHTDFFE  256 (440)
T ss_pred             H-HhHHHHcCCccccccchHHHHHhHHHH
Confidence            2 2334433     355777776543333

>PF12862 Apc5: Anaphase-promoting complex subunit 5

Probab=83.04  E-value=13  Score=26.31  Aligned_cols=75  Identities=20%  Similarity=0.204  Sum_probs=48.3

Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCC-----hhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCC-
Q 009255          440 LVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPS-----SISYSEKINEHCSQGRYKDALQIFEETRQKGI-  513 (539)
Q Consensus       440 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-  513 (539)
                      ..+.|++.+|.+.+.+..+......              .+.     ..+...++......|++++|...++++++... 
T Consensus         8 ~~~~~dy~~A~d~L~~~fD~~~~~~--------------~~~~~~~~~~all~lA~~~~~~G~~~~A~~~l~eAi~~Are   73 (94)
T PF12862_consen    8 ALRSGDYSEALDALHRYFDYAKQSN--------------NSSSNSGLAYALLNLAELHRRFGHYEEALQALEEAIRLARE   73 (94)
T ss_pred             HHHcCCHHHHHHHHHHHHHHHhhcc--------------cchhhHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHH
Confidence            4567899999777777665432100              112     22556678888899999999999999886332 


Q ss_pred             CCCHHHHHHHHHHHH
Q 009255          514 AINKSTYMNLMNGLI  528 (539)
Q Consensus       514 ~p~~~~~~~~l~~~~  528 (539)
                      .-|..+....+..+.
T Consensus        74 ~~D~~~l~~al~~~~   88 (94)
T PF12862_consen   74 NGDRRCLAYALSWLA   88 (94)
T ss_pred             HCCHHHHHHHHHHHH
Confidence            345555555555443

>PF14561 TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S_A 3QDN_B

Probab=82.91  E-value=7.8  Score=27.10  Aligned_cols=49  Identities=10%  Similarity=0.089  Sum_probs=34.0

Q ss_pred             CChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 009255          480 PSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGLI  528 (539)
Q Consensus       480 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~  528 (539)
                      .+......++..+...|++++|++.+-++++.....+.......+-.++
T Consensus        20 ~D~~ar~~lA~~~~~~g~~e~Al~~Ll~~v~~dr~~~~~~ar~~ll~~f   68 (90)
T PF14561_consen   20 DDLDARYALADALLAAGDYEEALDQLLELVRRDRDYEDDAARKRLLDIF   68 (90)
T ss_dssp             T-HHHHHHHHHHHHHTT-HHHHHHHHHHHHCC-TTCCCCHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCccccccHHHHHHHHHH
Confidence            4445899999999999999999999999998654444444444444343

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=82.82  E-value=20  Score=31.04  Aligned_cols=87  Identities=8%  Similarity=0.045  Sum_probs=46.9

Q ss_pred             HHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHh----
Q 009255          297 IWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCR----  372 (539)
Q Consensus       297 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----  372 (539)
                      |++++..|++.+++...-+--+..-+..+.+...-|-.|.+.+++..+.++-...++..-.-+..-|..++..|..    
T Consensus        90 IQALAEmnrWreVLsWvlqyYq~pEklPpkIleLCILLysKv~Ep~amlev~~~WL~~p~Nq~lp~y~~vaELyLl~VLl  169 (309)
T PF07163_consen   90 IQALAEMNRWREVLSWVLQYYQVPEKLPPKILELCILLYSKVQEPAAMLEVASAWLQDPSNQSLPEYGTVAELYLLHVLL  169 (309)
T ss_pred             HHHHHHHhhHHHHHHHHHHHhcCcccCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCcccCCchhhHHHHHHHHHHHHh
Confidence            4566666666666655444333222223344444555566777777666666666654322233335555554443    


Q ss_pred             -cCCHHHHHHHH
Q 009255          373 -EGILEKALKFF  383 (539)
Q Consensus       373 -~g~~~~A~~~~  383 (539)
                       .|.+++|+++.
T Consensus       170 PLG~~~eAeelv  181 (309)
T PF07163_consen  170 PLGHFSEAEELV  181 (309)
T ss_pred             ccccHHHHHHHH
Confidence             47777776665

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

>KOG0686 consensus COP9 signalosome, subunit CSN1 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=82.35  E-value=35  Score=31.46  Aligned_cols=92  Identities=14%  Similarity=0.043  Sum_probs=44.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHc--CCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhC---------CCCCCH
Q 009255          362 TCNILLSGLCREGILEKALKFFRSWILK--GKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEK---------KLGPDR  430 (539)
Q Consensus       362 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~---------~~~~~~  430 (539)
                      .+..+..-|..+|+++.|.+.+-+..+-  ...-....|..++.+-.-.|+|........++.+.         .+++..
T Consensus       152 a~~Dl~dhy~~cG~l~~Alr~YsR~RdYCTs~khvInm~ln~i~VSI~~~nw~hv~sy~~~A~st~~~~~~~~q~v~~kl  231 (466)
T KOG0686|consen  152 ALEDLGDHYLDCGQLDNALRCYSRARDYCTSAKHVINMCLNLILVSIYMGNWGHVLSYISKAESTPDANENLAQEVPAKL  231 (466)
T ss_pred             HHHHHHHHHHHhccHHHHHhhhhhhhhhhcchHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHhCchhhhhHHHhcCcch
Confidence            4455555666666666666666654332  00111223444455555556666555555554432         122333


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHH
Q 009255          431 YTYAAIHTALVESGRLEEAQKFTSI  455 (539)
Q Consensus       431 ~~~~~l~~~~~~~g~~~~A~~~~~~  455 (539)
                      .++..++..+  .+++..|.+.+-.
T Consensus       232 ~C~agLa~L~--lkkyk~aa~~fL~  254 (466)
T KOG0686|consen  232 KCAAGLANLL--LKKYKSAAKYFLL  254 (466)
T ss_pred             HHHHHHHHHH--HHHHHHHHHHHHh
Confidence            3444443333  3466666655543

>PRK09687 putative lyase; Provisional

Probab=82.11  E-value=36  Score=30.19  Aligned_cols=201  Identities=11%  Similarity=0.013  Sum_probs=111.5

Q ss_pred             CHhhHHHHHHHHHcCCCH----HHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCH-----HHHHHHHHHHHhCCCCCC
Q 009255          289 STFTYNAMIWGLSQSGKT----EQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQV-----EKALQFHNKMVEKSFKPD  359 (539)
Q Consensus       289 ~~~~~~~l~~~~~~~~~~----~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-----~~a~~~~~~~~~~~~~~~  359 (539)
                      +...-...+.++.+.|+.    .++...+..+...  .++..+-...+.++...+..     ..+...+.....   .++
T Consensus        67 d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~--D~d~~VR~~A~~aLG~~~~~~~~~~~~a~~~l~~~~~---D~~  141 (280)
T PRK09687         67 NPIERDIGADILSQLGMAKRCQDNVFNILNNLALE--DKSACVRASAINATGHRCKKNPLYSPKIVEQSQITAF---DKS  141 (280)
T ss_pred             CHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhc--CCCHHHHHHHHHHHhcccccccccchHHHHHHHHHhh---CCC
Confidence            444444455555555542    3455555555332  23444443444444333211     122333333322   235


Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccC-ChHHHHHHHHHHHhCCCCCCHhhHHHHHH
Q 009255          360 IVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKER-RLEDAFGLLSEMEEKKLGPDRYTYAAIHT  438 (539)
Q Consensus       360 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~A~~~~~~~~~~~~~~~~~~~~~l~~  438 (539)
                      ..+-...+.++.+.++ ++|...+-.+...   ++...-...+.++...+ +...+...+..+..   .++..+-...+.
T Consensus       142 ~~VR~~a~~aLg~~~~-~~ai~~L~~~L~d---~~~~VR~~A~~aLg~~~~~~~~~~~~L~~~L~---D~~~~VR~~A~~  214 (280)
T PRK09687        142 TNVRFAVAFALSVIND-EAAIPLLINLLKD---PNGDVRNWAAFALNSNKYDNPDIREAFVAMLQ---DKNEEIRIEAII  214 (280)
T ss_pred             HHHHHHHHHHHhccCC-HHHHHHHHHHhcC---CCHHHHHHHHHHHhcCCCCCHHHHHHHHHHhc---CCChHHHHHHHH
Confidence            5666667777777776 4455555555542   34445555555555443 23466666666663   456666677777


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHH
Q 009255          439 ALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKS  518 (539)
Q Consensus       439 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~  518 (539)
                      ++.+.|+ ..|...+-..++.+                    +  .....+.++...|.. +|+..+.++.+.  .||..
T Consensus       215 aLg~~~~-~~av~~Li~~L~~~--------------------~--~~~~a~~ALg~ig~~-~a~p~L~~l~~~--~~d~~  268 (280)
T PRK09687        215 GLALRKD-KRVLSVLIKELKKG--------------------T--VGDLIIEAAGELGDK-TLLPVLDTLLYK--FDDNE  268 (280)
T ss_pred             HHHccCC-hhHHHHHHHHHcCC--------------------c--hHHHHHHHHHhcCCH-hHHHHHHHHHhh--CCChh
Confidence            7877777 56777666666543                    1  234566777788885 688888888862  46766


Q ss_pred             HHHHHHHHH
Q 009255          519 TYMNLMNGL  527 (539)
Q Consensus       519 ~~~~~l~~~  527 (539)
                      +......+|
T Consensus       269 v~~~a~~a~  277 (280)
T PRK09687        269 IITKAIDKL  277 (280)
T ss_pred             HHHHHHHHH
Confidence            666555554

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=81.71  E-value=20  Score=27.70  Aligned_cols=97  Identities=9%  Similarity=0.122  Sum_probs=65.2

Q ss_pred             HHHHHhCCCCCCHH--HHHHHHHHHHccCCHhHHHHHHHHHHhCCC-----CCChhhHHHHHHHHHhcCC-hHHHHHHHH
Q 009255           33 LSDMKKQGLVPNRT--TYNILVSGYCKLGWLKEAMRVVDLMTQNKS-----LPDVWTYNMLINGWCNAGM-LEEAFRLRK  104 (539)
Q Consensus        33 ~~~~~~~~~~~~~~--~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~-----~~~~~~~~~l~~~~~~~g~-~~~a~~~~~  104 (539)
                      ...|.+.+..++..  ..++++.-....+++.....+++.+.....     ..+...|..++....+... --.+..+|.
T Consensus        25 ~~y~~~~~~~~~~k~~fiN~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~if~SlsnSsSaK~~~~~Lf~  104 (145)
T PF13762_consen   25 LPYMQEENASQSTKTIFINCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFHIIFKSLSNSSSAKLTSLTLFN  104 (145)
T ss_pred             HHHhhhcccChhHHHHHHHHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHHHHHHHHccChHHHHHHHHHHH
Confidence            34445444444443  446777777777777777777776643211     2366788888888866655 445678888


Q ss_pred             HHHhCCCCCChhhHHHHHHHHhccC
Q 009255          105 EMESLKLLPDVVTYNTLINRFFESG  129 (539)
Q Consensus       105 ~~~~~~~~~~~~~~~~l~~~~~~~~  129 (539)
                      -+.+.+.+.++.-|..++.++.+-.
T Consensus       105 ~Lk~~~~~~t~~dy~~li~~~l~g~  129 (145)
T PF13762_consen  105 FLKKNDIEFTPSDYSCLIKAALRGY  129 (145)
T ss_pred             HHHHcCCCCCHHHHHHHHHHHHcCC
Confidence            8888777888888888888876653

>KOG4507 consensus Uncharacterized conserved protein, contains TPR repeats [Function unknown]

Probab=80.85  E-value=9.7  Score=36.60  Aligned_cols=88  Identities=14%  Similarity=0.040  Sum_probs=57.5

Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHH
Q 009255          372 REGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQK  451 (539)
Q Consensus       372 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  451 (539)
                      ..|+...|.+.+..+....+.-.......|.....+.|-..+|-.++.+.+... ...+-++..+++++....+.+.|++
T Consensus       619 ~~gn~~~a~~cl~~a~~~~p~~~~v~~v~la~~~~~~~~~~da~~~l~q~l~~~-~sepl~~~~~g~~~l~l~~i~~a~~  697 (886)
T KOG4507|consen  619 AVGNSTFAIACLQRALNLAPLQQDVPLVNLANLLIHYGLHLDATKLLLQALAIN-SSEPLTFLSLGNAYLALKNISGALE  697 (886)
T ss_pred             ecCCcHHHHHHHHHHhccChhhhcccHHHHHHHHHHhhhhccHHHHHHHHHhhc-ccCchHHHhcchhHHHHhhhHHHHH
Confidence            357777777777766554222233345556666667677777777777766543 3344566677777777777888888


Q ss_pred             HHHHHHHcC
Q 009255          452 FTSIMVETG  460 (539)
Q Consensus       452 ~~~~~~~~~  460 (539)
                      .++.+++..
T Consensus       698 ~~~~a~~~~  706 (886)
T KOG4507|consen  698 AFRQALKLT  706 (886)
T ss_pred             HHHHHHhcC
Confidence            888877765

---

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	539
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	3e-17
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	7e-16
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	5e-15
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-14
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	6e-14
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	7e-14
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	3e-12
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-16
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	3e-05
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	1e-04
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	4e-05
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	5e-05
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	2e-04
2gw1_A	514	Mitochondrial precursor proteins import receptor;	7e-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 = 84.5 bits (207), Expect = 3e-17
 Identities = 25/199 (12%), Positives = 64/199 (32%), Gaps = 4/199 (2%)

Query: 96  LEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIK---PNAVT 152
           L+       +    +L                + +   A  L+        K        
Sbjct: 108 LDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDM 167

Query: 153 HNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAF-RMMDVM 211
           +N ++  + ++G   +   ++  +++ G +PD ++Y   +    +         R ++ M
Sbjct: 168 YNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQM 227

Query: 212 GRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKA 271
            ++GLK+  +    +L        L   + +  + S        V+   L+   +  +  
Sbjct: 228 SQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGR 287

Query: 272 NRALKLWDEMKERQIMPST 290
               KL   +K  Q +   
Sbjct: 288 VSYPKLHLPLKTLQCLFEK 306

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 80.2 bits (196), Expect = 7e-16
 Identities = 26/256 (10%), Positives = 69/256 (26%), Gaps = 6/256 (2%)

Query: 1   MEGFGCLPDNVTYNTILDALFKKGKLNEVRDLL---SDMKKQGLVPNRTTYNILVSGYCK 57
                                   +L     LL      +++  +     YN ++ G+ +
Sbjct: 118 HSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWAR 177

Query: 58  LGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAF-RLRKEMESLKLLPDVV 116
            G  KE + V+ ++      PD+ +Y   +              R  ++M    L    +
Sbjct: 178 QGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQAL 237

Query: 117 TYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNM 176
               L++    +       K+          P  V  + +++    +       K+   +
Sbjct: 238 FTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPL 297

Query: 177 EENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKL 236
           +           +  + +     ++E+       + +   K      +     LC   + 
Sbjct: 298 KTL-QCLFEKQLHMELASRVCVVSVEKPTLPSKEV-KHARKTLKTLRDQWEKALCRALRE 355

Query: 237 DEAYMLLNSASKRGYY 252
            +  +       R   
Sbjct: 356 TKNRLEREVYEGRFSL 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 = 77.5 bits (189), Expect = 5e-15
 Identities = 29/262 (11%), Positives = 68/262 (25%), Gaps = 16/262 (6%)

Query: 102 LRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYC 161
           L          P       L+                 +  +  +           K   
Sbjct: 79  LEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCL 138

Query: 162 KEGKIDKACKIV---RNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKM 218
              ++  A  ++       +         YN ++    + G  +E   ++ ++   GL  
Sbjct: 139 LTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTP 198

Query: 219 NTITLNTILHTLC-CEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKL 277
           + ++    L  +   ++        L   S+ G  L  +    L++   R        K+
Sbjct: 199 DLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKV 258

Query: 278 WDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCS 337
                    +P     + ++             D+  +  +           T+   F  
Sbjct: 259 KPTFSLPPQLPPPVNTSKLL------------RDVYAKDGRVSYPKLHLPLKTLQCLFEK 306

Query: 338 EGQVEKALQFHNKMVEKSFKPD 359
           +  +E A +     VEK   P 
Sbjct: 307 QLHMELASRVCVVSVEKPTLPS 328

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 75.2 bits (183), Expect = 2e-14
 Identities = 26/277 (9%), Positives = 70/277 (25%), Gaps = 12/277 (4%)

Query: 162 KEGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDV---MGRKGLKM 218
            +  +D          +   S                  +  A  ++ V     +K   +
Sbjct: 104 GKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLL 163

Query: 219 NTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRAL-KL 277
                N ++     +    E   +L      G   D +SY   +    R ++    + + 
Sbjct: 164 TLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERC 223

Query: 278 WDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCS 337
            ++M +  +         ++    ++   +    +         +P     + ++    +
Sbjct: 224 LEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYA 283

Query: 338 EGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVT 397
           +       + H  +             +    L  E      +       L  K V    
Sbjct: 284 KDGRVSYPKLHLPLKTL--------QCLFEKQLHMELASRVCVVSVEKPTLPSKEVKHAR 335

Query: 398 YNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYA 434
                     E+ L  A        E+++   R++  
Sbjct: 336 KTLKTLRDQWEKALCRALRETKNRLEREVYEGRFSLY 372

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 74.1 bits (180), Expect = 6e-14
 Identities = 18/189 (9%), Positives = 55/189 (29%), Gaps = 4/189 (2%)

Query: 281 MKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNEL---LQSGMIPDETTFNTIIHGFCS 337
             + Q+        A       + +   A  +L       Q   +     +N ++ G+  
Sbjct: 118 HSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWAR 177

Query: 338 EGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKAL-KFFRSWILKGKAVDSV 396
           +G  ++ +     + +    PD+++    L  + R+      + +       +G  + ++
Sbjct: 178 QGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQAL 237

Query: 397 TYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIM 456
               L+S   +   L+    +          P     + +   +          K    +
Sbjct: 238 FTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPL 297

Query: 457 VETGKINHQ 465
                +  +
Sbjct: 298 KTLQCLFEK 306

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 73.7 bits (179), Expect = 7e-14
 Identities = 31/259 (11%), Positives = 75/259 (28%), Gaps = 4/259 (1%)

Query: 267 RDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDET 326
           R      A  L D  ++    P       ++         +       +  Q+ +   + 
Sbjct: 69  RLLSKQMAGCLEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQ 128

Query: 327 TFNTIIHGFCSEGQVEKA---LQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFF 383
                        Q+  A   L  H+   +K     +   N ++ G  R+G  ++ +   
Sbjct: 129 RLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVL 188

Query: 384 RSWILKGKAVDSVTYNTLISSLCK-ERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVE 442
                 G   D ++Y   +  + + ++        L +M ++ L       A + +    
Sbjct: 189 FMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDR 248

Query: 443 SGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDAL 502
           +  L+   K         ++   V      +     D         +     Q  ++  L
Sbjct: 249 ATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPLKTLQCLFEKQL 308

Query: 503 QIFEETRQKGIAINKSTYM 521
            +   +R   +++ K T  
Sbjct: 309 HMELASRVCVVSVEKPTLP 327

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 68.3 bits (165), Expect = 3e-12
 Identities = 22/218 (10%), Positives = 57/218 (26%), Gaps = 21/218 (9%)

Query: 323 PDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKA--- 379
           P E     ++     +  ++       +  +                      L  A   
Sbjct: 90  PWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHL 149

Query: 380 LKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTA 439
           L        K K +    YN ++    ++   ++   +L  +++  L PD  +YAA    
Sbjct: 150 LVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQC 209

Query: 440 LVESGRLEEA-QKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRY 498
           +    +     ++    M + G                     ++  +  ++E       
Sbjct: 210 MGRQDQDAGTIERCLEQMSQEGL-----------------KLQALFTAVLLSEEDRATVL 252

Query: 499 KDALQIFEETRQKGIAINKSTYMNLMNGLIKRRKSISK 536
           K   ++                  L+  +  +   +S 
Sbjct: 253 KAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSY 290

>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 = 81.8 bits (201), Expect = 2e-16
 Identities = 80/557 (14%), Positives = 168/557 (30%), Gaps = 175/557 (31%)

Query: 1   MEGFG--CLPDNVTYNTILDALF-------KKGKLNEVRDLLSDMKK--QGLVPNRTTY- 48
           + G G   +  +V  +  +                N    +L  ++K    + PN T+  
Sbjct: 158 VLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRS 217

Query: 49  NILVSGYCKLGWLKEAMRVVDLMTQNKSLP-------DVWTYNMLINGWCNAGMLEEAFR 101
           +   +   ++  ++  +R   L+ ++K          +V                  AF 
Sbjct: 218 DHSSNIKLRIHSIQAELR--RLL-KSKPYENCLLVLLNVQNAKAW-----------NAFN 263

Query: 102 LRKEMESLKLLPDVVTYNTLINRFFESGR----SMEAFKLIDELDEHGIKPNAVTHNIMI 157
           L       K+L  + T    +  F  +      S++   +    DE          ++++
Sbjct: 264 LS-----CKIL--LTTRFKQVTDFLSAATTTHISLDHHSMTLTPDE--------VKSLLL 308

Query: 158 KWY-CKEGKI-DKACKIVRNMEENGFSPDCVTYNTLIDANCKAG-NMEEAFRMMDVMGRK 214
           K+  C+   +  +             +P  ++   +I  + + G    + ++        
Sbjct: 309 KYLDCRPQDLPREVLTT---------NPRRLS---IIAESIRDGLATWDNWK-------- 348

Query: 215 GLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRA 274
              +N   L TI+     E  L+     L  A  R  +        L    F    A+  
Sbjct: 349 --HVNCDKLTTII-----ESSLNV----LEPAEYRKMFDR------L--SVFPPS-AH-- 386

Query: 275 LKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMI---PDETTFNTI 331
                      I        ++IW           + ++N+L +  ++   P E+T +  
Sbjct: 387 -----------IPTILL---SLIWF---DVIKSDVMVVVNKLHKYSLVEKQPKESTIS-- 427

Query: 332 IHG--FCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILK 389
           I       + ++E     H  +V+                           K F S  L 
Sbjct: 428 IPSIYLELKVKLENEYALHRSIVDHY----------------------NIPKTFDSDDLI 465

Query: 390 GKAVDSVTYNTLISSLCKERRLEDAFGLLSEME------EKKLGPDRYTYAAIHTALVES 443
              +D   Y+ +   L K     +   L   +       E+K+  D   + A  + L   
Sbjct: 466 PPYLDQYFYSHIGHHL-KNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTL 524

Query: 444 GRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQ 503
            +L+  + +              +  N     E +  + + +  KI E+    +Y D L+
Sbjct: 525 QQLKFYKPY--------------ICDN-DPKYERLVNAILDFLPKIEENLICSKYTDLLR 569

Query: 504 ---------IFEET-RQ 510
                    IFEE  +Q
Sbjct: 570 IALMAEDEAIFEEAHKQ 586

>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 Length = 537

 Score = 45.5 bits (108), Expect = 3e-05
 Identities = 60/474 (12%), Positives = 116/474 (24%), Gaps = 88/474 (18%)

Query: 94  GMLEEAFRLRKEMESLKLLPD-----VVTYNTLINRFFESGRSMEAFKLIDELDEHGIKP 148
           G            +   L P       V      N FF +    EA K      E  + P
Sbjct: 1   GSHMNG--EPDIAQLKGLSPSQRQAYAVQLKNRGNHFFTAKNFNEAIKYYQYAIE--LDP 56

Query: 149 N-AVTHNIMIKWYCKEGKIDKA---CKIVRNMEENGFSPDCV-TYNTLIDANCKAGNMEE 203
           N  V ++ +   Y   G ++K          +E     PD          AN   GN  +
Sbjct: 57  NEPVFYSNISACYISTGDLEKVIEFTTKA--LEIK---PDHSKALLRRASANESLGNFTD 111

Query: 204 AF----------RMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYL 253
           A                     L+ N       +      K       +L S +    + 
Sbjct: 112 AMFDLSVLSLNGDFDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFF 171

Query: 254 DEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYN-AMIWGLSQSGKTEQAIDM 312
                   ++        + A  L  +  +R    +   Y  A       +      +  
Sbjct: 172 GIFDSHLEVSSVNTSSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSA 231

Query: 313 LNELLQSGMIPDE-TTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLC 371
                      +              +  +  A     + +     P   +   L   L 
Sbjct: 232 NTVDDPLR--ENAALALCYTGIFHFLKNNLLDAQVLLQESIN--LHPTPNSYIFLALTLA 287

Query: 372 REGILEKALKFFRSWILKGKAV-----DSVTYNTLISSLCKERRLEDAFGLLSEMEEK-- 424
            +   ++  KFF+      KAV        TY          +  ++A     E  +K  
Sbjct: 288 DKENSQEFFKFFQ------KAVDLNPEYPPTYYHRGQMYFILQDYKNAK----EDFQKAQ 337

Query: 425 KLGPDRYTYAAIH----TALVESGRLEEAQK-FTSIMVETGKINHQVVQPNTSKTPEEID 479
            L P+       +      L + G+  E++  F                           
Sbjct: 338 SLNPE---NVYPYIQLACLLYKQGKFTESEAFFNETK--------------------LKF 374

Query: 480 P-SSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKS---TYMNLMNGLIK 529
           P      +        +G +  A++ ++        + +     ++ +   + K
Sbjct: 375 PTLPEVPTFFAEILTDRGDFDTAIKQYD----IAKRLEEVQEKIHVGIGPLIGK 424

>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 Length = 537

 Score = 43.9 bits (104), Expect = 1e-04
 Identities = 59/498 (11%), Positives = 140/498 (28%), Gaps = 102/498 (20%)

Query: 79  DVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVV-TYNTLINRFFESGRSMEAFKL 137
           +   Y+ +   + + G LE+      +  +L++ PD         +     G   +A   
Sbjct: 58  EPVFYSNISACYISTGDLEKVIEFTTK--ALEIKPDHSKALLRRASANESLGNFTDA--- 112

Query: 138 IDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCK 197
           + +L    +  +       I+   +     +A K++                        
Sbjct: 113 MFDLSVLSLNGD--FDGASIEPMLERNLNKQAMKVLNENLSK-------DEGRGSQVLPS 163

Query: 198 AGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVS 257
             ++   F + D      L+++++  +            D AY LL+ A +R Y   +  
Sbjct: 164 NTSLASFFGIFD----SHLEVSSVNTS---------SNYDTAYALLSDALQRLYSATDEG 210

Query: 258 YGTLITGYFRDEKANRALKLWDE-----MKERQIMPSTF-TYNAMIWGLSQSGKTEQAID 311
           Y         ++   ++  ++         +  +  +                    A  
Sbjct: 211 Y------LVANDLLTKSTDMYHSLLSANTVDDPLRENAALALCYTGIFHFLKNNLLDAQV 264

Query: 312 MLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTC-NILLSGL 370
           +L E +   + P   ++  +      +   ++  +F  K V+    P+            
Sbjct: 265 LLQESIN--LHPTPNSYIFLALTLADKENSQEFFKFFQKAVD--LNPEYPPTYYHRGQMY 320

Query: 371 CREGILEKALKFFRSWILKGKAV-----DSVTYNTLISSLCKERRLEDAFGLLSEMEEKK 425
                 + A + F+      KA      +   Y  L   L K+ +  ++    +E + K 
Sbjct: 321 FILQDYKNAKEDFQ------KAQSLNPENVYPYIQLACLLYKQGKFTESEAFFNETKLKF 374

Query: 426 LGPDRYTYAAIHT----ALVESGRLEEAQK----------------------FTSIMVET 459
             P       + T     L + G  + A K                           +  
Sbjct: 375 --PT---LPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILA 429

Query: 460 GKINHQVVQPNTSKTPE---------EIDP-SSISYSEKINEHCSQGRYKDALQIFEETR 509
            + +    Q +  K            E+DP S  +            +  +A+++FE   
Sbjct: 430 RQSSQDPTQLDEEKFNAAIKLLTKACELDPRSEQAKIGLAQLKLQMEKIDEAIELFE--- 486

Query: 510 QKGIAINKSTYMNLMNGL 527
                + + T    +   
Sbjct: 487 -DSAILAR-TMDEKLQAT 502

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe} Length = 597

 Score = 45.2 bits (107), Expect = 4e-05
 Identities = 40/351 (11%), Positives = 103/351 (29%), Gaps = 65/351 (18%)

Query: 48  YNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEME 107
           Y + ++       L+ A   +  +   +   D+       +         +   +  ++ 
Sbjct: 275 YMLKLNKTSHEDELRRAEDYLSSINGLEKSSDLL--LCKADTLFVRSRFIDVLAITTKI- 331

Query: 108 SLKLLPD-VVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPN-AVTHNIMIKWYCKEGK 165
            L++ P  +  Y   +    ESG   + + + ++L +    P  AVT   +  +Y    K
Sbjct: 332 -LEIDPYNLDVYPLHLASLHESGEKNKLYLISNDLVD--RHPEKAVTWLAVGIYYLCVNK 388

Query: 166 IDKACKIVRNMEENGFSPDCVTYN--TLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITL 223
           I +A +                ++  + +D          A+                  
Sbjct: 389 ISEARR---------------YFSKSSTMDPQF-----GPAWIG---FA----------- 414

Query: 224 NTILHTLCCEKKLDEAYMLLNSAS--KRGYYLDEVSYGTLITGYFRDEKANRALKLWDEM 281
               H+   E + D+A     +A+   +G +L  +  G     + +      A +     
Sbjct: 415 ----HSFAIEGEHDQAISAYTTAARLFQGTHLPYLFLGMQ---HMQLGNILLANEYLQ-- 465

Query: 282 KERQIMPS-TFTYNAMIWGLSQSGKTEQAIDMLN---ELLQSGMIPD---ETTFNTIIHG 334
               +        N +          + AI+       L++     +     T+  + H 
Sbjct: 466 SSYALFQYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHA 525

Query: 335 FCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCRE-GILEKALKFFR 384
           +      + A+   N+ +      +    +  ++ +     I   A+    
Sbjct: 526 YRKLKMYDAAIDALNQGLL--LSTNDANVHTAIALVYLHKKIPGLAITHLH 574

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus} Length = 291

 Score = 44.3 bits (104), Expect = 5e-05
 Identities = 43/289 (14%), Positives = 91/289 (31%), Gaps = 33/289 (11%)

Query: 236 LDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNA 295
           ++EA  +  S+ +R    D   Y   +          +   + DE+K     P       
Sbjct: 19  INEAQRVKPSSPERDVERDVFLYRAYL-------AQRKYGVVLDEIKPSS-APELQAVRM 70

Query: 296 MIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTII-HGFCSEGQVEKALQ-FHNKMVE 353
               L+   + +  +  L+  +   +    TTF  +    +  +   + AL+  H     
Sbjct: 71  FAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQGD-- 128

Query: 354 KSFKPDIVTCNILLSGLCREGILEKALKFFRSWI-LKGKAVDSVTYNTLISSLCKERRLE 412
                 +    + +  L +   L+ A K  +        A  +      +S      +L+
Sbjct: 129 -----SLECMAMTVQILLKLDRLDLARKELKKMQDQDEDATLTQLATAWVSLAAGGEKLQ 183

Query: 413 DAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQ------V 466
           DA+ +  EM +K   P            +  GR E A+      ++    + +      V
Sbjct: 184 DAYYIFQEMADKC-SPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDSGHPETLINLVV 242

Query: 467 VQPNTSKTPEEIDPSSISYSEKI----NEHCSQGRYKDALQIFEETRQK 511
           +  +  K PE  +     Y  ++      H     Y+     F+    +
Sbjct: 243 LSQHLGKPPEVTN----RYLSQLKDAHRSHPFIKEYRAKENDFDRLVLQ 287

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus} Length = 291

 Score = 42.4 bits (99), Expect = 2e-04
 Identities = 27/195 (13%), Positives = 58/195 (29%), Gaps = 17/195 (8%)

Query: 19  ALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVD-LMTQNKSL 77
           A   + K   V D +         P      +              +  +D  M+++  +
Sbjct: 43  AYLAQRKYGVVLDEIKPSSA----PELQAVRMFAEYLASHSRRDAIVAELDREMSRSVDV 98

Query: 78  PDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKL 137
            +     M  + +      + A R   + +SL+           +    +  R   A K 
Sbjct: 99  TNTTFLLMAASIYFYDQNPDAALRTLHQGDSLEC------MAMTVQILLKLDRLDLARKE 152

Query: 138 IDELDEHGIKPNAVTHNIMIKWYC---KEGKIDKACKIVRNMEENGFSPDCVTYNTLIDA 194
           + ++ +     +A    +   W        K+  A  I + M +   SP  +  N     
Sbjct: 153 LKKMQD--QDEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK-CSPTLLLLNGQAAC 209

Query: 195 NCKAGNMEEAFRMMD 209
           +   G  E A  ++ 
Sbjct: 210 HMAQGRWEAAEGVLQ 224

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae} Length = 514

 Score = 41.3 bits (97), Expect = 7e-04
 Identities = 40/324 (12%), Positives = 94/324 (29%), Gaps = 67/324 (20%)

Query: 251 YYLDEVSYGTLITGYFRDEKANRALKLWDE-----MKERQIMPSTF-TYNAMIWGLSQSG 304
             L  +   +  +    DE   +A +L++E      ++ ++      +            
Sbjct: 192 NGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKN 251

Query: 305 KTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTC- 363
               A + + + ++  + P   ++  +           +   + +K ++     +  +  
Sbjct: 252 DPLGAHEDIKKAIE--LFPRVNSYIYMALIMADRNDSTEYYNYFDKALKL--DSNNSSVY 307

Query: 364 ----NILLSGLCREGILEKALKFFRSWILKGKAV-----DSVTYNTLISSLCKERRLEDA 414
                +           ++A K F       KA      +   Y  L     +E + +D 
Sbjct: 308 YHRGQMNF----ILQNYDQAGKDFD------KAKELDPENIFPYIQLACLAYRENKFDDC 357

Query: 415 FGLLSEMEEKKLGPDR---YTYAAIHTALVESGRLEEAQKFTSIMVE------------- 458
             L SE + K   P+      + A    L +    ++A K   + +E             
Sbjct: 358 ETLFSEAKRKF--PEAPEVPNFFAE--ILTDKNDFDKALKQYDLAIELENKLDGIYVGIA 413

Query: 459 --TGKINHQVVQPNTSKTPE---------EIDP-SSISYSEKINEHCSQGRYKDALQIFE 506
              GK       P      E         ++DP S  +          Q    +A+ +FE
Sbjct: 414 PLVGKATLLTRNPTVENFIEATNLLEKASKLDPRSEQAKIGLAQMKLQQEDIDEAITLFE 473

Query: 507 ETRQKGIAINKSTYMNLMNGLIKR 530
               +   + + T    +  +   
Sbjct: 474 ----ESADLAR-TMEEKLQAITFA 492

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	539
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	100.0
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;	99.97
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.96
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.96
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.95
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.95
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.95
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.92
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.92
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	99.91
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.9
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.9
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.9
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.89
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.87
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.86
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.86
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.85
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.85
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.84
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.84
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.83
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.83
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.83
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.83
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.83
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.82
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.81
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.79
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.78
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.78
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.77
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.77
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.76
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.74
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.73
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.73
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.73
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.72
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.71
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.71
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.71
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.7
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.69
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.69
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.68
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.68
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.68
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.68
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.67
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.67
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.67
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.66
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.65
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.64
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.62
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.61
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.61
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.61
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.6
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.6
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.59
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.58
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.57
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.57
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.55
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.55
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.54
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.52
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.51
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.5
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.49
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.49
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.49
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.48
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.46
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.46
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.42
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.41
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.39
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.37
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.37
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.33
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.32
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.31
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.3
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.3
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.3
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	99.29
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.28
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.27
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.27
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.26
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	99.25
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.25
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.25
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.25
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.24
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.24
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.23
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.23
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.19
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	99.18
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.17
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.16
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.14
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.13
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.12
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.11
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.11
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.1
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.1
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.09
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	99.09
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	99.08
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.06
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	99.02
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	99.02
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	99.0
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	99.0
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.98
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.97
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.96
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.95
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.95
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.95
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.94
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.94
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.93
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.92
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.92
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.92
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.91
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.9
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.9
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.9
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.89
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.89
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.88
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.88
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.88
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.88
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.86
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.86
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.86
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.85
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.85
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.83
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.82
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.82
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.81
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.81
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.81
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.79
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.77
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.77
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.77
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.75
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.75
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.72
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.72
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.71
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.7
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.66
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.66
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.65
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.64
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.64
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.64
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.63
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.62
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.62
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.62
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.61
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.59
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.58
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.56
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.55
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.51
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.5
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.5
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.47
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.47
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.46
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.46
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.46
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.42
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.38
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.38
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.32
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.26
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.25
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.25
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.24
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.18
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.17
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	98.16
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.14
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.1
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.1
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.96
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.94
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.9
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.88
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.81
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.78
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.76
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	97.64
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.63
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.58
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.56
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.26
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.26
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.15
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	97.11
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	97.03
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.01
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.95
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	96.89
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.8
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.71
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.69
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	96.58
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.45
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	96.4
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.22
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	96.15
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.09
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.08
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	96.07
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	95.9
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	95.62
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	95.61
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	95.5
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	95.3
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	95.2
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	95.03
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	94.2
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	93.61
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	93.53
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	92.85
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	92.59
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	92.5
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	92.06
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	91.67
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	91.64
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	91.47
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	91.26
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	90.66
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	90.11
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	89.87
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	89.37
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	88.7
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	88.5
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	87.27
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	86.01
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	86.0
2wvi_A	164	Mitotic checkpoint serine/threonine-protein kinase	84.27
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	84.08
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	83.91
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	81.56

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=1e-43  Score=352.72  Aligned_cols=490  Identities=10%  Similarity=-0.013  Sum_probs=397.4

Q ss_pred             cChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHH
Q 009255            8 PDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLI   87 (539)
Q Consensus         8 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~   87 (539)
                      ++...|+.++..|.+.|++++|..+|+++...  .|+..++..++.+|.+.|++++|..+|+.+...  +++..+++.++
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            46677888888888888888888888888754  456777788888888888888888888877543  45777888888


Q ss_pred             HHHHhcCChHHHHHHHHHHHhC---------------CCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHH
Q 009255           88 NGWCNAGMLEEAFRLRKEMESL---------------KLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVT  152 (539)
Q Consensus        88 ~~~~~~g~~~~a~~~~~~~~~~---------------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  152 (539)
                      .+|.+.|++++|.++|+++...               +.+++..+|+.++.+|.+.|++++|+++|+++.+.+.. +...
T Consensus       158 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~  236 (597)
T 2xpi_A          158 FCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVDAK-CYEA  236 (597)
T ss_dssp             HHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHH
T ss_pred             HHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCch-hhHH
Confidence            8888888888888888753211               11234677888888888888888888888888775322 4455


Q ss_pred             HHHHHHHHHhcCCHhHHH--HH-HHHHHHcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHH
Q 009255          153 HNIMIKWYCKEGKIDKAC--KI-VRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHT  229 (539)
Q Consensus       153 ~~~l~~~~~~~g~~~~a~--~~-~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  229 (539)
                      +..+...+...+..+.+.  .+ +..+...+..+...+|+.++..|.+.|++++|.++|+++.+.  +++..++..++..
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            555554443332222111  11 333333333334445666677888999999999999998775  5799999999999


Q ss_pred             HhccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHH
Q 009255          230 LCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQA  309 (539)
Q Consensus       230 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  309 (539)
                      +.+.|++++|..+|+++.+.+.. +..++..++.++...|++++|..+++++....+ .+..++..++..|.+.|++++|
T Consensus       315 ~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A  392 (597)
T 2xpi_A          315 LFVRSRFIDVLAITTKILEIDPY-NLDVYPLHLASLHESGEKNKLYLISNDLVDRHP-EKAVTWLAVGIYYLCVNKISEA  392 (597)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTT-CCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TSHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHcCcc-cHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhCc-ccHHHHHHHHHHHHHhccHHHH
Confidence            99999999999999999987643 778899999999999999999999999987654 3788999999999999999999


Q ss_pred             HHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 009255          310 IDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILK  389 (539)
Q Consensus       310 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  389 (539)
                      .++|+++.+..+ .+..++..++.++.+.|++++|.++|+++.+.+ +.+..++..++.+|.+.|++++|.++|+++.+.
T Consensus       393 ~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  470 (597)
T 2xpi_A          393 RRYFSKSSTMDP-QFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNILLANEYLQSSYAL  470 (597)
T ss_dssp             HHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            999999988643 367899999999999999999999999999875 457889999999999999999999999999987


Q ss_pred             CCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhC----CCCCC--HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC
Q 009255          390 GKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEK----KLGPD--RYTYAAIHTALVESGRLEEAQKFTSIMVETGKIN  463 (539)
Q Consensus       390 ~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~----~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  463 (539)
                      .+ .++.+|+.++.+|.+.|++++|+++|+++.+.    +..|+  ..++..++.+|.+.|++++|.++++++++.+   
T Consensus       471 ~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---  546 (597)
T 2xpi_A          471 FQ-YDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLS---  546 (597)
T ss_dssp             CC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS---
T ss_pred             CC-CChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC---
Confidence            43 37889999999999999999999999999875    55777  7899999999999999999999999999987   


Q ss_pred             cccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 009255          464 HQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGLIK  529 (539)
Q Consensus       464 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~  529 (539)
                                     +.+..+|..++.+|...|++++|.+.|+++++  +.|+.......++.++.
T Consensus       547 ---------------p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~--~~p~~~~~~~~l~~~~~  595 (597)
T 2xpi_A          547 ---------------TNDANVHTAIALVYLHKKIPGLAITHLHESLA--ISPNEIMASDLLKRALE  595 (597)
T ss_dssp             ---------------SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHTTC
T ss_pred             ---------------CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHh--cCCCChHHHHHHHHHHh
Confidence                           44667999999999999999999999999998  57888777776665553

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=1.2e-40  Score=330.71  Aligned_cols=486  Identities=11%  Similarity=0.018  Sum_probs=386.3

Q ss_pred             hcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChHHHHH
Q 009255           22 KKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFR  101 (539)
Q Consensus        22 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  101 (539)
                      ..|.+..+...+..+.    .++...|+.++..|.+.|++++|..+|+++...  .|+..++..++.+|.+.|++++|..
T Consensus        65 ~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~  138 (597)
T 2xpi_A           65 TDGSFLKERNAQNTDS----LSREDYLRLWRHDALMQQQYKCAAFVGEKVLDI--TGNPNDAFWLAQVYCCTGDYARAKC  138 (597)
T ss_dssp             ---------------------CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             ccCccCCCCCccccch----HHHHHHHHHHHHHHHHccCchHHHHHHHHHHhh--CCCchHHHHHHHHHHHcCcHHHHHH
Confidence            3444444444444332    357788999999999999999999999999864  4677888899999999999999999


Q ss_pred             HHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhC---------------CCCCCHHHHHHHHHHHHhcCCH
Q 009255          102 LRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEH---------------GIKPNAVTHNIMIKWYCKEGKI  166 (539)
Q Consensus       102 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---------------~~~~~~~~~~~l~~~~~~~g~~  166 (539)
                      +|+++...  +++..+++.++.+|.+.|++++|.++|+++...               +.+++..+|+.++.+|.+.|++
T Consensus       139 ~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  216 (597)
T 2xpi_A          139 LLTKEDLY--NRSSACRYLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNF  216 (597)
T ss_dssp             HHHHTCGG--GTCHHHHHHHHHHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHhcc--ccchhHHHHHHHHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCH
Confidence            99988653  678899999999999999999999999853221               2234578999999999999999


Q ss_pred             hHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCHHHHHH--H-HHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHH
Q 009255          167 DKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFR--M-MDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLL  243 (539)
Q Consensus       167 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~--~-~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  243 (539)
                      ++|.++|+++.+.+ +.+...+..+...+...+..+.+..  + +..+...+..+...++..++..|.+.|++++|.+++
T Consensus       217 ~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~  295 (597)
T 2xpi_A          217 DRAKECYKEALMVD-AKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYL  295 (597)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-chhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHH
Confidence            99999999998864 3345556666655544433222211  1 344444444444555666678888999999999999


Q ss_pred             HHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCC
Q 009255          244 NSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIP  323 (539)
Q Consensus       244 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  323 (539)
                      +.+.+.  +++..++..++..|.+.|++++|.++|+++...++. +..++..++.++.+.|++++|..+++++.+.. +.
T Consensus       296 ~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~  371 (597)
T 2xpi_A          296 SSINGL--EKSSDLLLCKADTLFVRSRFIDVLAITTKILEIDPY-NLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PE  371 (597)
T ss_dssp             HTSTTG--GGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TT
T ss_pred             HHhhcC--CchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcCcc-cHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cc
Confidence            998876  568999999999999999999999999999987654 78899999999999999999999999998764 34


Q ss_pred             CHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHH
Q 009255          324 DETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLIS  403 (539)
Q Consensus       324 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~  403 (539)
                      +..++..++..|.+.|++++|.++|+++.+.. +.+..++..++.+|.+.|++++|.++|+++...+ +.+..+|..++.
T Consensus       372 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~  449 (597)
T 2xpi_A          372 KAVTWLAVGIYYLCVNKISEARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGM  449 (597)
T ss_dssp             SHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHH
Confidence            78899999999999999999999999998864 3478899999999999999999999999999874 347889999999


Q ss_pred             HHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCC--
Q 009255          404 SLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPS--  481 (539)
Q Consensus       404 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--  481 (539)
                      +|.+.|++++|.++|+++.+.. +.+..++..++.++.+.|++++|.++++++++....             .+..|+  
T Consensus       450 ~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-------------~~~~p~~~  515 (597)
T 2xpi_A          450 QHMQLGNILLANEYLQSSYALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKK-------------TQSNEKPW  515 (597)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH-------------SCCCSGGG
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhc-------------cccchhhH
Confidence            9999999999999999999764 456888999999999999999999999999887210             001266  


Q ss_pred             hhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCchhhcc
Q 009255          482 SISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGLIKRRKSISKAV  538 (539)
Q Consensus       482 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~A~  538 (539)
                      ..+|..++.+|.+.|++++|.+.++++++.  .|+.......++.++...|++++|+
T Consensus       516 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~l~~~~~~~g~~~~A~  570 (597)
T 2xpi_A          516 AATWANLGHAYRKLKMYDAAIDALNQGLLL--STNDANVHTAIALVYLHKKIPGLAI  570 (597)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SSCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhCCHHHHH
Confidence            569999999999999999999999999985  4755544455555555556698885

>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=3.5e-30  Score=240.89  Aligned_cols=377  Identities=15%  Similarity=0.046  Sum_probs=214.8

Q ss_pred             HHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHh
Q 009255           88 NGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKID  167 (539)
Q Consensus        88 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  167 (539)
                      ..+.+.|++++|.+.++++.+.. +.+...+..+...+...|++++|...++...+. .+.+..+|..+...+.+.|+++
T Consensus         7 ~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~-~p~~~~~~~~lg~~~~~~g~~~   84 (388)
T 1w3b_A            7 HREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQ-NPLLAEAYSNLGNVYKERGQLQ   84 (388)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc-CCCchHHHHHHHHHHHHCCCHH
Confidence            33444555555555555554432 223334444444445555555555555544443 1224444555555555555555


Q ss_pred             HHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHh
Q 009255          168 KACKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSAS  247 (539)
Q Consensus       168 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  247 (539)
                      +|...|+++.+.. +.+..+|..+..++...|++++|.+.                                   ++.+.
T Consensus        85 ~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~-----------------------------------~~~al  128 (388)
T 1w3b_A           85 EAIEHYRHALRLK-PDFIDGYINLAAALVAAGDMEGAVQA-----------------------------------YVSAL  128 (388)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHH-----------------------------------HHHHH
T ss_pred             HHHHHHHHHHHcC-cchHHHHHHHHHHHHHcCCHHHHHHH-----------------------------------HHHHH
Confidence            5555555544431 12233444444444444444444444                                   44444


Q ss_pred             hcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHh
Q 009255          248 KRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETT  327 (539)
Q Consensus       248 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  327 (539)
                      +... .+...+..+...+...|++++|.+.|+++....+. +..+|..+...+...|++++|...|+++.+..+. +...
T Consensus       129 ~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~  205 (388)
T 1w3b_A          129 QYNP-DLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPN-FAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPN-FLDA  205 (388)
T ss_dssp             HHCT-TCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTT-CHHH
T ss_pred             HhCC-CcHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-cHHH
Confidence            4321 12334444555555566666666666665554332 4556666666666666666666666666654322 4555


Q ss_pred             HHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHc
Q 009255          328 FNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCK  407 (539)
Q Consensus       328 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~  407 (539)
                      +..+...+...|++++|...+++..+.. +.+..++..+..+|...|++++|...|+++.+.++. ++.+|..++.++..
T Consensus       206 ~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~  283 (388)
T 1w3b_A          206 YINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQPH-FPDAYCNLANALKE  283 (388)
T ss_dssp             HHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSS-CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHH
Confidence            6666666666677777777766666543 224566666677777777777777777776665322 45566777777777


Q ss_pred             cCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHH
Q 009255          408 ERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSE  487 (539)
Q Consensus       408 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  487 (539)
                      .|++++|+..++++.+.. +.+..++..++.++...|++++|.+.++++++..                  |.+..++..
T Consensus       284 ~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~------------------p~~~~~~~~  344 (388)
T 1w3b_A          284 KGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEVF------------------PEFAAAHSN  344 (388)
T ss_dssp             HSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSC------------------TTCHHHHHH
T ss_pred             cCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC------------------CCcHHHHHH
Confidence            777777777777776542 4456666677777777777777777777776654                  233446777


Q ss_pred             HHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 009255          488 KINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGLI  528 (539)
Q Consensus       488 l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~  528 (539)
                      ++.+|.+.|++++|.+.|+++++  +.|+.......++.++
T Consensus       345 l~~~~~~~g~~~~A~~~~~~a~~--~~p~~~~a~~~lg~~~  383 (388)
T 1w3b_A          345 LASVLQQQGKLQEALMHYKEAIR--ISPTFADAYSNMGNTL  383 (388)
T ss_dssp             HHHHHHTTTCCHHHHHHHHHHHT--TCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHh--hCCCCHHHHHhHHHHH
Confidence            77777777777777777777775  4566554444444443

>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=6.9e-30  Score=238.91  Aligned_cols=383  Identities=13%  Similarity=0.023  Sum_probs=278.8

Q ss_pred             HHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCC
Q 009255           51 LVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGR  130 (539)
Q Consensus        51 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  130 (539)
                      +...+.+.|++++|...++.+.+..+. +...+..+...+...|++++|...++...+.. +.+..+|..+...+...|+
T Consensus         5 ~a~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g~   82 (388)
T 1w3b_A            5 LAHREYQAGDFEAAERHCMQLWRQEPD-NTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQ   82 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCC
Confidence            456778999999999999999887543 56677888888999999999999999988764 5678899999999999999


Q ss_pred             HhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHH
Q 009255          131 SMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDV  210 (539)
Q Consensus       131 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  210 (539)
                      +++|++.|+++.+.. +.+..++..++.++.+.|++++|.+.++++.+.. +.+...+..+...+...|++++|.+.|++
T Consensus        83 ~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  160 (388)
T 1w3b_A           83 LQEAIEHYRHALRLK-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYLK  160 (388)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            999999999998863 3356789999999999999999999999998863 33455677788888888999999999988


Q ss_pred             HhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCH
Q 009255          211 MGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPST  290 (539)
Q Consensus       211 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  290 (539)
                      +.+.. +.+..++..+...+...|++++|...++++.+.                                   ++. +.
T Consensus       161 al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~-----------------------------------~p~-~~  203 (388)
T 1w3b_A          161 AIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTL-----------------------------------DPN-FL  203 (388)
T ss_dssp             HHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH-----------------------------------CTT-CH
T ss_pred             HHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc-----------------------------------CCC-cH
Confidence            87652 223445555555555555555555555555443                                   222 34


Q ss_pred             hhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHH
Q 009255          291 FTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGL  370 (539)
Q Consensus       291 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  370 (539)
                      ..+..+...+...|++++|...++++....+. +..++..+..++...|++++|...++++++.. +.+..++..++.++
T Consensus       204 ~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~  281 (388)
T 1w3b_A          204 DAYINLGNVLKEARIFDRAVAAYLRALSLSPN-HAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANAL  281 (388)
T ss_dssp             HHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHH
Confidence            45555555566666666666666665554322 45556666666666677777777777666653 23456677777777


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHH
Q 009255          371 CREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQ  450 (539)
Q Consensus       371 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  450 (539)
                      .+.|++++|...++++.+.. +.+..++..++..+...|++++|+..++++.+.. +.+..++..++.++.+.|++++|.
T Consensus       282 ~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~  359 (388)
T 1w3b_A          282 KEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEAL  359 (388)
T ss_dssp             HHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCCHHHH
T ss_pred             HHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHH
Confidence            77777777777777777663 3466677777777888888888888888877542 334667777778888888888888


Q ss_pred             HHHHHHHHcCCCCcccccCCCCCCCCCCCCCh-hhHHHHHHHHhhcCC
Q 009255          451 KFTSIMVETGKINHQVVQPNTSKTPEEIDPSS-ISYSEKINEHCSQGR  497 (539)
Q Consensus       451 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~  497 (539)
                      +.++++++..                   |+. .+|..++.++...|+
T Consensus       360 ~~~~~a~~~~-------------------p~~~~a~~~lg~~~~~~~~  388 (388)
T 1w3b_A          360 MHYKEAIRIS-------------------PTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHHHHHHTTC-------------------TTCHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHhhC-------------------CCCHHHHHhHHHHHHHccC
Confidence            8888887765                   443 377777777766553

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=99.97  E-value=1.1e-29  Score=240.25  Aligned_cols=206  Identities=19%  Similarity=0.272  Sum_probs=161.6

Q ss_pred             HHHHHHHHHHhCCCCCCHH-HHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCC---------hH
Q 009255           28 EVRDLLSDMKKQGLVPNRT-TYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGM---------LE   97 (539)
Q Consensus        28 ~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---------~~   97 (539)
                      .+..+.+.+.+.+....+. .++.++.+|++.|++++|+++|++|.+.|+.||..+|+.||.+|++.+.         ++
T Consensus         8 ~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~   87 (501)
T 4g26_A            8 PSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLS   87 (501)
T ss_dssp             ----------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHH
T ss_pred             hHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHH
Confidence            3455666676666655554 5777888888888888888888888888888888888888888876554         57


Q ss_pred             HHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHHHH
Q 009255           98 EAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNME  177 (539)
Q Consensus        98 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  177 (539)
                      .|.++|++|...|+.||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.
T Consensus        88 ~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~  167 (501)
T 4g26_A           88 RGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMV  167 (501)
T ss_dssp             HHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHH
Confidence            78888888888888888888888888888888888888888888888888888888888888888888888888888888


Q ss_pred             HcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhcc
Q 009255          178 ENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCE  233 (539)
Q Consensus       178 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  233 (539)
                      +.|+.||..+|+.|+.+|++.|++++|.++|++|.+.+..|+..|+..++..++..
T Consensus       168 ~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          168 ESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             hcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            88888888888888888888888888888888888888888888888888877653

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=99.97  E-value=1.5e-29  Score=239.52  Aligned_cols=196  Identities=17%  Similarity=0.201  Sum_probs=182.1

Q ss_pred             CCCCCcCh-hhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCC---------HhHHHHHHHHHH
Q 009255            3 GFGCLPDN-VTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGW---------LKEAMRVVDLMT   72 (539)
Q Consensus         3 ~~g~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---------~~~a~~~~~~~~   72 (539)
                      +.+..+.+ ..++.+|.+|++.|++++|.++|++|.+.|+.||..+|++|+.+|++.+.         ++.|.++|++|.
T Consensus        18 ~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~   97 (501)
T 4g26_A           18 KKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMI   97 (501)
T ss_dssp             ------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHH
T ss_pred             HhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHH
Confidence            34444443 35888999999999999999999999999999999999999999987654         688999999999


Q ss_pred             hCCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHH
Q 009255           73 QNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVT  152 (539)
Q Consensus        73 ~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  152 (539)
                      ..|..||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+
T Consensus        98 ~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~t  177 (501)
T 4g26_A           98 VDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPE  177 (501)
T ss_dssp             HTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHH
T ss_pred             HhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCCHhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhc
Q 009255          153 HNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKA  198 (539)
Q Consensus       153 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  198 (539)
                      |+.|+.+|++.|++++|.+++++|.+.|..|+..||+.++..+...
T Consensus       178 y~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          178 LAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             HHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            9999999999999999999999999999999999999999988753

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.97  E-value=3.7e-27  Score=229.43  Aligned_cols=461  Identities=11%  Similarity=0.006  Sum_probs=316.1

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHH
Q 009255           10 NVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLING   89 (539)
Q Consensus        10 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (539)
                      ...+......+.+.|++++|+..|+++...+  |++.++..++.++.+.|++++|...++.+.+.++. +..++..+..+
T Consensus         6 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~   82 (514)
T 2gw1_A            6 ALALKDKGNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELKPD-YSKVLLRRASA   82 (514)
T ss_dssp             HHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccChH-HHHHHHHHHHH
Confidence            4567777888888899999999998888875  57888888888888889999999888888876543 66788888888


Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHH
Q 009255           90 WCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKA  169 (539)
Q Consensus        90 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  169 (539)
                      +...|++++|...|+++...+ +++......++..+........+.+.+..+...+..|+...+..-.........    
T Consensus        83 ~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~----  157 (514)
T 2gw1_A           83 NEGLGKFADAMFDLSVLSLNG-DFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQEN----  157 (514)
T ss_dssp             HHHTTCHHHHHHHHHHHHHSS-SCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------C----
T ss_pred             HHHHhhHHHHHHHHHHHHhcC-CCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccC----
Confidence            888888888888888888765 334444444444444333333333333333222211221111110000000000    


Q ss_pred             HHHHHHHHHcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhc---cCCHHHHHHHHHHH
Q 009255          170 CKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCC---EKKLDEAYMLLNSA  246 (539)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~  246 (539)
                                  .|+.......+..+......          .....+.+...+......+..   .|++++|...++.+
T Consensus       158 ------------~~~~~~~~~~~~~~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  215 (514)
T 2gw1_A          158 ------------LPSVTSMASFFGIFKPELTF----------ANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKA  215 (514)
T ss_dssp             ------------CCCHHHHHHHHTTSCCCCCC----------SSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHH
T ss_pred             ------------CchhHHHHHHHhhcCHHHHH----------HHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHH
Confidence                        11111111100000000000          000001123333333333332   56666666666665


Q ss_pred             hh-----cCC--------ccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHH
Q 009255          247 SK-----RGY--------YLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDML  313 (539)
Q Consensus       247 ~~-----~~~--------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  313 (539)
                      .+     ...        +.+...+..+...+...|++++|...++++....+.  ...+..+...+...|++++|...+
T Consensus       216 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~  293 (514)
T 2gw1_A          216 ARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDIKKAIELFPR--VNSYIYMALIMADRNDSTEYYNYF  293 (514)
T ss_dssp             HHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHTSSCCTTGGGHH
T ss_pred             HHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcc--HHHHHHHHHHHHHCCCHHHHHHHH
Confidence            55     210        123456777888888999999999999998887544  778888899999999999999999


Q ss_pred             HHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC
Q 009255          314 NELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAV  393 (539)
Q Consensus       314 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  393 (539)
                      +++....+ .+...+..+...+...|++++|...++++.+.. +.+...+..+..++...|++++|...++++.... +.
T Consensus       294 ~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~  370 (514)
T 2gw1_A          294 DKALKLDS-NNSSVYYHRGQMNFILQNYDQAGKDFDKAKELD-PENIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PE  370 (514)
T ss_dssp             HHHHTTCT-TCTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTC-SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TT
T ss_pred             HHHhhcCc-CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-cc
Confidence            99887643 356788888999999999999999999999875 3367788889999999999999999999998873 33


Q ss_pred             ChhhHHHHHHHHHccCChHHHHHHHHHHHhCCC-CCC----HhhHHHHHHHHHh---cCCHHHHHHHHHHHHHcCCCCcc
Q 009255          394 DSVTYNTLISSLCKERRLEDAFGLLSEMEEKKL-GPD----RYTYAAIHTALVE---SGRLEEAQKFTSIMVETGKINHQ  465 (539)
Q Consensus       394 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~---~g~~~~A~~~~~~~~~~~~~~~~  465 (539)
                      +...+..++..+...|++++|...++++.+... .++    ..++..++.++..   .|++++|.+.++++++..     
T Consensus       371 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~-----  445 (514)
T 2gw1_A          371 APEVPNFFAEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLD-----  445 (514)
T ss_dssp             CSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHC-----
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhC-----
Confidence            677899999999999999999999999986421 111    2378889999999   999999999999999987     


Q ss_pred             cccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 009255          466 VVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMN  525 (539)
Q Consensus       466 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~  525 (539)
                                   +.+..++..++.+|...|++++|...|+++++  +.|+.......+.
T Consensus       446 -------------~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~--~~~~~~~~~~~~~  490 (514)
T 2gw1_A          446 -------------PRSEQAKIGLAQMKLQQEDIDEAITLFEESAD--LARTMEEKLQAIT  490 (514)
T ss_dssp             -------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCSSHHHHHHHHH
T ss_pred             -------------cccHHHHHHHHHHHHHhcCHHHHHHHHHHHHH--hccccHHHHHHHH
Confidence                         34455899999999999999999999999998  5688776555443

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.96  E-value=4.1e-26  Score=222.06  Aligned_cols=440  Identities=10%  Similarity=0.008  Sum_probs=283.3

Q ss_pred             HHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHH
Q 009255           46 TTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRF  125 (539)
Q Consensus        46 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  125 (539)
                      ..+...+..+.+.|++++|+..|+++.+.+  |+...+..+..++.+.|++++|+..++++.+.+ +.+..++..+..++
T Consensus         7 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~   83 (514)
T 2gw1_A            7 LALKDKGNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRASAN   83 (514)
T ss_dssp             HHHHHHHHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHHHH
Confidence            345555555666666666666666665543  355555666666666666666666666655543 23344555555555


Q ss_pred             hccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCHHHHH
Q 009255          126 FESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAF  205 (539)
Q Consensus       126 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  205 (539)
                      ...|++++|...|+++...+. ++......++..+........+.+.+..+...+..|+...+...      .       
T Consensus        84 ~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~------~-------  149 (514)
T 2gw1_A           84 EGLGKFADAMFDLSVLSLNGD-FNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPA------K-------  149 (514)
T ss_dssp             HHTTCHHHHHHHHHHHHHSSS-CCGGGTHHHHHHHHHHHHHHHHTTC---------------------------------
T ss_pred             HHHhhHHHHHHHHHHHHhcCC-CccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChh------h-------
Confidence            555566666555555555432 22223333333332222222222222222221111111110000      0       


Q ss_pred             HHHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHc---cCCHHHHHHHHHHHH
Q 009255          206 RMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFR---DEKANRALKLWDEMK  282 (539)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~  282 (539)
                         .........|+.......+..+.......          ....+.+...+......+..   .|++++|+..|+++.
T Consensus       150 ---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  216 (514)
T 2gw1_A          150 ---ERKDKQENLPSVTSMASFFGIFKPELTFA----------NYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAA  216 (514)
T ss_dssp             ----------CCCCHHHHHHHHTTSCCCCCCS----------SCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHH
T ss_pred             ---HHHhhccCCchhHHHHHHHhhcCHHHHHH----------HhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHH
Confidence               00000111222222222111111111000          00001124445555555554   899999999999988


Q ss_pred             H-----c--CC------CCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHH
Q 009255          283 E-----R--QI------MPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHN  349 (539)
Q Consensus       283 ~-----~--~~------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  349 (539)
                      .     .  .+      +.+..++..+...+...|++++|...++++....+.  ...+..+..++...|++++|...++
T Consensus       217 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~  294 (514)
T 2gw1_A          217 RLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDIKKAIELFPR--VNSYIYMALIMADRNDSTEYYNYFD  294 (514)
T ss_dssp             HHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHTSSCCTTGGGHHH
T ss_pred             HHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcc--HHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            7     3  11      123567788889999999999999999999987544  7888889999999999999999999


Q ss_pred             HHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCC
Q 009255          350 KMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPD  429 (539)
Q Consensus       350 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~  429 (539)
                      .+.+.. +.+..++..+..++...|++++|...++++....+. +...+..++..+...|++++|+..++++.+.. +.+
T Consensus       295 ~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~  371 (514)
T 2gw1_A          295 KALKLD-SNNSSVYYHRGQMNFILQNYDQAGKDFDKAKELDPE-NIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PEA  371 (514)
T ss_dssp             HHHTTC-TTCTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTCSS-CSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TTC
T ss_pred             HHhhcC-cCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhChh-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-ccC
Confidence            999874 446788999999999999999999999999987433 67789999999999999999999999998753 345


Q ss_pred             HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCC----hhhHHHHHHHHhh---cCCHHHHH
Q 009255          430 RYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPS----SISYSEKINEHCS---QGRYKDAL  502 (539)
Q Consensus       430 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~---~g~~~~A~  502 (539)
                      ..++..++.++...|++++|.+.++++++....                .+.    ...|..++.++..   .|++++|.
T Consensus       372 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~----------------~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~  435 (514)
T 2gw1_A          372 PEVPNFFAEILTDKNDFDKALKQYDLAIELENK----------------LDGIYVGIAPLVGKATLLTRNPTVENFIEAT  435 (514)
T ss_dssp             SHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHT----------------SSSCSSCSHHHHHHHHHHHTSCCTTHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhc----------------cchHHHHHHHHHHHHHHHhhhhhcCCHHHHH
Confidence            678888999999999999999999999987622                122    3389999999999   99999999


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHhcCCchhhcc
Q 009255          503 QIFEETRQKGIAINKSTYMNLMNGLIKRRKSISKAV  538 (539)
Q Consensus       503 ~~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~A~  538 (539)
                      ..++++++  ..|+.......++.++...|++++|+
T Consensus       436 ~~~~~a~~--~~~~~~~~~~~la~~~~~~g~~~~A~  469 (514)
T 2gw1_A          436 NLLEKASK--LDPRSEQAKIGLAQMKLQQEDIDEAI  469 (514)
T ss_dssp             HHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHH--hCcccHHHHHHHHHHHHHhcCHHHHH
Confidence            99999998  45777666666676777777788885

>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=99.96  E-value=1.6e-25  Score=219.19  Aligned_cols=440  Identities=11%  Similarity=0.037  Sum_probs=289.9

Q ss_pred             HHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHH
Q 009255           46 TTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRF  125 (539)
Q Consensus        46 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  125 (539)
                      ..+..++..+.+.|++++|+..|+.+.+..+. ++..+..+..++.+.|++++|++.|+++.+.+ +.+..++..+..++
T Consensus        26 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~  103 (537)
T 3fp2_A           26 VQLKNRGNHFFTAKNFNEAIKYYQYAIELDPN-EPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRASAN  103 (537)
T ss_dssp             HHHHHHHHHHHHTTCCC-CHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhhCCC-CcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHHHH
Confidence            34555666666666666666666666655432 55566666666666666666666666665543 33455566666666


Q ss_pred             hccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHHHHHcC--CCCChhhHHHHHHHHHhcCCHHH
Q 009255          126 FESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENG--FSPDCVTYNTLIDANCKAGNMEE  203 (539)
Q Consensus       126 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~  203 (539)
                      ...|++++|...|+.+ ..  .|+.  ....+..+...+....|...++.+....  ..+........+..+....+.+.
T Consensus       104 ~~~g~~~~A~~~~~~~-~~--~~~~--~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  178 (537)
T 3fp2_A          104 ESLGNFTDAMFDLSVL-SL--NGDF--DGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHL  178 (537)
T ss_dssp             HHHTCHHHHHHHHHHH-C---------------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHH
T ss_pred             HHcCCHHHHHHHHHHH-hc--CCCC--ChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHH
Confidence            6666666666666422 21  1111  1112233334444456666666654321  00011111223333444555555


Q ss_pred             HHHHHHHHhhCCCCCCHH-hHHHHHHHHhc--------cCCHHHHHHHHHHHhhcCCccCH-------hhHHHHHHHHHc
Q 009255          204 AFRMMDVMGRKGLKMNTI-TLNTILHTLCC--------EKKLDEAYMLLNSASKRGYYLDE-------VSYGTLITGYFR  267 (539)
Q Consensus       204 a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~--------~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~  267 (539)
                      +...+......  .+... ....+...+..        .+++++|...++.+.+.... +.       ..+..+...+..
T Consensus       179 ~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~p~-~~~~~~~~~~~~~~~g~~~~~  255 (537)
T 3fp2_A          179 EVSSVNTSSNY--DTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSANTV-DDPLRENAALALCYTGIFHFL  255 (537)
T ss_dssp             HHHTSCCCCSS--CSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC--CC-CHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhcccc--ccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHCCC-cchhhHHHHHHHHHHHHHHHh
Confidence            44433322211  11111 12222222221        23667777777777765322 22       245666778888


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHH
Q 009255          268 DEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQF  347 (539)
Q Consensus       268 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  347 (539)
                      .|++++|...++++....  |+...+..+...+...|++++|...++++....+ .+..++..+...+...|++++|...
T Consensus       256 ~~~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~  332 (537)
T 3fp2_A          256 KNNLLDAQVLLQESINLH--PTPNSYIFLALTLADKENSQEFFKFFQKAVDLNP-EYPPTYYHRGQMYFILQDYKNAKED  332 (537)
T ss_dssp             TTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cccHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHhcCHHHHHHHHHHHhccCC-CCHHHHHHHHHHHHhcCCHHHHHHH
Confidence            999999999999998874  4578888899999999999999999999988654 3677888999999999999999999


Q ss_pred             HHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCC-
Q 009255          348 HNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKL-  426 (539)
Q Consensus       348 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-  426 (539)
                      ++++.+.. +.+...+..+..++...|++++|...++++.... +.+...+..++..+...|++++|+..++++.+... 
T Consensus       333 ~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~  410 (537)
T 3fp2_A          333 FQKAQSLN-PENVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEV  410 (537)
T ss_dssp             HHHHHHHC-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCc
Confidence            99998864 3367788899999999999999999999999874 33677899999999999999999999999886421 


Q ss_pred             ----CCCHhhHHHHHHHHHhc----------CCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHH
Q 009255          427 ----GPDRYTYAAIHTALVES----------GRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEH  492 (539)
Q Consensus       427 ----~~~~~~~~~l~~~~~~~----------g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  492 (539)
                          ......+...+.++...          |++++|...++++++..                  +.+..++..++.+|
T Consensus       411 ~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~------------------p~~~~~~~~l~~~~  472 (537)
T 3fp2_A          411 QEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELD------------------PRSEQAKIGLAQLK  472 (537)
T ss_dssp             CSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHC------------------TTCHHHHHHHHHHH
T ss_pred             chhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhC------------------CCCHHHHHHHHHHH
Confidence                11112244556777777          99999999999999987                  34455999999999


Q ss_pred             hhcCCHHHHHHHHHHHHHcCCCCCHHHH
Q 009255          493 CSQGRYKDALQIFEETRQKGIAINKSTY  520 (539)
Q Consensus       493 ~~~g~~~~A~~~~~~~~~~~~~p~~~~~  520 (539)
                      ...|++++|.+.|+++++.  .|+....
T Consensus       473 ~~~g~~~~A~~~~~~al~~--~~~~~~~  498 (537)
T 3fp2_A          473 LQMEKIDEAIELFEDSAIL--ARTMDEK  498 (537)
T ss_dssp             HHTTCHHHHHHHHHHHHHH--C--CHHH
T ss_pred             HHhccHHHHHHHHHHHHHh--CCCcHHH
Confidence            9999999999999999984  5654444

>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=99.95  E-value=1.1e-24  Score=213.04  Aligned_cols=431  Identities=12%  Similarity=0.038  Sum_probs=329.5

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHH
Q 009255           10 NVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLING   89 (539)
Q Consensus        10 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (539)
                      ...|..+...+.+.|++++|+..|+++.... |.++.++..++.+|.+.|++++|++.|+++.+.++. +...+..+..+
T Consensus        25 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~  102 (537)
T 3fp2_A           25 AVQLKNRGNHFFTAKNFNEAIKYYQYAIELD-PNEPVFYSNISACYISTGDLEKVIEFTTKALEIKPD-HSKALLRRASA  102 (537)
T ss_dssp             HHHHHHHHHHHHHTTCCC-CHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc-hHHHHHHHHHH
Confidence            4578889999999999999999999999986 668899999999999999999999999999987654 77889999999


Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCC------CCCCHHHHHHHHHHHHhc
Q 009255           90 WCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHG------IKPNAVTHNIMIKWYCKE  163 (539)
Q Consensus        90 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~  163 (539)
                      +...|++++|+..|+.+ ..  .|+.  ....+..+...+....|...++++....      ..|+..    .+..+...
T Consensus       103 ~~~~g~~~~A~~~~~~~-~~--~~~~--~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~----~~~~~~~~  173 (537)
T 3fp2_A          103 NESLGNFTDAMFDLSVL-SL--NGDF--DGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNT----SLASFFGI  173 (537)
T ss_dssp             HHHHTCHHHHHHHHHHH-C---------------CHHHHHHHHHHHHHHHHHCC-------CCCCCHH----HHHHHHHT
T ss_pred             HHHcCCHHHHHHHHHHH-hc--CCCC--ChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHh----HHHHHHHh
Confidence            99999999999999744 32  2322  2223445555666788999999886541      223333    33445556


Q ss_pred             CCHhHHHHHHHHHHHcCCCCChh-hHHHHHHHHHh--------cCCHHHHHHHHHHHhhCCCCCCH-------HhHHHHH
Q 009255          164 GKIDKACKIVRNMEENGFSPDCV-TYNTLIDANCK--------AGNMEEAFRMMDVMGRKGLKMNT-------ITLNTIL  227 (539)
Q Consensus       164 g~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~--------~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~  227 (539)
                      .+.+.+...+......  .+... ....+...+..        .|++++|+.+++++.+.... +.       .++..+.
T Consensus       174 ~~~~~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~p~-~~~~~~~~~~~~~~~g  250 (537)
T 3fp2_A          174 FDSHLEVSSVNTSSNY--DTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSANTV-DDPLRENAALALCYTG  250 (537)
T ss_dssp             SCHHHHHHTSCCCCSS--CSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC--CC-CHHHHHHHHHHHHHHH
T ss_pred             cChHHHHHHHhhcccc--ccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHCCC-cchhhHHHHHHHHHHH
Confidence            6666555444332221  12211 22233333222        25789999999999876422 32       2466667


Q ss_pred             HHHhccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHH
Q 009255          228 HTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTE  307 (539)
Q Consensus       228 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  307 (539)
                      ..+...|++++|...++.+.+..  |+...+..+...+...|++++|...++++....+. +..++..+...+...|+++
T Consensus       251 ~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~  327 (537)
T 3fp2_A          251 IFHFLKNNLLDAQVLLQESINLH--PTPNSYIFLALTLADKENSQEFFKFFQKAVDLNPE-YPPTYYHRGQMYFILQDYK  327 (537)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHhcccHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHhcCHHHHHHHHHHHhccCCC-CHHHHHHHHHHHHhcCCHH
Confidence            78889999999999999999874  34778888999999999999999999999887554 6888999999999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 009255          308 QAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWI  387 (539)
Q Consensus       308 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  387 (539)
                      +|...++++.+..+. +...+..+...+...|++++|...++++.+.. +.+...+..+..++...|++++|...++++.
T Consensus       328 ~A~~~~~~a~~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~  405 (537)
T 3fp2_A          328 NAKEDFQKAQSLNPE-NVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAK  405 (537)
T ss_dssp             HHHHHHHHHHHHCTT-CSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            999999999887543 56788889999999999999999999999874 4467788999999999999999999999988


Q ss_pred             HcCCCC-----ChhhHHHHHHHHHcc----------CChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHH
Q 009255          388 LKGKAV-----DSVTYNTLISSLCKE----------RRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKF  452 (539)
Q Consensus       388 ~~~~~~-----~~~~~~~l~~~~~~~----------~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  452 (539)
                      ...+..     ....+.....++...          |++++|+..++++.+.. +.+..++..++.++...|++++|.+.
T Consensus       406 ~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~  484 (537)
T 3fp2_A          406 RLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELD-PRSEQAKIGLAQLKLQMEKIDEAIEL  484 (537)
T ss_dssp             HHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHH
Confidence            753211     111244556777777          99999999999999763 45578888999999999999999999


Q ss_pred             HHHHHHcC
Q 009255          453 TSIMVETG  460 (539)
Q Consensus       453 ~~~~~~~~  460 (539)
                      ++++++..
T Consensus       485 ~~~al~~~  492 (537)
T 3fp2_A          485 FEDSAILA  492 (537)
T ss_dssp             HHHHHHHC
T ss_pred             HHHHHHhC
Confidence            99999987

>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=99.95  E-value=9.1e-24  Score=201.72  Aligned_cols=376  Identities=14%  Similarity=0.055  Sum_probs=226.0

Q ss_pred             CcChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHH
Q 009255            7 LPDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNML   86 (539)
Q Consensus         7 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l   86 (539)
                      +.+...+..++..+.+.|++++|+.+|+++.... |.+..++..++.++...|++++|...|+.+.+.++. +...+..+
T Consensus        23 p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l  100 (450)
T 2y4t_A           23 MADVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKMD-FTAARLQR  100 (450)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-cHHHHHHH
Confidence            3455677788888888888888888888888764 557778888888888888888888888888876543 56777888


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCCCh---hhHHHH------------HHHHhccCCHhHHHHHHHHHHhCCCCCCHH
Q 009255           87 INGWCNAGMLEEAFRLRKEMESLKLLPDV---VTYNTL------------INRFFESGRSMEAFKLIDELDEHGIKPNAV  151 (539)
Q Consensus        87 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~---~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  151 (539)
                      +.++.+.|++++|...|+++.+.. +.+.   ..+..+            ...+...|++++|+..|+++.+.. +.+..
T Consensus       101 ~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~  178 (450)
T 2y4t_A          101 GHLLLKQGKLDEAEDDFKKVLKSN-PSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVC-VWDAE  178 (450)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcC-CCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChH
Confidence            888888888888888888887753 2233   444444            334677778888888887777652 33666


Q ss_pred             HHHHHHHHHHhcCCHhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHh
Q 009255          152 THNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLC  231 (539)
Q Consensus       152 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  231 (539)
                      ++..++.+|.+.|++++|...|+++.+.. +.+..++..++..+...|++++|+..|+++.... +.+...+..+...  
T Consensus       179 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~~~~~--  254 (450)
T 2y4t_A          179 LRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRECLKLD-QDHKRCFAHYKQV--  254 (450)
T ss_dssp             HHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH--
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CChHHHHHHHHHH--
Confidence            77777777777888888888777776653 3456677777777777788888887777776542 1123333222000  


Q ss_pred             ccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCC----HhhHHHHHHHHHcCCCHH
Q 009255          232 CEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPS----TFTYNAMIWGLSQSGKTE  307 (539)
Q Consensus       232 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~  307 (539)
                                     .      .......+...+...|++++|...|+++....+. +    ...+..+..++.+.|+++
T Consensus       255 ---------------~------~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~~~~~~l~~~~~~~g~~~  312 (450)
T 2y4t_A          255 ---------------K------KLNKLIESAEELIRDGRYTDATSKYESVMKTEPS-IAEYTVRSKERICHCFSKDEKPV  312 (450)
T ss_dssp             ---------------H------HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCS-SHHHHHHHHHHHHHHHHTTTCHH
T ss_pred             ---------------H------HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc-chHHHHHHHHHHHHHHHHCCCHH
Confidence                           0      0001112244444555555555555555443221 1    224444555555555555


Q ss_pred             HHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHH------------HHHhcC-
Q 009255          308 QAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLS------------GLCREG-  374 (539)
Q Consensus       308 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~------------~~~~~g-  374 (539)
                      +|+..++++.+..+ .+...+..+..+|...|++++|...++++++.. +.+...+..+..            .|...| 
T Consensus       313 ~A~~~~~~a~~~~p-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~~~~y~~lg~  390 (450)
T 2y4t_A          313 EAIRVCSEVLQMEP-DNVNALKDRAEAYLIEEMYDEAIQDYETAQEHN-ENDQQIREGLEKAQRLLKQSQKRDYYKILGV  390 (450)
T ss_dssp             HHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHHHHHHSCCSGGGSCS
T ss_pred             HHHHHHHHHHHhCc-ccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-cchHHHHHHHHHHHHHhhcccchhHHHHhCC
Confidence            55555555544321 234455555555555555555555555555432 113333333331            223333 


Q ss_pred             ----CHHHHHHHHHH-HHHcCC--CCCh-------hhHHHHHHHHHccCChHHH
Q 009255          375 ----ILEKALKFFRS-WILKGK--AVDS-------VTYNTLISSLCKERRLEDA  414 (539)
Q Consensus       375 ----~~~~A~~~~~~-~~~~~~--~~~~-------~~~~~l~~~~~~~~~~~~A  414 (539)
                          +.+++.+.+++ .....+  .|+.       ..+..+..+|...++.++.
T Consensus       391 ~~~~~~~~~~~~y~~~~l~~~pd~~~~~~~~~~a~~~~~~i~~ay~~L~d~~~r  444 (450)
T 2y4t_A          391 KRNAKKQEIIKAYRKLALQWHPDNFQNEEEKKKAEKKFIDIAAAKEVLSDPEMR  444 (450)
T ss_dssp             STTCCTTHHHHHHHHHHHHSCGGGCCSHHHHHHHHHHHHHHHHHHHHSSGGGGC
T ss_pred             CccCCHHHHHHHHHHHHHHhCCCCCCCchHHHHHHHHHHHHHHHHHHhCCHHHH
Confidence                45566666665 333211  1121       2566777777777776554

>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=99.95  E-value=8.7e-24  Score=201.88  Aligned_cols=349  Identities=12%  Similarity=0.072  Sum_probs=221.7

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 009255           79 DVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIK  158 (539)
Q Consensus        79 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  158 (539)
                      +...+..++..+.+.|++++|+.+|+++.+.. +.+..++..+..++...|++++|+..|+++.+.+. .+..++..++.
T Consensus        25 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~  102 (450)
T 2y4t_A           25 DVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKM-DFTAARLQRGH  102 (450)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC-CcHHHHHHHHH
Confidence            45566666666666667777766666666542 33555666666666666666666666666665432 24556666666


Q ss_pred             HHHhcCCHhHHHHHHHHHHHcCCCCCh---hhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCC
Q 009255          159 WYCKEGKIDKACKIVRNMEENGFSPDC---VTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKK  235 (539)
Q Consensus       159 ~~~~~g~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  235 (539)
                      +|.+.|++++|...|+++.+.. +.+.   ..+..++..+...                       .+......+...|+
T Consensus       103 ~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~-----------------------~~~~~a~~~~~~~~  158 (450)
T 2y4t_A          103 LLLKQGKLDEAEDDFKKVLKSN-PSENEEKEAQSQLIKSDEMQ-----------------------RLRSQALNAFGSGD  158 (450)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHHTC
T ss_pred             HHHHcCCHHHHHHHHHHHHhcC-CCChhhHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHcCC
Confidence            6666666666666666666542 1222   3444443321100                       11122334555666


Q ss_pred             HHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHH
Q 009255          236 LDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNE  315 (539)
Q Consensus       236 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  315 (539)
                      +++|...++.+.+... .+...+..+..+|...|++++|+..|+++....+. +..++..++..|...|++++|+..+++
T Consensus       159 ~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~  236 (450)
T 2y4t_A          159 YTAAIAFLDKILEVCV-WDAELRELRAECFIKEGEPRKAISDLKAASKLKND-NTEAFYKISTLYYQLGDHELSLSEVRE  236 (450)
T ss_dssp             HHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHCS-CHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            6666666666665432 25566666777777777777777777776654332 566677777777777777777777777


Q ss_pred             HHHCCCCCCHHhHHHH------------HHHHhcCCCHHHHHHHHHHHHhCCCCCC----HHhHHHHHHHHHhcCCHHHH
Q 009255          316 LLQSGMIPDETTFNTI------------IHGFCSEGQVEKALQFHNKMVEKSFKPD----IVTCNILLSGLCREGILEKA  379 (539)
Q Consensus       316 ~~~~~~~~~~~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A  379 (539)
                      +....+. +...+..+            +..+...|++++|...|+.+.+.... +    ...+..++.++.+.|++++|
T Consensus       237 ~~~~~p~-~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~~~~~~l~~~~~~~g~~~~A  314 (450)
T 2y4t_A          237 CLKLDQD-HKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPS-IAEYTVRSKERICHCFSKDEKPVEA  314 (450)
T ss_dssp             HHHHCTT-CHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCS-SHHHHHHHHHHHHHHHHTTTCHHHH
T ss_pred             HHHhCCC-hHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc-chHHHHHHHHHHHHHHHHCCCHHHH
Confidence            7654322 23333333            67788888888898888888875321 2    34677788888888999999


Q ss_pred             HHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCC-HhhHHHHHHH------------HHhcC--
Q 009255          380 LKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPD-RYTYAAIHTA------------LVESG--  444 (539)
Q Consensus       380 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~------------~~~~g--  444 (539)
                      ...++++.... +.+...|..++.+|...|++++|...++++.+.  .|+ ..++..+..+            +...|  
T Consensus       315 ~~~~~~a~~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~~~~y~~lg~~  391 (450)
T 2y4t_A          315 IRVCSEVLQME-PDNVNALKDRAEAYLIEEMYDEAIQDYETAQEH--NENDQQIREGLEKAQRLLKQSQKRDYYKILGVK  391 (450)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--SSSCHHHHHHHHHHHHHHHHHHSCCSGGGSCSS
T ss_pred             HHHHHHHHHhC-cccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CcchHHHHHHHHHHHHHhhcccchhHHHHhCCC
Confidence            99998888763 336778888888888999999999999988864  444 4555555533            33334  


Q ss_pred             ---CHHHHHHHHHH-HHHcC
Q 009255          445 ---RLEEAQKFTSI-MVETG  460 (539)
Q Consensus       445 ---~~~~A~~~~~~-~~~~~  460 (539)
                         +.+++.+.+++ +++..
T Consensus       392 ~~~~~~~~~~~y~~~~l~~~  411 (450)
T 2y4t_A          392 RNAKKQEIIKAYRKLALQWH  411 (450)
T ss_dssp             TTCCTTHHHHHHHHHHHHSC
T ss_pred             ccCCHHHHHHHHHHHHHHhC
Confidence               56777888886 55544

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.92  E-value=1e-21  Score=181.44  Aligned_cols=332  Identities=13%  Similarity=0.077  Sum_probs=241.7

Q ss_pred             CHHHHHHHHHHHHhcCCHhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHH
Q 009255          149 NAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILH  228 (539)
Q Consensus       149 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  228 (539)
                      ++..+..+...+...|++++|...|+++.+.. +.+..++..+...+...|++++|+..++++.+.. +.+...+..+..
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            45567777788888888888888888877753 3456677777888888888888888888877653 235566777777


Q ss_pred             HHhccCCHHHHHHHHHHHhhcCCc--cCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCH
Q 009255          229 TLCCEKKLDEAYMLLNSASKRGYY--LDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKT  306 (539)
Q Consensus       229 ~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  306 (539)
                      ++...|++++|...++.+.+....  .+...+..+...+                       ....+..+...+...|++
T Consensus        80 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~-----------------------~~~~~~~~a~~~~~~~~~  136 (359)
T 3ieg_A           80 LLLKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKAD-----------------------EMQRLRSQALDAFDGADY  136 (359)
T ss_dssp             HHHHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHHHHTTCH
T ss_pred             HHHHcCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHH-----------------------HHHHHHHHHHHHHHccCH
Confidence            777777777777777777765320  1222222221110                       011223345677788888


Q ss_pred             HHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHH
Q 009255          307 EQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSW  386 (539)
Q Consensus       307 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  386 (539)
                      ++|...++++.+..+ .+...+..+...+...|++++|...++.+.+.. +.+..++..+..++...|++++|...++++
T Consensus       137 ~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a  214 (359)
T 3ieg_A          137 TAAITFLDKILEVCV-WDAELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVREC  214 (359)
T ss_dssp             HHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCC-CchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            888888888877643 366777788888888888888888888888764 446778888888888888888888888888


Q ss_pred             HHcCCCCChhhHH------------HHHHHHHccCChHHHHHHHHHHHhCCCCCCH----hhHHHHHHHHHhcCCHHHHH
Q 009255          387 ILKGKAVDSVTYN------------TLISSLCKERRLEDAFGLLSEMEEKKLGPDR----YTYAAIHTALVESGRLEEAQ  450 (539)
Q Consensus       387 ~~~~~~~~~~~~~------------~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~g~~~~A~  450 (539)
                      .+..+. +...+.            .++..+...|++++|+..++++.+.. +.+.    ..+..++.++...|++++|.
T Consensus       215 ~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~la~~~~~~~~~~~A~  292 (359)
T 3ieg_A          215 LKLDQD-HKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTE-PSVAEYTVRSKERICHCFSKDEKPVEAI  292 (359)
T ss_dssp             HHHCTT-CHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSSHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HhhCcc-chHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHHHHHccCHHHHH
Confidence            876322 333333            33667889999999999999998753 2223    23456788999999999999


Q ss_pred             HHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 009255          451 KFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGLIK  529 (539)
Q Consensus       451 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~  529 (539)
                      +.++++++..                  +.+..+|..++.+|...|++++|.+.|+++++  +.|+.......+..+..
T Consensus       293 ~~~~~~~~~~------------------~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~--~~p~~~~~~~~l~~~~~  351 (359)
T 3ieg_A          293 RICSEVLQME------------------PDNVNALKDRAEAYLIEEMYDEAIQDYEAAQE--HNENDQQIREGLEKAQR  351 (359)
T ss_dssp             HHHHHHHHHC------------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--TCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhC------------------cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCCChHHHHHHHHHHH
Confidence            9999999986                  34556999999999999999999999999997  67887766655554443

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.92  E-value=1.2e-19  Score=174.45  Aligned_cols=370  Identities=14%  Similarity=0.084  Sum_probs=234.8

Q ss_pred             cCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhc----cCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cC
Q 009255           93 AGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFE----SGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCK----EG  164 (539)
Q Consensus        93 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g  164 (539)
                      .+++++|+..|++..+.+   +...+..|...|..    .+++++|.++|++..+.|   ++..+..|...|..    .+
T Consensus        56 ~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~  129 (490)
T 2xm6_A           56 TKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LPQAQQNLGVMYHEGNGVKV  129 (490)
T ss_dssp             CCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCC
T ss_pred             CcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCC
Confidence            444444444444444432   33344444444444    444455555554444432   33344444444444    44


Q ss_pred             CHhHHHHHHHHHHHcCCCCChhhHHHHHHHHHh----cCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhc----cCCH
Q 009255          165 KIDKACKIVRNMEENGFSPDCVTYNTLIDANCK----AGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCC----EKKL  236 (539)
Q Consensus       165 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~  236 (539)
                      ++++|...|++..+.|   +...+..+...|..    .+++++|++.|++..+.+   +...+..+...|..    .++.
T Consensus       130 ~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~  203 (490)
T 2xm6_A          130 DKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWSCNQLGYMYSRGLGVERND  203 (490)
T ss_dssp             CHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCH
T ss_pred             CHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCCCcCH
Confidence            5555555555554432   33344444444444    455555555555555443   34444555555544    5566


Q ss_pred             HHHHHHHHHHhhcCCccCHhhHHHHHHHHHc----cCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHc----CCCHHH
Q 009255          237 DEAYMLLNSASKRGYYLDEVSYGTLITGYFR----DEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQ----SGKTEQ  308 (539)
Q Consensus       237 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~  308 (539)
                      ++|...+++..+.+   ++..+..+...|..    .+++++|...|++..+.+   +...+..+...|..    .++.++
T Consensus       204 ~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~~~~~d~~~  277 (490)
T 2xm6_A          204 AISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQFRLGYILEQGLAGAKEPLK  277 (490)
T ss_dssp             HHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHTTTSSCCHHH
T ss_pred             HHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHCCCCCCCCHHH
Confidence            66666666655543   34455555555554    567777777777766542   45566666666666    788888


Q ss_pred             HHHHHHHHHHCCCCCCHHhHHHHHHHHhcC-----CCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcC---CHHHHH
Q 009255          309 AIDMLNELLQSGMIPDETTFNTIIHGFCSE-----GQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREG---ILEKAL  380 (539)
Q Consensus       309 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~A~  380 (539)
                      |+..|++..+.+   +...+..+...+...     +++++|...|++..+.+   +...+..+..+|...|   ++++|.
T Consensus       278 A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~~g~~~~~~~A~  351 (490)
T 2xm6_A          278 ALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG---DATAQANLGAIYFRLGSEEEHKKAV  351 (490)
T ss_dssp             HHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHSCCHHHHHHHH
T ss_pred             HHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCcccHHHHH
Confidence            888888877653   455666677777766     89999999999988864   5567777888887766   789999


Q ss_pred             HHHHHHHHcCCCCChhhHHHHHHHHHc----cCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHh----cCCHHHHHHH
Q 009255          381 KFFRSWILKGKAVDSVTYNTLISSLCK----ERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVE----SGRLEEAQKF  452 (539)
Q Consensus       381 ~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~  452 (539)
                      +.|++..+.+   ++..+..+...|..    .+++++|+..|+++.+.+   +...+..++..+..    .+++++|.++
T Consensus       352 ~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~  425 (490)
T 2xm6_A          352 EWFRKAAAKG---EKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQG---LSAAQVQLGEIYYYGLGVERDYVQAWAW  425 (490)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHH
T ss_pred             HHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHH
Confidence            9999998863   67888899999988    899999999999999865   56678888888887    8999999999


Q ss_pred             HHHHHHcCCCCcccccCCCCCCCCCCCC-ChhhHHHHHHHHhhcCCHHHHHHHHHHHHH
Q 009255          453 TSIMVETGKINHQVVQPNTSKTPEEIDP-SSISYSEKINEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       453 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  510 (539)
                      |+++.+.+..                +| +..+...++..+..  +.+.|.+...+..+
T Consensus       426 ~~~A~~~~~~----------------~~~~~~a~~~l~~~~~~--~~~~a~~~a~~~~~  466 (490)
T 2xm6_A          426 FDTASTNDMN----------------LFGTENRNITEKKLTAK--QLQQAELLSQQYIE  466 (490)
T ss_dssp             HHHHHHHHCC----------------HHHHHHHHHHHTTSCHH--HHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCC----------------CcCCHHHHHHHHhcCHh--HHHHHHHHHHHHHH
Confidence            9999998721                12 33366666665553  34555555555554

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.91  E-value=1.5e-19  Score=173.92  Aligned_cols=379  Identities=12%  Similarity=0.069  Sum_probs=315.4

Q ss_pred             HHHHHHHHHhCCCCCChhhHHHHHHHHhc----cCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHhHHH
Q 009255           99 AFRLRKEMESLKLLPDVVTYNTLINRFFE----SGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCK----EGKIDKAC  170 (539)
Q Consensus        99 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~  170 (539)
                      ++..++...+.   .+...+..+...|..    .+++++|+..|++..+.|   ++..+..|...|..    .+++++|.
T Consensus        26 ~~~~~~~~a~~---g~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~   99 (490)
T 2xm6_A           26 NLEQLKQKAES---GEAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQAV   99 (490)
T ss_dssp             CHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHH
T ss_pred             HHHHHHHHHHC---CCHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHH
Confidence            35556665553   477788888888887    899999999999998863   67788889999998    89999999


Q ss_pred             HHHHHHHHcCCCCChhhHHHHHHHHHh----cCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhc----cCCHHHHHHH
Q 009255          171 KIVRNMEENGFSPDCVTYNTLIDANCK----AGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCC----EKKLDEAYML  242 (539)
Q Consensus       171 ~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~  242 (539)
                      ..|++..+.|   +...+..|...|..    .+++++|+..|++....+   +...+..+...|..    .++.++|...
T Consensus       100 ~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~  173 (490)
T 2xm6_A          100 IWYKKAALKG---LPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREW  173 (490)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHH
T ss_pred             HHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHH
Confidence            9999998864   66777788888888    889999999999998875   56777788888876    7899999999


Q ss_pred             HHHHhhcCCccCHhhHHHHHHHHHc----cCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHc----CCCHHHHHHHHH
Q 009255          243 LNSASKRGYYLDEVSYGTLITGYFR----DEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQ----SGKTEQAIDMLN  314 (539)
Q Consensus       243 ~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~  314 (539)
                      |++..+.+   ++..+..+...|..    .++.++|...|++..+.+   +...+..+...|..    .+++++|...|+
T Consensus       174 ~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~  247 (490)
T 2xm6_A          174 YSKAAEQG---NVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFS  247 (490)
T ss_dssp             HHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHH
T ss_pred             HHHHHHCC---CHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHH
Confidence            99998875   67788888888887    899999999999998863   67788888888876    889999999999


Q ss_pred             HHHHCCCCCCHHhHHHHHHHHhc----CCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhc-----CCHHHHHHHHHH
Q 009255          315 ELLQSGMIPDETTFNTIIHGFCS----EGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCRE-----GILEKALKFFRS  385 (539)
Q Consensus       315 ~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----g~~~~A~~~~~~  385 (539)
                      +..+.+   +...+..+...+..    .+++++|..+|++..+.+   +...+..+..+|...     +++++|...+++
T Consensus       248 ~a~~~~---~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~  321 (490)
T 2xm6_A          248 QSAEQG---NSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTK  321 (490)
T ss_dssp             HHHTTT---CHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHH
T ss_pred             HHHHCC---CHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHH
Confidence            988764   45667777777777    899999999999998764   567788888888887     899999999999


Q ss_pred             HHHcCCCCChhhHHHHHHHHHccC---ChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHh----cCCHHHHHHHHHHHHH
Q 009255          386 WILKGKAVDSVTYNTLISSLCKER---RLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVE----SGRLEEAQKFTSIMVE  458 (539)
Q Consensus       386 ~~~~~~~~~~~~~~~l~~~~~~~~---~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~  458 (539)
                      ..+.+   +...+..+...|...|   ++++|+..|+++.+.+   +...+..++..+..    .+++++|.++++++.+
T Consensus       322 a~~~~---~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~  395 (490)
T 2xm6_A          322 SAEQG---DATAQANLGAIYFRLGSEEEHKKAVEWFRKAAAKG---EKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAE  395 (490)
T ss_dssp             HHHTT---CHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHH
T ss_pred             HHhcC---CHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHh
Confidence            98864   5677888888888766   8899999999999763   67788889999988    8999999999999998


Q ss_pred             cCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhh----cCCHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHH
Q 009255          459 TGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCS----QGRYKDALQIFEETRQKGIA-INKSTYMNLMNGL  527 (539)
Q Consensus       459 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~-p~~~~~~~~l~~~  527 (539)
                      .+                    +..++..++..|..    .+++++|...|+++.+.+.. |+.......++.+
T Consensus       396 ~~--------------------~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~~a~~~l~~~  449 (490)
T 2xm6_A          396 QG--------------------LSAAQVQLGEIYYYGLGVERDYVQAWAWFDTASTNDMNLFGTENRNITEKKL  449 (490)
T ss_dssp             TT--------------------CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHHHCCHHHHHHHHHHHTTS
T ss_pred             CC--------------------CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCCCcCCHHHHHHHHhc
Confidence            64                    35688899999998    89999999999999986533 3344444444433

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.91  E-value=8.8e-21  Score=175.20  Aligned_cols=317  Identities=12%  Similarity=0.047  Sum_probs=244.7

Q ss_pred             ChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHHHHHcCCCCChhhHHHHHH
Q 009255          114 DVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLID  193 (539)
Q Consensus       114 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  193 (539)
                      ++..+..+...+...|++++|+..|+++.+.. +.+..++..+...+...|++++|...++++.+.. +.+...+..+..
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            45678889999999999999999999998863 3468899999999999999999999999998863 446778999999


Q ss_pred             HHHhcCCHHHHHHHHHHHhhCCCC--CCHHhHHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCH
Q 009255          194 ANCKAGNMEEAFRMMDVMGRKGLK--MNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKA  271 (539)
Q Consensus       194 ~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  271 (539)
                      .+...|++++|...++++.+....  .+...+..+.....                       ...+..+...+...|++
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            999999999999999999876320  13333333321110                       11233455667778888


Q ss_pred             HHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHH
Q 009255          272 NRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKM  351 (539)
Q Consensus       272 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  351 (539)
                      ++|+..++++....+. +...+..+...+...|++++|...++++....+ .+...+..+...+...|++++|...++.+
T Consensus       137 ~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~a  214 (359)
T 3ieg_A          137 TAAITFLDKILEVCVW-DAELRELRAECFIKEGEPRKAISDLKAASKLKS-DNTEAFYKISTLYYQLGDHELSLSEVREC  214 (359)
T ss_dssp             HHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCS-CCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCC-chHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            8888888887776543 667777788888888888888888888877643 36677777888888888888888888888


Q ss_pred             HhCCCCCCHHhHH------------HHHHHHHhcCCHHHHHHHHHHHHHcCCCCChh----hHHHHHHHHHccCChHHHH
Q 009255          352 VEKSFKPDIVTCN------------ILLSGLCREGILEKALKFFRSWILKGKAVDSV----TYNTLISSLCKERRLEDAF  415 (539)
Q Consensus       352 ~~~~~~~~~~~~~------------~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~----~~~~l~~~~~~~~~~~~A~  415 (539)
                      .+.. +.+...+.            .++..+.+.|++++|...++++....+. +..    .+..++.++...|++++|+
T Consensus       215 ~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~la~~~~~~~~~~~A~  292 (359)
T 3ieg_A          215 LKLD-QDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPS-VAEYTVRSKERICHCFSKDEKPVEAI  292 (359)
T ss_dssp             HHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-SHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HhhC-ccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-chHHHHHHHHHHHHHHHHccCHHHHH
Confidence            7653 22333332            3366788899999999999999886433 332    3556788899999999999


Q ss_pred             HHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          416 GLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       416 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      ..++++.+.. +.+..++..++.++...|++++|.+.++++++..
T Consensus       293 ~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~  336 (359)
T 3ieg_A          293 RICSEVLQME-PDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEHN  336 (359)
T ss_dssp             HHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            9999998753 4467888899999999999999999999999987

>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=99.90  E-value=4.5e-21  Score=174.95  Aligned_cols=289  Identities=12%  Similarity=0.048  Sum_probs=206.9

Q ss_pred             CHHhHHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHH
Q 009255          219 NTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIW  298 (539)
Q Consensus       219 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  298 (539)
                      +...+...+..+...|++++|..+++.+.+... .+...+..++..+...|++++|...++++....+. +...+..+..
T Consensus        21 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p-~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~   98 (330)
T 3hym_B           21 NLDVVVSLAERHYYNCDFKMCYKLTSVVMEKDP-FHASCLPVHIGTLVELNKANELFYLSHKLVDLYPS-NPVSWFAVGC   98 (330)
T ss_dssp             CCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-STHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhCcC-CHHHHHHHHH
Confidence            444555555556666666666666666655532 24445555666667777777777777777765433 5667777777


Q ss_pred             HHHcCC-CHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHH
Q 009255          299 GLSQSG-KTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILE  377 (539)
Q Consensus       299 ~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  377 (539)
                      .+...| ++++|...++++....+. +...+..+...+...|++++|...++++.+.. +.+...+..+..+|...|+++
T Consensus        99 ~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~  176 (330)
T 3hym_B           99 YYLMVGHKNEHARRYLSKATTLEKT-YGPAWIAYGHSFAVESEHDQAMAAYFTAAQLM-KGCHLPMLYIGLEYGLTNNSK  176 (330)
T ss_dssp             HHHHSCSCHHHHHHHHHHHHTTCTT-CTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-TTCSHHHHHHHHHHHHTTCHH
T ss_pred             HHHHhhhhHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHhhHH
Confidence            777777 788888888877765432 45667777778888888888888888877764 234566666788888888888


Q ss_pred             HHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCC--------CCCCHhhHHHHHHHHHhcCCHHHH
Q 009255          378 KALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKK--------LGPDRYTYAAIHTALVESGRLEEA  449 (539)
Q Consensus       378 ~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--------~~~~~~~~~~l~~~~~~~g~~~~A  449 (539)
                      +|...++++.... +.+...+..++..+...|++++|...++++.+..        .+....++..++.++...|++++|
T Consensus       177 ~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  255 (330)
T 3hym_B          177 LAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEA  255 (330)
T ss_dssp             HHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHH
Confidence            8888888887763 3366778888888888888888888888877531        122346777888888899999999


Q ss_pred             HHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH-
Q 009255          450 QKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGLI-  528 (539)
Q Consensus       450 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~-  528 (539)
                      .+.++++++..                  +.+...|..++.+|...|++++|.+.++++++  +.|+.......++.++ 
T Consensus       256 ~~~~~~a~~~~------------------~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~l~~~~~  315 (330)
T 3hym_B          256 LDYHRQALVLI------------------PQNASTYSAIGYIHSLMGNFENAVDYFHTALG--LRRDDTFSVTMLGHCIE  315 (330)
T ss_dssp             HHHHHHHHHHS------------------TTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTT--TCSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhC------------------ccchHHHHHHHHHHHHhccHHHHHHHHHHHHc--cCCCchHHHHHHHHHHH
Confidence            99999998886                  34455888899999999999999999999886  5677766666666555 


Q ss_pred             hcCC
Q 009255          529 KRRK  532 (539)
Q Consensus       529 ~~~~  532 (539)
                      ...|
T Consensus       316 ~~~g  319 (330)
T 3hym_B          316 MYIG  319 (330)
T ss_dssp             TTTT
T ss_pred             HHhC
Confidence            4444

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.90  E-value=2.8e-19  Score=173.73  Aligned_cols=428  Identities=10%  Similarity=0.020  Sum_probs=295.7

Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCC
Q 009255           33 LSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLL  112 (539)
Q Consensus        33 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  112 (539)
                      |++.++.. |-+..+|..++. +.+.|++++|..+|+++.+..+ .+...|..++..+.+.|++++|..+|++....  .
T Consensus         2 le~al~~~-P~~~~~w~~l~~-~~~~~~~~~a~~~~e~al~~~P-~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~--~   76 (530)
T 2ooe_A            2 AEKKLEEN-PYDLDAWSILIR-EAQNQPIDKARKTYERLVAQFP-SSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMK--V   76 (530)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHH-HHHSSCHHHHHHHHHHHHTTCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTT--C
T ss_pred             hhhHhhhC-CCCHHHHHHHHH-HHHhCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc--C
Confidence            55555554 557888988888 4778999999999999998744 36778999999999999999999999999886  3


Q ss_pred             CChhhHHHHHHHH-hccCCHhHHHH----HHHHHHhC-CCCC-CHHHHHHHHHHHHh---------cCCHhHHHHHHHHH
Q 009255          113 PDVVTYNTLINRF-FESGRSMEAFK----LIDELDEH-GIKP-NAVTHNIMIKWYCK---------EGKIDKACKIVRNM  176 (539)
Q Consensus       113 ~~~~~~~~l~~~~-~~~~~~~~a~~----~~~~~~~~-~~~~-~~~~~~~l~~~~~~---------~g~~~~a~~~~~~~  176 (539)
                      |+...|..++... ...|+.+.|.+    +|++.... |..| +...|...+....+         .|+++.|..+|++.
T Consensus        77 p~~~lw~~~~~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~a  156 (530)
T 2ooe_A           77 LHIDLWKCYLSYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRG  156 (530)
T ss_dssp             CCHHHHHHHHHHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHH
Confidence            6777777777533 34577776665    66666542 4433 45677777776554         67888888888888


Q ss_pred             HHcCCCCCh---hhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHH------h
Q 009255          177 EENGFSPDC---VTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSA------S  247 (539)
Q Consensus       177 ~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~------~  247 (539)
                      .+.   |..   ..|..........|. ..+..++.                     ...+++..|..++...      .
T Consensus       157 l~~---P~~~~~~~~~~~~~~e~~~~~-~~~~~~l~---------------------~~~~~~~~A~~~~~~~~~~~~~l  211 (530)
T 2ooe_A          157 CVN---PMINIEQLWRDYNKYEEGINI-HLAKKMIE---------------------DRSRDYMNARRVAKEYETVMKGL  211 (530)
T ss_dssp             TTS---CCTTHHHHHHHHHHHHHHHCH-HHHHHHHH---------------------TTHHHHHHHHHHHHHHHHHHHHC
T ss_pred             Hhc---hhhhHHHHHHHHHHHHHhhch-hHHHHHHH---------------------HhhHHHHHHHHHHHHHHHHHHHh
Confidence            773   322   223222211100110 00111110                     1223344454444431      1


Q ss_pred             hcC---CccC--------HhhHHHHHHHHHcc----CCH----HHHHHHHHHHHHcCCCCCHhhHHHHHHHHHc------
Q 009255          248 KRG---YYLD--------EVSYGTLITGYFRD----EKA----NRALKLWDEMKERQIMPSTFTYNAMIWGLSQ------  302 (539)
Q Consensus       248 ~~~---~~~~--------~~~~~~l~~~~~~~----~~~----~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~------  302 (539)
                      +..   .+|+        ...|...+......    ++.    .++..+|++.+...+. ++..|..++..+.+      
T Consensus       212 ~~~~~~~~p~~~~~~~~~~~~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~~p~-~~~~w~~~~~~~~~~~~~~~  290 (530)
T 2ooe_A          212 DRNAPSVPPQNTPQEAQQVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVLGH-HPDIWYEAAQYLEQSSKLLA  290 (530)
T ss_dssp             CSSSCCCCCC--CCHHHHHHHHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHHHHHH
T ss_pred             ccccccCCCCCChhHHHHHHHHHHHHHHHHcCCccCCcchhHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhchhhh
Confidence            111   1222        12333333322221    222    4677889888876443 77888888888775      


Q ss_pred             -CCCHH-------HHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCH-HhHHHHHHHHHhc
Q 009255          303 -SGKTE-------QAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDI-VTCNILLSGLCRE  373 (539)
Q Consensus       303 -~~~~~-------~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~  373 (539)
                       .|+++       +|..++++..+.-.+.+...+..++..+.+.|++++|..+|+++++... .+. ..|..++..+.+.
T Consensus       291 ~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~~  369 (530)
T 2ooe_A          291 EKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIED-IDPTLVYIQYMKFARRA  369 (530)
T ss_dssp             TTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSSS-SCHHHHHHHHHHHHHHH
T ss_pred             hccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCccc-cCchHHHHHHHHHHHHh
Confidence             78877       8999999988632333677888888999999999999999999998632 233 5788888888899


Q ss_pred             CCHHHHHHHHHHHHHcCCCCChhhHHHHHHH-HHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHH
Q 009255          374 GILEKALKFFRSWILKGKAVDSVTYNTLISS-LCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKF  452 (539)
Q Consensus       374 g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  452 (539)
                      |++++|.++|++..+.. +.+...|...+.. +...|++++|..+|+++++.. +.+...+..++..+.+.|+.++|+.+
T Consensus       370 ~~~~~A~~~~~~Al~~~-~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~-p~~~~~~~~~~~~~~~~g~~~~Ar~~  447 (530)
T 2ooe_A          370 EGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVL  447 (530)
T ss_dssp             HHHHHHHHHHHHHHTCT-TCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHTTTTCHHHHHHH
T ss_pred             cCHHHHHHHHHHHHhcc-CCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhCCCHhhHHHH
Confidence            99999999999998762 2233344333332 335899999999999998753 34578888899999999999999999


Q ss_pred             HHHHHHcCCCCcccccCCCCCCCCCCCCC--hhhHHHHHHHHhhcCCHHHHHHHHHHHHH
Q 009255          453 TSIMVETGKINHQVVQPNTSKTPEEIDPS--SISYSEKINEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       453 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  510 (539)
                      |++++.....                +|+  ...|...+......|+.+.+..+++++.+
T Consensus       448 ~~~al~~~~~----------------~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~  491 (530)
T 2ooe_A          448 FERVLTSGSL----------------PPEKSGEIWARFLAFESNIGDLASILKVEKRRFT  491 (530)
T ss_dssp             HHHHHHSCCS----------------CGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHH
T ss_pred             HHHHHhccCC----------------CHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            9999997632                232  23888889988999999999999999987

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.90  E-value=6.5e-19  Score=171.20  Aligned_cols=424  Identities=10%  Similarity=-0.029  Sum_probs=296.9

Q ss_pred             CcChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHH
Q 009255            7 LPDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNML   86 (539)
Q Consensus         7 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l   86 (539)
                      |-|..+|..++. +.+.|++++|..+|+++++.. |.+...|..++..+.+.|++++|..+|+++....  |+...|..+
T Consensus        10 P~~~~~w~~l~~-~~~~~~~~~a~~~~e~al~~~-P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~--p~~~lw~~~   85 (530)
T 2ooe_A           10 PYDLDAWSILIR-EAQNQPIDKARKTYERLVAQF-PSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKV--LHIDLWKCY   85 (530)
T ss_dssp             TTCHHHHHHHHH-HHHSSCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTC--CCHHHHHHH
T ss_pred             CCCHHHHHHHHH-HHHhCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC--CChHHHHHH
Confidence            346778999998 478999999999999999884 7788899999999999999999999999999874  577777777


Q ss_pred             HHHH-HhcCChHHHHH----HHHHHHh-CCCC-CChhhHHHHHHHHhc---------cCCHhHHHHHHHHHHhCCCCCCH
Q 009255           87 INGW-CNAGMLEEAFR----LRKEMES-LKLL-PDVVTYNTLINRFFE---------SGRSMEAFKLIDELDEHGIKPNA  150 (539)
Q Consensus        87 ~~~~-~~~g~~~~a~~----~~~~~~~-~~~~-~~~~~~~~l~~~~~~---------~~~~~~a~~~~~~~~~~~~~~~~  150 (539)
                      +... ...|+.+.|.+    +|++... .|.. ++...|...+.....         .|+++.|..+|++..+....+..
T Consensus        86 ~~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~P~~~~~  165 (530)
T 2ooe_A           86 LSYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVNPMINIE  165 (530)
T ss_dssp             HHHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTSCCTTHH
T ss_pred             HHHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhchhhhHH
Confidence            7533 35677777665    7777654 2433 345677777776554         68899999999999883111112


Q ss_pred             HHHHHHHHHHHhcCCHhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHH------hhCC---CCCC--
Q 009255          151 VTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVM------GRKG---LKMN--  219 (539)
Q Consensus       151 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~------~~~~---~~~~--  219 (539)
                      ..|..........|. ..+..                   ++.  ...+++..|..++..+      .+..   ++|+  
T Consensus       166 ~~~~~~~~~e~~~~~-~~~~~-------------------~l~--~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~  223 (530)
T 2ooe_A          166 QLWRDYNKYEEGINI-HLAKK-------------------MIE--DRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNT  223 (530)
T ss_dssp             HHHHHHHHHHHHHCH-HHHHH-------------------HHH--TTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--
T ss_pred             HHHHHHHHHHHhhch-hHHHH-------------------HHH--HhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCC
Confidence            333332221111111 00111                   110  1233455555555442      2211   2333  


Q ss_pred             ------HHhHHHHHHHHhc----cCCH----HHHHHHHHHHhhcCCccCHhhHHHHHHHHHc-------cCCHH------
Q 009255          220 ------TITLNTILHTLCC----EKKL----DEAYMLLNSASKRGYYLDEVSYGTLITGYFR-------DEKAN------  272 (539)
Q Consensus       220 ------~~~~~~l~~~~~~----~~~~----~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~~~~~------  272 (539)
                            ...|...+.....    .++.    ..+..+|+++.... +.++..|..++..+.+       .|+++      
T Consensus       224 ~~~~~~~~~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~  302 (530)
T 2ooe_A          224 PQEAQQVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFS  302 (530)
T ss_dssp             CCHHHHHHHHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHHcCCccCCcchhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhh
Confidence                  1233333322221    1222    36677888887763 3367788888777775       68876      


Q ss_pred             -HHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCH-HhHHHHHHHHhcCCCHHHHHHHHHH
Q 009255          273 -RALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDE-TTFNTIIHGFCSEGQVEKALQFHNK  350 (539)
Q Consensus       273 -~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~  350 (539)
                       +|..+|++....-.+.+...|..++..+.+.|++++|..+|+++.+..+. +. ..|...+..+.+.|+++.|..+|++
T Consensus       303 ~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~  381 (530)
T 2ooe_A          303 DEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDI-DPTLVYIQYMKFARRAEGIKSGRMIFKK  381 (530)
T ss_dssp             HHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSSSS-CHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCcccc-CchHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence             89999999886322336888999999999999999999999999985322 33 4788888888889999999999999


Q ss_pred             HHhCCCCCCHHhHHHHHHH-HHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCC-CCC
Q 009255          351 MVEKSFKPDIVTCNILLSG-LCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKK-LGP  428 (539)
Q Consensus       351 ~~~~~~~~~~~~~~~l~~~-~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~  428 (539)
                      ..+.. +.+...+...+.. +...|++++|..+|++.++.. +.++..|..++..+...|+.++|..+|++++..+ ..|
T Consensus       382 Al~~~-~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~-p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~  459 (530)
T 2ooe_A          382 AREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPP  459 (530)
T ss_dssp             HHTCT-TCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCG
T ss_pred             HHhcc-CCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCH
Confidence            99863 2234444333332 346899999999999998873 3367889999999999999999999999999763 233


Q ss_pred             C--HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          429 D--RYTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       429 ~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      +  ...|...+......|+.+.+.++..++.+..
T Consensus       460 ~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~~~  493 (530)
T 2ooe_A          460 EKSGEIWARFLAFESNIGDLASILKVEKRRFTAF  493 (530)
T ss_dssp             GGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            2  3467777788888999999999999999876

>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=99.89  E-value=2.2e-20  Score=170.33  Aligned_cols=293  Identities=14%  Similarity=0.039  Sum_probs=198.2

Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHhhHHHHH
Q 009255          183 PDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLI  262 (539)
Q Consensus       183 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  262 (539)
                      .+...+..++..+...|++++|+++++++.+.. +.+...+..++.++...|++++|...++.+.+... .+...+..+.
T Consensus        20 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~   97 (330)
T 3hym_B           20 ENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDLYP-SNPVSWFAVG   97 (330)
T ss_dssp             CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TSTHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhCc-CCHHHHHHHH
Confidence            344455555555555666666666666655442 22334444455555566666666666666555432 2455566666


Q ss_pred             HHHHccC-CHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCH
Q 009255          263 TGYFRDE-KANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQV  341 (539)
Q Consensus       263 ~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  341 (539)
                      ..+...| ++++|...|+++....+. +...|..+...+...|++++|...++++.+..+. +...+..+...+...|++
T Consensus        98 ~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~  175 (330)
T 3hym_B           98 CYYLMVGHKNEHARRYLSKATTLEKT-YGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKG-CHLPMLYIGLEYGLTNNS  175 (330)
T ss_dssp             HHHHHSCSCHHHHHHHHHHHHTTCTT-CTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTT-CSHHHHHHHHHHHHTTCH
T ss_pred             HHHHHhhhhHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccc-cHHHHHHHHHHHHHHhhH
Confidence            6677777 777777777777665433 4566777777777777888888877777765433 445566677777888888


Q ss_pred             HHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC--------CCChhhHHHHHHHHHccCChHH
Q 009255          342 EKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGK--------AVDSVTYNTLISSLCKERRLED  413 (539)
Q Consensus       342 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~--------~~~~~~~~~l~~~~~~~~~~~~  413 (539)
                      ++|...++++.+.. +.+..++..+..++...|++++|...++++.....        +....++..++.++...|++++
T Consensus       176 ~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~  254 (330)
T 3hym_B          176 KLAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAE  254 (330)
T ss_dssp             HHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHH
Confidence            88888888887764 34677778888888888888888888888776421        3345678888888888888888


Q ss_pred             HHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHH-
Q 009255          414 AFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEH-  492 (539)
Q Consensus       414 A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~-  492 (539)
                      |+..++++.+.. +.+..++..++.++...|++++|.+.++++++..                  |.+...+..++.++ 
T Consensus       255 A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~------------------p~~~~~~~~l~~~~~  315 (330)
T 3hym_B          255 ALDYHRQALVLI-PQNASTYSAIGYIHSLMGNFENAVDYFHTALGLR------------------RDDTFSVTMLGHCIE  315 (330)
T ss_dssp             HHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTC------------------SCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhC-ccchHHHHHHHHHHHHhccHHHHHHHHHHHHccC------------------CCchHHHHHHHHHHH
Confidence            888888888653 3456677788888888889999988888888776                  33445788888877 


Q ss_pred             hhcCCHH
Q 009255          493 CSQGRYK  499 (539)
Q Consensus       493 ~~~g~~~  499 (539)
                      ...|+.+
T Consensus       316 ~~~g~~~  322 (330)
T 3hym_B          316 MYIGDSE  322 (330)
T ss_dssp             TTTTC--
T ss_pred             HHhCchh
Confidence            4556543

>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=99.87  E-value=2.4e-20  Score=172.93  Aligned_cols=276  Identities=14%  Similarity=0.008  Sum_probs=181.9

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHc
Q 009255          223 LNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQ  302 (539)
Q Consensus       223 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  302 (539)
                      +..+...+...|++++|...++.+.+... .+...+..+...+...|++++|+..|+++....+. +..++..+...+..
T Consensus        67 ~~~~~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~  144 (368)
T 1fch_A           67 PFEEGLRRLQEGDLPNAVLLFEAAVQQDP-KHMEAWQYLGTTQAENEQELLAISALRRCLELKPD-NQTALMALAVSFTN  144 (368)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHSCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHH
Confidence            33444444444444444444444444321 13344444445555555555555555555444322 44455555555555


Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCHHhHH---------------HHHHHHhcCCCHHHHHHHHHHHHhCCCCC-CHHhHHHH
Q 009255          303 SGKTEQAIDMLNELLQSGMIPDETTFN---------------TIIHGFCSEGQVEKALQFHNKMVEKSFKP-DIVTCNIL  366 (539)
Q Consensus       303 ~~~~~~a~~~~~~~~~~~~~~~~~~~~---------------~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l  366 (539)
                      .|++++|...++++....+.. ...+.               ..+..+...|++++|...++++.+..... +..++..+
T Consensus       145 ~g~~~~A~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l  223 (368)
T 1fch_A          145 ESLQRQACEILRDWLRYTPAY-AHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGL  223 (368)
T ss_dssp             TTCHHHHHHHHHHHHHTSTTT-GGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhCcCc-HHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHH
Confidence            555555555555555432221 11111               01223337899999999999998864221 57889999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCH
Q 009255          367 LSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRL  446 (539)
Q Consensus       367 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  446 (539)
                      ..+|...|++++|...++++.... +.+...|..++.++...|++++|+..++++.+.. +.+..++..++.++...|++
T Consensus       224 ~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~  301 (368)
T 1fch_A          224 GVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAH  301 (368)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCH
Confidence            999999999999999999998873 3367889999999999999999999999998753 44578888999999999999


Q ss_pred             HHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHH
Q 009255          447 EEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       447 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  510 (539)
                      ++|.+.++++++........       .....+....+|..++.+|...|++++|..++++.++
T Consensus       302 ~~A~~~~~~al~~~~~~~~~-------~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~  358 (368)
T 1fch_A          302 REAVEHFLEALNMQRKSRGP-------RGEGGAMSENIWSTLRLALSMLGQSDAYGAADARDLS  358 (368)
T ss_dssp             HHHHHHHHHHHHHHHTC-------------CCCCCHHHHHHHHHHHHHHTCGGGHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHhCCCCCCc-------cccccchhhHHHHHHHHHHHHhCChHhHHHhHHHHHH
Confidence            99999999999876220000       0000011145999999999999999999999886654

>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=7.9e-20  Score=169.43  Aligned_cols=282  Identities=11%  Similarity=0.010  Sum_probs=218.9

Q ss_pred             hccCCHHHHHH-HHHHHhhcCCc---cCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCH
Q 009255          231 CCEKKLDEAYM-LLNSASKRGYY---LDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKT  306 (539)
Q Consensus       231 ~~~~~~~~a~~-~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  306 (539)
                      ...|+++.|.. .+++.......   .+...+..+...+...|++++|...|+++....+. +..++..+..++...|++
T Consensus        36 ~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~  114 (368)
T 1fch_A           36 PWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQDPK-HMEAWQYLGTTQAENEQE  114 (368)
T ss_dssp             ----------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCcCH
Confidence            34577888887 77765544221   13456788899999999999999999999987654 788899999999999999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHH----------------HHHHHH
Q 009255          307 EQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCN----------------ILLSGL  370 (539)
Q Consensus       307 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~----------------~l~~~~  370 (539)
                      ++|...++++.+..+ .+..++..+...+...|++++|...++++.+.... +...+.                .+...+
T Consensus       115 ~~A~~~~~~al~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~  192 (368)
T 1fch_A          115 LLAISALRRCLELKP-DNQTALMALAVSFTNESLQRQACEILRDWLRYTPA-YAHLVTPAEEGAGGAGLGPSKRILGSLL  192 (368)
T ss_dssp             HHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTT-TGGGCC---------------CTTHHHH
T ss_pred             HHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHhhhhcccHHHHHHHHHh
Confidence            999999999998754 37788999999999999999999999999987432 222222                233344


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCC-ChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHH
Q 009255          371 CREGILEKALKFFRSWILKGKAV-DSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEA  449 (539)
Q Consensus       371 ~~~g~~~~A~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  449 (539)
                       ..|++++|...++++....+.. +..++..++..+...|++++|+..++++.+.. +.+..++..++.++...|++++|
T Consensus       193 -~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A  270 (368)
T 1fch_A          193 -SDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEA  270 (368)
T ss_dssp             -HHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             -hcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcCCHHHH
Confidence             8899999999999999874322 57789999999999999999999999998753 44578889999999999999999


Q ss_pred             HHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCH------------
Q 009255          450 QKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINK------------  517 (539)
Q Consensus       450 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~------------  517 (539)
                      ++.++++++..                  +.+..++..++.+|...|++++|...|+++++.  .|+.            
T Consensus       271 ~~~~~~al~~~------------------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~~~~~~~  330 (368)
T 1fch_A          271 VAAYRRALELQ------------------PGYIRSRYNLGISCINLGAHREAVEHFLEALNM--QRKSRGPRGEGGAMSE  330 (368)
T ss_dssp             HHHHHHHHHHC------------------TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--HHTC------CCCCCH
T ss_pred             HHHHHHHHHhC------------------CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCCCccccccchhh
Confidence            99999999987                  344559999999999999999999999999873  3433            


Q ss_pred             HHHHHHHHHHHhcCCchhhcc
Q 009255          518 STYMNLMNGLIKRRKSISKAV  538 (539)
Q Consensus       518 ~~~~~~l~~~~~~~~~~~~A~  538 (539)
                      .+|..+ +.++...|++++|.
T Consensus       331 ~~~~~l-~~~~~~~g~~~~A~  350 (368)
T 1fch_A          331 NIWSTL-RLALSMLGQSDAYG  350 (368)
T ss_dssp             HHHHHH-HHHHHHHTCGGGHH
T ss_pred             HHHHHH-HHHHHHhCChHhHH
Confidence            445444 44444445577763

>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=1.7e-16  Score=159.64  Aligned_cols=429  Identities=13%  Similarity=0.128  Sum_probs=293.5

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCC--CCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHH
Q 009255           12 TYNTILDALFKKGKLNEVRDLLSDMKKQG--LVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLING   89 (539)
Q Consensus        12 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (539)
                      --...+++|...|++.+|++++++..-.+  +.-+....+.++.+..+. +..+..++.+.....    +   ...+...
T Consensus       987 eVs~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~~----d---~~eIA~I 1058 (1630)
T 1xi4_A          987 EVSVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLDNY----D---APDIANI 1058 (1630)
T ss_pred             HhHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhhhc----c---HHHHHHH
Confidence            33556677888888888888888887432  113445566666666666 456666666555421    1   3346677


Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHH
Q 009255           90 WCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKA  169 (539)
Q Consensus        90 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  169 (539)
                      +...|.+++|..+|++...     .....+.++.   ..+++++|.+++++.      -++.+|..+..++...|++++|
T Consensus      1059 ai~lglyEEAf~IYkKa~~-----~~~A~~VLie---~i~nldrAiE~Aerv------n~p~vWsqLAKAql~~G~~kEA 1124 (1630)
T 1xi4_A         1059 AISNELFEEAFAIFRKFDV-----NTSAVQVLIE---HIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKGMVKEA 1124 (1630)
T ss_pred             HHhCCCHHHHHHHHHHcCC-----HHHHHHHHHH---HHhhHHHHHHHHHhc------CCHHHHHHHHHHHHhCCCHHHH
Confidence            7788888999888888631     2222233322   667888888888765      2577888899999999999999


Q ss_pred             HHHHHHHHHcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHhhc
Q 009255          170 CKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKR  249 (539)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  249 (539)
                      .+.|.+.      .|...|..++.++.+.|++++|+++|....+..  +++.....++.+|++.+++++.....    + 
T Consensus      1125 IdsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI----~- 1191 (1630)
T 1xi4_A         1125 IDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI----N- 1191 (1630)
T ss_pred             HHHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH----h-
Confidence            9988653      467778888999999999999999998877654  23333345788888888877544332    2 


Q ss_pred             CCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHH
Q 009255          250 GYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFN  329 (539)
Q Consensus       250 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  329 (539)
                        .++...+..+...|...|++++|..+|..+         ..|..++.++.+.|+++.|.+.+++.      .+..+|.
T Consensus      1192 --~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA------~n~~aWk 1254 (1630)
T 1xi4_A         1192 --GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWK 1254 (1630)
T ss_pred             --CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHh------CCHHHHH
Confidence              224556667888889999999999999874         37888899999999999999998876      2567888


Q ss_pred             HHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcc-
Q 009255          330 TIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKE-  408 (539)
Q Consensus       330 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-  408 (539)
                      .+..+|...|++..|......+     ..++..+..++..|.+.|.+++|+.+++..+... +-+...|..+...|.+. 
T Consensus      1255 ev~~acve~~Ef~LA~~cgl~I-----iv~~deLeeli~yYe~~G~feEAI~LlE~aL~Le-raH~gmftELaiLyaKy~ 1328 (1630)
T 1xi4_A         1255 EVCFACVDGKEFRLAQMCGLHI-----VVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFK 1328 (1630)
T ss_pred             HHHHHHhhhhHHHHHHHHHHhh-----hcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC-hhHhHHHHHHHHHHHhCC
Confidence            8888888889988888766542     3366777889999999999999999998887664 33555777777777653 


Q ss_pred             -CChHHHHHHHHHHHhCCCCC------CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCC
Q 009255          409 -RRLEDAFGLLSEMEEKKLGP------DRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPS  481 (539)
Q Consensus       409 -~~~~~A~~~~~~~~~~~~~~------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  481 (539)
                       ++.-++.++|..-.  +++|      +...|..+.-.|.+.|+++.|....-.-...-.. ++.+..     --....+
T Consensus      1329 peklmEhlk~f~~ri--ni~k~~r~~e~~~lW~elv~LY~~~~e~dnA~~tm~~h~~~a~~-~~~Fk~-----~i~kv~n 1400 (1630)
T 1xi4_A         1329 PQKMREHLELFWSRV--NIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMNHPTDAWK-EGQFKD-----IITKVAN 1400 (1630)
T ss_pred             HHHHHHHHHHHHHhc--ccchHhHHHHHHHHHHHHHHHHHhcccHHHHHHHHHhccHhhhh-hHHHHH-----Hhccccc
Confidence             34555555555433  3444      3456778888899999999988322111100000 000000     0000245


Q ss_pred             hhhHHHHHHHHhhcC---------------CHHHHHHHHH
Q 009255          482 SISYSEKINEHCSQG---------------RYKDALQIFE  506 (539)
Q Consensus       482 ~~~~~~l~~~~~~~g---------------~~~~A~~~~~  506 (539)
                      ...|...+..|...+               +++.+.+++.
T Consensus      1401 ~elyykai~Fyl~~~P~~lndLl~~l~~rlD~~R~V~l~~ 1440 (1630)
T 1xi4_A         1401 VELYYRAIQFYLEFKPLLLNDLLMVLSPRLDHTRAVNYFS 1440 (1630)
T ss_pred             HHHHHHHHHHHHhhChHHHHHHHHHhhhcCChHHHHHHHH
Confidence            667777777777666               6777766666

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.85  E-value=5.5e-20  Score=170.21  Aligned_cols=278  Identities=11%  Similarity=-0.029  Sum_probs=198.6

Q ss_pred             HhHHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHH
Q 009255          221 ITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGL  300 (539)
Q Consensus       221 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  300 (539)
                      ..+......+...|++++|...++.+.+... .+...+..+...|...|++++|+..|+++....+. +..++..+..+|
T Consensus        66 ~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~  143 (365)
T 4eqf_A           66 PGAFEEGLKRLKEGDLPVTILFMEAAILQDP-GDAEAWQFLGITQAENENEQAAIVALQRCLELQPN-NLKALMALAVSY  143 (365)
T ss_dssp             TTHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHCCCHHHHHHHHHHHHHhCc-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHH
Confidence            3455566666666666666666666665532 25566777777777777777777777777765433 566777777777


Q ss_pred             HcCCCHHHHHHHHHHHHHCCCC---------CCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCC-CCHHhHHHHHHHH
Q 009255          301 SQSGKTEQAIDMLNELLQSGMI---------PDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFK-PDIVTCNILLSGL  370 (539)
Q Consensus       301 ~~~~~~~~a~~~~~~~~~~~~~---------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~  370 (539)
                      ...|++++|...++++.+..+.         .....+..+...+...|++++|...++++.+.... ++..++..+..+|
T Consensus       144 ~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~  223 (365)
T 4eqf_A          144 TNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVLF  223 (365)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHHH
T ss_pred             HccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHHH
Confidence            7788888888888777664211         01223344577888999999999999999986422 1688999999999


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHH
Q 009255          371 CREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQ  450 (539)
Q Consensus       371 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  450 (539)
                      ...|++++|...++++.+.. +.+..+|..++.+|...|++++|+..++++.+.. +.+..++..++.++...|++++|.
T Consensus       224 ~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~  301 (365)
T 4eqf_A          224 HLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCINLGAYREAV  301 (365)
T ss_dssp             HHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHHHH
Confidence            99999999999999999874 3378899999999999999999999999999753 445788899999999999999999


Q ss_pred             HHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHH
Q 009255          451 KFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEET  508 (539)
Q Consensus       451 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  508 (539)
                      +.++++++........      ........+...|..++.++...|+.+.|....++.
T Consensus       302 ~~~~~al~~~~~~~~~------~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  353 (365)
T 4eqf_A          302 SNFLTALSLQRKSRNQ------QQVPHPAISGNIWAALRIALSLMDQPELFQAANLGD  353 (365)
T ss_dssp             HHHHHHHHHHHCC------------------CHHHHHHHHHHHHHTCHHHHHHHHTTC
T ss_pred             HHHHHHHHhCcccCCC------cccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHhh
Confidence            9999999876220000      000000012458999999999999999998887764

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.85  E-value=3.8e-18  Score=163.76  Aligned_cols=393  Identities=13%  Similarity=-0.007  Sum_probs=228.1

Q ss_pred             CChhhHHHHHHHHHhcCChHHHHHHHHHHHhC--------CCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhC-----
Q 009255           78 PDVWTYNMLINGWCNAGMLEEAFRLRKEMESL--------KLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEH-----  144 (539)
Q Consensus        78 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~--------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----  144 (539)
                      .....|+.+...+...|++++|++.|++..+.        ..+....+|+.+..+|...|++++|...+++..+.     
T Consensus        49 ~~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~  128 (472)
T 4g1t_A           49 FKATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFS  128 (472)
T ss_dssp             -CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSC
T ss_pred             hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcc
Confidence            34567888888888888888888888876542        11223456777888888888888888888776542     


Q ss_pred             C--CCCCHHHHHHHHHHHHhc--CCHhHHHHHHHHHHHcCCCCChhhHHHHHHH---HHhcCCHHHHHHHHHHHhhCCCC
Q 009255          145 G--IKPNAVTHNIMIKWYCKE--GKIDKACKIVRNMEENGFSPDCVTYNTLIDA---NCKAGNMEEAFRMMDVMGRKGLK  217 (539)
Q Consensus       145 ~--~~~~~~~~~~l~~~~~~~--g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~---~~~~~~~~~a~~~~~~~~~~~~~  217 (539)
                      +  ......++..+..++...  +++++|.+.|++..+.. +.++..+..+..+   +...++.++|++.+++..+.. +
T Consensus       129 ~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~-p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~-p  206 (472)
T 4g1t_A          129 SPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKK-PKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN-P  206 (472)
T ss_dssp             CSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC-S
T ss_pred             cccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC-C
Confidence            1  111344555555555443  45778888888777653 2234444444433   234466677777777766543 2


Q ss_pred             CCHHhHHHHHHHHh----ccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhH
Q 009255          218 MNTITLNTILHTLC----CEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTY  293 (539)
Q Consensus       218 ~~~~~~~~l~~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  293 (539)
                      .+..++..+...+.    ..++.++|.+.++++..... .+...+..+...|...|++++|+..+++..+..+. +..++
T Consensus       207 ~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~  284 (472)
T 4g1t_A          207 DNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKAP-GVTDVLRSAAKFYRRKDEPDKAIELLKKALEYIPN-NAYLH  284 (472)
T ss_dssp             SCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHCS-SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHH
T ss_pred             cchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhCc-cHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCCC-hHHHH
Confidence            24444444443333    34566677777777666542 25566667777777777777777777777765443 45555


Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhc
Q 009255          294 NAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCRE  373 (539)
Q Consensus       294 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  373 (539)
                      ..+..+|...+..         ..... ......      .....+.++.|...++...+.. +.+..++..+..+|...
T Consensus       285 ~~lg~~y~~~~~~---------~~~~~-~~~~~~------~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~lg~~~~~~  347 (472)
T 4g1t_A          285 CQIGCCYRAKVFQ---------VMNLR-ENGMYG------KRKLLELIGHAVAHLKKADEAN-DNLFRVCSILASLHALA  347 (472)
T ss_dssp             HHHHHHHHHHHHH---------HHHC-------C------HHHHHHHHHHHHHHHHHHHHHC-TTTCCCHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHH---------hhhHH-HHHHHH------HHHHHhhHHHHHHHHHHHhhcC-CchhhhhhhHHHHHHHh
Confidence            5555554321110         00000 000000      0111234677888888887764 34667788899999999


Q ss_pred             CCHHHHHHHHHHHHHcCCCCChh--hHHHHHH-HHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHH
Q 009255          374 GILEKALKFFRSWILKGKAVDSV--TYNTLIS-SLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQ  450 (539)
Q Consensus       374 g~~~~A~~~~~~~~~~~~~~~~~--~~~~l~~-~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  450 (539)
                      |++++|+..|++++.....+...  .+..+.. .....|++++|+..|+++++.  .|+.....         +....+.
T Consensus       348 ~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i--~~~~~~~~---------~~~~~l~  416 (472)
T 4g1t_A          348 DQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKI--NQKSREKE---------KMKDKLQ  416 (472)
T ss_dssp             TCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHS--CCCCHHHH---------HHHHHHH
T ss_pred             ccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CcccHHHH---------HHHHHHH
Confidence            99999999999998864332221  2333333 335778999999999999864  45532221         2234556


Q ss_pred             HHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcC-CCCCHHHH
Q 009255          451 KFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKG-IAINKSTY  520 (539)
Q Consensus       451 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~p~~~~~  520 (539)
                      +++++.++.+                  |.+..+|..++.+|...|++++|++.|+++++.+ ..|+..+|
T Consensus       417 ~~~~~~l~~~------------------p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a~~~  469 (472)
T 4g1t_A          417 KIAKMRLSKN------------------GADSEALHVLAFLQELNEKMQQADEDSERGLESGSLIPSASSW  469 (472)
T ss_dssp             HHHHHHHHHC------------------C-CTTHHHHHHHHHHHHHHCC----------------------
T ss_pred             HHHHHHHHhC------------------CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcHhhc
Confidence            7777888876                  4455699999999999999999999999999843 33444433

>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=99.84  E-value=4.9e-16  Score=156.43  Aligned_cols=389  Identities=13%  Similarity=0.108  Sum_probs=293.3

Q ss_pred             CCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCC--CCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHH
Q 009255           43 PNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKS--LPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNT  120 (539)
Q Consensus        43 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  120 (539)
                      .++.-....+++|...|.+.+|+++++++.-.+.  ..+....+.++....+. +..+..++..+....    +   ...
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            3555567788899999999999999999985422  12345556677666666 556666666665421    1   334


Q ss_pred             HHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCC
Q 009255          121 LINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGN  200 (539)
Q Consensus       121 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  200 (539)
                      +...+...|.+++|..+|++...     .....+.++.   ..+++++|.++.++.      -++.+|..+..++.+.|+
T Consensus      1055 IA~Iai~lglyEEAf~IYkKa~~-----~~~A~~VLie---~i~nldrAiE~Aerv------n~p~vWsqLAKAql~~G~ 1120 (1630)
T 1xi4_A         1055 IANIAISNELFEEAFAIFRKFDV-----NTSAVQVLIE---HIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKGM 1120 (1630)
T ss_pred             HHHHHHhCCCHHHHHHHHHHcCC-----HHHHHHHHHH---HHhhHHHHHHHHHhc------CCHHHHHHHHHHHHhCCC
Confidence            77888899999999999999631     2222333332   778999999998865      257789999999999999


Q ss_pred             HHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHH
Q 009255          201 MEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDE  280 (539)
Q Consensus       201 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  280 (539)
                      +++|++.|.+.      -|...|..++.++.+.|++++|.+.+....+..  +++.....++.+|.+.+++++....   
T Consensus      1121 ~kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~f--- 1189 (1630)
T 1xi4_A         1121 VKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEF--- 1189 (1630)
T ss_pred             HHHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHH---
Confidence            99999999763      377888999999999999999999999888764  3334455689999999988854433   


Q ss_pred             HHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCH
Q 009255          281 MKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDI  360 (539)
Q Consensus       281 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  360 (539)
                       +.   .++...|..+...|...|++++|..+|..+         ..|..++..+.+.|+++.|.+.+++.      .+.
T Consensus      1190 -I~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA------~n~ 1250 (1630)
T 1xi4_A         1190 -IN---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA------NST 1250 (1630)
T ss_pred             -Hh---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHh------CCH
Confidence             22   246677778999999999999999999875         37889999999999999999999987      367


Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCC-HhhHHHHHHH
Q 009255          361 VTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPD-RYTYAAIHTA  439 (539)
Q Consensus       361 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~  439 (539)
                      .+|..+..+|...|++..|......+     ..++..+..++..|...|.+++|+.+++..+..  .+. ...|..++.+
T Consensus      1251 ~aWkev~~acve~~Ef~LA~~cgl~I-----iv~~deLeeli~yYe~~G~feEAI~LlE~aL~L--eraH~gmftELaiL 1323 (1630)
T 1xi4_A         1251 RTWKEVCFACVDGKEFRLAQMCGLHI-----VVHADELEELINYYQDRGYFEELITMLEAALGL--ERAHMGMFTELAIL 1323 (1630)
T ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHhh-----hcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc--ChhHhHHHHHHHHH
Confidence            89999999999999999999877643     237777889999999999999999999988844  443 3455556555


Q ss_pred             HHh--cCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHH
Q 009255          440 LVE--SGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQ  503 (539)
Q Consensus       440 ~~~--~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  503 (539)
                      +.+  -++.-++.+.|..-........             .--+...|..+.-.|.+.|+++.|..
T Consensus      1324 yaKy~peklmEhlk~f~~rini~k~~r-------------~~e~~~lW~elv~LY~~~~e~dnA~~ 1376 (1630)
T 1xi4_A         1324 YSKFKPQKMREHLELFWSRVNIPKVLR-------------AAEQAHLWAELVFLYDKYEEYDNAII 1376 (1630)
T ss_pred             HHhCCHHHHHHHHHHHHHhcccchHhH-------------HHHHHHHHHHHHHHHHhcccHHHHHH
Confidence            554  4556666666665444320000             00134489999999999999999984

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.84  E-value=1e-19  Score=168.31  Aligned_cols=235  Identities=10%  Similarity=0.016  Sum_probs=196.8

Q ss_pred             CHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHH
Q 009255          254 DEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIH  333 (539)
Q Consensus       254 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  333 (539)
                      +...+..+...+.+.|++++|+..|+++....+. +..++..+...+...|++++|+..|+++.+..+ .+..++..+..
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~  141 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQDPG-DAEAWQFLGITQAENENEQAAIVALQRCLELQP-NNLKALMALAV  141 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC-CCHHHHHHHHH
Confidence            4456888899999999999999999999987654 788999999999999999999999999998753 36788999999


Q ss_pred             HHhcCCCHHHHHHHHHHHHhCCCCCC----------HHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-CChhhHHHHH
Q 009255          334 GFCSEGQVEKALQFHNKMVEKSFKPD----------IVTCNILLSGLCREGILEKALKFFRSWILKGKA-VDSVTYNTLI  402 (539)
Q Consensus       334 ~~~~~~~~~~a~~~~~~~~~~~~~~~----------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~l~  402 (539)
                      ++...|++++|...++++.+... .+          ...+..+..++...|++++|...++++....+. +++.++..++
T Consensus       142 ~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~  220 (365)
T 4eqf_A          142 SYTNTSHQQDACEALKNWIKQNP-KYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLG  220 (365)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCH-HHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHH
T ss_pred             HHHccccHHHHHHHHHHHHHhCc-cchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHH
Confidence            99999999999999999987531 11          223334578899999999999999999987432 1678899999


Q ss_pred             HHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCCh
Q 009255          403 SSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSS  482 (539)
Q Consensus       403 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  482 (539)
                      ..+...|++++|+..++++.+.. +.+..++..++.++...|++++|++.++++++..                  +.+.
T Consensus       221 ~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~------------------p~~~  281 (365)
T 4eqf_A          221 VLFHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQ------------------PGFI  281 (365)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC------------------TTCH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC------------------CCch
Confidence            99999999999999999999763 4567889999999999999999999999999987                  3345


Q ss_pred             hhHHHHHHHHhhcCCHHHHHHHHHHHHH
Q 009255          483 ISYSEKINEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       483 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~  510 (539)
                      .+|..++.+|...|++++|...|+++++
T Consensus       282 ~~~~~l~~~~~~~g~~~~A~~~~~~al~  309 (365)
T 4eqf_A          282 RSRYNLGISCINLGAYREAVSNFLTALS  309 (365)
T ss_dssp             HHHHHHHHHHHHHTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            5999999999999999999999999987

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.83  E-value=1.7e-17  Score=159.32  Aligned_cols=388  Identities=12%  Similarity=-0.033  Sum_probs=251.1

Q ss_pred             CCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhC-----C---CCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCC---
Q 009255           42 VPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQN-----K---SLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLK---  110 (539)
Q Consensus        42 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-----~---~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~---  110 (539)
                      +.....|+.|...+...|++++|++.|++..+.     +   ......+|..+..+|...|++++|...+++..+..   
T Consensus        48 ~~~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~  127 (472)
T 4g1t_A           48 EFKATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKF  127 (472)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHS
T ss_pred             hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhc
Confidence            334567999999999999999999999987542     1   11245678899999999999999999999876521   


Q ss_pred             ---C-CCChhhHHHHHHHHhc--cCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHH---HHhcCCHhHHHHHHHHHHHcCC
Q 009255          111 ---L-LPDVVTYNTLINRFFE--SGRSMEAFKLIDELDEHGIKPNAVTHNIMIKW---YCKEGKIDKACKIVRNMEENGF  181 (539)
Q Consensus       111 ---~-~~~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~---~~~~g~~~~a~~~~~~~~~~~~  181 (539)
                         . .....++..+..++..  .+++++|++.|++..+... .++..+..+..+   +...++.++|.+.+++..+.. 
T Consensus       128 ~~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p-~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~-  205 (472)
T 4g1t_A          128 SSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKP-KNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN-  205 (472)
T ss_dssp             CCSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC-
T ss_pred             ccccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC-
Confidence               0 1124556666555554  4579999999999988643 255566555554   345678889999999988763 


Q ss_pred             CCChhhHHHHHHHHHh----cCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHhh
Q 009255          182 SPDCVTYNTLIDANCK----AGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVS  257 (539)
Q Consensus       182 ~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  257 (539)
                      +.+..++..+...+..    .+++++|.+.+++..... +.+..++..+...+...|++++|...++++.+.... +..+
T Consensus       206 p~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~  283 (472)
T 4g1t_A          206 PDNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYIPN-NAYL  283 (472)
T ss_dssp             SSCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHH
T ss_pred             CcchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCCC-hHHH
Confidence            3455566666555543    467889999999987764 447788899999999999999999999999887433 5666


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhc
Q 009255          258 YGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCS  337 (539)
Q Consensus       258 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  337 (539)
                      +..+...|...+...         ....       ...........+..+.|...++++....+. +...+..+...+..
T Consensus       284 ~~~lg~~y~~~~~~~---------~~~~-------~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~lg~~~~~  346 (472)
T 4g1t_A          284 HCQIGCCYRAKVFQV---------MNLR-------ENGMYGKRKLLELIGHAVAHLKKADEANDN-LFRVCSILASLHAL  346 (472)
T ss_dssp             HHHHHHHHHHHHHHH---------HHC-------------CHHHHHHHHHHHHHHHHHHHHHCTT-TCCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHh---------hhHH-------HHHHHHHHHHHhhHHHHHHHHHHHhhcCCc-hhhhhhhHHHHHHH
Confidence            776766654321111         1100       000001111123467788888887776433 55677788889999


Q ss_pred             CCCHHHHHHHHHHHHhCCCCCCHH--hHHHHHH-HHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHH
Q 009255          338 EGQVEKALQFHNKMVEKSFKPDIV--TCNILLS-GLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDA  414 (539)
Q Consensus       338 ~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~-~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  414 (539)
                      .|++++|...|+++++....+...  .+..+.. .....|++++|+..|++.+..  .|+......         ....+
T Consensus       347 ~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i--~~~~~~~~~---------~~~~l  415 (472)
T 4g1t_A          347 ADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKI--NQKSREKEK---------MKDKL  415 (472)
T ss_dssp             TTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHS--CCCCHHHHH---------HHHHH
T ss_pred             hccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CcccHHHHH---------HHHHH
Confidence            999999999999988865333221  2233332 234678999999999998876  333322221         22344


Q ss_pred             HHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC
Q 009255          415 FGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKI  462 (539)
Q Consensus       415 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  462 (539)
                      ..++++.+..+ +.+..++..++.++...|++++|++.|+++++.+..
T Consensus       416 ~~~~~~~l~~~-p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~  462 (472)
T 4g1t_A          416 QKIAKMRLSKN-GADSEALHVLAFLQELNEKMQQADEDSERGLESGSL  462 (472)
T ss_dssp             HHHHHHHHHHC-C-CTTHHHHHHHHHHHHHHCC---------------
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC
Confidence            55666666543 456778889999999999999999999999998733

>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=1.9e-17  Score=149.22  Aligned_cols=347  Identities=13%  Similarity=0.108  Sum_probs=146.9

Q ss_pred             hcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChHHHHH
Q 009255           22 KKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFR  101 (539)
Q Consensus        22 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  101 (539)
                      +.|+.++|.++++++.      ++.+|..++.++.+.|++++|++.|.+.      +|..+|..++..+...|++++|+.
T Consensus        15 ~~~~ld~A~~fae~~~------~~~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi~   82 (449)
T 1b89_A           15 HIGNLDRAYEFAERCN------EPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVK   82 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhCC------ChHHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHHH
Confidence            5677999999998882      3358899999999999999999999653      466688888999989999999999


Q ss_pred             HHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHHHHHcCC
Q 009255          102 LRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGF  181 (539)
Q Consensus       102 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  181 (539)
                      +++...+.  .+++.+.+.++.+|.+.|+++++.++++       .|+..+|..++..|...|.+++|...|..+     
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            88777663  4567778889999999999988887774       367778999999999999999999999866     


Q ss_pred             CCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHhhHHHH
Q 009255          182 SPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTL  261 (539)
Q Consensus       182 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  261 (539)
                          ..|..++.++.+.|++++|++.++++      .++.+|..++.+|...|+++.|......+     ...+.....+
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------NSTRTWKEVCFACVDGKEFRLAQMCGLHI-----VVHADELEEL  213 (449)
T ss_dssp             ----TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTT-----TTCHHHHHHH
T ss_pred             ----hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHH-----HhCHhhHHHH
Confidence                36888999999999999999999887      26788999999999999999985544432     2344455568


Q ss_pred             HHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHC-CCCC------CHHhHHHHHHH
Q 009255          262 ITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQS-GMIP------DETTFNTIIHG  334 (539)
Q Consensus       262 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~------~~~~~~~l~~~  334 (539)
                      +..|.+.|.+++|+.+++..+... +.....|+.+.-+|++- ++++..+.++..... .++|      +...|..+...
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            888888899999988888887664 23566777777666654 344444444332221 1111      23456666666


Q ss_pred             HhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHH
Q 009255          335 FCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDA  414 (539)
Q Consensus       335 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  414 (539)
                      |...++++.|..   .|.+.  +++..-...+.....+-.+.+--.+...=.+..    .+...+.|+.++...=|.+++
T Consensus       292 y~~~~e~d~A~~---tm~~h--~~~a~~~~~f~~~~~kv~n~elyYkai~fyl~~----~p~~l~~ll~~l~~~ld~~r~  362 (449)
T 1b89_A          292 YDKYEEYDNAII---TMMNH--PTDAWKEGQFKDIITKVANVELYYRAIQFYLEF----KPLLLNDLLMVLSPRLDHTRA  362 (449)
T ss_dssp             HHHTTCHHHHHH---HHHHS--TTTTCCHHHHHHHHHHCSSTHHHHHHHHHHHHH----CGGGHHHHHHHHGGGCCHHHH
T ss_pred             HHhhchHHHHHH---HHHhC--ChhhhhhHHHHHHHhchhHHHHHHHHHHHHHhc----CHHHHHHHHHHHHhccCcHHH
Confidence            777777776665   23332  122222222233333444433322222222222    344455555555555555555


Q ss_pred             HHHHHH
Q 009255          415 FGLLSE  420 (539)
Q Consensus       415 ~~~~~~  420 (539)
                      ..++++
T Consensus       363 v~~~~~  368 (449)
T 1b89_A          363 VNYFSK  368 (449)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            555544

>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=99.83  E-value=1.1e-18  Score=158.72  Aligned_cols=277  Identities=11%  Similarity=-0.035  Sum_probs=184.0

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHH
Q 009255          187 TYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYF  266 (539)
Q Consensus       187 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  266 (539)
                      .+..+...+...|++++|..+++++.+.. +.+...+..+..++...|++++|...++.+.+.                 
T Consensus        23 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~-----------------   84 (327)
T 3cv0_A           23 NPMEEGLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARML-----------------   84 (327)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----------------
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc-----------------
Confidence            44455555666666666666666655432 224444444555555555555555555554443                 


Q ss_pred             ccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHH-------------H-H
Q 009255          267 RDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNT-------------I-I  332 (539)
Q Consensus       267 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-------------l-~  332 (539)
                                        .+. +..++..+...+...|++++|...++++....+. +...+..             + .
T Consensus        85 ------------------~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~  144 (327)
T 3cv0_A           85 ------------------DPK-DIAVHAALAVSHTNEHNANAALASLRAWLLSQPQ-YEQLGSVNLQADVDIDDLNVQSE  144 (327)
T ss_dssp             ------------------CTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTT-TTTC-------------------
T ss_pred             ------------------CcC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCc-cHHHHHHHhHHHHHHHHHHHHHH
Confidence                              221 3344444444455555555555555554443211 1111111             1 2


Q ss_pred             H-HHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCCh
Q 009255          333 H-GFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRL  411 (539)
Q Consensus       333 ~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  411 (539)
                      . .+...|++++|...++++.+.. +.+..++..++.++...|++++|...++++.... +.+...+..++..+...|++
T Consensus       145 ~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~  222 (327)
T 3cv0_A          145 DFFFAAPNEYRECRTLLHAALEMN-PNDAQLHASLGVLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRP  222 (327)
T ss_dssp             -CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             hHHHHHcccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCH
Confidence            2 3677889999999999998864 3478889999999999999999999999998874 33677899999999999999


Q ss_pred             HHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHH
Q 009255          412 EDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINE  491 (539)
Q Consensus       412 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~  491 (539)
                      ++|+..++++.+.. +.+..++..++.++...|++++|.+.++++++..........      ......+...|..++.+
T Consensus       223 ~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~------~~~~~~~~~~~~~l~~~  295 (327)
T 3cv0_A          223 QEALDAYNRALDIN-PGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTG------EASREATRSMWDFFRML  295 (327)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----------CCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccc------cchhhcCHHHHHHHHHH
Confidence            99999999998753 445778889999999999999999999999988611000000      00000034589999999


Q ss_pred             HhhcCCHHHHHHHHHHHHH
Q 009255          492 HCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       492 ~~~~g~~~~A~~~~~~~~~  510 (539)
                      +...|++++|...+++.++
T Consensus       296 ~~~~g~~~~A~~~~~~~l~  314 (327)
T 3cv0_A          296 LNVMNRPDLVELTYAQNVE  314 (327)
T ss_dssp             HHHTTCHHHHHHHTTCCSH
T ss_pred             HHhcCCHHHHHHHHHHHHH
Confidence            9999999999999987654

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.83  E-value=3.6e-18  Score=151.13  Aligned_cols=258  Identities=11%  Similarity=0.075  Sum_probs=165.9

Q ss_pred             ccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHH
Q 009255          232 CEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAID  311 (539)
Q Consensus       232 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  311 (539)
                      ..|++..|+...+.+..............+..+|...|+++.|+..++.    ..+|+..++..+...+...++.++|++
T Consensus        11 ~~g~y~~ai~~~~~~~~~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~----~~~~~~~a~~~la~~~~~~~~~~~A~~   86 (291)
T 3mkr_A           11 YIGSYQQCINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKP----SSAPELQAVRMFAEYLASHSRRDAIVA   86 (291)
T ss_dssp             HTTCHHHHHHHHHHSCCCSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT----TSCHHHHHHHHHHHHHHCSTTHHHHHH
T ss_pred             HHHHHHHHHHHHHhcccCCchhhHHHHHHHHHHHHHCCCHHHHHHHhcc----cCChhHHHHHHHHHHHcCCCcHHHHHH
Confidence            3455555555555443321111112334455666666666666655533    123455666667777777777777777


Q ss_pred             HHHHHHHCCCCC-CHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          312 MLNELLQSGMIP-DETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKG  390 (539)
Q Consensus       312 ~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  390 (539)
                      .++++...+..| +...+..+...+...|++++|...+++      +.+...+..++.++.+.|++++|.+.++++....
T Consensus        87 ~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~  160 (291)
T 3mkr_A           87 ELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKELKKMQDQD  160 (291)
T ss_dssp             HHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC
Confidence            777776655333 344555566777777777777777766      3466777777777888888888888888877763


Q ss_pred             CCCChhhH---HHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccc
Q 009255          391 KAVDSVTY---NTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVV  467 (539)
Q Consensus       391 ~~~~~~~~---~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  467 (539)
                        |+....   ..++..+...|++++|+.+|+++.+. .+.+...+..++.++.+.|++++|.+.++++++.+       
T Consensus       161 --p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~-~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~-------  230 (291)
T 3mkr_A          161 --EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK-CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD-------  230 (291)
T ss_dssp             --TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------
T ss_pred             --cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-------
Confidence              333211   12223344557788888888888765 35566777778888888888888888888888876       


Q ss_pred             cCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHH-HHHHHHHHHHcCCCCCHHHHHH
Q 009255          468 QPNTSKTPEEIDPSSISYSEKINEHCSQGRYKD-ALQIFEETRQKGIAINKSTYMN  522 (539)
Q Consensus       468 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~-A~~~~~~~~~~~~~p~~~~~~~  522 (539)
                                 |.+..++.+++.++...|++++ +.++++++++  +.|+.+....
T Consensus       231 -----------p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~--~~P~~~~~~d  273 (291)
T 3mkr_A          231 -----------SGHPETLINLVVLSQHLGKPPEVTNRYLSQLKD--AHRSHPFIKE  273 (291)
T ss_dssp             -----------TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH--HCTTCHHHHH
T ss_pred             -----------CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHH--hCCCChHHHH
Confidence                       2344478888888888888765 4677788776  4677665544

>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=99.83  E-value=3.4e-18  Score=155.53  Aligned_cols=260  Identities=9%  Similarity=-0.023  Sum_probs=212.8

Q ss_pred             CHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHH
Q 009255          254 DEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIH  333 (539)
Q Consensus       254 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  333 (539)
                      +...+..+...+...|++++|..+|+++....+. +...+..+...+...|++++|...++++.+..+ .+...+..+..
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~la~   97 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQAAPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLDP-KDIAVHAALAV   97 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCc-CCHHHHHHHHH
Confidence            3445677788899999999999999999887554 778889999999999999999999999988743 36778889999


Q ss_pred             HHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHH--------------HH-HHHhcCCHHHHHHHHHHHHHcCCCCChhhH
Q 009255          334 GFCSEGQVEKALQFHNKMVEKSFKPDIVTCNIL--------------LS-GLCREGILEKALKFFRSWILKGKAVDSVTY  398 (539)
Q Consensus       334 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l--------------~~-~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~  398 (539)
                      .+...|++++|...++++.+... .+...+..+              .. .+...|++++|...++++....+ .+...+
T Consensus        98 ~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~  175 (327)
T 3cv0_A           98 SHTNEHNANAALASLRAWLLSQP-QYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMNP-NDAQLH  175 (327)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTST-TTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHST-TCHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCC-ccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhCC-CCHHHH
Confidence            99999999999999999998642 233334333              33 36778999999999999998743 377889


Q ss_pred             HHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCC
Q 009255          399 NTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEI  478 (539)
Q Consensus       399 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  478 (539)
                      ..++..+...|++++|+..++++.+.. +.+..++..++.++...|++++|.+.++++++..                  
T Consensus       176 ~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~------------------  236 (327)
T 3cv0_A          176 ASLGVLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAYNRALDIN------------------  236 (327)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC------------------
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC------------------
Confidence            999999999999999999999998763 4457888899999999999999999999999987                  


Q ss_pred             CCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCC------------HHHHHHHHHHHHhcCCchhhcc
Q 009255          479 DPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAIN------------KSTYMNLMNGLIKRRKSISKAV  538 (539)
Q Consensus       479 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~------------~~~~~~~l~~~~~~~~~~~~A~  538 (539)
                      +.+...|..++.+|...|++++|.+.++++++  ..|+            .......++.++...|+.++|.
T Consensus       237 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~--~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  306 (327)
T 3cv0_A          237 PGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIY--MQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVE  306 (327)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHH--hCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHH
Confidence            34455999999999999999999999999997  3566            5555555665666666688774

>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=4.3e-18  Score=153.34  Aligned_cols=282  Identities=13%  Similarity=0.146  Sum_probs=99.8

Q ss_pred             hcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHHH
Q 009255           92 NAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACK  171 (539)
Q Consensus        92 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  171 (539)
                      +.|++++|.++++++.      ++.+|..++.++.+.|++++|++.|.+.      +|..+|..++..+...|++++|+.
T Consensus        15 ~~~~ld~A~~fae~~~------~~~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi~   82 (449)
T 1b89_A           15 HIGNLDRAYEFAERCN------EPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVK   82 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhCC------ChHHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHHH
Confidence            3455555555555552      1235555555555566666665555431      344455555555555666666666


Q ss_pred             HHHHHHHcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHhhcCC
Q 009255          172 IVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGY  251 (539)
Q Consensus       172 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  251 (539)
                      .++...+.  .+++.+.+.++.+|.+.|+++++.++++       .|+..++..++..|...|.+++|...|..+     
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            55544442  2334555556666666666665555552       234456666666666666666666666544     


Q ss_pred             ccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHH
Q 009255          252 YLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTI  331 (539)
Q Consensus       252 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  331 (539)
                          ..|..++.++.+.|++++|.+.++++      .++.+|..++.+|...|+++.|......     +...+.....+
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------NSTRTWKEVCFACVDGKEFRLAQMCGLH-----IVVHADELEEL  213 (449)
T ss_dssp             ----TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTT-----TTTCHHHHHHH
T ss_pred             ----hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHH-----HHhCHhhHHHH
Confidence                24666666666667777766666665      1566677777777777777776443332     22233344456


Q ss_pred             HHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhc--CCHHHHHHHHHHHHHcCCCC------ChhhHHHHHH
Q 009255          332 IHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCRE--GILEKALKFFRSWILKGKAV------DSVTYNTLIS  403 (539)
Q Consensus       332 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--g~~~~A~~~~~~~~~~~~~~------~~~~~~~l~~  403 (539)
                      +..|.+.|.+++|..+++..+... +-...+|+.+.-+|++-  ++..+.++.|..-+  +++|      +...|..++.
T Consensus       214 v~~Yek~G~~eEai~lLe~aL~le-~ah~~~ftel~il~~ky~p~k~~ehl~~~~~~i--ni~k~~~~~~~~~~w~e~~~  290 (449)
T 1b89_A          214 INYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFWSRV--NIPKVLRAAEQAHLWAELVF  290 (449)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTCHHHHHHHHHHHSTTS--CHHHHHHHHHTTTCHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHhCCc-HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh--cCcHHHHHHHHHHHHHHHHH
Confidence            666777777777777777766554 34556666666666554  23333333332211  1121      4556777777


Q ss_pred             HHHccCChHHHHHH
Q 009255          404 SLCKERRLEDAFGL  417 (539)
Q Consensus       404 ~~~~~~~~~~A~~~  417 (539)
                      .|.+.++++.|...
T Consensus       291 ly~~~~e~d~A~~t  304 (449)
T 1b89_A          291 LYDKYEEYDNAIIT  304 (449)
T ss_dssp             HHHHTTCHHHHHHH
T ss_pred             HHHhhchHHHHHHH
Confidence            77777777777663

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.81  E-value=2.5e-17  Score=145.74  Aligned_cols=252  Identities=11%  Similarity=0.041  Sum_probs=158.0

Q ss_pred             HHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHH
Q 009255          195 NCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRA  274 (539)
Q Consensus       195 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  274 (539)
                      ....|++..|+..++................+.++|...|+++.|...++.    ..+|+...+..+...+...++.++|
T Consensus         9 ~~~~g~y~~ai~~~~~~~~~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~----~~~~~~~a~~~la~~~~~~~~~~~A   84 (291)
T 3mkr_A            9 AFYIGSYQQCINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKP----SSAPELQAVRMFAEYLASHSRRDAI   84 (291)
T ss_dssp             HHHTTCHHHHHHHHHHSCCCSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT----TSCHHHHHHHHHHHHHHCSTTHHHH
T ss_pred             HHHHHHHHHHHHHHHhcccCCchhhHHHHHHHHHHHHHCCCHHHHHHHhcc----cCChhHHHHHHHHHHHcCCCcHHHH
Confidence            344566666666665543321111122334455666666666666654432    1233455566666666677777777


Q ss_pred             HHHHHHHHHcCCCC-CHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHh
Q 009255          275 LKLWDEMKERQIMP-STFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVE  353 (539)
Q Consensus       275 ~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  353 (539)
                      ++.++++...+..| +...+..+...+...|++++|++.+++      +.+...+..++..+.+.|++++|...++.+.+
T Consensus        85 ~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~  158 (291)
T 3mkr_A           85 VAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKELKKMQD  158 (291)
T ss_dssp             HHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            77777766654323 445555666677777777777777765      34566677777777777777777777777776


Q ss_pred             CCCCCCHHh---HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCH
Q 009255          354 KSFKPDIVT---CNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDR  430 (539)
Q Consensus       354 ~~~~~~~~~---~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~  430 (539)
                      ..  |+...   ...++..+...|++++|..+|+++.+. .+.++..++.++.++...|++++|...++++++.. +.+.
T Consensus       159 ~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~-~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~-p~~~  234 (291)
T 3mkr_A          159 QD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK-CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD-SGHP  234 (291)
T ss_dssp             HC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCH
T ss_pred             hC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCH
Confidence            53  33211   112233344457788888888887776 34467777778888888888888888888877653 3456


Q ss_pred             hhHHHHHHHHHhcCCHHH-HHHHHHHHHHcC
Q 009255          431 YTYAAIHTALVESGRLEE-AQKFTSIMVETG  460 (539)
Q Consensus       431 ~~~~~l~~~~~~~g~~~~-A~~~~~~~~~~~  460 (539)
                      .++..++.++...|+.++ +.++++++++.+
T Consensus       235 ~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~  265 (291)
T 3mkr_A          235 ETLINLVVLSQHLGKPPEVTNRYLSQLKDAH  265 (291)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHHHhC
Confidence            677777777777777765 567777777776

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.79  E-value=2.6e-17  Score=144.10  Aligned_cols=241  Identities=16%  Similarity=0.149  Sum_probs=193.7

Q ss_pred             HhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCC--CC----HHhH
Q 009255          255 EVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMI--PD----ETTF  328 (539)
Q Consensus       255 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~----~~~~  328 (539)
                      ...+..+...+...|++++|+..|+++....  .+...+..+..++...|++++|...++++.+..+.  ++    ...+
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            3456677778888888888888888887776  57788888888888888888888888887764321  12    4677


Q ss_pred             HHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcc
Q 009255          329 NTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKE  408 (539)
Q Consensus       329 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  408 (539)
                      ..+...+...|++++|...++++.+..  |+.       ..+...|++++|...++++....+ .+...+..++..+...
T Consensus        83 ~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~-------~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~~~~~~~~  152 (258)
T 3uq3_A           83 ARIGNAYHKLGDLKKTIEYYQKSLTEH--RTA-------DILTKLRNAEKELKKAEAEAYVNP-EKAEEARLEGKEYFTK  152 (258)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC--CCH-------HHHHHHHHHHHHHHHHHHHHHCCH-HHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcC--chh-------HHHHHHhHHHHHHHHHHHHHHcCc-chHHHHHHHHHHHHHh
Confidence            888888899999999999999988753  443       346667889999999999888632 2566788899999999


Q ss_pred             CChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHH
Q 009255          409 RRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEK  488 (539)
Q Consensus       409 ~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  488 (539)
                      |++++|+..++++.+.. +.+..++..++.++...|++++|.+.++++++..                  +.+...|..+
T Consensus       153 ~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~------------------~~~~~~~~~l  213 (258)
T 3uq3_A          153 SDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD------------------PNFVRAYIRK  213 (258)
T ss_dssp             TCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC------------------TTCHHHHHHH
T ss_pred             cCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC------------------HHHHHHHHHH
Confidence            99999999999998764 4567888899999999999999999999999987                  3445599999


Q ss_pred             HHHHhhcCCHHHHHHHHHHHHHcC----CCCCHHHHHHHHHH
Q 009255          489 INEHCSQGRYKDALQIFEETRQKG----IAINKSTYMNLMNG  526 (539)
Q Consensus       489 ~~~~~~~g~~~~A~~~~~~~~~~~----~~p~~~~~~~~l~~  526 (539)
                      +.+|...|++++|...++++++..    ..|+.......+..
T Consensus       214 ~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~p~~~~~~~~l~~  255 (258)
T 3uq3_A          214 ATAQIAVKEYASALETLDAARTKDAEVNNGSSAREIDQLYYK  255 (258)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHHHTTTTHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHhChhhcCCCchHHHHHHHHH
Confidence            999999999999999999998732    12887776666554

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.78  E-value=3.8e-17  Score=138.25  Aligned_cols=200  Identities=14%  Similarity=0.044  Sum_probs=147.4

Q ss_pred             CCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHH
Q 009255          288 PSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILL  367 (539)
Q Consensus       288 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  367 (539)
                      ++...+..+...+...|++++|+..|+++.+..+. +...+..+..++...|++++|...++++++.. +.+...+..+.
T Consensus         3 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg   80 (217)
T 2pl2_A            3 TAEQNPLRLGVQLYALGRYDAALTLFERALKENPQ-DPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVLS   80 (217)
T ss_dssp             -CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHH
Confidence            45566677777777777777777777777765432 56667777777777777888877777777664 33566777777


Q ss_pred             HHHHhc-----------CCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHH
Q 009255          368 SGLCRE-----------GILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAI  436 (539)
Q Consensus       368 ~~~~~~-----------g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l  436 (539)
                      .++...           |++++|+..+++.++..+. +...+..+..++...|++++|+..|+++++..  .+...+..+
T Consensus        81 ~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~l  157 (217)
T 2pl2_A           81 EAYVALYRQAEDRERGKGYLEQALSVLKDAERVNPR-YAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSAL  157 (217)
T ss_dssp             HHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHH
T ss_pred             HHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHH
Confidence            777777           9999999999999987433 67788999999999999999999999999876  678888999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHH
Q 009255          437 HTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       437 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  510 (539)
                      +.++...|++++|++.++++++..                  |.+...+..++.++...|++++|++.+++...
T Consensus       158 a~~~~~~g~~~~A~~~~~~al~~~------------------P~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~  213 (217)
T 2pl2_A          158 AELYLSMGRLDEALAQYAKALEQA------------------PKDLDLRVRYASALLLKGKAEEAARAAALEHH  213 (217)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHS------------------TTCHHHHHHHHHHHTC----------------
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC------------------CCChHHHHHHHHHHHHccCHHHHHHHHHHHhh
Confidence            999999999999999999999987                  33445899999999999999999999988753

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.78  E-value=7.3e-17  Score=152.51  Aligned_cols=346  Identities=12%  Similarity=0.033  Sum_probs=160.2

Q ss_pred             HHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCh---HHHHHHHHHHHhCCCCCChhhHHHHHHHHhc
Q 009255           51 LVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGML---EEAFRLRKEMESLKLLPDVVTYNTLINRFFE  127 (539)
Q Consensus        51 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~---~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  127 (539)
                      +...+.+.|++++|.++|+...+.|   +...+..+...|...|+.   ++|+..|++..+.    ++..+..+...+..
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            4455556666666666666665543   233344444555555555   5666666665532    34444444443333


Q ss_pred             cC-----CHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHh---HHHHHHHHHHHcCCCCChhhHHHHHHHHHhcC
Q 009255          128 SG-----RSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKID---KACKIVRNMEENGFSPDCVTYNTLIDANCKAG  199 (539)
Q Consensus       128 ~~-----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~---~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  199 (539)
                      .+     ++++|+..|++..+.|..   ..+..|...|...+..+   ++.+.+....+.|   ++..+..+...|...+
T Consensus        82 ~~~~~~~~~~~A~~~~~~Aa~~g~~---~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g---~~~a~~~Lg~~y~~~~  155 (452)
T 3e4b_A           82 KPGATEAEHHEAESLLKKAFANGEG---NTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAG---YPEAGLAQVLLYRTQG  155 (452)
T ss_dssp             C--CCHHHHHHHHHHHHHHHHTTCS---SCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHT---CTTHHHHHHHHHHHHT
T ss_pred             CCCCCCcCHHHHHHHHHHHHHCCCH---HHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCC
Confidence            33     455666666666554322   24444555554443322   2233333333222   2333444444444444


Q ss_pred             CHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccC---CHHHHHH
Q 009255          200 NMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDE---KANRALK  276 (539)
Q Consensus       200 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~  276 (539)
                      .++++..                               .+..++......    ++..+..|...|...|   +.++|++
T Consensus       156 ~~~~~~~-------------------------------~a~~~~~~a~~~----~~~a~~~Lg~~~~~~g~~~~~~~A~~  200 (452)
T 3e4b_A          156 TYDQHLD-------------------------------DVERICKAALNT----TDICYVELATVYQKKQQPEQQAELLK  200 (452)
T ss_dssp             CGGGGHH-------------------------------HHHHHHHHHTTT----CTTHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CcccCHH-------------------------------HHHHHHHHHHcC----CHHHHHHHHHHHHHcCCcccHHHHHH
Confidence            3222222                               222222222211    2224444555555555   5555555


Q ss_pred             HHHHHHHcCCCCCHhhHHHHHHHHHcC----CCHHHHHHHHHHHHHCCCCCCHHhHHHHHHH-H--hcCCCHHHHHHHHH
Q 009255          277 LWDEMKERQIMPSTFTYNAMIWGLSQS----GKTEQAIDMLNELLQSGMIPDETTFNTIIHG-F--CSEGQVEKALQFHN  349 (539)
Q Consensus       277 ~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~--~~~~~~~~a~~~~~  349 (539)
                      .|++....+.. +...+..+...|...    +++++|+..|++.. .   -++..+..+... +  ...+++++|..+|+
T Consensus       201 ~~~~aa~~g~~-~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-~---g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~  275 (452)
T 3e4b_A          201 QMEAGVSRGTV-TAQRVDSVARVLGDATLGTPDEKTAQALLEKIA-P---GYPASWVSLAQLLYDFPELGDVEQMMKYLD  275 (452)
T ss_dssp             HHHHHHHTTCS-CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-G---GSTHHHHHHHHHHHHSGGGCCHHHHHHHHH
T ss_pred             HHHHHHHCCCH-HHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-C---CCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Confidence            55555554432 333334444444333    46666666666655 2   233344444444 2  34566666666666


Q ss_pred             HHHhCCCCCCHHhHHHHHHHHHhcC-----CHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHc----cCChHHHHHHHHH
Q 009255          350 KMVEKSFKPDIVTCNILLSGLCREG-----ILEKALKFFRSWILKGKAVDSVTYNTLISSLCK----ERRLEDAFGLLSE  420 (539)
Q Consensus       350 ~~~~~~~~~~~~~~~~l~~~~~~~g-----~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~A~~~~~~  420 (539)
                      +..+.|   +...+..+..+|. .|     ++++|...|++.. .   -++..+..|...|..    ..++++|...|++
T Consensus       276 ~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-~---g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~  347 (452)
T 3e4b_A          276 NGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-G---REVAADYYLGQIYRRGYLGKVYPQKALDHLLT  347 (452)
T ss_dssp             HHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-T---TCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHH
T ss_pred             HHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-C---CCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHH
Confidence            666654   4555555665555 33     6677777766655 2   255556666665554    3366777777777


Q ss_pred             HHhCCCCCCHhhHHHHHHHHHh----cCCHHHHHHHHHHHHHcC
Q 009255          421 MEEKKLGPDRYTYAAIHTALVE----SGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       421 ~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~  460 (539)
                      ..+.|   +......++..|..    ..+.++|..+++++.+.+
T Consensus       348 Aa~~g---~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g  388 (452)
T 3e4b_A          348 AARNG---QNSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKAQD  388 (452)
T ss_dssp             HHTTT---CTTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHTTC
T ss_pred             HHhhC---hHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHCC
Confidence            66554   22334455555543    346777777777777665

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.77  E-value=2.4e-16  Score=148.92  Aligned_cols=386  Identities=14%  Similarity=0.080  Sum_probs=211.1

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCH---hHHHHHHHHHHhCCCCCChhhHHHHHHHH
Q 009255           14 NTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWL---KEAMRVVDLMTQNKSLPDVWTYNMLINGW   90 (539)
Q Consensus        14 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~---~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   90 (539)
                      ..+...+.+.|++++|..+|++..+.|   ++.++..+...|...|+.   ++|..+|++..+.    ++..+..+...+
T Consensus         7 ~~la~~~~~~g~~~~A~~~~~~aa~~g---~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~----~~~A~~~Lg~~~   79 (452)
T 3e4b_A            7 QRLANEALKRGDTVTAQQNYQQLAELG---YSEAQVGLADIQVGTRDPAQIKQAEATYRAAADT----SPRAQARLGRLL   79 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHT---CCTGGGTCC--------------------------------CHHHHHHHH
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC----CHHHHHHHHHHH
Confidence            346778889999999999999998876   455666777778888888   8999999999864    556677777756


Q ss_pred             HhcC-----ChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHh---HHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 009255           91 CNAG-----MLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSM---EAFKLIDELDEHGIKPNAVTHNIMIKWYCK  162 (539)
Q Consensus        91 ~~~g-----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~---~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  162 (539)
                      ...|     ++++|+..|++..+.|   +...+..|...|...+..+   .+.+.+......|   ++.....+...|..
T Consensus        80 ~~~~~~~~~~~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g---~~~a~~~Lg~~y~~  153 (452)
T 3e4b_A           80 AAKPGATEAEHHEAESLLKKAFANG---EGNTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAG---YPEAGLAQVLLYRT  153 (452)
T ss_dssp             HTC--CCHHHHHHHHHHHHHHHHTT---CSSCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHT---CTTHHHHHHHHHHH
T ss_pred             HhCCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCC---CHHHHHHHHHHHHc
Confidence            5555     7889999999999865   3347777887777665543   4555555555443   45567778888888


Q ss_pred             cCCHhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcC---CHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhcc----CC
Q 009255          163 EGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKAG---NMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCE----KK  235 (539)
Q Consensus       163 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~  235 (539)
                      .+.++++.+....+.+.-...++..+..|...|...|   ++++|++.|++....|.. +...+..+...|...    ++
T Consensus       154 ~~~~~~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~-~a~~~~~Lg~~y~~g~~~~~d  232 (452)
T 3e4b_A          154 QGTYDQHLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGTV-TAQRVDSVARVLGDATLGTPD  232 (452)
T ss_dssp             HTCGGGGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCS-CHHHHHHHHHHHTCGGGSSCC
T ss_pred             CCCcccCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCH-HHHHHHHHHHHHhCCCCCCCC
Confidence            8866655554333332212334447888888888888   888999999888887633 454445555555443    56


Q ss_pred             HHHHHHHHHHHhhcCCccCHhhHHHHHHH-H--HccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHH
Q 009255          236 LDEAYMLLNSASKRGYYLDEVSYGTLITG-Y--FRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDM  312 (539)
Q Consensus       236 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  312 (539)
                      .++|..+|+... .|   ++..+..|... |  ...+++++|+..|++..+.+   +...+..+...|. .|.       
T Consensus       233 ~~~A~~~~~~aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~-------  297 (452)
T 3e4b_A          233 EKTAQALLEKIA-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGK-------  297 (452)
T ss_dssp             HHHHHHHHHHHG-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCS-------
T ss_pred             HHHHHHHHHHHc-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCC-------
Confidence            666666666665 22   34444444444 2  23455555555555554432   3334444444433 220       


Q ss_pred             HHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHh----cCCHHHHHHHHHHHHH
Q 009255          313 LNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCR----EGILEKALKFFRSWIL  388 (539)
Q Consensus       313 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~  388 (539)
                                             ....++++|..+|++.. .   .+......+..+|..    ..++++|...|++..+
T Consensus       298 -----------------------g~~~d~~~A~~~~~~Aa-~---g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~  350 (452)
T 3e4b_A          298 -----------------------WVPADAKAAEAHFEKAV-G---REVAADYYLGQIYRRGYLGKVYPQKALDHLLTAAR  350 (452)
T ss_dssp             -----------------------SSCCCHHHHHHHHHTTT-T---TCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHT
T ss_pred             -----------------------CCCCCHHHHHHHHHHHh-C---CCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHh
Confidence                                   00115555555555554 2   244445555555544    2356666666666655


Q ss_pred             cCCCCChhhHHHHHHHHHc----cCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 009255          389 KGKAVDSVTYNTLISSLCK----ERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVET  459 (539)
Q Consensus       389 ~~~~~~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  459 (539)
                      .|   ++.....|...|..    ..++.+|...|+.+.+.| .++.......+......++..+|.++.++..+.
T Consensus       351 ~g---~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g-~~~a~~~l~~l~~~~~~~~~~~a~~~~~~~~~~  421 (452)
T 3e4b_A          351 NG---QNSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKAQD-TPEANDLATQLEAPLTPAQRAEGQRLVQQELAA  421 (452)
T ss_dssp             TT---CTTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHTTC-CHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHH
T ss_pred             hC---hHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHCC-CHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHh
Confidence            43   33444555555543    346666666666666554 222222222222222333455566666555544

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.77  E-value=1.4e-16  Score=140.57  Aligned_cols=254  Identities=11%  Similarity=0.050  Sum_probs=198.3

Q ss_pred             HhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCC--HHhHHHHH
Q 009255          255 EVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPD--ETTFNTII  332 (539)
Q Consensus       255 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~  332 (539)
                      +.........+...|++++|+..|+++.+..+. +...+..+...+...|++++|+..++++......++  ...+..+.
T Consensus         3 ~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg   81 (272)
T 3u4t_A            3 DDVEFRYADFLFKNNNYAEAIEVFNKLEAKKYN-SPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYG   81 (272)
T ss_dssp             --CHHHHHHHHHTTTCHHHHHHHHHHHHHTTCC-CSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHH
Confidence            344556677788889999999999988887543 566888888899999999999999999887432222  23478888


Q ss_pred             HHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChH
Q 009255          333 HGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLE  412 (539)
Q Consensus       333 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  412 (539)
                      ..+...|++++|...++++.+.. +.+..++..+..+|...|++++|...+++..... +.+...|..++..+...++++
T Consensus        82 ~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~  159 (272)
T 3u4t_A           82 KILMKKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYYNKEYV  159 (272)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHHHHHHH
Confidence            89999999999999999998864 3467889999999999999999999999988873 336677888883444556999


Q ss_pred             HHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCC---HHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCC------hh
Q 009255          413 DAFGLLSEMEEKKLGPDRYTYAAIHTALVESGR---LEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPS------SI  483 (539)
Q Consensus       413 ~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~  483 (539)
                      +|+..++++.+.. +.+...+..++.++...|+   +++|...++++++....                .|+      ..
T Consensus       160 ~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~----------------~~~~~~~~~~~  222 (272)
T 3u4t_A          160 KADSSFVKVLELK-PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAP----------------GGAKYKDELIE  222 (272)
T ss_dssp             HHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGG----------------GGGGGHHHHHH
T ss_pred             HHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhc----------------ccccchHHHHH
Confidence            9999999999753 3446777888888888888   88899999999886422                133      14


Q ss_pred             hHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Q 009255          484 SYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGLIKR  530 (539)
Q Consensus       484 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~  530 (539)
                      +|..++..|...|++++|.+.++++++  +.|++......+......
T Consensus       223 ~~~~l~~~~~~~~~~~~A~~~~~~al~--~~p~~~~a~~~l~~~~~~  267 (272)
T 3u4t_A          223 ANEYIAYYYTINRDKVKADAAWKNILA--LDPTNKKAIDGLKMKLEH  267 (272)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHC-----
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHh--cCccHHHHHHHhhhhhcc
Confidence            788899999999999999999999998  579888777776655443

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.76  E-value=1.1e-16  Score=135.27  Aligned_cols=200  Identities=16%  Similarity=0.100  Sum_probs=151.4

Q ss_pred             CcChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHH
Q 009255            7 LPDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNML   86 (539)
Q Consensus         7 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l   86 (539)
                      |++...+..+...+.+.|++++|+..|++.++.. |.++..+..+..++.+.|++++|+..|++..+..+. +...+..+
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~l   79 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVARTPR-YLGGYMVL   79 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHH
Confidence            6778888899999999999999999999999876 567888999999999999999999999999887544 67788888


Q ss_pred             HHHHHhc-----------CChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHH
Q 009255           87 INGWCNA-----------GMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNI  155 (539)
Q Consensus        87 ~~~~~~~-----------g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  155 (539)
                      ..++...           |++++|+..|++..+.. +.+...+..+...+...|++++|+..|++..+..  .++..+..
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            8888888           88888888888887754 3456778888888888888888888888887776  57788888


Q ss_pred             HHHHHHhcCCHhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHh
Q 009255          156 MIKWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMG  212 (539)
Q Consensus       156 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  212 (539)
                      +..++...|++++|...|++..+.. +.+...+..+...+...|++++|+..+++..
T Consensus       157 la~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          157 LAELYLSMGRLDEALAQYAKALEQA-PKDLDLRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTC---------------
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            8888888888888888888887763 4456677778888888888888888877653

>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=99.74  E-value=1.3e-14  Score=127.96  Aligned_cols=229  Identities=14%  Similarity=0.050  Sum_probs=187.7

Q ss_pred             CHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHc----CCCHHHHHHHHHHHHHCCCCCCHHhHH
Q 009255          254 DEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQ----SGKTEQAIDMLNELLQSGMIPDETTFN  329 (539)
Q Consensus       254 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~  329 (539)
                      ++..+..+...+...|++++|+..|++..+.   .+...+..+...|..    .+++++|+..|++..+.+   +...+.
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~   78 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   78 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            4556677777888888888888888888773   356677778888888    888999999998888764   667777


Q ss_pred             HHHHHHhc----CCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCCChhhHHHH
Q 009255          330 TIIHGFCS----EGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCR----EGILEKALKFFRSWILKGKAVDSVTYNTL  401 (539)
Q Consensus       330 ~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~l  401 (539)
                      .+...+..    .+++++|...|++..+.+   +...+..+..+|..    .+++++|...|++..+.+   +...+..+
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            88888888    899999999999888864   67788888888888    899999999999988864   56677888


Q ss_pred             HHHHHc----cCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCCcccccCCCCC
Q 009255          402 ISSLCK----ERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVE----SGRLEEAQKFTSIMVETGKINHQVVQPNTSK  473 (539)
Q Consensus       402 ~~~~~~----~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~  473 (539)
                      ...|..    .+++++|+..+++..+.+   +...+..++..+..    .+++++|.++++++++.+             
T Consensus       153 g~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~-------------  216 (273)
T 1ouv_A          153 GSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE-------------  216 (273)
T ss_dssp             HHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT-------------
T ss_pred             HHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC-------------
Confidence            888887    889999999999988764   45677788888888    899999999999999875             


Q ss_pred             CCCCCCCChhhHHHHHHHHhh----cCCHHHHHHHHHHHHHcCCCCCHHH
Q 009255          474 TPEEIDPSSISYSEKINEHCS----QGRYKDALQIFEETRQKGIAINKST  519 (539)
Q Consensus       474 ~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~p~~~~  519 (539)
                            | ...+..++.+|..    .|++++|++.|+++.+.+  |+...
T Consensus       217 ------~-~~a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~--~~~a~  257 (273)
T 1ouv_A          217 ------N-GGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLG--AKGAC  257 (273)
T ss_dssp             ------C-HHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHT--CHHHH
T ss_pred             ------C-HHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHHcC--CHHHH
Confidence                  4 5578888999998    899999999999999854  55443

>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=99.73  E-value=8.5e-16  Score=140.41  Aligned_cols=245  Identities=10%  Similarity=0.072  Sum_probs=204.4

Q ss_pred             HhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCC-HHHHHHHHHHHHHCCCCCCHHhHHHHHH
Q 009255          255 EVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGK-TEQAIDMLNELLQSGMIPDETTFNTIIH  333 (539)
Q Consensus       255 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~  333 (539)
                      ...+..+...+...|++++|+..+++++..++. +...|..+..++...|+ +++|+..+++++...+. +...|..+..
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            456777888888999999999999999988655 78889999999999997 99999999999987554 7788999999


Q ss_pred             HHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHc-cCChH
Q 009255          334 GFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCK-ERRLE  412 (539)
Q Consensus       334 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~  412 (539)
                      ++...|++++|+..|+++++.. +.+...|..+..++...|++++|+..++++++..+. +...|+.++.++.. .|..+
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-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTTGYND  252 (382)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCSCS
T ss_pred             HHHHccCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCcch
Confidence            9999999999999999999875 348889999999999999999999999999998544 78899999999998 66658


Q ss_pred             HH-----HHHHHHHHhCCCCCCHhhHHHHHHHHHhcC--CHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhH
Q 009255          413 DA-----FGLLSEMEEKKLGPDRYTYAAIHTALVESG--RLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISY  485 (539)
Q Consensus       413 ~A-----~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  485 (539)
                      +|     +..+++++... +-+...+..++.++...|  ++++|.+.+.++ +..                  +.+...+
T Consensus       253 eA~~~~el~~~~~Al~l~-P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~~------------------p~~~~al  312 (382)
T 2h6f_A          253 RAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QPS------------------HSSPYLI  312 (382)
T ss_dssp             HHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TTT------------------CCCHHHH
T ss_pred             HHHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHccCccchHHHHHHHHHh-ccC------------------CCCHHHH
Confidence            88     58899988753 345678888888898888  689999999887 443                  3444589


Q ss_pred             HHHHHHHhhcC---------CHHHHHHHHHHH-HHcCCCCCHHHHHHHHH
Q 009255          486 SEKINEHCSQG---------RYKDALQIFEET-RQKGIAINKSTYMNLMN  525 (539)
Q Consensus       486 ~~l~~~~~~~g---------~~~~A~~~~~~~-~~~~~~p~~~~~~~~l~  525 (539)
                      ..++.+|.+.|         ..++|+++|+++ ++  +.|+...+...+.
T Consensus       313 ~~La~~~~~~~~~~~~~~~~~~~~A~~~~~~l~~~--~DP~r~~~w~~~~  360 (382)
T 2h6f_A          313 AFLVDIYEDMLENQCDNKEDILNKALELCEILAKE--KDTIRKEYWRYIG  360 (382)
T ss_dssp             HHHHHHHHHHHHTTCSSHHHHHHHHHHHHHHHHHT--TCGGGHHHHHHHH
T ss_pred             HHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHH--hCchhHHHHHHHH
Confidence            99999999875         359999999999 75  6788765444444

>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=99.73  E-value=1.1e-13  Score=135.08  Aligned_cols=454  Identities=9%  Similarity=-0.007  Sum_probs=285.2

Q ss_pred             hHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCC---hHHHHHH
Q 009255           26 LNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGM---LEEAFRL  102 (539)
Q Consensus        26 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---~~~a~~~  102 (539)
                      ..+.+..|++.+..+ |.|...|..++..+.+.+.++.+..+|+.+...- +.....|...+..-.+.|+   ++.+..+
T Consensus        48 ~~d~i~~lE~~l~~n-p~d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~f-P~~~~lW~~Yi~~E~~~~~~~~~~~v~~l  125 (679)
T 4e6h_A           48 ESDVIGKLNDMIEEQ-PTDIFLYVKLLKHHVSLKQWKQVYETFDKLHDRF-PLMANIWCMRLSLEFDKMEELDAAVIEPV  125 (679)
T ss_dssp             CSCHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTC--CCCHHHHHHH
T ss_pred             CHHHHHHHHHHHHHC-cCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhhCCcchHHHHHHH
Confidence            444555666666665 5688888888888888888888888888888763 3466778888888778888   8888888


Q ss_pred             HHHHHhCC-CCCChhhHHHHHHHHhccCCH--------hHHHHHHHHHHh-CCC-CC-CHHHHHHHHHHHHh--------
Q 009255          103 RKEMESLK-LLPDVVTYNTLINRFFESGRS--------MEAFKLIDELDE-HGI-KP-NAVTHNIMIKWYCK--------  162 (539)
Q Consensus       103 ~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~--------~~a~~~~~~~~~-~~~-~~-~~~~~~~l~~~~~~--------  162 (539)
                      |++..... .+|++..|...+....+.++.        +...++|+.... .|. .+ +...|...+.....        
T Consensus       126 feRal~~~~~~~sv~LW~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~e  205 (679)
T 4e6h_A          126 LARCLSKELGNNDLSLWLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFE  205 (679)
T ss_dssp             HHHHTCSSSCCCCHHHHHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHH
T ss_pred             HHHHHHhcCCCCCHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHH
Confidence            88887753 137777787777655554443        234466666543 354 34 34567666665432        


Q ss_pred             -cCCHhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHH
Q 009255          163 -EGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYM  241 (539)
Q Consensus       163 -~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  241 (539)
                       .++++.+..+|++.+......-..+|......-...+. ..+.+++.+.                     ..+++.|..
T Consensus       206 eq~~~~~~R~iy~raL~iP~~~~~~~w~~Y~~fe~~~~~-~~a~~~~~e~---------------------~~~y~~Ar~  263 (679)
T 4e6h_A          206 EQQRVQYIRKLYKTLLCQPMDCLESMWQRYTQWEQDVNQ-LTARRHIGEL---------------------SAQYMNARS  263 (679)
T ss_dssp             HHHHHHHHHHHHHHHTTSCCSSHHHHHHHHHHHHHHHCT-TTHHHHHHHH---------------------HHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHhcCc-chHHHHHHHh---------------------hHHHHHHHH
Confidence             33466777788777742111111223222111100000 0011111110                     012222333


Q ss_pred             HHHHHhhc--C----Cc-----------c--C------HhhHHHHHHHHHccC-------CHHHHHHHHHHHHHcCCCCC
Q 009255          242 LLNSASKR--G----YY-----------L--D------EVSYGTLITGYFRDE-------KANRALKLWDEMKERQIMPS  289 (539)
Q Consensus       242 ~~~~~~~~--~----~~-----------~--~------~~~~~~l~~~~~~~~-------~~~~a~~~~~~~~~~~~~~~  289 (539)
                      .+..+...  +    ++           |  +      ...|...+..-...+       ....+..+|++.+...+. .
T Consensus       264 ~~~e~~~~~~~l~r~~p~~~~~~~~~~~p~~~~~~~~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~~p~-~  342 (679)
T 4e6h_A          264 LYQDWLNITKGLKRNLPITLNQATESNLPKPNEYDVQQLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQHVCF-A  342 (679)
T ss_dssp             HHHHHHHHTTTCCCCCCSSSTTCCTTTSCCTTCCCHHHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHTTT-C
T ss_pred             HHHHHHHHHHhHhhccccccccchhccCCCCchhHHHHHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHHcCC-C
Confidence            33221110  0    00           0  0      123333333322222       123456778888776443 7


Q ss_pred             HhhHHHHHHHHHcCCCHHHHH-HHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCC---------CC-
Q 009255          290 TFTYNAMIWGLSQSGKTEQAI-DMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSF---------KP-  358 (539)
Q Consensus       290 ~~~~~~l~~~~~~~~~~~~a~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---------~~-  358 (539)
                      ...|...+..+...|+.+.|. .++++.... .+.+...+...+......|+++.|..+|+.++....         .| 
T Consensus       343 ~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~  421 (679)
T 4e6h_A          343 PEIWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPT  421 (679)
T ss_dssp             HHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCc
Confidence            788888888888888888896 999998875 334555666777788888999999999999886310         12 


Q ss_pred             -----------CHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcc-CChHHHHHHHHHHHhCCC
Q 009255          359 -----------DIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKE-RRLEDAFGLLSEMEEKKL  426 (539)
Q Consensus       359 -----------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~A~~~~~~~~~~~~  426 (539)
                                 ...+|...+....+.|+.+.|.++|.++.+.-..+....|...+....+. ++++.|..+|+..++. .
T Consensus       422 ~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~-~  500 (679)
T 4e6h_A          422 NESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHISKDTKTACKVLELGLKY-F  500 (679)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHH-H
T ss_pred             chhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-C
Confidence                       13367777887788899999999999998751122344555444444444 4589999999999876 3


Q ss_pred             CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCCh-hhHHHHHHHHhhcCCHHHHHHHH
Q 009255          427 GPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSS-ISYSEKINEHCSQGRYKDALQIF  505 (539)
Q Consensus       427 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~  505 (539)
                      +.+...+...+......|+.+.|+.+|++++.....                +... ..|..++..-...|+.+.+..+.
T Consensus       501 p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~----------------~~~~~~lw~~~~~fE~~~G~~~~~~~v~  564 (679)
T 4e6h_A          501 ATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISD----------------SHLLKMIFQKVIFFESKVGSLNSVRTLE  564 (679)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSS----------------TTHHHHHHHHHHHHHHHTCCSHHHHHHH
T ss_pred             CCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCC----------------HHHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            445566667777777889999999999999987611                0123 38899999999999999999999


Q ss_pred             HHHHHcCCCCCHHHHHHHH
Q 009255          506 EETRQKGIAINKSTYMNLM  524 (539)
Q Consensus       506 ~~~~~~~~~p~~~~~~~~l  524 (539)
                      +++.+.  .|+......+.
T Consensus       565 ~R~~~~--~P~~~~~~~f~  581 (679)
T 4e6h_A          565 KRFFEK--FPEVNKLEEFT  581 (679)
T ss_dssp             HHHHHH--STTCCHHHHHH
T ss_pred             HHHHHh--CCCCcHHHHHH
Confidence            999984  56655444443

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.73  E-value=1.5e-15  Score=132.77  Aligned_cols=225  Identities=12%  Similarity=0.062  Sum_probs=161.8

Q ss_pred             hHHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCC--CC----HhhHHH
Q 009255          222 TLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIM--PS----TFTYNA  295 (539)
Q Consensus       222 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~----~~~~~~  295 (539)
                      .+..+...+...|++++|...++.+.+..  .+...+..+...+...|++++|+..++++....+.  ++    ..++..
T Consensus         7 ~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~   84 (258)
T 3uq3_A            7 KEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFAR   84 (258)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHH
Confidence            44455555555666666666666655554  35556666666666666666666666665543221  11    466777


Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCC
Q 009255          296 MIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGI  375 (539)
Q Consensus       296 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  375 (539)
                      +...+...|++++|...++++....  |+.       ..+...|++++|...++.+.... +.+...+..+..++...|+
T Consensus        85 l~~~~~~~~~~~~A~~~~~~a~~~~--~~~-------~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~  154 (258)
T 3uq3_A           85 IGNAYHKLGDLKKTIEYYQKSLTEH--RTA-------DILTKLRNAEKELKKAEAEAYVN-PEKAEEARLEGKEYFTKSD  154 (258)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC--CCH-------HHHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcccHHHHHHHHHHHHhcC--chh-------HHHHHHhHHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHhcC
Confidence            7777888888888888888877643  332       23555677888888888888763 3356677888888888999


Q ss_pred             HHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHH
Q 009255          376 LEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSI  455 (539)
Q Consensus       376 ~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  455 (539)
                      +++|...++++....+ .+...|..++.++...|++++|+..++++.+.. +.+..++..++.++...|++++|.+.+++
T Consensus       155 ~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  232 (258)
T 3uq3_A          155 WPNAVKAYTEMIKRAP-EDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYASALETLDA  232 (258)
T ss_dssp             HHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            9999999998887743 367788888899999999999999999988753 44577788888899999999999999999


Q ss_pred             HHHcC
Q 009255          456 MVETG  460 (539)
Q Consensus       456 ~~~~~  460 (539)
                      +++..
T Consensus       233 a~~~~  237 (258)
T 3uq3_A          233 ARTKD  237 (258)
T ss_dssp             HHHHH
T ss_pred             HHHhC
Confidence            88765

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.72  E-value=4.7e-16  Score=134.67  Aligned_cols=217  Identities=15%  Similarity=0.127  Sum_probs=155.7

Q ss_pred             CHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHH
Q 009255          289 STFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLS  368 (539)
Q Consensus       289 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  368 (539)
                      ....|..+...+...|++++|...++++.+..+ .+...+..+...+...|++++|...++++.+.. +.+..++..+..
T Consensus        22 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~   99 (243)
T 2q7f_A           22 ASMTGGQQMGRGSEFGDYEKAAEAFTKAIEENK-EDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGN   99 (243)
T ss_dssp             --------------------CCTTHHHHHTTCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHH
Confidence            445666677777888888888888888877533 356777778888888888888888888887764 346778888888


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHH
Q 009255          369 GLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEE  448 (539)
Q Consensus       369 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  448 (539)
                      ++...|++++|...++++.+... .+...+..++..+...|++++|+..++++.+.. +.+...+..++.++...|++++
T Consensus       100 ~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~  177 (243)
T 2q7f_A          100 VYVVKEMYKEAKDMFEKALRAGM-ENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGMLDE  177 (243)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHTC-CSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHH
T ss_pred             HHHHhccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHHH
Confidence            88889999999999988887643 367788888888999999999999999988653 4457778888889999999999


Q ss_pred             HHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 009255          449 AQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGLI  528 (539)
Q Consensus       449 A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~  528 (539)
                      |++.++++++..                  +.+...+..++.+|...|++++|...++++++  ..|+.......+..+.
T Consensus       178 A~~~~~~~~~~~------------------~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~--~~p~~~~~~~~~~~l~  237 (243)
T 2q7f_A          178 ALSQFAAVTEQD------------------PGHADAFYNAGVTYAYKENREKALEMLDKAID--IQPDHMLALHAKKLLG  237 (243)
T ss_dssp             HHHHHHHHHHHC------------------TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHH--HCTTCHHHHHHHTC--
T ss_pred             HHHHHHHHHHhC------------------cccHHHHHHHHHHHHHccCHHHHHHHHHHHHc--cCcchHHHHHHHHHHH
Confidence            999999998886                  34455888999999999999999999999987  4677766655555444


Q ss_pred             h
Q 009255          529 K  529 (539)
Q Consensus       529 ~  529 (539)
                      .
T Consensus       238 ~  238 (243)
T 2q7f_A          238 H  238 (243)
T ss_dssp             -
T ss_pred             h
Confidence            3

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=99.71  E-value=6.6e-13  Score=129.50  Aligned_cols=428  Identities=9%  Similarity=-0.035  Sum_probs=284.7

Q ss_pred             CcChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCC---HhHHHHHHHHHHhCCC-CCChhh
Q 009255            7 LPDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGW---LKEAMRVVDLMTQNKS-LPDVWT   82 (539)
Q Consensus         7 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~~-~~~~~~   82 (539)
                      +-|..+|..++..+.+.+.++.+..+|++++.. +|.....|...+..-.+.|+   ++.+..+|++.....+ .|++..
T Consensus        63 p~d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~-fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~lfeRal~~~~~~~sv~L  141 (679)
T 4e6h_A           63 PTDIFLYVKLLKHHVSLKQWKQVYETFDKLHDR-FPLMANIWCMRLSLEFDKMEELDAAVIEPVLARCLSKELGNNDLSL  141 (679)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTC--CCCHHHHHHHHHHHTCSSSCCCCHHH
T ss_pred             cCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHHhcCCCCCHHH
Confidence            457889999999999999999999999999988 57788899999999889999   9999999999998742 378889


Q ss_pred             HHHHHHHHHhcCCh--------HHHHHHHHHHHh-CCC-CC-ChhhHHHHHHHHhc---------cCCHhHHHHHHHHHH
Q 009255           83 YNMLINGWCNAGML--------EEAFRLRKEMES-LKL-LP-DVVTYNTLINRFFE---------SGRSMEAFKLIDELD  142 (539)
Q Consensus        83 ~~~l~~~~~~~g~~--------~~a~~~~~~~~~-~~~-~~-~~~~~~~l~~~~~~---------~~~~~~a~~~~~~~~  142 (539)
                      |...+....+.++.        +...++|+.... .|. .+ +...|...+.....         .++++.+.++|++++
T Consensus       142 W~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~eeq~~~~~~R~iy~raL  221 (679)
T 4e6h_A          142 WLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQQRVQYIRKLYKTLL  221 (679)
T ss_dssp             HHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHHHhHHHHHHHHHHHHH
Confidence            99888877666654        334577877554 454 44 34678777765432         345677889999988


Q ss_pred             hCCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhh--CC----C
Q 009255          143 EHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGR--KG----L  216 (539)
Q Consensus       143 ~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~----~  216 (539)
                      ......-..+|......-...+. ..+..++.+.                     ..+++.|...+.++..  .+    +
T Consensus       222 ~iP~~~~~~~w~~Y~~fe~~~~~-~~a~~~~~e~---------------------~~~y~~Ar~~~~e~~~~~~~l~r~~  279 (679)
T 4e6h_A          222 CQPMDCLESMWQRYTQWEQDVNQ-LTARRHIGEL---------------------SAQYMNARSLYQDWLNITKGLKRNL  279 (679)
T ss_dssp             TSCCSSHHHHHHHHHHHHHHHCT-TTHHHHHHHH---------------------HHHHHHHHHHHHHHHHHTTTCCCCC
T ss_pred             hCccHHHHHHHHHHHHHHHhcCc-chHHHHHHHh---------------------hHHHHHHHHHHHHHHHHHHhHhhcc
Confidence            53111122334332222111111 1122221111                     1122333333332211  00    0


Q ss_pred             C-----------C-----C---HHhHHHHHHHHhccC-------CHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCC
Q 009255          217 K-----------M-----N---TITLNTILHTLCCEK-------KLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEK  270 (539)
Q Consensus       217 ~-----------~-----~---~~~~~~l~~~~~~~~-------~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  270 (539)
                      +           |     +   ...|...+..--..+       ..+.+..+|+++.... +..+..|...+..+...|+
T Consensus       280 p~~~~~~~~~~~p~~~~~~~~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~~-p~~~~lW~~ya~~~~~~~~  358 (679)
T 4e6h_A          280 PITLNQATESNLPKPNEYDVQQLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQHV-CFAPEIWFNMANYQGEKNT  358 (679)
T ss_dssp             CSSSTTCCTTTSCCTTCCCHHHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHHSC
T ss_pred             ccccccchhccCCCCchhHHHHHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHHc-CCCHHHHHHHHHHHHhcCc
Confidence            0           0     0   122333333222221       1233456777777653 3467788888888888888


Q ss_pred             HHHHH-HHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCC---------CCC------------HHhH
Q 009255          271 ANRAL-KLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGM---------IPD------------ETTF  328 (539)
Q Consensus       271 ~~~a~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---------~~~------------~~~~  328 (539)
                      .++|. .+|++.....+ .+...|...+......|+++.|.++|+++.....         .|+            ...|
T Consensus       359 ~~~a~r~il~rAi~~~P-~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vW  437 (679)
T 4e6h_A          359 DSTVITKYLKLGQQCIP-NSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVY  437 (679)
T ss_dssp             CTTHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHH
Confidence            88886 99998887543 3666777788888889999999999998876310         121            2356


Q ss_pred             HHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhc-CCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHc
Q 009255          329 NTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCRE-GILEKALKFFRSWILKGKAVDSVTYNTLISSLCK  407 (539)
Q Consensus       329 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~  407 (539)
                      ...+....+.|+.+.|..+|..+++........+|...+..-.+. ++.+.|.++|+..++. .+.++..|..++.....
T Consensus       438 i~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~  516 (679)
T 4e6h_A          438 CVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHISKDTKTACKVLELGLKY-FATDGEYINKYLDFLIY  516 (679)
T ss_dssp             HHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCchHHHHHHHHHHHh
Confidence            667777778889999999999998761122344554444444444 4589999999999887 44466677788888888


Q ss_pred             cCChHHHHHHHHHHHhCCCCC--CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          408 ERRLEDAFGLLSEMEEKKLGP--DRYTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       408 ~~~~~~A~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      .|+.+.|..+|++++.....+  ....|..++..-...|+.+.+.++.+++.+..
T Consensus       517 ~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~  571 (679)
T 4e6h_A          517 VNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKF  571 (679)
T ss_dssp             HTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHS
T ss_pred             CCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            899999999999998764222  23566677777778899999999999999887

>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=99.71  E-value=3.7e-15  Score=129.80  Aligned_cols=212  Identities=13%  Similarity=0.022  Sum_probs=152.5

Q ss_pred             HhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHH
Q 009255          290 TFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSG  369 (539)
Q Consensus       290 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  369 (539)
                      ...+..+...+...|++++|...++++.+..+ .+...+..+...+...|++++|...++++.+.. +.+...+..+..+
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~  114 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEIDP-SSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGF  114 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCC-ChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHH
Confidence            34556666666777777777777777666532 245666677777777777777777777777653 3356677777778


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCC-ChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHH
Q 009255          370 LCREGILEKALKFFRSWILKGKAV-DSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEE  448 (539)
Q Consensus       370 ~~~~g~~~~A~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  448 (539)
                      |...|++++|.+.++++...+..| +...+..++..+...|++++|...++++.+.. +.+..++..++.++...|++++
T Consensus       115 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~  193 (252)
T 2ho1_A          115 LYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKEREYVP  193 (252)
T ss_dssp             HHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCHHH
Confidence            888888888888888777622223 45567777888888888888888888887653 3346777788888888888888


Q ss_pred             HHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 009255          449 AQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLM  524 (539)
Q Consensus       449 A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l  524 (539)
                      |.++++++++..                  +.+...+..++..+...|++++|.+.++++.+  ..|+...+..++
T Consensus       194 A~~~~~~~~~~~------------------~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~--~~p~~~~~~~~l  249 (252)
T 2ho1_A          194 ARQYYDLFAQGG------------------GQNARSLLLGIRLAKVFEDRDTAASYGLQLKR--LYPGSLEYQEFQ  249 (252)
T ss_dssp             HHHHHHHHHTTS------------------CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTSHHHHHHH
T ss_pred             HHHHHHHHHHhC------------------cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHH--HCCCCHHHHHHH
Confidence            888888888765                  34445778888888888888888888888887  457766655443

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.71  E-value=6.3e-15  Score=129.96  Aligned_cols=236  Identities=13%  Similarity=0.007  Sum_probs=178.2

Q ss_pred             HhHHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCC--HhhHHHHHH
Q 009255          221 ITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPS--TFTYNAMIW  298 (539)
Q Consensus       221 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~  298 (539)
                      ..+......+...|++++|...++.+.+... .+...+..+...|...|++++|+..++++......++  ...|..+..
T Consensus         4 ~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~   82 (272)
T 3u4t_A            4 DVEFRYADFLFKNNNYAEAIEVFNKLEAKKY-NSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGK   82 (272)
T ss_dssp             -CHHHHHHHHHTTTCHHHHHHHHHHHHHTTC-CCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHH
Confidence            3455566667777777777777777776542 2455677777788888888888888888777321111  234778888


Q ss_pred             HHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHH
Q 009255          299 GLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEK  378 (539)
Q Consensus       299 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  378 (539)
                      .+...|++++|+..++++.+..+. +...+..+...+...|++++|...++++++.. +.+...+..+...+...+++++
T Consensus        83 ~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~  160 (272)
T 3u4t_A           83 ILMKKGQDSLAIQQYQAAVDRDTT-RLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYYNKEYVK  160 (272)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcccHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHHHHHHHH
Confidence            888899999999999988876433 56788888889999999999999999988873 4467777777733444569999


Q ss_pred             HHHHHHHHHHcCCCCChhhHHHHHHHHHccCC---hHHHHHHHHHHHhCC-CCCC------HhhHHHHHHHHHhcCCHHH
Q 009255          379 ALKFFRSWILKGKAVDSVTYNTLISSLCKERR---LEDAFGLLSEMEEKK-LGPD------RYTYAAIHTALVESGRLEE  448 (539)
Q Consensus       379 A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---~~~A~~~~~~~~~~~-~~~~------~~~~~~l~~~~~~~g~~~~  448 (539)
                      |...|+++.+..+ .+...+..++.++...|+   +++|...++++.+.. -.|+      ..++..++..+...|++++
T Consensus       161 A~~~~~~a~~~~p-~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  239 (272)
T 3u4t_A          161 ADSSFVKVLELKP-NIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVK  239 (272)
T ss_dssp             HHHHHHHHHHHST-TCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHhCc-cchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHH
Confidence            9999999988733 356778888888888888   888999999887541 1233      2567778899999999999


Q ss_pred             HHHHHHHHHHcC
Q 009255          449 AQKFTSIMVETG  460 (539)
Q Consensus       449 A~~~~~~~~~~~  460 (539)
                      |.++++++++.+
T Consensus       240 A~~~~~~al~~~  251 (272)
T 3u4t_A          240 ADAAWKNILALD  251 (272)
T ss_dssp             HHHHHHHHHHHC
T ss_pred             HHHHHHHHHhcC
Confidence            999999999997

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.70  E-value=9.3e-15  Score=124.77  Aligned_cols=213  Identities=9%  Similarity=-0.012  Sum_probs=157.1

Q ss_pred             CHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHH
Q 009255          289 STFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLS  368 (539)
Q Consensus       289 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  368 (539)
                      +...+..+...+...|++++|...++++.+..+ .+...+..+...+...|++++|...++++.+.. +.+..++..++.
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~   84 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKSDP-KNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGW   84 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCc-cchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHH
Confidence            345666667777777777777777777766532 245667777777777888888888888777653 336677777888


Q ss_pred             HHHhc-CCHHHHHHHHHHHHHcCCCC-ChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCH
Q 009255          369 GLCRE-GILEKALKFFRSWILKGKAV-DSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRL  446 (539)
Q Consensus       369 ~~~~~-g~~~~A~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  446 (539)
                      ++... |++++|...++++...+..| +...+..++.++...|++++|+..++++.+.. +.+...+..++.++...|++
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            88888 88888888888887722222 24567788888888888888888888887653 33467777888888888999


Q ss_pred             HHHHHHHHHHHHcCCCCcccccCCCCCCCCCCC-CChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 009255          447 EEAQKFTSIMVETGKINHQVVQPNTSKTPEEID-PSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLM  524 (539)
Q Consensus       447 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l  524 (539)
                      ++|.+.++++++..                  + .+...+..++..+...|+.++|...++.+.+  ..|+......++
T Consensus       164 ~~A~~~~~~~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~--~~p~~~~~~~~l  222 (225)
T 2vq2_A          164 GDADYYFKKYQSRV------------------EVLQADDLLLGWKIAKALGNAQAAYEYEAQLQA--NFPYSEELQTVL  222 (225)
T ss_dssp             HHHHHHHHHHHHHH------------------CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHhC------------------CCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH--hCCCCHHHHHHh
Confidence            99999999888876                  3 3444777777788888999999888888876  357776665544

>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=99.69  E-value=7.6e-15  Score=134.14  Aligned_cols=249  Identities=10%  Similarity=0.057  Sum_probs=199.7

Q ss_pred             HHhHHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCC-HHHHHHHHHHHHHcCCCCCHhhHHHHHH
Q 009255          220 TITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEK-ANRALKLWDEMKERQIMPSTFTYNAMIW  298 (539)
Q Consensus       220 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~  298 (539)
                      ...+..+..++...|++++|+..+++++..... +...|..+...+...|+ +++|+..|++++..++. +...|..+..
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            345566666777788888888888888876433 66778888888888886 99999999998887665 7888999999


Q ss_pred             HHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHh-cCCHH
Q 009255          299 GLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCR-EGILE  377 (539)
Q Consensus       299 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~g~~~  377 (539)
                      ++...|++++|+..|+++++..+. +...|..+..++...|++++|+..++++++... .+...|..+..++.. .|..+
T Consensus       175 ~~~~~g~~~eAl~~~~kal~ldP~-~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P-~~~~a~~~lg~~l~~l~~~~~  252 (382)
T 2h6f_A          175 LVEWLRDPSQELEFIADILNQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDV-RNNSVWNQRYFVISNTTGYND  252 (382)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCSCS
T ss_pred             HHHHccCHHHHHHHHHHHHHhCcc-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhcCcch
Confidence            999999999999999999887544 777888888999999999999999999998753 478889999999988 56657


Q ss_pred             HH-----HHHHHHHHHcCCCCChhhHHHHHHHHHccC--ChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcC------
Q 009255          378 KA-----LKFFRSWILKGKAVDSVTYNTLISSLCKER--RLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESG------  444 (539)
Q Consensus       378 ~A-----~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g------  444 (539)
                      +|     +..+++++...+. +...|+.+..++...|  ++++|++.+.++ +. -+.+...+..++.++.+.|      
T Consensus       253 eA~~~~el~~~~~Al~l~P~-~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~-~p~~~~al~~La~~~~~~~~~~~~~  329 (382)
T 2h6f_A          253 RAVLEREVQYTLEMIKLVPH-NESAWNYLKGILQDRGLSKYPNLLNQLLDL-QP-SHSSPYLIAFLVDIYEDMLENQCDN  329 (382)
T ss_dssp             HHHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TT-TCCCHHHHHHHHHHHHHHHHTTCSS
T ss_pred             HHHHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHccCccchHHHHHHHHHh-cc-CCCCHHHHHHHHHHHHHHhcccccc
Confidence            77     5888888887433 6778999999999888  689999999988 33 2455678888999988864      


Q ss_pred             ---CHHHHHHHHHHH-HHcCCCCcccccCCCCCCCCCCCCChh-hHHHHHHHHhh
Q 009255          445 ---RLEEAQKFTSIM-VETGKINHQVVQPNTSKTPEEIDPSSI-SYSEKINEHCS  494 (539)
Q Consensus       445 ---~~~~A~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~  494 (539)
                         .+++|+++++++ ++.+                   |... .|..++..+..
T Consensus       330 ~~~~~~~A~~~~~~l~~~~D-------------------P~r~~~w~~~~~~l~~  365 (382)
T 2h6f_A          330 KEDILNKALELCEILAKEKD-------------------TIRKEYWRYIGRSLQS  365 (382)
T ss_dssp             HHHHHHHHHHHHHHHHHTTC-------------------GGGHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHhC-------------------chhHHHHHHHHHHHHH
Confidence               358999999999 7776                   6554 78777766654

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.69  E-value=4.4e-15  Score=131.22  Aligned_cols=245  Identities=9%  Similarity=-0.054  Sum_probs=174.1

Q ss_pred             ccCCHHHHHHHHHHHhhcCC---ccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHH
Q 009255          232 CEKKLDEAYMLLNSASKRGY---YLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQ  308 (539)
Q Consensus       232 ~~~~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  308 (539)
                      ..|++++|...++.+.+...   +.+...+..+...+...|++++|...|+++....+. +..++..+...+...|++++
T Consensus        17 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~la~~~~~~~~~~~   95 (275)
T 1xnf_A           17 PTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPD-MPEVFNYLGIYLTQAGNFDA   95 (275)
T ss_dssp             CCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHH
T ss_pred             ccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHccCHHH
Confidence            34566666666666665421   113456667777788888888888888887776543 67778888888888888888


Q ss_pred             HHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 009255          309 AIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWIL  388 (539)
Q Consensus       309 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  388 (539)
                      |...++++.+..+. +...+..+..++...|++++|...++++.+..  |+..........+...|++++|...+++...
T Consensus        96 A~~~~~~al~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  172 (275)
T 1xnf_A           96 AYEAFDSVLELDPT-YNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD--PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFE  172 (275)
T ss_dssp             HHHHHHHHHHHCTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCcc-ccHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHhcCHHHHHHHHHHHHh
Confidence            88888888776432 56777788888888888888888888888753  3333333344455667899999999988777


Q ss_pred             cCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCC-----HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC
Q 009255          389 KGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPD-----RYTYAAIHTALVESGRLEEAQKFTSIMVETGKIN  463 (539)
Q Consensus       389 ~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  463 (539)
                      .. +++...+ .++..+...++.++|+..++++...  .|+     ..++..++.++...|++++|.+.++++++..   
T Consensus       173 ~~-~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~---  245 (275)
T 1xnf_A          173 KS-DKEQWGW-NIVEFYLGNISEQTLMERLKADATD--NTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN---  245 (275)
T ss_dssp             HS-CCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCS--HHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC---
T ss_pred             cC-CcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcc--cccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC---
Confidence            63 3344444 4667777888888999999888754  232     4677788899999999999999999999876   


Q ss_pred             cccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHH
Q 009255          464 HQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIF  505 (539)
Q Consensus       464 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  505 (539)
                                      |+..  ...+.++...|++++|++.+
T Consensus       246 ----------------p~~~--~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          246 ----------------VHNF--VEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             ----------------CTTC--HHHHHHHHHHHHHHHC----
T ss_pred             ----------------chhH--HHHHHHHHHHHHHHhhHHHH
Confidence                            4332  23356777889999988876

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.68  E-value=7.5e-17  Score=157.25  Aligned_cols=149  Identities=15%  Similarity=0.177  Sum_probs=119.9

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHh---CCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHH
Q 009255           11 VTYNTILDALFKKGKLNEVRDLLSDMKK---QGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLI   87 (539)
Q Consensus        11 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~   87 (539)
                      .+||++|.+|++.|++++|..+|++|.+   .|+.||..+||+||.+|++.|++++|.++|++|...|..||..+|+++|
T Consensus       128 ~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYntLI  207 (1134)
T 3spa_A          128 QRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAAL  207 (1134)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHH
Confidence            4799999999999999999999988764   4788999999999999999999999999999999999999999999999


Q ss_pred             HHHHhcCCh-HHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCC------HHHHHHHHHHH
Q 009255           88 NGWCNAGML-EEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPN------AVTHNIMIKWY  160 (539)
Q Consensus        88 ~~~~~~g~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~------~~~~~~l~~~~  160 (539)
                      .++++.|+. ++|.++|++|.+.|+.||..+|++++....+.    ..++..+++ ..+..|+      ..+...|...|
T Consensus       208 ~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~----~vL~~Vrkv-~P~f~p~~~~~~~~~t~~LL~dl~  282 (1134)
T 3spa_A          208 QCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRA----TVLKAVHKV-KPTFSLPPQLPPPVNTSKLLRDVY  282 (1134)
T ss_dssp             HHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHH----HHHHHHGGG-CCCCCCCCCCCCCCCCCTTTHHHH
T ss_pred             HHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHH----HHHHHHHHh-CcccCCCCCCcccccchHHHHHHH
Confidence            999999984 78899999999999999999999887544332    344444444 2334443      44555566666


Q ss_pred             HhcC
Q 009255          161 CKEG  164 (539)
Q Consensus       161 ~~~g  164 (539)
                      .+.+
T Consensus       283 s~d~  286 (1134)
T 3spa_A          283 AKDG  286 (1134)
T ss_dssp             CCCS
T ss_pred             ccCC
Confidence            6655

>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=99.68  E-value=1.3e-13  Score=121.42  Aligned_cols=224  Identities=12%  Similarity=0.013  Sum_probs=155.4

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHc----cCCHhHHHHHHHHHHhCCCCCChhhHH
Q 009255            9 DNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCK----LGWLKEAMRVVDLMTQNKSLPDVWTYN   84 (539)
Q Consensus         9 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~   84 (539)
                      +..++..+...+...|++++|...|++..+.   .+..++..+...|..    .+++++|...|++..+.+   +...+.
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~   78 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   78 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            4566677777777778888888888877773   355667777777777    778888888887777754   566677


Q ss_pred             HHHHHHHh----cCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhc----cCCHhHHHHHHHHHHhCCCCCCHHHHHHH
Q 009255           85 MLINGWCN----AGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFE----SGRSMEAFKLIDELDEHGIKPNAVTHNIM  156 (539)
Q Consensus        85 ~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  156 (539)
                      .+...|..    .+++++|+..|++..+.+   +...+..+...|..    .+++++|++.|++..+.+   +...+..+
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            77777777    777777777777777653   56667777777777    777777777777777654   45566666


Q ss_pred             HHHHHh----cCCHhHHHHHHHHHHHcCCCCChhhHHHHHHHHHh----cCCHHHHHHHHHHHhhCCCCCCHHhHHHHHH
Q 009255          157 IKWYCK----EGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCK----AGNMEEAFRMMDVMGRKGLKMNTITLNTILH  228 (539)
Q Consensus       157 ~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  228 (539)
                      ...|..    .+++++|...+++..+.+   +...+..+...|..    .+++++|+..+++..+.+   +...+..+..
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            666666    677777777777776653   44556666666766    777777777777766653   2445555666


Q ss_pred             HHhc----cCCHHHHHHHHHHHhhcC
Q 009255          229 TLCC----EKKLDEAYMLLNSASKRG  250 (539)
Q Consensus       229 ~~~~----~~~~~~a~~~~~~~~~~~  250 (539)
                      .+..    .++.++|...+++..+.+
T Consensus       227 ~~~~g~~~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          227 MQYNGEGVTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             HHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             HHHcCCCcccCHHHHHHHHHHHHHcC
Confidence            6665    666666666666666554

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.68  E-value=6.4e-17  Score=157.74  Aligned_cols=128  Identities=10%  Similarity=0.151  Sum_probs=108.2

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHHHh---CCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHH
Q 009255           80 VWTYNMLINGWCNAGMLEEAFRLRKEMES---LKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIM  156 (539)
Q Consensus        80 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  156 (539)
                      ..+|+++|++|++.|++++|..+|++|.+   .|+.||..+||+||.+|++.|++++|.++|++|.+.|+.||..||+.+
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            35799999999999999999999988764   468899999999999999999999999999999999999999999999


Q ss_pred             HHHHHhcCC-HhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 009255          157 IKWYCKEGK-IDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVM  211 (539)
Q Consensus       157 ~~~~~~~g~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  211 (539)
                      |.++++.|+ .++|.++|++|.+.|+.||..+|+.++..+.+    +.+++.++++
T Consensus       207 I~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR----~~vL~~Vrkv  258 (1134)
T 3spa_A          207 LQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDR----ATVLKAVHKV  258 (1134)
T ss_dssp             HHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHH----HHHHHHHGGG
T ss_pred             HHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhH----HHHHHHHHHh
Confidence            999999987 47888999999999999999999988765544    3444444444

>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=99.68  E-value=4.8e-14  Score=122.67  Aligned_cols=202  Identities=13%  Similarity=0.010  Sum_probs=166.4

Q ss_pred             HhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHH
Q 009255          255 EVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHG  334 (539)
Q Consensus       255 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  334 (539)
                      ...+..+...+...|++++|...|+++....+. +...+..+...+...|++++|...++++.+..+ .+...+..+...
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~la~~  114 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEIDPS-SADAHAALAVVFQTEMEPKLADEEYRKALASDS-RNARVLNNYGGF  114 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc-CcHHHHHHHHHH
Confidence            455677777888888888888888888776443 677888888889999999999999998887643 366778888888


Q ss_pred             HhcCCCHHHHHHHHHHHHhCCCCC-CHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHH
Q 009255          335 FCSEGQVEKALQFHNKMVEKSFKP-DIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLED  413 (539)
Q Consensus       335 ~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  413 (539)
                      +...|++++|..+++++.+.+..| +...+..++.++...|++++|...++++..... .+...+..++..+...|++++
T Consensus       115 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~g~~~~  193 (252)
T 2ho1_A          115 LYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNR-NQPSVALEMADLLYKEREYVP  193 (252)
T ss_dssp             HHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHcCCHHH
Confidence            999999999999999988732233 566788888899999999999999999888743 367788899999999999999


Q ss_pred             HHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          414 AFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       414 A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      |...++++.+.. +.+...+..++..+...|++++|.++++++.+..
T Consensus       194 A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~  239 (252)
T 2ho1_A          194 ARQYYDLFAQGG-GQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLY  239 (252)
T ss_dssp             HHHHHHHHHTTS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhC-cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence            999999998653 4566778888888999999999999999999987

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.67  E-value=5.2e-15  Score=128.03  Aligned_cols=202  Identities=12%  Similarity=0.088  Sum_probs=152.2

Q ss_pred             CHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHH
Q 009255          254 DEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIH  333 (539)
Q Consensus       254 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  333 (539)
                      ....+..+...+...|++++|...|+++....+. +...+..+...+...|++++|...++++.+... .+...+..+..
T Consensus        22 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~   99 (243)
T 2q7f_A           22 ASMTGGQQMGRGSEFGDYEKAAEAFTKAIEENKE-DAIPYINFANLLSSVNELERALAFYDKALELDS-SAATAYYGAGN   99 (243)
T ss_dssp             --------------------CCTTHHHHHTTCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-cchHHHHHHHH
Confidence            4455666777788888888888888888776443 677888888888889999999999988887643 36677888888


Q ss_pred             HHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHH
Q 009255          334 GFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLED  413 (539)
Q Consensus       334 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  413 (539)
                      .+...|++++|...++++.+.. +.+...+..++.++...|++++|...++++..... .+...+..++..+...|++++
T Consensus       100 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~  177 (243)
T 2q7f_A          100 VYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELNE-NDTEARFQFGMCLANEGMLDE  177 (243)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCCHH
T ss_pred             HHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHcCCHHH
Confidence            8889999999999999888764 34677888889999999999999999999887733 367788889999999999999


Q ss_pred             HHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          414 AFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       414 A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      |+..++++.+.. +.+..++..++.++...|++++|.+.++++++..
T Consensus       178 A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  223 (243)
T 2q7f_A          178 ALSQFAAVTEQD-PGHADAFYNAGVTYAYKENREKALEMLDKAIDIQ  223 (243)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHccC
Confidence            999999988753 4457788889999999999999999999999987

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.67  E-value=1.1e-14  Score=119.76  Aligned_cols=173  Identities=13%  Similarity=0.091  Sum_probs=146.3

Q ss_pred             CHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHH
Q 009255          324 DETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLIS  403 (539)
Q Consensus       324 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~  403 (539)
                      +..+|..+...+...|++++|...|+++++.. +.+..++..+..+|.+.|++++|...++.+...... +...+..+..
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~   81 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLDTT-SAEAYYILGS   81 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCch-hHHHHHHHHH
Confidence            56678888889999999999999999988875 347788888999999999999999999998877433 6677888888


Q ss_pred             HHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChh
Q 009255          404 SLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSI  483 (539)
Q Consensus       404 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  483 (539)
                      .+...++++.|...+.++.... +.+...+..++.++...|++++|++.++++++.+                  |.+..
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~------------------p~~~~  142 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK------------------PGFIR  142 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC------------------TTCHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc------------------chhhh
Confidence            8999999999999999988753 4457788889999999999999999999999987                  34445


Q ss_pred             hHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHH
Q 009255          484 SYSEKINEHCSQGRYKDALQIFEETRQKGIAINKST  519 (539)
Q Consensus       484 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~  519 (539)
                      +|..++.+|.+.|++++|++.|+++++  +.|+...
T Consensus       143 ~~~~lg~~~~~~g~~~~A~~~~~~al~--~~p~~a~  176 (184)
T 3vtx_A          143 AYQSIGLAYEGKGLRDEAVKYFKKALE--KEEKKAK  176 (184)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH--TTHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHh--CCccCHH
Confidence            999999999999999999999999997  5676644

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.67  E-value=3.7e-15  Score=131.73  Aligned_cols=224  Identities=11%  Similarity=-0.020  Sum_probs=147.7

Q ss_pred             HHhcCChHHHHHHHHHHHhCCC---CCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCh
Q 009255           20 LFKKGKLNEVRDLLSDMKKQGL---VPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGML   96 (539)
Q Consensus        20 ~~~~~~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~   96 (539)
                      +...|++++|+..|+++.+...   +.+..++..++..+...|++++|...|+.+.+..+. +...+..+...+...|++
T Consensus        15 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~la~~~~~~~~~   93 (275)
T 1xnf_A           15 LQPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPD-MPEVFNYLGIYLTQAGNF   93 (275)
T ss_dssp             CCCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCH
T ss_pred             cCccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHccCH
Confidence            3456788888888888887632   224557778888888888888888888888876543 677788888888888888


Q ss_pred             HHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHHH
Q 009255           97 EEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNM  176 (539)
Q Consensus        97 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  176 (539)
                      ++|...|+++.+.. +.+..++..+...+...|++++|.+.++++.+.  .|+.......+..+...|++++|...++..
T Consensus        94 ~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  170 (275)
T 1xnf_A           94 DAAYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQH  170 (275)
T ss_dssp             HHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            88888888887753 345677778888888888888888888888764  233333334444556667888888888766


Q ss_pred             HHcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCC---CHHhHHHHHHHHhccCCHHHHHHHHHHHhhc
Q 009255          177 EENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKM---NTITLNTILHTLCCEKKLDEAYMLLNSASKR  249 (539)
Q Consensus       177 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  249 (539)
                      .... +++...+ .++..+...++.++|++.++.........   +...+..+..++...|++++|...++.+...
T Consensus       171 ~~~~-~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  244 (275)
T 1xnf_A          171 FEKS-DKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN  244 (275)
T ss_dssp             HHHS-CCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HhcC-CcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhC
Confidence            6542 3333333 36666667777777777777765532110   1233444444444555555555555544443

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.66  E-value=1.3e-13  Score=117.52  Aligned_cols=203  Identities=9%  Similarity=0.032  Sum_probs=162.6

Q ss_pred             CHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHH
Q 009255          254 DEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIH  333 (539)
Q Consensus       254 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  333 (539)
                      +...+..+...+...|++++|...++++....+. +...+..+...+...|++++|...++++....+ .+...+..+..
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~   84 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKSDPK-NELAWLVRAEIYQYLKVNDKAQESFRQALSIKP-DSAEINNNYGW   84 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCcc-chHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC-CChHHHHHHHH
Confidence            4556777778888888888888888888776443 577888888888888999999999988887643 35677888888


Q ss_pred             HHhcC-CCHHHHHHHHHHHHhCCCCC-CHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCCh
Q 009255          334 GFCSE-GQVEKALQFHNKMVEKSFKP-DIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRL  411 (539)
Q Consensus       334 ~~~~~-~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  411 (539)
                      .+... |++++|...++.+.+.+..| +...+..+..++...|++++|...++++....+ .+...+..++.++...|++
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~  163 (225)
T 2vq2_A           85 FLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQP-QFPPAFKELARTKMLAGQL  163 (225)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCchHHHHHHHHHHHcCCH
Confidence            88889 99999999999888732222 366788888889999999999999999887633 3577888899999999999


Q ss_pred             HHHHHHHHHHHhCCCC-CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          412 EDAFGLLSEMEEKKLG-PDRYTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       412 ~~A~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      ++|...++++.+.. + .+...+..+...+...|+.++|..+++.+.+..
T Consensus       164 ~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~  212 (225)
T 2vq2_A          164 GDADYYFKKYQSRV-EVLQADDLLLGWKIAKALGNAQAAYEYEAQLQANF  212 (225)
T ss_dssp             HHHHHHHHHHHHHH-CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHhC-CCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC
Confidence            99999999988753 3 456677777778888999999999999988776

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.65  E-value=5.6e-15  Score=138.71  Aligned_cols=282  Identities=11%  Similarity=0.043  Sum_probs=166.1

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCC----HHhHHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHhhHH
Q 009255          184 DCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMN----TITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYG  259 (539)
Q Consensus       184 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  259 (539)
                      ....+......+...|++++|+..|+++.+.... +    ...+..+...+...|+++.|...++++.....        
T Consensus         8 ~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~--------   78 (406)
T 3sf4_A            8 SCLELALEGERLCKSGDCRAGVSFFEAAVQVGTE-DLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLAR--------   78 (406)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH--------
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHH--------
Confidence            3344455556666666666666666666554211 2    12344445555555555555555554432200        


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHcCCC-CCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCC-C----CHHhHHHHHH
Q 009255          260 TLITGYFRDEKANRALKLWDEMKERQIM-PSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMI-P----DETTFNTIIH  333 (539)
Q Consensus       260 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~----~~~~~~~l~~  333 (539)
                                             ..+.. ....++..+...+...|++++|...++++...... +    ...++..+..
T Consensus        79 -----------------------~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~  135 (406)
T 3sf4_A           79 -----------------------TIGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGN  135 (406)
T ss_dssp             -----------------------HTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             -----------------------hccccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHH
Confidence                                   00000 01233444444555555555555555544332000 0    1224555555


Q ss_pred             HHhcCCC--------------------HHHHHHHHHHHHhC----CC-CCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 009255          334 GFCSEGQ--------------------VEKALQFHNKMVEK----SF-KPDIVTCNILLSGLCREGILEKALKFFRSWIL  388 (539)
Q Consensus       334 ~~~~~~~--------------------~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  388 (539)
                      .+...|+                    +++|...+++..+.    +. .....++..+..+|...|++++|...+++...
T Consensus       136 ~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  215 (406)
T 3sf4_A          136 VYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLL  215 (406)
T ss_dssp             HHHHHHHTCC-------CCCCHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHH
T ss_pred             HHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            5666666                    66666666655432    11 11234667777888888888888888888765


Q ss_pred             cCCC-CC----hhhHHHHHHHHHccCChHHHHHHHHHHHhCCC-CCC----HhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 009255          389 KGKA-VD----SVTYNTLISSLCKERRLEDAFGLLSEMEEKKL-GPD----RYTYAAIHTALVESGRLEEAQKFTSIMVE  458 (539)
Q Consensus       389 ~~~~-~~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  458 (539)
                      .... ++    ..++..++..+...|++++|...++++.+... .++    ..++..++.++...|++++|.+.++++++
T Consensus       216 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  295 (406)
T 3sf4_A          216 IAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLA  295 (406)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHH
Confidence            4111 11    22677888888899999999999888774310 111    45667788889999999999999999887


Q ss_pred             cCCCCcccccCCCCCCCCCCCCC-hhhHHHHHHHHhhcCCHHHHHHHHHHHHH
Q 009255          459 TGKINHQVVQPNTSKTPEEIDPS-SISYSEKINEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       459 ~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  510 (539)
                      ......             .++. ..++..++.+|...|++++|.+.++++++
T Consensus       296 ~~~~~~-------------~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  335 (406)
T 3sf4_A          296 IAQELN-------------DRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  335 (406)
T ss_dssp             HHHHTT-------------CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHhcC-------------CcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            642100             0011 23788899999999999999999998775

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.64  E-value=6.4e-15  Score=138.54  Aligned_cols=241  Identities=14%  Similarity=0.105  Sum_probs=154.0

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHc----C-CCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHC----C-CCCCHHh
Q 009255          258 YGTLITGYFRDEKANRALKLWDEMKER----Q-IMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQS----G-MIPDETT  327 (539)
Q Consensus       258 ~~~l~~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~~~  327 (539)
                      +..+...|...|++++|+..+++....    + ......++..+...|...|++++|...++++...    + ......+
T Consensus        89 ~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  168 (411)
T 4a1s_A           89 YSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRA  168 (411)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHH
Confidence            333444444444444444444443321    0 0112334555555566666666666666554432    1 0112335


Q ss_pred             HHHHHHHHhcCCC-----------------HHHHHHHHHHHHhC----C-CCCCHHhHHHHHHHHHhcCCHHHHHHHHHH
Q 009255          328 FNTIIHGFCSEGQ-----------------VEKALQFHNKMVEK----S-FKPDIVTCNILLSGLCREGILEKALKFFRS  385 (539)
Q Consensus       328 ~~~l~~~~~~~~~-----------------~~~a~~~~~~~~~~----~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  385 (539)
                      +..+...+...|+                 +++|...+++..+.    + ......++..+..+|...|++++|...+++
T Consensus       169 ~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  248 (411)
T 4a1s_A          169 LYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQE  248 (411)
T ss_dssp             HHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHH
Confidence            5556666666677                 77777777665532    1 111234677788888899999999999988


Q ss_pred             HHHcCCC-CC----hhhHHHHHHHHHccCChHHHHHHHHHHHhCCC--C---CCHhhHHHHHHHHHhcCCHHHHHHHHHH
Q 009255          386 WILKGKA-VD----SVTYNTLISSLCKERRLEDAFGLLSEMEEKKL--G---PDRYTYAAIHTALVESGRLEEAQKFTSI  455 (539)
Q Consensus       386 ~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~--~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~  455 (539)
                      ....... ++    ...+..++.+|...|++++|...++++.+...  .   ....++..++.++...|++++|.+++++
T Consensus       249 al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  328 (411)
T 4a1s_A          249 RLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNR  328 (411)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            7764211 11    22678889999999999999999998875411  0   1145677888999999999999999999


Q ss_pred             HHHcCCCCcccccCCCCCCCCCCCCC-hhhHHHHHHHHhhcCCHHHHHHHHHHHHHc
Q 009255          456 MVETGKINHQVVQPNTSKTPEEIDPS-SISYSEKINEHCSQGRYKDALQIFEETRQK  511 (539)
Q Consensus       456 ~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  511 (539)
                      +++......             ..+. ..++..++.+|...|++++|.+.++++++.
T Consensus       329 al~~~~~~~-------------~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  372 (411)
T 4a1s_A          329 HLAIAQELG-------------DRIGEARACWSLGNAHSAIGGHERALKYAEQHLQL  372 (411)
T ss_dssp             HHHHHHHHT-------------CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCC-------------ChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            987641100             0011 227889999999999999999999999873

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.62  E-value=1.1e-14  Score=136.67  Aligned_cols=310  Identities=14%  Similarity=0.090  Sum_probs=205.5

Q ss_pred             CCCHHHHHHHHHHHHhcCCHhHHHHHHHHHHHcCCCCC----hhhHHHHHHHHHhcCCHHHHHHHHHHHhhC----CCCC
Q 009255          147 KPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPD----CVTYNTLIDANCKAGNMEEAFRMMDVMGRK----GLKM  218 (539)
Q Consensus       147 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~  218 (539)
                      ......+......+...|++++|...|++..+.. +.+    ..++..+...+...|++++|...+++....    +..|
T Consensus         6 ~~~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~   84 (406)
T 3sf4_A            6 EASCLELALEGERLCKSGDCRAGVSFFEAAVQVG-TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQL   84 (406)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccH
Confidence            3456677788899999999999999999998863 223    356788889999999999999999987542    1111


Q ss_pred             -CHHhHHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHH
Q 009255          219 -NTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMI  297 (539)
Q Consensus       219 -~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  297 (539)
                       ...++..+...+...|++++|...++++.......                              ........++..+.
T Consensus        85 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~------------------------------~~~~~~~~~~~~l~  134 (406)
T 3sf4_A           85 GEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISREL------------------------------NDKVGEARALYNLG  134 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH------------------------------TCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhc------------------------------ccccchHHHHHHHH
Confidence             12234444455555555555555555444431100                              00000123455555


Q ss_pred             HHHHcCCC--------------------HHHHHHHHHHHHHC----CCCC-CHHhHHHHHHHHhcCCCHHHHHHHHHHHH
Q 009255          298 WGLSQSGK--------------------TEQAIDMLNELLQS----GMIP-DETTFNTIIHGFCSEGQVEKALQFHNKMV  352 (539)
Q Consensus       298 ~~~~~~~~--------------------~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  352 (539)
                      ..+...|+                    +++|...+++....    +..+ ...++..+...+...|++++|...+++..
T Consensus       135 ~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al  214 (406)
T 3sf4_A          135 NVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRL  214 (406)
T ss_dssp             HHHHHHHHTCC-------CCCCHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHH
T ss_pred             HHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            66666666                    66676666665432    1111 13356677778888888888888888876


Q ss_pred             hCCC-CCC----HHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-CC----hhhHHHHHHHHHccCChHHHHHHHHHHH
Q 009255          353 EKSF-KPD----IVTCNILLSGLCREGILEKALKFFRSWILKGKA-VD----SVTYNTLISSLCKERRLEDAFGLLSEME  422 (539)
Q Consensus       353 ~~~~-~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~  422 (539)
                      +... .++    ..++..+..+|...|++++|...+++....... ++    ..++..++..+...|++++|...++++.
T Consensus       215 ~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~  294 (406)
T 3sf4_A          215 LIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHL  294 (406)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHH
Confidence            5310 111    337778888899999999999999887754111 11    4467888999999999999999999887


Q ss_pred             hCCC-CCC----HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCC-hhhHHHHHHHHhhcC
Q 009255          423 EKKL-GPD----RYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPS-SISYSEKINEHCSQG  496 (539)
Q Consensus       423 ~~~~-~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g  496 (539)
                      +... .++    ..++..++.++...|++++|.++++++++......             .++. ..++..++.++...|
T Consensus       295 ~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~-------------~~~~~~~~~~~l~~~~~~~g  361 (406)
T 3sf4_A          295 AIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISREVG-------------DKSGELTARLNLSDLQMVLG  361 (406)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTT-------------CHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhc-------------CCcchhHHHHHHHHHHHHhh
Confidence            5411 111    45677888999999999999999999887642100             0122 237888899998888


Q ss_pred             CHHH
Q 009255          497 RYKD  500 (539)
Q Consensus       497 ~~~~  500 (539)
                      +...
T Consensus       362 ~~~~  365 (406)
T 3sf4_A          362 LSYS  365 (406)
T ss_dssp             TTSC
T ss_pred             HhHH
Confidence            7643

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.61  E-value=8.1e-13  Score=118.39  Aligned_cols=219  Identities=11%  Similarity=0.025  Sum_probs=149.4

Q ss_pred             HHHHHHHHHHHHcCCCCCHhhHHHHHHHHH-------cCCCH-------HHHHHHHHHHHHCCCCCCHHhHHHHHHHHhc
Q 009255          272 NRALKLWDEMKERQIMPSTFTYNAMIWGLS-------QSGKT-------EQAIDMLNELLQSGMIPDETTFNTIIHGFCS  337 (539)
Q Consensus       272 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-------~~~~~-------~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  337 (539)
                      ++|...|++++...+. ++..|..++..+.       ..|++       ++|..+|++..+.-.+.+...+..++..+..
T Consensus        33 ~~a~~~~~~al~~~p~-~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~  111 (308)
T 2ond_A           33 KRVMFAYEQCLLVLGH-HPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCC-CHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHh
Confidence            5667777777665433 6667766666654       34665       7888888887763122245567777777778


Q ss_pred             CCCHHHHHHHHHHHHhCCCCCCHH-hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHH-ccCChHHHH
Q 009255          338 EGQVEKALQFHNKMVEKSFKPDIV-TCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLC-KERRLEDAF  415 (539)
Q Consensus       338 ~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~~A~  415 (539)
                      .|++++|..+|+++++... .+.. +|..++..+.+.|++++|..+|+++++..+ ++...|...+.... ..|++++|.
T Consensus       112 ~~~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p-~~~~~~~~~a~~~~~~~~~~~~A~  189 (308)
T 2ond_A          112 RMKYEKVHSIYNRLLAIED-IDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR-TRHHVYVTAALMEYYCSKDKSVAF  189 (308)
T ss_dssp             TTCHHHHHHHHHHHHTSSS-SCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTT-CCTHHHHHHHHHHHHTSCCHHHHH
T ss_pred             cCCHHHHHHHHHHHHhccc-cCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHcCCHHHHH
Confidence            8888888888888887532 1333 677777777788888888888888877532 24444544433322 268888888


Q ss_pred             HHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCC--hhhHHHHHHHHh
Q 009255          416 GLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPS--SISYSEKINEHC  493 (539)
Q Consensus       416 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~l~~~~~  493 (539)
                      .+|+++++.. +.+...+..++..+...|++++|+.+|+++++....                +|+  ...|..++..+.
T Consensus       190 ~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l----------------~p~~~~~l~~~~~~~~~  252 (308)
T 2ond_A          190 KIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSL----------------PPEKSGEIWARFLAFES  252 (308)
T ss_dssp             HHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSS----------------CGGGCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCC----------------CHHHHHHHHHHHHHHHH
Confidence            8888887642 335667777777788888888888888888875321                242  337777888888


Q ss_pred             hcCCHHHHHHHHHHHHH
Q 009255          494 SQGRYKDALQIFEETRQ  510 (539)
Q Consensus       494 ~~g~~~~A~~~~~~~~~  510 (539)
                      ..|+.++|..+++++++
T Consensus       253 ~~g~~~~a~~~~~~a~~  269 (308)
T 2ond_A          253 NIGDLASILKVEKRRFT  269 (308)
T ss_dssp             HHSCHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHH
Confidence            88888888888888876

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.61  E-value=3.3e-14  Score=135.20  Aligned_cols=214  Identities=11%  Similarity=-0.020  Sum_probs=180.0

Q ss_pred             HHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCH-HHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHH
Q 009255          271 ANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKT-EQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHN  349 (539)
Q Consensus       271 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  349 (539)
                      +++++..+++...... .+...+..+...+...|++ ++|+..|+++.+..+. +...+..+..+|...|++++|...|+
T Consensus        84 ~~~al~~l~~~~~~~~-~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~  161 (474)
T 4abn_A           84 MEKTLQQMEEVLGSAQ-VEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEPE-LVEAWNQLGEVYWKKGDVTSAHTCFS  161 (474)
T ss_dssp             HHHHHHHHHHHHTTCC-CCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccCc-hhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            4566666766555433 3678888888999999999 9999999998886433 57788899999999999999999999


Q ss_pred             HHHhCCCCCCHHhHHHHHHHHHhc---------CCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcc--------CChH
Q 009255          350 KMVEKSFKPDIVTCNILLSGLCRE---------GILEKALKFFRSWILKGKAVDSVTYNTLISSLCKE--------RRLE  412 (539)
Q Consensus       350 ~~~~~~~~~~~~~~~~l~~~~~~~---------g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------~~~~  412 (539)
                      ++++..  |+...+..+..+|...         |++++|+..++++.+..+. +...|..++.+|...        |+++
T Consensus       162 ~al~~~--p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~~~~g~~~  238 (474)
T 4abn_A          162 GALTHC--KNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDVL-DGRSWYILGNAYLSLYFNTGQNPKISQ  238 (474)
T ss_dssp             HHHTTC--CCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHTTCCHHHHH
T ss_pred             HHHhhC--CCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHhhccccchHH
Confidence            999874  5678888999999998         9999999999999987433 678899999999988        9999


Q ss_pred             HHHHHHHHHHhCCCC---CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHH
Q 009255          413 DAFGLLSEMEEKKLG---PDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKI  489 (539)
Q Consensus       413 ~A~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~  489 (539)
                      +|+..|+++.+.. +   .+...+..++.++...|++++|.+.++++++..                  +.+..++..++
T Consensus       239 ~A~~~~~~al~~~-p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~------------------p~~~~a~~~l~  299 (474)
T 4abn_A          239 QALSAYAQAEKVD-RKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD------------------PAWPEPQQREQ  299 (474)
T ss_dssp             HHHHHHHHHHHHC-GGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC------------------TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC------------------CCCHHHHHHHH
Confidence            9999999999753 2   367889999999999999999999999999987                  33444899999


Q ss_pred             HHHhhcCCHHHHHHHHHHH
Q 009255          490 NEHCSQGRYKDALQIFEET  508 (539)
Q Consensus       490 ~~~~~~g~~~~A~~~~~~~  508 (539)
                      .++...|++++|++.+.++
T Consensus       300 ~~~~~lg~~~eAi~~~~~~  318 (474)
T 4abn_A          300 QLLEFLSRLTSLLESKGKT  318 (474)
T ss_dssp             HHHHHHHHHHHHHHHTTTC
T ss_pred             HHHHHHHHHHHHHHHhccc
Confidence            9999999999999876554

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.61  E-value=2.7e-14  Score=135.78  Aligned_cols=209  Identities=12%  Similarity=0.071  Sum_probs=177.4

Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCH-HHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHH
Q 009255          305 KTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQV-EKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFF  383 (539)
Q Consensus       305 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  383 (539)
                      ..++++..+++..... +.+...+..+...+...|++ ++|...|+++++.. +.+...+..+..+|...|++++|...|
T Consensus        83 ~~~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~  160 (474)
T 4abn_A           83 EMEKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCF  160 (474)
T ss_dssp             HHHHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            3566777777766543 34778888999999999999 99999999999875 346889999999999999999999999


Q ss_pred             HHHHHcCCCCChhhHHHHHHHHHcc---------CChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhc--------CCH
Q 009255          384 RSWILKGKAVDSVTYNTLISSLCKE---------RRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVES--------GRL  446 (539)
Q Consensus       384 ~~~~~~~~~~~~~~~~~l~~~~~~~---------~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------g~~  446 (539)
                      +++.+.  .|+...+..+..++...         |++++|+..++++.+.. +.+...+..++.++...        |++
T Consensus       161 ~~al~~--~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g~~  237 (474)
T 4abn_A          161 SGALTH--CKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPKIS  237 (474)
T ss_dssp             HHHHTT--CCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHHHH
T ss_pred             HHHHhh--CCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccchH
Confidence            999987  46678899999999999         99999999999999763 44578888999999988        999


Q ss_pred             HHHHHHHHHHHHcCCCCcccccCCCCCCCCCCC---CChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 009255          447 EEAQKFTSIMVETGKINHQVVQPNTSKTPEEID---PSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNL  523 (539)
Q Consensus       447 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~  523 (539)
                      ++|++.++++++..                  +   .+...|..++.+|...|++++|++.|+++++  +.|+.......
T Consensus       238 ~~A~~~~~~al~~~------------------p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~--l~p~~~~a~~~  297 (474)
T 4abn_A          238 QQALSAYAQAEKVD------------------RKASSNPDLHLNRATLHKYEESYGEALEGFSQAAA--LDPAWPEPQQR  297 (474)
T ss_dssp             HHHHHHHHHHHHHC------------------GGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHH
T ss_pred             HHHHHHHHHHHHhC------------------CCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHH
Confidence            99999999999987                  2   2455999999999999999999999999998  56887776666


Q ss_pred             HHHHHhcCCchhhcc
Q 009255          524 MNGLIKRRKSISKAV  538 (539)
Q Consensus       524 l~~~~~~~~~~~~A~  538 (539)
                      ++.++...+++++|+
T Consensus       298 l~~~~~~lg~~~eAi  312 (474)
T 4abn_A          298 EQQLLEFLSRLTSLL  312 (474)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
Confidence            666666666677775

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.60  E-value=2.3e-14  Score=130.73  Aligned_cols=207  Identities=12%  Similarity=0.034  Sum_probs=139.0

Q ss_pred             hhHHHHHHHHHcCCCHHHHHHHHHHHHHCCC-CCC----HHhHHHHHHHHhcCCC--------------------HHHHH
Q 009255          291 FTYNAMIWGLSQSGKTEQAIDMLNELLQSGM-IPD----ETTFNTIIHGFCSEGQ--------------------VEKAL  345 (539)
Q Consensus       291 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~~~--------------------~~~a~  345 (539)
                      .++..+...+...|++++|...+++..+... .++    ..++..+...+...|+                    +++|.
T Consensus        84 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~  163 (338)
T 3ro2_A           84 KASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAV  163 (338)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHH
Confidence            3445555555666666666666655443210 011    2245555566666666                    67777


Q ss_pred             HHHHHHHhC----C-CCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-CC----hhhHHHHHHHHHccCChHHHH
Q 009255          346 QFHNKMVEK----S-FKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKA-VD----SVTYNTLISSLCKERRLEDAF  415 (539)
Q Consensus       346 ~~~~~~~~~----~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~A~  415 (539)
                      ..+++....    + ......++..+...+...|++++|...+++....... ++    ..++..++..+...|++++|.
T Consensus       164 ~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  243 (338)
T 3ro2_A          164 DLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETAS  243 (338)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            766665432    1 1112346777888888899999999999887754111 11    236788889999999999999


Q ss_pred             HHHHHHHhCCC-CCC----HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCC-hhhHHHHH
Q 009255          416 GLLSEMEEKKL-GPD----RYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPS-SISYSEKI  489 (539)
Q Consensus       416 ~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~l~  489 (539)
                      ..+++..+... .++    ..++..++.++...|++++|.+.++++++.......             ++. ..++..++
T Consensus       244 ~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~-------------~~~~~~~~~~la  310 (338)
T 3ro2_A          244 EYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKD-------------RIGEGRACWSLG  310 (338)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTC-------------HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCC-------------cHHHHHHHHHHH
Confidence            99998875310 111    456778889999999999999999998876411000             011 22788999


Q ss_pred             HHHhhcCCHHHHHHHHHHHHH
Q 009255          490 NEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       490 ~~~~~~g~~~~A~~~~~~~~~  510 (539)
                      .+|...|++++|...++++++
T Consensus       311 ~~~~~~g~~~~A~~~~~~a~~  331 (338)
T 3ro2_A          311 NAYTALGNHDQAMHFAEKHLE  331 (338)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHcCChHHHHHHHHHHHH
Confidence            999999999999999999987

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.60  E-value=8.7e-14  Score=129.23  Aligned_cols=230  Identities=10%  Similarity=-0.023  Sum_probs=167.2

Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHcCC-CC----CHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCC-C-----CHHhHH
Q 009255          261 LITGYFRDEKANRALKLWDEMKERQI-MP----STFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMI-P-----DETTFN  329 (539)
Q Consensus       261 l~~~~~~~~~~~~a~~~~~~~~~~~~-~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~-----~~~~~~  329 (539)
                      ....+...|++++|+..+++....-. .+    ...++..+...|...|+++.|...+++..+.... +     ...++.
T Consensus       109 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  188 (383)
T 3ulq_A          109 RGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHS  188 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHH
Confidence            55566778888888888888765310 11    2356777888888889999998888887653111 1     134677


Q ss_pred             HHHHHHhcCCCHHHHHHHHHHHHhCCC-----CCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHc----CC-CCChhhHH
Q 009255          330 TIIHGFCSEGQVEKALQFHNKMVEKSF-----KPDIVTCNILLSGLCREGILEKALKFFRSWILK----GK-AVDSVTYN  399 (539)
Q Consensus       330 ~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~-~~~~~~~~  399 (539)
                      .+...|...|++++|...++++++...     .....++..+..+|...|++++|...+++....    +. +....++.
T Consensus       189 ~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  268 (383)
T 3ulq_A          189 LFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYF  268 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHH
Confidence            788888999999999999988875311     111247788899999999999999999988872    22 33455788


Q ss_pred             HHHHHHHccCChHHHHHHHHHHHhCCC---CCC-HhhHHHHHHHHHhcCC---HHHHHHHHHHHHHcCCCCcccccCCCC
Q 009255          400 TLISSLCKERRLEDAFGLLSEMEEKKL---GPD-RYTYAAIHTALVESGR---LEEAQKFTSIMVETGKINHQVVQPNTS  472 (539)
Q Consensus       400 ~l~~~~~~~~~~~~A~~~~~~~~~~~~---~~~-~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~~~~~~~~~~~~~  472 (539)
                      .++.++...|++++|...++++.+...   .|. ...+..++..+...|+   +++|..++++.   +.           
T Consensus       269 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~---~~-----------  334 (383)
T 3ulq_A          269 LITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK---ML-----------  334 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT---TC-----------
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC---cC-----------
Confidence            899999999999999999998875410   122 2335667788888898   66677766655   21           


Q ss_pred             CCCCCCCCChh-hHHHHHHHHhhcCCHHHHHHHHHHHHH
Q 009255          473 KTPEEIDPSSI-SYSEKINEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       473 ~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~  510 (539)
                            .|... .+..++..|...|++++|...++++++
T Consensus       335 ------~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          335 ------YADLEDFAIDVAKYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             ------HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ------HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence                  13333 788999999999999999999999876

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.59  E-value=2.8e-13  Score=111.35  Aligned_cols=168  Identities=17%  Similarity=0.077  Sum_probs=109.5

Q ss_pred             CHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHH
Q 009255          289 STFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLS  368 (539)
Q Consensus       289 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  368 (539)
                      ++.+|..+...|...|++++|+..|++..+..+. +...+..+..++...|++++|...+..+.... +.+...+..+..
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~   81 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPN-NVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGS   81 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHH
Confidence            4555666666666666666666666666655332 45566666666666677777776666666553 234556666666


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHH
Q 009255          369 GLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEE  448 (539)
Q Consensus       369 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  448 (539)
                      .+...++++.|...+.+.....+ .+...+..++.++...|++++|+..|+++.+.. +.+..++..++.++.+.|++++
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~~~~-~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~~~  159 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIALNT-VYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLRDE  159 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCc-cchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCHHH
Confidence            66677777777777777666532 255666677777777777777777777776543 3345666677777777777777


Q ss_pred             HHHHHHHHHHcC
Q 009255          449 AQKFTSIMVETG  460 (539)
Q Consensus       449 A~~~~~~~~~~~  460 (539)
                      |++.++++++.+
T Consensus       160 A~~~~~~al~~~  171 (184)
T 3vtx_A          160 AVKYFKKALEKE  171 (184)
T ss_dssp             HHHHHHHHHHTT
T ss_pred             HHHHHHHHHhCC
Confidence            777777777765

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.58  E-value=4.1e-14  Score=132.99  Aligned_cols=278  Identities=13%  Similarity=0.094  Sum_probs=167.9

Q ss_pred             HHHHHHHHHHHhcCCHhHHHHHHHHHHHcCCCCCh----hhHHHHHHHHHhcCCHHHHHHHHHHHhhC----C-CCCCHH
Q 009255          151 VTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDC----VTYNTLIDANCKAGNMEEAFRMMDVMGRK----G-LKMNTI  221 (539)
Q Consensus       151 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~~  221 (539)
                      ..+..+...+...|++++|...|+++.+.+ +.+.    .++..+...+...|++++|+..+++....    + .+....
T Consensus        49 ~~l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  127 (411)
T 4a1s_A           49 LELALEGERLCNAGDCRAGVAFFQAAIQAG-TEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAK  127 (411)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHhCcHHHHHHHHHHHHHhc-ccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHH
Confidence            344455666777778888887777777653 2222    35666777777777777777777766442    1 011223


Q ss_pred             hHHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcC-CCCCHhhHHHHHHHH
Q 009255          222 TLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQ-IMPSTFTYNAMIWGL  300 (539)
Q Consensus       222 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~  300 (539)
                      .+..+...+...|++++|...++++.....                               ..+ ......++..+...|
T Consensus       128 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~-------------------------------~~~~~~~~~~~~~~l~~~~  176 (411)
T 4a1s_A          128 SSGNLGNTLKVMGRFDEAAICCERHLTLAR-------------------------------QLGDRLSEGRALYNLGNVY  176 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHH-------------------------------HHTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHH-------------------------------HhhchHHHHHHHHHHHHHH
Confidence            344444444555555555555444433200                               000 001223445555555


Q ss_pred             HcCCC-----------------HHHHHHHHHHHHHC----CC-CCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCC-
Q 009255          301 SQSGK-----------------TEQAIDMLNELLQS----GM-IPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFK-  357 (539)
Q Consensus       301 ~~~~~-----------------~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-  357 (539)
                      ...|+                 +++|+..+++..+.    +. ......+..+...+...|++++|...+++..+.... 
T Consensus       177 ~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~  256 (411)
T 4a1s_A          177 HAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREF  256 (411)
T ss_dssp             HHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhc
Confidence            55555                 56666665554331    11 112235666667777777777777777776653100 


Q ss_pred             CC----HHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-----CChhhHHHHHHHHHccCChHHHHHHHHHHHhCC---
Q 009255          358 PD----IVTCNILLSGLCREGILEKALKFFRSWILKGKA-----VDSVTYNTLISSLCKERRLEDAFGLLSEMEEKK---  425 (539)
Q Consensus       358 ~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-----~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~---  425 (539)
                      ++    ..++..+..+|...|++++|...+++.......     ....++..++..+...|++++|...++++....   
T Consensus       257 ~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~  336 (411)
T 4a1s_A          257 GDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQEL  336 (411)
T ss_dssp             TCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHC
Confidence            11    236677788888888888888888877654111     114567788888888999999999988887531   


Q ss_pred             -CC-CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          426 -LG-PDRYTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       426 -~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                       .. ....++..++.++...|++++|.++++++++..
T Consensus       337 ~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  373 (411)
T 4a1s_A          337 GDRIGEARACWSLGNAHSAIGGHERALKYAEQHLQLA  373 (411)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             CChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHH
Confidence             01 113467778888999999999999999998875

>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=99.57  E-value=2.6e-13  Score=115.92  Aligned_cols=209  Identities=8%  Similarity=0.010  Sum_probs=119.5

Q ss_pred             CHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHH
Q 009255          289 STFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLS  368 (539)
Q Consensus       289 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  368 (539)
                      ++..+......+...|++++|+..|+++.+..+.++...+..+..++...|++++|...+++.++.. +.+...+..+..
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            4556666666666666677777666666665443455555556666666666666666666666653 224555666666


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCCh-------hhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHh---hHHHHHH
Q 009255          369 GLCREGILEKALKFFRSWILKGKAVDS-------VTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRY---TYAAIHT  438 (539)
Q Consensus       369 ~~~~~g~~~~A~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~---~~~~l~~  438 (539)
                      +|...|++++|...+++..+..+. +.       ..|..+...+...|++++|+..|+++++.  .|+..   .+..++.
T Consensus        85 ~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l~~  161 (228)
T 4i17_A           85 AYRDMKNNQEYIATLTEGIKAVPG-NATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSLGV  161 (228)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHHHH
Confidence            666666666666666666655221 33       33555555566666666666666666532  33321   2233334


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHH
Q 009255          439 ALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKS  518 (539)
Q Consensus       439 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~  518 (539)
                      ++..     .+...++++....                  +.+...+...  .....|.+++|+..++++++  +.|+..
T Consensus       162 ~~~~-----~~~~~~~~a~~~~------------------~~~~~~~~~~--~~~~~~~~~~A~~~~~~a~~--l~p~~~  214 (228)
T 4i17_A          162 LFYN-----NGADVLRKATPLA------------------SSNKEKYASE--KAKADAAFKKAVDYLGEAVT--LSPNRT  214 (228)
T ss_dssp             HHHH-----HHHHHHHHHGGGT------------------TTCHHHHHHH--HHHHHHHHHHHHHHHHHHHH--HCTTCH
T ss_pred             HHHH-----HHHHHHHHHHhcc------------------cCCHHHHHHH--HHHHHHHHHHHHHHHHHHhh--cCCCCH
Confidence            4432     2333344444443                  1222222221  22334556999999999998  579988


Q ss_pred             HHHHHHHHHH
Q 009255          519 TYMNLMNGLI  528 (539)
Q Consensus       519 ~~~~~l~~~~  528 (539)
                      .....+..+.
T Consensus       215 ~~~~~l~~i~  224 (228)
T 4i17_A          215 EIKQMQDQVK  224 (228)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            8777776554

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.57  E-value=6e-13  Score=123.57  Aligned_cols=231  Identities=10%  Similarity=0.040  Sum_probs=158.2

Q ss_pred             HHHHhccCCHHHHHHHHHHHhhc----CCcc-CHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCC-C-----CHhhHHH
Q 009255          227 LHTLCCEKKLDEAYMLLNSASKR----GYYL-DEVSYGTLITGYFRDEKANRALKLWDEMKERQIM-P-----STFTYNA  295 (539)
Q Consensus       227 ~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~-----~~~~~~~  295 (539)
                      ...+...|++++|...++++.+.    +..+ ...++..+...|...|+++.|+..+.+....... +     ...+++.
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            33444555555555555555442    1011 2345566666777777777777777766542110 1     1346777


Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHHCCCC-CC----HHhHHHHHHHHhcCCCHHHHHHHHHHHHhC----CC-CCCHHhHHH
Q 009255          296 MIWGLSQSGKTEQAIDMLNELLQSGMI-PD----ETTFNTIIHGFCSEGQVEKALQFHNKMVEK----SF-KPDIVTCNI  365 (539)
Q Consensus       296 l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~  365 (539)
                      +...|...|++++|...++++.+.... ++    ..++..+..+|...|++++|...+++..+.    +. +....++..
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            788888888888888888887643111 11    236777888899999999999999988762    22 334667888


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcC----CCCChhhHHHHHHHHHccCC---hHHHHHHHHHHHhCCCCCC-HhhHHHHH
Q 009255          366 LLSGLCREGILEKALKFFRSWILKG----KAVDSVTYNTLISSLCKERR---LEDAFGLLSEMEEKKLGPD-RYTYAAIH  437 (539)
Q Consensus       366 l~~~~~~~g~~~~A~~~~~~~~~~~----~~~~~~~~~~l~~~~~~~~~---~~~A~~~~~~~~~~~~~~~-~~~~~~l~  437 (539)
                      +..+|...|++++|...+++.....    .+.....+..+...+...|+   +++|+.++++.   +..|+ ..++..++
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            9999999999999999998877541    11112235678888888998   77788887776   22333 45677889


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcC
Q 009255          438 TALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       438 ~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      ..+...|++++|.+.++++++..
T Consensus       347 ~~y~~~g~~~~A~~~~~~al~~~  369 (383)
T 3ulq_A          347 KYYHERKNFQKASAYFLKVEQVR  369 (383)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHH
Confidence            99999999999999999998765

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.55  E-value=7.3e-12  Score=112.16  Aligned_cols=219  Identities=12%  Similarity=-0.032  Sum_probs=166.3

Q ss_pred             HHHHHHHHHHhhcCCccCHhhHHHHHHHHH-------ccCCH-------HHHHHHHHHHHHc-CCCCCHhhHHHHHHHHH
Q 009255          237 DEAYMLLNSASKRGYYLDEVSYGTLITGYF-------RDEKA-------NRALKLWDEMKER-QIMPSTFTYNAMIWGLS  301 (539)
Q Consensus       237 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-------~~~~~-------~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~  301 (539)
                      +.|...|+++.... +.++..|..++..+.       ..|+.       ++|..+|++.+.. .+ .+...|..++..+.
T Consensus        33 ~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p-~~~~~~~~~~~~~~  110 (308)
T 2ond_A           33 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLK-KNMLLYFAYADYEE  110 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTT-TCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHH
Confidence            45666676666642 235566666665554       34665       8899999988873 33 26678888888899


Q ss_pred             cCCCHHHHHHHHHHHHHCCCCCCHH-hHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHH-hcCCHHHH
Q 009255          302 QSGKTEQAIDMLNELLQSGMIPDET-TFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLC-REGILEKA  379 (539)
Q Consensus       302 ~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~g~~~~A  379 (539)
                      ..|++++|..+|+++.+..+. +.. .|..++..+.+.|++++|..+|+++++.. +++...|...+.... ..|++++|
T Consensus       111 ~~~~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~a~~~~~~~~~~~~A  188 (308)
T 2ond_A          111 SRMKYEKVHSIYNRLLAIEDI-DPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVA  188 (308)
T ss_dssp             HTTCHHHHHHHHHHHHTSSSS-CTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCHHHH
T ss_pred             hcCCHHHHHHHHHHHHhcccc-CccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHcCCHHHH
Confidence            999999999999998875322 333 78888888888999999999999998864 334555554444422 36999999


Q ss_pred             HHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCC-CCC--CHhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 009255          380 LKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKK-LGP--DRYTYAAIHTALVESGRLEEAQKFTSIM  456 (539)
Q Consensus       380 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~  456 (539)
                      ..+|++.++.. +.++..|..++..+...|++++|..+|++++... ++|  ....+..++......|+.++|..+++++
T Consensus       189 ~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a  267 (308)
T 2ond_A          189 FKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRR  267 (308)
T ss_dssp             HHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            99999998863 3367788999999999999999999999999863 455  3567778888888899999999999999


Q ss_pred             HHcC
Q 009255          457 VETG  460 (539)
Q Consensus       457 ~~~~  460 (539)
                      ++..
T Consensus       268 ~~~~  271 (308)
T 2ond_A          268 FTAF  271 (308)
T ss_dssp             HHHT
T ss_pred             HHHc
Confidence            9887

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.55  E-value=4.7e-14  Score=127.06  Aligned_cols=236  Identities=14%  Similarity=0.105  Sum_probs=141.4

Q ss_pred             hhHHHHHHHHHccCCHHHHHHHHHHHHHc-------CCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHC------CC-
Q 009255          256 VSYGTLITGYFRDEKANRALKLWDEMKER-------QIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQS------GM-  321 (539)
Q Consensus       256 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~-  321 (539)
                      ..+..+...+...|++++|...++++...       .......++..+...+...|++++|...++++...      +. 
T Consensus        28 ~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  107 (311)
T 3nf1_A           28 RTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKDH  107 (311)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCC
Confidence            34555566666666666666666665542       11223445666666677777777777777766543      11 


Q ss_pred             CCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhC------CC-CCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHc-----
Q 009255          322 IPDETTFNTIIHGFCSEGQVEKALQFHNKMVEK------SF-KPDIVTCNILLSGLCREGILEKALKFFRSWILK-----  389 (539)
Q Consensus       322 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----  389 (539)
                      ......+..+...+...|++++|...++++.+.      +. +....++..+..++...|++++|..+++++...     
T Consensus       108 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~  187 (311)
T 3nf1_A          108 PAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKL  187 (311)
T ss_dssp             HHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTS
T ss_pred             hHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHh
Confidence            112345666677777777777777777776653      11 223446677777888888888888888877654     


Q ss_pred             -CCCC-ChhhHHHHHHHHHccCChHHHHHHHHHHHhC-------CCCCCHhh-------HHHHHHHHHhcCCHHHHHHHH
Q 009255          390 -GKAV-DSVTYNTLISSLCKERRLEDAFGLLSEMEEK-------KLGPDRYT-------YAAIHTALVESGRLEEAQKFT  453 (539)
Q Consensus       390 -~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-------~~~~~~~~-------~~~l~~~~~~~g~~~~A~~~~  453 (539)
                       +..| ...++..++.++...|++++|...++++.+.       ...+....       +......+...+.+.++...+
T Consensus       188 ~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  267 (311)
T 3nf1_A          188 GPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGWY  267 (311)
T ss_dssp             CTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC---
T ss_pred             CCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHHH
Confidence             1111 2346777888888888888888888887752       11222111       222223334455666666677


Q ss_pred             HHHHHcCCCCcccccCCCCCCCCCCCCChh-hHHHHHHHHhhcCCHHHHHHHHHHHHH
Q 009255          454 SIMVETGKINHQVVQPNTSKTPEEIDPSSI-SYSEKINEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       454 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~  510 (539)
                      +......                   |... ++..++.+|...|++++|.+.++++++
T Consensus       268 ~~~~~~~-------------------~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          268 KACKVDS-------------------PTVTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             ------C-------------------HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             hhcCCCC-------------------chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            7666554                   4444 899999999999999999999999986

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.54  E-value=1.8e-13  Score=124.65  Aligned_cols=277  Identities=13%  Similarity=0.090  Sum_probs=168.5

Q ss_pred             HHHHHHHHHHhcCCHhHHHHHHHHHHHcCCCCC----hhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCC-CCHHhHHHH
Q 009255          152 THNIMIKWYCKEGKIDKACKIVRNMEENGFSPD----CVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLK-MNTITLNTI  226 (539)
Q Consensus       152 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l  226 (539)
                      .+......+...|++++|...++++.+.. +.+    ...+..+...+...|++++|.+.+++....... .+.      
T Consensus         7 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~------   79 (338)
T 3ro2_A            7 ELALEGERLCKSGDCRAGVSFFEAAVQVG-TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQ------   79 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCH------
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccccc------
Confidence            34445566667777777777777776652 122    245556666677777777777777665432000 000      


Q ss_pred             HHHHhccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCC-CCC----HhhHHHHHHHHH
Q 009255          227 LHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQI-MPS----TFTYNAMIWGLS  301 (539)
Q Consensus       227 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~~~  301 (539)
                                               +.....+..+...+...|++++|...+++...... .++    ..++..+...+.
T Consensus        80 -------------------------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~  134 (338)
T 3ro2_A           80 -------------------------LGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYH  134 (338)
T ss_dssp             -------------------------HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             -------------------------HHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHH
Confidence                                     00122334444445555555555555554432100 001    224555555666


Q ss_pred             cCCC--------------------HHHHHHHHHHHHHC----CCC-CCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCC-
Q 009255          302 QSGK--------------------TEQAIDMLNELLQS----GMI-PDETTFNTIIHGFCSEGQVEKALQFHNKMVEKS-  355 (539)
Q Consensus       302 ~~~~--------------------~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-  355 (539)
                      ..|+                    +++|...+++....    +.. .....+..+...+...|++++|...+++..+.. 
T Consensus       135 ~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~  214 (338)
T 3ro2_A          135 AKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAK  214 (338)
T ss_dssp             HHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHH
T ss_pred             HcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHH
Confidence            6666                    66666666654431    111 113356667777788888888888888776431 


Q ss_pred             ----CCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-CC----hhhHHHHHHHHHccCChHHHHHHHHHHHhCC-
Q 009255          356 ----FKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKA-VD----SVTYNTLISSLCKERRLEDAFGLLSEMEEKK-  425 (539)
Q Consensus       356 ----~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-  425 (539)
                          ......++..+..++...|++++|...+++....... ++    ..++..++..+...|++++|...++++.+.. 
T Consensus       215 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~  294 (338)
T 3ro2_A          215 EFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQ  294 (338)
T ss_dssp             HHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             hcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHH
Confidence                0111336777888888899999999998887654111 11    4467788888999999999999999887531 


Q ss_pred             ---CCC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          426 ---LGP-DRYTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       426 ---~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                         -.+ ...++..++.++...|++++|.++++++++..
T Consensus       295 ~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~  333 (338)
T 3ro2_A          295 ELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEIS  333 (338)
T ss_dssp             HHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC-
T ss_pred             hcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHH
Confidence               111 13467788889999999999999999998865

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.52  E-value=1.7e-12  Score=120.20  Aligned_cols=230  Identities=10%  Similarity=0.019  Sum_probs=166.7

Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHcCC-CCC----HhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCC-----CC-CHHhH
Q 009255          260 TLITGYFRDEKANRALKLWDEMKERQI-MPS----TFTYNAMIWGLSQSGKTEQAIDMLNELLQSGM-----IP-DETTF  328 (539)
Q Consensus       260 ~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~-~~~~~  328 (539)
                      .....+...|++++|+..|++...... .++    ..++..+...|...|+++.|...+++..+...     .+ ...++
T Consensus       106 ~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  185 (378)
T 3q15_A          106 FRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSL  185 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHH
T ss_pred             HHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHH
Confidence            345556778888888888888765311 112    35677788888899999999998888765311     11 23467


Q ss_pred             HHHHHHHhcCCCHHHHHHHHHHHHhC----CCC-CCHHhHHHHHHHHHhcCCHHHHHHHHHHHHH-----cCCCCChhhH
Q 009255          329 NTIIHGFCSEGQVEKALQFHNKMVEK----SFK-PDIVTCNILLSGLCREGILEKALKFFRSWIL-----KGKAVDSVTY  398 (539)
Q Consensus       329 ~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~~~  398 (539)
                      ..+..+|...|++++|...+++.++.    +.. ....++..+..+|...|++++|...+++...     .. +....++
T Consensus       186 ~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~-~~~~~~~  264 (378)
T 3q15_A          186 FVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVP-DLLPKVL  264 (378)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCG-GGHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCC-hhHHHHH
Confidence            77888889999999999999887753    111 1234677888899999999999999998887     32 2236678


Q ss_pred             HHHHHHHHccCChHHHHHHHHHHHhCCC---CCC-HhhHHHHHHHHHhcCC---HHHHHHHHHHHHHcCCCCcccccCCC
Q 009255          399 NTLISSLCKERRLEDAFGLLSEMEEKKL---GPD-RYTYAAIHTALVESGR---LEEAQKFTSIMVETGKINHQVVQPNT  471 (539)
Q Consensus       399 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~---~~~-~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~~~~~~~~~~~~  471 (539)
                      ..++.++...|++++|...+++..+...   .|. ...+..+...+...|+   +.+|..++++   ...          
T Consensus       265 ~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~---~~~----------  331 (378)
T 3q15_A          265 FGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEK---KNL----------  331 (378)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHH---TTC----------
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHh---CCC----------
Confidence            8899999999999999999999886421   122 2345556666777788   6777776665   221          


Q ss_pred             CCCCCCCCCChh-hHHHHHHHHhhcCCHHHHHHHHHHHHH
Q 009255          472 SKTPEEIDPSSI-SYSEKINEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       472 ~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~  510 (539)
                             .|+.. .+..++..|...|++++|...|+++++
T Consensus       332 -------~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          332 -------HAYIEACARSAAAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             -------HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             -------hhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence                   13333 777899999999999999999999875

>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=99.51  E-value=8.4e-13  Score=130.46  Aligned_cols=165  Identities=15%  Similarity=0.118  Sum_probs=137.1

Q ss_pred             CHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHH
Q 009255          324 DETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLIS  403 (539)
Q Consensus       324 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~  403 (539)
                      +...++.+..++...|++++|+..|+++++.. +.+..++..+..+|.+.|++++|+..|+++++..+. +...|..++.
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~-P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~P~-~~~a~~nLg~   85 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPT-FADAYSNMGN   85 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHH
Confidence            35577888888888888888888888888764 336778888888899999999999999988887433 6778888999


Q ss_pred             HHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCCh-
Q 009255          404 SLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSS-  482 (539)
Q Consensus       404 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-  482 (539)
                      ++...|++++|++.|+++++.+ +-+..++..++.++...|++++|++.|+++++.+                   |+. 
T Consensus        86 ~l~~~g~~~~A~~~~~kAl~l~-P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~-------------------P~~~  145 (723)
T 4gyw_A           86 TLKEMQDVQGALQCYTRAIQIN-PAFADAHSNLASIHKDSGNIPEAIASYRTALKLK-------------------PDFP  145 (723)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------------------SCCH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-------------------CCCh
Confidence            9999999999999999988653 3346788889999999999999999999999987                   554 


Q ss_pred             hhHHHHHHHHhhcCCHHHHHHHHHHHHH
Q 009255          483 ISYSEKINEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       483 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~  510 (539)
                      .+|..++.+|...|++++|.+.++++++
T Consensus       146 ~a~~~L~~~l~~~g~~~~A~~~~~kal~  173 (723)
T 4gyw_A          146 DAYCNLAHCLQIVCDWTDYDERMKKLVS  173 (723)
T ss_dssp             HHHHHHHHHHHHTTCCTTHHHHHHHHHH
T ss_pred             HHHhhhhhHHHhcccHHHHHHHHHHHHH
Confidence            4889999999999999999999888775

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.50  E-value=5.6e-12  Score=116.71  Aligned_cols=230  Identities=12%  Similarity=0.034  Sum_probs=161.8

Q ss_pred             HHHHhccCCHHHHHHHHHHHhhcCCc-c----CHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCC--C----CCHhhHHH
Q 009255          227 LHTLCCEKKLDEAYMLLNSASKRGYY-L----DEVSYGTLITGYFRDEKANRALKLWDEMKERQI--M----PSTFTYNA  295 (539)
Q Consensus       227 ~~~~~~~~~~~~a~~~~~~~~~~~~~-~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~----~~~~~~~~  295 (539)
                      ...+...|++++|...++++.+.... +    ...++..+...|...|+++.|...+.+......  .    ....+++.
T Consensus       108 g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~  187 (378)
T 3q15_A          108 GMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFV  187 (378)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHH
T ss_pred             HHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHH
Confidence            34455667777777777766543111 1    234566777778888888888888877654211  0    12446777


Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHHC----CCC-CCHHhHHHHHHHHhcCCCHHHHHHHHHHHHh-----CCCCCCHHhHHH
Q 009255          296 MIWGLSQSGKTEQAIDMLNELLQS----GMI-PDETTFNTIIHGFCSEGQVEKALQFHNKMVE-----KSFKPDIVTCNI  365 (539)
Q Consensus       296 l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~~  365 (539)
                      +...|...|++++|...+++..+.    +.. ....++..+..++...|++++|...+++..+     .. +....++..
T Consensus       188 lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~-~~~~~~~~~  266 (378)
T 3q15_A          188 IAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVP-DLLPKVLFG  266 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCG-GGHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCC-hhHHHHHHH
Confidence            888888999999999988887653    111 1234677788888999999999999998887     43 223678888


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCC---C-ChhhHHHHHHHHHccCC---hHHHHHHHHHHHhCCCCCC-HhhHHHHH
Q 009255          366 LLSGLCREGILEKALKFFRSWILKGKA---V-DSVTYNTLISSLCKERR---LEDAFGLLSEMEEKKLGPD-RYTYAAIH  437 (539)
Q Consensus       366 l~~~~~~~g~~~~A~~~~~~~~~~~~~---~-~~~~~~~l~~~~~~~~~---~~~A~~~~~~~~~~~~~~~-~~~~~~l~  437 (539)
                      +..+|.+.|++++|...+++.......   | ....+..+...+...++   +.+|+..+++.   +..|+ ...+..++
T Consensus       267 la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~la  343 (378)
T 3q15_A          267 LSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKK---NLHAYIEACARSAA  343 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhC---CChhHHHHHHHHHH
Confidence            999999999999999999998875221   1 12245566667777788   77888877763   22333 35666788


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcC
Q 009255          438 TALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       438 ~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      ..+...|++++|.+.++++++..
T Consensus       344 ~~y~~~g~~~~A~~~~~~al~~~  366 (378)
T 3q15_A          344 AVFESSCHFEQAAAFYRKVLKAQ  366 (378)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHH
Confidence            99999999999999999987653

>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=99.49  E-value=5.7e-13  Score=131.65  Aligned_cols=158  Identities=13%  Similarity=0.091  Sum_probs=140.3

Q ss_pred             CCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHH
Q 009255          358 PDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIH  437 (539)
Q Consensus       358 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~  437 (539)
                      .+..+++.+..+|.+.|++++|++.|+++++..+. +...|..++.+|.+.|++++|+..|+++++.+ +-+..++..++
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-FAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNMG   84 (723)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            35678999999999999999999999999987433 67899999999999999999999999999753 33478899999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCCh-hhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCC
Q 009255          438 TALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSS-ISYSEKINEHCSQGRYKDALQIFEETRQKGIAIN  516 (539)
Q Consensus       438 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~  516 (539)
                      .++...|++++|++.|+++++.+                   |+. .+|.+++.+|...|++++|++.|+++++  +.|+
T Consensus        85 ~~l~~~g~~~~A~~~~~kAl~l~-------------------P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~--l~P~  143 (723)
T 4gyw_A           85 NTLKEMQDVQGALQCYTRAIQIN-------------------PAFADAHSNLASIHKDSGNIPEAIASYRTALK--LKPD  143 (723)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-------------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCSC
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-------------------CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCC
Confidence            99999999999999999999997                   554 5999999999999999999999999998  6799


Q ss_pred             HHHHHHHHHHHHhcCCchhhcc
Q 009255          517 KSTYMNLMNGLIKRRKSISKAV  538 (539)
Q Consensus       517 ~~~~~~~l~~~~~~~~~~~~A~  538 (539)
                      .......++.++...+++++|.
T Consensus       144 ~~~a~~~L~~~l~~~g~~~~A~  165 (723)
T 4gyw_A          144 FPDAYCNLAHCLQIVCDWTDYD  165 (723)
T ss_dssp             CHHHHHHHHHHHHHTTCCTTHH
T ss_pred             ChHHHhhhhhHHHhcccHHHHH
Confidence            8877777887887778898875

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.49  E-value=3.7e-11  Score=111.06  Aligned_cols=203  Identities=12%  Similarity=0.020  Sum_probs=123.5

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHc----CCC--C-CHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCC----CHH
Q 009255          258 YGTLITGYFRDEKANRALKLWDEMKER----QIM--P-STFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIP----DET  326 (539)
Q Consensus       258 ~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~----~~~  326 (539)
                      +..+...+...|++++|...+++....    +..  | ....+..+...+...|++++|...+++........    ...
T Consensus        96 ~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  175 (373)
T 1hz4_A           96 LIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQ  175 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHH
Confidence            344555566666666666666665432    111  1 12345556667777777777777777766532211    123


Q ss_pred             hHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCC--HHhHH----HHHHHHHhcCCHHHHHHHHHHHHHcCCCCC---hhh
Q 009255          327 TFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPD--IVTCN----ILLSGLCREGILEKALKFFRSWILKGKAVD---SVT  397 (539)
Q Consensus       327 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~----~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~---~~~  397 (539)
                      .+..+...+...|++++|...+++.......++  .....    ..+..+...|++++|...+++.......+.   ...
T Consensus       176 ~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~  255 (373)
T 1hz4_A          176 CLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQ  255 (373)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHH
Confidence            455666777777888888888877764311111  11111    223446678888888888877765432211   123


Q ss_pred             HHHHHHHHHccCChHHHHHHHHHHHhC----CCCCCH-hhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          398 YNTLISSLCKERRLEDAFGLLSEMEEK----KLGPDR-YTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       398 ~~~l~~~~~~~~~~~~A~~~~~~~~~~----~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      +..+...+...|++++|...++++...    +..++. .++..++.++...|+.++|...+++++...
T Consensus       256 ~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~~~  323 (373)
T 1hz4_A          256 WRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLA  323 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHh
Confidence            566777888888888888888877543    211122 355566778888899999998888887754

>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=99.49  E-value=4.1e-12  Score=104.51  Aligned_cols=164  Identities=13%  Similarity=0.121  Sum_probs=134.4

Q ss_pred             HhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 009255          326 TTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSL  405 (539)
Q Consensus       326 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~  405 (539)
                      ..+..+...+...|++++|...++.+.+.. +.+...+..+..++...|++++|...++++.... +.+...+..++..+
T Consensus         9 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~   86 (186)
T 3as5_A            9 VYYRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTY   86 (186)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHH
Confidence            455666777788888888888888887653 3467788888888888999999999998888763 33677888888889


Q ss_pred             HccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhH
Q 009255          406 CKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISY  485 (539)
Q Consensus       406 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  485 (539)
                      ...|++++|...++++.+.. +.+...+..++.++...|++++|.++++++++..                  +.+...+
T Consensus        87 ~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~------------------~~~~~~~  147 (186)
T 3as5_A           87 VQVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR------------------PNEGKVH  147 (186)
T ss_dssp             HHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC------------------TTCHHHH
T ss_pred             HHhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC------------------ccchHHH
Confidence            99999999999999988753 4567778888889999999999999999999886                  3445588


Q ss_pred             HHHHHHHhhcCCHHHHHHHHHHHHH
Q 009255          486 SEKINEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       486 ~~l~~~~~~~g~~~~A~~~~~~~~~  510 (539)
                      ..++.++...|++++|...++++++
T Consensus       148 ~~la~~~~~~~~~~~A~~~~~~~~~  172 (186)
T 3as5_A          148 RAIAFSYEQMGRHEEALPHFKKANE  172 (186)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            8999999999999999999999886

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.48  E-value=1.9e-11  Score=113.05  Aligned_cols=268  Identities=13%  Similarity=0.000  Sum_probs=180.2

Q ss_pred             HhccCCHHHHHHHHHHHhhcCCccCH----hhHHHHHHHHHccCCHHHHHHHHHHHHHcCC-CCC----HhhHHHHHHHH
Q 009255          230 LCCEKKLDEAYMLLNSASKRGYYLDE----VSYGTLITGYFRDEKANRALKLWDEMKERQI-MPS----TFTYNAMIWGL  300 (539)
Q Consensus       230 ~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~~  300 (539)
                      +...|++++|...++.........+.    ..+..+...+...|++++|...+++...... .++    ..++..+...+
T Consensus        24 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~  103 (373)
T 1hz4_A           24 AINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEIL  103 (373)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHH
Confidence            33455555555555554443211111    1344555666777788888777777654211 112    23356677888


Q ss_pred             HcCCCHHHHHHHHHHHHHC----CCC--C-CHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCC----CCHHhHHHHHHH
Q 009255          301 SQSGKTEQAIDMLNELLQS----GMI--P-DETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFK----PDIVTCNILLSG  369 (539)
Q Consensus       301 ~~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~----~~~~~~~~l~~~  369 (539)
                      ...|++++|...+++....    +..  | ....+..+...+...|++++|...+++.......    .....+..+...
T Consensus       104 ~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~  183 (373)
T 1hz4_A          104 FAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQC  183 (373)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHHHH
Confidence            9999999999999987653    221  2 2345666788889999999999999998764221    123567778888


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCh-hhHH-----HHHHHHHccCChHHHHHHHHHHHhCCCCCC---HhhHHHHHHHH
Q 009255          370 LCREGILEKALKFFRSWILKGKAVDS-VTYN-----TLISSLCKERRLEDAFGLLSEMEEKKLGPD---RYTYAAIHTAL  440 (539)
Q Consensus       370 ~~~~g~~~~A~~~~~~~~~~~~~~~~-~~~~-----~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~---~~~~~~l~~~~  440 (539)
                      +...|++++|...+++.......++. ..+.     ..+..+...|++++|...+++.......+.   ...+..++.++
T Consensus       184 ~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~~~  263 (373)
T 1hz4_A          184 SLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQ  263 (373)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHHHHH
Confidence            99999999999999998765222221 2222     233447789999999999999875432111   23456778899


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChh-hHHHHHHHHhhcCCHHHHHHHHHHHHH
Q 009255          441 VESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSI-SYSEKINEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       441 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~  510 (539)
                      ...|++++|.+.++.++......             +.++... .+..++.++...|++++|...++++++
T Consensus       264 ~~~g~~~~A~~~l~~a~~~~~~~-------------~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~  321 (373)
T 1hz4_A          264 ILLGEFEPAEIVLEELNENARSL-------------RLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  321 (373)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHT-------------TCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHHHhC-------------cchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            99999999999999987653110             0011222 677889999999999999999999875

>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=99.46  E-value=1.5e-11  Score=104.89  Aligned_cols=196  Identities=9%  Similarity=0.005  Sum_probs=157.2

Q ss_pred             cCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHH
Q 009255          253 LDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTII  332 (539)
Q Consensus       253 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  332 (539)
                      .++..+......+...|++++|+..|++.....+.++...+..+..++...|++++|+..+++..+..+. +...+..+.
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~   83 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYN-LANAYIGKS   83 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCS-HHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcc-hHHHHHHHH
Confidence            3678888899999999999999999999998876467888888999999999999999999999987543 567888999


Q ss_pred             HHHhcCCCHHHHHHHHHHHHhCCCCCCH-------HhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC---hhhHHHHH
Q 009255          333 HGFCSEGQVEKALQFHNKMVEKSFKPDI-------VTCNILLSGLCREGILEKALKFFRSWILKGKAVD---SVTYNTLI  402 (539)
Q Consensus       333 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~---~~~~~~l~  402 (539)
                      .++...|++++|...+++.++.. +.+.       ..+..+..++...|++++|+..|+++++.  .|+   ...|..++
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l~  160 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKAV-PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSLG  160 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHHH
Confidence            99999999999999999999864 2345       55788888999999999999999999886  343   56778888


Q ss_pred             HHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          403 SSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       403 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      .+|...|     ...++++...+ ..+...+....  ....+.+++|+..++++++..
T Consensus       161 ~~~~~~~-----~~~~~~a~~~~-~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~  210 (228)
T 4i17_A          161 VLFYNNG-----ADVLRKATPLA-SSNKEKYASEK--AKADAAFKKAVDYLGEAVTLS  210 (228)
T ss_dssp             HHHHHHH-----HHHHHHHGGGT-TTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHH-----HHHHHHHHhcc-cCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhcC
Confidence            8886554     34456665443 33344443332  344577999999999999997

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.46  E-value=2.9e-12  Score=115.22  Aligned_cols=242  Identities=17%  Similarity=0.068  Sum_probs=172.1

Q ss_pred             CcChhhHHHHHHHHHhcCChHHHHHHHHHHHhC-------CCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhC-----
Q 009255            7 LPDNVTYNTILDALFKKGKLNEVRDLLSDMKKQ-------GLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQN-----   74 (539)
Q Consensus         7 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-----   74 (539)
                      +.+..++..+...+...|++++|..+|+++.+.       ..+....++..+...+...|++++|...++++...     
T Consensus        24 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~  103 (311)
T 3nf1_A           24 PARLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTL  103 (311)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHh
Confidence            335667899999999999999999999999873       23445668889999999999999999999988764     


Q ss_pred             -CC-CCChhhHHHHHHHHHhcCChHHHHHHHHHHHhC------CC-CCChhhHHHHHHHHhccCCHhHHHHHHHHHHhC-
Q 009255           75 -KS-LPDVWTYNMLINGWCNAGMLEEAFRLRKEMESL------KL-LPDVVTYNTLINRFFESGRSMEAFKLIDELDEH-  144 (539)
Q Consensus        75 -~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~------~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-  144 (539)
                       +. ......+..+...+...|++++|...+++..+.      +. +.....+..+...+...|++++|+++++++.+. 
T Consensus       104 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~  183 (311)
T 3nf1_A          104 GKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIY  183 (311)
T ss_dssp             CTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHH
T ss_pred             CCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence             11 224567888899999999999999999998764      21 223456888899999999999999999998764 


Q ss_pred             -----CCCC-CHHHHHHHHHHHHhcCCHhHHHHHHHHHHHc-------CCCCChh-hHHH------HHHHHHhcCCHHHH
Q 009255          145 -----GIKP-NAVTHNIMIKWYCKEGKIDKACKIVRNMEEN-------GFSPDCV-TYNT------LIDANCKAGNMEEA  204 (539)
Q Consensus       145 -----~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-------~~~~~~~-~~~~------l~~~~~~~~~~~~a  204 (539)
                           +..| ...++..+..++...|++++|...++++.+.       ...+... .+..      +...+...+.+.++
T Consensus       184 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  263 (311)
T 3nf1_A          184 QTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEY  263 (311)
T ss_dssp             HHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCC
T ss_pred             HHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHH
Confidence                 1122 3457888899999999999999999998753       1122222 2221      22222334445555


Q ss_pred             HHHHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHhhc
Q 009255          205 FRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKR  249 (539)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  249 (539)
                      ...+...... .+....++..+..+|...|++++|...++++.+.
T Consensus       264 ~~~~~~~~~~-~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l  307 (311)
T 3nf1_A          264 GGWYKACKVD-SPTVTTTLKNLGALYRRQGKFEAAETLEEAAMRS  307 (311)
T ss_dssp             C----------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHhhcCCC-CchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            5556555443 2335667888999999999999999999988764

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.42  E-value=1.2e-11  Score=107.99  Aligned_cols=213  Identities=11%  Similarity=0.043  Sum_probs=122.0

Q ss_pred             CHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCC--HHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCC-C-CCHHhHH
Q 009255          289 STFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPD--ETTFNTIIHGFCSEGQVEKALQFHNKMVEKSF-K-PDIVTCN  364 (539)
Q Consensus       289 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~-~~~~~~~  364 (539)
                      +...+......+...|++++|+..|+++.+..+...  ...+..+..++...|++++|...|+++++..+ . .....+.
T Consensus        14 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~   93 (261)
T 3qky_A           14 SPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEY   93 (261)
T ss_dssp             SHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHH
Confidence            344455555555566666666666666555432210  34445555555566666666666665555321 1 1133444


Q ss_pred             HHHHHHHh--------cCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHH
Q 009255          365 ILLSGLCR--------EGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAI  436 (539)
Q Consensus       365 ~l~~~~~~--------~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l  436 (539)
                      .+..++..        .|++++|...|++++...+. +......+...              .....    .-...+..+
T Consensus        94 ~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~a~~~~--------------~~~~~----~~~~~~~~l  154 (261)
T 3qky_A           94 ERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYPN-HELVDDATQKI--------------RELRA----KLARKQYEA  154 (261)
T ss_dssp             HHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHCTT-CTTHHHHHHHH--------------HHHHH----HHHHHHHHH
T ss_pred             HHHHHHHHhcccccccchhHHHHHHHHHHHHHHCcC-chhHHHHHHHH--------------HHHHH----HHHHHHHHH
Confidence            45555555        55555565555555554211 11111111110              00000    000113667


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCC-ChhhHHHHHHHHhhc----------CCHHHHHHHH
Q 009255          437 HTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDP-SSISYSEKINEHCSQ----------GRYKDALQIF  505 (539)
Q Consensus       437 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~----------g~~~~A~~~~  505 (539)
                      +.++...|++++|+..++++++..+.                .+ ....+..++.+|...          |++++|+..|
T Consensus       155 a~~~~~~g~~~~A~~~~~~~l~~~p~----------------~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~  218 (261)
T 3qky_A          155 ARLYERRELYEAAAVTYEAVFDAYPD----------------TPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELY  218 (261)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTT----------------STTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHH
T ss_pred             HHHHHHccCHHHHHHHHHHHHHHCCC----------------CchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHH
Confidence            88999999999999999999998722                12 223888999999876          9999999999


Q ss_pred             HHHHHcCCCCCH---HHHHHHHHHHHhcCCchhhcc
Q 009255          506 EETRQKGIAINK---STYMNLMNGLIKRRKSISKAV  538 (539)
Q Consensus       506 ~~~~~~~~~p~~---~~~~~~l~~~~~~~~~~~~A~  538 (539)
                      +++++.  .|+.   ......+..+...-++++++.
T Consensus       219 ~~~~~~--~p~~~~~~~a~~~l~~~~~~~~~~~~~~  252 (261)
T 3qky_A          219 ERLLQI--FPDSPLLRTAEELYTRARQRLTELEGDA  252 (261)
T ss_dssp             HHHHHH--CTTCTHHHHHHHHHHHHHHHHHHHHTCT
T ss_pred             HHHHHH--CCCChHHHHHHHHHHHHHHHHHHhhhhh
Confidence            999983  5665   344555666666656565553

>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=99.41  E-value=2.4e-11  Score=99.82  Aligned_cols=164  Identities=15%  Similarity=0.061  Sum_probs=100.4

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHH
Q 009255           11 VTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGW   90 (539)
Q Consensus        11 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   90 (539)
                      ..|..+...+...|++++|...|+++.+.. +.+..++..++..+...|++++|...++.+.+..+ .+...+..+...+
T Consensus         9 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~   86 (186)
T 3as5_A            9 VYYRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADAP-DNVKVATVLGLTY   86 (186)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHH
Confidence            345556666667777777777777666553 34566666666777777777777777776665532 2455666666666


Q ss_pred             HhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHH
Q 009255           91 CNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKAC  170 (539)
Q Consensus        91 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  170 (539)
                      ...|++++|...++++.+.. +.+...+..+...+...|++++|.+.++++.+.. +.+..++..+...+...|++++|.
T Consensus        87 ~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~  164 (186)
T 3as5_A           87 VQVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHEEAL  164 (186)
T ss_dssp             HHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHHHHH
Confidence            66666666666666665542 3345555556666666666666666666655542 224455555666666666666666


Q ss_pred             HHHHHHHH
Q 009255          171 KIVRNMEE  178 (539)
Q Consensus       171 ~~~~~~~~  178 (539)
                      ..++...+
T Consensus       165 ~~~~~~~~  172 (186)
T 3as5_A          165 PHFKKANE  172 (186)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            66655544

>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=99.39  E-value=1.1e-12  Score=103.28  Aligned_cols=145  Identities=9%  Similarity=-0.033  Sum_probs=113.8

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCC
Q 009255          366 LLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGR  445 (539)
Q Consensus       366 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  445 (539)
                      |..++...|++++|+..++...... +-++..+..++..|...|++++|+..|+++++.. +.+..++..++.++...|+
T Consensus         3 LG~~~~~~~~~e~ai~~~~~a~~~~-p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~   80 (150)
T 4ga2_A            3 LGSMRRSKADVERYIASVQGSTPSP-RQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEEN   80 (150)
T ss_dssp             ----CCCHHHHHHHHHHHHHHSCSH-HHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             hHHHHHHcChHHHHHHHHHHhcccC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCc
Confidence            4455666788899999888877642 2245567788899999999999999999998753 4457888899999999999


Q ss_pred             HHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHH-HHHHHHcCCCCCHHHHHHHH
Q 009255          446 LEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQI-FEETRQKGIAINKSTYMNLM  524 (539)
Q Consensus       446 ~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~-~~~~~~~~~~p~~~~~~~~l  524 (539)
                      +++|+..++++++.+                  |-+..+|..++.+|.+.|++++|.+. ++++++  +.|+.+....+.
T Consensus        81 ~~~A~~~~~~al~~~------------------p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~--l~P~~~~~~~l~  140 (150)
T 4ga2_A           81 TDKAVECYRRSVELN------------------PTQKDLVLKIAELLCKNDVTDGRAKYWVERAAK--LFPGSPAVYKLK  140 (150)
T ss_dssp             HHHHHHHHHHHHHHC------------------TTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHH--HSTTCHHHHHHH
T ss_pred             hHHHHHHHHHHHHhC------------------CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHH--hCcCCHHHHHHH
Confidence            999999999999987                  33445899999999999998877665 588887  679888887788


Q ss_pred             HHHHhcCC
Q 009255          525 NGLIKRRK  532 (539)
Q Consensus       525 ~~~~~~~~  532 (539)
                      ..++...|
T Consensus       141 ~~ll~~~G  148 (150)
T 4ga2_A          141 EQLLDCEG  148 (150)
T ss_dssp             HHHHHTCC
T ss_pred             HHHHHHhC
Confidence            87777666

>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=6e-12  Score=111.39  Aligned_cols=232  Identities=15%  Similarity=0.073  Sum_probs=152.2

Q ss_pred             HccCCHHHHHHHHHHHHHc-------CCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHC------CCCC-CHHhHHHH
Q 009255          266 FRDEKANRALKLWDEMKER-------QIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQS------GMIP-DETTFNTI  331 (539)
Q Consensus       266 ~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~-~~~~~~~l  331 (539)
                      ...|++++|+..+++....       ..+....++..+...+...|++++|...++++.+.      +..| ...++..+
T Consensus        12 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l   91 (283)
T 3edt_B           12 SGLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNL   91 (283)
T ss_dssp             -CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHH
Confidence            3556777777777665541       21224567888888999999999999999988754      1122 34577888


Q ss_pred             HHHHhcCCCHHHHHHHHHHHHhC------C-CCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHc------CCCC-Chhh
Q 009255          332 IHGFCSEGQVEKALQFHNKMVEK------S-FKPDIVTCNILLSGLCREGILEKALKFFRSWILK------GKAV-DSVT  397 (539)
Q Consensus       332 ~~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~------~~~~-~~~~  397 (539)
                      ...+...|++++|...++++.+.      . .+....++..+..+|...|++++|...++++...      +..| ...+
T Consensus        92 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  171 (283)
T 3edt_B           92 AVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKT  171 (283)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHH
Confidence            88899999999999999988764      1 1234567788888899999999999999888765      1122 3456


Q ss_pred             HHHHHHHHHccCChHHHHHHHHHHHhC-------CCCCCH-hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccC
Q 009255          398 YNTLISSLCKERRLEDAFGLLSEMEEK-------KLGPDR-YTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQP  469 (539)
Q Consensus       398 ~~~l~~~~~~~~~~~~A~~~~~~~~~~-------~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  469 (539)
                      +..++.++...|++++|...++++.+.       ...+.. ..+..+.......+....+.. +..+.....        
T Consensus       172 ~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~--------  242 (283)
T 3edt_B          172 KNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAP-YGEYGSWYK--------  242 (283)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC---------------------
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHH-HHHHHHHHH--------
Confidence            778888899999999999999988753       112222 233333333333333322222 222211110        


Q ss_pred             CCCCCCCCCCCChh-hHHHHHHHHhhcCCHHHHHHHHHHHHH
Q 009255          470 NTSKTPEEIDPSSI-SYSEKINEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       470 ~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~  510 (539)
                          ......|... ++..++.+|...|++++|...++++++
T Consensus       243 ----~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          243 ----ACKVDSPTVNTTLRSLGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             ----CCCCCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             ----hcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence                0000123333 888999999999999999999999986

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.37  E-value=2.1e-11  Score=108.18  Aligned_cols=209  Identities=11%  Similarity=-0.036  Sum_probs=142.2

Q ss_pred             HHHcCCCHHHHHHHHHHHHHC----CCCCC-HHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCC---CC--CHHhHHHHHH
Q 009255          299 GLSQSGKTEQAIDMLNELLQS----GMIPD-ETTFNTIIHGFCSEGQVEKALQFHNKMVEKSF---KP--DIVTCNILLS  368 (539)
Q Consensus       299 ~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~--~~~~~~~l~~  368 (539)
                      .|...|++++|...|.+....    +..+. ..++..+..+|...|++++|...+++.++...   .+  ...++..+..
T Consensus        46 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~  125 (292)
T 1qqe_A           46 IYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGE  125 (292)
T ss_dssp             HHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            455667777777777665542    11111 34667777777777888888777777765310   11  1347778888


Q ss_pred             HHHhc-CCHHHHHHHHHHHHHcCCCC-C----hhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCH------hhHHHH
Q 009255          369 GLCRE-GILEKALKFFRSWILKGKAV-D----SVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDR------YTYAAI  436 (539)
Q Consensus       369 ~~~~~-g~~~~A~~~~~~~~~~~~~~-~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~------~~~~~l  436 (539)
                      +|... |++++|+..|++..+..... +    ..++..++..+...|++++|+..|+++.+.......      ..+..+
T Consensus       126 ~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~l  205 (292)
T 1qqe_A          126 ILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKK  205 (292)
T ss_dssp             HHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHH
T ss_pred             HHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHH
Confidence            99996 99999999999988752211 1    346888999999999999999999999976422221      156778


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCCh---hhHHHHHHHHh--hcCCHHHHHHHHHHHHHc
Q 009255          437 HTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSS---ISYSEKINEHC--SQGRYKDALQIFEETRQK  511 (539)
Q Consensus       437 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~l~~~~~--~~g~~~~A~~~~~~~~~~  511 (539)
                      +.++...|++++|+..++++++..+.                .++.   ..+..++..+.  ..+++++|+..|++++. 
T Consensus       206 g~~~~~~g~~~~A~~~~~~al~l~p~----------------~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~-  268 (292)
T 1qqe_A          206 GLCQLAATDAVAAARTLQEGQSEDPN----------------FADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMR-  268 (292)
T ss_dssp             HHHHHHTTCHHHHHHHHHGGGCC-------------------------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSC-
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhhCCC----------------CCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCCc-
Confidence            88899999999999999999887621                0111   13455666664  46789999999988874 


Q ss_pred             CCCCCHHHHHHHHH
Q 009255          512 GIAINKSTYMNLMN  525 (539)
Q Consensus       512 ~~~p~~~~~~~~l~  525 (539)
                       +.|+......-+.
T Consensus       269 -l~~~~~~~~~~~k  281 (292)
T 1qqe_A          269 -LDKWKITILNKIK  281 (292)
T ss_dssp             -CCHHHHHHHHHHH
T ss_pred             -cHHHHHHHHHHHH
Confidence             5666554443333

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.33  E-value=3.5e-11  Score=100.65  Aligned_cols=136  Identities=7%  Similarity=0.003  Sum_probs=103.1

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhc
Q 009255          364 NILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVES  443 (539)
Q Consensus       364 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  443 (539)
                      ..+..+|.+.|++++|+..|++.++..+. +...+..++.++...|++++|+..|+++++.. +.+..++..++.++...
T Consensus        58 ~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~  135 (208)
T 3urz_A           58 TELALAYKKNRNYDKAYLFYKELLQKAPN-NVDCLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYLT  135 (208)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHH
Confidence            34888899999999999999999987433 77889999999999999999999999999753 44567888888887665


Q ss_pred             CC--HHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHH
Q 009255          444 GR--LEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYM  521 (539)
Q Consensus       444 g~--~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~  521 (539)
                      |+  .+.+...+.++...                   +|....+...+.++...|++++|+..|+++++  +.|+.....
T Consensus       136 ~~~~~~~~~~~~~~~~~~-------------------~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~--l~P~~~~~~  194 (208)
T 3urz_A          136 AEQEKKKLETDYKKLSSP-------------------TKMQYARYRDGLSKLFTTRYEKARNSLQKVIL--RFPSTEAQK  194 (208)
T ss_dssp             HHHHHHHHHHHHC---CC-------------------CHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTT--TSCCHHHHH
T ss_pred             hHHHHHHHHHHHHHHhCC-------------------CchhHHHHHHHHHHHHccCHHHHHHHHHHHHH--hCCCHHHHH
Confidence            54  34455555555421                   23333667778888889999999999999996  678876544


Q ss_pred             H
Q 009255          522 N  522 (539)
Q Consensus       522 ~  522 (539)
                      .
T Consensus       195 ~  195 (208)
T 3urz_A          195 T  195 (208)
T ss_dssp             H
T ss_pred             H
Confidence            3

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.32  E-value=5.1e-10  Score=96.76  Aligned_cols=197  Identities=13%  Similarity=0.087  Sum_probs=140.8

Q ss_pred             HHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCC-CCCHHhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 009255          309 AIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSF-KPDIVTCNILLSGLCREGILEKALKFFRSWI  387 (539)
Q Consensus       309 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  387 (539)
                      ++..+++....+ .++..++..+..++...|++++|++++.+.+..+. ..+...+...+.++.+.|+++.|.+.++++.
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            667777776654 34555666788888999999999999999877653 2367788888999999999999999999998


Q ss_pred             HcCCCC-----ChhhHHHHHHH--HHccC--ChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 009255          388 LKGKAV-----DSVTYNTLISS--LCKER--RLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVE  458 (539)
Q Consensus       388 ~~~~~~-----~~~~~~~l~~~--~~~~~--~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  458 (539)
                      +.  .|     +-.+...++.+  ....|  ++.+|..+|+++.+.  .|+......+..++.+.|++++|.+.++.+.+
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            76  44     24455555555  34344  899999999999764  56633333444488999999999999998776


Q ss_pred             cCCCCcccccCCCCCCCCCCCCCh-hhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 009255          459 TGKINHQVVQPNTSKTPEEIDPSS-ISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNL  523 (539)
Q Consensus       459 ~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~  523 (539)
                      ..+...+         .....|+. .+..+++......|+  +|.++++++.+  ..|+.+-...+
T Consensus       240 ~~p~~~~---------k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~--~~P~hp~i~d~  292 (310)
T 3mv2_B          240 DYYSVEQ---------KENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVK--LDHEHAFIKHH  292 (310)
T ss_dssp             HHHHTTT---------CHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHH--TTCCCHHHHHH
T ss_pred             hcccccc---------cccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHH--hCCCChHHHHH
Confidence            4200000         00000444 477688777777887  89999999998  57887655443

>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=99.31  E-value=2.4e-11  Score=107.45  Aligned_cols=228  Identities=14%  Similarity=0.059  Sum_probs=161.1

Q ss_pred             hccCCHHHHHHHHHHHhhc-------CCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHc------CC-CCCHhhHHHH
Q 009255          231 CCEKKLDEAYMLLNSASKR-------GYYLDEVSYGTLITGYFRDEKANRALKLWDEMKER------QI-MPSTFTYNAM  296 (539)
Q Consensus       231 ~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~-~~~~~~~~~l  296 (539)
                      ...|+++.|...+++..+.       ..+....++..+...|...|++++|+..++++...      +. +....++..+
T Consensus        12 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l   91 (283)
T 3edt_B           12 SGLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNL   91 (283)
T ss_dssp             -CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHH
Confidence            4567777777777766552       22334667888999999999999999999998754      11 2235678889


Q ss_pred             HHHHHcCCCHHHHHHHHHHHHHC-----CC--CCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhC------C-CCCCHHh
Q 009255          297 IWGLSQSGKTEQAIDMLNELLQS-----GM--IPDETTFNTIIHGFCSEGQVEKALQFHNKMVEK------S-FKPDIVT  362 (539)
Q Consensus       297 ~~~~~~~~~~~~a~~~~~~~~~~-----~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~  362 (539)
                      ...+...|++++|...++++...     +.  +.....+..+...+...|++++|...++++.+.      + .+....+
T Consensus        92 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  171 (283)
T 3edt_B           92 AVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKT  171 (283)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHH
Confidence            99999999999999999998764     11  223557888899999999999999999998864      1 1223567


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHc-------CCCC-ChhhHHHHHHHHHccCChHHH------HHHHHHHHhCCCCC
Q 009255          363 CNILLSGLCREGILEKALKFFRSWILK-------GKAV-DSVTYNTLISSLCKERRLEDA------FGLLSEMEEKKLGP  428 (539)
Q Consensus       363 ~~~l~~~~~~~g~~~~A~~~~~~~~~~-------~~~~-~~~~~~~l~~~~~~~~~~~~A------~~~~~~~~~~~~~~  428 (539)
                      +..+..+|...|++++|...++++...       ...+ ....|..+...+...+....+      ...++.... ..+.
T Consensus       172 ~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~  250 (283)
T 3edt_B          172 KNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKV-DSPT  250 (283)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCC-CCHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCC-CCHH
Confidence            888999999999999999999998864       1122 233444444444443333322      222222111 1112


Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 009255          429 DRYTYAAIHTALVESGRLEEAQKFTSIMVET  459 (539)
Q Consensus       429 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  459 (539)
                      ...++..++.++...|++++|.++++++++.
T Consensus       251 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          251 VNTTLRSLGALYRRQGKLEAAHTLEDCASRN  281 (283)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            2456778999999999999999999998865

>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=99.30  E-value=1.6e-10  Score=89.13  Aligned_cols=130  Identities=14%  Similarity=0.216  Sum_probs=103.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHH
Q 009255          362 TCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALV  441 (539)
Q Consensus       362 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~  441 (539)
                      .+..++..+...|++++|..+++++..... .+...+..++..+...|++++|...++++...+ +.+...+..++..+.
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            456677778888888888888888877633 356677788888888888888888888887653 445667778888888


Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHc
Q 009255          442 ESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQK  511 (539)
Q Consensus       442 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  511 (539)
                      ..|++++|.++++++++..                  +.+...+..++.++...|++++|...++++++.
T Consensus        81 ~~~~~~~A~~~~~~~~~~~------------------~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  132 (136)
T 2fo7_A           81 KQGDYDEAIEYYQKALELD------------------PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL  132 (136)
T ss_dssp             TTTCHHHHHHHHHHHHHHC------------------TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHhC------------------CCChHHHHHHHHHHHHHccHHHHHHHHHHHHcc
Confidence            8999999999999888876                  334558888888999999999999999988863

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.30  E-value=1.6e-10  Score=100.83  Aligned_cols=188  Identities=9%  Similarity=-0.008  Sum_probs=140.7

Q ss_pred             cCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCC---HhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCC-C-CHHh
Q 009255          253 LDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPS---TFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMI-P-DETT  327 (539)
Q Consensus       253 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~-~~~~  327 (539)
                      .+...+..+...+...|++++|+..|+++....+. +   ...+..+..++...|++++|+..|+++.+..+. | ....
T Consensus        13 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a   91 (261)
T 3qky_A           13 SSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRT-HEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQA   91 (261)
T ss_dssp             SSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSC-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCC-CcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHH
Confidence            35677788888999999999999999999987543 3   567888999999999999999999999986432 2 2456


Q ss_pred             HHHHHHHHhc--------CCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHH
Q 009255          328 FNTIIHGFCS--------EGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYN  399 (539)
Q Consensus       328 ~~~l~~~~~~--------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  399 (539)
                      +..+..++..        .|++++|...|+++++..+. +......+..              +..+...    ....+.
T Consensus        92 ~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~a~~~--------------~~~~~~~----~~~~~~  152 (261)
T 3qky_A           92 EYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYPN-HELVDDATQK--------------IRELRAK----LARKQY  152 (261)
T ss_dssp             HHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHCTT-CTTHHHHHHH--------------HHHHHHH----HHHHHH
T ss_pred             HHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHCcC-chhHHHHHHH--------------HHHHHHH----HHHHHH
Confidence            7777888888        99999999999999986321 2222222211              1111110    112256


Q ss_pred             HHHHHHHccCChHHHHHHHHHHHhCCCCC--CHhhHHHHHHHHHhc----------CCHHHHHHHHHHHHHcC
Q 009255          400 TLISSLCKERRLEDAFGLLSEMEEKKLGP--DRYTYAAIHTALVES----------GRLEEAQKFTSIMVETG  460 (539)
Q Consensus       400 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~----------g~~~~A~~~~~~~~~~~  460 (539)
                      .++..|...|++++|+..|+++++.....  ....+..++.++...          |++++|++.++++++..
T Consensus       153 ~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~  225 (261)
T 3qky_A          153 EAARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIF  225 (261)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHC
Confidence            77888999999999999999998753111  245677788888766          89999999999999987

>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=99.30  E-value=3.9e-11  Score=119.43  Aligned_cols=155  Identities=11%  Similarity=-0.035  Sum_probs=88.4

Q ss_pred             HcCCCHHHHHHHHHHHH--------HCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHh
Q 009255          301 SQSGKTEQAIDMLNELL--------QSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCR  372 (539)
Q Consensus       301 ~~~~~~~~a~~~~~~~~--------~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  372 (539)
                      ...|++++|++.++++.        +.. +.+...+..+..++...|++++|...|+++++.. +.+...+..+..+|..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDF-SESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CC-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccccc-ccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHH
Confidence            45566666666666655        221 2234455555556666666666666666666543 2245556666666666


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHH
Q 009255          373 EGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKF  452 (539)
Q Consensus       373 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  452 (539)
                      .|++++|+..|+++.+..+. +...|..++.++...|++++ +..|+++++.+ +.+...+..++.++...|++++|++.
T Consensus       480 ~g~~~~A~~~~~~al~l~P~-~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~  556 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDTFPG-ELAPKLALAATAELAGNTDE-HKFYQTVWSTN-DGVISAAFGLARARSAEGDRVGAVRT  556 (681)
T ss_dssp             HTCHHHHHHHHHHHHHHSTT-CSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCHHHHHHH
Confidence            66666666666666655322 44555666666666666666 66666665432 22345555666666666666666666


Q ss_pred             HHHHHHcC
Q 009255          453 TSIMVETG  460 (539)
Q Consensus       453 ~~~~~~~~  460 (539)
                      ++++++.+
T Consensus       557 ~~~al~l~  564 (681)
T 2pzi_A          557 LDEVPPTS  564 (681)
T ss_dssp             HHTSCTTS
T ss_pred             HHhhcccC
Confidence            66665554

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=99.29  E-value=1.1e-08  Score=97.08  Aligned_cols=125  Identities=12%  Similarity=0.024  Sum_probs=78.2

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcc-CChHHHHHHHHHHHhCCCCCCHhhHHHHHHH
Q 009255          361 VTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKE-RRLEDAFGLLSEMEEKKLGPDRYTYAAIHTA  439 (539)
Q Consensus       361 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~  439 (539)
                      .+|...+....+.++.+.|..+|+++ .. ...+...|...+...... ++.+.|..+|+.+.+.. +.+...+...+..
T Consensus       287 ~lw~~y~~~~~r~~~~~~AR~i~~~A-~~-~~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~-~~~~~~~~~yid~  363 (493)
T 2uy1_A          287 LLRINHLNYVLKKRGLELFRKLFIEL-GN-EGVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKH-PDSTLLKEEFFLF  363 (493)
T ss_dssp             HHHHHHHHHHHHHHCHHHHHHHHHHH-TT-SCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHh-hC-CCCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-CCCHHHHHHHHHH
Confidence            34555566666667788888888877 32 222333443323222222 35788888888877642 2233444455666


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHH
Q 009255          440 LVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       440 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  510 (539)
                      ....|+.+.|+.+++++.                      .....|...+..-...|+.+.+..+++++.+
T Consensus       364 e~~~~~~~~aR~l~er~~----------------------k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          364 LLRIGDEENARALFKRLE----------------------KTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHHTCHHHHHHHHHHSC----------------------CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHH----------------------HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            667788888888887751                      3345777777777777888888888877764

>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=99.28  E-value=1.1e-09  Score=91.85  Aligned_cols=176  Identities=12%  Similarity=0.043  Sum_probs=140.1

Q ss_pred             HHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcC----CHHHHHHHH
Q 009255          308 QAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREG----ILEKALKFF  383 (539)
Q Consensus       308 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g----~~~~A~~~~  383 (539)
                      +|++.|++..+.|   ++..+..+...+...+++++|..+|++..+.+   ++..+..+..+|.. +    ++++|...|
T Consensus         4 eA~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~   76 (212)
T 3rjv_A            4 EPGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLA   76 (212)
T ss_dssp             CTTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHH
T ss_pred             hHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHH
Confidence            4566777777653   66677777888888888999999998888764   66777778888877 6    899999999


Q ss_pred             HHHHHcCCCCChhhHHHHHHHHHc----cCChHHHHHHHHHHHhCCCC-CCHhhHHHHHHHHHh----cCCHHHHHHHHH
Q 009255          384 RSWILKGKAVDSVTYNTLISSLCK----ERRLEDAFGLLSEMEEKKLG-PDRYTYAAIHTALVE----SGRLEEAQKFTS  454 (539)
Q Consensus       384 ~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~~~-~~~~~~~~l~~~~~~----~g~~~~A~~~~~  454 (539)
                      ++..+.+   ++..+..|...|..    .+++++|+..|++..+.+.. .+...+..++..|..    .+++++|.++++
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            9987753   67788888888887    88999999999999876421 126778888888888    789999999999


Q ss_pred             HHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhc-C-----CHHHHHHHHHHHHHcC
Q 009255          455 IMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQ-G-----RYKDALQIFEETRQKG  512 (539)
Q Consensus       455 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g-----~~~~A~~~~~~~~~~~  512 (539)
                      ++.+.+                   .+..++..|+.+|... |     ++++|+..|+++.+.|
T Consensus       154 ~A~~~~-------------------~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g  198 (212)
T 3rjv_A          154 GSSSLS-------------------RTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEG  198 (212)
T ss_dssp             HHHHTS-------------------CTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHT
T ss_pred             HHHHcC-------------------CCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcC
Confidence            999873                   4455788888888754 3     8999999999999876

>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=99.27  E-value=1.2e-10  Score=115.87  Aligned_cols=173  Identities=11%  Similarity=-0.007  Sum_probs=112.8

Q ss_pred             HccCCHHHHHHHHHHHH--------HcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhc
Q 009255          266 FRDEKANRALKLWDEMK--------ERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCS  337 (539)
Q Consensus       266 ~~~~~~~~a~~~~~~~~--------~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  337 (539)
                      ...|++++|++.+++..        ...+ .+...+..+...+...|++++|+..++++.+..+. +...+..+..++..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~p-~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDFS-ESVELPLMEVRALLDLGDVAKATRKLDDLAERVGW-RWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CCT-TCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccccc-cchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcc-hHHHHHHHHHHHHH
Confidence            56677777777777776        3322 24566666777777777777777777777765332 55666667777777


Q ss_pred             CCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHH
Q 009255          338 EGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGL  417 (539)
Q Consensus       338 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~  417 (539)
                      .|++++|...|+++++.. +.+...+..+..+|.+.|++++ +..|+++.+.++. +...|..++.++...|++++|+..
T Consensus       480 ~g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~  556 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQTVWSTNDG-VISAAFGLARARSAEGDRVGAVRT  556 (681)
T ss_dssp             HTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCc-hHHHHHHHHHHHHHcCCHHHHHHH
Confidence            777777777777777654 2356666777777777777777 7777777765332 556677777777777777777777


Q ss_pred             HHHHHhCCCCCC-HhhHHHHHHHHHhcCC
Q 009255          418 LSEMEEKKLGPD-RYTYAAIHTALVESGR  445 (539)
Q Consensus       418 ~~~~~~~~~~~~-~~~~~~l~~~~~~~g~  445 (539)
                      |+++.+.  .|+ ...+..++.++...++
T Consensus       557 ~~~al~l--~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          557 LDEVPPT--SRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHTSCTT--STTHHHHHHHHHHHTC----
T ss_pred             HHhhccc--CcccHHHHHHHHHHHHccCC
Confidence            7777643  444 3455566666655555

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.27  E-value=5.3e-10  Score=99.07  Aligned_cols=194  Identities=12%  Similarity=-0.039  Sum_probs=118.3

Q ss_pred             HHhccCCHHHHHHHHHHHhhc----CCcc-CHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCC-CC----HhhHHHHHH
Q 009255          229 TLCCEKKLDEAYMLLNSASKR----GYYL-DEVSYGTLITGYFRDEKANRALKLWDEMKERQIM-PS----TFTYNAMIW  298 (539)
Q Consensus       229 ~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~  298 (539)
                      .|...|++++|...+.++...    +.++ ...++..+...|...|++++|+..+++....... .+    ..++..+..
T Consensus        46 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~  125 (292)
T 1qqe_A           46 IYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGE  125 (292)
T ss_dssp             HHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            344556666666655554432    1111 1345666677777777777777777666543110 01    346677777


Q ss_pred             HHHcC-CCHHHHHHHHHHHHHCCCCC-C----HHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCH------HhHHHH
Q 009255          299 GLSQS-GKTEQAIDMLNELLQSGMIP-D----ETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDI------VTCNIL  366 (539)
Q Consensus       299 ~~~~~-~~~~~a~~~~~~~~~~~~~~-~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~l  366 (539)
                      +|... |++++|+..+++..+..... +    ..++..+...+...|++++|...|+++.+.......      ..+..+
T Consensus       126 ~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~l  205 (292)
T 1qqe_A          126 ILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKK  205 (292)
T ss_dssp             HHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHH
T ss_pred             HHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHH
Confidence            78875 88888888888876532111 1    345677788888888888888888888875432221      145667


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCC-Ch---hhHHHHHHHHH--ccCChHHHHHHHHHHH
Q 009255          367 LSGLCREGILEKALKFFRSWILKGKAV-DS---VTYNTLISSLC--KERRLEDAFGLLSEME  422 (539)
Q Consensus       367 ~~~~~~~g~~~~A~~~~~~~~~~~~~~-~~---~~~~~l~~~~~--~~~~~~~A~~~~~~~~  422 (539)
                      ..++...|++++|...|++.....+.. +.   ..+..++.++.  ..+++++|+..|+++.
T Consensus       206 g~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~  267 (292)
T 1qqe_A          206 GLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFM  267 (292)
T ss_dssp             HHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSS
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCC
Confidence            777888888888888888877642210 11   12344555554  4566888888877665

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.26  E-value=1.2e-10  Score=88.13  Aligned_cols=112  Identities=10%  Similarity=0.062  Sum_probs=93.6

Q ss_pred             hhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCC
Q 009255          396 VTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTP  475 (539)
Q Consensus       396 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~  475 (539)
                      ..+...+..|.+.|++++|+..|+++++.. +.+..++..++.++...|++++|++.++++++.+               
T Consensus        14 ~~~~~~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~---------------   77 (126)
T 4gco_A           14 QEEKNKGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLD---------------   77 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---------------
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh---------------
Confidence            457778888999999999999999988753 4467788889999999999999999999999987               


Q ss_pred             CCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 009255          476 EEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGLI  528 (539)
Q Consensus       476 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~  528 (539)
                         +.+..+|..++.+|...|++++|++.|+++++  +.|+.......++.|+
T Consensus        78 ---p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~--l~P~~~~a~~~l~~~l  125 (126)
T 4gco_A           78 ---SKFIKGYIRKAACLVAMREWSKAQRAYEDALQ--VDPSNEEAREGVRNCL  125 (126)
T ss_dssp             ---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHC
T ss_pred             ---hhhhHHHHHHHHHHHHCCCHHHHHHHHHHHHH--HCcCCHHHHHHHHHhc
Confidence               34455899999999999999999999999997  5788887777666654

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=99.25  E-value=3e-08  Score=94.09  Aligned_cols=378  Identities=9%  Similarity=-0.052  Sum_probs=195.9

Q ss_pred             cC-ChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCC-hHHHH
Q 009255           23 KG-KLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGM-LEEAF  100 (539)
Q Consensus        23 ~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-~~~a~  100 (539)
                      .| +++.|+.+|+.+...-  |.              |+++.+..+|++....  .|+...|...+....+.++ .+...
T Consensus         7 ~~~~i~~aR~vyer~l~~~--P~--------------~~~e~~~~iferal~~--~ps~~LW~~Y~~f~~~~~~~~~~i~   68 (493)
T 2uy1_A            7 MGVELSSPSAIMEHARRLY--MS--------------KDYRSLESLFGRCLKK--SYNLDLWMLYIEYVRKVSQKKFKLY   68 (493)
T ss_dssp             -----CCHHHHHHHHHHHH--HT--------------TCHHHHHHHHHHHSTT--CCCHHHHHHHHHHHHHHC----CTH
T ss_pred             cCcchHHHHHHHHHHHHHC--CC--------------CCHHHHHHHHHHHhcc--CCCHHHHHHHHHHHHHhCchHHHHH
Confidence            44 3666666666666541  22              6677777777777764  3567777777666655553 34455


Q ss_pred             HHHHHHHhC-CC-CCChhhHHHHHHHHhc----cCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHHHHHH
Q 009255          101 RLRKEMESL-KL-LPDVVTYNTLINRFFE----SGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVR  174 (539)
Q Consensus       101 ~~~~~~~~~-~~-~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  174 (539)
                      .+|+..... |. +.+...|...+..+..    +++.+.+.++|++.+......-...|......- +......+..++.
T Consensus        69 ~~fe~al~~vg~d~~s~~iW~~Yi~f~~~~~~~~~~~~~vR~iy~rAL~~P~~~~~~lw~~Y~~fE-~~~~~~~~~~~~~  147 (493)
T 2uy1_A           69 EVYEFTLGQFENYWDSYGLYKEYIEEEGKIEDEQTRIEKIRNGYMRALQTPMGSLSELWKDFENFE-LELNKITGKKIVG  147 (493)
T ss_dssp             HHHHHHHHHSTTCTTCHHHHHHHHHHTSSCSSHHHHHHHHHHHHHHHHTSCCTTHHHHHHHHHHHH-HHHCHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCcccHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHHhChhhhHHHHHHHHHHHH-HHhccccHHHHHH
Confidence            566655432 32 2345566666654432    345666777777776631110111222111111 1111112222221


Q ss_pred             HHHHcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhcc--C-----CHHHHHHHHHHHh
Q 009255          175 NMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCE--K-----KLDEAYMLLNSAS  247 (539)
Q Consensus       175 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--~-----~~~~a~~~~~~~~  247 (539)
                      +..                     +.+..|..+++.+...-...+...|...+..-...  +     ..+.+..+|+++.
T Consensus       148 ~~~---------------------~~y~~ar~~y~~~~~~~~~~s~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al  206 (493)
T 2uy1_A          148 DTL---------------------PIFQSSFQRYQQIQPLIRGWSVKNAARLIDLEMENGMKLGGRPHESRMHFIHNYIL  206 (493)
T ss_dssp             HHH---------------------HHHHHHHHHHHHHHHHHHTCSHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHH
T ss_pred             HHh---------------------HHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhcCCccCcchhhHHHHHHHHHHHH
Confidence            111                     11222222222221100001222333333222111  0     0233455666666


Q ss_pred             hcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCC-------
Q 009255          248 KRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSG-------  320 (539)
Q Consensus       248 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-------  320 (539)
                      ... +..+..|...+..+.+.|+.+.|..++++.... + .+...|...... .+.+   +.   ++.+...-       
T Consensus       207 ~~~-p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~-P-~~~~l~~~y~~~-~e~~---~~---~~~l~~~~~~~~~~~  276 (493)
T 2uy1_A          207 DSF-YYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM-S-DGMFLSLYYGLV-MDEE---AV---YGDLKRKYSMGEAES  276 (493)
T ss_dssp             HHT-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-C-CSSHHHHHHHHH-TTCT---HH---HHHHHHHTC------
T ss_pred             HcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC-C-CcHHHHHHHHhh-cchh---HH---HHHHHHHHHhhccch
Confidence            542 334566666666666777777777777777666 2 233222221111 1111   11   12211110       


Q ss_pred             --C---CCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcC-CHHHHHHHHHHHHHcCCCCC
Q 009255          321 --M---IPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREG-ILEKALKFFRSWILKGKAVD  394 (539)
Q Consensus       321 --~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~~~~~~  394 (539)
                        .   ......|...+....+.++.+.|..+|+++ +.. ..+..+|...+..-...+ +.+.|..+|+...+.. +-+
T Consensus       277 ~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~~-~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~-~~~  353 (493)
T 2uy1_A          277 AEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GNE-GVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKH-PDS  353 (493)
T ss_dssp             ----CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TTS-CCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHC-TTC
T ss_pred             hhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hCC-CCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-CCC
Confidence              0   011234555666666778899999999999 432 234555554333333333 6999999999998863 224


Q ss_pred             hhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 009255          395 SVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVE  458 (539)
Q Consensus       395 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  458 (539)
                      +..|...+......|+.+.|..+|+++.     .....+...+..-...|+.+.+.+++++..+
T Consensus       354 ~~~~~~yid~e~~~~~~~~aR~l~er~~-----k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          354 TLLKEEFFLFLLRIGDEENARALFKRLE-----KTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHSC-----CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHH-----HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            5566777887788999999999999973     2456677777666778999999999998875

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.25  E-value=2.7e-10  Score=95.19  Aligned_cols=127  Identities=9%  Similarity=0.027  Sum_probs=96.5

Q ss_pred             HHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccC
Q 009255          330 TIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKER  409 (539)
Q Consensus       330 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  409 (539)
                      .+..++...|++++|...|++.++.. +.+...+..+..++...|++++|...|+++++..+. ++..|..++.+|...|
T Consensus        59 ~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~~  136 (208)
T 3urz_A           59 ELALAYKKNRNYDKAYLFYKELLQKA-PNNVDCLEACAEMQVCRGQEKDALRMYEKILQLEAD-NLAANIFLGNYYYLTA  136 (208)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHh
Confidence            37788889999999999999998875 347888889999999999999999999999887433 6778888888876655


Q ss_pred             C--hHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          410 R--LEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       410 ~--~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      +  ...+...++...  ...|....+...+.++...|++++|+..++++++..
T Consensus       137 ~~~~~~~~~~~~~~~--~~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~  187 (208)
T 3urz_A          137 EQEKKKLETDYKKLS--SPTKMQYARYRDGLSKLFTTRYEKARNSLQKVILRF  187 (208)
T ss_dssp             HHHHHHHHHHHC-----CCCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTTS
T ss_pred             HHHHHHHHHHHHHHh--CCCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            3  344556666554  223333445556777778899999999999999886

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.25  E-value=3e-09  Score=92.01  Aligned_cols=244  Identities=9%  Similarity=0.001  Sum_probs=143.7

Q ss_pred             HHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChH
Q 009255           18 DALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLE   97 (539)
Q Consensus        18 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~   97 (539)
                      +-..-.|++..++.-...+   ...........+.++|...|++...         ....|....+..+...+ . ++  
T Consensus        21 kn~fy~G~yq~~i~e~~~~---~~~~~~~~~~~~~Rs~iAlg~~~~~---------~~~~~~~~a~~~la~~~-~-~~--   84 (310)
T 3mv2_B           21 KQNYYTGNFVQCLQEIEKF---SKVTDNTLLFYKAKTLLALGQYQSQ---------DPTSKLGKVLDLYVQFL-D-TK--   84 (310)
T ss_dssp             HHHHTTTCHHHHTHHHHTS---SCCCCHHHHHHHHHHHHHTTCCCCC---------CSSSTTHHHHHHHHHHH-T-TT--
T ss_pred             HHHHHhhHHHHHHHHHHhc---CccchHHHHHHHHHHHHHcCCCccC---------CCCCHHHHHHHHHHHHh-c-cc--
Confidence            4455678888877733322   2122223334455777777777642         11223333444333333 2 22  


Q ss_pred             HHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCC-CCCHHHHHHHHHHHHhcCCHhHHHHHHHHH
Q 009255           98 EAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGI-KPNAVTHNIMIKWYCKEGKIDKACKIVRNM  176 (539)
Q Consensus        98 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  176 (539)
                       ++..|++....+ +++..++..+..++...|++++|++++.+....+. .-+...+..++..+.+.|+.+.|.+.++.|
T Consensus        85 -a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~  162 (310)
T 3mv2_B           85 -NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNY  162 (310)
T ss_dssp             -CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             -HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence             667777766554 45555666777778888888888888888766543 235667777778888888888888888888


Q ss_pred             HHcCCCC-----ChhhHHHHHHH--HHhcC--CHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHh
Q 009255          177 EENGFSP-----DCVTYNTLIDA--NCKAG--NMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSAS  247 (539)
Q Consensus       177 ~~~~~~~-----~~~~~~~l~~~--~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  247 (539)
                      .+.  .|     +..+...++.+  ....|  ++.+|..+|+++...  .|+..+...++.++.+.|++++|...++.+.
T Consensus       163 ~~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~  238 (310)
T 3mv2_B          163 TNA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELLL  238 (310)
T ss_dssp             HHH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             Hhc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            765  45     24444555544  23333  778888888887654  3342233333346777777887777777655


Q ss_pred             hcC---------CccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcC
Q 009255          248 KRG---------YYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQ  285 (539)
Q Consensus       248 ~~~---------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  285 (539)
                      +..         -+.++.+...++......|+  +|.+++.++....
T Consensus       239 ~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~  283 (310)
T 3mv2_B          239 SDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLD  283 (310)
T ss_dssp             SHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTT
T ss_pred             HhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhC
Confidence            431         02244555445444444555  6666777766653

>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=99.25  E-value=4e-11  Score=94.19  Aligned_cols=146  Identities=12%  Similarity=0.012  Sum_probs=112.2

Q ss_pred             HHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCC
Q 009255          331 IIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERR  410 (539)
Q Consensus       331 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  410 (539)
                      |...+...|++++|+..++...... +.+...+..+..+|.+.|++++|++.|+++++..+. ++.+|..++.+|...|+
T Consensus         3 LG~~~~~~~~~e~ai~~~~~a~~~~-p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~~~   80 (150)
T 4ga2_A            3 LGSMRRSKADVERYIASVQGSTPSP-RQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQER-DPKAHRFLGLLYELEEN   80 (150)
T ss_dssp             ----CCCHHHHHHHHHHHHHHSCSH-HHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTC
T ss_pred             hHHHHHHcChHHHHHHHHHHhcccC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCc
Confidence            3445566788899998888887652 224556677888999999999999999999887433 77889999999999999


Q ss_pred             hHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHH-HHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHH
Q 009255          411 LEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKF-TSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKI  489 (539)
Q Consensus       411 ~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~  489 (539)
                      +++|+..|+++++.+ +-+..++..++.++.+.|++++|.+. ++++++.+                  |.++.+|....
T Consensus        81 ~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~------------------P~~~~~~~l~~  141 (150)
T 4ga2_A           81 TDKAVECYRRSVELN-PTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLF------------------PGSPAVYKLKE  141 (150)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHS------------------TTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhC------------------cCCHHHHHHHH
Confidence            999999999998753 33577888899999999998776654 68899887                  33444788778


Q ss_pred             HHHhhcCC
Q 009255          490 NEHCSQGR  497 (539)
Q Consensus       490 ~~~~~~g~  497 (539)
                      ..+...|+
T Consensus       142 ~ll~~~G~  149 (150)
T 4ga2_A          142 QLLDCEGE  149 (150)
T ss_dssp             HHHHTCCC
T ss_pred             HHHHHhCc
Confidence            77777775

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.24  E-value=2.8e-10  Score=100.42  Aligned_cols=165  Identities=13%  Similarity=-0.001  Sum_probs=135.7

Q ss_pred             CCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhH-HHH
Q 009255          323 PDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTY-NTL  401 (539)
Q Consensus       323 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~-~~l  401 (539)
                      .+...+..+...+...|++++|...|+++++.. +.+...+..+..++...|++++|...++++...  .|+.... ...
T Consensus       115 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~~~  191 (287)
T 3qou_A          115 REEELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ--DQDTRYQGLVA  191 (287)
T ss_dssp             CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG--GCSHHHHHHHH
T ss_pred             CchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh--hcchHHHHHHH
Confidence            345566777888889999999999999998874 347788889999999999999999999988776  3444332 333


Q ss_pred             HHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCC
Q 009255          402 ISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPS  481 (539)
Q Consensus       402 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  481 (539)
                      ...+...++.++|+..++++.... +.+...+..++.++...|++++|.+.++++++.+                   |+
T Consensus       192 ~~~l~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~-------------------p~  251 (287)
T 3qou_A          192 QIELLXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXD-------------------LT  251 (287)
T ss_dssp             HHHHHHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------------------TT
T ss_pred             HHHHHhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcc-------------------cc
Confidence            344667788889999999998764 4567888899999999999999999999999987                   54


Q ss_pred             ---hhhHHHHHHHHhhcCCHHHHHHHHHHHHH
Q 009255          482 ---SISYSEKINEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       482 ---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  510 (539)
                         ...+..++.+|...|+.++|...|++.+.
T Consensus       252 ~~~~~a~~~l~~~~~~~g~~~~a~~~~r~al~  283 (287)
T 3qou_A          252 AADGQTRXTFQEILAALGTGDALASXYRRQLY  283 (287)
T ss_dssp             GGGGHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             cccchHHHHHHHHHHHcCCCCcHHHHHHHHHH
Confidence               44899999999999999999999998875

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.24  E-value=5.2e-09  Score=91.64  Aligned_cols=235  Identities=11%  Similarity=0.047  Sum_probs=176.4

Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCC--CHHHHHHHHHHHHHCCCCCCHHhHHHHHHHH----hcC---
Q 009255          268 DEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSG--KTEQAIDMLNELLQSGMIPDETTFNTIIHGF----CSE---  338 (539)
Q Consensus       268 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~---  338 (539)
                      ....++|+.++..++..++. +..+|+.-...+...|  ++++++..++.+....+. +..+++.-...+    ...   
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            34446888999888887654 6677777777777788  899999999998886544 444444433333    344   


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHH--HHHHHHHHHHHcCCCCChhhHHHHHHHHHccCC------
Q 009255          339 GQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILE--KALKFFRSWILKGKAVDSVTYNTLISSLCKERR------  410 (539)
Q Consensus       339 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~--~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~------  410 (539)
                      +++++++.+++.+++... -+..+|..-..++.+.|.++  ++..+++++++.++. |...|+.-.......++      
T Consensus       124 ~~~~~EL~~~~~~l~~~p-kny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~-N~sAW~~R~~ll~~l~~~~~~~~  201 (306)
T 3dra_A          124 FDPYREFDILEAMLSSDP-KNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLK-NNSAWSHRFFLLFSKKHLATDNT  201 (306)
T ss_dssp             CCTHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHSSGGGCCHHH
T ss_pred             CCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccccchhhh
Confidence            788999999999998753 48888888888888888888  999999999988655 78888888888777776      


Q ss_pred             hHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHH-HHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHH
Q 009255          411 LEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEE-AQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKI  489 (539)
Q Consensus       411 ~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~-A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~  489 (539)
                      ++++++.+++++... +-|...+..+...+.+.|+..+ ...+.+++.+.+..               .+.+..++..++
T Consensus       202 ~~eEl~~~~~aI~~~-p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~---------------~~~s~~al~~la  265 (306)
T 3dra_A          202 IDEELNYVKDKIVKC-PQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKD---------------QVTSSFALETLA  265 (306)
T ss_dssp             HHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGT---------------EESCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCC---------------CCCCHHHHHHHH
Confidence            899999999998764 5567888888888888887444 55666666554300               024555899999


Q ss_pred             HHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 009255          490 NEHCSQGRYKDALQIFEETRQKGIAINKSTYMNL  523 (539)
Q Consensus       490 ~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~  523 (539)
                      ++|.+.|+.++|+++++++.+. +.|...-+-..
T Consensus       266 ~~~~~~~~~~~A~~~~~~l~~~-~Dpir~~yW~~  298 (306)
T 3dra_A          266 KIYTQQKKYNESRTVYDLLKSK-YNPIRSNFWDY  298 (306)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHT-TCGGGHHHHHH
T ss_pred             HHHHccCCHHHHHHHHHHHHhc-cChHHHHHHHH
Confidence            9999999999999999999863 56766544433

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.23  E-value=1.3e-09  Score=92.35  Aligned_cols=189  Identities=12%  Similarity=-0.021  Sum_probs=116.5

Q ss_pred             CHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCC--HHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCC-C-HHhHH
Q 009255          289 STFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPD--ETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKP-D-IVTCN  364 (539)
Q Consensus       289 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~-~~~~~  364 (539)
                      +...+..+...+...|++++|+..|+++....+...  ...+..+..++...|++++|...|+++++..+.. . ...+.
T Consensus         3 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~   82 (225)
T 2yhc_A            3 PPNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMY   82 (225)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHH
Confidence            344556666777788888888888888876533211  3456667778888888888888888887653221 1 12344


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHh-------------
Q 009255          365 ILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRY-------------  431 (539)
Q Consensus       365 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~-------------  431 (539)
                      .+..++...|..     .+            ..|..+...+...|++++|+..|+++++.  .|+..             
T Consensus        83 ~~g~~~~~~~~~-----~~------------~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~P~~~~a~~a~~~l~~~~  143 (225)
T 2yhc_A           83 MRGLTNMALDDS-----AL------------QGFFGVDRSDRDPQQARAAFSDFSKLVRG--YPNSQYTTDATKRLVFLK  143 (225)
T ss_dssp             HHHHHHHHHHC-------------------------------CCHHHHHHHHHHHHHHTT--CTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhhh-----hh------------hhhhccchhhcCcHHHHHHHHHHHHHHHH--CcCChhHHHHHHHHHHHH
Confidence            445554432100     00            00111111222234444444444444432  12211             


Q ss_pred             -----hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCCh----hhHHHHHHHHhhcCCHHHHH
Q 009255          432 -----TYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSS----ISYSEKINEHCSQGRYKDAL  502 (539)
Q Consensus       432 -----~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~g~~~~A~  502 (539)
                           ....++..+...|++++|+..++++++..                   |+.    .++..++.+|.+.|++++|+
T Consensus       144 ~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-------------------p~~~~~~~a~~~l~~~~~~~g~~~~A~  204 (225)
T 2yhc_A          144 DRLAKYEYSVAEYYTERGAWVAVVNRVEGMLRDY-------------------PDTQATRDALPLMENAYRQMQMNAQAE  204 (225)
T ss_dssp             HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-------------------TTSHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHC-------------------cCCCccHHHHHHHHHHHHHcCCcHHHH
Confidence                 11356778889999999999999999987                   443    37899999999999999999


Q ss_pred             HHHHHHHHcCCCCCH
Q 009255          503 QIFEETRQKGIAINK  517 (539)
Q Consensus       503 ~~~~~~~~~~~~p~~  517 (539)
                      +.++++...  .|+.
T Consensus       205 ~~~~~l~~~--~~~~  217 (225)
T 2yhc_A          205 KVAKIIAAN--SSNT  217 (225)
T ss_dssp             HHHHHHHHC--CSCC
T ss_pred             HHHHHHHhh--CCCc
Confidence            999999874  4543

>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=99.23  E-value=1.5e-10  Score=94.03  Aligned_cols=164  Identities=10%  Similarity=0.011  Sum_probs=122.9

Q ss_pred             hHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHH-H
Q 009255          327 TFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISS-L  405 (539)
Q Consensus       327 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~-~  405 (539)
                      .+......+...|++++|...++++++.. +.+...+..+..++...|++++|...++++....  |++..+..+... +
T Consensus         8 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~   84 (176)
T 2r5s_A            8 QLLKQVSELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLEY--QDNSYKSLIAKLEL   84 (176)
T ss_dssp             THHHHHHHHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChHHHHHHHHHHH
Confidence            34556667788899999999998887753 3367788888888999999999999998887653  344433332222 1


Q ss_pred             HccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhH
Q 009255          406 CKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISY  485 (539)
Q Consensus       406 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  485 (539)
                      ...++..+|+..++++.+.. +.+...+..++.++...|++++|++.++++++..+.                ..+...+
T Consensus        85 ~~~~~~~~a~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~----------------~~~~~a~  147 (176)
T 2r5s_A           85 HQQAAESPELKRLEQELAAN-PDNFELACELAVQYNQVGRDEEALELLWNILKVNLG----------------AQDGEVK  147 (176)
T ss_dssp             HHHHTSCHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTT----------------TTTTHHH
T ss_pred             HhhcccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcc----------------cChHHHH
Confidence            22233455788899888653 335788888999999999999999999999988722                1124488


Q ss_pred             HHHHHHHhhcCCHHHHHHHHHHHHH
Q 009255          486 SEKINEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       486 ~~l~~~~~~~g~~~~A~~~~~~~~~  510 (539)
                      ..++.++...|+.++|...|++.+.
T Consensus       148 ~~l~~~~~~~g~~~~A~~~y~~al~  172 (176)
T 2r5s_A          148 KTFMDILSALGQGNAIASKYRRQLY  172 (176)
T ss_dssp             HHHHHHHHHHCSSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCCcHHHHHHHHHH
Confidence            9999999999999999999998874

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.19  E-value=2.5e-10  Score=100.71  Aligned_cols=159  Identities=11%  Similarity=0.032  Sum_probs=129.0

Q ss_pred             CCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHH-H
Q 009255          357 KPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYA-A  435 (539)
Q Consensus       357 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~-~  435 (539)
                      +.+...+..+...+...|++++|...++++....+. +...+..++.++...|++++|...++++...  .|+..... .
T Consensus       114 p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~~  190 (287)
T 3qou_A          114 PREEELXAQQAMQLMQESNYTDALPLLXDAWQLSNQ-NGEIGLLLAETLIALNRSEDAEAVLXTIPLQ--DQDTRYQGLV  190 (287)
T ss_dssp             CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTS-CHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG--GCSHHHHHHH
T ss_pred             CCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhCCc-chhHHHHHHHHHHHCCCHHHHHHHHHhCchh--hcchHHHHHH
Confidence            445677788888999999999999999999987443 7778999999999999999999999998764  45654333 3


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCC
Q 009255          436 IHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAI  515 (539)
Q Consensus       436 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p  515 (539)
                      ....+...++.++|++.++++++..                  |.+...+..++.+|...|++++|++.|+++++.  .|
T Consensus       191 ~~~~l~~~~~~~~a~~~l~~al~~~------------------P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~--~p  250 (287)
T 3qou_A          191 AQIELLXQAADTPEIQQLQQQVAEN------------------PEDAALATQLALQLHQVGRNEEALELLFGHLRX--DL  250 (287)
T ss_dssp             HHHHHHHHHTSCHHHHHHHHHHHHC------------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CT
T ss_pred             HHHHHHhhcccCccHHHHHHHHhcC------------------CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhc--cc
Confidence            3345677888999999999999997                  344559999999999999999999999999984  57


Q ss_pred             CH--HHHHHHHHHHHhcCCchhhcc
Q 009255          516 NK--STYMNLMNGLIKRRKSISKAV  538 (539)
Q Consensus       516 ~~--~~~~~~l~~~~~~~~~~~~A~  538 (539)
                      +.  ......+..++...|+.++|+
T Consensus       251 ~~~~~~a~~~l~~~~~~~g~~~~a~  275 (287)
T 3qou_A          251 TAADGQTRXTFQEILAALGTGDALA  275 (287)
T ss_dssp             TGGGGHHHHHHHHHHHHHCTTCHHH
T ss_pred             ccccchHHHHHHHHHHHcCCCCcHH
Confidence            66  666666666777666677764

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=99.18  E-value=4.4e-10  Score=87.63  Aligned_cols=104  Identities=9%  Similarity=-0.041  Sum_probs=88.9

Q ss_pred             ChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCC
Q 009255          394 DSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSK  473 (539)
Q Consensus       394 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~  473 (539)
                      +...+..++..+...|++++|+..|++++... +.+...+..++.++...|++++|++.|+++++.+             
T Consensus        35 ~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-------------  100 (151)
T 3gyz_A           35 MMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-------------  100 (151)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-------------
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-------------
Confidence            44577888889999999999999999999763 4457788889999999999999999999999987             


Q ss_pred             CCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHH
Q 009255          474 TPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKS  518 (539)
Q Consensus       474 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~  518 (539)
                           |.+...|..++.+|...|++++|+..|+++++  +.|+..
T Consensus       101 -----P~~~~~~~~lg~~~~~lg~~~eA~~~~~~al~--l~~~~~  138 (151)
T 3gyz_A          101 -----KNDYTPVFHTGQCQLRLKAPLKAKECFELVIQ--HSNDEK  138 (151)
T ss_dssp             -----SSCCHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCCCHH
T ss_pred             -----CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCHH
Confidence                 33445999999999999999999999999998  467765

>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=99.17  E-value=4.6e-10  Score=109.90  Aligned_cols=153  Identities=9%  Similarity=-0.065  Sum_probs=84.7

Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHH
Q 009255          304 GKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFF  383 (539)
Q Consensus       304 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  383 (539)
                      |++++|...++++.+..+. +...+..+...+...|++++|...+++..+.. +.+...+..+..+|...|++++|.+.+
T Consensus         3 g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~   80 (568)
T 2vsy_A            3 ADGPRELLQLRAAVRHRPQ-DFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVLL   80 (568)
T ss_dssp             ------------------C-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            5666666666666554322 45566666666666677777777776666653 234566666666666667777777666


Q ss_pred             HHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhc---CCHHHHHHHHHHHHHcC
Q 009255          384 RSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVES---GRLEEAQKFTSIMVETG  460 (539)
Q Consensus       384 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---g~~~~A~~~~~~~~~~~  460 (539)
                      ++..+... .+...+..++.++...|++++|...++++.+.. +.+...+..++.++...   |++++|.+.++++++.+
T Consensus        81 ~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~~  158 (568)
T 2vsy_A           81 QQASDAAP-EHPGIALWLGHALEDAGQAEAAAAAYTRAHQLL-PEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQG  158 (568)
T ss_dssp             HHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHT
T ss_pred             HHHHhcCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhcC
Confidence            66666532 245566666666666666666666666666542 23345566666666666   66666666666666665

>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=99.16  E-value=1.5e-09  Score=83.58  Aligned_cols=129  Identities=17%  Similarity=0.218  Sum_probs=72.2

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHH
Q 009255           12 TYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWC   91 (539)
Q Consensus        12 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   91 (539)
                      .|..+...+...|++++|..+++++.+.+ +.+...+..++..+...|++++|..+++++...++. +...+..+...+.
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~   80 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPR-SAEAWYNLGNAYY   80 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCCC-chHHHHHHHHHHH
Confidence            35555666666666666666666666553 334555566666666666666666666666554322 3445555555555


Q ss_pred             hcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHh
Q 009255           92 NAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDE  143 (539)
Q Consensus        92 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  143 (539)
                      ..|++++|...++++.+.. +.+...+..+...+...|++++|.+.++++..
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            6666666666666555432 22344455555555555555555555555443

>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=99.14  E-value=6.9e-10  Score=90.00  Aligned_cols=164  Identities=7%  Similarity=0.038  Sum_probs=113.9

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHH-
Q 009255           11 VTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLING-   89 (539)
Q Consensus        11 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-   89 (539)
                      ..+......+.+.|++++|+..|++..+.. |.+...+..+..++...|++++|...|+.+....+  +...+..+... 
T Consensus         7 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~p--~~~~~~~~~~~~   83 (176)
T 2r5s_A            7 EQLLKQVSELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLEYQ--DNSYKSLIAKLE   83 (176)
T ss_dssp             TTHHHHHHHHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGGC--CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhccC--ChHHHHHHHHHH
Confidence            345667778888889999998888887764 55777888888888888999999888888776533  44333322212 


Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCHhH
Q 009255           90 WCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKP-NAVTHNIMIKWYCKEGKIDK  168 (539)
Q Consensus        90 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~  168 (539)
                      +...+....|+..+++..+.. +.+...+..+...+...|++++|...|+++.+....+ +...+..+..++...|+.++
T Consensus        84 ~~~~~~~~~a~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~  162 (176)
T 2r5s_A           84 LHQQAAESPELKRLEQELAAN-PDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNA  162 (176)
T ss_dssp             HHHHHTSCHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCH
T ss_pred             HHhhcccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCc
Confidence            122233345677777776653 3356777777788888888888888888877764432 34567777777888888888


Q ss_pred             HHHHHHHHHH
Q 009255          169 ACKIVRNMEE  178 (539)
Q Consensus       169 a~~~~~~~~~  178 (539)
                      |...|++...
T Consensus       163 A~~~y~~al~  172 (176)
T 2r5s_A          163 IASKYRRQLY  172 (176)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            8877776543

>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=99.13  E-value=7.5e-09  Score=86.63  Aligned_cols=177  Identities=12%  Similarity=0.029  Sum_probs=126.8

Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcC----ChHHHHHHH
Q 009255           28 EVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAG----MLEEAFRLR  103 (539)
Q Consensus        28 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g----~~~~a~~~~  103 (539)
                      +|+..|++..+.|   ++.++..+...|...+++++|..+|++..+.+   ++..+..+...|.. +    ++++|+..|
T Consensus         4 eA~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~   76 (212)
T 3rjv_A            4 EPGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLA   76 (212)
T ss_dssp             CTTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHH
T ss_pred             hHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHH
Confidence            4667777777764   67778888888888888888888888887754   55667777777766 6    788888888


Q ss_pred             HHHHhCCCCCChhhHHHHHHHHhc----cCCHhHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHh----cCCHhHHHHHHH
Q 009255          104 KEMESLKLLPDVVTYNTLINRFFE----SGRSMEAFKLIDELDEHGIK-PNAVTHNIMIKWYCK----EGKIDKACKIVR  174 (539)
Q Consensus       104 ~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~----~g~~~~a~~~~~  174 (539)
                      ++..+.+   +...+..|...|..    .+++++|+++|++..+.|.. .++..+..|..+|..    .+++++|...|+
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            8887643   56677777777776    77888888888887776432 125677777777777    677888888888


Q ss_pred             HHHHcCCCCChhhHHHHHHHHHhc-C-----CHHHHHHHHHHHhhCCC
Q 009255          175 NMEENGFSPDCVTYNTLIDANCKA-G-----NMEEAFRMMDVMGRKGL  216 (539)
Q Consensus       175 ~~~~~~~~~~~~~~~~l~~~~~~~-~-----~~~~a~~~~~~~~~~~~  216 (539)
                      +..+.  +.+...+..|...|... |     ++++|...|++..+.|.
T Consensus       154 ~A~~~--~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          154 GSSSL--SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             HHHHT--SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             HHHHc--CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            87765  23444566666666543 2     77788887777766653

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.12  E-value=6.5e-08  Score=84.67  Aligned_cols=218  Identities=10%  Similarity=0.061  Sum_probs=150.1

Q ss_pred             HHHHHHHHHHhhcCCccCHhhHHHHHHHHHccC--CHHHHHHHHHHHHHcCCCCCHhhHHHHHHHH----HcC---CCHH
Q 009255          237 DEAYMLLNSASKRGYYLDEVSYGTLITGYFRDE--KANRALKLWDEMKERQIMPSTFTYNAMIWGL----SQS---GKTE  307 (539)
Q Consensus       237 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~---~~~~  307 (539)
                      ++|+.+.+.++..+.. +..+|+.-...+...+  +++++++.++.++..++. +..+|+.-...+    ...   ++++
T Consensus        50 ~~aL~~t~~~L~~nP~-~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk-~y~aW~~R~~iL~~~~~~l~~~~~~~  127 (306)
T 3dra_A           50 ERALHITELGINELAS-HYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEK-NYQIWNYRQLIIGQIMELNNNDFDPY  127 (306)
T ss_dssp             HHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTT-CCHHHHHHHHHHHHHHHHTTTCCCTH
T ss_pred             HHHHHHHHHHHHHCcH-HHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcc-cHHHHHHHHHHHHHHHHhccccCCHH
Confidence            4566666666655322 3444555555555555  777777777777776554 445554433333    334   6778


Q ss_pred             HHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHH--HHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCC------HHHH
Q 009255          308 QAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVE--KALQFHNKMVEKSFKPDIVTCNILLSGLCREGI------LEKA  379 (539)
Q Consensus       308 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~------~~~A  379 (539)
                      +++.+++++.+..+. +..++..-..++...|.++  ++++.++++++..+. |...|+.-..++...+.      ++++
T Consensus       128 ~EL~~~~~~l~~~pk-ny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~-N~sAW~~R~~ll~~l~~~~~~~~~~eE  205 (306)
T 3dra_A          128 REFDILEAMLSSDPK-NHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLK-NNSAWSHRFFLLFSKKHLATDNTIDEE  205 (306)
T ss_dssp             HHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHSSGGGCCHHHHHHH
T ss_pred             HHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccccchhhhHHHH
Confidence            888888888876544 6666666666666777777  888888888876543 77777776666666666      8889


Q ss_pred             HHHHHHHHHcCCCCChhhHHHHHHHHHccCChHH-HHHHHHHHHhCC--CCCCHhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 009255          380 LKFFRSWILKGKAVDSVTYNTLISSLCKERRLED-AFGLLSEMEEKK--LGPDRYTYAAIHTALVESGRLEEAQKFTSIM  456 (539)
Q Consensus       380 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-A~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  456 (539)
                      ++.+++++...+. |...|+.+...+.+.|+... +..+..++.+.+  -..+...+..++.++.+.|+.++|+++++.+
T Consensus       206 l~~~~~aI~~~p~-n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~l  284 (306)
T 3dra_A          206 LNYVKDKIVKCPQ-NPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYDLL  284 (306)
T ss_dssp             HHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCC-CccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHH
Confidence            9999888887554 88889888888888887444 555666655432  1345677888888999999999999999999


Q ss_pred             HHc
Q 009255          457 VET  459 (539)
Q Consensus       457 ~~~  459 (539)
                      .+.
T Consensus       285 ~~~  287 (306)
T 3dra_A          285 KSK  287 (306)
T ss_dssp             HHT
T ss_pred             Hhc
Confidence            873

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.11  E-value=1.2e-08  Score=86.36  Aligned_cols=186  Identities=10%  Similarity=0.018  Sum_probs=124.7

Q ss_pred             CHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCC--HhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCH--HhHH
Q 009255          254 DEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPS--TFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDE--TTFN  329 (539)
Q Consensus       254 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~  329 (539)
                      ++..+..+...+...|++++|+..|+++....+...  ...+..+..++.+.|++++|+..|+++.+..+....  ..+.
T Consensus         3 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~   82 (225)
T 2yhc_A            3 PPNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMY   82 (225)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHH
Confidence            455666778889999999999999999998644311  357888899999999999999999999986543221  2344


Q ss_pred             HHHHHHhc------------------CCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 009255          330 TIIHGFCS------------------EGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGK  391 (539)
Q Consensus       330 ~l~~~~~~------------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  391 (539)
                      .+..++..                  .|++++|...|+++++..+ .+..........          ..+...+     
T Consensus        83 ~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~P-~~~~a~~a~~~l----------~~~~~~~-----  146 (225)
T 2yhc_A           83 MRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGYP-NSQYTTDATKRL----------VFLKDRL-----  146 (225)
T ss_dssp             HHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTTCT-TCTTHHHHHHHH----------HHHHHHH-----
T ss_pred             HHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHCc-CChhHHHHHHHH----------HHHHHHH-----
Confidence            44545443                  3455555555555554421 111111111000          0000000     


Q ss_pred             CCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCC----HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          392 AVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPD----RYTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       392 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                         ......++..|...|++++|+..|+++++.  .|+    ...+..++.++.+.|++++|++.++.+...+
T Consensus       147 ---~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~  214 (225)
T 2yhc_A          147 ---AKYEYSVAEYYTERGAWVAVVNRVEGMLRD--YPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANS  214 (225)
T ss_dssp             ---HHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCC
T ss_pred             ---HHHHHHHHHHHHHcCcHHHHHHHHHHHHHH--CcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC
Confidence               001135677888999999999999999975  333    2567788999999999999999999998876

>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=99.11  E-value=2.1e-09  Score=95.98  Aligned_cols=132  Identities=12%  Similarity=0.005  Sum_probs=79.1

Q ss_pred             hHHHHHHHHhcCCCHHHHHHHHHHHHhCC---CCC--CHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-----Chh
Q 009255          327 TFNTIIHGFCSEGQVEKALQFHNKMVEKS---FKP--DIVTCNILLSGLCREGILEKALKFFRSWILKGKAV-----DSV  396 (539)
Q Consensus       327 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~-----~~~  396 (539)
                      ++..+..+|...|++++|...|++.++..   -.+  ...++..+..+|.. |++++|+..+++........     ...
T Consensus        78 ~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~  156 (307)
T 2ifu_A           78 AFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAE  156 (307)
T ss_dssp             HHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHH
Confidence            44455555556666666666666554320   011  13455666666766 77777777777766541111     134


Q ss_pred             hHHHHHHHHHccCChHHHHHHHHHHHhC----CCCCC-HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          397 TYNTLISSLCKERRLEDAFGLLSEMEEK----KLGPD-RYTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       397 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      ++..++..|...|++++|+..|+++...    +..+. ...+..++.++...|++++|...+++++ ..
T Consensus       157 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~al-~~  224 (307)
T 2ifu_A          157 LIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRESY-SI  224 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT-TS
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHh-CC
Confidence            5667777777888888888888777653    11111 1245556666777788888888888887 54

>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=99.10  E-value=3e-09  Score=104.13  Aligned_cols=153  Identities=9%  Similarity=-0.066  Sum_probs=90.1

Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHH
Q 009255          268 DEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQF  347 (539)
Q Consensus       268 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  347 (539)
                      .|++++|+..+++..+..+. +...+..+...+...|++++|...+++..+..+. +...+..+..++...|++++|...
T Consensus         2 ~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRPQ-DFVAWLMLADAELGMGDTTAGEMAVQRGLALHPG-HPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             -------------------C-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTSTT-CHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHH
Confidence            35667777777776655433 4566677777777777777777777777665332 455666677777777777777777


Q ss_pred             HHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcc---CChHHHHHHHHHHHhC
Q 009255          348 HNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKE---RRLEDAFGLLSEMEEK  424 (539)
Q Consensus       348 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~A~~~~~~~~~~  424 (539)
                      +++..+.. +.+...+..+..+|...|++++|.+.+++..+... .+...+..++.++...   |++++|...++++.+.
T Consensus        80 ~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~  157 (568)
T 2vsy_A           80 LQQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLP-EEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQ  157 (568)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Confidence            77776653 23566667777777777777777777777766532 2455666677777777   7777777777777654

>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=9.9e-10  Score=98.12  Aligned_cols=203  Identities=11%  Similarity=-0.022  Sum_probs=141.3

Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHH
Q 009255          268 DEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQF  347 (539)
Q Consensus       268 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  347 (539)
                      .|++++|.+++++..+.... .         .+...++++.|...|.++               ...|...|++++|...
T Consensus         4 ~~~~~eA~~~~~~a~k~~~~-~---------~~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~~   58 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYLKT-S---------FMKWKPDYDSAASEYAKA---------------AVAFKNAKQLEQAKDA   58 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHHCC-C---------SSSCSCCHHHHHHHHHHH---------------HHHHHHTTCHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHccc-c---------ccCCCCCHHHHHHHHHHH---------------HHHHHHcCCHHHHHHH
Confidence            35566677766666543111 1         011146677777766654               3456677888888887


Q ss_pred             HHHHHhC----CCC-CCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC---CC--ChhhHHHHHHHHHccCChHHHHHH
Q 009255          348 HNKMVEK----SFK-PDIVTCNILLSGLCREGILEKALKFFRSWILKGK---AV--DSVTYNTLISSLCKERRLEDAFGL  417 (539)
Q Consensus       348 ~~~~~~~----~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~---~~--~~~~~~~l~~~~~~~~~~~~A~~~  417 (539)
                      |.+..+.    +.. .-..++..+..+|...|++++|+..+++.+....   .+  -..++..+..+|.. |++++|+..
T Consensus        59 ~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~  137 (307)
T 2ifu_A           59 YLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHL  137 (307)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHH
Confidence            7776643    110 1144778888899999999999999998875411   11  13467888999988 999999999


Q ss_pred             HHHHHhCCC---CC--CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChh-hHHHHHHH
Q 009255          418 LSEMEEKKL---GP--DRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSI-SYSEKINE  491 (539)
Q Consensus       418 ~~~~~~~~~---~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~  491 (539)
                      |+++++...   .+  ...++..++.++...|++++|++.++++++......             ..+... .+..++.+
T Consensus       138 ~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~-------------~~~~~~~~~~~~g~~  204 (307)
T 2ifu_A          138 YQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEME-------------NYPTCYKKCIAQVLV  204 (307)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT-------------CHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcC-------------ChhHHHHHHHHHHHH
Confidence            999885411   11  145778899999999999999999999998642100             001122 67788888


Q ss_pred             HhhcCCHHHHHHHHHHHH
Q 009255          492 HCSQGRYKDALQIFEETR  509 (539)
Q Consensus       492 ~~~~g~~~~A~~~~~~~~  509 (539)
                      +...|++++|+..|++.+
T Consensus       205 ~~~~g~~~~A~~~~~~al  222 (307)
T 2ifu_A          205 QLHRADYVAAQKCVRESY  222 (307)
T ss_dssp             HHHTTCHHHHHHHHHHHT
T ss_pred             HHHcCCHHHHHHHHHHHh
Confidence            999999999999999998

>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=99.09  E-value=8e-09  Score=86.80  Aligned_cols=146  Identities=8%  Similarity=-0.111  Sum_probs=110.5

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHH
Q 009255          362 TCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALV  441 (539)
Q Consensus       362 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~  441 (539)
                      .+..+...+...|++++|...|+++.    .|++..|..++.++...|++++|+..++++.+.. +.+...+..++.++.
T Consensus         8 ~~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~   82 (213)
T 1hh8_A            8 SLWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYY   82 (213)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHH
Confidence            34556777888899999999998774    4577888999999999999999999999988753 445678888999999


Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCCh-hhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCH
Q 009255          442 ESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSS-ISYSEKINEHCSQGRYKDALQIFEETRQKGIAINK  517 (539)
Q Consensus       442 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~  517 (539)
                      ..|++++|++.++++++....+.....   ........|.. ..+..++.+|...|++++|.+.|+++++  +.|+.
T Consensus        83 ~~~~~~~A~~~~~~al~~~~~~~~~~~---~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~--~~p~~  154 (213)
T 1hh8_A           83 QTEKYDLAIKDLKEALIQLRGNQLIDY---KILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATS--MKSEP  154 (213)
T ss_dssp             HTTCHHHHHHHHHHHHHTTTTCSEEEC---GGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--TCCSG
T ss_pred             HcccHHHHHHHHHHHHHhCCCccHHHH---HHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHH--cCccc
Confidence            999999999999999987632110000   00000011223 4889999999999999999999999997  45643

>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=99.09  E-value=2.9e-08  Score=87.99  Aligned_cols=168  Identities=9%  Similarity=0.008  Sum_probs=125.7

Q ss_pred             HHHHHHhcCCCHHHHHHHHHHHHhCCC-CCCH----HhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-CC----hhhHH
Q 009255          330 TIIHGFCSEGQVEKALQFHNKMVEKSF-KPDI----VTCNILLSGLCREGILEKALKFFRSWILKGKA-VD----SVTYN  399 (539)
Q Consensus       330 ~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~----~~~~~  399 (539)
                      ..+..+...|++++|..+++...+... .|+.    ..+..+...+...|++++|...++++...... ++    ..+++
T Consensus        80 ~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~  159 (293)
T 3u3w_A           80 DQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIEN  159 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHH
Confidence            346677888999999999999887532 2221    13334666777788999999999999875322 22    22688


Q ss_pred             HHHHHHHccCChHHHHHHHHHHHhC-----CCCCC-HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCC
Q 009255          400 TLISSLCKERRLEDAFGLLSEMEEK-----KLGPD-RYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSK  473 (539)
Q Consensus       400 ~l~~~~~~~~~~~~A~~~~~~~~~~-----~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~  473 (539)
                      .++.+|...|++++|+..++++.+.     +..+. ..++..++.+|...|++++|+++++++++......         
T Consensus       160 ~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~---------  230 (293)
T 3u3w_A          160 AIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRIN---------  230 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT---------
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcC---------
Confidence            9999999999999999999998842     11122 34778899999999999999999999987542100         


Q ss_pred             CCCCCCCC-hhhHHHHHHHHhhcCC-HHHHHHHHHHHHH
Q 009255          474 TPEEIDPS-SISYSEKINEHCSQGR-YKDALQIFEETRQ  510 (539)
Q Consensus       474 ~~~~~~~~-~~~~~~l~~~~~~~g~-~~~A~~~~~~~~~  510 (539)
                          ..+. ..+|..++.+|...|+ +++|.+.++++++
T Consensus       231 ----~~~~~~~~~~~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          231 ----SMALIGQLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             ----BCTTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             ----cHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence                0123 3489999999999995 6999999999875

>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=99.08  E-value=9.2e-10  Score=86.06  Aligned_cols=98  Identities=10%  Similarity=-0.038  Sum_probs=76.1

Q ss_pred             ChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCC
Q 009255          394 DSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSK  473 (539)
Q Consensus       394 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~  473 (539)
                      +...+..++..+...|++++|+..|++++... +.+...+..++.++...|++++|++.++++++.+             
T Consensus        20 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-------------   85 (148)
T 2vgx_A           20 TLEQLYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-------------   85 (148)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-------------
T ss_pred             hHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-------------
Confidence            44566777778888888888888888887653 4456777778888888888888888888888876             


Q ss_pred             CCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHH
Q 009255          474 TPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       474 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  510 (539)
                           |.+...|..++.+|...|++++|+..|+++++
T Consensus        86 -----p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~  117 (148)
T 2vgx_A           86 -----IXEPRFPFHAAECLLQXGELAEAESGLFLAQE  117 (148)
T ss_dssp             -----TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             -----CCCchHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence                 33445788888888888888888888888876

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.06  E-value=6.2e-09  Score=78.66  Aligned_cols=99  Identities=11%  Similarity=0.067  Sum_probs=84.3

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHH
Q 009255          360 IVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTA  439 (539)
Q Consensus       360 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~  439 (539)
                      ...+......|.+.|++++|+..|++.++..+ .++..|..++.++...|++++|+..++++++.+ +.+...+..++.+
T Consensus        13 a~~~~~~G~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~   90 (126)
T 4gco_A           13 AQEEKNKGNEYFKKGDYPTAMRHYNEAVKRDP-ENAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAAC   90 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHHH
Confidence            34667788889999999999999999888743 377888899999999999999999999998753 4457788889999


Q ss_pred             HHhcCCHHHHHHHHHHHHHcC
Q 009255          440 LVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       440 ~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      +...|++++|++.|+++++.+
T Consensus        91 ~~~~~~~~~A~~~~~~al~l~  111 (126)
T 4gco_A           91 LVAMREWSKAQRAYEDALQVD  111 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHCCCHHHHHHHHHHHHHHC
Confidence            999999999999999999987

>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=99.02  E-value=5.5e-09  Score=79.25  Aligned_cols=114  Identities=15%  Similarity=0.097  Sum_probs=94.4

Q ss_pred             hhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCC
Q 009255          395 SVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKT  474 (539)
Q Consensus       395 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~  474 (539)
                      ...|..++..+...|++++|+..|+++++.. +.+...+..++.++...|++++|++.++++++.+              
T Consensus         4 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~--------------   68 (126)
T 3upv_A            4 AEEARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD--------------   68 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--------------
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--------------
Confidence            3467778888889999999999999988753 4457888889999999999999999999999987              


Q ss_pred             CCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCC------CCHHHHHHHHHHHHh
Q 009255          475 PEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIA------INKSTYMNLMNGLIK  529 (539)
Q Consensus       475 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~------p~~~~~~~~l~~~~~  529 (539)
                          +.+...|..++.++...|++++|+..|+++++  +.      |+.......+..+..
T Consensus        69 ----p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~--~~p~~~~~p~~~~~~~~l~~~~~  123 (126)
T 3upv_A           69 ----PNFVRAYIRKATAQIAVKEYASALETLDAART--KDAEVNNGSSAREIDQLYYKASQ  123 (126)
T ss_dssp             ----TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HHHHHHTTTTHHHHHHHHHHHHH
T ss_pred             ----CCcHHHHHHHHHHHHHHhCHHHHHHHHHHHHH--hCcccCCchhHHHHHHHHHHHHH
Confidence                33445899999999999999999999999987  45      888777777665543

>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=99.02  E-value=2.4e-09  Score=86.92  Aligned_cols=125  Identities=10%  Similarity=0.127  Sum_probs=77.3

Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHH-HHhcCCH--HH
Q 009255          372 REGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTA-LVESGRL--EE  448 (539)
Q Consensus       372 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~g~~--~~  448 (539)
                      ..|++++|...+++.....+ .+...|..++..|...|++++|+..|+++.+.. +.+...+..++.+ +...|++  ++
T Consensus        22 ~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~~~~   99 (177)
T 2e2e_A           22 SQQNPEAQLQALQDKIRANP-QNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHMTAQ   99 (177)
T ss_dssp             -----CCCCHHHHHHHHHCC-SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCCCHH
T ss_pred             hccCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcchHH
Confidence            35666666666666665532 255666667777777777777777777766542 3345556666666 5566776  77


Q ss_pred             HHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHH
Q 009255          449 AQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKS  518 (539)
Q Consensus       449 A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~  518 (539)
                      |++.++++++.+                  +.+...+..++.+|...|++++|...|+++++  ..|+..
T Consensus       100 A~~~~~~al~~~------------------p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~--~~p~~~  149 (177)
T 2e2e_A          100 TRAMIDKALALD------------------SNEITALMLLASDAFMQANYAQAIELWQKVMD--LNSPRI  149 (177)
T ss_dssp             HHHHHHHHHHHC------------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--TCCTTS
T ss_pred             HHHHHHHHHHhC------------------CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHh--hCCCCc
Confidence            777777777765                  22334677777777777777777777777776  344443

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=99.00  E-value=8.3e-08  Score=85.01  Aligned_cols=171  Identities=9%  Similarity=0.006  Sum_probs=124.5

Q ss_pred             hHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCC-----HHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC---CC--hh
Q 009255          327 TFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPD-----IVTCNILLSGLCREGILEKALKFFRSWILKGKA---VD--SV  396 (539)
Q Consensus       327 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~---~~--~~  396 (539)
                      .+...+..+...|++++|.+.+...++......     ...+..+...+...|++++|...+++.......   +.  ..
T Consensus        77 ~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~  156 (293)
T 2qfc_A           77 QFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLY  156 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHH
Confidence            444556677788888888888888776532211     122344566677889999999999988764221   11  34


Q ss_pred             hHHHHHHHHHccCChHHHHHHHHHHHhC--CCCCC----HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCC
Q 009255          397 TYNTLISSLCKERRLEDAFGLLSEMEEK--KLGPD----RYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPN  470 (539)
Q Consensus       397 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  470 (539)
                      +++.++..|...|++++|+..++++.+.  ..+.+    ..++..++.+|...|++++|+++++++++.....+      
T Consensus       157 ~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~------  230 (293)
T 2qfc_A          157 IENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRIN------  230 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT------
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcC------
Confidence            7888999999999999999999998732  11111    25788899999999999999999999987641100      


Q ss_pred             CCCCCCCCCCC-hhhHHHHHHHHhhcCCHHHH-HHHHHHHHH
Q 009255          471 TSKTPEEIDPS-SISYSEKINEHCSQGRYKDA-LQIFEETRQ  510 (539)
Q Consensus       471 ~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A-~~~~~~~~~  510 (539)
                             .... ..+|..++.+|...|++++| ...+++++.
T Consensus       231 -------~~~~~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~  265 (293)
T 2qfc_A          231 -------SMALIGQLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             -------BCSSHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             -------cHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Confidence                   0122 34889999999999999999 888988765

>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=99.00  E-value=1.7e-08  Score=80.79  Aligned_cols=131  Identities=14%  Similarity=0.085  Sum_probs=103.4

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHH
Q 009255          360 IVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTA  439 (539)
Q Consensus       360 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~  439 (539)
                      ...+..+...+...|++++|...|++...... .+...+..++.++...|++++|+..+++..+.. +.+..++..++.+
T Consensus        13 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~   90 (166)
T 1a17_A           13 AEELKTQANDYFKAKDYENAIKFYSQAIELNP-SNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAAS   90 (166)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHH
Confidence            34566777788888999999999998887633 367788888889999999999999999988753 4457788888899


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhH--HHHHHHHhhcCCHHHHHHHHHHHHH
Q 009255          440 LVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISY--SEKINEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       440 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~l~~~~~~~g~~~~A~~~~~~~~~  510 (539)
                      +...|++++|.++++++++..                  +.+...+  ...+..+...|++++|++.+++...
T Consensus        91 ~~~~~~~~~A~~~~~~a~~~~------------------p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  145 (166)
T 1a17_A           91 NMALGKFRAALRDYETVVKVK------------------PHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRS  145 (166)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS------------------TTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhccHHHHHHHHHHHHHhC------------------CCCHHHHHHHHHHHHHHHHHHHHHHHHcccchHH
Confidence            999999999999999999887                  2333455  3444457788999999999887654

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.98  E-value=2.7e-08  Score=84.93  Aligned_cols=140  Identities=10%  Similarity=-0.020  Sum_probs=105.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCC--HhhHHHHHHH
Q 009255          362 TCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPD--RYTYAAIHTA  439 (539)
Q Consensus       362 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~--~~~~~~l~~~  439 (539)
                      ....+..++...|++++|.++|+.+...+  |+......+...+.+.+++++|+..|+...... .|.  ..++..++.+
T Consensus       104 l~LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~~a~~~LG~a  180 (282)
T 4f3v_A          104 ITMGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAGAAGVAHGVA  180 (282)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHHHHHHHHHHH
Confidence            44456777888999999999998887653  333356666778889999999999998665421 121  3467788999


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCC-h-hhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCH
Q 009255          440 LVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPS-S-ISYSEKINEHCSQGRYKDALQIFEETRQKGIAINK  517 (539)
Q Consensus       440 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~  517 (539)
                      +...|++++|+++|+++.....                 .|. . ..+...+.++.+.|+.++|...|+++..  ..|+ 
T Consensus       181 l~~LG~~~eAl~~l~~a~~g~~-----------------~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a--~~P~-  240 (282)
T 4f3v_A          181 AANLALFTEAERRLTEANDSPA-----------------GEACARAIAWYLAMARRSQGNESAAVALLEWLQT--THPE-  240 (282)
T ss_dssp             HHHTTCHHHHHHHHHHHHTSTT-----------------TTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HSCC-
T ss_pred             HHHCCCHHHHHHHHHHHhcCCC-----------------CccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCc-
Confidence            9999999999999999985431                 143 3 3788889999999999999999999998  4688 


Q ss_pred             HHHHHHH
Q 009255          518 STYMNLM  524 (539)
Q Consensus       518 ~~~~~~l  524 (539)
                      ......|
T Consensus       241 ~~~~~aL  247 (282)
T 4f3v_A          241 PKVAAAL  247 (282)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            4443333

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.97  E-value=1.4e-09  Score=84.58  Aligned_cols=97  Identities=13%  Similarity=-0.009  Sum_probs=71.2

Q ss_pred             hhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCC
Q 009255          395 SVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKT  474 (539)
Q Consensus       395 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~  474 (539)
                      ...+..++..+...|++++|+..|+++...+ +.+...+..++.++...|++++|++.++++++.+              
T Consensus        18 ~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--------------   82 (142)
T 2xcb_A           18 LEQLYALGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMD--------------   82 (142)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--------------
T ss_pred             HHHHHHHHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC--------------
Confidence            3455666777777788888888888777643 3456667777778888888888888888888776              


Q ss_pred             CCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHH
Q 009255          475 PEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       475 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  510 (539)
                          |.+...+..++.+|...|++++|+..|+++++
T Consensus        83 ----p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~  114 (142)
T 2xcb_A           83 ----INEPRFPFHAAECHLQLGDLDGAESGFYSARA  114 (142)
T ss_dssp             ----TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ----CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence                33344777788888888888888888888776

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.96  E-value=1.1e-08  Score=78.45  Aligned_cols=112  Identities=9%  Similarity=0.057  Sum_probs=71.8

Q ss_pred             hhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCC
Q 009255          395 SVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKT  474 (539)
Q Consensus       395 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~  474 (539)
                      ...+..++..+...|++++|+..++++.+.. +.+..++..++.++...|++++|++.++++++..              
T Consensus        16 ~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~--------------   80 (133)
T 2lni_A           16 ALMVKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE--------------   80 (133)
T ss_dssp             HHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC--------------
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--------------
Confidence            4456666667777777777777777776542 3345666667777777777777777777777765              


Q ss_pred             CCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 009255          475 PEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGL  527 (539)
Q Consensus       475 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~  527 (539)
                          +.+...+..++.++...|++++|++.++++++  ..|+.......++.+
T Consensus        81 ----~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~--~~p~~~~~~~~l~~~  127 (133)
T 2lni_A           81 ----PTFIKGYTRKAAALEAMKDYTKAMDVYQKALD--LDSSCKEAADGYQRC  127 (133)
T ss_dssp             ----TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCGGGTHHHHHHHHH
T ss_pred             ----CCchHHHHHHHHHHHHHhhHHHHHHHHHHHHH--hCCCchHHHHHHHHH
Confidence                23344677777777777777777777777765  345554444444433

>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=98.95  E-value=4.9e-08  Score=81.90  Aligned_cols=128  Identities=12%  Similarity=-0.043  Sum_probs=96.5

Q ss_pred             HHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHc
Q 009255          328 FNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCK  407 (539)
Q Consensus       328 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~  407 (539)
                      +..+...+...|++++|...|+++.    .|+..++..+..+|...|++++|...+++..... +.+...|..++.++..
T Consensus         9 ~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~~   83 (213)
T 1hh8_A            9 LWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQ   83 (213)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHH
Confidence            3445566677788888888777663    4467777788888888888888888888877763 2356677788888888


Q ss_pred             cCChHHHHHHHHHHHhCC--------------CCCC-HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          408 ERRLEDAFGLLSEMEEKK--------------LGPD-RYTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       408 ~~~~~~A~~~~~~~~~~~--------------~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      .|++++|+..|+++.+..              ..|+ ..++..++.++...|++++|.+.++++++..
T Consensus        84 ~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  151 (213)
T 1hh8_A           84 TEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  151 (213)
T ss_dssp             TTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             cccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcC
Confidence            888888888888887642              1111 2677888899999999999999999999887

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.95  E-value=1.7e-08  Score=76.28  Aligned_cols=112  Identities=13%  Similarity=0.212  Sum_probs=72.0

Q ss_pred             hhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCC
Q 009255          395 SVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKT  474 (539)
Q Consensus       395 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~  474 (539)
                      ...+..++..+...|++++|...++++.+.. +.+..++..++.++...|++++|..+++++++..              
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~--------------   73 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD--------------   73 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--------------
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC--------------
Confidence            3456666666677777777777777766542 3345566666777777777777777777777665              


Q ss_pred             CCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 009255          475 PEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGL  527 (539)
Q Consensus       475 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~  527 (539)
                          +.+...+..++.++...|++++|...++++++  ..|+.......++.+
T Consensus        74 ----~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~~~l~~~  120 (125)
T 1na0_A           74 ----PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALE--LDPNNAEAKQNLGNA  120 (125)
T ss_dssp             ----TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHH
T ss_pred             ----CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHH--hCCCcHHHHHHHHHH
Confidence                23444677777777777777777777777776  345555444444433

>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=98.95  E-value=9.7e-09  Score=77.76  Aligned_cols=108  Identities=17%  Similarity=0.134  Sum_probs=87.4

Q ss_pred             hhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCC
Q 009255          396 VTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTP  475 (539)
Q Consensus       396 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~  475 (539)
                      ..+..++..+.+.|++++|+..|+++++.. +.+..++..++.++...|++++|++.++++++.....            
T Consensus         9 ~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~------------   75 (127)
T 4gcn_A            9 IAEKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRET------------   75 (127)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHT------------
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCccc------------
Confidence            457788999999999999999999999753 4457788899999999999999999999999876210            


Q ss_pred             CCCCCC----hhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHH
Q 009255          476 EEIDPS----SISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYM  521 (539)
Q Consensus       476 ~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~  521 (539)
                         .+.    ..+|..++.++...|++++|++.|++.++  ..||..+..
T Consensus        76 ---~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~kal~--~~~~~~~~~  120 (127)
T 4gcn_A           76 ---RADYKLIAKAMSRAGNAFQKQNDLSLAVQWFHRSLS--EFRDPELVK  120 (127)
T ss_dssp             ---TCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HSCCHHHHH
T ss_pred             ---chhhHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--hCcCHHHHH
Confidence               011    12678899999999999999999999997  457765544

>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=98.94  E-value=5e-07  Score=79.86  Aligned_cols=241  Identities=12%  Similarity=0.077  Sum_probs=166.8

Q ss_pred             ccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCC-CHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcC-C-CHHH
Q 009255          267 RDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSG-KTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSE-G-QVEK  343 (539)
Q Consensus       267 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~-~~~~  343 (539)
                      ..+..++|+++++.++..++. +..+|+.-...+...| .+++++..++.+....+. +..+++.-..++... + ++++
T Consensus        66 ~~e~se~AL~lt~~~L~~nP~-~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPK-ny~aW~hR~wlL~~l~~~~~~~  143 (349)
T 3q7a_A           66 KEEKSERALELTEIIVRMNPA-HYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLK-SYQVWHHRLLLLDRISPQDPVS  143 (349)
T ss_dssp             TTCCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCC-CHHHHHHHHHHHHHHCCSCCHH
T ss_pred             hCCCCHHHHHHHHHHHHhCch-hHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHhcCCChHH
Confidence            445557888889888887655 6677777777777777 589999999999887554 666666655555555 5 7889


Q ss_pred             HHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHH--------HHHHHHHHHHHcCCCCChhhHHHHHHHHHccCC-----
Q 009255          344 ALQFHNKMVEKSFKPDIVTCNILLSGLCREGILE--------KALKFFRSWILKGKAVDSVTYNTLISSLCKERR-----  410 (539)
Q Consensus       344 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~--------~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-----  410 (539)
                      ++.+++.+++... -+..+|..-..++.+.|.++        ++++.++++++..+. |...|+.....+...++     
T Consensus       144 EL~~~~k~L~~dp-kNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp~-N~SAW~~R~~lL~~l~~~~~~~  221 (349)
T 3q7a_A          144 EIEYIHGSLLPDP-KNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDGR-NNSAWGWRWYLRVSRPGAETSS  221 (349)
T ss_dssp             HHHHHHHHTSSCT-TCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHTTSTTCCCCH
T ss_pred             HHHHHHHHHHhCC-CCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccccccch
Confidence            9999999988753 37777776666666655555        899999999988555 88889988888888776     


Q ss_pred             --hHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCH--------------------HHHHHHHHHHHHcCCCCccccc
Q 009255          411 --LEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRL--------------------EEAQKFTSIMVETGKINHQVVQ  468 (539)
Q Consensus       411 --~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~--------------------~~A~~~~~~~~~~~~~~~~~~~  468 (539)
                        ++++++.+++++... +-|...+..+...+.+.|+.                    .+..+....+....        
T Consensus       222 ~~~~eELe~~~~aI~~~-P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------  292 (349)
T 3q7a_A          222 RSLQDELIYILKSIHLI-PHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDP--------  292 (349)
T ss_dssp             HHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-C--------
T ss_pred             HHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcc--------
Confidence              688999999988753 44567777776677666654                    11111111111100        


Q ss_pred             CCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 009255          469 PNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMN  525 (539)
Q Consensus       469 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~  525 (539)
                          .......++..++..++++|...|+.++|.++++.+.+. +.|-..-|-....
T Consensus       293 ----~~~~~~~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~~-~dpir~~yw~~~~  344 (349)
T 3q7a_A          293 ----LPEDTPLPVPLALEYLADSFIEQNRVDDAAKVFEKLSSE-YDQMRAGYWEFRR  344 (349)
T ss_dssp             ----CCSSCCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT-TCGGGHHHHHHHH
T ss_pred             ----cccccCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHhh-hChHHHHHHHHHH
Confidence                000111355558899999999999999999999998753 5666555544433

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.94  E-value=1.2e-08  Score=84.86  Aligned_cols=160  Identities=11%  Similarity=-0.002  Sum_probs=108.7

Q ss_pred             hcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHc----CC-CCChhhHHHHHHHHHccCC
Q 009255          336 CSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILK----GK-AVDSVTYNTLISSLCKERR  410 (539)
Q Consensus       336 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~  410 (539)
                      ...|++++|.+.++.+... ......++..+..++...|++++|...+++....    +. +....++..+...+...|+
T Consensus         3 ~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~   81 (203)
T 3gw4_A            3 FEAHDYALAERQAQALLAH-PATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGN   81 (203)
T ss_dssp             ----CHHHHHHHHHHHHTS-TTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTC
T ss_pred             cccccHHHHHHHHHHhcCC-hHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCC
Confidence            3467777777755444432 2235667777788888888888888888777652    11 1123467778888888899


Q ss_pred             hHHHHHHHHHHHhC----CCCC--CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCCh--
Q 009255          411 LEDAFGLLSEMEEK----KLGP--DRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSS--  482 (539)
Q Consensus       411 ~~~A~~~~~~~~~~----~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--  482 (539)
                      +++|...+++..+.    +-.|  ...++..++.++...|++++|.+.++++++......              .+..  
T Consensus        82 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~--------------~~~~~~  147 (203)
T 3gw4_A           82 WDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQAD--------------DQVAIA  147 (203)
T ss_dssp             HHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTT--------------CHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcc--------------chHHHH
Confidence            99998888887653    1111  134566788888899999999999998876431100              1111  


Q ss_pred             hhHHHHHHHHhhcCCHHHHHHHHHHHHH
Q 009255          483 ISYSEKINEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       483 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~  510 (539)
                      .++..++.++...|++++|.+.++++++
T Consensus       148 ~~~~~la~~~~~~g~~~~A~~~~~~al~  175 (203)
T 3gw4_A          148 CAFRGLGDLAQQEKNLLEAQQHWLRARD  175 (203)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence            2567889999999999999999998876

>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=98.93  E-value=4.3e-07  Score=80.38  Aligned_cols=165  Identities=12%  Similarity=0.038  Sum_probs=118.9

Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHHCCCC-CCH----HhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCC-CC----HHhHHH
Q 009255          296 MIWGLSQSGKTEQAIDMLNELLQSGMI-PDE----TTFNTIIHGFCSEGQVEKALQFHNKMVEKSFK-PD----IVTCNI  365 (539)
Q Consensus       296 l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~  365 (539)
                      .+..+...|++++|..++++....... |+.    ..+..+...+...+++++|...++++.+.... ++    ..+++.
T Consensus        81 ~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~  160 (293)
T 3u3w_A           81 QVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENA  160 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHH
Confidence            355677788888888888887764221 221    12334666677778899999999988874222 22    336888


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHc-----CCCC-ChhhHHHHHHHHHccCChHHHHHHHHHHHhC----CCCCC-HhhHH
Q 009255          366 LLSGLCREGILEKALKFFRSWILK-----GKAV-DSVTYNTLISSLCKERRLEDAFGLLSEMEEK----KLGPD-RYTYA  434 (539)
Q Consensus       366 l~~~~~~~g~~~~A~~~~~~~~~~-----~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~----~~~~~-~~~~~  434 (539)
                      +..+|...|++++|...++++.+.     +..+ ...++..++.+|...|++++|+..++++.+.    +..+. ..++.
T Consensus       161 lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~  240 (293)
T 3u3w_A          161 IANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYY  240 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHH
Confidence            888999999999999999888742     1111 1236788999999999999999999988753    22222 56788


Q ss_pred             HHHHHHHhcCC-HHHHHHHHHHHHHcC
Q 009255          435 AIHTALVESGR-LEEAQKFTSIMVETG  460 (539)
Q Consensus       435 ~l~~~~~~~g~-~~~A~~~~~~~~~~~  460 (539)
                      .++.++...|+ +++|.+.+++++...
T Consensus       241 ~lg~~~~~~g~~~~~A~~~~~~Al~i~  267 (293)
T 3u3w_A          241 QRGECLRKLEYEEAEIEDAYKKASFFF  267 (293)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHHHH
Confidence            89999999994 699999999987643

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.92  E-value=2.9e-08  Score=76.00  Aligned_cols=120  Identities=13%  Similarity=-0.004  Sum_probs=95.5

Q ss_pred             CCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHH
Q 009255          357 KPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAI  436 (539)
Q Consensus       357 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l  436 (539)
                      +.+...+..+...+...|++++|...++++..... .+...+..++.++...|++++|+..++++.+.. +.+...+..+
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l   90 (133)
T 2lni_A           13 PDLALMVKNKGNECFQKGDYPQAMKHYTEAIKRNP-KDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRK   90 (133)
T ss_dssp             SCHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCT-TCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHH
Confidence            34566777888888889999999999988887633 367788888888889999999999999888753 4456788888


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCCh-hhHHHHHHHHhhcCC
Q 009255          437 HTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSS-ISYSEKINEHCSQGR  497 (539)
Q Consensus       437 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~  497 (539)
                      +.++...|++++|++.++++++..                   |+. ..+..++.++...|+
T Consensus        91 a~~~~~~~~~~~A~~~~~~~~~~~-------------------p~~~~~~~~l~~~~~~~~~  133 (133)
T 2lni_A           91 AAALEAMKDYTKAMDVYQKALDLD-------------------SSCKEAADGYQRCMMAQYN  133 (133)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-------------------GGGTHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHhC-------------------CCchHHHHHHHHHHHHhcC
Confidence            889999999999999999998886                   444 477888888776654

>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=2.4e-08  Score=90.12  Aligned_cols=133  Identities=9%  Similarity=-0.036  Sum_probs=108.0

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC--------------hhhHHHHHHHHHccCChHHHHHHHHHHHhC
Q 009255          359 DIVTCNILLSGLCREGILEKALKFFRSWILKGKAVD--------------SVTYNTLISSLCKERRLEDAFGLLSEMEEK  424 (539)
Q Consensus       359 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~--------------~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  424 (539)
                      +...+..+...|.+.|++++|...|++++.......              ...|..++.+|...|++++|+..++++++.
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            455667777778888888888888888777633311              478899999999999999999999999976


Q ss_pred             CCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHH-HH
Q 009255          425 KLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDA-LQ  503 (539)
Q Consensus       425 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A-~~  503 (539)
                      . +.+...+..++.++...|++++|++.|+++++..                  |.+..++..++.++...|++++| ..
T Consensus       226 ~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~------------------P~~~~a~~~l~~~~~~~~~~~~a~~~  286 (336)
T 1p5q_A          226 D-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY------------------PNNKAAKTQLAVCQQRIRRQLAREKK  286 (336)
T ss_dssp             C-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC------------------SSCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             C-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC------------------CCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4 4467888899999999999999999999999987                  33445899999999999999999 55


Q ss_pred             HHHHHHH
Q 009255          504 IFEETRQ  510 (539)
Q Consensus       504 ~~~~~~~  510 (539)
                      .|++|.+
T Consensus       287 ~~~~~~~  293 (336)
T 1p5q_A          287 LYANMFE  293 (336)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            6777654

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.92  E-value=2.1e-08  Score=76.42  Aligned_cols=112  Identities=13%  Similarity=0.046  Sum_probs=64.0

Q ss_pred             hhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCC
Q 009255          396 VTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTP  475 (539)
Q Consensus       396 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~  475 (539)
                      ..+..++..+...|++++|+..++++.... +.+...+..++.++...|++++|.+.++++++..               
T Consensus        13 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~---------------   76 (131)
T 2vyi_A           13 ERLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICID---------------   76 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---------------
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC---------------
Confidence            345555556666666666666666665432 2344555566666666666666666666666654               


Q ss_pred             CCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 009255          476 EEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGLI  528 (539)
Q Consensus       476 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~  528 (539)
                         +.+...+..++.++...|++++|...++++++.  .|+.......++.++
T Consensus        77 ---~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~~l~~~~  124 (131)
T 2vyi_A           77 ---PAYSKAYGRMGLALSSLNKHVEAVAYYKKALEL--DPDNETYKSNLKIAE  124 (131)
T ss_dssp             ---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHH
T ss_pred             ---ccCHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc--CccchHHHHHHHHHH
Confidence               223346666666666666666666666666652  354443333444333

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.91  E-value=2e-08  Score=78.20  Aligned_cols=100  Identities=11%  Similarity=0.012  Sum_probs=78.4

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHH
Q 009255          359 DIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHT  438 (539)
Q Consensus       359 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~  438 (539)
                      +...+..+...+.+.|++++|+..|++++...+. ++..|..++.+|...|++++|+..|+++.+.. +.+...+..++.
T Consensus        35 ~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P~-~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-P~~~~~~~~lg~  112 (151)
T 3gyz_A           35 MMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYDFY-NVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-KNDYTPVFHTGQ  112 (151)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SSCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-CCCcHHHHHHHH
Confidence            4456777777888888888888888888877433 67788888888888888888888888888653 334567778888


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcC
Q 009255          439 ALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       439 ~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      ++...|++++|++.|+++++..
T Consensus       113 ~~~~lg~~~eA~~~~~~al~l~  134 (151)
T 3gyz_A          113 CQLRLKAPLKAKECFELVIQHS  134 (151)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC
Confidence            8888888888888888888876

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.90  E-value=4.4e-08  Score=74.66  Aligned_cols=120  Identities=12%  Similarity=-0.000  Sum_probs=94.5

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHH
Q 009255          359 DIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHT  438 (539)
Q Consensus       359 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~  438 (539)
                      +...+..+...+...|++++|...++++.... +.+...+..++.++...|++++|+..++++.+.. +.+...+..++.
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~   88 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGL   88 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHH
Confidence            45567777788888888888888888888763 2366778888888888899999999998888653 345677888888


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCH
Q 009255          439 ALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRY  498 (539)
Q Consensus       439 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  498 (539)
                      ++...|++++|.++++++++..                  +.+...+..++.++...|++
T Consensus        89 ~~~~~~~~~~A~~~~~~~~~~~------------------p~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           89 ALSSLNKHVEAVAYYKKALELD------------------PDNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS------------------TTCHHHHHHHHHHHHHHTTC
T ss_pred             HHHHhCCHHHHHHHHHHHHhcC------------------ccchHHHHHHHHHHHHHhcC
Confidence            8899999999999999998886                  33445888888888877765

>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=98.90  E-value=4.4e-08  Score=73.05  Aligned_cols=112  Identities=15%  Similarity=0.128  Sum_probs=81.7

Q ss_pred             hhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCC
Q 009255          395 SVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKT  474 (539)
Q Consensus       395 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~  474 (539)
                      ...+..++..+...|++++|...++++.... +.+...+..++.++...|++++|.+.++++++..              
T Consensus         4 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--------------   68 (118)
T 1elw_A            4 VNELKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK--------------   68 (118)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--------------
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC--------------
Confidence            3456667777778888888888888877643 3356677777888888888888888888888876              


Q ss_pred             CCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 009255          475 PEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGL  527 (539)
Q Consensus       475 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~  527 (539)
                          +.+...+..++.++...|++++|.+.++++++  ..|+.......+..+
T Consensus        69 ----~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~~~l~~~  115 (118)
T 1elw_A           69 ----PDWGKGYSRKAAALEFLNRFEEAKRTYEEGLK--HEANNPQLKEGLQNM  115 (118)
T ss_dssp             ----TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--TCTTCHHHHHHHHHH
T ss_pred             ----cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHH--cCCCCHHHHHHHHHh
Confidence                23445788888888888888888888888886  456665554444433

>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=98.90  E-value=1.2e-08  Score=79.56  Aligned_cols=111  Identities=16%  Similarity=0.012  Sum_probs=89.5

Q ss_pred             HHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCC
Q 009255          347 FHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKL  426 (539)
Q Consensus       347 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~  426 (539)
                      .+++++... +.+...+..+...+...|++++|...|++++...+ .++..|..++.++...|++++|+..|++++... 
T Consensus         9 ~~~~al~~~-p~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-   85 (148)
T 2vgx_A            9 TIAMLNEIS-SDTLEQLYSLAFNQYQSGXYEDAHXVFQALCVLDH-YDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-   85 (148)
T ss_dssp             SHHHHTTCC-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-
T ss_pred             hHHHHHcCC-HhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCc-ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-
Confidence            455555542 23556777788888999999999999999888743 377788899999999999999999999998753 


Q ss_pred             CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          427 GPDRYTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       427 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      +.+...+..++.++...|++++|++.++++++..
T Consensus        86 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~  119 (148)
T 2vgx_A           86 IXEPRFPFHAAECLLQXGELAEAESGLFLAQELI  119 (148)
T ss_dssp             TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             CCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            3356778888999999999999999999999886

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.89  E-value=7.9e-08  Score=72.48  Aligned_cols=117  Identities=13%  Similarity=0.166  Sum_probs=87.7

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHH
Q 009255          360 IVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTA  439 (539)
Q Consensus       360 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~  439 (539)
                      ...+..+...+...|++++|.+.++++.... +.+...+..++..+...|++++|+..++++.+.. +.+..++..++.+
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~   86 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNA   86 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHH
Confidence            5567777778888888888888888887763 2356677888888888888888888888887653 4456677788888


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcC
Q 009255          440 LVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQG  496 (539)
Q Consensus       440 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  496 (539)
                      +...|++++|.++++++++..                  +.+...+..++.++...|
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~~------------------~~~~~~~~~l~~~~~~~g  125 (125)
T 1na0_A           87 YYKQGDYDEAIEYYQKALELD------------------PNNAEAKQNLGNAKQKQG  125 (125)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC------------------TTCHHHHHHHHHHHHHHC
T ss_pred             HHHhcCHHHHHHHHHHHHHhC------------------CCcHHHHHHHHHHHHhcc
Confidence            888888888888888888876                  233446777776665543

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.89  E-value=2.3e-07  Score=82.17  Aligned_cols=168  Identities=11%  Similarity=0.031  Sum_probs=117.5

Q ss_pred             hHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCH-----HhHHHHHHHHhcCCCHHHHHHHHHHHHhCCC---CCC--HH
Q 009255          292 TYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDE-----TTFNTIIHGFCSEGQVEKALQFHNKMVEKSF---KPD--IV  361 (539)
Q Consensus       292 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~--~~  361 (539)
                      .+...+..+...|++++|.+.+.+..+.......     ..+..+...+...|++++|...+++..+...   .+.  ..
T Consensus        77 ~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~  156 (293)
T 2qfc_A           77 QFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLY  156 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHH
Confidence            3444556667777888888877776664322111     1233455566778889999998888875321   111  45


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHc-CCCCC-----hhhHHHHHHHHHccCChHHHHHHHHHHHhCC----CCCC-H
Q 009255          362 TCNILLSGLCREGILEKALKFFRSWILK-GKAVD-----SVTYNTLISSLCKERRLEDAFGLLSEMEEKK----LGPD-R  430 (539)
Q Consensus       362 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~-----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~----~~~~-~  430 (539)
                      +++.+..+|...|++++|...++++.+. ...|+     ..++..++.+|...|++++|+..++++.+..    .... .
T Consensus       157 ~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~  236 (293)
T 2qfc_A          157 IENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIG  236 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHH
Confidence            7788888999999999999999888732 01112     2478888999999999999999999887531    1111 5


Q ss_pred             hhHHHHHHHHHhcCCHHHH-HHHHHHHHHc
Q 009255          431 YTYAAIHTALVESGRLEEA-QKFTSIMVET  459 (539)
Q Consensus       431 ~~~~~l~~~~~~~g~~~~A-~~~~~~~~~~  459 (539)
                      .++..++.++...|++++| ...+++++..
T Consensus       237 ~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~~  266 (293)
T 2qfc_A          237 QLYYQRGECLRKLEYEEAEIEDAYKKASFF  266 (293)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCcHHHHHHHHHHHHHH
Confidence            6778889999999999999 7778887754

>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=98.88  E-value=2.4e-09  Score=88.80  Aligned_cols=144  Identities=8%  Similarity=-0.024  Sum_probs=95.9

Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCC-C--------------CHhhHHHH
Q 009255          372 REGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLG-P--------------DRYTYAAI  436 (539)
Q Consensus       372 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~--------------~~~~~~~l  436 (539)
                      ..|+++.+.+.|+...... ......+..++..+...|++++|+..|+++++.... |              ...++..+
T Consensus        16 ~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l   94 (198)
T 2fbn_A           16 NLYFQGAKKSIYDYTDEEK-VQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNL   94 (198)
T ss_dssp             ------CCCSGGGCCHHHH-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhccccCchhhCCHHHH-HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHH
Confidence            3455555555554322210 112334556666677777777777777777654211 1              02677788


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCC
Q 009255          437 HTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAIN  516 (539)
Q Consensus       437 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~  516 (539)
                      +.++...|++++|++.++++++..                  +.+..++..++.+|...|++++|+..|+++++  +.|+
T Consensus        95 a~~~~~~~~~~~A~~~~~~al~~~------------------p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~--~~p~  154 (198)
T 2fbn_A           95 ATCYNKNKDYPKAIDHASKVLKID------------------KNNVKALYKLGVANMYFGFLEEAKENLYKAAS--LNPN  154 (198)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHS------------------TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HSTT
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHhC------------------cccHHHHHHHHHHHHHcccHHHHHHHHHHHHH--HCCC
Confidence            889999999999999999999987                  34455899999999999999999999999997  4688


Q ss_pred             HHHHHHHHHHHHhcCCchhh
Q 009255          517 KSTYMNLMNGLIKRRKSISK  536 (539)
Q Consensus       517 ~~~~~~~l~~~~~~~~~~~~  536 (539)
                      .......+..+....++.++
T Consensus       155 ~~~~~~~l~~~~~~~~~~~~  174 (198)
T 2fbn_A          155 NLDIRNSYELCVNKLKEARK  174 (198)
T ss_dssp             CHHHHHHHHHHHHHHHHHHC
T ss_pred             cHHHHHHHHHHHHHHHHHHH
Confidence            77777777766655444443

>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=98.88  E-value=2.7e-08  Score=79.68  Aligned_cols=123  Identities=15%  Similarity=0.163  Sum_probs=98.0

Q ss_pred             hhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCC
Q 009255          395 SVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKT  474 (539)
Q Consensus       395 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~  474 (539)
                      ...+..++..+...|++++|...++++.+.. +.+..++..++.++...|++++|.+.++++++..              
T Consensus        13 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~--------------   77 (166)
T 1a17_A           13 AEELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD--------------   77 (166)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--------------
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--------------
Confidence            3457788889999999999999999998753 4467888899999999999999999999999987              


Q ss_pred             CCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH--HhcCCchhhcc
Q 009255          475 PEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGL--IKRRKSISKAV  538 (539)
Q Consensus       475 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~--~~~~~~~~~A~  538 (539)
                          +.+...|..++.++...|++++|.+.++++++.  .|+.......+..+  +...+++++|+
T Consensus        78 ----~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~p~~~~~~~~~~~~~~~~~~~~~~~A~  137 (166)
T 1a17_A           78 ----KKYIKGYYRRAASNMALGKFRAALRDYETVVKV--KPHDKDAKMKYQECNKIVKQKAFERAI  137 (166)
T ss_dssp             ----TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ----cccHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence                344559999999999999999999999999984  56554433333222  33445577775

>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=98.88  E-value=1.7e-08  Score=77.88  Aligned_cols=98  Identities=10%  Similarity=-0.007  Sum_probs=73.4

Q ss_pred             ChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCC
Q 009255          394 DSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSK  473 (539)
Q Consensus       394 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~  473 (539)
                      +...+..++..+...|++++|+..|++++... +.+...+..++.++...|++++|...++++++.+             
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-------------   73 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-------------   73 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------------
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-------------
Confidence            55667777777778888888888888777653 3346677777778888888888888888888776             


Q ss_pred             CCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHH
Q 009255          474 TPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       474 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  510 (539)
                           +.+...|..++.+|...|++++|+..|+++++
T Consensus        74 -----p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~  105 (137)
T 3q49_B           74 -----GQSVKAHFFLGQCQLEMESYDEAIANLQRAYS  105 (137)
T ss_dssp             -----TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             -----chhHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence                 23344778888888888888888888888776

>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=98.88  E-value=1.2e-08  Score=89.49  Aligned_cols=194  Identities=10%  Similarity=0.027  Sum_probs=111.3

Q ss_pred             CHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHH
Q 009255          289 STFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLS  368 (539)
Q Consensus       289 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  368 (539)
                      +...+..+...+...|++++|+..|+++....+. +...+..+..++...|++++|...++++++.. +.+...+..+..
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~   80 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQ   80 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            3455666666777777777777777777665332 56666677777777777777777777777653 335667777777


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHH
Q 009255          369 GLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEE  448 (539)
Q Consensus       369 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  448 (539)
                      +|...|++++|...|+++...++. +...+...+......   .++.. +........+.+......+...+  .|++++
T Consensus        81 ~~~~~g~~~~A~~~~~~al~l~p~-~~~~~~~~~~~~~~~---~~~~~-~~~~~~~~~~~~~~i~~~l~~l~--~~~~~~  153 (281)
T 2c2l_A           81 CQLEMESYDEAIANLQRAYSLAKE-QRLNFGDDIPSALRI---AKKKR-WNSIEERRIHQESELHSYLTRLI--AAERER  153 (281)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHH-TTCCCCSHHHHHHHH---HHHHH-HHHHHHTCCCCCCHHHHHHHHHH--HHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCcc-chhhHHHHHHHHHHH---HHHHH-HHHHHHHHHhhhHHHHHHHHHHH--HHHHHH
Confidence            777777777777777777654221 111111122221111   11111 11122223334444433333322  577777


Q ss_pred             HHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChh-hHHHHHHHHhhc-CCHHHHHHHHHHHHH
Q 009255          449 AQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSI-SYSEKINEHCSQ-GRYKDALQIFEETRQ  510 (539)
Q Consensus       449 A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~-g~~~~A~~~~~~~~~  510 (539)
                      |.+.++++++..                   |+.. ....+...+.+. +++++|.++|+++.+
T Consensus       154 A~~~~~~al~~~-------------------p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~  198 (281)
T 2c2l_A          154 ELEECQRNHEGH-------------------EDDGHIRAQQACIEAKHDKYMADMDELFSQVDE  198 (281)
T ss_dssp             HHTTTSGGGTTT-------------------SCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHHHhhhccc-------------------cchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            777777777664                   4443 444455555554 667777777777654

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.86  E-value=8.4e-08  Score=74.97  Aligned_cols=114  Identities=8%  Similarity=0.026  Sum_probs=89.8

Q ss_pred             ChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCC----HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccC
Q 009255          394 DSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPD----RYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQP  469 (539)
Q Consensus       394 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  469 (539)
                      +...+..++..+...|++++|+..|++..+.  .|+    ...+..++.++...|++++|++.++++++..         
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~---------   95 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGL--DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD---------   95 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT---------
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH--cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC---------
Confidence            4556777888888888888888888888854  455    5677788888889999999999999998886         


Q ss_pred             CCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 009255          470 NTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGLIK  529 (539)
Q Consensus       470 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~  529 (539)
                               +.+...|..++.+|...|++++|...|+++++  +.|+.......+..+..
T Consensus        96 ---------~~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~l~~~~~  144 (148)
T 2dba_A           96 ---------GGDVKALYRRSQALEKLGRLDQAVLDLQRCVS--LEPKNKVFQEALRNISG  144 (148)
T ss_dssp             ---------SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HCSSCHHHHHHHHHHHC
T ss_pred             ---------ccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--cCCCcHHHHHHHHHHHh
Confidence                     33455888899999999999999999999987  46776666666555543

>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=98.86  E-value=2.3e-06  Score=75.73  Aligned_cols=178  Identities=8%  Similarity=-0.066  Sum_probs=130.2

Q ss_pred             HHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccC-CHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhc-C-
Q 009255           18 DALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLG-WLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNA-G-   94 (539)
Q Consensus        18 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g-   94 (539)
                      ....+.+..++|+.+++.++..+ |-+..+|+.-..++...| +++++++.++.+...+++ +..+|+.-..++.+. + 
T Consensus        62 ~~~~~~e~se~AL~lt~~~L~~n-P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPK-ny~aW~hR~wlL~~l~~~  139 (349)
T 3q7a_A           62 AIAAKEEKSERALELTEIIVRMN-PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLK-SYQVWHHRLLLLDRISPQ  139 (349)
T ss_dssp             HHHHTTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCC-CHHHHHHHHHHHHHHCCS
T ss_pred             HHHHhCCCCHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHhcCC
Confidence            33444556678999999999886 557778888888888888 599999999999988765 777888777777666 6 


Q ss_pred             ChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHh--------HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC-
Q 009255           95 MLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSM--------EAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGK-  165 (539)
Q Consensus        95 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--------~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-  165 (539)
                      ++++++.+++++.+.. +.+..+|+.-.-.+...+.++        ++++.++++.+..+. |..+|+.....+.+.+. 
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-PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDGR-NNSAWGWRWYLRVSRPGA  217 (349)
T ss_dssp             CCHHHHHHHHHHTSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHTTSTTC
T ss_pred             ChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhcccc
Confidence            8889999999998765 456777777666655555555        788888888776444 77777777777766665 


Q ss_pred             ------HhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCC
Q 009255          166 ------IDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGN  200 (539)
Q Consensus       166 ------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  200 (539)
                            ++++++.+++..... +-|...|+-+-..+.+.|.
T Consensus       218 ~~~~~~~~eELe~~~~aI~~~-P~n~SaW~Ylr~Ll~~~~~  257 (349)
T 3q7a_A          218 ETSSRSLQDELIYILKSIHLI-PHNVSAWNYLRGFLKHFSL  257 (349)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             ccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCC
Confidence                  567777777777653 4466667665555555443

>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=98.86  E-value=2.9e-08  Score=87.16  Aligned_cols=194  Identities=12%  Similarity=0.062  Sum_probs=116.3

Q ss_pred             cChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHH
Q 009255            8 PDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLI   87 (539)
Q Consensus         8 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~   87 (539)
                      .+...+..+...+.+.|++++|+..|++..... +.+...+..+..++.+.|++++|...++...+..+. +...+..+.
T Consensus         2 ~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg   79 (281)
T 2c2l_A            2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQ-SVKAHFFLG   79 (281)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTT-CHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-CHHHHHHHH
Confidence            355677778888888888888888888888774 447778888888888888888888888888876543 667778888


Q ss_pred             HHHHhcCChHHHHHHHHHHHhCCCCCCh-hhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCH
Q 009255           88 NGWCNAGMLEEAFRLRKEMESLKLLPDV-VTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKI  166 (539)
Q Consensus        88 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  166 (539)
                      .++...|++++|...|++..+..  |+. ..+...+....+   ...+.. +........+.+......+...  ..|+.
T Consensus        80 ~~~~~~g~~~~A~~~~~~al~l~--p~~~~~~~~~~~~~~~---~~~~~~-~~~~~~~~~~~~~~i~~~l~~l--~~~~~  151 (281)
T 2c2l_A           80 QCQLEMESYDEAIANLQRAYSLA--KEQRLNFGDDIPSALR---IAKKKR-WNSIEERRIHQESELHSYLTRL--IAAER  151 (281)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHH--HHTTCCCCSHHHHHHH---HHHHHH-HHHHHHTCCCCCCHHHHHHHHH--HHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC--ccchhhHHHHHHHHHH---HHHHHH-HHHHHHHHHhhhHHHHHHHHHH--HHHHH
Confidence            88888888888888888876542  211 111111111111   111111 1122222233344443333332  25667


Q ss_pred             hHHHHHHHHHHHcCCCCCh-hhHHHHHHHHHhc-CCHHHHHHHHHHHhh
Q 009255          167 DKACKIVRNMEENGFSPDC-VTYNTLIDANCKA-GNMEEAFRMMDVMGR  213 (539)
Q Consensus       167 ~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~-~~~~~a~~~~~~~~~  213 (539)
                      ++|.+.++...+.  .|+. .....+...+.+. +.+++|.++|.++.+
T Consensus       152 ~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~  198 (281)
T 2c2l_A          152 ERELEECQRNHEG--HEDDGHIRAQQACIEAKHDKYMADMDELFSQVDE  198 (281)
T ss_dssp             HHHHTTTSGGGTT--TSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHHHHHhhhcc--ccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            7777776666554  2332 2223333333333 456667777766544

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.85  E-value=1.5e-08  Score=81.04  Aligned_cols=99  Identities=8%  Similarity=-0.027  Sum_probs=46.4

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHH
Q 009255          360 IVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTA  439 (539)
Q Consensus       360 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~  439 (539)
                      ...+..+...+...|++++|+..|++.+..... +...|..+..+|...|++++|+..++++++.. +.+...+..++.+
T Consensus        11 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~   88 (164)
T 3sz7_A           11 SDKLKSEGNAAMARKEYSKAIDLYTQALSIAPA-NPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLGLA   88 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCc-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            334444444555555555555555555444211 34444444455555555555555555544332 2223444444444


Q ss_pred             HHhcCCHHHHHHHHHHHHHcC
Q 009255          440 LVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       440 ~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      +...|++++|++.++++++..
T Consensus        89 ~~~~g~~~~A~~~~~~al~~~  109 (164)
T 3sz7_A           89 RFDMADYKGAKEAYEKGIEAE  109 (164)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHccCHHHHHHHHHHHHHhC
Confidence            555555555555555554443

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.85  E-value=2.6e-08  Score=74.64  Aligned_cols=100  Identities=10%  Similarity=-0.091  Sum_probs=81.1

Q ss_pred             hHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCC
Q 009255          397 TYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPE  476 (539)
Q Consensus       397 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~  476 (539)
                      .+..++..+...|++++|+..++++++.. +.+...+..++.++...|++++|+..++++++.+                
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~----------------   81 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD----------------   81 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC----------------
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC----------------
Confidence            46667788889999999999999998753 4467788889999999999999999999999987                


Q ss_pred             CCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCH
Q 009255          477 EIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINK  517 (539)
Q Consensus       477 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~  517 (539)
                        |.+...+..++.+|...|++++|+..++++++  ..|+.
T Consensus        82 --P~~~~~~~~la~~~~~~g~~~~A~~~~~~al~--~~P~~  118 (121)
T 1hxi_A           82 --PKDIAVHAALAVSHTNEHNANAALASLRAWLL--SQPQY  118 (121)
T ss_dssp             --TTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHC-------
T ss_pred             --CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCcCC
Confidence              33445889999999999999999999999986  45654

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.83  E-value=2.3e-07  Score=79.15  Aligned_cols=188  Identities=10%  Similarity=-0.036  Sum_probs=135.0

Q ss_pred             ccCCHHHHHHHHHHHHHcCCCCCHhhHHHH-------HHHHHcCCCHHHHHHHHHHHHHCCCCCC---------------
Q 009255          267 RDEKANRALKLWDEMKERQIMPSTFTYNAM-------IWGLSQSGKTEQAIDMLNELLQSGMIPD---------------  324 (539)
Q Consensus       267 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-------~~~~~~~~~~~~a~~~~~~~~~~~~~~~---------------  324 (539)
                      ..++...|.+.|.++....+. ....|..+       ..++...++..+++..+.....  +.|+               
T Consensus        18 ~~~d~~~A~~~F~~a~~~dP~-~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~--l~p~~l~a~~~~~g~y~~~   94 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYDES-ACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQ--ISMSTLNARIAIGGLYGDI   94 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTT--CCGGGGCCEEECCTTTCCC
T ss_pred             cCCCHHHHHHHHHHHHHhChh-hhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhc--CChhhhhhhhccCCccccc
Confidence            578888888888888887554 56677666       3445444445555555544433  1111               


Q ss_pred             -------HHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC--h
Q 009255          325 -------ETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVD--S  395 (539)
Q Consensus       325 -------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~--~  395 (539)
                             ..........+...|++++|.+.|+.+...+  |+......+...+.+.+++++|+..|+...... .|.  .
T Consensus        95 ~~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~  171 (282)
T 4f3v_A           95 TYPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAG  171 (282)
T ss_dssp             EEECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHH
T ss_pred             ccccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHH
Confidence                   1223345667788999999999999888754  433366667778899999999999998665431 111  2


Q ss_pred             hhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCC--HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          396 VTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPD--RYTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       396 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      ..+..+..++...|++++|+..|++.......|.  .......+.++.+.|+.++|..+|+++...+
T Consensus       172 ~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~  238 (282)
T 4f3v_A          172 AAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTH  238 (282)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            3678889999999999999999999985433254  3466778889999999999999999999987

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.82  E-value=2.4e-08  Score=79.57  Aligned_cols=81  Identities=12%  Similarity=0.117  Sum_probs=66.3

Q ss_pred             HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHH
Q 009255          430 RYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETR  509 (539)
Q Consensus       430 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  509 (539)
                      ..++..++.++...|++++|+..++++++.+                  |.+..+|..++.+|...|++++|+..|++++
T Consensus        63 ~~~~~nla~~~~~~~~~~~A~~~~~~al~~~------------------p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al  124 (162)
T 3rkv_A           63 IPLYANMSQCYLNIGDLHEAEETSSEVLKRE------------------ETNEKALFRRAKARIAAWKLDEAEEDLKLLL  124 (162)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS------------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHhcC------------------CcchHHHHHHHHHHHHHhcHHHHHHHHHHHH
Confidence            4577788889999999999999999999987                  3344599999999999999999999999999


Q ss_pred             HcCCCCCHH-HHHHHHHHHHhc
Q 009255          510 QKGIAINKS-TYMNLMNGLIKR  530 (539)
Q Consensus       510 ~~~~~p~~~-~~~~~l~~~~~~  530 (539)
                      +  +.|+.. .+...+..+...
T Consensus       125 ~--l~p~~~~~~~~~l~~~~~~  144 (162)
T 3rkv_A          125 R--NHPAAASVVAREMKIVTER  144 (162)
T ss_dssp             H--HCGGGHHHHHHHHHHHHHH
T ss_pred             h--cCCCCHHHHHHHHHHHHHH
Confidence            7  578876 666666655443

>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=3.8e-08  Score=79.80  Aligned_cols=122  Identities=8%  Similarity=0.060  Sum_probs=92.4

Q ss_pred             hcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHH-HHccCCh--H
Q 009255          336 CSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISS-LCKERRL--E  412 (539)
Q Consensus       336 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~--~  412 (539)
                      ...|++++|...++..++.. +.+...+..+..+|...|++++|...|+++....+ .+...+..++.+ +...|++  +
T Consensus        21 ~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~la~~l~~~~~~~~~~   98 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRG-ENAELYAALATVLYYQASQHMTA   98 (177)
T ss_dssp             C-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHC-SCHHHHHHHHHHHHHHTTTCCCH
T ss_pred             hhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHhcCCcchH
Confidence            45677888888888877764 34677888888888888889999888888887633 366677778887 7788888  8


Q ss_pred             HHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          413 DAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       413 ~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      +|+..++++.+.. +.+...+..++.++...|++++|.+.++++++..
T Consensus        99 ~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  145 (177)
T 2e2e_A           99 QTRAMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMDLN  145 (177)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhC
Confidence            8999888888653 3346777788888888899999999999988886

>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=98.81  E-value=4.1e-08  Score=88.62  Aligned_cols=141  Identities=11%  Similarity=-0.001  Sum_probs=112.8

Q ss_pred             CCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCC----------------HhhHHHHH
Q 009255          374 GILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPD----------------RYTYAAIH  437 (539)
Q Consensus       374 g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~----------------~~~~~~l~  437 (539)
                      +++++|...|+...... +.+...+..++..+...|++++|+..|+++++..  |+                ..++..++
T Consensus       127 ~~~~~A~~~~~~a~~~~-p~~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~--p~~~~~~~~~~~~~~~~~~~~~~nla  203 (336)
T 1p5q_A          127 KSFEKAKESWEMNSEEK-LEQSTIVKERGTVYFKEGKYKQALLQYKKIVSWL--EYESSFSNEEAQKAQALRLASHLNLA  203 (336)
T ss_dssp             EEEECCCCGGGCCHHHH-HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT--TTCCCCCSHHHHHHHHHHHHHHHHHH
T ss_pred             eecccccchhcCCHHHH-HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHh--hccccCChHHHHHHHHHHHHHHHHHH
Confidence            44555555554443321 1145678889999999999999999999999763  33                47888999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCH
Q 009255          438 TALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINK  517 (539)
Q Consensus       438 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~  517 (539)
                      .++.+.|++++|++.++++++..                  +.+..+|..++.+|...|++++|+..|+++++  +.|+.
T Consensus       204 ~~~~~~g~~~~A~~~~~~al~~~------------------p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~--l~P~~  263 (336)
T 1p5q_A          204 MCHLKLQAFSAAIESCNKALELD------------------SNNEKGLSRRGEAHLAVNDFELARADFQKVLQ--LYPNN  263 (336)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC------------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCSSC
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC------------------CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--HCCCC
Confidence            99999999999999999999997                  34455999999999999999999999999998  57888


Q ss_pred             HHHHHHHHHHHhcCCchhhc
Q 009255          518 STYMNLMNGLIKRRKSISKA  537 (539)
Q Consensus       518 ~~~~~~l~~~~~~~~~~~~A  537 (539)
                      ......++.++...+++++|
T Consensus       264 ~~a~~~l~~~~~~~~~~~~a  283 (336)
T 1p5q_A          264 KAAKTQLAVCQQRIRRQLAR  283 (336)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            77777777777666667665

>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=98.81  E-value=3.4e-06  Score=74.29  Aligned_cols=222  Identities=12%  Similarity=0.047  Sum_probs=150.2

Q ss_pred             HHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCC----------HHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCC--
Q 009255          272 NRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGK----------TEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEG--  339 (539)
Q Consensus       272 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--  339 (539)
                      ++|+.++..++..++. +..+|+.=-..+...+.          +++++.+++.+....+. +..+|+.-..++...+  
T Consensus        47 ~eaL~~t~~~L~~nP~-~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~PK-ny~aW~hR~wlL~~l~~~  124 (331)
T 3dss_A           47 ESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLPEP  124 (331)
T ss_dssp             HHHHHHHHHHHTTCTT-CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHCSSC
T ss_pred             HHHHHHHHHHHHHCch-hHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHhccCcc
Confidence            3677777777766443 44444433333222222          56777888877776443 6666666555666666  


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCC-HHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcc----------
Q 009255          340 QVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGI-LEKALKFFRSWILKGKAVDSVTYNTLISSLCKE----------  408 (539)
Q Consensus       340 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----------  408 (539)
                      ++++++.+++.+++... -|..+|+.-..++...|. +++++..++++++..+. |...|+.....+...          
T Consensus       125 ~~~~EL~~~~k~l~~dp-rNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~p~-N~SAW~~R~~ll~~l~~~~~~~~~~  202 (331)
T 3dss_A          125 NWARELELCARFLEADE-RNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQLHPQPDSGPQG  202 (331)
T ss_dssp             CHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHHSCCC------
T ss_pred             cHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHhhhcccccccc
Confidence            47888888888888753 377777777777777777 58888888888887544 777787776666554          


Q ss_pred             ----CChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhc-----------CCHHHHHHHHHHHHHcCCCCcccccCCCCC
Q 009255          409 ----RRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVES-----------GRLEEAQKFTSIMVETGKINHQVVQPNTSK  473 (539)
Q Consensus       409 ----~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----------g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~  473 (539)
                          +.++++++.+.+++... +-|...|..+-..+...           +.++++++.+.++++..             
T Consensus       203 ~~~~~~~~eEle~~~~ai~~~-P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~~-------------  268 (331)
T 3dss_A          203 RLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQELE-------------  268 (331)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHHC-------------
T ss_pred             ccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHhhC-------------
Confidence                45788888888888653 44566666555555544           45789999999999987             


Q ss_pred             CCCCCCCChhhHHHHHHHH-----hhcCCHHHHHHHHHHHHHcCCCCCHHHH
Q 009255          474 TPEEIDPSSISYSEKINEH-----CSQGRYKDALQIFEETRQKGIAINKSTY  520 (539)
Q Consensus       474 ~~~~~~~~~~~~~~l~~~~-----~~~g~~~~A~~~~~~~~~~~~~p~~~~~  520 (539)
                            |+. .|..+..++     ...|..+++...+.++++  +.|-...+
T Consensus       269 ------pd~-~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~--~Dp~r~~~  311 (331)
T 3dss_A          269 ------PEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKA--VDPMRAAY  311 (331)
T ss_dssp             ------TTC-HHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHH--HCGGGHHH
T ss_pred             ------ccc-chHHHHHHHHHHhhcccccHHHHHHHHHHHHH--hCcchhhH
Confidence                  766 444333322     246888999999999997  56765543

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.81  E-value=1.1e-07  Score=72.27  Aligned_cols=112  Identities=12%  Similarity=0.025  Sum_probs=84.2

Q ss_pred             HHHHHHHHHccCChHHHHHHHHHHHhCCCCCCH---hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCC
Q 009255          398 YNTLISSLCKERRLEDAFGLLSEMEEKKLGPDR---YTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKT  474 (539)
Q Consensus       398 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~  474 (539)
                      +..++..+...|++++|+..|+++.+.. +.+.   ..+..++.++...|++++|++.++++++..              
T Consensus         5 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~--------------   69 (129)
T 2xev_A            5 AYNVAFDALKNGKYDDASQLFLSFLELY-PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY--------------   69 (129)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--------------
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHC-CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC--------------
Confidence            4556677788888999998888888643 2222   467778888889999999999999998886              


Q ss_pred             CCCCCCC----hhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC
Q 009255          475 PEEIDPS----SISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGLIKRR  531 (539)
Q Consensus       475 ~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~  531 (539)
                           |+    ..++..++.++...|++++|...|+++++.  .|+..........+-...
T Consensus        70 -----p~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~a~~~l~~l~  123 (129)
T 2xev_A           70 -----PTHDKAAGGLLKLGLSQYGEGKNTEAQQTLQQVATQ--YPGSDAARVAQERLQSIR  123 (129)
T ss_dssp             -----TTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTSHHHHHHHHHHHHHC
T ss_pred             -----CCCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCChHHHHHHHHHHHHH
Confidence                 43    347888899999999999999999999873  577665555555444433

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.79  E-value=1.1e-08  Score=76.25  Aligned_cols=110  Identities=9%  Similarity=0.020  Sum_probs=79.8

Q ss_pred             ccCChHHHHHHHHHHHhCCC--CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhh
Q 009255          407 KERRLEDAFGLLSEMEEKKL--GPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSIS  484 (539)
Q Consensus       407 ~~~~~~~A~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  484 (539)
                      ..|++++|+..|+++++.+.  +.+..++..++.++...|++++|++.++++++..                  |.+...
T Consensus         2 ~~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~------------------p~~~~~   63 (117)
T 3k9i_A            2 VLGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQF------------------PNHQAL   63 (117)
T ss_dssp             -----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC------------------TTCHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC------------------CCchHH
Confidence            35788899999999986531  2235677888899999999999999999999987                  334458


Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCchhh
Q 009255          485 YSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGLIKRRKSISK  536 (539)
Q Consensus       485 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~  536 (539)
                      +..++.++...|++++|+..++++++  ..|+......+..++..-.+.+++
T Consensus        64 ~~~l~~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~~~ai~~~~~~l~~  113 (117)
T 3k9i_A           64 RVFYAMVLYNLGRYEQGVELLLKIIA--ETSDDETIQSYKQAILFYADKLDE  113 (117)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHH--HHCCCHHHHHTHHHHHHHTTCTTC
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCcHHHHHHHHHHHHHHHHHHH
Confidence            89999999999999999999999987  356666665555555443333443

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.77  E-value=1.4e-07  Score=69.45  Aligned_cols=99  Identities=11%  Similarity=0.057  Sum_probs=79.3

Q ss_pred             ChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCC
Q 009255          394 DSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSK  473 (539)
Q Consensus       394 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~  473 (539)
                      +...+..++..+...|++++|+..++++.+.. +.+..++..++.++...|++++|.+.++++++..             
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-------------   70 (112)
T 2kck_A            5 NPEEYYLEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVI-------------   70 (112)
T ss_dssp             STTGGGGHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-------------
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-------------
Confidence            45567778888888888888888888887653 4456777788888888899999999999888876             


Q ss_pred             CCCCCCC--ChhhHHHHHHHHhhc-CCHHHHHHHHHHHHHc
Q 009255          474 TPEEIDP--SSISYSEKINEHCSQ-GRYKDALQIFEETRQK  511 (539)
Q Consensus       474 ~~~~~~~--~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~  511 (539)
                           +.  +...|..++.++... |++++|++.++++++.
T Consensus        71 -----~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~~  106 (112)
T 2kck_A           71 -----EDEYNKDVWAAKADALRYIEGKEVEAEIAEARAKLE  106 (112)
T ss_dssp             -----CCTTCHHHHHHHHHHHTTCSSCSHHHHHHHHHHGGG
T ss_pred             -----cccchHHHHHHHHHHHHHHhCCHHHHHHHHHHHhhc
Confidence                 23  455888888888899 9999999999988864

>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=98.77  E-value=9.4e-08  Score=72.27  Aligned_cols=100  Identities=13%  Similarity=0.092  Sum_probs=80.7

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCC--CCCC----HhhH
Q 009255          360 IVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKK--LGPD----RYTY  433 (539)
Q Consensus       360 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~----~~~~  433 (539)
                      ...+..+...+.+.|++++|+..|+++++..+. +...|..++.+|...|++++|+..++++++..  ..++    ..++
T Consensus         8 A~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p~-~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~   86 (127)
T 4gcn_A            8 AIAEKDLGNAAYKQKDFEKAHVHYDKAIELDPS-NITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAM   86 (127)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHH
Confidence            345667888889999999999999998887433 67788889999999999999999999887542  1111    2467


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          434 AAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       434 ~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      ..++.++...|++++|++.|+++++..
T Consensus        87 ~~lg~~~~~~~~~~~A~~~~~kal~~~  113 (127)
T 4gcn_A           87 SRAGNAFQKQNDLSLAVQWFHRSLSEF  113 (127)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            778889999999999999999999876

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.77  E-value=9.4e-08  Score=79.40  Aligned_cols=158  Identities=9%  Similarity=-0.113  Sum_probs=96.4

Q ss_pred             cCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhC----CC-CCCHHhHHHHHHHHHhcCCH
Q 009255          302 QSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEK----SF-KPDIVTCNILLSGLCREGIL  376 (539)
Q Consensus       302 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~g~~  376 (539)
                      ..|++++|.+.++.+.. .+......+..+...+...|++++|...+++..+.    +. .....++..+..+|...|++
T Consensus         4 ~~g~~~~A~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~   82 (203)
T 3gw4_A            4 EAHDYALAERQAQALLA-HPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNW   82 (203)
T ss_dssp             ---CHHHHHHHHHHHHT-STTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             ccccHHHHHHHHHHhcC-ChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCH
Confidence            45666666664433322 12223445666666666677777777766666541    11 12344566677777788888


Q ss_pred             HHHHHHHHHHHHc---CC-CC--ChhhHHHHHHHHHccCChHHHHHHHHHHHhCC---CCCC--HhhHHHHHHHHHhcCC
Q 009255          377 EKALKFFRSWILK---GK-AV--DSVTYNTLISSLCKERRLEDAFGLLSEMEEKK---LGPD--RYTYAAIHTALVESGR  445 (539)
Q Consensus       377 ~~A~~~~~~~~~~---~~-~~--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~---~~~~--~~~~~~l~~~~~~~g~  445 (539)
                      ++|...+++....   .. .|  ....+..+...+...|++++|...+++.....   -.+.  ..++..++.++...|+
T Consensus        83 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~  162 (203)
T 3gw4_A           83 DAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKN  162 (203)
T ss_dssp             HHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcC
Confidence            8888887776653   11 11  12356777788888888888888888776421   0111  2345677788888899


Q ss_pred             HHHHHHHHHHHHHcC
Q 009255          446 LEEAQKFTSIMVETG  460 (539)
Q Consensus       446 ~~~A~~~~~~~~~~~  460 (539)
                      +++|.+.++++++..
T Consensus       163 ~~~A~~~~~~al~~~  177 (203)
T 3gw4_A          163 LLEAQQHWLRARDIF  177 (203)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
Confidence            999988888887653

>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=98.75  E-value=3.6e-07  Score=67.96  Aligned_cols=100  Identities=16%  Similarity=0.090  Sum_probs=76.2

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHH
Q 009255          359 DIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHT  438 (539)
Q Consensus       359 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~  438 (539)
                      ....+..+...+...|++++|...+++.....+ .+...+..++.++...|++++|...++++.+.. +.+...+..++.
T Consensus         3 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~   80 (118)
T 1elw_A            3 QVNELKEKGNKALSVGNIDDALQCYSEAIKLDP-HNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAA   80 (118)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHH
Confidence            345666777777888888888888888877632 366677788888888888888888888887653 335667777888


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcC
Q 009255          439 ALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       439 ~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      ++...|++++|.+.++++++..
T Consensus        81 ~~~~~~~~~~A~~~~~~~~~~~  102 (118)
T 1elw_A           81 ALEFLNRFEEAKRTYEEGLKHE  102 (118)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHhhHHHHHHHHHHHHHcC
Confidence            8888888888888888888776

>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=98.75  E-value=1.7e-07  Score=77.45  Aligned_cols=132  Identities=10%  Similarity=-0.071  Sum_probs=94.2

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCh----------------hhHHHHHHHHHccCChHHHHHHHHHHHh
Q 009255          360 IVTCNILLSGLCREGILEKALKFFRSWILKGKAVDS----------------VTYNTLISSLCKERRLEDAFGLLSEMEE  423 (539)
Q Consensus       360 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~----------------~~~~~l~~~~~~~~~~~~A~~~~~~~~~  423 (539)
                      ...+..+...+...|++++|...|++....... ++                ..|..++.+|...|++++|+..++++++
T Consensus        38 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~  116 (198)
T 2fbn_A           38 AFDIKEEGNEFFKKNEINEAIVKYKEALDFFIH-TEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLK  116 (198)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTT-CTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhc-ccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            344555666667777777777777777664222 22                6788888999999999999999999987


Q ss_pred             CCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHH-
Q 009255          424 KKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDAL-  502 (539)
Q Consensus       424 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~-  502 (539)
                      .. +.+..++..++.++...|++++|++.++++++..                  +.+..++..++.++...|+.+++. 
T Consensus       117 ~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~------------------p~~~~~~~~l~~~~~~~~~~~~~~~  177 (198)
T 2fbn_A          117 ID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLN------------------PNNLDIRNSYELCVNKLKEARKKDK  177 (198)
T ss_dssp             HS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS------------------TTCHHHHHHHHHHHHHHHHHHC---
T ss_pred             hC-cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC------------------CCcHHHHHHHHHHHHHHHHHHHHHH
Confidence            53 4467788889999999999999999999999987                  334458888998988888888887 


Q ss_pred             HHHHHHHHc
Q 009255          503 QIFEETRQK  511 (539)
Q Consensus       503 ~~~~~~~~~  511 (539)
                      ..+.++...
T Consensus       178 ~~~~~~f~~  186 (198)
T 2fbn_A          178 LTFGGMFDK  186 (198)
T ss_dssp             ---------
T ss_pred             HHHHHHhcc
Confidence            556666543

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.72  E-value=1.7e-07  Score=72.56  Aligned_cols=100  Identities=13%  Similarity=-0.026  Sum_probs=79.8

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHH
Q 009255          359 DIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHT  438 (539)
Q Consensus       359 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~  438 (539)
                      +...+..+...+.+.|++++|...|+++....+ .+...|..++.++...|++++|+..|++++... +.+...+..++.
T Consensus        17 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~   94 (142)
T 2xcb_A           17 TLEQLYALGFNQYQAGKWDDAQKIFQALCMLDH-YDARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAE   94 (142)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHccHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHH
Confidence            445566677788888999999999988887643 367788888888888999999999998888653 334567778888


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcC
Q 009255          439 ALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       439 ~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      ++...|++++|++.++++++..
T Consensus        95 ~~~~~g~~~~A~~~~~~al~~~  116 (142)
T 2xcb_A           95 CHLQLGDLDGAESGFYSARALA  116 (142)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC
Confidence            8888999999999999888876

>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=98.72  E-value=3.6e-07  Score=69.04  Aligned_cols=99  Identities=14%  Similarity=0.062  Sum_probs=75.2

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHH
Q 009255          360 IVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTA  439 (539)
Q Consensus       360 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~  439 (539)
                      ...+......+.+.|++++|...|++.+...+ .+...|..++.++...|++++|+..++++++.. +.+...+..++.+
T Consensus         4 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~   81 (126)
T 3upv_A            4 AEEARLEGKEYFTKSDWPNAVKAYTEMIKRAP-EDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATA   81 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHH
Confidence            44566677777888888888888888877633 366778888888888888888888888887653 3346677778888


Q ss_pred             HHhcCCHHHHHHHHHHHHHcC
Q 009255          440 LVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       440 ~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      +...|++++|++.++++++..
T Consensus        82 ~~~~~~~~~A~~~~~~al~~~  102 (126)
T 3upv_A           82 QIAVKEYASALETLDAARTKD  102 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHhCHHHHHHHHHHHHHhC
Confidence            888888888888888887764

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.71  E-value=2.4e-07  Score=73.84  Aligned_cols=99  Identities=10%  Similarity=-0.005  Sum_probs=88.5

Q ss_pred             CHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHH
Q 009255          324 DETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLIS  403 (539)
Q Consensus       324 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~  403 (539)
                      +...+..+...+...|++++|...|++.++.. +.+...+..+..+|...|++++|+..|++++..... +...|..+..
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~   87 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPK-YSKAWSRLGL   87 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHH
Confidence            45678888899999999999999999999875 347889999999999999999999999999988533 6788999999


Q ss_pred             HHHccCChHHHHHHHHHHHhC
Q 009255          404 SLCKERRLEDAFGLLSEMEEK  424 (539)
Q Consensus       404 ~~~~~~~~~~A~~~~~~~~~~  424 (539)
                      ++...|++++|+..|+++++.
T Consensus        88 ~~~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           88 ARFDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHh
Confidence            999999999999999999865

>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=98.70  E-value=4.8e-06  Score=73.30  Aligned_cols=192  Identities=9%  Similarity=0.021  Sum_probs=144.9

Q ss_pred             cCCCH-HHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCC----------HHHHHHHHHHHHhCCCCCCHHhHHHHHHHH
Q 009255          302 QSGKT-EQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQ----------VEKALQFHNKMVEKSFKPDIVTCNILLSGL  370 (539)
Q Consensus       302 ~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  370 (539)
                      +.|.+ ++|+.++..+....+. +...++.--..+...+.          +++++.+++.++...+ -+..+|+.-..++
T Consensus        41 ~~~e~s~eaL~~t~~~L~~nP~-~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~P-Kny~aW~hR~wlL  118 (331)
T 3dss_A           41 QAGELDESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNP-KSYGTWHHRCWLL  118 (331)
T ss_dssp             HTTCCSHHHHHHHHHHHTTCTT-CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHH
T ss_pred             HcCCCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhCC-CCHHHHHHHHHHH
Confidence            44444 5789999999876433 33444433333332222          6788999999988753 4788888887788


Q ss_pred             HhcC--CHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCC-hHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhc----
Q 009255          371 CREG--ILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERR-LEDAFGLLSEMEEKKLGPDRYTYAAIHTALVES----  443 (539)
Q Consensus       371 ~~~g--~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----  443 (539)
                      ...+  .++++..+++++.+..+. |..+|+.-..+....|. ++++++.+.++++.+ +-|..+|.....++...    
T Consensus       119 ~~l~~~~~~~EL~~~~k~l~~dpr-Ny~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~-p~N~SAW~~R~~ll~~l~~~~  196 (331)
T 3dss_A          119 SRLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQP  196 (331)
T ss_dssp             HHCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHHSCCC
T ss_pred             hccCcccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhhhcc
Confidence            8888  489999999999998655 88899988888888888 599999999999865 45677777776666554    


Q ss_pred             ----------CCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhc-----------CCHHHHH
Q 009255          444 ----------GRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQ-----------GRYKDAL  502 (539)
Q Consensus       444 ----------g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----------g~~~~A~  502 (539)
                                +.++++++++.+++..+                  |-+..+|+.+...+...           +.+++++
T Consensus       197 ~~~~~~~~~~~~~~eEle~~~~ai~~~------------------P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el  258 (331)
T 3dss_A          197 DSGPQGRLPENVLLKELELVQNAFFTD------------------PNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSEL  258 (331)
T ss_dssp             ------CCCHHHHHHHHHHHHHHHHHS------------------TTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHH
T ss_pred             ccccccccchHHHHHHHHHHHHHHHhC------------------CCCHHHHHHHHHHHHhccCccccchHHHHHHHHHH
Confidence                      45889999999999998                  44555898777676665           4689999


Q ss_pred             HHHHHHHHcCCCCCH
Q 009255          503 QIFEETRQKGIAINK  517 (539)
Q Consensus       503 ~~~~~~~~~~~~p~~  517 (539)
                      +.++++++  +.||.
T Consensus       259 ~~~~elle--~~pd~  271 (331)
T 3dss_A          259 ESCKELQE--LEPEN  271 (331)
T ss_dssp             HHHHHHHH--HCTTC
T ss_pred             HHHHHHHh--hCccc
Confidence            99999998  57886

>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=98.66  E-value=2.8e-07  Score=70.11  Aligned_cols=109  Identities=14%  Similarity=0.231  Sum_probs=87.1

Q ss_pred             hhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCC
Q 009255          395 SVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKT  474 (539)
Q Consensus       395 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~  474 (539)
                      ...+..++..+...|++++|+..++++.+.. +.+..++..++.++...|++++|..+++++++.....           
T Consensus         4 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~-----------   71 (131)
T 1elr_A            4 ALKEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGREN-----------   71 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHS-----------
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhcccc-----------
Confidence            3467778888889999999999999988753 4467778888999999999999999999998876110           


Q ss_pred             CCCCCCC----hhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHH
Q 009255          475 PEEIDPS----SISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYM  521 (539)
Q Consensus       475 ~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~  521 (539)
                          +++    ...+..++.++...|++++|.+.|+++++.  .|+.....
T Consensus        72 ----~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~  116 (131)
T 1elr_A           72 ----REDYRQIAKAYARIGNSYFKEEKYKDAIHFYNKSLAE--HRTPDVLK  116 (131)
T ss_dssp             ----TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHH
T ss_pred             ----chhHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCHHHHH
Confidence                111    458899999999999999999999999984  56644443

>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=98.66  E-value=4.1e-07  Score=69.91  Aligned_cols=101  Identities=14%  Similarity=0.020  Sum_probs=80.6

Q ss_pred             CCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHH
Q 009255          358 PDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIH  437 (539)
Q Consensus       358 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~  437 (539)
                      .+...+..+...+...|++++|...|++.+...+ .+...|..++.++...|++++|+..++++.+.. +.+...+..++
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~   84 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNP-LVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   84 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCc-CcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHH
Confidence            4567778888888888888888888888887643 366778888888888888888888888888653 34567778888


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcC
Q 009255          438 TALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       438 ~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      .++...|++++|++.++++++..
T Consensus        85 ~~~~~~~~~~~A~~~~~~a~~~~  107 (137)
T 3q49_B           85 QCQLEMESYDEAIANLQRAYSLA  107 (137)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHHC
Confidence            88888888888888888888765

>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=98.65  E-value=9.6e-07  Score=85.20  Aligned_cols=173  Identities=11%  Similarity=0.022  Sum_probs=139.4

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCC----------HHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccC-
Q 009255          341 VEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGI----------LEKALKFFRSWILKGKAVDSVTYNTLISSLCKER-  409 (539)
Q Consensus       341 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~----------~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-  409 (539)
                      .++|.+.++.++..++ -+..+|+.-..++...|+          ++++.++++.+....++ +..+|..-..++.+.+ 
T Consensus        45 ~eeal~~~~~~l~~nP-~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~pK-~y~aW~hR~w~l~~l~~  122 (567)
T 1dce_A           45 DESVLELTSQILGANP-DFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLPE  122 (567)
T ss_dssp             SHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCSS
T ss_pred             CHHHHHHHHHHHHHCc-hhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHccc
Confidence            4567888888887643 356667666666666666          89999999999988555 7889999899999999 


Q ss_pred             -ChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcC-CHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHH
Q 009255          410 -RLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESG-RLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSE  487 (539)
Q Consensus       410 -~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  487 (539)
                       ++++++..++++.+.. +-+..+|..-..++...| .++++.+++.++++.+                  +.+..+|+.
T Consensus       123 ~~~~~el~~~~k~l~~d-~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~------------------p~n~saW~~  183 (567)
T 1dce_A          123 PNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN------------------FSNYSSWHY  183 (567)
T ss_dssp             CCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT------------------CCCHHHHHH
T ss_pred             ccHHHHHHHHHHHHhhc-cccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHC------------------CCCccHHHH
Confidence             7799999999999864 456788888888888889 8999999999999987                  455669999


Q ss_pred             HHHHHhhc--------------CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCchhh
Q 009255          488 KINEHCSQ--------------GRYKDALQIFEETRQKGIAINKSTYMNLMNGLIKRRKSISK  536 (539)
Q Consensus       488 l~~~~~~~--------------g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~  536 (539)
                      .+.++...              +++++|++.+++++.  ..|++.+...+++.++...++.++
T Consensus       184 r~~ll~~l~~~~~~~~~~~~~~~~~~eel~~~~~ai~--~~P~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          184 RSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFF--TDPNDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             HHHHHHHHSCCCCSSSCCSSCHHHHHHHHHHHHHHHH--HCSSCSHHHHHHHHHHSCCCCCSC
T ss_pred             HHHHHHhhcccccccccccccHHHHHHHHHHHHHHHh--hCCCCccHHHHHHHHHhcCCCccc
Confidence            98888764              568999999999997  578888777788888887776444

>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=98.64  E-value=3.3e-07  Score=69.68  Aligned_cols=100  Identities=12%  Similarity=0.080  Sum_probs=74.4

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCC--CCC----HhhH
Q 009255          360 IVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKL--GPD----RYTY  433 (539)
Q Consensus       360 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~--~~~----~~~~  433 (539)
                      ...+..+...+...|++++|...++++.... +.+...+..++..+...|++++|+..++++.....  .++    ..++
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            3456667777778888888888888877763 33566777788888888888888888888775421  112    5667


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          434 AAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       434 ~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      ..++.++...|++++|.+.++++++..
T Consensus        83 ~~la~~~~~~~~~~~A~~~~~~~~~~~  109 (131)
T 1elr_A           83 ARIGNSYFKEEKYKDAIHFYNKSLAEH  109 (131)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhC
Confidence            778888888888888888888888875

>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=98.64  E-value=4.6e-07  Score=69.56  Aligned_cols=92  Identities=12%  Similarity=0.041  Sum_probs=72.1

Q ss_pred             HHHHHHHHHccCChHHHHHHHHHHHhCCCCCC-------------HhhHHHHHHHHHhcCCHHHHHHHHHHHHHc-----
Q 009255          398 YNTLISSLCKERRLEDAFGLLSEMEEKKLGPD-------------RYTYAAIHTALVESGRLEEAQKFTSIMVET-----  459 (539)
Q Consensus       398 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~-------------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----  459 (539)
                      +...+..+...|++++|+..|+++++.  .|+             ...|..++.++...|++++|+..++++++.     
T Consensus        14 ~~~~G~~l~~~g~~eeAi~~Y~kAL~l--~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~   91 (159)
T 2hr2_A           14 ALSDAQRQLVAGEYDEAAANCRRAMEI--SHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRG   91 (159)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHH--HTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhh--CCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccc
Confidence            344445555566666666666666543  222             237888999999999999999999999998     


Q ss_pred             --CCCCcccccCCCCCCCCCCCCChh-hH----HHHHHHHhhcCCHHHHHHHHHHHHH
Q 009255          460 --GKINHQVVQPNTSKTPEEIDPSSI-SY----SEKINEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       460 --~~~~~~~~~~~~~~~~~~~~~~~~-~~----~~l~~~~~~~g~~~~A~~~~~~~~~  510 (539)
                        +                   |+.. +|    +..+.++...|++++|+..|+++++
T Consensus        92 e~~-------------------pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAle  130 (159)
T 2hr2_A           92 ELN-------------------QDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  130 (159)
T ss_dssp             CTT-------------------STHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cCC-------------------CchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHh
Confidence              6                   6665 89    9999999999999999999999987

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.64  E-value=1.1e-06  Score=82.77  Aligned_cols=169  Identities=13%  Similarity=0.068  Sum_probs=117.5

Q ss_pred             HHHHHHHHhcCCCHHHHHHHHHHHHhCCC-CCCH----HhHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCC-Chhh
Q 009255          328 FNTIIHGFCSEGQVEKALQFHNKMVEKSF-KPDI----VTCNILLSGLCREGILEKALKFFRSWILK----GKAV-DSVT  397 (539)
Q Consensus       328 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~~-~~~~  397 (539)
                      +..++..|...|++++|.+.+..+.+... .++.    .+.+.+...+...|+++.|..+++.....    +..+ -..+
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            56677788888888888888877664210 1111    12333344455678889999888876643    2222 2346


Q ss_pred             HHHHHHHHHccCChHHHHHHHHHHHhC--CC--CC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCC
Q 009255          398 YNTLISSLCKERRLEDAFGLLSEMEEK--KL--GP-DRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTS  472 (539)
Q Consensus       398 ~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~--~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~  472 (539)
                      +..++..+...|++++|..+++++...  +.  .+ ...++..+++.|...|++++|..+++++........        
T Consensus       138 ~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~--------  209 (434)
T 4b4t_Q          138 SIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIY--------  209 (434)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSC--------
T ss_pred             HHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCC--------
Confidence            778899999999999999999987643  11  11 145777888999999999999999999876532100        


Q ss_pred             CCCCCCCC-Ch--hhHHHHHHHHhhcCCHHHHHHHHHHHHH
Q 009255          473 KTPEEIDP-SS--ISYSEKINEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       473 ~~~~~~~~-~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~  510 (539)
                            .| ..  ..+..++..+...|++++|...|.++.+
T Consensus       210 ------~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          210 ------CPTQTVAELDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             ------CCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             ------CchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence                  12 21  2677888889999999999999888764

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.63  E-value=1.4e-06  Score=67.94  Aligned_cols=100  Identities=19%  Similarity=0.047  Sum_probs=75.0

Q ss_pred             CCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC----hhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhH
Q 009255          358 PDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVD----SVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTY  433 (539)
Q Consensus       358 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~  433 (539)
                      .+...+..+...+...|++++|...|++....  .|+    ...|..++.++...|++++|+..+++..+.. +.+...+
T Consensus        26 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  102 (148)
T 2dba_A           26 SSVEQLRKEGNELFKCGDYGGALAAYTQALGL--DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKAL  102 (148)
T ss_dssp             CCHHHHHHHHHHHHTTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHH
T ss_pred             HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH--cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHH
Confidence            35566777777777888888888888877765  334    5667777788888888888888888877642 3356677


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          434 AAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       434 ~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      ..++.++...|++++|.++++++++..
T Consensus       103 ~~~a~~~~~~~~~~~A~~~~~~al~~~  129 (148)
T 2dba_A          103 YRRSQALEKLGRLDQAVLDLQRCVSLE  129 (148)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHcC
Confidence            778888888888888888888888876

>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=98.62  E-value=2.4e-07  Score=87.38  Aligned_cols=80  Identities=6%  Similarity=0.039  Sum_probs=38.2

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHH
Q 009255          431 YTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       431 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  510 (539)
                      .++..++.++.+.|++++|+..++++++..                  +.+..+|..++.+|...|++++|+..|+++++
T Consensus       318 ~~~~nla~~~~~~g~~~~A~~~~~~al~~~------------------p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~  379 (457)
T 1kt0_A          318 AAFLNLAMCYLKLREYTKAVECCDKALGLD------------------SANEKGLYRRGEAQLLMNEFESAKGDFEKVLE  379 (457)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS------------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhcC------------------CccHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            344455555555555555555555555554                  12223555555555555555555555555554


Q ss_pred             cCCCCCHHHHHHHHHHHHhc
Q 009255          511 KGIAINKSTYMNLMNGLIKR  530 (539)
Q Consensus       511 ~~~~p~~~~~~~~l~~~~~~  530 (539)
                        +.|+.......++.++..
T Consensus       380 --l~P~~~~a~~~l~~~~~~  397 (457)
T 1kt0_A          380 --VNPQNKAARLQISMCQKK  397 (457)
T ss_dssp             --TC----CHHHHHHHHHHH
T ss_pred             --hCCCCHHHHHHHHHHHHH
Confidence              345544444444444433

>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=98.62  E-value=1.8e-07  Score=85.39  Aligned_cols=87  Identities=10%  Similarity=0.057  Sum_probs=58.1

Q ss_pred             HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHH
Q 009255          430 RYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETR  509 (539)
Q Consensus       430 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  509 (539)
                      ..++..++.++.+.|++++|++.++++++..                  +.+..+|..++.+|...|++++|++.|++++
T Consensus       273 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~------------------p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al  334 (370)
T 1ihg_A          273 LSCVLNIGACKLKMSDWQGAVDSCLEALEID------------------PSNTKALYRRAQGWQGLKEYDQALADLKKAQ  334 (370)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC------------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccCHHHHHHHHHHHHHhC------------------chhHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            4566667777777777777777777777765                  2233477777777777777777777777777


Q ss_pred             HcCCCCCHHHHHHHHHHHHhcCCchhh
Q 009255          510 QKGIAINKSTYMNLMNGLIKRRKSISK  536 (539)
Q Consensus       510 ~~~~~p~~~~~~~~l~~~~~~~~~~~~  536 (539)
                      +  +.|+.......+..+....++.++
T Consensus       335 ~--l~P~~~~~~~~l~~~~~~~~~~~~  359 (370)
T 1ihg_A          335 E--IAPEDKAIQAELLKVKQKIKAQKD  359 (370)
T ss_dssp             H--HCTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             H--hCCCCHHHHHHHHHHHHHHHHHHH
Confidence            6  456666666666655554444443

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.62  E-value=2.8e-07  Score=73.25  Aligned_cols=137  Identities=12%  Similarity=0.000  Sum_probs=96.0

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-CC----hhhHHHHHHHHHccCChHHHHHHHHHHHhCCC-CCC----H
Q 009255          361 VTCNILLSGLCREGILEKALKFFRSWILKGKA-VD----SVTYNTLISSLCKERRLEDAFGLLSEMEEKKL-GPD----R  430 (539)
Q Consensus       361 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~----~  430 (539)
                      .++..+...+...|++++|...+++....... ++    ..++..++..+...|++++|...++++.+... .++    .
T Consensus        10 ~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~   89 (164)
T 3ro3_A           10 RAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEA   89 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHH
Confidence            35566677777778888888887776654111 11    13667788888888888888888888764310 111    3


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCC-hhhHHHHHHHHhhcCCHHHHHHHHHHHH
Q 009255          431 YTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPS-SISYSEKINEHCSQGRYKDALQIFEETR  509 (539)
Q Consensus       431 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~  509 (539)
                      .++..++.++...|++++|.+.++++++......             .++. ...+..++.++...|++++|.+.+++++
T Consensus        90 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~-------------~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~  156 (164)
T 3ro3_A           90 QSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELK-------------DRIGEGRACWSLGNAYTALGNHDQAMHFAEKHL  156 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT-------------CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHcc-------------chHhHHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            4566788888999999999999999886531100             0111 2277889999999999999999999987


Q ss_pred             H
Q 009255          510 Q  510 (539)
Q Consensus       510 ~  510 (539)
                      +
T Consensus       157 ~  157 (164)
T 3ro3_A          157 E  157 (164)
T ss_dssp             H
T ss_pred             H
Confidence            6

>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=98.61  E-value=4e-08  Score=93.13  Aligned_cols=123  Identities=13%  Similarity=0.062  Sum_probs=78.9

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcC
Q 009255          365 ILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESG  444 (539)
Q Consensus       365 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  444 (539)
                      .+...+.+.|++++|.+.++++.+..+. +...|..++.+|...|++++|+..++++.+.. +.+..++..++.++...|
T Consensus        11 ~lg~~~~~~g~~~~A~~~~~~Al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~g   88 (477)
T 1wao_1           11 TQANDYFKAKDYENAIKFYSQAIELNPS-NAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALG   88 (477)
T ss_dssp             SSSSSTTTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcC
Confidence            3444556677777777777777766322 56677777777777777777777777777653 334566677777777777


Q ss_pred             CHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHH--HhhcCCHHHHHHHHHH
Q 009255          445 RLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINE--HCSQGRYKDALQIFEE  507 (539)
Q Consensus       445 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~g~~~~A~~~~~~  507 (539)
                      ++++|++.++++++..                  +.+...+..++.+  +.+.|++++|++.+++
T Consensus        89 ~~~eA~~~~~~al~~~------------------p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~~  135 (477)
T 1wao_1           89 KFRAALRDYETVVKVK------------------PHDKDAKMKYQECNKIVKQKAFERAIAGDEH  135 (477)
T ss_dssp             CHHHHHHHHHHHHHHS------------------TTCTTHHHHHHHHHHHHHHHHHCCC------
T ss_pred             CHHHHHHHHHHHHHhC------------------CCCHHHHHHHHHHHHHHHHHHHHHHhccccc
Confidence            7777777777777765                  2223355555555  6677777777777665

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.59  E-value=5.9e-07  Score=66.00  Aligned_cols=100  Identities=15%  Similarity=0.027  Sum_probs=75.2

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCC--CHhhHHHH
Q 009255          359 DIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGP--DRYTYAAI  436 (539)
Q Consensus       359 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~--~~~~~~~l  436 (539)
                      +...+..+...+...|++++|...++++..... .+...+..++.++...|++++|+..++++.+.. +.  +..++..+
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l   82 (112)
T 2kck_A            5 NPEEYYLEGVLQYDAGNYTESIDLFEKAIQLDP-EESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAK   82 (112)
T ss_dssp             STTGGGGHHHHHHSSCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCc-CCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHH
Confidence            445666677777788888888888888777632 356677778888888888888888888887653 33  46677778


Q ss_pred             HHHHHhc-CCHHHHHHHHHHHHHcC
Q 009255          437 HTALVES-GRLEEAQKFTSIMVETG  460 (539)
Q Consensus       437 ~~~~~~~-g~~~~A~~~~~~~~~~~  460 (539)
                      +.++... |++++|.+.++++++..
T Consensus        83 ~~~~~~~~~~~~~A~~~~~~~~~~~  107 (112)
T 2kck_A           83 ADALRYIEGKEVEAEIAEARAKLEH  107 (112)
T ss_dssp             HHHHTTCSSCSHHHHHHHHHHGGGC
T ss_pred             HHHHHHHhCCHHHHHHHHHHHhhcc
Confidence            8888888 88888888888888776

>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=4.6e-07  Score=67.68  Aligned_cols=97  Identities=11%  Similarity=-0.057  Sum_probs=69.3

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHH
Q 009255          362 TCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALV  441 (539)
Q Consensus       362 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~  441 (539)
                      .+..+...+.+.|++++|...|++++...+. +...|..++.++...|++++|+..|+++++.. +.+...+..++.++.
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~~~~~la~~~~   96 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQKEPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHT   96 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            3445666677778888888888887776332 66677777778888888888888888877653 334566777777788


Q ss_pred             hcCCHHHHHHHHHHHHHcC
Q 009255          442 ESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       442 ~~g~~~~A~~~~~~~~~~~  460 (539)
                      ..|++++|++.++++++..
T Consensus        97 ~~g~~~~A~~~~~~al~~~  115 (121)
T 1hxi_A           97 NEHNANAALASLRAWLLSQ  115 (121)
T ss_dssp             HHHHHHHHHHHHHHHHC--
T ss_pred             HcCCHHHHHHHHHHHHHhC
Confidence            8888888888888877765

>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=98.56  E-value=1.5e-07  Score=89.21  Aligned_cols=124  Identities=15%  Similarity=0.045  Sum_probs=97.9

Q ss_pred             HHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccC
Q 009255          330 TIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKER  409 (539)
Q Consensus       330 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  409 (539)
                      .+...+...|++++|...++++++.. +.+..++..+..+|.+.|++++|+..++++.+..+ .+...|..++.+|...|
T Consensus        11 ~lg~~~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p-~~~~~~~~lg~~~~~~g   88 (477)
T 1wao_1           11 TQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDK-KYIKGYYRRAASNMALG   88 (477)
T ss_dssp             SSSSSTTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCT-TCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcC
Confidence            34456778899999999999999874 34688999999999999999999999999998743 36778999999999999


Q ss_pred             ChHHHHHHHHHHHhCCCCCCHhhHHHHHHH--HHhcCCHHHHHHHHHHH
Q 009255          410 RLEDAFGLLSEMEEKKLGPDRYTYAAIHTA--LVESGRLEEAQKFTSIM  456 (539)
Q Consensus       410 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~g~~~~A~~~~~~~  456 (539)
                      ++++|+..++++.+.. +.+...+..+..+  +.+.|++++|++.+++.
T Consensus        89 ~~~eA~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~~~  136 (477)
T 1wao_1           89 KFRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDEHK  136 (477)
T ss_dssp             CHHHHHHHHHHHHHHS-TTCTTHHHHHHHHHHHHHHHHHCCC------C
T ss_pred             CHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHhcccccc
Confidence            9999999999998753 2234455556555  78889999999988753

>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=98.55  E-value=1e-06  Score=83.13  Aligned_cols=131  Identities=9%  Similarity=-0.029  Sum_probs=98.4

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC--------------hhhHHHHHHHHHccCChHHHHHHHHHHHhCC
Q 009255          360 IVTCNILLSGLCREGILEKALKFFRSWILKGKAVD--------------SVTYNTLISSLCKERRLEDAFGLLSEMEEKK  425 (539)
Q Consensus       360 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~--------------~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  425 (539)
                      ...+..+...|.+.|++++|...|++++.......              ...|..+..+|.+.|++++|+..++++++..
T Consensus       268 a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~  347 (457)
T 1kt0_A          268 AAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD  347 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC
Confidence            44556666677777777777777777766422211              4678889999999999999999999998763


Q ss_pred             CCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCCh-hhHHHHHHHHhhcCCHHHHHH-
Q 009255          426 LGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSS-ISYSEKINEHCSQGRYKDALQ-  503 (539)
Q Consensus       426 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~-  503 (539)
                       +.+...+..++.++...|++++|+..|+++++..                   |+. .++..++.++...|++++|.+ 
T Consensus       348 -p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~-------------------P~~~~a~~~l~~~~~~~~~~~~a~~~  407 (457)
T 1kt0_A          348 -SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-------------------PQNKAARLQISMCQKKAKEHNERDRR  407 (457)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----------------------CHHHHHHHHHHHHHHHHHHHHH
T ss_pred             -CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-------------------CCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence             4457788889999999999999999999999887                   544 488899999999999888764 


Q ss_pred             HHHHHHH
Q 009255          504 IFEETRQ  510 (539)
Q Consensus       504 ~~~~~~~  510 (539)
                      .+++|..
T Consensus       408 ~~~~~f~  414 (457)
T 1kt0_A          408 IYANMFK  414 (457)
T ss_dssp             HHHHC--
T ss_pred             HHHHHHh
Confidence            4555543

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.51  E-value=4.2e-06  Score=63.32  Aligned_cols=96  Identities=13%  Similarity=0.038  Sum_probs=71.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCh---hhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCC---HhhHHHH
Q 009255          363 CNILLSGLCREGILEKALKFFRSWILKGKAVDS---VTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPD---RYTYAAI  436 (539)
Q Consensus       363 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~---~~~~~~l  436 (539)
                      +..+...+...|++++|...|+++....+. +.   ..+..++.++...|++++|+..++++.+.. +.+   ..++..+
T Consensus         5 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~l   82 (129)
T 2xev_A            5 AYNVAFDALKNGKYDDASQLFLSFLELYPN-GVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY-PTHDKAAGGLLKL   82 (129)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCSS-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTSTTHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHCCC-CcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC-CCCcccHHHHHHH
Confidence            344566677788888888888888776332 33   467777888888888888888888887653 222   4567778


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          437 HTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       437 ~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      +.++...|++++|++.++++++..
T Consensus        83 a~~~~~~g~~~~A~~~~~~~~~~~  106 (129)
T 2xev_A           83 GLSQYGEGKNTEAQQTLQQVATQY  106 (129)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC
Confidence            888888888888888888888876

>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=98.50  E-value=1.3e-06  Score=79.64  Aligned_cols=122  Identities=11%  Similarity=-0.049  Sum_probs=92.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHH----------------cCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCC
Q 009255          363 CNILLSGLCREGILEKALKFFRSWIL----------------KGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKL  426 (539)
Q Consensus       363 ~~~l~~~~~~~g~~~~A~~~~~~~~~----------------~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~  426 (539)
                      +..+...+.+.|++++|+..|+++++                . .+.+...|..+..+|.+.|++++|+..++++++.. 
T Consensus       226 ~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~-~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-  303 (370)
T 1ihg_A          226 LKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKL-QPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID-  303 (370)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGG-HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHH-HHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhC-
Confidence            44455555566666666666665554                2 11245678889999999999999999999999753 


Q ss_pred             CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHH
Q 009255          427 GPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQI  504 (539)
Q Consensus       427 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  504 (539)
                      +.+...+..++.++...|++++|++.++++++..                  +.+...+..+..++...++.+++.+.
T Consensus       304 p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~------------------P~~~~~~~~l~~~~~~~~~~~~a~k~  363 (370)
T 1ihg_A          304 PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA------------------PEDKAIQAELLKVKQKIKAQKDKEKA  363 (370)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC------------------TTCHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC------------------CCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3457788899999999999999999999999987                  33445888888888888888877654

>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=98.50  E-value=2.1e-07  Score=71.25  Aligned_cols=99  Identities=13%  Similarity=0.033  Sum_probs=74.3

Q ss_pred             ccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCC----------HHHHHHHHHHHHHcCCCCcccccCCCCCCCC
Q 009255          407 KERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGR----------LEEAQKFTSIMVETGKINHQVVQPNTSKTPE  476 (539)
Q Consensus       407 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~----------~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~  476 (539)
                      +.+.+++|+..+++.++.+ +.+...+..++.++...++          +++|+..|+++++.+                
T Consensus        14 r~~~feeA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ld----------------   76 (158)
T 1zu2_A           14 RILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID----------------   76 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC----------------
T ss_pred             HHhHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhC----------------
Confidence            3345566666666666543 3345566666666665554          569999999999998                


Q ss_pred             CCCCChh-hHHHHHHHHhhcC-----------CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 009255          477 EIDPSSI-SYSEKINEHCSQG-----------RYKDALQIFEETRQKGIAINKSTYMNLMNGL  527 (539)
Q Consensus       477 ~~~~~~~-~~~~l~~~~~~~g-----------~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~  527 (539)
                         |+.. +|++++.+|...|           ++++|++.|+++++  +.|+...+...+...
T Consensus        77 ---P~~~~A~~~LG~ay~~lg~l~P~~~~a~g~~~eA~~~~~kAl~--l~P~~~~y~~al~~~  134 (158)
T 1zu2_A           77 ---PKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSLEMT  134 (158)
T ss_dssp             ---TTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHH
T ss_pred             ---cCcHHHHHHHHHHHHHhcccCcchhhhhccHHHHHHHHHHHHH--hCCCCHHHHHHHHHH
Confidence               6554 9999999999875           89999999999998  689988887776543

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.47  E-value=3.6e-07  Score=82.45  Aligned_cols=151  Identities=12%  Similarity=0.051  Sum_probs=74.1

Q ss_pred             HhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 009255          326 TTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSL  405 (539)
Q Consensus       326 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~  405 (539)
                      ..+..+...+.+.|++++|...|++++..  .|+...       +...++.+++...+          ....|..+..+|
T Consensus       180 ~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~l----------~~~~~~nla~~~  240 (338)
T 2if4_A          180 DRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALAV----------KNPCHLNIAACL  240 (338)
T ss_dssp             HHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHHH----------HTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHHH----------HHHHHHHHHHHH
Confidence            34455555666666666666666666654  222211       12223333332221          113677888888


Q ss_pred             HccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCCh-hh
Q 009255          406 CKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSS-IS  484 (539)
Q Consensus       406 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~  484 (539)
                      ...|++++|+..++++++.. +.+...+..++.++...|++++|++.|+++++..                   |+. .+
T Consensus       241 ~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~-------------------p~~~~a  300 (338)
T 2if4_A          241 IKLKRYDEAIGHCNIVLTEE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQKYA-------------------PDDKAI  300 (338)
T ss_dssp             HTTTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC---------------------------
T ss_pred             HHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-------------------CCCHHH
Confidence            88899999999998888653 3456788888888889999999999998888776                   443 36


Q ss_pred             HHHHHHH-HhhcCCHHHHHHHHHHHHHcCCCCCH
Q 009255          485 YSEKINE-HCSQGRYKDALQIFEETRQKGIAINK  517 (539)
Q Consensus       485 ~~~l~~~-~~~~g~~~~A~~~~~~~~~~~~~p~~  517 (539)
                      +..+..+ ....+..+++...|+++..  ..|+.
T Consensus       301 ~~~L~~l~~~~~~~~~~a~~~~~~~l~--~~p~~  332 (338)
T 2if4_A          301 RRELRALAEQEKALYQKQKEMYKGIFK--GKDEG  332 (338)
T ss_dssp             ----------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhC--CCCCC
Confidence            6666666 3345677888888888875  44554

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.47  E-value=1e-06  Score=64.66  Aligned_cols=90  Identities=16%  Similarity=0.150  Sum_probs=61.4

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHH
Q 009255          429 DRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEET  508 (539)
Q Consensus       429 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  508 (539)
                      +...+..++..+...|++++|++.++++++..                  +.+...|..++.+|...|++++|++.++++
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~------------------p~~~~~~~~lg~~~~~~g~~~~A~~~~~~a   64 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQ------------------PQNPVGYSNKAMALIKLGEYTQAIQMCQQG   64 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC------------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC------------------CCCHHHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            34566677778888888888888888888876                  334457888888888888888888888888


Q ss_pred             HHcCCCCCH------HHHHHHHHHHHhcCCchhhcc
Q 009255          509 RQKGIAINK------STYMNLMNGLIKRRKSISKAV  538 (539)
Q Consensus       509 ~~~~~~p~~------~~~~~~l~~~~~~~~~~~~A~  538 (539)
                      ++  +.|+.      ......++.++...|+.++|+
T Consensus        65 l~--~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~a~   98 (111)
T 2l6j_A           65 LR--YTSTAEHVAIRSKLQYRLELAQGAVGSVQIPV   98 (111)
T ss_dssp             HT--SCSSTTSHHHHHHHHHHHHHHHHHHHCCCCCS
T ss_pred             HH--hCCCccHHHHHHHHHHHHHHHHHHHHhHhhhH
Confidence            86  45664      333333444444444455554

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.46  E-value=1.2e-06  Score=69.58  Aligned_cols=98  Identities=12%  Similarity=0.105  Sum_probs=71.3

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHc--------C---------CCCChhhHHHHHHHHHccCChHHHHHHHHHHHhC
Q 009255          362 TCNILLSGLCREGILEKALKFFRSWILK--------G---------KAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEK  424 (539)
Q Consensus       362 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~--------~---------~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  424 (539)
                      .+......+.+.|++++|+..|++.+..        .         .+.+...|..++.+|...|++++|+..++++++.
T Consensus        13 ~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~~   92 (162)
T 3rkv_A           13 ALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVLKR   92 (162)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhc
Confidence            4444555555566666666666555543        0         0113457888888899999999999999998875


Q ss_pred             CCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          425 KLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       425 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      . +.+...+..++.++...|++++|++.++++++..
T Consensus        93 ~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~  127 (162)
T 3rkv_A           93 E-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNH  127 (162)
T ss_dssp             S-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             C-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcC
Confidence            3 4457788888999999999999999999999887

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.46  E-value=1.4e-05  Score=75.16  Aligned_cols=197  Identities=10%  Similarity=-0.031  Sum_probs=89.5

Q ss_pred             HHHHHhccCCHHHHHHHHHHHhhcCCccCH----------------hhHHHHHHHHHccCCHHHHHHHHHHHHHcCCC-C
Q 009255          226 ILHTLCCEKKLDEAYMLLNSASKRGYYLDE----------------VSYGTLITGYFRDEKANRALKLWDEMKERQIM-P  288 (539)
Q Consensus       226 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----------------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~  288 (539)
                      -...+...|++++|.+.+..+.+.......                ..+..+...|...|++++|.+.+..+...... +
T Consensus        10 ~a~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~   89 (434)
T 4b4t_Q           10 EARRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFA   89 (434)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSC
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcc
Confidence            344556667777777777776665322110                12444555666666666666666554432111 1


Q ss_pred             CH----hhHHHHHHHHHcCCCHHHHHHHHHHHHHC----CCCC-CHHhHHHHHHHHhcCCCHHHHHHHHHHHHhC--C--
Q 009255          289 ST----FTYNAMIWGLSQSGKTEQAIDMLNELLQS----GMIP-DETTFNTIIHGFCSEGQVEKALQFHNKMVEK--S--  355 (539)
Q Consensus       289 ~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~--  355 (539)
                      +.    .+.+.+...+...|+.+.+..+++.....    +..+ ...++..+...+...|++++|..+++.+...  +  
T Consensus        90 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~  169 (434)
T 4b4t_Q           90 KSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLD  169 (434)
T ss_dssp             HHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSS
T ss_pred             chHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcc
Confidence            11    11122222333445555555555554321    1111 1234444555555555555555555554421  0  


Q ss_pred             -CCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CC-C-C--hhhHHHHHHHHHccCChHHHHHHHHHHH
Q 009255          356 -FKPDIVTCNILLSGLCREGILEKALKFFRSWILKG--KA-V-D--SVTYNTLISSLCKERRLEDAFGLLSEME  422 (539)
Q Consensus       356 -~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~-~-~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~  422 (539)
                       .+....++..++.+|...|++++|..++++.....  .. | .  ...+..++..+...|++++|...|.++.
T Consensus       170 ~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~  243 (434)
T 4b4t_Q          170 DKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESF  243 (434)
T ss_dssp             CSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHH
T ss_pred             cchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence             01112344455555555555555555555444320  00 0 0  1123344444445555555555555544

>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=98.46  E-value=1.1e-05  Score=77.99  Aligned_cols=173  Identities=8%  Similarity=-0.027  Sum_probs=126.5

Q ss_pred             HHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCC----------HHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcC-
Q 009255          306 TEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQ----------VEKALQFHNKMVEKSFKPDIVTCNILLSGLCREG-  374 (539)
Q Consensus       306 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-  374 (539)
                      .++|++.++++....+. +...|+.-..++...|+          ++++...++.+++... -+..+|..-..++.+.+ 
T Consensus        45 ~eeal~~~~~~l~~nP~-~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~p-K~y~aW~hR~w~l~~l~~  122 (567)
T 1dce_A           45 DESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNP-KSYGTWHHRCWLLSRLPE  122 (567)
T ss_dssp             SHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTCSS
T ss_pred             CHHHHHHHHHHHHHCch-hHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHccc
Confidence            45666666666665332 34444444444444444          7888888888887653 37778887777788888 


Q ss_pred             -CHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccC-ChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhc---------
Q 009255          375 -ILEKALKFFRSWILKGKAVDSVTYNTLISSLCKER-RLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVES---------  443 (539)
Q Consensus       375 -~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---------  443 (539)
                       +++++...++++.+.++. +..+|+.-..++...| .++++++.+.++++.+ +-|..+|.....++...         
T Consensus       123 ~~~~~el~~~~k~l~~d~~-N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~-p~n~saW~~r~~ll~~l~~~~~~~~~  200 (567)
T 1dce_A          123 PNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQ  200 (567)
T ss_dssp             CCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSSSC
T ss_pred             ccHHHHHHHHHHHHhhccc-cccHHHHHHHHHHHcCCChHHHHHHHHHHHHHC-CCCccHHHHHHHHHHhhccccccccc
Confidence             668999999998888655 7778888888888888 8888999888888654 44567777766666552         


Q ss_pred             -----CCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHH
Q 009255          444 -----GRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKD  500 (539)
Q Consensus       444 -----g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  500 (539)
                           +.++++.+++.+++..+                  |-+..+|+.+...+.+.|++++
T Consensus       201 ~~~~~~~~~eel~~~~~ai~~~------------------P~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          201 GRLPENVLLKELELVQNAFFTD------------------PNDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             CSSCHHHHHHHHHHHHHHHHHC------------------SSCSHHHHHHHHHHSCCCCCSC
T ss_pred             ccccHHHHHHHHHHHHHHHhhC------------------CCCccHHHHHHHHHhcCCCccc
Confidence                 56799999999999987                  3455599999999999888665

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.42  E-value=6.5e-07  Score=80.74  Aligned_cols=130  Identities=15%  Similarity=0.125  Sum_probs=81.2

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHH
Q 009255          360 IVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTA  439 (539)
Q Consensus       360 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~  439 (539)
                      ...+..+...+.+.|++++|...|++++..  .|+..       .+...++++++...+.          ..++..++.+
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~-------~~~~~~~~~~~~~~l~----------~~~~~nla~~  239 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDF-------MFQLYGKYQDMALAVK----------NPCHLNIAAC  239 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHH-------HHTCCHHHHHHHHHHH----------THHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccch-------hhhhcccHHHHHHHHH----------HHHHHHHHHH
Confidence            344555666666677777777777776654  22211       1222333333332221          1367889999


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHH
Q 009255          440 LVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKST  519 (539)
Q Consensus       440 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~  519 (539)
                      +.+.|++++|+..++++++.+                  +.+..+|..++.+|...|++++|+..|+++++  +.|+...
T Consensus       240 ~~~~g~~~~A~~~~~~al~~~------------------p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~--l~p~~~~  299 (338)
T 2if4_A          240 LIKLKRYDEAIGHCNIVLTEE------------------EKNPKALFRRGKAKAELGQMDSARDDFRKAQK--YAPDDKA  299 (338)
T ss_dssp             HHTTTCCHHHHHHHHHHHHHC------------------TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC---------
T ss_pred             HHHcCCHHHHHHHHHHHHHhC------------------CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--HCCCCHH
Confidence            999999999999999999987                  33455999999999999999999999999986  6788877


Q ss_pred             HHHHHHHHH
Q 009255          520 YMNLMNGLI  528 (539)
Q Consensus       520 ~~~~l~~~~  528 (539)
                      ....+..+.
T Consensus       300 a~~~L~~l~  308 (338)
T 2if4_A          300 IRRELRALA  308 (338)
T ss_dssp             ---------
T ss_pred             HHHHHHHHH
Confidence            776666553

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.38  E-value=4.7e-07  Score=67.32  Aligned_cols=87  Identities=15%  Similarity=0.118  Sum_probs=54.0

Q ss_pred             cCCHHHHHHHHHHHHHcC--CCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHH
Q 009255          373 EGILEKALKFFRSWILKG--KAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQ  450 (539)
Q Consensus       373 ~g~~~~A~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  450 (539)
                      .|++++|+..|+++++.+  .+.+...+..++.+|...|++++|+..++++++.. +.+..++..++.++...|++++|+
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~   81 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQF-PNHQALRVFYAMVLYNLGRYEQGV   81 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHcCCHHHHH
Confidence            456666777777666643  12234466667777777777777777777776542 334556666777777777777777


Q ss_pred             HHHHHHHHcC
Q 009255          451 KFTSIMVETG  460 (539)
Q Consensus       451 ~~~~~~~~~~  460 (539)
                      +.++++++..
T Consensus        82 ~~~~~al~~~   91 (117)
T 3k9i_A           82 ELLLKIIAET   91 (117)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHhC
Confidence            7777777665

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.38  E-value=2e-06  Score=68.22  Aligned_cols=134  Identities=15%  Similarity=0.133  Sum_probs=82.0

Q ss_pred             hHHHHHHHHhcCCCHHHHHHHHHHHHhCCCC-CC----HHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-CC----hh
Q 009255          327 TFNTIIHGFCSEGQVEKALQFHNKMVEKSFK-PD----IVTCNILLSGLCREGILEKALKFFRSWILKGKA-VD----SV  396 (539)
Q Consensus       327 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~----~~  396 (539)
                      ++..+...+...|++++|...+++..+.... ++    ..++..+..++...|++++|...+++....... ++    ..
T Consensus        11 ~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~   90 (164)
T 3ro3_A           11 AFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQ   90 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHH
Confidence            3444445555555565555555555432100 01    135556666777777777777777766543111 11    33


Q ss_pred             hHHHHHHHHHccCChHHHHHHHHHHHhC----CCCC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          397 TYNTLISSLCKERRLEDAFGLLSEMEEK----KLGP-DRYTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       397 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      .+..++.++...|++++|...+++..+.    +..+ ...++..++..+...|++++|.+.++++++..
T Consensus        91 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~  159 (164)
T 3ro3_A           91 SCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEIS  159 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHH
Confidence            5667777788888888888888877643    1111 13456677888888899999999998887654

>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=98.32  E-value=8.4e-06  Score=62.59  Aligned_cols=99  Identities=18%  Similarity=0.057  Sum_probs=75.3

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC------C-----hhhHHHHHHHHHccCChHHHHHHHHHHHhC-----C
Q 009255          362 TCNILLSGLCREGILEKALKFFRSWILKGKAV------D-----SVTYNTLISSLCKERRLEDAFGLLSEMEEK-----K  425 (539)
Q Consensus       362 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~------~-----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-----~  425 (539)
                      .+......+.+.|++++|+..|++.+...+..      +     ...|..+..++...|++++|+..++++++.     .
T Consensus        13 ~~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e   92 (159)
T 2hr2_A           13 LALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGE   92 (159)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhcccc
Confidence            34455566667777777777777777652220      1     228888999999999999999999998864     1


Q ss_pred             CCCC-HhhH----HHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          426 LGPD-RYTY----AAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       426 ~~~~-~~~~----~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      +.|+ ...|    ...+.++...|++++|++.|+++++..
T Consensus        93 ~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~  132 (159)
T 2hr2_A           93 LNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMI  132 (159)
T ss_dssp             TTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             CCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            1565 4567    788999999999999999999999886

>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=98.26  E-value=3.6e-05  Score=58.81  Aligned_cols=110  Identities=15%  Similarity=0.075  Sum_probs=67.0

Q ss_pred             CHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHh----cCCHHHHH
Q 009255          375 ILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVE----SGRLEEAQ  450 (539)
Q Consensus       375 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~  450 (539)
                      ++++|.+.|++..+.+   ++...  +...|...+.+++|+..|++..+.|   +......++..|..    .+++++|.
T Consensus        10 d~~~A~~~~~~aa~~g---~~~a~--lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~   81 (138)
T 1klx_A           10 DLKKAIQYYVKACELN---EMFGC--LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAA   81 (138)
T ss_dssp             HHHHHHHHHHHHHHTT---CTTHH--HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHH
T ss_pred             CHHHHHHHHHHHHcCC---CHhhh--HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHHH
Confidence            4566666666666654   22222  5555555556666666666666543   44555566666665    56677777


Q ss_pred             HHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhh----cCCHHHHHHHHHHHHHcC
Q 009255          451 KFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCS----QGRYKDALQIFEETRQKG  512 (539)
Q Consensus       451 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~  512 (539)
                      ++++++.+.+                    +..++..|+..|..    .+++++|...|+++.+.|
T Consensus        82 ~~~~~Aa~~g--------------------~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           82 QYYSKACGLN--------------------DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             HHHHHHHHTT--------------------CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHcCC--------------------CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            7777776643                    33456666666666    667777777777776654

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.25  E-value=4.3e-06  Score=61.76  Aligned_cols=79  Identities=13%  Similarity=0.049  Sum_probs=58.6

Q ss_pred             HHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHH
Q 009255          413 DAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEH  492 (539)
Q Consensus       413 ~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  492 (539)
                      +|+..|+++.+.. +.+...+..++.++...|++++|++.++++++..                  +.+...|..++.+|
T Consensus         3 ~a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~------------------p~~~~~~~~la~~~   63 (115)
T 2kat_A            3 AITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD------------------PTYSVAWKWLGKTL   63 (115)
T ss_dssp             CHHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC------------------TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC------------------CCcHHHHHHHHHHH
Confidence            4667777777543 3456677777888888888888888888888876                  23344788888888


Q ss_pred             hhcCCHHHHHHHHHHHHH
Q 009255          493 CSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       493 ~~~g~~~~A~~~~~~~~~  510 (539)
                      ...|++++|...|+++++
T Consensus        64 ~~~g~~~~A~~~~~~al~   81 (115)
T 2kat_A           64 QGQGDRAGARQAWESGLA   81 (115)
T ss_dssp             HHHTCHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHH
Confidence            888888888888888776

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.25  E-value=6.7e-06  Score=77.30  Aligned_cols=132  Identities=11%  Similarity=0.072  Sum_probs=99.1

Q ss_pred             HHHhcCCHHHHHHHHHHHHHc---CCCCC----hhhHHHHHHHHHccCChHHHHHHHHHHHhC-----CC-CCC-HhhHH
Q 009255          369 GLCREGILEKALKFFRSWILK---GKAVD----SVTYNTLISSLCKERRLEDAFGLLSEMEEK-----KL-GPD-RYTYA  434 (539)
Q Consensus       369 ~~~~~g~~~~A~~~~~~~~~~---~~~~~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-----~~-~~~-~~~~~  434 (539)
                      .+...|++++|+.++++.++.   -..|+    ..+++.|+.+|...|++++|..+++++++-     |. .|+ ..++.
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            456789999999999887754   11222    337889999999999999999999988743     21 222 45778


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChh-hHHHHHHHHhhcCCHHHHHHHHHHHHHc
Q 009255          435 AIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSI-SYSEKINEHCSQGRYKDALQIFEETRQK  511 (539)
Q Consensus       435 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~  511 (539)
                      .|+.+|...|++++|+.+++++++....           ..-+-.|+.. ....+..++...|++++|..+|.++.+.
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~~-----------~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~  464 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILLV-----------THGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREA  464 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHH-----------HTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHH-----------HhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            8999999999999999999998764311           0000134444 6778899999999999999999999863

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.24  E-value=8.8e-07  Score=65.04  Aligned_cols=94  Identities=13%  Similarity=0.055  Sum_probs=66.3

Q ss_pred             ChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCC
Q 009255          394 DSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSK  473 (539)
Q Consensus       394 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~  473 (539)
                      +...+..++..+...|++++|+..|+++++.. +.+..++..++.++...|++++|++.++++++..             
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-------------   68 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYT-------------   68 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC-------------
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-------------
Confidence            34566677777778888888888888877653 3456677777788888888888888888888776             


Q ss_pred             CCCCCCCC-------hhhHHHHHHHHhhcCCHHHHHHHHHH
Q 009255          474 TPEEIDPS-------SISYSEKINEHCSQGRYKDALQIFEE  507 (539)
Q Consensus       474 ~~~~~~~~-------~~~~~~l~~~~~~~g~~~~A~~~~~~  507 (539)
                            |+       ...+..++.++...|++++|+..+++
T Consensus        69 ------p~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  103 (111)
T 2l6j_A           69 ------STAEHVAIRSKLQYRLELAQGAVGSVQIPVVEVDE  103 (111)
T ss_dssp             ------SSTTSHHHHHHHHHHHHHHHHHHHCCCCCSSSSSS
T ss_pred             ------CCccHHHHHHHHHHHHHHHHHHHHhHhhhHhHHHH
Confidence                  43       33566677777777776666655544

>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=98.18  E-value=5.3e-05  Score=57.85  Aligned_cols=110  Identities=14%  Similarity=-0.019  Sum_probs=73.9

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHc----cCChHHHH
Q 009255          340 QVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCK----ERRLEDAF  415 (539)
Q Consensus       340 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~A~  415 (539)
                      ++++|..+|++..+.+ .+...    +...|...+.+++|.+.|++..+.|   ++..+..|...|..    .+++++|+
T Consensus        10 d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~   81 (138)
T 1klx_A           10 DLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAA   81 (138)
T ss_dssp             HHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHH
T ss_pred             CHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHHH
Confidence            5667777777777665 22222    5566666666777777777776653   55666677777766    67777777


Q ss_pred             HHHHHHHhCCCCCCHhhHHHHHHHHHh----cCCHHHHHHHHHHHHHcC
Q 009255          416 GLLSEMEEKKLGPDRYTYAAIHTALVE----SGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       416 ~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~  460 (539)
                      ..|++..+.|   +...+..++..|..    .+++++|.++++++.+.+
T Consensus        82 ~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           82 QYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            7777777653   45556667777776    677777777777777765

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.17  E-value=1.2e-05  Score=56.30  Aligned_cols=78  Identities=14%  Similarity=0.238  Sum_probs=52.2

Q ss_pred             HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHH
Q 009255          430 RYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETR  509 (539)
Q Consensus       430 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  509 (539)
                      ...+..++..+...|++++|+++++++++..                  +.+...+..++.++...|++++|+..+++++
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~------------------~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~   70 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD------------------PNNAEAWYNLGNAYYKQGDYDEAIEYYQKAL   70 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC------------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcC------------------CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            3456667777777777777777777777765                  2334477777777777788888887777777


Q ss_pred             HcCCCCCHHHHHHHHHHH
Q 009255          510 QKGIAINKSTYMNLMNGL  527 (539)
Q Consensus       510 ~~~~~p~~~~~~~~l~~~  527 (539)
                      +  ..|+.......++.+
T Consensus        71 ~--~~p~~~~~~~~l~~~   86 (91)
T 1na3_A           71 E--LDPNNAEAKQNLGNA   86 (91)
T ss_dssp             H--HCTTCHHHHHHHHHH
T ss_pred             h--cCCCCHHHHHHHHHH
Confidence            6  346555444444433

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=98.16  E-value=6e-06  Score=59.09  Aligned_cols=82  Identities=15%  Similarity=0.087  Sum_probs=60.4

Q ss_pred             CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHH
Q 009255          428 PDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEE  507 (539)
Q Consensus       428 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  507 (539)
                      .+...+..++.++...|++++|++.++++++.+                  |.+..+|..++.+|...|++++|++.|++
T Consensus         5 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~------------------p~~~~a~~~lg~~~~~~g~~~~A~~~~~~   66 (100)
T 3ma5_A            5 EDPFTRYALAQEHLKHDNASRALALFEELVETD------------------PDYVGTYYHLGKLYERLDRTDDAIDTYAQ   66 (100)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS------------------TTCTHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC------------------CCcHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            346677788888889999999999999999887                  33444888899999999999999999998


Q ss_pred             HHHcC-CCCCHHHHHHHHHHH
Q 009255          508 TRQKG-IAINKSTYMNLMNGL  527 (539)
Q Consensus       508 ~~~~~-~~p~~~~~~~~l~~~  527 (539)
                      +++.. -.++......+...+
T Consensus        67 al~l~~~~~~~~~~~~l~~~l   87 (100)
T 3ma5_A           67 GIEVAREEGTQKDLSELQDAK   87 (100)
T ss_dssp             HHHHHHHHSCHHHHHHHHHHH
T ss_pred             HHhhhhcCCchhHHHHHHHHH
Confidence            88632 124444444444333

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.14  E-value=1.6e-05  Score=55.50  Aligned_cols=83  Identities=14%  Similarity=0.164  Sum_probs=59.2

Q ss_pred             hhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCC
Q 009255          395 SVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKT  474 (539)
Q Consensus       395 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~  474 (539)
                      ...+..+...+...|++++|+..+++..+.. +.+..++..++.++...|++++|.+.++++++..              
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--------------   73 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD--------------   73 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--------------
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC--------------
Confidence            4456677777777888888888888877643 3356677777888888888888888888888876              


Q ss_pred             CCCCCCChhhHHHHHHHHhhcC
Q 009255          475 PEEIDPSSISYSEKINEHCSQG  496 (539)
Q Consensus       475 ~~~~~~~~~~~~~l~~~~~~~g  496 (539)
                          +.+...+..++.++...|
T Consensus        74 ----p~~~~~~~~l~~~~~~~g   91 (91)
T 1na3_A           74 ----PNNAEAKQNLGNAKQKQG   91 (91)
T ss_dssp             ----TTCHHHHHHHHHHHHHHC
T ss_pred             ----CCCHHHHHHHHHHHHhcC
Confidence                233447777777766543

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.10  E-value=8.7e-06  Score=60.09  Aligned_cols=80  Identities=10%  Similarity=0.063  Sum_probs=45.1

Q ss_pred             HHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 009255          379 ALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVE  458 (539)
Q Consensus       379 A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  458 (539)
                      |...|+++....+ .+...+..++.++...|++++|+..++++++.. +.+...+..++.++...|++++|++.++++++
T Consensus         4 a~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~   81 (115)
T 2kat_A            4 ITERLEAMLAQGT-DNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESGLA   81 (115)
T ss_dssp             HHHHHHHHHTTTC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCC-CcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            4455555554422 244555566666666666666666666665432 22345555666666666666666666666665


Q ss_pred             cC
Q 009255          459 TG  460 (539)
Q Consensus       459 ~~  460 (539)
                      ..
T Consensus        82 ~~   83 (115)
T 2kat_A           82 AA   83 (115)
T ss_dssp             HH
T ss_pred             hc
Confidence            43

>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=98.10  E-value=9.3e-06  Score=62.18  Aligned_cols=87  Identities=13%  Similarity=0.019  Sum_probs=66.0

Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCCh----------HHHHHHHHHHHhCCCCCCHhhHHHHHHHHH
Q 009255          372 REGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRL----------EDAFGLLSEMEEKKLGPDRYTYAAIHTALV  441 (539)
Q Consensus       372 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~----------~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~  441 (539)
                      +.+.+++|.+.+++.++..+. +...|..+..++...+++          ++|+..|+++++.+ +.+..++..++.+|.
T Consensus        14 r~~~feeA~~~~~~Ai~l~P~-~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ld-P~~~~A~~~LG~ay~   91 (158)
T 1zu2_A           14 RILLFEQIRQDAENTYKSNPL-DADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNAYT   91 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHH
Confidence            445677788888877776433 677777777777776654          58888888888653 334677888888888


Q ss_pred             hc-----------CCHHHHHHHHHHHHHcC
Q 009255          442 ES-----------GRLEEAQKFTSIMVETG  460 (539)
Q Consensus       442 ~~-----------g~~~~A~~~~~~~~~~~  460 (539)
                      ..           |++++|++.|+++++.+
T Consensus        92 ~lg~l~P~~~~a~g~~~eA~~~~~kAl~l~  121 (158)
T 1zu2_A           92 SFAFLTPDETEAKHNFDLATQFFQQAVDEQ  121 (158)
T ss_dssp             HHHHHCCCHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HhcccCcchhhhhccHHHHHHHHHHHHHhC
Confidence            76           48999999999999997

>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=97.96  E-value=0.0002  Score=63.34  Aligned_cols=78  Identities=12%  Similarity=0.072  Sum_probs=59.1

Q ss_pred             CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHH
Q 009255          427 GPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFE  506 (539)
Q Consensus       427 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  506 (539)
                      +.+..++..+...+...|++++|.+.+++++..+                   |+...|..++..+.-.|++++|.+.|+
T Consensus       274 ~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln-------------------~s~~a~~llG~~~~~~G~~~eA~e~~~  334 (372)
T 3ly7_A          274 NNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE-------------------MSWLNYVLLGKVYEMKGMNREAADAYL  334 (372)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-------------------CCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC-------------------CCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            4456667666666666788888888888888886                   676677788888888888888888888


Q ss_pred             HHHHcCCCCCHHHHHHHHH
Q 009255          507 ETRQKGIAINKSTYMNLMN  525 (539)
Q Consensus       507 ~~~~~~~~p~~~~~~~~l~  525 (539)
                      +++.  +.|...++.-.-+
T Consensus       335 ~Alr--L~P~~~t~~~~~~  351 (372)
T 3ly7_A          335 TAFN--LRPGANTLYWIEN  351 (372)
T ss_dssp             HHHH--HSCSHHHHHHHHH
T ss_pred             HHHh--cCCCcChHHHHhC
Confidence            8887  5687777654433

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.94  E-value=5.7e-05  Score=71.01  Aligned_cols=126  Identities=14%  Similarity=0.068  Sum_probs=90.0

Q ss_pred             HHhcCCCHHHHHHHHHHHHhC-----C--CCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHc-----CCC-CC-hhhHH
Q 009255          334 GFCSEGQVEKALQFHNKMVEK-----S--FKPDIVTCNILLSGLCREGILEKALKFFRSWILK-----GKA-VD-SVTYN  399 (539)
Q Consensus       334 ~~~~~~~~~~a~~~~~~~~~~-----~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~~~-~~-~~~~~  399 (539)
                      .+...|++++|..++++.++.     |  .+....+++.++.+|...|++++|..++++.++.     |.. |+ ..+++
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            355778888888888877642     1  1112457788888999999999999988887643     221 12 23678


Q ss_pred             HHHHHHHccCChHHHHHHHHHHHhC---CCCCC----HhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 009255          400 TLISSLCKERRLEDAFGLLSEMEEK---KLGPD----RYTYAAIHTALVESGRLEEAQKFTSIMVET  459 (539)
Q Consensus       400 ~l~~~~~~~~~~~~A~~~~~~~~~~---~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  459 (539)
                      .|+..|...|++++|..+++++.+-   -+.|+    ..+...+..++...+.+++|...|.++.+.
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~  464 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREA  464 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            8999999999999999999887642   11233    234456667777888999999999888764

>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=97.90  E-value=4.8e-05  Score=70.29  Aligned_cols=108  Identities=5%  Similarity=-0.080  Sum_probs=79.4

Q ss_pred             ccCChHHHHHHHHHHHhC---CCCCC----HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCC
Q 009255          407 KERRLEDAFGLLSEMEEK---KLGPD----RYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEID  479 (539)
Q Consensus       407 ~~~~~~~A~~~~~~~~~~---~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  479 (539)
                      ..|++++|+.++++.++.   -+.|+    ..++..++.+|...|++++|+.+++++++....           ..-+..
T Consensus       310 ~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~-----------~lG~~H  378 (433)
T 3qww_A          310 HYKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSK-----------HYPVYS  378 (433)
T ss_dssp             TTSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH-----------HSCSSC
T ss_pred             hccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHH-----------HcCCCC
Confidence            457899999999887752   22333    367888999999999999999999998864310           001114


Q ss_pred             CChh-hHHHHHHHHhhcCCHHHHHHHHHHHHH---cCCCCCHHHHHHHHH
Q 009255          480 PSSI-SYSEKINEHCSQGRYKDALQIFEETRQ---KGIAINKSTYMNLMN  525 (539)
Q Consensus       480 ~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~p~~~~~~~~l~  525 (539)
                      |+.. ++++|+.+|..+|++++|+.+|+++++   .-+-||.+....+..
T Consensus       379 p~~a~~l~nLa~~~~~qg~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~l~~  428 (433)
T 3qww_A          379 LNVASMWLKLGRLYMGLENKAAGEKALKKAIAIMEVAHGKDHPYISEIKQ  428 (433)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHH
Confidence            6665 899999999999999999999999876   224577665554433

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.88  E-value=3.2e-05  Score=55.20  Aligned_cols=65  Identities=20%  Similarity=0.148  Sum_probs=32.3

Q ss_pred             ChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 009255          394 DSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVET  459 (539)
Q Consensus       394 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  459 (539)
                      ++..+..++.+|...|++++|+..|+++++.. +.+..++..++.++...|++++|++.++++++.
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l   70 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEV   70 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            33444555555555555555555555555432 222334445555555555555555555555543

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.81  E-value=0.00024  Score=53.78  Aligned_cols=93  Identities=11%  Similarity=-0.014  Sum_probs=66.3

Q ss_pred             HHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcC---CHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCC--ChhhHH
Q 009255          412 EDAFGLLSEMEEKKLGPDRYTYAAIHTALVESG---RLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDP--SSISYS  486 (539)
Q Consensus       412 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~  486 (539)
                      ..+.+.|.+..+.+ +++..+...+++++.+.+   +.++++.+++...+..                  .|  ....++
T Consensus        15 ~~~~~~y~~e~~~~-~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~------------------~p~~~rd~lY   75 (152)
T 1pc2_A           15 LKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG------------------SKEEQRDYVF   75 (152)
T ss_dssp             HHHHHHHHHHHHTT-CCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS------------------CHHHHHHHHH
T ss_pred             HHHHHHHHHHHccC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC------------------CccchHHHHH
Confidence            44555566665554 467777778888888877   5568888888888765                  24  234777


Q ss_pred             HHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 009255          487 EKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMN  525 (539)
Q Consensus       487 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~  525 (539)
                      .++-+|.+.|++++|++.++++++  ..|++.....+..
T Consensus        76 ~LAv~~~kl~~Y~~A~~y~~~lL~--ieP~n~QA~~Lk~  112 (152)
T 1pc2_A           76 YLAVGNYRLKEYEKALKYVRGLLQ--TEPQNNQAKELER  112 (152)
T ss_dssp             HHHHHHHHTSCHHHHHHHHHHHHH--HCTTCHHHHHHHH
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHh--cCCCCHHHHHHHH
Confidence            788888888888888888888887  5787766655544

>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=97.78  E-value=6e-05  Score=69.78  Aligned_cols=112  Identities=15%  Similarity=0.086  Sum_probs=81.6

Q ss_pred             HHHHccCChHHHHHHHHHHHhC---CCCCC----HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCC
Q 009255          403 SSLCKERRLEDAFGLLSEMEEK---KLGPD----RYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTP  475 (539)
Q Consensus       403 ~~~~~~~~~~~A~~~~~~~~~~---~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~  475 (539)
                      ..+...|++++|+.+++++++.   -+.|+    ..++..++.+|...|++++|+.+++++++....           ..
T Consensus       295 e~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~-----------~l  363 (429)
T 3qwp_A          295 EELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRI-----------FF  363 (429)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHH-----------HS
T ss_pred             HHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHH-----------Hc
Confidence            3455778999999999988754   12333    357788999999999999999999998864310           00


Q ss_pred             CCCCCChh-hHHHHHHHHhhcCCHHHHHHHHHHHHH---cCCCCCHHHHHHHHH
Q 009255          476 EEIDPSSI-SYSEKINEHCSQGRYKDALQIFEETRQ---KGIAINKSTYMNLMN  525 (539)
Q Consensus       476 ~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~p~~~~~~~~l~  525 (539)
                      -+..|+.. ++++|+.+|..+|++++|+.+++++++   .-+-||.+....++.
T Consensus       364 g~~Hp~~a~~l~nLa~~~~~~g~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~  417 (429)
T 3qwp_A          364 PGSHPVRGVQVMKVGKLQLHQGMFPQAMKNLRLAFDIMRVTHGREHSLIEDLIL  417 (429)
T ss_dssp             CSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHH
T ss_pred             CCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhcCCCChHHHHHHH
Confidence            11145555 899999999999999999999999875   224567665554433

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.76  E-value=0.00018  Score=50.09  Aligned_cols=69  Identities=16%  Similarity=0.103  Sum_probs=53.5

Q ss_pred             CCCHhhHHHHHHHHHhcCC---HHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChh-hHHHHHHHHhhcCCHHHHH
Q 009255          427 GPDRYTYAAIHTALVESGR---LEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSI-SYSEKINEHCSQGRYKDAL  502 (539)
Q Consensus       427 ~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~  502 (539)
                      +++...+..++.++...++   .++|.++++++++.+                   |+.. ++..++..+.+.|++++|+
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~d-------------------p~~~rA~~~lg~~~~~~g~y~~Ai   63 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLE-------------------PYNEAALSLIANDHFISFRFQEAI   63 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHC-------------------TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHC-------------------cCCHHHHHHHHHHHHHcCCHHHHH
Confidence            4566777778877765444   688999999999887                   5444 8888888899999999999


Q ss_pred             HHHHHHHHcCCCCC
Q 009255          503 QIFEETRQKGIAIN  516 (539)
Q Consensus       503 ~~~~~~~~~~~~p~  516 (539)
                      ..|+++++.  .|+
T Consensus        64 ~~w~~~l~~--~p~   75 (93)
T 3bee_A           64 DTWVLLLDS--NDP   75 (93)
T ss_dssp             HHHHHHHTC--CCT
T ss_pred             HHHHHHHhh--CCC
Confidence            999998873  455

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=97.64  E-value=0.00039  Score=49.79  Aligned_cols=84  Identities=5%  Similarity=-0.071  Sum_probs=64.2

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHH
Q 009255          429 DRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEET  508 (539)
Q Consensus       429 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  508 (539)
                      +..-...++..+...|++..|..+++.+++......           ....+....+..++.+|.+.|++++|+..++++
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~-----------~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~a   72 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGE-----------ISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKL   72 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTC-----------CCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccC-----------CCcccHHHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            445566899999999999999999999988641100           000133448999999999999999999999999


Q ss_pred             HHcCCCCCHHHHHHHHH
Q 009255          509 RQKGIAINKSTYMNLMN  525 (539)
Q Consensus       509 ~~~~~~p~~~~~~~~l~  525 (539)
                      ++  +.|+.......+.
T Consensus        73 l~--l~P~~~~~~~n~~   87 (104)
T 2v5f_A           73 LE--LDPEHQRANGNLK   87 (104)
T ss_dssp             HH--HCTTCHHHHHHHH
T ss_pred             Hh--cCCCCHHHHhhHH
Confidence            97  6788876644444

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.63  E-value=0.00027  Score=50.11  Aligned_cols=65  Identities=15%  Similarity=0.176  Sum_probs=55.9

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChh-hHHHHHHHHhhcCCHHHHHHHHHHHHHcCC
Q 009255          435 AIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSI-SYSEKINEHCSQGRYKDALQIFEETRQKGI  513 (539)
Q Consensus       435 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  513 (539)
                      ..+..+...|++++|++.++++++..                  +.+.. .|..++.+|...|++++|++.|+++++.  
T Consensus         5 ~~a~~~~~~~~~~~A~~~~~~al~~~------------------p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--   64 (99)
T 2kc7_A            5 KTIKELINQGDIENALQALEEFLQTE------------------PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIEL--   64 (99)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHC------------------SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHC------------------CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--
Confidence            45677889999999999999999987                  34556 8999999999999999999999999984  


Q ss_pred             CCCHHH
Q 009255          514 AINKST  519 (539)
Q Consensus       514 ~p~~~~  519 (539)
                      .|+...
T Consensus        65 ~p~~~~   70 (99)
T 2kc7_A           65 NPDSPA   70 (99)
T ss_dssp             CTTSTH
T ss_pred             CCCcHH
Confidence            566543

>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=97.58  E-value=0.0014  Score=57.98  Aligned_cols=67  Identities=10%  Similarity=0.059  Sum_probs=57.2

Q ss_pred             CCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          392 AVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       392 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      +.++.+|..+...+...|++++|+..+++++..+  |+...+..++..+.-.|++++|.+.+++++..+
T Consensus       274 ~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~  340 (372)
T 3ly7_A          274 NNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNLR  340 (372)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             CcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            4467788888777777899999999999999764  787777788888999999999999999999987

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.56  E-value=0.00021  Score=50.64  Aligned_cols=59  Identities=19%  Similarity=0.221  Sum_probs=41.1

Q ss_pred             HHHHHHccCChHHHHHHHHHHHhCCCCCCHh-hHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          401 LISSLCKERRLEDAFGLLSEMEEKKLGPDRY-TYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       401 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      .+..+...|++++|+..++++.+.. +.+.. .+..++.++...|++++|++.++++++.+
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~   65 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTE-PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELN   65 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            4455667777777777777777542 33445 66677777777777777777777777776

>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=97.26  E-value=0.00059  Score=63.06  Aligned_cols=88  Identities=6%  Similarity=-0.104  Sum_probs=65.5

Q ss_pred             hcCCHHHHHHHHHHHHHc---CCCCC----hhhHHHHHHHHHccCChHHHHHHHHHHHhC-----C-CCCC-HhhHHHHH
Q 009255          372 REGILEKALKFFRSWILK---GKAVD----SVTYNTLISSLCKERRLEDAFGLLSEMEEK-----K-LGPD-RYTYAAIH  437 (539)
Q Consensus       372 ~~g~~~~A~~~~~~~~~~---~~~~~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-----~-~~~~-~~~~~~l~  437 (539)
                      ..|++++|+.++++.++.   -..|+    ..+++.|+.+|...|++++|..+++++++-     | -.|+ ..++..++
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            357888888888877653   12222    236788889999999999999998887743     2 1233 35678899


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHc
Q 009255          438 TALVESGRLEEAQKFTSIMVET  459 (539)
Q Consensus       438 ~~~~~~g~~~~A~~~~~~~~~~  459 (539)
                      .+|..+|++++|+.+++++++.
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~i  411 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIAI  411 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHHH
Confidence            9999999999999999998764

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.26  E-value=0.0021  Score=44.60  Aligned_cols=66  Identities=12%  Similarity=0.093  Sum_probs=36.7

Q ss_pred             ChhhHHHHHHHHHccCC---hHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          394 DSVTYNTLISSLCKERR---LEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       394 ~~~~~~~l~~~~~~~~~---~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      ++..+..++.++...++   .++|..+++++++.. +.+......++..+.+.|++++|+..|+++++..
T Consensus         5 ~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~d-p~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~   73 (93)
T 3bee_A            5 TATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLE-PYNEAALSLIANDHFISFRFQEAIDTWVLLLDSN   73 (93)
T ss_dssp             CHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCC
T ss_pred             CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            45555555555543333   456666666666542 2334555555666666666666666666666654

>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=97.15  E-value=0.0017  Score=60.14  Aligned_cols=93  Identities=13%  Similarity=0.043  Sum_probs=70.8

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcC---CCCC----hhhHHHHHHHHHccCChHHHHHHHHHHHhC-----C-CCCC-Hhh
Q 009255          367 LSGLCREGILEKALKFFRSWILKG---KAVD----SVTYNTLISSLCKERRLEDAFGLLSEMEEK-----K-LGPD-RYT  432 (539)
Q Consensus       367 ~~~~~~~g~~~~A~~~~~~~~~~~---~~~~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-----~-~~~~-~~~  432 (539)
                      +.-+.+.|++++|+.++++..+..   ..|+    ..+++.++.+|...|++++|+.++++++.-     | -.|+ ..+
T Consensus       294 ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~  373 (429)
T 3qwp_A          294 IEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQ  373 (429)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHH
T ss_pred             HHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHH
Confidence            344567889999999998887541   1222    236788999999999999999999988743     2 1222 356


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 009255          433 YAAIHTALVESGRLEEAQKFTSIMVET  459 (539)
Q Consensus       433 ~~~l~~~~~~~g~~~~A~~~~~~~~~~  459 (539)
                      +..++..|...|++++|..+++++++.
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al~i  400 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAFDI  400 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHH
Confidence            778999999999999999999998764

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=97.11  E-value=0.0044  Score=44.98  Aligned_cols=93  Identities=10%  Similarity=-0.028  Sum_probs=57.4

Q ss_pred             HHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHH---HHHHHHHHHHcCCCCcccccCCCCCCCCCCCC--ChhhHH
Q 009255          412 EDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEE---AQKFTSIMVETGKINHQVVQPNTSKTPEEIDP--SSISYS  486 (539)
Q Consensus       412 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~---A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~  486 (539)
                      ..+.+.|.+....+ .|+..+-..+++++.+..+..+   ++.+++.+.+.+                  .|  ......
T Consensus        18 ~~~~~~y~~e~~~~-~~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~------------------~p~~~Rd~lY   78 (126)
T 1nzn_A           18 LKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG------------------SKEEQRDYVF   78 (126)
T ss_dssp             HHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS------------------CHHHHHHHHH
T ss_pred             HHHHHHHHHHhccC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC------------------CcchHHHHHH
Confidence            34444455444434 3666666677777777776665   666666665543                  23  222566


Q ss_pred             HHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 009255          487 EKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMN  525 (539)
Q Consensus       487 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~  525 (539)
                      .++-++.+.|++++|++.++.+++  ..|++.....+..
T Consensus        79 ~LAvg~yklg~Y~~A~~~~~~lL~--~eP~n~QA~~Lk~  115 (126)
T 1nzn_A           79 YLAVGNYRLKEYEKALKYVRGLLQ--TEPQNNQAKELER  115 (126)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHH--hCCCCHHHHHHHH
Confidence            677777788888888888888776  4676655544433

>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=97.03  E-value=0.011  Score=44.00  Aligned_cols=99  Identities=20%  Similarity=0.278  Sum_probs=68.4

Q ss_pred             ChhhHHHHHHHHHccCCh------HHHHHHHHHHHhCCCCCCHhh----HHHH-H--HHHHhcCCHHHHHHHHHHHHHcC
Q 009255          394 DSVTYNTLISSLCKERRL------EDAFGLLSEMEEKKLGPDRYT----YAAI-H--TALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       394 ~~~~~~~l~~~~~~~~~~------~~A~~~~~~~~~~~~~~~~~~----~~~l-~--~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      |+.+|-..+...-+.|++      ++.+++|+++... ++|+...    |..+ +  ..+...++.++|+++|+.+++.+
T Consensus        12 ~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~-~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~~h   90 (161)
T 4h7y_A           12 NPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEA-LPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARANC   90 (161)
T ss_dssp             SHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHH-SCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHc-CCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence            566666666666666776      6777777777763 5564211    1111 0  12234588999999999998864


Q ss_pred             CCCcccccCCCCCCCCCCCCC-hhhHHHHHHHHhhcCCHHHHHHHHHHHHHcC
Q 009255          461 KINHQVVQPNTSKTPEEIDPS-SISYSEKINEHCSQGRYKDALQIFEETRQKG  512 (539)
Q Consensus       461 ~~~~~~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  512 (539)
                                         .. ...|...+..-.++|+...|.+++.+++..+
T Consensus        91 -------------------KkFAKiwi~~AqFEiRqgnl~kARkILg~AiG~~  124 (161)
T 4h7y_A           91 -------------------KKFAFVHISFAQFELSQGNVKKSKQLLQKAVERG  124 (161)
T ss_dssp             -------------------TTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             -------------------HHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccC
Confidence                               22 3488888899999999999999999999654

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.01  E-value=0.011  Score=44.75  Aligned_cols=82  Identities=21%  Similarity=0.141  Sum_probs=52.6

Q ss_pred             HHHHHHHHHHHHcCCCCChhhHHHHHHHHHccC---ChHHHHHHHHHHHhCCCCC--CHhhHHHHHHHHHhcCCHHHHHH
Q 009255          377 EKALKFFRSWILKGKAVDSVTYNTLISSLCKER---RLEDAFGLLSEMEEKKLGP--DRYTYAAIHTALVESGRLEEAQK  451 (539)
Q Consensus       377 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~A~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~  451 (539)
                      ..+++-|.+....+. ++..+...+.+++++.+   +.++++.++++..+.. .|  +...+..++-++.+.|++++|++
T Consensus        15 ~~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A~~   92 (152)
T 1pc2_A           15 LKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKALK   92 (152)
T ss_dssp             HHHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHHHH
T ss_pred             HHHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHHHH
Confidence            344555555555433 46666667777777766   4557777777776643 24  24555666667777777777777


Q ss_pred             HHHHHHHcC
Q 009255          452 FTSIMVETG  460 (539)
Q Consensus       452 ~~~~~~~~~  460 (539)
                      +++.+++..
T Consensus        93 y~~~lL~ie  101 (152)
T 1pc2_A           93 YVRGLLQTE  101 (152)
T ss_dssp             HHHHHHHHC
T ss_pred             HHHHHHhcC
Confidence            777777775

>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=96.95  E-value=0.0097  Score=50.40  Aligned_cols=92  Identities=9%  Similarity=0.053  Sum_probs=73.7

Q ss_pred             hHHHHHHHHHHHhCCCCCC---HhhHHHHHHHHHh-----cCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCC-
Q 009255          411 LEDAFGLLSEMEEKKLGPD---RYTYAAIHTALVE-----SGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPS-  481 (539)
Q Consensus       411 ~~~A~~~~~~~~~~~~~~~---~~~~~~l~~~~~~-----~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-  481 (539)
                      ...|...++++++.  .|+   ...+..++..|..     -|+.++|.++|+++++.+                   |+ 
T Consensus       179 l~~A~a~lerAleL--DP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~Ln-------------------P~~  237 (301)
T 3u64_A          179 VHAAVMMLERACDL--WPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYC-------------------SAH  237 (301)
T ss_dssp             HHHHHHHHHHHHHH--CTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHC-------------------CTT
T ss_pred             HHHHHHHHHHHHHh--CCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhC-------------------CCC
Confidence            45677778888754  566   4577888888887     499999999999999998                   63 


Q ss_pred             -hhhHHHHHHHHhhc-CCHHHHHHHHHHHHHcCCC--CCHHHHHHH
Q 009255          482 -SISYSEKINEHCSQ-GRYKDALQIFEETRQKGIA--INKSTYMNL  523 (539)
Q Consensus       482 -~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~~~~--p~~~~~~~~  523 (539)
                       ..++..+++.++.. |++++|.+.++++++...+  |+.......
T Consensus       238 ~id~~v~YA~~l~~~~gd~~~a~~~L~kAL~a~p~~~P~~~lan~~  283 (301)
T 3u64_A          238 DPDHHITYADALCIPLNNRAGFDEALDRALAIDPESVPHNKLLVIL  283 (301)
T ss_dssp             CSHHHHHHHHHTTTTTTCHHHHHHHHHHHHHCCGGGCSSCHHHHHH
T ss_pred             CchHHHHHHHHHHHhcCCHHHHHHHHHHHHcCCCCCCCChhHHHHH
Confidence             56888999999985 9999999999999996666  665544433

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=96.89  E-value=1.8e-06  Score=77.42  Aligned_cols=244  Identities=14%  Similarity=0.097  Sum_probs=141.9

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHH
Q 009255           10 NVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLING   89 (539)
Q Consensus        10 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (539)
                      +..|..|..+..+.+++.+|++-|-+.      -|+..|..++.+..+.|.+++-...+....+..  .++.+=+.|+-+
T Consensus        54 p~VWs~LgkAqL~~~~v~eAIdsyIkA------~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~--ke~~IDteLi~a  125 (624)
T 3lvg_A           54 PAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFA  125 (624)
T ss_dssp             CCCSSSHHHHTTTSSSCTTTTTSSCCC------SCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTC--CSTTTTHHHHHH
T ss_pred             ccHHHHHHHHHHccCchHHHHHHHHhC------CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh--cccccHHHHHHH
Confidence            456777777877777777776544222      255667788888888888888888877666552  244455678888


Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhC--------------------CCCCC
Q 009255           90 WCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEH--------------------GIKPN  149 (539)
Q Consensus        90 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--------------------~~~~~  149 (539)
                      |++.++..+..+++    .   .|+..-...+..-|...|.++.|.-+|..+-..                    .-.-+
T Consensus       126 yAk~~rL~elEefl----~---~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns  198 (624)
T 3lvg_A          126 LAKTNRLAELEEFI----N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANS  198 (624)
T ss_dssp             HHTSCSSSTTTSTT----S---CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCS
T ss_pred             HHhhCcHHHHHHHH----c---CCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence            88888765533221    1   356656666677777777777666665443211                    01225


Q ss_pred             HHHHHHHHHHHHhcCCHhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHH
Q 009255          150 AVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHT  229 (539)
Q Consensus       150 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  229 (539)
                      +.||.-+-.+|...+.+.-|.-.--.+.-.   ++  -...++..|-..|.+++.+.+++.-... -......++.+.-.
T Consensus       199 ~ktWKeV~~ACvd~~EfrLAqicGLniIvh---ad--eL~elv~~YE~~G~f~ELIsLlEaglgl-ErAHmGmFTELaIL  272 (624)
T 3lvg_A          199 TRTWKEVCFACVDGKEFRLAQMCGLHIVVH---AD--ELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAIL  272 (624)
T ss_dssp             SCSHHHHTHHHHHSCTTTTTTHHHHHHHCC---SS--CCSGGGSSSSTTCCCTTSTTTHHHHTTS-TTCCHHHHHHHHHH
T ss_pred             hhHHHHHHHHHhCchHHHHHHHhcchhccc---HH--HHHHHHHHHHhCCCHHHHHHHHHHHhCC-CchhHHHHHHHHHH
Confidence            566777777777777766665544444321   22  1223555667777777777777776532 23456667777666


Q ss_pred             HhccCCHHHHHHHHHHHhhc-CCcc------CHhhHHHHHHHHHccCCHHHHH
Q 009255          230 LCCEKKLDEAYMLLNSASKR-GYYL------DEVSYGTLITGYFRDEKANRAL  275 (539)
Q Consensus       230 ~~~~~~~~~a~~~~~~~~~~-~~~~------~~~~~~~l~~~~~~~~~~~~a~  275 (539)
                      |++-. .++..+.++..-.+ +++-      ....|..++..|..-.+++.|.
T Consensus       273 YsKY~-PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~  324 (624)
T 3lvg_A          273 YSKFK-PQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAI  324 (624)
T ss_dssp             HHSSC-TTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHH
T ss_pred             HHhcC-HHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHH
Confidence            66543 33332222221111 1110      2335666666666666666554

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.80  E-value=0.01  Score=42.24  Aligned_cols=67  Identities=7%  Similarity=0.038  Sum_probs=41.7

Q ss_pred             cChhhHHHHHHHHHhcCChHHHHHHHHHHHhCC------CCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhC
Q 009255            8 PDNVTYNTILDALFKKGKLNEVRDLLSDMKKQG------LVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQN   74 (539)
Q Consensus         8 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~   74 (539)
                      .+...+-.+...+...|++..|...|+...+..      -.+...++..+..++.+.|+++.|...++++.+.
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            345556666777777777777777777665531      1223445666666666666666676666666654

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.71  E-value=0.091  Score=53.69  Aligned_cols=155  Identities=12%  Similarity=0.139  Sum_probs=101.8

Q ss_pred             HHHHhcCChHHHHH-HHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCCh
Q 009255           18 DALFKKGKLNEVRD-LLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGML   96 (539)
Q Consensus        18 ~~~~~~~~~~~a~~-~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~   96 (539)
                      ......+++++|.+ ++..     ++ +......++..+.+.|..+.|+++.+.         .   ..-.......|++
T Consensus       607 ~~~~~~~~~~~a~~~~l~~-----i~-~~~~~~~~~~~l~~~~~~~~a~~~~~~---------~---~~~f~~~l~~~~~  668 (814)
T 3mkq_A          607 QTLTLRGEIEEAIENVLPN-----VE-GKDSLTKIARFLEGQEYYEEALNISPD---------Q---DQKFELALKVGQL  668 (814)
T ss_dssp             HHHHHTTCHHHHHHHTGGG-----CC-CHHHHHHHHHHHHHTTCHHHHHHHCCC---------H---HHHHHHHHHHTCH
T ss_pred             hHHHHhCCHHHHHHHHHhc-----CC-chHHHHHHHHHHHhCCChHHheecCCC---------c---chheehhhhcCCH
Confidence            44456788888866 4422     11 122336777778888888888876531         1   1113345678999


Q ss_pred             HHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHHH
Q 009255           97 EEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNM  176 (539)
Q Consensus        97 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  176 (539)
                      +.|.++.+.+      .+...|..+...+.+.++++.|.+.|.++..         |..+...+...|+.+....+.+..
T Consensus       669 ~~A~~~~~~~------~~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a  733 (814)
T 3mkq_A          669 TLARDLLTDE------SAEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDA  733 (814)
T ss_dssp             HHHHHHHTTC------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHhh------CcHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHH
Confidence            9998875443      4678899999999999999999999988743         445556666677777766666555


Q ss_pred             HHcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 009255          177 EENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVM  211 (539)
Q Consensus       177 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  211 (539)
                      ...|      -++....++.+.|++++|++++.++
T Consensus       734 ~~~~------~~~~A~~~~~~~g~~~~a~~~~~~~  762 (814)
T 3mkq_A          734 ETTG------KFNLAFNAYWIAGDIQGAKDLLIKS  762 (814)
T ss_dssp             HHTT------CHHHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             HHcC------chHHHHHHHHHcCCHHHHHHHHHHc
Confidence            5543      2334444566677777777776654

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.69  E-value=0.069  Score=54.57  Aligned_cols=44  Identities=14%  Similarity=0.041  Sum_probs=21.6

Q ss_pred             cCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHH
Q 009255          337 SEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSW  386 (539)
Q Consensus       337 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  386 (539)
                      ..|+++.|.++.+.+      .+...|..+...+.+.++++.|++.|.++
T Consensus       664 ~~~~~~~A~~~~~~~------~~~~~W~~la~~al~~~~~~~A~~~y~~~  707 (814)
T 3mkq_A          664 KVGQLTLARDLLTDE------SAEMKWRALGDASLQRFNFKLAIEAFTNA  707 (814)
T ss_dssp             HHTCHHHHHHHHTTC------CCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             hcCCHHHHHHHHHhh------CcHhHHHHHHHHHHHcCCHHHHHHHHHHc
Confidence            345555555443221      24445555555555555555555555443

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=96.58  E-value=2.1e-05  Score=70.74  Aligned_cols=215  Identities=13%  Similarity=0.108  Sum_probs=144.1

Q ss_pred             cChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHH
Q 009255            8 PDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLI   87 (539)
Q Consensus         8 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~   87 (539)
                      -|+..|..++.+..+.|.+++-+..+.-..+..  .++.+=+.|+-+|++.++..+..+.+.       .|+..-...+.
T Consensus        81 ~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~--ke~~IDteLi~ayAk~~rL~elEefl~-------~~N~A~iq~VG  151 (624)
T 3lvg_A           81 DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVG  151 (624)
T ss_dssp             SCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTC--CSTTTTHHHHHHHHTSCSSSTTTSTTS-------CCSSSCTHHHH
T ss_pred             CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh--cccccHHHHHHHHHhhCcHHHHHHHHc-------CCCcccHHHHH
Confidence            366788999999999999999999998777663  345556789999999998766544332       25665666777


Q ss_pred             HHHHhcCChHHHHHHHHHHHhCC--------------------CCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCC
Q 009255           88 NGWCNAGMLEEAFRLRKEMESLK--------------------LLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIK  147 (539)
Q Consensus        88 ~~~~~~g~~~~a~~~~~~~~~~~--------------------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  147 (539)
                      .-|...|.++.|.-+|..+....                    -..++.||..+..+|...+++.-|.-.--.+.-.   
T Consensus       152 Drcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~ktWKeV~~ACvd~~EfrLAqicGLniIvh---  228 (624)
T 3lvg_A          152 DRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRTWKEVCFACVDGKEFRLAQMCGLHIVVH---  228 (624)
T ss_dssp             HHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCSHHHHTHHHHHSCTTTTTTHHHHHHHCC---
T ss_pred             HHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhHHHHHHHHHhCchHHHHHHHhcchhccc---
Confidence            77888888887776665544211                    1346788999999999999988776554444322   


Q ss_pred             CCHHHHHHHHHHHHhcCCHhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHH
Q 009255          148 PNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTIL  227 (539)
Q Consensus       148 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  227 (539)
                        +.-...++..|-..|.+++-+.+++.-.... ......|+-|.-.|++- .+++..+.++..-.+ +  |.   ..++
T Consensus       229 --adeL~elv~~YE~~G~f~ELIsLlEaglglE-rAHmGmFTELaILYsKY-~PeKlmEHlklf~sr-i--Ni---pKvi  298 (624)
T 3lvg_A          229 --ADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKF-KPQKMREHLELFWSR-V--NI---PKVL  298 (624)
T ss_dssp             --SSCCSGGGSSSSTTCCCTTSTTTHHHHTTST-TCCHHHHHHHHHHHHSS-CTTHHHHHHTTSSSS-S--CC---TTTH
T ss_pred             --HHHHHHHHHHHHhCCCHHHHHHHHHHHhCCC-chhHHHHHHHHHHHHhc-CHHHHHHHHHHHHHh-c--cH---HHHH
Confidence              1112345667889999999999999877432 35677888888888776 456666655443221 1  11   1234


Q ss_pred             HHHhccCCHHHHHHHHH
Q 009255          228 HTLCCEKKLDEAYMLLN  244 (539)
Q Consensus       228 ~~~~~~~~~~~a~~~~~  244 (539)
                      ++|.+..-|.++.-++.
T Consensus       299 racE~ahLW~ElvfLY~  315 (624)
T 3lvg_A          299 RAAEQAHLWAELVFLYD  315 (624)
T ss_dssp             HHHTTTTCHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHh
Confidence            44555555554444443

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.45  E-value=0.22  Score=38.76  Aligned_cols=44  Identities=16%  Similarity=0.172  Sum_probs=20.5

Q ss_pred             HhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHH
Q 009255           21 FKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDL   70 (539)
Q Consensus        21 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~   70 (539)
                      .+.|+++.|.++.+.+      .+...|..|.......|+++-|.+.|..
T Consensus        16 L~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~   59 (177)
T 3mkq_B           16 LEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQT   59 (177)
T ss_dssp             HHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHH
Confidence            3444555554444433      1344445555544455555544444444

>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=96.40  E-value=0.057  Score=40.27  Aligned_cols=103  Identities=11%  Similarity=0.028  Sum_probs=69.2

Q ss_pred             CcChhhHHHHHHHHHhcCCh------HHHHHHHHHHHhCCCCCCHH----HHHHHHHH---HHccCCHhHHHHHHHHHHh
Q 009255            7 LPDNVTYNTILDALFKKGKL------NEVRDLLSDMKKQGLVPNRT----TYNILVSG---YCKLGWLKEAMRVVDLMTQ   73 (539)
Q Consensus         7 ~~~~~~~~~l~~~~~~~~~~------~~a~~~~~~~~~~~~~~~~~----~~~~l~~~---~~~~g~~~~a~~~~~~~~~   73 (539)
                      +.|..+|-..+..+-+.|++      ++.+++|++.... +||+..    .|..+---   +...++.++|+++|+.+.+
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            45777888888888888888      8888888888775 455432    11111111   1234788888888888865


Q ss_pred             CCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 009255           74 NKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKL  111 (539)
Q Consensus        74 ~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  111 (539)
                      .. +--...|......-.++|+...|.+++......+.
T Consensus        89 ~h-KkFAKiwi~~AqFEiRqgnl~kARkILg~AiG~~~  125 (161)
T 4h7y_A           89 NC-KKFAFVHISFAQFELSQGNVKKSKQLLQKAVERGA  125 (161)
T ss_dssp             HC-TTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             Hh-HHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCC
Confidence            42 22366667777777788888888888888877653

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.22  E-value=0.3  Score=37.99  Aligned_cols=99  Identities=15%  Similarity=0.233  Sum_probs=47.8

Q ss_pred             HhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHH
Q 009255           91 CNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKAC  170 (539)
Q Consensus        91 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  170 (539)
                      .+.|+++.|.++.+++      .+...|..|.......|+++-|.+.|.+...         +..+.-.|...|+.++..
T Consensus        16 L~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~L~   80 (177)
T 3mkq_B           16 LEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNKLS   80 (177)
T ss_dssp             HHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHHH
T ss_pred             HhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHHHH
Confidence            3455555555554443      1344555555555555555555555555432         233344444455555444


Q ss_pred             HHHHHHHHcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHH
Q 009255          171 KIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDV  210 (539)
Q Consensus       171 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  210 (539)
                      .+-+.....|      -++.....+.-.|++++++++|.+
T Consensus        81 kla~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~  114 (177)
T 3mkq_B           81 KMQNIAQTRE------DFGSMLLNTFYNNSTKERSSIFAE  114 (177)
T ss_dssp             HHHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHH
Confidence            4443333322      123333344455555555555543

>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=96.15  E-value=0.15  Score=37.16  Aligned_cols=80  Identities=11%  Similarity=-0.032  Sum_probs=59.6

Q ss_pred             CCCCCHhhHHHHHHHHHhcCCH---HHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCC--hhhHHHHHHHHhhcCCHH
Q 009255          425 KLGPDRYTYAAIHTALVESGRL---EEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPS--SISYSEKINEHCSQGRYK  499 (539)
Q Consensus       425 ~~~~~~~~~~~l~~~~~~~g~~---~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~  499 (539)
                      +-.|+..+-..+++++.+..+.   .+++.+++.+.+.+                   |.  ...+..++-++.+.|+++
T Consensus        35 ~~~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~-------------------~~~~Rd~LYyLAvg~yklgdY~   95 (134)
T 3o48_A           35 GPTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA-------------------ESRRRECLYYLTIGCYKLGEYS   95 (134)
T ss_dssp             GGGSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC-------------------GGGHHHHHHHHHHHHHHHTCHH
T ss_pred             CCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-------------------cchhHHHHHHHHHHHHHhhhHH
Confidence            3467777777888888877654   45788888888765                   42  237778888889999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHH
Q 009255          500 DALQIFEETRQKGIAINKSTYMNLMN  525 (539)
Q Consensus       500 ~A~~~~~~~~~~~~~p~~~~~~~~l~  525 (539)
                      +|++..+.+++  ..|++.....+-.
T Consensus        96 ~Ar~y~d~lL~--~eP~N~QA~~Lk~  119 (134)
T 3o48_A           96 MAKRYVDTLFE--HERNNKQVGALKS  119 (134)
T ss_dssp             HHHHHHHHHHT--TCTTCHHHHHHHH
T ss_pred             HHHHHHHHHHh--hCCCCHHHHHHHH
Confidence            99999999986  6788776665544

>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=96.09  E-value=0.065  Score=45.46  Aligned_cols=85  Identities=19%  Similarity=0.092  Sum_probs=58.2

Q ss_pred             HHHHHHHHHHHHhCCCCCC---HHhHHHHHHHHHhc-----CCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcc-CCh
Q 009255          341 VEKALQFHNKMVEKSFKPD---IVTCNILLSGLCRE-----GILEKALKFFRSWILKGKAVDSVTYNTLISSLCKE-RRL  411 (539)
Q Consensus       341 ~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~-----g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~  411 (539)
                      ...|...++++++.  .|+   ...+..+...|.+.     |+.++|.+.|++.++.++.-+..++..+...++.. |+.
T Consensus       179 l~~A~a~lerAleL--DP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~  256 (301)
T 3u64_A          179 VHAAVMMLERACDL--WPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNR  256 (301)
T ss_dssp             HHHHHHHHHHHHHH--CTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCH
T ss_pred             HHHHHHHHHHHHHh--CCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCH
Confidence            45666666776665  334   45677777777773     78888888888888764332466677777777774 788


Q ss_pred             HHHHHHHHHHHhCCCC
Q 009255          412 EDAFGLLSEMEEKKLG  427 (539)
Q Consensus       412 ~~A~~~~~~~~~~~~~  427 (539)
                      +++.+.+++.+.....
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            8888888888876444

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.08  E-value=0.26  Score=35.94  Aligned_cols=138  Identities=12%  Similarity=0.077  Sum_probs=70.0

Q ss_pred             cCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHH
Q 009255          337 SEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFG  416 (539)
Q Consensus       337 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  416 (539)
                      -.|..++..++..+....   .+..-++.++.-....-+-+-..++++.+-+.   .|.          ...|+....+.
T Consensus        19 ldG~v~qGveii~k~~~s---sni~E~NW~ICNiiD~a~C~y~v~vLd~IGki---FDi----------s~C~NlKrVi~   82 (172)
T 1wy6_A           19 LDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FDL----------DKCQNLKSVVE   82 (172)
T ss_dssp             HTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SCG----------GGCSCTHHHHH
T ss_pred             HhhhHHHHHHHHHHHcCC---CCccccceeeeecchhhchhHHHHHHHHHhhh---cCc----------HhhhcHHHHHH
Confidence            345666666666655543   24444444443333333333333333333221   121          22344444444


Q ss_pred             HHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcC
Q 009255          417 LLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQG  496 (539)
Q Consensus       417 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  496 (539)
                      .+-.+     ..+...+...+..+..+|+.++-.+++..++...                  +|++.....++.+|.+.|
T Consensus        83 C~~~~-----n~~se~vd~ALd~lv~~~KkDqLdki~~~~l~n~------------------~~~~~~l~kia~Ay~Klg  139 (172)
T 1wy6_A           83 CGVIN-----NTLNEHVNKALDILVIQGKRDKLEEIGREILKNN------------------EVSASILVAIANALRRVG  139 (172)
T ss_dssp             HHHHT-----TCCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--C------------------CSCHHHHHHHHHHHHHTT
T ss_pred             HHHHh-----cchHHHHHHHHHHHHHhccHhHHHHHHHHHhccC------------------CCChHHHHHHHHHHHHhc
Confidence            44332     1233344445556666666666666666654433                  466666666677777777


Q ss_pred             CHHHHHHHHHHHHHcCC
Q 009255          497 RYKDALQIFEETRQKGI  513 (539)
Q Consensus       497 ~~~~A~~~~~~~~~~~~  513 (539)
                      +..+|.+++.++-+.|+
T Consensus       140 ~~r~a~eLl~~AC~kG~  156 (172)
T 1wy6_A          140 DERDATTLLIEACKKGE  156 (172)
T ss_dssp             CHHHHHHHHHHHHHTTC
T ss_pred             chhhHHHHHHHHHHhhh
Confidence            77777777777666653

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=96.07  E-value=0.072  Score=38.67  Aligned_cols=86  Identities=23%  Similarity=0.128  Sum_probs=62.7

Q ss_pred             cCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHH---HHHHHHHHHhCCCCC--CHhhHHHHHHHHHhcCCHH
Q 009255          373 EGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLED---AFGLLSEMEEKKLGP--DRYTYAAIHTALVESGRLE  447 (539)
Q Consensus       373 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~---A~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~  447 (539)
                      ......+.+-+......|. |+..+-..+++++.+..+...   ++.++++....+ .|  .......++-++.+.|+++
T Consensus        14 ~~~l~~~~~~y~~e~~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-~p~~~Rd~lY~LAvg~yklg~Y~   91 (126)
T 1nzn_A           14 VEDLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYE   91 (126)
T ss_dssp             HHHHHHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHhccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHHhhhHH
Confidence            3344555666666555444 577777788888888877666   888888887653 34  3455667778899999999


Q ss_pred             HHHHHHHHHHHcC
Q 009255          448 EAQKFTSIMVETG  460 (539)
Q Consensus       448 ~A~~~~~~~~~~~  460 (539)
                      +|+++++.+++..
T Consensus        92 ~A~~~~~~lL~~e  104 (126)
T 1nzn_A           92 KALKYVRGLLQTE  104 (126)
T ss_dssp             HHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhC
Confidence            9999999999986

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=95.90  E-value=0.34  Score=35.84  Aligned_cols=78  Identities=12%  Similarity=-0.018  Sum_probs=57.8

Q ss_pred             CCCHhhHHHHHHHHHhcCCH---HHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCC--hhhHHHHHHHHhhcCCHHHH
Q 009255          427 GPDRYTYAAIHTALVESGRL---EEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPS--SISYSEKINEHCSQGRYKDA  501 (539)
Q Consensus       427 ~~~~~~~~~l~~~~~~~g~~---~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A  501 (539)
                      .|+..+-..+++++.+..+.   .+++.+++.+....                   |.  ......++-++.+.|++++|
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~-------------------~~~~RdcLYyLAvg~ykl~~Y~~A   96 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA-------------------ESRRRECLYYLTIGCYKLGEYSMA   96 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHC-------------------CSTHHHHHHHHHHHHHTTTCHHHH
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-------------------ccchhHHHHHHHHHHHHhhhHHHH
Confidence            57777777888888877654   45777888887765                   42  23667778888899999999


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHH
Q 009255          502 LQIFEETRQKGIAINKSTYMNLMN  525 (539)
Q Consensus       502 ~~~~~~~~~~~~~p~~~~~~~~l~  525 (539)
                      ++..+.+++  ..|++.....+-.
T Consensus        97 r~y~d~lL~--~eP~n~QA~~Lk~  118 (144)
T 1y8m_A           97 KRYVDTLFE--HERNNKQVGALKS  118 (144)
T ss_dssp             HHHHHHHHH--TCCCCHHHHHHHH
T ss_pred             HHHHHHHHh--cCCCcHHHHHHHH
Confidence            999999987  6788766655543

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=95.62  E-value=2.2  Score=43.14  Aligned_cols=270  Identities=11%  Similarity=0.031  Sum_probs=140.6

Q ss_pred             HHhccCCHHHHHHHHHHHhhcCCccCHh--hHHHHHHHHHccCCHHHHHHHHHHHHHcCC-------CCCHhhHHHHHHH
Q 009255          229 TLCCEKKLDEAYMLLNSASKRGYYLDEV--SYGTLITGYFRDEKANRALKLWDEMKERQI-------MPSTFTYNAMIWG  299 (539)
Q Consensus       229 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-------~~~~~~~~~l~~~  299 (539)
                      .....|+.+++..++......+...+..  .-..+.-+....|..+++..++...+...-       .+....-..+.-+
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            3456777777877776655421011222  222333444555655677777776654311       0111222233333


Q ss_pred             HHcCCC-HHHHHHHHHHHHHCCCCCCH--HhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHH--HHHhcC
Q 009255          300 LSQSGK-TEQAIDMLNELLQSGMIPDE--TTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLS--GLCREG  374 (539)
Q Consensus       300 ~~~~~~-~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~g  374 (539)
                      +.-.|. -+++.+.+..+....- +..  ..-..+...+...|+.+....++..+.+..   +..+...++.  ++...|
T Consensus       463 la~~GS~~eev~e~L~~~L~dd~-~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~---~e~vrR~aalgLGll~~g  538 (963)
T 4ady_A          463 LAAMGSANIEVYEALKEVLYNDS-ATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQ---HGNITRGLAVGLALINYG  538 (963)
T ss_dssp             HHSTTCCCHHHHHHHHHHHHTCC-HHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCS---CHHHHHHHHHHHHHHTTT
T ss_pred             HHhcCCCCHHHHHHHHHHHhcCC-HHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccC---cHHHHHHHHHHHHhhhCC
Confidence            333332 2456666666655321 111  112234445567788888888888777642   3333333333  344678


Q ss_pred             CHHHHHHHHHHHHHcCCCCChhh-H---HHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHH
Q 009255          375 ILEKALKFFRSWILKGKAVDSVT-Y---NTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQ  450 (539)
Q Consensus       375 ~~~~A~~~~~~~~~~~~~~~~~~-~---~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  450 (539)
                      +.+.+..+.+.+...   .++.. |   ..++-+|+..|+.....+++..+.... ..+..-...++-++...|+.+.+.
T Consensus       539 ~~e~~~~li~~L~~~---~dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d~-~d~VRraAViaLGlI~~g~~e~v~  614 (963)
T 4ady_A          539 RQELADDLITKMLAS---DESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSDS-NDDVRRAAVIALGFVLLRDYTTVP  614 (963)
T ss_dssp             CGGGGHHHHHHHHHC---SCHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTSSSCSSHH
T ss_pred             ChHHHHHHHHHHHhC---CCHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccCC-cHHHHHHHHHHHHhhccCCHHHHH
Confidence            888888888887764   23332 2   244556778888776667888887642 222222223333444466665566


Q ss_pred             HHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCH-HHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 009255          451 KFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRY-KDALQIFEETRQKGIAINKSTYMNLMNGL  527 (539)
Q Consensus       451 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~A~~~~~~~~~~~~~p~~~~~~~~l~~~  527 (539)
                      ++++.+.+..                  .|..-.-..++-+....|+. .+|+.++.++..   .+|..+-...+.++
T Consensus       615 rlv~~L~~~~------------------d~~VR~gAalALGli~aGn~~~~aid~L~~L~~---D~d~~Vrq~Ai~AL  671 (963)
T 4ady_A          615 RIVQLLSKSH------------------NAHVRCGTAFALGIACAGKGLQSAIDVLDPLTK---DPVDFVRQAAMIAL  671 (963)
T ss_dssp             HHTTTGGGCS------------------CHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHT---CSSHHHHHHHHHHH
T ss_pred             HHHHHHHhcC------------------CHHHHHHHHHHHHHhccCCCcHHHHHHHHHHcc---CCCHHHHHHHHHHH
Confidence            6655444432                  23333222333333444443 678888888874   56665554444333

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=95.61  E-value=0.43  Score=34.82  Aligned_cols=57  Identities=21%  Similarity=0.227  Sum_probs=21.9

Q ss_pred             HHHHhcCCHhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 009255          158 KWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKG  215 (539)
Q Consensus       158 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  215 (539)
                      ......|.-++-.+++..+... .+|++.....+..+|.+.|+..++.+++.+.-+.|
T Consensus        99 d~lv~~~KkDqLdki~~~~l~n-~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG  155 (172)
T 1wy6_A           99 DILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKG  155 (172)
T ss_dssp             HHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHhccHhHHHHHHHHHhcc-CCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhh
Confidence            3333344444444444432221 13333333344444444444444444444443333

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=95.50  E-value=0.022  Score=43.44  Aligned_cols=127  Identities=10%  Similarity=0.031  Sum_probs=69.0

Q ss_pred             HHHHHHHHccCChHHHHHHHHHHHhC-CCCCC-------HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccC-
Q 009255          399 NTLISSLCKERRLEDAFGLLSEMEEK-KLGPD-------RYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQP-  469 (539)
Q Consensus       399 ~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~-------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~-  469 (539)
                      ..-+..+...|.++.|+-+...+... +..|+       ..++..++.++...|++..|...|+++++........-.. 
T Consensus        24 ~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~~s~~  103 (167)
T 3ffl_A           24 IDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKTSKVR  103 (167)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC-------
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcCCCcc
Confidence            33455556666777666666554422 11122       1345566677777777777777777765543211000000 


Q ss_pred             ----C--CCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 009255          470 ----N--TSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGLI  528 (539)
Q Consensus       470 ----~--~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~  528 (539)
                          .  .........++...-..++.+|.+.|++++|+.+++.+..+.   -..-.+.+|+-++
T Consensus       104 ~~~~~~ss~p~s~~~~~e~Elkykia~C~~~l~~~~~Ai~~Le~Ip~k~---Rt~kvnm~LakLy  165 (167)
T 3ffl_A          104 PSTGNSASTPQSQCLPSEIEVKYKLAECYTVLKQDKDAIAILDGIPSRQ---RTPKINMLLANLY  165 (167)
T ss_dssp             -------------CCCCHHHHHHHHHHHHHHTTCHHHHHHHHHTSCGGG---CCHHHHHHHHHHC
T ss_pred             ccccccCCCcccccccchHHHHHHHHHHHHHHCCHHHHHHHHhcCCchh---cCHHHHHHHHHHh
Confidence                0  000000122344566779999999999999999999876432   2234455555444

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=95.30  E-value=0.098  Score=51.56  Aligned_cols=54  Identities=20%  Similarity=0.194  Sum_probs=47.0

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCCh-hhHHHHHHHHhhcCCHHHHHHHHHHHH
Q 009255          437 HTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSS-ISYSEKINEHCSQGRYKDALQIFEETR  509 (539)
Q Consensus       437 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~  509 (539)
                      ++-|...|+++-|.++.++++..-                   |+. .+|..|+.+|...|+++.|+-+++.+.
T Consensus       344 a~FLl~K~~~elAL~~Ak~AV~~a-------------------PseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          344 TNFLLNRGDYELALGVSNTSTELA-------------------LDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-------------------SSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             HHHHhccCcHHHHHHHHHHHHhcC-------------------chhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence            345667899999999999999986                   555 499999999999999999999999874

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.20  E-value=1.3  Score=41.19  Aligned_cols=100  Identities=14%  Similarity=0.096  Sum_probs=70.7

Q ss_pred             HHHHHHHHHccCChHHHHHHHHHHHhC--CCCCC---HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCC
Q 009255          398 YNTLISSLCKERRLEDAFGLLSEMEEK--KLGPD---RYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTS  472 (539)
Q Consensus       398 ~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~  472 (539)
                      ...|+..+...|++.+|..++.++...  +..+.   ...+...++.|...+++..|..++.++.......         
T Consensus       140 ~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~~~d~~~a~~~~~ki~~~~~~~---------  210 (445)
T 4b4t_P          140 TKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSILKGDYSQATVLSRKILKKTFKN---------  210 (445)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHS---------
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhccc---------
Confidence            356778888999999999999988643  22111   2456667788999999999999999875321110         


Q ss_pred             CCCCCCCCChh--hHHHHHHHHhhcCCHHHHHHHHHHHHH
Q 009255          473 KTPEEIDPSSI--SYSEKINEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       473 ~~~~~~~~~~~--~~~~l~~~~~~~g~~~~A~~~~~~~~~  510 (539)
                          ..+|+..  .+...+..+...++|.+|.+.|.++.+
T Consensus       211 ----~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~  246 (445)
T 4b4t_P          211 ----PKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQ  246 (445)
T ss_dssp             ----SCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHH
T ss_pred             ----CCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence                0012222  556778888889999999999888865

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=95.03  E-value=3.5  Score=41.83  Aligned_cols=265  Identities=11%  Similarity=0.022  Sum_probs=132.0

Q ss_pred             HHhcCCHhHHHHHHHHHHHcCCCCChh--hHHHHHHHHHhcCCHHHHHHHHHHHhhCCC-------CCCHH--hHHHHHH
Q 009255          160 YCKEGKIDKACKIVRNMEENGFSPDCV--TYNTLIDANCKAGNMEEAFRMMDVMGRKGL-------KMNTI--TLNTILH  228 (539)
Q Consensus       160 ~~~~g~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-------~~~~~--~~~~l~~  228 (539)
                      ....|+.+++..++......+...+..  .-..+.-+....|...++..++.......-       .+...  ....+..
T Consensus       384 lIh~g~~~~gl~~L~~yL~~~~s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGLGl  463 (963)
T 4ady_A          384 VIHKGNLLEGKKVMAPYLPGSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGIGL  463 (963)
T ss_dssp             HHTSSCTTTHHHHHTTTSTTSCCSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHHHH
T ss_pred             hhccCchHHHHHHHHHhccccCCCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHHHH
Confidence            445677777777666654321011222  222333344455555567776666554211       01111  1112223


Q ss_pred             HHhccCCHHHHHHHHHHHhhcCCcc-CHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHH--HHHHHHHcCCC
Q 009255          229 TLCCEKKLDEAYMLLNSASKRGYYL-DEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYN--AMIWGLSQSGK  305 (539)
Q Consensus       229 ~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~  305 (539)
                      ++...++ +++...+..+....... ....-.++...+...|+.+....++..+.+..   +.....  .+.-++...|+
T Consensus       464 a~~GS~~-eev~e~L~~~L~dd~~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~---~e~vrR~aalgLGll~~g~  539 (963)
T 4ady_A          464 AAMGSAN-IEVYEALKEVLYNDSATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQ---HGNITRGLAVGLALINYGR  539 (963)
T ss_dssp             HSTTCCC-HHHHHHHHHHHHTCCHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCS---CHHHHHHHHHHHHHHTTTC
T ss_pred             HhcCCCC-HHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccC---cHHHHHHHHHHHHhhhCCC
Confidence            3333343 34445555544432110 01122234445567777777777777766532   222222  33334556788


Q ss_pred             HHHHHHHHHHHHHCCCCCCHH--hHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHH
Q 009255          306 TEQAIDMLNELLQSGMIPDET--TFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFF  383 (539)
Q Consensus       306 ~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  383 (539)
                      .+.+..+++.+... ..|...  ....+.-+|+..|+......++..+.... ..+......+.-++...|+.+.+.+++
T Consensus       540 ~e~~~~li~~L~~~-~dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d~-~d~VRraAViaLGlI~~g~~e~v~rlv  617 (963)
T 4ady_A          540 QELADDLITKMLAS-DESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSDS-NDDVRRAAVIALGFVLLRDYTTVPRIV  617 (963)
T ss_dssp             GGGGHHHHHHHHHC-SCHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTSSSCSSHHHHT
T ss_pred             hHHHHHHHHHHHhC-CCHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccCC-cHHHHHHHHHHHHhhccCCHHHHHHHH
Confidence            88888888777653 122111  11233456778888877777888887642 223333333333444567766677777


Q ss_pred             HHHHHcCCCCChhhHHHHHHHHHccCCh-HHHHHHHHHHHhCCCCCCHhhHH
Q 009255          384 RSWILKGKAVDSVTYNTLISSLCKERRL-EDAFGLLSEMEEKKLGPDRYTYA  434 (539)
Q Consensus       384 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~  434 (539)
                      +.+...+ .|....-..+..+....|+. .+++..+..+..   .+|..+-.
T Consensus       618 ~~L~~~~-d~~VR~gAalALGli~aGn~~~~aid~L~~L~~---D~d~~Vrq  665 (963)
T 4ady_A          618 QLLSKSH-NAHVRCGTAFALGIACAGKGLQSAIDVLDPLTK---DPVDFVRQ  665 (963)
T ss_dssp             TTGGGCS-CHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHT---CSSHHHHH
T ss_pred             HHHHhcC-CHHHHHHHHHHHHHhccCCCcHHHHHHHHHHcc---CCCHHHHH
Confidence            6555542 23332223333344444443 578888888863   34544433

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=94.20  E-value=0.41  Score=43.54  Aligned_cols=74  Identities=15%  Similarity=0.073  Sum_probs=61.0

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHH-
Q 009255          432 TYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQ-  510 (539)
Q Consensus       432 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-  510 (539)
                      +...++.++...|+++++...+..++..+                  |-+...|..++.+|.+.|+..+|++.|+++.+ 
T Consensus       173 a~~~~~~~~l~~g~~~~a~~~l~~~~~~~------------------P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~  234 (388)
T 2ff4_A          173 AHTAKAEAEIACGRASAVIAELEALTFEH------------------PYREPLWTQLITAYYLSDRQSDALGAYRRVKTT  234 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS------------------TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC------------------CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            34567778889999999999999999987                  34555999999999999999999999998643 


Q ss_pred             ----cCCCCCHHHHHHH
Q 009255          511 ----KGIAINKSTYMNL  523 (539)
Q Consensus       511 ----~~~~p~~~~~~~~  523 (539)
                          .|+.|...+-..+
T Consensus       235 L~~eLG~~P~~~l~~l~  251 (388)
T 2ff4_A          235 LADDLGIDPGPTLRALN  251 (388)
T ss_dssp             HHHHHSCCCCHHHHHHH
T ss_pred             HHHHhCCCCCHHHHHHH
Confidence                5899987765433

>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=93.61  E-value=5.6  Score=38.56  Aligned_cols=265  Identities=9%  Similarity=0.011  Sum_probs=118.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHc
Q 009255          188 YNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFR  267 (539)
Q Consensus       188 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  267 (539)
                      -...+..+.+.+++...+.++..     .+.+...-.....+....|+...|......+=..|.. .+..+..++..+..
T Consensus        75 r~~~l~~l~~~~~w~~~l~~~~~-----~p~~~~~~c~~~~A~~~~G~~~~a~~~~~~lW~~~~~-~p~~c~~l~~~~~~  148 (618)
T 1qsa_A           75 QSRFVNELARREDWRGLLAFSPE-----KPGTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGKS-QPNACDKLFSVWRA  148 (618)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHCCS-----CCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSSC-CCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCHHHHHHhccC-----CCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHhCCCC-CcHHHHHHHHHHHH
Confidence            34455666677787776664432     2345555555666677778776666655555444322 33344444444443


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHH-hHHHHHHHHhcCCCHHHHHH
Q 009255          268 DEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDET-TFNTIIHGFCSEGQVEKALQ  346 (539)
Q Consensus       268 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~  346 (539)
                      .|.                .....++..+ ......|+...|..+...+     .++.. ....++.....   ...+..
T Consensus       149 ~g~----------------lt~~~~~~R~-~~al~~~~~~~a~~l~~~l-----~~~~~~~a~~~~al~~~---p~~~~~  203 (618)
T 1qsa_A          149 SGK----------------QDPLAYLERI-RLAMKAGNTGLVTVLAGQM-----PADYQTIASAIISLANN---PNTVLT  203 (618)
T ss_dssp             TTC----------------SCHHHHHHHH-HHHHHTTCHHHHHHHHHTC-----CGGGHHHHHHHHHHHHC---GGGHHH
T ss_pred             CCC----------------CCHHHHHHHH-HHHHHCCCHHHHHHHHHhC-----CHHHHHHHHHHHHHHhC---hHhHHH
Confidence            332                2122233332 2233445555554443321     12221 11222222211   122221


Q ss_pred             HHHHHHhCCCCCCHH---hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhH----HHHHHHHHccCChHHHHHHHH
Q 009255          347 FHNKMVEKSFKPDIV---TCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTY----NTLISSLCKERRLEDAFGLLS  419 (539)
Q Consensus       347 ~~~~~~~~~~~~~~~---~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~----~~l~~~~~~~~~~~~A~~~~~  419 (539)
                      ....   .  .++..   .+...+.-+.+ .+.+.|...+....... ..+....    ..++......+...++...+.
T Consensus       204 ~~~~---~--~~~~~~~~~~~~~~~rlar-~d~~~A~~~~~~~~~~~-~~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~  276 (618)
T 1qsa_A          204 FART---T--GATDFTRQMAAVAFASVAR-QDAENARLMIPSLAQAQ-QLNEDQIQELRDIVAWRLMGNDVTDEQAKWRD  276 (618)
T ss_dssp             HHHH---S--CCCHHHHHHHHHHHHHHHH-HCHHHHHHHHHHHHHHT-TCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHH
T ss_pred             HHhc---c--CCChhhHHHHHHHHHHHHh-cCHHHHHHHHHhhhhcc-CCCHHHHHHHHHHHHHHHHHcCCChHHHHHHH
Confidence            1111   1  11111   11111222222 36677777776665432 1222222    222222233342345555555


Q ss_pred             HHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHH
Q 009255          420 EMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYK  499 (539)
Q Consensus       420 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  499 (539)
                      .....  .++.......+....+.|+++.|.++++.+....                  ........-+++++...|+.+
T Consensus       277 ~~~~~--~~~~~~~e~~~r~Alr~~d~~~a~~~~~~l~~~~------------------~~~~r~~YW~~ra~~~~g~~~  336 (618)
T 1qsa_A          277 DAIMR--SQSTSLIERRVRMALGTGDRRGLNTWLARLPMEA------------------KEKDEWRYWQADLLLERGREA  336 (618)
T ss_dssp             HHHHT--CCCHHHHHHHHHHHHHHTCHHHHHHHHHHSCTTG------------------GGSHHHHHHHHHHHHHTTCHH
T ss_pred             hcccc--CCChHHHHHHHHHHHHCCCHHHHHHHHHHccccc------------------cccHhHHHHHHHHHHHcCCHH
Confidence            54432  2333333333333445577777777776554421                  011224455666677777777


Q ss_pred             HHHHHHHHHHH
Q 009255          500 DALQIFEETRQ  510 (539)
Q Consensus       500 ~A~~~~~~~~~  510 (539)
                      +|..+|+++.+
T Consensus       337 ~a~~~~~~~a~  347 (618)
T 1qsa_A          337 EAKEILHQLMQ  347 (618)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHhc
Confidence            77777777653

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=93.53  E-value=1.2  Score=32.46  Aligned_cols=71  Identities=11%  Similarity=0.132  Sum_probs=48.2

Q ss_pred             CCCCChhhHHHHHHHHHccCCh---HHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          390 GKAVDSVTYNTLISSLCKERRL---EDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       390 ~~~~~~~~~~~l~~~~~~~~~~---~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      +..|++.+--.+++++.+..+.   .+++.++++..+.+..-....+..++-++.+.|++++|+++.+.+++..
T Consensus        35 ~~~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~e  108 (134)
T 3o48_A           35 GPTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHE  108 (134)
T ss_dssp             GGGSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTC
T ss_pred             CCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhC
Confidence            3445666666677777766543   4577777777765411124556667778888888888888888888775

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=92.85  E-value=1.1  Score=34.31  Aligned_cols=120  Identities=7%  Similarity=-0.024  Sum_probs=62.8

Q ss_pred             hHHHHHHHHhcCCCHHHHHHHHHHHHhCC-CCCC-------HHhHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCCChh
Q 009255          327 TFNTIIHGFCSEGQVEKALQFHNKMVEKS-FKPD-------IVTCNILLSGLCREGILEKALKFFRSWILKG--KAVDSV  396 (539)
Q Consensus       327 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~-------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~  396 (539)
                      .+..-+..+...|.++.|+-+.+.+.... ..|+       ..++..+++++...+++..|...|++.+...  ..-+..
T Consensus        22 ~l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~~s  101 (167)
T 3ffl_A           22 NVIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKTSK  101 (167)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC-----
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcCCC
Confidence            34444556667777777777766655321 1222       1245566667777777777777777765431  110111


Q ss_pred             hHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 009255          397 TYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVET  459 (539)
Q Consensus       397 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  459 (539)
                      ....+.   .......          .....++.+.-..+..++.+.|++++|+..++.+...
T Consensus       102 ~~~~~~---~~ss~p~----------s~~~~~e~Elkykia~C~~~l~~~~~Ai~~Le~Ip~k  151 (167)
T 3ffl_A          102 VRPSTG---NSASTPQ----------SQCLPSEIEVKYKLAECYTVLKQDKDAIAILDGIPSR  151 (167)
T ss_dssp             ----------------------------CCCCHHHHHHHHHHHHHHTTCHHHHHHHHHTSCGG
T ss_pred             cccccc---ccCCCcc----------cccccchHHHHHHHHHHHHHHCCHHHHHHHHhcCCch
Confidence            110000   0000000          0012334455566888999999999999988776444

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=92.59  E-value=6.4  Score=36.45  Aligned_cols=189  Identities=13%  Similarity=0.109  Sum_probs=103.2

Q ss_pred             cCChHHHHHHHHHHHhC-----CCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHH----Hhc
Q 009255           23 KGKLNEVRDLLSDMKKQ-----GLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGW----CNA   93 (539)
Q Consensus        23 ~~~~~~a~~~~~~~~~~-----~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~   93 (539)
                      .|+++.|++.+-.+.+.     +..........++..|...|+++...+.+..+.+..... ......+++.+    ...
T Consensus        29 ~~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~ql-k~ai~~~V~~~~~~l~~~  107 (445)
T 4b4t_P           29 QNDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQL-KLSIQYMIQKVMEYLKSS  107 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTS-HHHHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhh-HHHHHHHHHHHHHHHhcC
Confidence            36788888877666542     234456677888899999999998888887766543222 22223333322    222


Q ss_pred             CChHHH--HHHHHHHHh--CC-CCC---ChhhHHHHHHHHhccCCHhHHHHHHHHHHhC--CCCCC---HHHHHHHHHHH
Q 009255           94 GMLEEA--FRLRKEMES--LK-LLP---DVVTYNTLINRFFESGRSMEAFKLIDELDEH--GIKPN---AVTHNIMIKWY  160 (539)
Q Consensus        94 g~~~~a--~~~~~~~~~--~~-~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~---~~~~~~l~~~~  160 (539)
                      ...+..  ..+.+....  .| +..   .......|...+...|++.+|.+++..+...  |....   ...+...++.|
T Consensus       108 ~~~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~  187 (445)
T 4b4t_P          108 KSLDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELS  187 (445)
T ss_dssp             CTTHHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHH
T ss_pred             CchhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHH
Confidence            222211  111111100  00 111   1112345667777778888888877776432  11111   23555666777


Q ss_pred             HhcCCHhHHHHHHHHHHH----cCCCCC--hhhHHHHHHHHHhcCCHHHHHHHHHHHh
Q 009255          161 CKEGKIDKACKIVRNMEE----NGFSPD--CVTYNTLIDANCKAGNMEEAFRMMDVMG  212 (539)
Q Consensus       161 ~~~g~~~~a~~~~~~~~~----~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~  212 (539)
                      ...+++..|..++.++..    ...+|+  ...+...+..+...++|.+|-+.|.++.
T Consensus       188 l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~  245 (445)
T 4b4t_P          188 ILKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIY  245 (445)
T ss_dssp             HHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            777777777777776532    111121  1234555566666777777776666554

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=92.50  E-value=2.4  Score=31.38  Aligned_cols=69  Identities=10%  Similarity=0.107  Sum_probs=44.5

Q ss_pred             CCChhhHHHHHHHHHccCCh---HHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          392 AVDSVTYNTLISSLCKERRL---EDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       392 ~~~~~~~~~l~~~~~~~~~~---~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      .|+..+-..+.+++.+..+.   .+++.++++....+..-....+..++-++.+.|++++|+++.+.+++..
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~e  107 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHE  107 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTC
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Confidence            45666666666777665543   4567777777654311233455566677778888888888888888775

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=92.06  E-value=1.4  Score=43.69  Aligned_cols=54  Identities=13%  Similarity=0.052  Sum_probs=43.9

Q ss_pred             HHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHH
Q 009255          262 ITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNEL  316 (539)
Q Consensus       262 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  316 (539)
                      ...+...|+++.|+++-++.....+. +-.+|..|..+|...|+++.|+-.++.+
T Consensus       344 a~FLl~K~~~elAL~~Ak~AV~~aPs-eF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          344 TNFLLNRGDYELALGVSNTSTELALD-SFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             HHHHhccCcHHHHHHHHHHHHhcCch-hhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence            44566789999999999988776433 5788999999999999999999888765

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=91.67  E-value=1.9  Score=39.74  Aligned_cols=62  Identities=8%  Similarity=-0.098  Sum_probs=32.3

Q ss_pred             hHHHHHHHHHccCChHHHHHHHHHHHhCCCCC--CHhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 009255          397 TYNTLISSLCKERRLEDAFGLLSEMEEKKLGP--DRYTYAAIHTALVESGRLEEAQKFTSIMVE  458 (539)
Q Consensus       397 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  458 (539)
                      ++..++..|.+.|++++|.+.+.++......+  -...+..+++.+...+++..+...+.++..
T Consensus       133 ~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~~  196 (429)
T 4b4t_R          133 AWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVNS  196 (429)
T ss_dssp             CCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            34455555555555555555555555432111  234444555555555666666665555543

>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=91.64  E-value=1.3  Score=40.16  Aligned_cols=73  Identities=12%  Similarity=0.106  Sum_probs=52.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHh-----CCCCCCHhhHHHH
Q 009255          363 CNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEE-----KKLGPDRYTYAAI  436 (539)
Q Consensus       363 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-----~~~~~~~~~~~~l  436 (539)
                      ...++..+...|++++|...+..+.... +.+...|..++.++...|+..+|++.|++..+     .|+.|+..+-...
T Consensus       174 ~~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~l~  251 (388)
T 2ff4_A          174 HTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRALN  251 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHH
Confidence            3445666777888888888887777652 33666788888888888888888888877654     3778877654433

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=91.47  E-value=4.2  Score=43.17  Aligned_cols=80  Identities=18%  Similarity=0.219  Sum_probs=45.7

Q ss_pred             HHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCH----HHHHHHHHHHHhcCCHhHHHHHHHHHHHcCCCCChhhHHHHHH
Q 009255          118 YNTLINRFFESGRSMEAFKLIDELDEHGIKPNA----VTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLID  193 (539)
Q Consensus       118 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  193 (539)
                      |..++..+-+.+.++.+.++-....+...+.+.    ..|..+.+.+...|++++|...+-.+....  .-......|+.
T Consensus       902 Y~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~--~r~~cLr~LV~  979 (1139)
T 4fhn_B          902 YLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTP--LKKSCLLDFVN  979 (1139)
T ss_dssp             HHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSS--SCHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHH--HHHHHHHHHHH
Confidence            556666676777777777666655543222121    245666777777777777777776665542  22334445555


Q ss_pred             HHHhcC
Q 009255          194 ANCKAG  199 (539)
Q Consensus       194 ~~~~~~  199 (539)
                      ..+..|
T Consensus       980 ~lce~~  985 (1139)
T 4fhn_B          980 QLTKQG  985 (1139)
T ss_dssp             HHHHHC
T ss_pred             HHHhCC
Confidence            444433

>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=91.26  E-value=2  Score=34.11  Aligned_cols=50  Identities=16%  Similarity=0.195  Sum_probs=30.3

Q ss_pred             hHHHHHHHHHHHhCCCCCC-HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          411 LEDAFGLLSEMEEKKLGPD-RYTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       411 ~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      ..++..+|..|...|+-.. ...|...+..+...|++.+|.++|+..++..
T Consensus        95 ~~~p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~GI~~~  145 (202)
T 3esl_A           95 FHESENTFKYMFNKGIGTKLSLFYEEFSKLLENAQFFLEAKVLLELGAENN  145 (202)
T ss_dssp             HHHHHHHHHHHHHHTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             cCCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC
Confidence            4566666666666655433 3445556666666666666666666666655

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=90.66  E-value=1.3  Score=37.12  Aligned_cols=71  Identities=13%  Similarity=0.164  Sum_probs=57.1

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCH
Q 009255          438 TALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINK  517 (539)
Q Consensus       438 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~  517 (539)
                      ..+.+.|++++|++.....++..                  |.|...-..++..+|-.|+|+.|.+-++...+  +.|+.
T Consensus         5 ~~ll~~g~L~~al~~~~~~VR~~------------------P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~--l~p~~   64 (273)
T 1zbp_A            5 KNALSEGQLQQALELLIEAIKAS------------------PKDASLRSSFIELLCIDGDFERADEQLMQSIK--LFPEY   64 (273)
T ss_dssp             HHHTTTTCHHHHHHHHHHHHHTC------------------TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HCGGG
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhC------------------CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH--hCchh
Confidence            45678899999999999999987                  44555888899999999999999999999987  57876


Q ss_pred             HHHHHHHHHHH
Q 009255          518 STYMNLMNGLI  528 (539)
Q Consensus       518 ~~~~~~l~~~~  528 (539)
                      .....+...++
T Consensus        65 ~~~a~~yr~lI   75 (273)
T 1zbp_A           65 LPGASQLRHLV   75 (273)
T ss_dssp             HHHHHHHHHHH
T ss_pred             hHHHHHHHHHH
Confidence            65554444443

>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=90.11  E-value=3.3  Score=28.40  Aligned_cols=47  Identities=13%  Similarity=0.111  Sum_probs=25.4

Q ss_pred             HHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHH
Q 009255          271 ANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELL  317 (539)
Q Consensus       271 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  317 (539)
                      .-+..+-++.+...+..|++....+.+.+|.+.+++..|.++++-++
T Consensus        26 ~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK   72 (109)
T 1v54_E           26 AWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVK   72 (109)
T ss_dssp             HHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            33444445555555555555555555555555555555555555544

>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=89.87  E-value=3.5  Score=28.29  Aligned_cols=49  Identities=14%  Similarity=0.044  Sum_probs=27.2

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 009255          341 VEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILK  389 (539)
Q Consensus       341 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  389 (539)
                      .-+..+-+..+.....-|++.+..+.+++|.+.+++.-|.++|+.+..+
T Consensus        26 ~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K   74 (109)
T 1v54_E           26 AWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK   74 (109)
T ss_dssp             HHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            3344444555555555556666666666666666666666666555544

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=89.37  E-value=10  Score=32.90  Aligned_cols=168  Identities=13%  Similarity=0.090  Sum_probs=85.6

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHH----HHHHHHCCCCCCHHhHHHHHH
Q 009255          258 YGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDM----LNELLQSGMIPDETTFNTIIH  333 (539)
Q Consensus       258 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~----~~~~~~~~~~~~~~~~~~l~~  333 (539)
                      |..+..-|.+.+++++|++++..-..               .+.+.|+...|.++    ++-..+.+.+++......++.
T Consensus        36 ~Rtl~~Ry~~~~~~~eAidlL~~ga~---------------~ll~~~Q~~sa~DLa~llvev~~~~~~~~~~~~~~rl~~  100 (312)
T 2wpv_A           36 LRTIANRYVRSKSYEHAIELISQGAL---------------SFLKAKQGGSGTDLIFYLLEVYDLAEVKVDDISVARLVR  100 (312)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH---------------HHHHTTCHHHHHHHHHHHHHHHHHTTCCCSHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHH---------------HHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            34444456666666666666543221               12333444433332    333334456666666666665


Q ss_pred             HHhcCCCHH-HHHHHHHHHH----hCC--CCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHH
Q 009255          334 GFCSEGQVE-KALQFHNKMV----EKS--FKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLC  406 (539)
Q Consensus       334 ~~~~~~~~~-~a~~~~~~~~----~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~  406 (539)
                      .+.....-+ .=..+.+.++    +.+  ...++.....+...|.+.|++.+|+..|-...    .-++..+..++.-+.
T Consensus       101 l~~~~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H~i~~~----~~s~~~~a~~l~~w~  176 (312)
T 2wpv_A          101 LIAELDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYFMLGT----HDSMIKYVDLLWDWL  176 (312)
T ss_dssp             HHTTCCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHHTSC----HHHHHHHHHHHHHHH
T ss_pred             HHHHCCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHhCC----CccHHHHHHHHHHHH
Confidence            554432111 1122222222    221  23477888899999999999999888774211    013444544444333


Q ss_pred             cc---CChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 009255          407 KE---RRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVET  459 (539)
Q Consensus       407 ~~---~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  459 (539)
                      ..   |...++--              .+...++ -|.-.|+...|..++....+.
T Consensus       177 ~~~~~~~~~e~dl--------------f~~RaVL-~yL~l~n~~~A~~~~~~f~~~  217 (312)
T 2wpv_A          177 CQVDDIEDSTVAE--------------FFSRLVF-NYLFISNISFAHESKDIFLER  217 (312)
T ss_dssp             HHTTCCCHHHHHH--------------HHHHHHH-HHHHTTBHHHHHHHHHHHHHH
T ss_pred             HhcCCCCcchHHH--------------HHHHHHH-HHHHhcCHHHHHHHHHHHHHH
Confidence            33   33222111              1111222 344578899999988877644

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=88.70  E-value=6.2  Score=41.88  Aligned_cols=149  Identities=12%  Similarity=0.075  Sum_probs=94.5

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhC-------------------
Q 009255           84 NMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEH-------------------  144 (539)
Q Consensus        84 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------------------  144 (539)
                      ..++..+...+..+-+.++....     +.+...--.+..++...|++++|.+.|++....                   
T Consensus       816 ~~l~~~l~~~~~~~~~~~l~~~~-----~~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~~~~~~~~l~~~~~~~~~~~~  890 (1139)
T 4fhn_B          816 TELVEKLFLFKQYNACMQLIGWL-----NSDPIAVYLKALIYLKSKEAVKAVRCFKTTSLVLYSHTSQFAVLREFQEIAE  890 (1139)
T ss_dssp             HHHHHHHHHHSCTTHHHHHHHHS-----CCCHHHHHHHHHHHHHTTCHHHHHHHHHTCCCSCTTCCCSCSSHHHHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHhhhc-----cCCcHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccchhhhhhcccccccc
Confidence            34555555666666555443332     223333344556666677777777776554210                   


Q ss_pred             -C--CCCCHHHHHHHHHHHHhcCCHhHHHHHHHHHHHcCCCCCh----hhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCC
Q 009255          145 -G--IKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDC----VTYNTLIDANCKAGNMEEAFRMMDVMGRKGLK  217 (539)
Q Consensus       145 -~--~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  217 (539)
                       .  ...-..-|..++..+-+.+.++.+.+.-+...+...+.+.    ..|..+...+...|++++|...+-.+..... 
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             0  0111234677888999999999999888777664322221    2577888999999999999999988766543 


Q ss_pred             CCHHhHHHHHHHHhccCCHHHH
Q 009255          218 MNTITLNTILHTLCCEKKLDEA  239 (539)
Q Consensus       218 ~~~~~~~~l~~~~~~~~~~~~a  239 (539)
                       -...+..++..+|..+..+.-
T Consensus       970 -r~~cLr~LV~~lce~~~~~~L  990 (1139)
T 4fhn_B          970 -KKSCLLDFVNQLTKQGKINQL  990 (1139)
T ss_dssp             -CHHHHHHHHHHHHHHCCHHHH
T ss_pred             -HHHHHHHHHHHHHhCCChhhh
Confidence             456677788777777765543

>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=88.50  E-value=4.8  Score=29.34  Aligned_cols=62  Identities=11%  Similarity=0.120  Sum_probs=38.6

Q ss_pred             hHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHH
Q 009255           62 KEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINR  124 (539)
Q Consensus        62 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  124 (539)
                      =+.++-++.+......|++.+..+.+.+|.+.+++..|.++|+-++..- .+....|..+++-
T Consensus        70 wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~-~~~~~iY~y~lqE  131 (152)
T 2y69_E           70 WELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVIQE  131 (152)
T ss_dssp             HHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHHHH
T ss_pred             HHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhc-CCchhhHHHHHHH
Confidence            3455666666666666777777777777777777777777777665432 2334456555544

>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=87.27  E-value=6.9  Score=28.54  Aligned_cols=61  Identities=15%  Similarity=0.074  Sum_probs=34.1

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHH
Q 009255          341 VEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLI  402 (539)
Q Consensus       341 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~  402 (539)
                      .-+..+-++.+....+-|++.+..+.+++|.+.+++.-|.++|+.+..+ ..+...+|..++
T Consensus        69 ~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K-~~~~~~iY~y~l  129 (152)
T 2y69_E           69 AWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVI  129 (152)
T ss_dssp             HHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-cCCchhhHHHHH
Confidence            3344455555555555666666666666666666666666666665554 222333454443

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=86.01  E-value=2.3  Score=35.58  Aligned_cols=55  Identities=15%  Similarity=0.162  Sum_probs=35.6

Q ss_pred             HHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhC
Q 009255           19 ALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQN   74 (539)
Q Consensus        19 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~   74 (539)
                      .+.+.|++++++.....-++.. |.|......++..++-.|++++|.+-++...+.
T Consensus         6 ~ll~~g~L~~al~~~~~~VR~~-P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l   60 (273)
T 1zbp_A            6 NALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKL   60 (273)
T ss_dssp             HHTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence            4456666777666666666654 556666666666677777777776666666654

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=86.00  E-value=17  Score=31.78  Aligned_cols=68  Identities=13%  Similarity=0.146  Sum_probs=38.1

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHH----HHHHHCCCCCCHHhHHHHH
Q 009255          257 SYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDML----NELLQSGMIPDETTFNTII  332 (539)
Q Consensus       257 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~----~~~~~~~~~~~~~~~~~l~  332 (539)
                      .|..+..-|.+.+++++|++++..-..               .+.+.|+...+.++.    +-..+.+++++......++
T Consensus        37 ~~RTi~~Ry~~~k~y~eAidLL~~GA~---------------~ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~  101 (336)
T 3lpz_A           37 ETRLVAARYSKQGNWAAAVDILASVSQ---------------TLLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLL  101 (336)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH---------------HHHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHH
T ss_pred             HHHHHHHHHHhhcCHHHHHHHHHHHHH---------------HHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            445555667777777777776644222               233445554444433    3344456667776666666


Q ss_pred             HHHhcCC
Q 009255          333 HGFCSEG  339 (539)
Q Consensus       333 ~~~~~~~  339 (539)
                      ..+....
T Consensus       102 ~L~~~~~  108 (336)
T 3lpz_A          102 GCLRLFQ  108 (336)
T ss_dssp             HHHTTSC
T ss_pred             HHHHhCC
Confidence            6665443

>2wvi_A Mitotic checkpoint serine/threonine-protein kinase BUB1 beta; tumor suppressor, TPR, apoptosis, cell division, cell cycle, kinetochore, transferase; 1.80A {Homo sapiens} PDB: 3si5_A

Probab=84.27  E-value=8  Score=29.61  Aligned_cols=47  Identities=9%  Similarity=0.134  Sum_probs=23.8

Q ss_pred             HHHHHHHHHhCCCCCC-HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          414 AFGLLSEMEEKKLGPD-RYTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       414 A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      +..+|..|...++-.. ...|...+..+...|++.+|.++|...++.+
T Consensus        79 p~~if~~L~~~~IG~~~AlfY~~wA~~lE~~~~~~~A~~Iy~~Gi~~~  126 (164)
T 2wvi_A           79 PLDMYSYLHNQGIGVSLAQFYISWAEEYEARENFRKADAIFQEGIQQK  126 (164)
T ss_dssp             HHHHHHHHHHTTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC
Confidence            4445555555544333 2334444455555555555555555555544

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=84.08  E-value=21  Score=31.21  Aligned_cols=175  Identities=13%  Similarity=0.115  Sum_probs=93.5

Q ss_pred             hHHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHH----HHHHHcCCCCCHhhHHHHH
Q 009255          222 TLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLW----DEMKERQIMPSTFTYNAMI  297 (539)
Q Consensus       222 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~----~~~~~~~~~~~~~~~~~l~  297 (539)
                      ++.++..-|.+.+++++|.+++..-..               .+.+.|+...+-++.    +-..+.+.++|......++
T Consensus        37 ~~RTi~~Ry~~~k~y~eAidLL~~GA~---------------~ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~  101 (336)
T 3lpz_A           37 ETRLVAARYSKQGNWAAAVDILASVSQ---------------TLLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLL  101 (336)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH---------------HHHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHH
T ss_pred             HHHHHHHHHHhhcCHHHHHHHHHHHHH---------------HHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            345556668889999999887654322               234456655544443    4445566667765555555


Q ss_pred             HHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHH
Q 009255          298 WGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILE  377 (539)
Q Consensus       298 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  377 (539)
                      ..+..                  ++|+......++.         +|+.+=.. .......++.....+...|.+.+++.
T Consensus       102 ~L~~~------------------~~~~~p~r~~fi~---------~ai~WS~~-~g~~~~Gdp~LH~~ig~~~~~e~~~~  153 (336)
T 3lpz_A          102 GCLRL------------------FQPGEPVRKRFVK---------EMIDWSKK-FGDYPAGDPELHHVVGTLYVEEGEFE  153 (336)
T ss_dssp             HHHTT------------------SCTTCHHHHHHHH---------HHHHHHHH-HSSCTTCCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHh------------------CCCCCcHHHHHHH---------HHHHHHhh-cCCCCCCCHHHHHHHHHHHHccCCHH
Confidence            54433                  2222222222221         22222111 11123447778888899999999999


Q ss_pred             HHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 009255          378 KALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMV  457 (539)
Q Consensus       378 ~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  457 (539)
                      +|+..|-  .  |..+.+..+..++.-+...+...              .++..+...++ -|...++...|..++....
T Consensus       154 ~Ae~H~i--l--g~~~s~~~~a~mL~ew~~~~~~~--------------e~dlfiaRaVL-~yL~l~n~~~A~~~~~~f~  214 (336)
T 3lpz_A          154 AAEKHLV--L--GTKESPEVLARMEYEWYKQDESH--------------TAPLYCARAVL-PYLLVANVRAANTAYRIFT  214 (336)
T ss_dssp             HHHHHHT--T--SCTTHHHHHHHHHHHHHHTSCGG--------------GHHHHHHHHHH-HHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHH--h--cCCchHHHHHHHHHHHHHhcCCc--------------cHHHHHHHHHH-HHHHhCCHHHHHHHHHHHH
Confidence            9988772  1  22323345544444333333211              11222222333 3455788999988777666


Q ss_pred             H
Q 009255          458 E  458 (539)
Q Consensus       458 ~  458 (539)
                      +
T Consensus       215 ~  215 (336)
T 3lpz_A          215 S  215 (336)
T ss_dssp             H
T ss_pred             H
Confidence            4

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=83.91  E-value=9.1  Score=35.26  Aligned_cols=119  Identities=8%  Similarity=-0.080  Sum_probs=75.8

Q ss_pred             hHHHHHHHHHHHhCC-CCC-CHHHHHHHHHHHHccCCHhHHHHHHHHHHhC--CCCCChhhHHHHHHHHHhcCChHHHHH
Q 009255           26 LNEVRDLLSDMKKQG-LVP-NRTTYNILVSGYCKLGWLKEAMRVVDLMTQN--KSLPDVWTYNMLINGWCNAGMLEEAFR  101 (539)
Q Consensus        26 ~~~a~~~~~~~~~~~-~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~a~~  101 (539)
                      .++..+......+.. ... -..+...++..|.+.|+++.|.+++.++...  +.......+-.+++.+...+++..+..
T Consensus       110 l~~l~~~~~~~~~~~~~e~e~~~~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~  189 (429)
T 4b4t_R          110 IKELNEKIQKLEEDDEGELEQAQAWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKE  189 (429)
T ss_dssp             HHHHHHHHHHHHHCCSCCCCCSSCCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHHHhhccccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHH
Confidence            444445555554432 122 2336778888899999999999999888754  223345677788888888999999988


Q ss_pred             HHHHHHhC---CCCCChhh--HHHHHHHHhccCCHhHHHHHHHHHHhC
Q 009255          102 LRKEMESL---KLLPDVVT--YNTLINRFFESGRSMEAFKLIDELDEH  144 (539)
Q Consensus       102 ~~~~~~~~---~~~~~~~~--~~~l~~~~~~~~~~~~a~~~~~~~~~~  144 (539)
                      .+.++...   +..|+...  ...-+..+...+++..|.+.|-+....
T Consensus       190 ~~~ka~~~~~~~~d~~~~~~lk~~~gl~~l~~r~f~~Aa~~f~e~~~t  237 (429)
T 4b4t_R          190 KLEAVNSMIEKGGDWERRNRYKTYYGIHCLAVRNFKEAAKLLVDSLAT  237 (429)
T ss_dssp             HHHHHHHHHTTCCCTHHHHHHHHHHHHGGGGTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhcCCCHHHHHHHHHHHHHHHHHhChHHHHHHHHHHHhcc
Confidence            88886532   22222221  111223345678898888888776543

>1qsa_A Protein (soluble lytic transglycosylase SLT70); alpha-superhelix, transferase; HET: GOL; 1.65A {Escherichia coli} SCOP: a.118.5.1 d.2.1.6 PDB: 1qte_A* 1sly_A*

Probab=81.56  E-value=40  Score=32.68  Aligned_cols=413  Identities=12%  Similarity=0.072  Sum_probs=196.9

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCCh-hhHHHHHHH
Q 009255           12 TYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRT-TYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDV-WTYNMLING   89 (539)
Q Consensus        12 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~   89 (539)
                      .|.....+ .+.|++..+..+...+...  +..+. .|..+...+ .....++....   +.+..-.|-. ..-...+..
T Consensus         9 ~~~~a~~a-~~~~~~~~~~~l~~~l~~~--pL~~yl~y~~l~~~l-~~~~~~ev~~F---l~~~~~~p~~~~Lr~~~l~~   81 (618)
T 1qsa_A            9 RYAQIKQA-WDNRQMDVVEQMMPGLKDY--PLYPYLEYRQITDDL-MNQPAVTVTNF---VRANPTLPPARTLQSRFVNE   81 (618)
T ss_dssp             HHHHHHHH-HHTTCHHHHHHHSGGGTTS--TTHHHHHHHHHHHTG-GGCCHHHHHHH---HHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHH-HHCCCHHHHHHHHHhhcCC--CcHHHHHHHHHHhCc-ccCCHHHHHHH---HHHCCCChhHHHHHHHHHHH
Confidence            34444444 3567777776666655332  22111 222222111 11233333333   3332111211 222344455


Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHH
Q 009255           90 WCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKA  169 (539)
Q Consensus        90 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  169 (539)
                      +.+.+++...+.++..     .+.+...-.....+....|+..+|......+-..|.. .+..+..++..+.+.|.+.  
T Consensus        82 l~~~~~w~~~l~~~~~-----~p~~~~~~c~~~~A~~~~G~~~~a~~~~~~lW~~~~~-~p~~c~~l~~~~~~~g~lt--  153 (618)
T 1qsa_A           82 LARREDWRGLLAFSPE-----KPGTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGKS-QPNACDKLFSVWRASGKQD--  153 (618)
T ss_dssp             HHHTTCHHHHHHHCCS-----CCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSSC-CCTHHHHHHHHHHHTTCSC--
T ss_pred             HHhCCCHHHHHHhccC-----CCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHhCCCC-CcHHHHHHHHHHHHCCCCC--
Confidence            6666676666554332     1334444455566666677766666655555443321 2333333333333333221  


Q ss_pred             HHHHHHHHHcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHh-HHHHHHHHhccCCHHHHHHHHHHHhh
Q 009255          170 CKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTIT-LNTILHTLCCEKKLDEAYMLLNSASK  248 (539)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~  248 (539)
                                    ....+. -+......|+...|..+...+     +++... ...++.....-..   +......   
T Consensus       154 --------------~~~~~~-R~~~al~~~~~~~a~~l~~~l-----~~~~~~~a~~~~al~~~p~~---~~~~~~~---  207 (618)
T 1qsa_A          154 --------------PLAYLE-RIRLAMKAGNTGLVTVLAGQM-----PADYQTIASAIISLANNPNT---VLTFART---  207 (618)
T ss_dssp             --------------HHHHHH-HHHHHHHTTCHHHHHHHHHTC-----CGGGHHHHHHHHHHHHCGGG---HHHHHHH---
T ss_pred             --------------HHHHHH-HHHHHHHCCCHHHHHHHHHhC-----CHHHHHHHHHHHHHHhChHh---HHHHHhc---
Confidence                          112222 223344566666666654432     222222 2223322222222   2221111   


Q ss_pred             cCCccCHh---hHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhH----HHHHHHHHcCCCHHHHHHHHHHHHHCCC
Q 009255          249 RGYYLDEV---SYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTY----NAMIWGLSQSGKTEQAIDMLNELLQSGM  321 (539)
Q Consensus       249 ~~~~~~~~---~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~----~~l~~~~~~~~~~~~a~~~~~~~~~~~~  321 (539)
                      .  .++..   .+...+.-+.+ .+.+.|...+......... +....    ..++......+...++...+....... 
T Consensus       208 ~--~~~~~~~~~~~~~~~rlar-~d~~~A~~~~~~~~~~~~~-~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~~~-  282 (618)
T 1qsa_A          208 T--GATDFTRQMAAVAFASVAR-QDAENARLMIPSLAQAQQL-NEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRS-  282 (618)
T ss_dssp             S--CCCHHHHHHHHHHHHHHHH-HCHHHHHHHHHHHHHHTTC-CHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTC-
T ss_pred             c--CCChhhHHHHHHHHHHHHh-cCHHHHHHHHHhhhhccCC-CHHHHHHHHHHHHHHHHHcCCChHHHHHHHhccccC-
Confidence            1  11221   22222333333 4789999999888654322 33322    223333344453556666666655432 


Q ss_pred             CCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHH
Q 009255          322 IPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTL  401 (539)
Q Consensus       322 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l  401 (539)
                       .+.......+....+.|+++.|...|..+.... .........+.+++...|+.++|..+|+.+...    . ..|..+
T Consensus       283 -~~~~~~e~~~r~Alr~~d~~~a~~~~~~l~~~~-~~~~r~~YW~~ra~~~~g~~~~a~~~~~~~a~~----~-~fYg~l  355 (618)
T 1qsa_A          283 -QSTSLIERRVRMALGTGDRRGLNTWLARLPMEA-KEKDEWRYWQADLLLERGREAEAKEILHQLMQQ----R-GFYPMV  355 (618)
T ss_dssp             -CCHHHHHHHHHHHHHHTCHHHHHHHHHHSCTTG-GGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS----C-SHHHHH
T ss_pred             -CChHHHHHHHHHHHHCCCHHHHHHHHHHccccc-cccHhHHHHHHHHHHHcCCHHHHHHHHHHHhcC----C-ChHHHH
Confidence             344444444555567799999999999886642 224555666788888999999999999998742    1 223333


Q ss_pred             HHHHHccCChHHHHHHHHHHHhCCCCCC------HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCC
Q 009255          402 ISSLCKERRLEDAFGLLSEMEEKKLGPD------RYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTP  475 (539)
Q Consensus       402 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~  475 (539)
                      ..  .+.|..-. .      ....+.+.      .......+..+...|....|...+..+.+..               
T Consensus       356 Aa--~~Lg~~~~-~------~~~~~~~~~~~~~~~~~~~~r~~~L~~~g~~~~a~~ew~~~~~~~---------------  411 (618)
T 1qsa_A          356 AA--QRIGEEYE-L------KIDKAPQNVDSALTQGPEMARVRELMYWNLDNTARSEWANLVKSK---------------  411 (618)
T ss_dssp             HH--HHTTCCCC-C------CCCCCCSCCCCHHHHSHHHHHHHHHHHTTCHHHHHHHHHHHHTTC---------------
T ss_pred             HH--HHcCCCCC-C------CCCCCChhHHhhhccChHHHHHHHHHHCCChhhHHHHHHHHHhcC---------------
Confidence            22  22332100 0      00001110      0011223455677888888888887776532               


Q ss_pred             CCCCCChhhHHHHHHHHhhcCCHHHHHHHHH
Q 009255          476 EEIDPSSISYSEKINEHCSQGRYKDALQIFE  506 (539)
Q Consensus       476 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  506 (539)
                           +......++......|.++.++....
T Consensus       412 -----~~~~~~~la~~a~~~~~~~~~v~~~~  437 (618)
T 1qsa_A          412 -----SKTEQAQLARYAFNNQWWDLSVQATI  437 (618)
T ss_dssp             -----CHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             -----CHHHHHHHHHHHHHCCChHHHHHHHH
Confidence                 22333344555556676666654443

---

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	539
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.96
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.96
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.73
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.71
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.44
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.42
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.4
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.4
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.36
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.34
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.33
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.29
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.24
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.23
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	99.1
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	99.04
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.98
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.92
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.88
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.85
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.84
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.84
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.84
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.83
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.81
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.8
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.74
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.74
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.71
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.7
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.65
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.64
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.6
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.59
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.53
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.52
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.51
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.42
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.4
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.4
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.36
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.36
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.36
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.29
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.26
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.21
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	98.21
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.2
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.98
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.89
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.89
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.85
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.73
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.71
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	97.27
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	97.2
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	97.12
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	96.31
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	95.78
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	95.75
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	95.12
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	94.99
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	89.77
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	89.61

>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=99.96  E-value=8.9e-25  Score=202.10  Aligned_cols=376  Identities=13%  Similarity=0.050  Sum_probs=204.8

Q ss_pred             HhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCHHHH
Q 009255          125 FFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEA  204 (539)
Q Consensus       125 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  204 (539)
                      +.+.|++++|++.++++.+.. +-++..+..+..+|.+.|++++|...++++.+.. +.+..++..+..++...|++++|
T Consensus         9 ~~~~G~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~g~~~~A   86 (388)
T d1w3ba_           9 EYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQLQEA   86 (388)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhhcccccc
Confidence            333444444444444443321 1133344444444444444444444444444332 22233444444444444444444


Q ss_pred             HHHHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHc
Q 009255          205 FRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKER  284 (539)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  284 (539)
                      +..+......... +..............+....+............. ...............+....+...+......
T Consensus        87 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  164 (388)
T d1w3ba_          87 IEHYRHALRLKPD-FIDGYINLAAALVAAGDMEGAVQAYVSALQYNPD-LYCVRSDLGNLLKALGRLEEAKACYLKAIET  164 (388)
T ss_dssp             HHHHHHHHHHCTT-CHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTT-CTHHHHHHHHHHHTTSCHHHHHHHHHHHHHH
T ss_pred             ccccccccccccc-cccccccccccccccccccccccccccccccccc-cccccccccccccccchhhhhHHHHHHhhcc
Confidence            4444444433211 2222222222222223333333222222222111 2233333444444555555555555555544


Q ss_pred             CCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHH
Q 009255          285 QIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCN  364 (539)
Q Consensus       285 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  364 (539)
                      .+. +...+..+...+...|+++.|...+++.....+. +...+..+...+...|++++|...++...... +.+...+.
T Consensus       165 ~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~  241 (388)
T d1w3ba_         165 QPN-FAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPN-FLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHG  241 (388)
T ss_dssp             CTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             Ccc-hhHHHHhhcccccccCcHHHHHHHHHHHHHhCcc-cHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-hhHHHHHH
Confidence            332 4555666666666677777777777666654322 45566666666777777777777777666653 33555666


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcC
Q 009255          365 ILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESG  444 (539)
Q Consensus       365 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  444 (539)
                      .+..++.+.|++++|...|+++.+..+ .++.++..++.++...|++++|+..++.+.... +.+...+..++.++...|
T Consensus       242 ~l~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~  319 (388)
T d1w3ba_         242 NLACVYYEQGLIDLAIDTYRRAIELQP-HFPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQG  319 (388)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTCS-SCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccC-CccchhhhHHHHHHHHCC
Confidence            667777777777777777777766532 255567777777777777777777777766542 445566667777777777


Q ss_pred             CHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCCh-hhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 009255          445 RLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSS-ISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNL  523 (539)
Q Consensus       445 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~  523 (539)
                      ++++|++.++++++..                   |+. .+|..++.+|...|++++|+..|+++++  +.|+.......
T Consensus       320 ~~~~A~~~~~~al~~~-------------------p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~--l~P~~~~a~~~  378 (388)
T d1w3ba_         320 NIEEAVRLYRKALEVF-------------------PEFAAAHSNLASVLQQQGKLQEALMHYKEAIR--ISPTFADAYSN  378 (388)
T ss_dssp             CHHHHHHHHHHHTTSC-------------------TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT--TCTTCHHHHHH
T ss_pred             CHHHHHHHHHHHHHhC-------------------CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHH
Confidence            7777777777777665                   433 3677777777777777777777777775  56765544444


Q ss_pred             HHHHHhc
Q 009255          524 MNGLIKR  530 (539)
Q Consensus       524 l~~~~~~  530 (539)
                      ++.++..
T Consensus       379 lg~~~~~  385 (388)
T d1w3ba_         379 MGNTLKE  385 (388)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            4444443

>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=99.96  E-value=1.8e-24  Score=199.98  Aligned_cols=381  Identities=14%  Similarity=0.044  Sum_probs=254.6

Q ss_pred             HHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHh
Q 009255           88 NGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKID  167 (539)
Q Consensus        88 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  167 (539)
                      ..+.+.|++++|++.++++.+.. |-+...+..+..++...|++++|+..++++.+... .+..++..+..+|.+.|+++
T Consensus         7 ~~~~~~G~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p-~~~~a~~~l~~~~~~~g~~~   84 (388)
T d1w3ba_           7 HREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNP-LLAEAYSNLGNVYKERGQLQ   84 (388)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHhhhhcccc
Confidence            33445555555555555554432 22344455555555555555555555555554321 23455555555666666666


Q ss_pred             HHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHh
Q 009255          168 KACKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSAS  247 (539)
Q Consensus       168 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  247 (539)
                      +|...+....+.. +.+..............+....+............ ................+....+...+....
T Consensus        85 ~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  162 (388)
T d1w3ba_          85 EAIEHYRHALRLK-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNP-DLYCVRSDLGNLLKALGRLEEAKACYLKAI  162 (388)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCT-TCTHHHHHHHHHHHTTSCHHHHHHHHHHHH
T ss_pred             ccccccccccccc-ccccccccccccccccccccccccccccccccccc-ccccccccccccccccchhhhhHHHHHHhh
Confidence            6666665555542 22222333333333333333333333333332221 122333334444455555666665555555


Q ss_pred             hcCCccCHhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHh
Q 009255          248 KRGYYLDEVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETT  327 (539)
Q Consensus       248 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  327 (539)
                      ... +.+...+..+...+...|+++.|...+++.....+. +...+..+...+...|++++|...+++...... .+...
T Consensus       163 ~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~  239 (388)
T d1w3ba_         163 ETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPN-FLDAYINLGNVLKEARIFDRAVAAYLRALSLSP-NHAVV  239 (388)
T ss_dssp             HHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCT-TCHHH
T ss_pred             ccC-cchhHHHHhhcccccccCcHHHHHHHHHHHHHhCcc-cHHHHHHHhhhhhccccHHHHHHHHHHhHHHhh-hHHHH
Confidence            443 224556666777777888888888888877776443 567788888888888889999888888877643 35667


Q ss_pred             HHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHc
Q 009255          328 FNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCK  407 (539)
Q Consensus       328 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~  407 (539)
                      +..+...+...|++++|...|+++++.. +.+..++..+..++...|++++|.+.++...... +.+...+..++.++..
T Consensus       240 ~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~  317 (388)
T d1w3ba_         240 HGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKRE  317 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccC-CccchhhhHHHHHHHH
Confidence            7778888888999999999999988864 3467788889999999999999999999888763 4477788889999999


Q ss_pred             cCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCCh-hhHH
Q 009255          408 ERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSS-ISYS  486 (539)
Q Consensus       408 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~  486 (539)
                      .|++++|+..++++++.. +.+..++..++.++...|++++|++.++++++.+                   |+. .+|.
T Consensus       318 ~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~-------------------P~~~~a~~  377 (388)
T d1w3ba_         318 QGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-------------------PTFADAYS  377 (388)
T ss_dssp             TTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTC-------------------TTCHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-------------------CCCHHHHH
Confidence            999999999999998642 3346778889999999999999999999999886                   654 4899


Q ss_pred             HHHHHHhhcCC
Q 009255          487 EKINEHCSQGR  497 (539)
Q Consensus       487 ~l~~~~~~~g~  497 (539)
                      .++.+|.+.||
T Consensus       378 ~lg~~~~~~~D  388 (388)
T d1w3ba_         378 NMGNTLKEMQD  388 (388)
T ss_dssp             HHHHHHHHTCC
T ss_pred             HHHHHHHHcCC
Confidence            99999988875

>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=99.73  E-value=6e-16  Score=138.15  Aligned_cols=225  Identities=12%  Similarity=0.101  Sum_probs=138.0

Q ss_pred             HHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHH
Q 009255          264 GYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEK  343 (539)
Q Consensus       264 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  343 (539)
                      .+.+.|++++|+..|+++++..+. +..+|..+..++...|++++|...+.++.+..+. +...+..++..+...|++++
T Consensus        28 ~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~  105 (323)
T d1fcha_          28 RRLQEGDLPNAVLLFEAAVQQDPK-HMEAWQYLGTTQAENEQELLAISALRRCLELKPD-NQTALMALAVSFTNESLQRQ  105 (323)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCChHHHHHHHHhhhccccc-cccccccccccccccccccc
Confidence            344444444444444444443322 3344444444444444444444444444433221 33344444444444444444


Q ss_pred             HHHHHHHHHhCCCC--------------CCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CCChhhHHHHHHHHHcc
Q 009255          344 ALQFHNKMVEKSFK--------------PDIVTCNILLSGLCREGILEKALKFFRSWILKGK-AVDSVTYNTLISSLCKE  408 (539)
Q Consensus       344 a~~~~~~~~~~~~~--------------~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~  408 (539)
                      |.+.++.+......              .+.......+..+...+.+.+|...+.++....+ .++...+..++..+...
T Consensus       106 A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~~  185 (323)
T d1fcha_         106 ACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLS  185 (323)
T ss_dssp             HHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHT
T ss_pred             cccchhhHHHhccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHH
Confidence            44444444432110              0000111112223345667788888888776533 23556778888889999


Q ss_pred             CChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCCh-hhHHH
Q 009255          409 RRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSS-ISYSE  487 (539)
Q Consensus       409 ~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~  487 (539)
                      |++++|+..++++.... +.+..++..++.++...|++++|++.++++++..                   |+. .+|..
T Consensus       186 ~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-------------------p~~~~a~~~  245 (323)
T d1fcha_         186 GEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-------------------PGYIRSRYN  245 (323)
T ss_dssp             TCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------------------TTCHHHHHH
T ss_pred             HHHhhhhcccccccccc-cccccchhhhhhcccccccchhHHHHHHHHHHHh-------------------hccHHHHHH
Confidence            99999999999988653 3356778888999999999999999999999886                   544 48999


Q ss_pred             HHHHHhhcCCHHHHHHHHHHHHH
Q 009255          488 KINEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       488 l~~~~~~~g~~~~A~~~~~~~~~  510 (539)
                      ++.+|.+.|++++|++.|+++++
T Consensus       246 lg~~~~~~g~~~~A~~~~~~al~  268 (323)
T d1fcha_         246 LGISCINLGAHREAVEHFLEALN  268 (323)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHH
Confidence            99999999999999999999887

>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=99.71  E-value=2.1e-15  Score=134.50  Aligned_cols=285  Identities=11%  Similarity=-0.023  Sum_probs=183.1

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccC
Q 009255          190 TLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDE  269 (539)
Q Consensus       190 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  269 (539)
                      .....+.+.|++++|+..|+++.+.. +-+..++..+..++...|+++.|...+.++.+.... +...+..+...|...|
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~  101 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELKPD-NQTALMALAVSFTNES  101 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccccc-cccccccccccccccc
Confidence            45556667777777777777776653 225666666667777777777777777766665322 4556666666666777


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHH
Q 009255          270 KANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHN  349 (539)
Q Consensus       270 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  349 (539)
                      ++++|.+.++++....+. ....+........                    ..+.......+..+...+.+.++...+.
T Consensus       102 ~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~--------------------~~~~~~~~~~~~~~~~~~~~~~a~~~~~  160 (323)
T d1fcha_         102 LQRQACEILRDWLRYTPA-YAHLVTPAEEGAG--------------------GAGLGPSKRILGSLLSDSLFLEVKELFL  160 (323)
T ss_dssp             CHHHHHHHHHHHHHTSTT-TGGGCC-----------------------------------CTTHHHHHHHHHHHHHHHHH
T ss_pred             cccccccchhhHHHhccc-hHHHHHhhhhhhh--------------------hcccccchhhHHHHHHhhHHHHHHHHHH
Confidence            777777766666654221 1110000000000                    0000001111122334456777888888


Q ss_pred             HHHhCC-CCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCC
Q 009255          350 KMVEKS-FKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGP  428 (539)
Q Consensus       350 ~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~  428 (539)
                      ++++.. ...+..++..+...+...|++++|+..+++.....+. +...|..++.++...|++++|+..++++++.. +-
T Consensus       161 ~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~  238 (323)
T d1fcha_         161 AAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPN-DYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PG  238 (323)
T ss_dssp             HHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TT
T ss_pred             HHHHHhhcccccccchhhHHHHHHHHHHhhhhcccccccccccc-cccchhhhhhcccccccchhHHHHHHHHHHHh-hc
Confidence            877643 2345678888899999999999999999999887433 67789999999999999999999999998753 33


Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHH
Q 009255          429 DRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFE  506 (539)
Q Consensus       429 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  506 (539)
                      +..++..++.+|...|++++|++.|+++++..+.+....       ..........|..+..++...|+.+.+.....
T Consensus       239 ~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~-------~~~~~~~~~~~~~l~~al~~~~~~d~~~~~~~  309 (323)
T d1fcha_         239 YIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPR-------GEGGAMSENIWSTLRLALSMLGQSDAYGAADA  309 (323)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC-------------CCCCCHHHHHHHHHHHHHHTCGGGHHHHHT
T ss_pred             cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcChhhh-------hhhHHHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            567888999999999999999999999998652211000       00001112256777777777788776655433

>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=99.44  E-value=1.6e-11  Score=107.56  Aligned_cols=241  Identities=10%  Similarity=0.075  Sum_probs=180.9

Q ss_pred             hhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCC-CHHHHHHHHHHHHHCCCCCCHHhHHHHHHH
Q 009255          256 VSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSG-KTEQAIDMLNELLQSGMIPDETTFNTIIHG  334 (539)
Q Consensus       256 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  334 (539)
                      ..++.+...+.+.+.+++|+.+++++++.++. +...|+....++...| ++++|+..++.+.+..+. +..+|..+...
T Consensus        44 ~a~~~~~~~~~~~e~~~~Al~~~~~ai~lnP~-~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~-~~~a~~~~~~~  121 (315)
T d2h6fa1          44 DVYDYFRAVLQRDERSERAFKLTRDAIELNAA-NYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHRRVL  121 (315)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHHHCCC-ChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHh-hhhHHHHHhHH
Confidence            35566667778889999999999999988665 7778888888888876 589999999999887544 67888888899


Q ss_pred             HhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCC----
Q 009255          335 FCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERR----  410 (539)
Q Consensus       335 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----  410 (539)
                      +...|++++|+..++++++.. +.+...|..+..++...|++++|+..++++++.++. +...|+.+..++...+.    
T Consensus       122 ~~~l~~~~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~-n~~a~~~r~~~l~~~~~~~~~  199 (315)
T d2h6fa1         122 VEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTTGYNDR  199 (315)
T ss_dssp             HHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCSCSH
T ss_pred             HHhhccHHHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCc-cHHHHHHHHHHHHHccccchh
Confidence            999999999999999999875 347889999999999999999999999999987544 67788888777766555    


Q ss_pred             --hHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHH
Q 009255          411 --LEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEK  488 (539)
Q Consensus       411 --~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  488 (539)
                        +++|+..+.++++.. +.+...+..+...+.. ...+++.+.++.+.+....                ..+...+..+
T Consensus       200 ~~~~~ai~~~~~al~~~-P~~~~~~~~l~~ll~~-~~~~~~~~~~~~~~~l~~~----------------~~~~~~~~~l  261 (315)
T d2h6fa1         200 AVLEREVQYTLEMIKLV-PHNESAWNYLKGILQD-RGLSKYPNLLNQLLDLQPS----------------HSSPYLIAFL  261 (315)
T ss_dssp             HHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTT-TCGGGCHHHHHHHHHHTTT----------------CCCHHHHHHH
T ss_pred             hhhHHhHHHHHHHHHhC-CCchHHHHHHHHHHHh-cChHHHHHHHHHHHHhCCC----------------cCCHHHHHHH
Confidence              578999999988753 4456677777666554 4468888999998887632                1223356667


Q ss_pred             HHHHhhc--CC-------HHHHHHHHHHHHHcCCCCCHHH
Q 009255          489 INEHCSQ--GR-------YKDALQIFEETRQKGIAINKST  519 (539)
Q Consensus       489 ~~~~~~~--g~-------~~~A~~~~~~~~~~~~~p~~~~  519 (539)
                      +..|...  ++       +++|..+++..... +.|-...
T Consensus       262 ~~~y~~~~~~~~~~~~~~~~ka~~l~~~l~~~-~DpiR~~  300 (315)
T d2h6fa1         262 VDIYEDMLENQCDNKEDILNKALELCEILAKE-KDTIRKE  300 (315)
T ss_dssp             HHHHHHHHHTTCSSHHHHHHHHHHHHHHHHHT-TCGGGHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHh-cCHHHHH
Confidence            7776543  33       44555555554432 4454443

>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=99.42  E-value=2.5e-11  Score=106.33  Aligned_cols=204  Identities=7%  Similarity=0.044  Sum_probs=166.4

Q ss_pred             HhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCC-CHHHHHHHHHHHHhCCCCCCHHhHHHHHH
Q 009255          290 TFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEG-QVEKALQFHNKMVEKSFKPDIVTCNILLS  368 (539)
Q Consensus       290 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  368 (539)
                      ...++.+...+.+.+.+++|+..++++++..+. +...|.....++...| ++++|+..++.+++... -+..+|..+..
T Consensus        43 ~~a~~~~~~~~~~~e~~~~Al~~~~~ai~lnP~-~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p-~~~~a~~~~~~  120 (315)
T d2h6fa1          43 RDVYDYFRAVLQRDERSERAFKLTRDAIELNAA-NYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQP-KNYQVWHHRRV  120 (315)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHHCCC-ChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHH-hhhhHHHHHhH
Confidence            345667777888999999999999999997543 6667788888877766 69999999999998753 47889999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCC---
Q 009255          369 GLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGR---  445 (539)
Q Consensus       369 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---  445 (539)
                      ++.+.|++++|+..++++++..+. +...|..++..+...|++++|+..++++++.+ +.+...|..++.++...++   
T Consensus       121 ~~~~l~~~~eAl~~~~kal~~dp~-n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~-p~n~~a~~~r~~~l~~~~~~~~  198 (315)
T d2h6fa1         121 LVEWLRDPSQELEFIADILNQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYND  198 (315)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCS
T ss_pred             HHHhhccHHHHHHHHhhhhhhhhc-chHHHHHHHHHHHHHHhhHHHHHHHHHHHHHC-CccHHHHHHHHHHHHHccccch
Confidence            999999999999999999998544 78899999999999999999999999999764 4456778777777766555   


Q ss_pred             ---HHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCC
Q 009255          446 ---LEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAIN  516 (539)
Q Consensus       446 ---~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~  516 (539)
                         +++|++.+.++++..                  |.+..+|..++..+...| .+++.+.++++++....++
T Consensus       199 ~~~~~~ai~~~~~al~~~------------------P~~~~~~~~l~~ll~~~~-~~~~~~~~~~~~~l~~~~~  253 (315)
T d2h6fa1         199 RAVLEREVQYTLEMIKLV------------------PHNESAWNYLKGILQDRG-LSKYPNLLNQLLDLQPSHS  253 (315)
T ss_dssp             HHHHHHHHHHHHHHHHHS------------------TTCHHHHHHHHHHHTTTC-GGGCHHHHHHHHHHTTTCC
T ss_pred             hhhhHHhHHHHHHHHHhC------------------CCchHHHHHHHHHHHhcC-hHHHHHHHHHHHHhCCCcC
Confidence               678999999999997                  344558888887766544 6888899999887433333

>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=99.40  E-value=1.6e-12  Score=115.80  Aligned_cols=233  Identities=9%  Similarity=-0.027  Sum_probs=171.2

Q ss_pred             ccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCC--CHHHHHHHHHHHHHCCCCCCHHhH-HHHHHHHhcCCCHHH
Q 009255          267 RDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSG--KTEQAIDMLNELLQSGMIPDETTF-NTIIHGFCSEGQVEK  343 (539)
Q Consensus       267 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~  343 (539)
                      ..+++++|+..++.+...++. +...|..+..++...+  +.++|+..+.++.+..+. +...+ ......+...+.++.
T Consensus        85 ~~~~~~~al~~~~~~l~~~pk-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~-~~~~~~~~~~~~~~~~~~~~~  162 (334)
T d1dcea1          85 SAALVKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAE  162 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHH
T ss_pred             HHHHHHHHHHHHHHHHHhCCC-cHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhCch-hhhhhhhHHHHHHHhccccHH
Confidence            345577888888888877554 6777777777766655  478999999998876443 34443 445567778899999


Q ss_pred             HHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHh
Q 009255          344 ALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEE  423 (539)
Q Consensus       344 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  423 (539)
                      |...++.+++.++ .+...|..+..++...|++++|...++.....    .+. ...+...+...+..+++...+.....
T Consensus       163 Al~~~~~~i~~~p-~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~----~~~-~~~~~~~~~~l~~~~~a~~~~~~~l~  236 (334)
T d1dcea1         163 ELAFTDSLITRNF-SNYSSWHYRSCLLPQLHPQPDSGPQGRLPENV----LLK-ELELVQNAFFTDPNDQSAWFYHRWLL  236 (334)
T ss_dssp             HHHHHHTTTTTTC-CCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHH----HHH-HHHHHHHHHHHCSSCSHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCC-CCHHHHHHHHHHHHHhcCHHHHHHHHHHhHHh----HHH-HHHHHHHHHHhcchhHHHHHHHHHHH
Confidence            9999999988763 47888888999999999888887666554443    111 12233345556777788888888876


Q ss_pred             CCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChh-hHHHHHHHHhhcCCHHHHH
Q 009255          424 KKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSI-SYSEKINEHCSQGRYKDAL  502 (539)
Q Consensus       424 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~  502 (539)
                      .. +++...+..++..+...|+..+|.+.+.+..+.+                   |+.. +|..++.+|...|++++|+
T Consensus       237 ~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-------------------p~~~~~~~~l~~~~~~~~~~~eA~  296 (334)
T d1dcea1         237 GR-AEPLFRCELSVEKSTVLQSELESCKELQELEPEN-------------------KWCLLTIILLMRALDPLLYEKETL  296 (334)
T ss_dssp             SC-CCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTC-------------------HHHHHHHHHHHHHHCTGGGHHHHH
T ss_pred             hC-cchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhC-------------------chHHHHHHHHHHHHHHCCCHHHHH
Confidence            53 3444555667777888899999999999888876                   5444 8999999999999999999


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 009255          503 QIFEETRQKGIAINKSTYMNLMNGLIK  529 (539)
Q Consensus       503 ~~~~~~~~~~~~p~~~~~~~~l~~~~~  529 (539)
                      ..++++++  +.|+...+...+...+.
T Consensus       297 ~~~~~ai~--ldP~~~~y~~~L~~~~~  321 (334)
T d1dcea1         297 QYFSTLKA--VDPMRAAYLDDLRSKFL  321 (334)
T ss_dssp             HHHHHHHH--HCGGGHHHHHHHHHHHH
T ss_pred             HHHHHHHH--HCcccHHHHHHHHHHHh
Confidence            99999998  67887766555554443

>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=99.40  E-value=6.5e-11  Score=103.68  Aligned_cols=188  Identities=10%  Similarity=0.034  Sum_probs=147.1

Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHH
Q 009255          305 KTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFR  384 (539)
Q Consensus       305 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  384 (539)
                      ..++|..++++......+.+...+...+......|+++.|..+|+.+++........+|...+..+.+.|+++.|.++|+
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            45778888888887544556667777788888999999999999999886544345578888888889999999999999


Q ss_pred             HHHHcCCCCChhhHHHHHHH-HHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC
Q 009255          385 SWILKGKAVDSVTYNTLISS-LCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKIN  463 (539)
Q Consensus       385 ~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  463 (539)
                      ++...++. +...|...+.. +...|+.+.|..+|+.+... .+.+...+...+..+...|+.++|+.+|+++++.... 
T Consensus       159 ~al~~~~~-~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~-~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~-  235 (308)
T d2onda1         159 KAREDART-RHHVYVTAALMEYYCSKDKSVAFKIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSL-  235 (308)
T ss_dssp             HHHTSTTC-CTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSS-
T ss_pred             HHHHhCCC-cHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh-hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-
Confidence            98876433 45555554443 34468899999999999875 3555778888889899999999999999999987633 


Q ss_pred             cccccCCCCCCCCCCCCCh--hhHHHHHHHHhhcCCHHHHHHHHHHHHH
Q 009255          464 HQVVQPNTSKTPEEIDPSS--ISYSEKINEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       464 ~~~~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~  510 (539)
                                     +|..  ..|...+......|+.+.+..+++++.+
T Consensus       236 ---------------~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~  269 (308)
T d2onda1         236 ---------------PPEKSGEIWARFLAFESNIGDLASILKVEKRRFT  269 (308)
T ss_dssp             ---------------CGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             ---------------ChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence                           2332  3788888888888999999999999876

>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=99.36  E-value=2.6e-10  Score=102.58  Aligned_cols=240  Identities=12%  Similarity=0.008  Sum_probs=139.0

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHcCCC-CC----HhhHHHHHHHHHcCCCHHHHHHHHHHHHHC----CCCCC---H
Q 009255          258 YGTLITGYFRDEKANRALKLWDEMKERQIM-PS----TFTYNAMIWGLSQSGKTEQAIDMLNELLQS----GMIPD---E  325 (539)
Q Consensus       258 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~---~  325 (539)
                      +..+...|...|++++|+..|++....... ++    ...+..+...+...|++..+...+.+....    .....   .
T Consensus        54 ~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~  133 (366)
T d1hz4a_          54 TSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHE  133 (366)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHH
Confidence            333444555555555555555554331100 01    123344455566667777776666655431    11111   1


Q ss_pred             HhHHHHHHHHhcCCCHHHHHHHHHHHHhCC----CCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC--CCC----h
Q 009255          326 TTFNTIIHGFCSEGQVEKALQFHNKMVEKS----FKPDIVTCNILLSGLCREGILEKALKFFRSWILKGK--AVD----S  395 (539)
Q Consensus       326 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~--~~~----~  395 (539)
                      ..+..+...+...|+++.+...+.......    .......+......+...+++..+...+.+......  ...    .
T Consensus       134 ~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~  213 (366)
T d1hz4a_         134 FLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWIS  213 (366)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHH
T ss_pred             HHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHH
Confidence            234445566677777777777777666432    112233445555666677777777777766554311  111    1


Q ss_pred             hhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCC---HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCC
Q 009255          396 VTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPD---RYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTS  472 (539)
Q Consensus       396 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~  472 (539)
                      ..+..+...+...|++++|...+++........+   ...+..++.++...|++++|.+.+++++.....          
T Consensus       214 ~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~----------  283 (366)
T d1hz4a_         214 NANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARS----------  283 (366)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH----------
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhh----------
Confidence            2345566677778888888888887765422211   234456777888888888888888887643211          


Q ss_pred             CCCCCCCCChh-hHHHHHHHHhhcCCHHHHHHHHHHHHH
Q 009255          473 KTPEEIDPSSI-SYSEKINEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       473 ~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~  510 (539)
                         .+.+|+.. ++..++.+|...|++++|.+.++++++
T Consensus       284 ---~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         284 ---LRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  319 (366)
T ss_dssp             ---TTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             ---cccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence               00023333 778888888888888888888888765

>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=99.34  E-value=2.8e-11  Score=103.39  Aligned_cols=200  Identities=11%  Similarity=-0.046  Sum_probs=121.3

Q ss_pred             hhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHH
Q 009255          291 FTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGL  370 (539)
Q Consensus       291 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  370 (539)
                      .++..+..+|.+.|++++|+..|++.++..+. ++.++..+..++...|++++|...|+++++.. +.+..++..+..+|
T Consensus        38 ~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~  115 (259)
T d1xnfa_          38 QLLYERGVLYDSLGLRALARNDFSQALAIRPD-MPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRGIAL  115 (259)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHhhccCCC-CHHHHhhhchHHHHHHHHHHhhhhhhHHHHHH-hhhhhhHHHHHHHH
Confidence            35556667777777777777777777765433 56677777777778888888888888777754 23556677777777


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhc----CCH
Q 009255          371 CREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVES----GRL  446 (539)
Q Consensus       371 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----g~~  446 (539)
                      ...|++++|...|++..+..+ .+......+..++...+..+.+..+........  ++...+. +...+...    +..
T Consensus       116 ~~~g~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~-~~~~~~~~~~~~~~~  191 (259)
T d1xnfa_         116 YYGGRDKLAQDDLLAFYQDDP-NDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSD--KEQWGWN-IVEFYLGNISEQTLM  191 (259)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSC--CCSTHHH-HHHHHTTSSCHHHHH
T ss_pred             HHHhhHHHHHHHHHHHHhhcc-ccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccc--hhhhhhh-HHHHHHHHHHHHHHH
Confidence            788888888888887777632 244444444444555555555555444444322  2211111 22222111    122


Q ss_pred             HHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChh-hHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCH
Q 009255          447 EEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSI-SYSEKINEHCSQGRYKDALQIFEETRQKGIAINK  517 (539)
Q Consensus       447 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~  517 (539)
                      +.+...+.......                   |+.. +|..++..|...|++++|+..|+++++  ..|++
T Consensus       192 ~~~~~~~~~~~~~~-------------------~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~--~~p~~  242 (259)
T d1xnfa_         192 ERLKADATDNTSLA-------------------EHLSETNFYLGKYYLSLGDLDSATALFKLAVA--NNVHN  242 (259)
T ss_dssp             HHHHHHCCSHHHHH-------------------HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--TCCTT
T ss_pred             HHHHHHHHHhhhcC-------------------cccHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--cCCCC
Confidence            22333222222222                   3333 777888888888999999999998886  46765

>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=99.33  E-value=1.5e-10  Score=104.11  Aligned_cols=266  Identities=13%  Similarity=0.011  Sum_probs=189.0

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHcCCCCC----HhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCC-CC----HHhHH
Q 009255          259 GTLITGYFRDEKANRALKLWDEMKERQIMPS----TFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMI-PD----ETTFN  329 (539)
Q Consensus       259 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~  329 (539)
                      ......+...|++++|+.++++.+...+..+    ..++..+..++...|++++|...++++.+.... ++    ...+.
T Consensus        16 ~lrA~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~   95 (366)
T d1hz4a_          16 ALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLI   95 (366)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHH
Confidence            3345667788999999999999887643322    245677788999999999999999988653111 11    23455


Q ss_pred             HHHHHHhcCCCHHHHHHHHHHHHhC----CCCC---CHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC----CChhhH
Q 009255          330 TIIHGFCSEGQVEKALQFHNKMVEK----SFKP---DIVTCNILLSGLCREGILEKALKFFRSWILKGKA----VDSVTY  398 (539)
Q Consensus       330 ~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~----~~~~~~  398 (539)
                      .+...+...|++..+...+......    ....   ....+..+...+...|+++.+...+.........    .....+
T Consensus        96 ~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  175 (366)
T d1hz4a_          96 QQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCL  175 (366)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHH
Confidence            6677888999999999998887642    1111   1235566778889999999999999888765222    123345


Q ss_pred             HHHHHHHHccCChHHHHHHHHHHHhC--CCCCC----HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCC
Q 009255          399 NTLISSLCKERRLEDAFGLLSEMEEK--KLGPD----RYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTS  472 (539)
Q Consensus       399 ~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~  472 (539)
                      ......+...+++..+...+.+....  .....    ...+..++..+...|++++|...+++..+.....         
T Consensus       176 ~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~---------  246 (366)
T d1hz4a_         176 AMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFAN---------  246 (366)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTT---------
T ss_pred             HHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhcccc---------
Confidence            66677788899999999988877643  11111    2344556677889999999999999887665220         


Q ss_pred             CCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHH----cCCCCCHHHHHHHHHHHHhcCCchhhcc
Q 009255          473 KTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQ----KGIAINKSTYMNLMNGLIKRRKSISKAV  538 (539)
Q Consensus       473 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~~p~~~~~~~~l~~~~~~~~~~~~A~  538 (539)
                           .+.....+..++.++...|++++|...+++++.    .+..|+.......++.++...|++++|+
T Consensus       247 -----~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  311 (366)
T d1hz4a_         247 -----NHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQ  311 (366)
T ss_dssp             -----CGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             -----chHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHH
Confidence                 011122667889999999999999999999874    3455666666667777777777798885

>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=99.29  E-value=8.1e-10  Score=96.56  Aligned_cols=188  Identities=13%  Similarity=0.006  Sum_probs=123.9

Q ss_pred             HHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHH
Q 009255          271 ANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNK  350 (539)
Q Consensus       271 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  350 (539)
                      .+++..+|++.....++.+...|...+..+...|+.+.|..+++++....+......+...+..+.+.|+.+.|+.+|++
T Consensus        80 ~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~  159 (308)
T d2onda1          80 SDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKK  159 (308)
T ss_dssp             HHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHH
Confidence            45666667666654333455566666777777777777777777776654333344566777777777777777777777


Q ss_pred             HHhCCCCCCHHhHHHHHHH-HHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCC-CCC
Q 009255          351 MVEKSFKPDIVTCNILLSG-LCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKK-LGP  428 (539)
Q Consensus       351 ~~~~~~~~~~~~~~~l~~~-~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~  428 (539)
                      +++... .+...+...+.. +...|+.+.|..+|+.+... .+.++..|..++..+...|+++.|..+|++++... ..|
T Consensus       160 al~~~~-~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~-~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~  237 (308)
T d2onda1         160 AREDAR-TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPP  237 (308)
T ss_dssp             HHTSTT-CCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCG
T ss_pred             HHHhCC-CcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh-hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCCh
Confidence            776542 244444444333 23457778888888877776 33356677777777778888888888888877653 233


Q ss_pred             C--HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          429 D--RYTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       429 ~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      +  ...|...+..-...|+.+.+.++++++.+..
T Consensus       238 ~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~~  271 (308)
T d2onda1         238 EKSGEIWARFLAFESNIGDLASILKVEKRRFTAF  271 (308)
T ss_dssp             GGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            2  3456666666667788888888888877766

>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=99.24  E-value=6.9e-11  Score=105.08  Aligned_cols=232  Identities=9%  Similarity=-0.015  Sum_probs=158.5

Q ss_pred             CCHHHHHHHHHHHhhcCCccCHhhHHHHHHHHHccC--CHHHHHHHHHHHHHcCCCCCHhhHH-HHHHHHHcCCCHHHHH
Q 009255          234 KKLDEAYMLLNSASKRGYYLDEVSYGTLITGYFRDE--KANRALKLWDEMKERQIMPSTFTYN-AMIWGLSQSGKTEQAI  310 (539)
Q Consensus       234 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~~~~~~a~  310 (539)
                      +.+++|+..++.+.+.... +...+..+...+...+  ++++++..+.++....+. +...+. .....+...+.++.|+
T Consensus        87 ~~~~~al~~~~~~l~~~pk-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~-~~~~~~~~~~~~~~~~~~~~~Al  164 (334)
T d1dcea1          87 ALVKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEEL  164 (334)
T ss_dssp             HHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHH
T ss_pred             HHHHHHHHHHHHHHHhCCC-cHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhCch-hhhhhhhHHHHHHHhccccHHHH
Confidence            4455666677776665322 4555555555555444  477888888887776443 444443 4446667778888888


Q ss_pred             HHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          311 DMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKG  390 (539)
Q Consensus       311 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  390 (539)
                      ..++.+....+. +...+..+..++...|++++|...+....+.  .|.   ...+...+...+..+++...+.......
T Consensus       165 ~~~~~~i~~~p~-~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~~  238 (334)
T d1dcea1         165 AFTDSLITRNFS-NYSSWHYRSCLLPQLHPQPDSGPQGRLPENV--LLK---ELELVQNAFFTDPNDQSAWFYHRWLLGR  238 (334)
T ss_dssp             HHHHTTTTTTCC-CHHHHHHHHHHHHHHSCCCCSSSCCSSCHHH--HHH---HHHHHHHHHHHCSSCSHHHHHHHHHHSC
T ss_pred             HHHHHHHHcCCC-CHHHHHHHHHHHHHhcCHHHHHHHHHHhHHh--HHH---HHHHHHHHHHhcchhHHHHHHHHHHHhC
Confidence            888887776543 6677777777888888877765555444332  111   1123333455677777888888877763


Q ss_pred             CCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCC
Q 009255          391 KAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPN  470 (539)
Q Consensus       391 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  470 (539)
                       +++...+..++..+...|++.+|...+.+....+ +.+..++..++.++...|++++|+++++++++.+          
T Consensus       239 -~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ld----------  306 (334)
T d1dcea1         239 -AEPLFRCELSVEKSTVLQSELESCKELQELEPEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKAVD----------  306 (334)
T ss_dssp             -CCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTC-HHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHC----------
T ss_pred             -cchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC----------
Confidence             3456667777888888899999999999988543 2245677788999999999999999999999997          


Q ss_pred             CCCCCCCCCCChh-hHHHHHHHHhh
Q 009255          471 TSKTPEEIDPSSI-SYSEKINEHCS  494 (539)
Q Consensus       471 ~~~~~~~~~~~~~-~~~~l~~~~~~  494 (539)
                               |+.. .|..+...+.-
T Consensus       307 ---------P~~~~y~~~L~~~~~~  322 (334)
T d1dcea1         307 ---------PMRAAYLDDLRSKFLL  322 (334)
T ss_dssp             ---------GGGHHHHHHHHHHHHH
T ss_pred             ---------cccHHHHHHHHHHHhH
Confidence                     6554 77777666653

>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=99.23  E-value=2.8e-10  Score=97.00  Aligned_cols=197  Identities=10%  Similarity=-0.046  Sum_probs=129.6

Q ss_pred             hhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHH
Q 009255          256 VSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGF  335 (539)
Q Consensus       256 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  335 (539)
                      .++..+...|.+.|++++|+..|++.+...+. ++.+|..+..++...|++++|+..|+++.+..+. +..++..+..++
T Consensus        38 ~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~  115 (259)
T d1xnfa_          38 QLLYERGVLYDSLGLRALARNDFSQALAIRPD-MPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPT-YNYAHLNRGIAL  115 (259)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHhhccCCC-CHHHHhhhchHHHHHHHHHHhhhhhhHHHHHHhh-hhhhHHHHHHHH
Confidence            35666777888888888888888888877654 6788888888888899999999999888876543 556777788888


Q ss_pred             hcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChH---
Q 009255          336 CSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLE---  412 (539)
Q Consensus       336 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~---  412 (539)
                      ...|+++.|...++..++.. +.+......+...+.+.+..+.+..+.......  .++...+. ++..+.......   
T Consensus       116 ~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~-~~~~~~~~~~~~~~~  191 (259)
T d1xnfa_         116 YYGGRDKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKS--DKEQWGWN-IVEFYLGNISEQTLM  191 (259)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHS--CCCSTHHH-HHHHHTTSSCHHHHH
T ss_pred             HHHhhHHHHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhcc--chhhhhhh-HHHHHHHHHHHHHHH
Confidence            88899999999998888764 234444444455555556555555555554443  22222222 222222222222   


Q ss_pred             -HHHHHHHHHHhCCCCCC-HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          413 -DAFGLLSEMEEKKLGPD-RYTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       413 -~A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                       .+...+.....  ..|+ ..++..++..+...|++++|.+.|++++..+
T Consensus       192 ~~~~~~~~~~~~--~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~  239 (259)
T d1xnfa_         192 ERLKADATDNTS--LAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN  239 (259)
T ss_dssp             HHHHHHCCSHHH--HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHhhh--cCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC
Confidence             12221111111  1122 2456678889999999999999999999876

>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=99.10  E-value=1.3e-09  Score=79.17  Aligned_cols=107  Identities=16%  Similarity=0.141  Sum_probs=88.3

Q ss_pred             HHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCC
Q 009255          400 TLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEID  479 (539)
Q Consensus       400 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  479 (539)
                      .-+..+...|++++|+..|+++++.. +.+...+..++.++...|++++|++.++++++.+                  |
T Consensus         8 ~~g~~~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~------------------p   68 (117)
T d1elwa_           8 EKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK------------------P   68 (117)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC------------------T
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhc------------------c
Confidence            34667788899999999999998764 4557788888999999999999999999999987                  4


Q ss_pred             CChhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 009255          480 PSSISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGL  527 (539)
Q Consensus       480 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~  527 (539)
                      .+...|..++.++...|++++|+..|+++++  +.|+.+.+...+..+
T Consensus        69 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~a~~--~~p~~~~~~~~l~~l  114 (117)
T d1elwa_          69 DWGKGYSRKAAALEFLNRFEEAKRTYEEGLK--HEANNPQLKEGLQNM  114 (117)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--TCTTCHHHHHHHHHH
T ss_pred             chhhHHHHHHHHHHHccCHHHHHHHHHHHHH--hCCCCHHHHHHHHHH
Confidence            4555899999999999999999999999997  678887776666544

>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=99.04  E-value=1e-08  Score=81.92  Aligned_cols=154  Identities=8%  Similarity=-0.081  Sum_probs=110.3

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCH
Q 009255          367 LSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRL  446 (539)
Q Consensus       367 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  446 (539)
                      ...+...|+++.|++.|.++    .+|++.+|..++.+|...|++++|+..|+++++.+ +.+...+..++.++.+.|++
T Consensus        12 g~~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~~~g~~   86 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKY   86 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHHhhccH
Confidence            45567789999999988764    34677888889999999999999999999998764 44567888899999999999


Q ss_pred             HHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCC-hhhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 009255          447 EEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPS-SISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMN  525 (539)
Q Consensus       447 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~  525 (539)
                      ++|++.|++++.....+.. +.+..  ......+. ..++..++.++...|++++|.+.++++++....|+.......+.
T Consensus        87 ~~A~~~~~kAl~~~~~n~~-~~~~~--~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~~~~~~~~~Al~  163 (192)
T d1hh8a_          87 DLAIKDLKEALIQLRGNQL-IDYKI--LGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEPRHSKIDKAME  163 (192)
T ss_dssp             HHHHHHHHHHHHTTTTCSE-EECGG--GTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSGGGGHHHHHHH
T ss_pred             HHHHHHHHHHHHhCccCch-HHHHH--hhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcchHHHHHHHH
Confidence            9999999998875422111 00000  00000112 23678899999999999999999999997444444445554454


Q ss_pred             HHH
Q 009255          526 GLI  528 (539)
Q Consensus       526 ~~~  528 (539)
                      .+.
T Consensus       164 ~~~  166 (192)
T d1hh8a_         164 CVW  166 (192)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            443

>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=98.98  E-value=3.9e-09  Score=81.77  Aligned_cols=94  Identities=14%  Similarity=0.107  Sum_probs=48.8

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcC
Q 009255          365 ILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESG  444 (539)
Q Consensus       365 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  444 (539)
                      .....|.+.|++++|+..|++++...+. +...|..++.+|...|++++|+..|+++++.+ +.+..++..++.++...|
T Consensus        15 ~~gn~~~~~~~y~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g   92 (159)
T d1a17a_          15 TQANDYFKAKDYENAIKFYSQAIELNPS-NAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALG   92 (159)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHhhhccccchh-hhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcC
Confidence            3344455555555555555555554322 44455555555555555555555555555432 223345555555555555


Q ss_pred             CHHHHHHHHHHHHHcC
Q 009255          445 RLEEAQKFTSIMVETG  460 (539)
Q Consensus       445 ~~~~A~~~~~~~~~~~  460 (539)
                      ++++|.+.++++++..
T Consensus        93 ~~~eA~~~~~~a~~~~  108 (159)
T d1a17a_          93 KFRAALRDYETVVKVK  108 (159)
T ss_dssp             CHHHHHHHHHHHHHHS
T ss_pred             CHHHHHHHHHHHHHcC
Confidence            5555555555555554

>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=98.92  E-value=2.8e-08  Score=71.94  Aligned_cols=94  Identities=17%  Similarity=0.096  Sum_probs=76.1

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcC
Q 009255          365 ILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESG  444 (539)
Q Consensus       365 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  444 (539)
                      .-...+...|++++|+..|+++++..+. ++..|..++.++...|++++|+..+.++++.+ +.+...+..++.++...|
T Consensus         8 ~~g~~~~~~g~~~eAi~~~~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~   85 (117)
T d1elwa_           8 EKGNKALSVGNIDDALQCYSEAIKLDPH-NHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLN   85 (117)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcCCc-chhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHcc
Confidence            3466677888888888888888877433 67788888888888888888888888888764 556778888888888888


Q ss_pred             CHHHHHHHHHHHHHcC
Q 009255          445 RLEEAQKFTSIMVETG  460 (539)
Q Consensus       445 ~~~~A~~~~~~~~~~~  460 (539)
                      ++++|+..++++++..
T Consensus        86 ~~~~A~~~~~~a~~~~  101 (117)
T d1elwa_          86 RFEEAKRTYEEGLKHE  101 (117)
T ss_dssp             CHHHHHHHHHHHHTTC
T ss_pred             CHHHHHHHHHHHHHhC
Confidence            8888888888888876

>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=98.88  E-value=7.5e-09  Score=75.10  Aligned_cols=110  Identities=10%  Similarity=0.001  Sum_probs=76.4

Q ss_pred             HHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCC---HHHHHHHHHHHHHcCCCCcccccCCCCCCC
Q 009255          399 NTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGR---LEEAQKFTSIMVETGKINHQVVQPNTSKTP  475 (539)
Q Consensus       399 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~  475 (539)
                      ..++..+...+++++|.+.|++.+..+ +.+..++..++.++.+.++   +++|+++++++++.+..             
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~-------------   68 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSK-------------   68 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCH-------------
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCC-------------
Confidence            356666777778888888888887654 4566777777777776444   44577788877776511             


Q ss_pred             CCCCCCh-hhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 009255          476 EEIDPSS-ISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTYMNLMNGLI  528 (539)
Q Consensus       476 ~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~  528 (539)
                          |+. .+|..++.+|.+.|++++|++.|+++++  +.|+......+...+.
T Consensus        69 ----~~~~~~~~~Lg~~y~~~g~~~~A~~~~~~aL~--~~P~~~~A~~l~~~I~  116 (122)
T d1nzna_          69 ----EEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQ--TEPQNNQAKELERLID  116 (122)
T ss_dssp             ----HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHH
T ss_pred             ----chHHHHHHHHHHHHHHHhhhHHHHHHHHHHHH--hCcCCHHHHHHHHHHH
Confidence                221 2677888888888888888888888887  5688777766666544

>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=98.85  E-value=6.1e-08  Score=74.81  Aligned_cols=122  Identities=15%  Similarity=0.064  Sum_probs=96.0

Q ss_pred             hHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHH
Q 009255          327 TFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLC  406 (539)
Q Consensus       327 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~  406 (539)
                      .+......|.+.|++++|...|+++++.. +.+...|..+..+|...|++++|...|+++++..+. +..+|..++.++.
T Consensus        12 ~l~~~gn~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~-~~~a~~~~g~~~~   89 (159)
T d1a17a_          12 ELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKK-YIKGYYRRAASNM   89 (159)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHccc-chHHHHHHHHHHH
Confidence            45566778899999999999999999985 458889999999999999999999999999987433 6779999999999


Q ss_pred             ccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHH--HhcCCHHHHHH
Q 009255          407 KERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTAL--VESGRLEEAQK  451 (539)
Q Consensus       407 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~--~~~g~~~~A~~  451 (539)
                      ..|++++|+..++++.... +-+...+..+..+.  ...+.+++|..
T Consensus        90 ~~g~~~eA~~~~~~a~~~~-p~~~~~~~~l~~~~~~~~~~~~~~a~~  135 (159)
T d1a17a_          90 ALGKFRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIA  135 (159)
T ss_dssp             HTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            9999999999999999753 23344444444332  23334445544

>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=98.84  E-value=7.8e-09  Score=83.92  Aligned_cols=100  Identities=13%  Similarity=-0.008  Sum_probs=55.8

Q ss_pred             CCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCC-CHhhHHHH
Q 009255          358 PDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGP-DRYTYAAI  436 (539)
Q Consensus       358 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~-~~~~~~~l  436 (539)
                      |+...+...+..|.+.|++++|+..|++++...+ .++..|..++.+|...|++++|+..|+++++.  .| +..++..+
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~p-~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l--~p~~~~a~~~l   78 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNP-LVAVYYTNRALCYLKMQQPEQALADCRRALEL--DGQSVKAHFFL   78 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--CTTCHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHh--CCCcHHHHHHH
Confidence            4444555555555666666666666655555432 24555555666666666666666666665532  33 24455555


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          437 HTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       437 ~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      +.++...|++++|...++++++..
T Consensus        79 g~~~~~l~~~~~A~~~~~~al~l~  102 (201)
T d2c2la1          79 GQCQLEMESYDEAIANLQRAYSLA  102 (201)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC
Confidence            666666666666666666555543

>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=98.84  E-value=1.5e-07  Score=74.95  Aligned_cols=127  Identities=11%  Similarity=-0.053  Sum_probs=95.0

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHH
Q 009255           11 VTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGW   90 (539)
Q Consensus        11 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   90 (539)
                      ..|+. ...+...|+++.|++.|+++    .+|++.++..++.+|...|++++|++.|++.++.++. +...|..+..++
T Consensus         7 ~l~~~-g~~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~-~~~a~~~~g~~~   80 (192)
T d1hh8a_           7 SLWNE-GVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKH-LAVAYFQRGMLY   80 (192)
T ss_dssp             HHHHH-HHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHHH-HHHHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhh-hhhhHHHHHHHH
Confidence            34554 56677889999999988764    2567888889999999999999999999999887654 677888899999


Q ss_pred             HhcCChHHHHHHHHHHHhCCCCCC----------------hhhHHHHHHHHhccCCHhHHHHHHHHHHhC
Q 009255           91 CNAGMLEEAFRLRKEMESLKLLPD----------------VVTYNTLINRFFESGRSMEAFKLIDELDEH  144 (539)
Q Consensus        91 ~~~g~~~~a~~~~~~~~~~~~~~~----------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  144 (539)
                      .+.|++++|+..|++..... +.+                ..++..+..++...|++++|.+.+......
T Consensus        81 ~~~g~~~~A~~~~~kAl~~~-~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~  149 (192)
T d1hh8a_          81 YQTEKYDLAIKDLKEALIQL-RGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM  149 (192)
T ss_dssp             HHTTCHHHHHHHHHHHHHTT-TTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HhhccHHHHHHHHHHHHHhC-ccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            99999999999998876531 111                133445556666667777777766666554

>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=98.84  E-value=1.5e-08  Score=82.26  Aligned_cols=98  Identities=10%  Similarity=0.003  Sum_probs=88.3

Q ss_pred             CChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCC
Q 009255          393 VDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTS  472 (539)
Q Consensus       393 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~  472 (539)
                      |+...+...+..+...|++++|+..|+++++.. +.+..+|..++.+|.+.|++++|++.++++++.+            
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~------------   68 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD------------   68 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC------------
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhC------------
Confidence            567778888999999999999999999999764 4567888999999999999999999999999987            


Q ss_pred             CCCCCCCCChh-hHHHHHHHHhhcCCHHHHHHHHHHHHH
Q 009255          473 KTPEEIDPSSI-SYSEKINEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       473 ~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~  510 (539)
                             |+.. +|..++.+|...|++++|+..|+++++
T Consensus        69 -------p~~~~a~~~lg~~~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          69 -------GQSVKAHFFLGQCQLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             -------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             -------CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence                   6554 999999999999999999999999886

>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=98.83  E-value=1.7e-08  Score=72.41  Aligned_cols=94  Identities=11%  Similarity=-0.070  Sum_probs=79.3

Q ss_pred             hHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCC
Q 009255          397 TYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPE  476 (539)
Q Consensus       397 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~  476 (539)
                      .+..++..+.+.|++++|+..|++++... +-+..++..++.++.+.|++++|+..++++++.+                
T Consensus        18 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~----------------   80 (112)
T d1hxia_          18 NPMEEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD----------------   80 (112)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC----------------
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHhhhcccc-cccchhhhhhhhhhhhhhhHHHhhcccccccccc----------------
Confidence            34556778888999999999999998763 3357888889999999999999999999999987                


Q ss_pred             CCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHH
Q 009255          477 EIDPSSISYSEKINEHCSQGRYKDALQIFEETR  509 (539)
Q Consensus       477 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  509 (539)
                        |.+..+|..++.+|...|++++|++.+++.+
T Consensus        81 --p~~~~a~~~la~~y~~~g~~~~A~~~l~~~l  111 (112)
T d1hxia_          81 --PKDIAVHAALAVSHTNEHNANAALASLRAWL  111 (112)
T ss_dssp             --TTCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             --cccccchHHHHHHHHHCCCHHHHHHHHHHHh
Confidence              3445599999999999999999999999865

>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=98.81  E-value=4.6e-08  Score=84.27  Aligned_cols=198  Identities=10%  Similarity=-0.026  Sum_probs=130.8

Q ss_pred             HHHHHcCCCHHHHHHHHHHHHHC----CCCC-CHHhHHHHHHHHhcCCCHHHHHHHHHHHHhC----C-CCCCHHhHHHH
Q 009255          297 IWGLSQSGKTEQAIDMLNELLQS----GMIP-DETTFNTIIHGFCSEGQVEKALQFHNKMVEK----S-FKPDIVTCNIL  366 (539)
Q Consensus       297 ~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~~~~~~l  366 (539)
                      ...|...+++++|.+.|.++.+.    +-.+ -..+|..+..+|.+.|++++|...++...+.    + ......++..+
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            45567777788888777776542    1111 1346777788888888888888888876642    1 11123455666


Q ss_pred             HHHHHh-cCCHHHHHHHHHHHHHc----CCCC-ChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCC------HhhHH
Q 009255          367 LSGLCR-EGILEKALKFFRSWILK----GKAV-DSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPD------RYTYA  434 (539)
Q Consensus       367 ~~~~~~-~g~~~~A~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~------~~~~~  434 (539)
                      ...|.. .|++++|+..+++..+.    +.++ ...++..++..+...|++++|+..|+++........      ...+.
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            666644 69999999999887643    1111 123578889999999999999999999886532111      12234


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCC---hhhHHHHHHHHhh--cCCHHHHHHHHHHHH
Q 009255          435 AIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPS---SISYSEKINEHCS--QGRYKDALQIFEETR  509 (539)
Q Consensus       435 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~--~g~~~~A~~~~~~~~  509 (539)
                      ..+..+...|+++.|.+.++++.+.+..                -++   ......++.++..  .+++++|+..|+++.
T Consensus       204 ~~~~~~l~~~d~~~A~~~~~~~~~~~~~----------------~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~~  267 (290)
T d1qqea_         204 KKGLCQLAATDAVAAARTLQEGQSEDPN----------------FADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFM  267 (290)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHGGGCC-------------------------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSS
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHhCCC----------------ccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence            5556677889999999999999887622                111   1244556666654  356899999998765


Q ss_pred             H
Q 009255          510 Q  510 (539)
Q Consensus       510 ~  510 (539)
                      +
T Consensus       268 ~  268 (290)
T d1qqea_         268 R  268 (290)
T ss_dssp             C
T ss_pred             h
Confidence            3

>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=98.80  E-value=2e-05  Score=66.22  Aligned_cols=223  Identities=13%  Similarity=0.054  Sum_probs=132.0

Q ss_pred             HhhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHc----CCCHHHHHHHHHHHHHCCCCCCHHhHHH
Q 009255          255 EVSYGTLITGYFRDEKANRALKLWDEMKERQIMPSTFTYNAMIWGLSQ----SGKTEQAIDMLNELLQSGMIPDETTFNT  330 (539)
Q Consensus       255 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~  330 (539)
                      +..+..|...+...+++.+|++.|++..+.+   +...+..|...|..    ..+...|...+......+   ++.....
T Consensus         2 p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~---~~~a~~~   75 (265)
T d1ouva_           2 PKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHL   75 (265)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc---ccchhhc
Confidence            3344445555555666666666666665543   44444445555544    446666666666655543   2222222


Q ss_pred             HHHHHh----cCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCCChhhHHHHH
Q 009255          331 IIHGFC----SEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCR----EGILEKALKFFRSWILKGKAVDSVTYNTLI  402 (539)
Q Consensus       331 l~~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~  402 (539)
                      +...+.    ...+.+.|...++...+.+.   ......+...+..    ......+...+......   .+...+..|.
T Consensus        76 l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~---~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~L~  149 (265)
T d1ouva_          76 LGNLYYSGQGVSQNTNKALQYYSKACDLKY---AEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL---NDGDGCTILG  149 (265)
T ss_dssp             HHHHHHHTSSSCCCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT---TCHHHHHHHH
T ss_pred             cccccccccccchhhHHHHHHHhhhhhhhh---hhHHHhhcccccCCCcccchhHHHHHHhhhhhcc---cccchhhhhh
Confidence            322222    24566677777777666542   2222333333332    34456666666665543   3556666676


Q ss_pred             HHHHc----cCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCCcccccCCCCCC
Q 009255          403 SSLCK----ERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVE----SGRLEEAQKFTSIMVETGKINHQVVQPNTSKT  474 (539)
Q Consensus       403 ~~~~~----~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~  474 (539)
                      ..+..    ..+...+...++...+.+   +......++..+..    ..++++|+.+|+++.+.+              
T Consensus       150 ~~~~~~~~~~~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g--------------  212 (265)
T d1ouva_         150 SLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE--------------  212 (265)
T ss_dssp             HHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT--------------
T ss_pred             hhhccCCCcccccccchhhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhhhccc--------------
Confidence            66664    456667777777776543   55566666666654    567888999998888865              


Q ss_pred             CCCCCCChhhHHHHHHHHhh----cCCHHHHHHHHHHHHHcC
Q 009255          475 PEEIDPSSISYSEKINEHCS----QGRYKDALQIFEETRQKG  512 (539)
Q Consensus       475 ~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~  512 (539)
                            ++.++..|+..|..    ..++++|.+.|+++.+.|
T Consensus       213 ------~~~a~~~LG~~y~~G~g~~~n~~~A~~~~~kAa~~g  248 (265)
T d1ouva_         213 ------NGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLG  248 (265)
T ss_dssp             ------CHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             ------CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHCc
Confidence                  23466777877765    347888999999988776

>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=98.74  E-value=6e-08  Score=75.59  Aligned_cols=78  Identities=10%  Similarity=0.044  Sum_probs=67.3

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHc
Q 009255          432 TYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQK  511 (539)
Q Consensus       432 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  511 (539)
                      ++..++.+|.+.|++++|++.++++++.+                  |.+..+|..++.+|...|++++|+..|+++++ 
T Consensus        64 ~~~nla~~y~k~~~~~~A~~~~~~al~~~------------------p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~-  124 (170)
T d1p5qa1          64 SHLNLAMCHLKLQAFSAAIESCNKALELD------------------SNNEKGLSRRGEAHLAVNDFELARADFQKVLQ-  124 (170)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC------------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH-
T ss_pred             HHHHHHHHHHhhhhcccccchhhhhhhcc------------------ccchhhhHHHHHHHHHhhhHHHHHHHHHHHHH-
Confidence            56678889999999999999999999997                  33555999999999999999999999999998 


Q ss_pred             CCCCCHHHHHHHHHHHHh
Q 009255          512 GIAINKSTYMNLMNGLIK  529 (539)
Q Consensus       512 ~~~p~~~~~~~~l~~~~~  529 (539)
                       +.|++......+..+..
T Consensus       125 -l~P~n~~~~~~l~~~~~  141 (170)
T d1p5qa1         125 -LYPNNKAAKTQLAVCQQ  141 (170)
T ss_dssp             -HCSSCHHHHHHHHHHHH
T ss_pred             -hCCCCHHHHHHHHHHHH
Confidence             67888877777766644

>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=98.74  E-value=2.3e-05  Score=65.84  Aligned_cols=224  Identities=12%  Similarity=0.004  Sum_probs=142.1

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHc----cCCHhHHHHHHHHHHhCCCCCChhhHH
Q 009255            9 DNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCK----LGWLKEAMRVVDLMTQNKSLPDVWTYN   84 (539)
Q Consensus         9 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~   84 (539)
                      |+..+..|...+...+++++|++.|++..+.|   +..++..|...|..    ..+...|...++.....+   ++....
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~---~~~a~~   74 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   74 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc---ccchhh
Confidence            45677778888888899999999999988876   56677777777775    668888888888887754   334444


Q ss_pred             HHHHHHHh----cCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHh----ccCCHhHHHHHHHHHHhCCCCCCHHHHHHH
Q 009255           85 MLINGWCN----AGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFF----ESGRSMEAFKLIDELDEHGIKPNAVTHNIM  156 (539)
Q Consensus        85 ~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  156 (539)
                      .+...+..    ..+.+.|...++.....|   .......+...+.    .......+...+......   .+...+..+
T Consensus        75 ~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g---~~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~L  148 (265)
T d1ouva_          75 LLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL---NDGDGCTIL  148 (265)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT---TCHHHHHHH
T ss_pred             ccccccccccccchhhHHHHHHHhhhhhhh---hhhHHHhhcccccCCCcccchhHHHHHHhhhhhcc---cccchhhhh
Confidence            44444433    456777888888877755   2223333333332    234456666666665553   355666666


Q ss_pred             HHHHHh----cCCHhHHHHHHHHHHHcCCCCChhhHHHHHHHHHh----cCCHHHHHHHHHHHhhCCCCCCHHhHHHHHH
Q 009255          157 IKWYCK----EGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCK----AGNMEEAFRMMDVMGRKGLKMNTITLNTILH  228 (539)
Q Consensus       157 ~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  228 (539)
                      ...+..    ..+...+...++...+.|   +......+...+..    ..++++|+..|.+..+.|   ++..+..+..
T Consensus       149 ~~~~~~~~~~~~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~LG~  222 (265)
T d1ouva_         149 GSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGA  222 (265)
T ss_dssp             HHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHH
T ss_pred             hhhhccCCCcccccccchhhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhhhccc---CHHHHHHHHH
Confidence            666664    345556666666666543   45555555555544    456777777777776665   3445555555


Q ss_pred             HHhc----cCCHHHHHHHHHHHhhcC
Q 009255          229 TLCC----EKKLDEAYMLLNSASKRG  250 (539)
Q Consensus       229 ~~~~----~~~~~~a~~~~~~~~~~~  250 (539)
                      +|..    ..+.+.|.++|++....|
T Consensus       223 ~y~~G~g~~~n~~~A~~~~~kAa~~g  248 (265)
T d1ouva_         223 MQYNGEGVTRNEKQAIENFKKGCKLG  248 (265)
T ss_dssp             HHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             HHHcCCCCccCHHHHHHHHHHHHHCc
Confidence            5543    336667777777776665

>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=98.71  E-value=1.5e-07  Score=71.69  Aligned_cols=80  Identities=9%  Similarity=0.001  Sum_probs=68.8

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHH
Q 009255          431 YTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       431 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  510 (539)
                      .++..++.++.+.|++++|++.++++++.+                  |.+..+|..++.+|...|++++|+..|+++++
T Consensus        68 ~~~~Nla~~~~~l~~~~~Al~~~~~al~~~------------------p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~  129 (153)
T d2fbna1          68 SCNLNLATCYNKNKDYPKAIDHASKVLKID------------------KNNVKALYKLGVANMYFGFLEEAKENLYKAAS  129 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS------------------TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHhcccchhhhhhhcccccc------------------chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHH
Confidence            466778899999999999999999999997                  34445999999999999999999999999998


Q ss_pred             cCCCCCHHHHHHHHHHHHhc
Q 009255          511 KGIAINKSTYMNLMNGLIKR  530 (539)
Q Consensus       511 ~~~~p~~~~~~~~l~~~~~~  530 (539)
                        +.|++......+..+...
T Consensus       130 --l~P~n~~~~~~l~~~~~k  147 (153)
T d2fbna1         130 --LNPNNLDIRNSYELCVNK  147 (153)
T ss_dssp             --HSTTCHHHHHHHHHHHHH
T ss_pred             --hCCCCHHHHHHHHHHHHH
Confidence              679888777777766543

>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=98.70  E-value=4.1e-07  Score=78.15  Aligned_cols=162  Identities=10%  Similarity=-0.100  Sum_probs=69.5

Q ss_pred             HHHHccCCHhHHHHHHHHHHhC----CCC-CChhhHHHHHHHHHhcCChHHHHHHHHHHHhC----CC-CCChhhHHHHH
Q 009255           53 SGYCKLGWLKEAMRVVDLMTQN----KSL-PDVWTYNMLINGWCNAGMLEEAFRLRKEMESL----KL-LPDVVTYNTLI  122 (539)
Q Consensus        53 ~~~~~~g~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~  122 (539)
                      ..|...|++++|.+.|+++...    +.. .-..+|..+..+|.+.|++++|...+++....    +. .....++..+.
T Consensus        45 ~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~  124 (290)
T d1qqea_          45 TIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELG  124 (290)
T ss_dssp             HHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHHH
Confidence            3444455555555555444321    000 01234444455555555555555555443321    00 00022333344


Q ss_pred             HHHhc-cCCHhHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHhcCCHhHHHHHHHHHHHcCCCCCh------hhHHH
Q 009255          123 NRFFE-SGRSMEAFKLIDELDEH----GIKP-NAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDC------VTYNT  190 (539)
Q Consensus       123 ~~~~~-~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~------~~~~~  190 (539)
                      ..|.. .|++++|++.+++..+.    +.++ ...++..++..+...|++++|...|+++.........      ..+..
T Consensus       125 ~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (290)
T d1qqea_         125 EILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLK  204 (290)
T ss_dssp             HHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHH
T ss_pred             HhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHHHH
Confidence            44422 35555555555554321    1111 1223455555566666666666666555543211000      11223


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhhC
Q 009255          191 LIDANCKAGNMEEAFRMMDVMGRK  214 (539)
Q Consensus       191 l~~~~~~~~~~~~a~~~~~~~~~~  214 (539)
                      .+..+...|+++.|...+++..+.
T Consensus       205 ~~~~~l~~~d~~~A~~~~~~~~~~  228 (290)
T d1qqea_         205 KGLCQLAATDAVAAARTLQEGQSE  228 (290)
T ss_dssp             HHHHHHHTTCHHHHHHHHHGGGCC
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHh
Confidence            333445556666666666655443

>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=98.65  E-value=8.6e-08  Score=69.35  Aligned_cols=96  Identities=22%  Similarity=0.146  Sum_probs=76.7

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccC---ChHHHHHHHHHHHhCCCCCC-HhhHHHHHHH
Q 009255          364 NILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKER---RLEDAFGLLSEMEEKKLGPD-RYTYAAIHTA  439 (539)
Q Consensus       364 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~  439 (539)
                      ..++..+...+++++|++.|++....++ .++.++..++.++.+.+   ++++|+.+++++...+..|+ ..++..++.+
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~p-~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~   81 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVG   81 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHH
Confidence            4567778888899999999999988743 37788888998888755   44569999999886543333 2467788999


Q ss_pred             HHhcCCHHHHHHHHHHHHHcC
Q 009255          440 LVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       440 ~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      |.+.|++++|+++|+++++..
T Consensus        82 y~~~g~~~~A~~~~~~aL~~~  102 (122)
T d1nzna_          82 NYRLKEYEKALKYVRGLLQTE  102 (122)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHhhhHHHHHHHHHHHHhC
Confidence            999999999999999999987

>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=98.64  E-value=1.6e-07  Score=69.05  Aligned_cols=105  Identities=13%  Similarity=0.227  Sum_probs=83.9

Q ss_pred             hHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCC
Q 009255          397 TYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPE  476 (539)
Q Consensus       397 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~  476 (539)
                      .+..++..+...|++++|+..|.++++.+ +.+..++..++.++...|++++|++.++++++....              
T Consensus         6 ~~k~~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~--------------   70 (128)
T d1elra_           6 KEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRE--------------   70 (128)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHH--------------
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcc--------------
Confidence            35567888999999999999999999764 456788889999999999999999999999987622              


Q ss_pred             CCCCCh-----hhHHHHHHHHhhcCCHHHHHHHHHHHHHcCCCCCHHHH
Q 009255          477 EIDPSS-----ISYSEKINEHCSQGRYKDALQIFEETRQKGIAINKSTY  520 (539)
Q Consensus       477 ~~~~~~-----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~  520 (539)
                        .+..     .+|..++..+...+++++|++.|++.+..  .|+....
T Consensus        71 --~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~kal~~--~~~~~~~  115 (128)
T d1elra_          71 --NREDYRQIAKAYARIGNSYFKEEKYKDAIHFYNKSLAE--HRTPDVL  115 (128)
T ss_dssp             --STTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHH
T ss_pred             --cHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc--CCCHHHH
Confidence              1111     15677888888999999999999999873  4665443

>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=2.4e-07  Score=66.15  Aligned_cols=92  Identities=12%  Similarity=-0.043  Sum_probs=65.6

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhc
Q 009255          364 NILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVES  443 (539)
Q Consensus       364 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  443 (539)
                      ......+.+.|++++|+..|++++...+. ++..|..++.++.+.|++++|+..++++++.. +.+..++..++.++...
T Consensus        20 ~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~   97 (112)
T d1hxia_          20 MEEGLSMLKLANLAEAALAFEAVCQKEPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNE   97 (112)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHhhhcccccc-cchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHC
Confidence            34556677777788888888777776433 56677777777777788888888887777643 33466777777777777


Q ss_pred             CCHHHHHHHHHHHH
Q 009255          444 GRLEEAQKFTSIMV  457 (539)
Q Consensus       444 g~~~~A~~~~~~~~  457 (539)
                      |++++|.+.+++.+
T Consensus        98 g~~~~A~~~l~~~l  111 (112)
T d1hxia_          98 HNANAALASLRAWL  111 (112)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHh
Confidence            88888877777654

>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=98.59  E-value=1.2e-06  Score=67.95  Aligned_cols=86  Identities=10%  Similarity=-0.032  Sum_probs=68.6

Q ss_pred             hhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCC
Q 009255          396 VTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTP  475 (539)
Q Consensus       396 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~  475 (539)
                      .+|+.++.+|.+.|++++|+..+++.+..+ +.+..++..++.++...|++++|+..|+++++.+               
T Consensus        63 ~~~~nla~~y~k~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~---------------  126 (170)
T d1p5qa1          63 ASHLNLAMCHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY---------------  126 (170)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---------------
T ss_pred             HHHHHHHHHHHhhhhcccccchhhhhhhcc-ccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhC---------------
Confidence            357778889999999999999999999764 4467888899999999999999999999999987               


Q ss_pred             CCCCCCh-hhHHHHHHHHhhcCCHHHH
Q 009255          476 EEIDPSS-ISYSEKINEHCSQGRYKDA  501 (539)
Q Consensus       476 ~~~~~~~-~~~~~l~~~~~~~g~~~~A  501 (539)
                          |+. .+...+..+....+...+.
T Consensus       127 ----P~n~~~~~~l~~~~~~~~~~~~~  149 (170)
T d1p5qa1         127 ----PNNKAAKTQLAVCQQRIRRQLAR  149 (170)
T ss_dssp             ----SSCHHHHHHHHHHHHHHHHHHHH
T ss_pred             ----CCCHHHHHHHHHHHHHHHHHHHH
Confidence                544 4666666666555444433

>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=98.53  E-value=1.1e-06  Score=68.07  Aligned_cols=78  Identities=6%  Similarity=0.020  Sum_probs=67.4

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHc
Q 009255          432 TYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQK  511 (539)
Q Consensus       432 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  511 (539)
                      ++..++.++.+.|++++|+..++++++.+                  |.+..+|..++.+|...|++++|+..|+++++ 
T Consensus        66 ~~~Nla~~~~~l~~~~~Ai~~~~~al~l~------------------p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~-  126 (168)
T d1kt1a1          66 AFLNLAMCYLKLREYTKAVECCDKALGLD------------------SANEKGLYRRGEAQLLMNEFESAKGDFEKVLE-  126 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC------------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH-
T ss_pred             HHHhHHHHHHHhhhcccchhhhhhhhhcc------------------cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHH-
Confidence            56678889999999999999999999997                  44555999999999999999999999999997 


Q ss_pred             CCCCCHHHHHHHHHHHHh
Q 009255          512 GIAINKSTYMNLMNGLIK  529 (539)
Q Consensus       512 ~~~p~~~~~~~~l~~~~~  529 (539)
                       +.|++......+..+..
T Consensus       127 -l~P~n~~~~~~l~~~~~  143 (168)
T d1kt1a1         127 -VNPQNKAARLQIFMCQK  143 (168)
T ss_dssp             -SCTTCHHHHHHHHHHHH
T ss_pred             -hCCCCHHHHHHHHHHHH
Confidence             68998877777666643

>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=98.52  E-value=3.3e-07  Score=71.31  Aligned_cols=79  Identities=10%  Similarity=0.042  Sum_probs=65.9

Q ss_pred             HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHH
Q 009255          430 RYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETR  509 (539)
Q Consensus       430 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  509 (539)
                      ...+..++.++.+.|++++|+..+.++++.+                  |.+..+|..++.+|...|++++|++.|++++
T Consensus        77 ~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~------------------p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al  138 (169)
T d1ihga1          77 LSCVLNIGACKLKMSDWQGAVDSCLEALEID------------------PSNTKALYRRAQGWQGLKEYDQALADLKKAQ  138 (169)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC------------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhcccchhhhhhhhhhhhh------------------hhhhhHHHhHHHHHHHccCHHHHHHHHHHHH
Confidence            4566778889999999999999999999987                  3444599999999999999999999999999


Q ss_pred             HcCCCCCHHHHHHHHHHHH
Q 009255          510 QKGIAINKSTYMNLMNGLI  528 (539)
Q Consensus       510 ~~~~~p~~~~~~~~l~~~~  528 (539)
                      +  +.|++......+..+.
T Consensus       139 ~--l~p~n~~~~~~l~~~~  155 (169)
T d1ihga1         139 E--IAPEDKAIQAELLKVK  155 (169)
T ss_dssp             H--HCTTCHHHHHHHHHHH
T ss_pred             H--hCCCCHHHHHHHHHHH
Confidence            8  5788776666666554

>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=98.51  E-value=4.1e-08  Score=91.49  Aligned_cols=95  Identities=11%  Similarity=-0.035  Sum_probs=40.8

Q ss_pred             ChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCC
Q 009255          394 DSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSK  473 (539)
Q Consensus       394 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~  473 (539)
                      +...+..+...+...|+.++|...+++....  .| ..++..++..+...|++++|+.+|+++++..             
T Consensus       119 ~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~~-~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~-------------  182 (497)
T d1ya0a1         119 CRVKSSQLGIISNKQTHTSAIVKPQSSSCSY--IC-QHCLVHLGDIARYRNQTSQAESYYRHAAQLV-------------  182 (497)
T ss_dssp             ------------------------CCHHHHH--HH-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------------
T ss_pred             hHHHHHHhHHHHHhCCCHHHHHHHHHHHhCC--CH-HHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-------------
Confidence            3444555555555666666666555554421  11 2345556666666666666666666666665             


Q ss_pred             CCCCCCCChh-hHHHHHHHHhhcCCHHHHHHHHHHHHH
Q 009255          474 TPEEIDPSSI-SYSEKINEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       474 ~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~  510 (539)
                            |+.. .|+.++.++...|++.+|+..|.+++.
T Consensus       183 ------P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~  214 (497)
T d1ya0a1         183 ------PSNGQPYNQLAILASSKGDHLTTIFYYCRSIA  214 (497)
T ss_dssp             ------TTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHS
T ss_pred             ------CCchHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence                  4443 666666666666666666666666664

>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=98.42  E-value=5.6e-06  Score=63.96  Aligned_cols=95  Identities=8%  Similarity=-0.019  Sum_probs=73.0

Q ss_pred             hHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCC
Q 009255          397 TYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPE  476 (539)
Q Consensus       397 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~  476 (539)
                      +|..+..+|...|++++|+..+++.+..+ +.+..++...+.++...|++++|++.|+++++.+                
T Consensus        66 ~~~Nla~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~----------------  128 (168)
T d1kt1a1          66 AFLNLAMCYLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN----------------  128 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC----------------
T ss_pred             HHHhHHHHHHHhhhcccchhhhhhhhhcc-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC----------------
Confidence            56678888999999999999999999764 5567888899999999999999999999999987                


Q ss_pred             CCCCChhhHHHHHHHHhhcCCHH-HHHHHHHHHHH
Q 009255          477 EIDPSSISYSEKINEHCSQGRYK-DALQIFEETRQ  510 (539)
Q Consensus       477 ~~~~~~~~~~~l~~~~~~~g~~~-~A~~~~~~~~~  510 (539)
                        |.+..++..+..+....+... ...+.|.+|.+
T Consensus       129 --P~n~~~~~~l~~~~~~~~~~~e~~kk~~~~~f~  161 (168)
T d1kt1a1         129 --PQNKAARLQIFMCQKKAKEHNERDRRTYANMFK  161 (168)
T ss_dssp             --TTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             --CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Confidence              344447777776666555443 34555555543

>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=98.40  E-value=2.4e-07  Score=69.62  Aligned_cols=103  Identities=13%  Similarity=-0.004  Sum_probs=71.7

Q ss_pred             CChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHh----------cCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCC
Q 009255          409 RRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVE----------SGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEI  478 (539)
Q Consensus       409 ~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----------~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  478 (539)
                      +.+++|+..|+++++.. +.+..++..++.++..          .+.+++|++.++++++.+                  
T Consensus        11 ~~fe~A~~~~e~al~~~-P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~------------------   71 (145)
T d1zu2a1          11 LLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID------------------   71 (145)
T ss_dssp             HHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC------------------
T ss_pred             ccHHHHHHHHHHHHhhC-CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhc------------------
Confidence            34455555555555432 2334444444444432          345688999999999998                  


Q ss_pred             CCChhhHHHHHHHHhhcCC-----------HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC
Q 009255          479 DPSSISYSEKINEHCSQGR-----------YKDALQIFEETRQKGIAINKSTYMNLMNGLIKRRK  532 (539)
Q Consensus       479 ~~~~~~~~~l~~~~~~~g~-----------~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~~  532 (539)
                      |.+..+|..++.+|...|+           +++|.+.|+++++  +.|+...+...+..+.+.-+
T Consensus        72 P~~~~a~~~lG~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~--l~P~~~~~~~~L~~~~ka~~  134 (145)
T d1zu2a1          72 PKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSLEMTAKAPQ  134 (145)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHTHHH
T ss_pred             chhhHHHhhHHHHHHHcccchhhHHHHHHhHHHhhhhhhcccc--cCCCHHHHHHHHHHHHHHHH
Confidence            3444599999999987664           6899999999998  68999999888887765443

>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=98.40  E-value=2.5e-06  Score=62.47  Aligned_cols=97  Identities=11%  Similarity=0.074  Sum_probs=70.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCC-CCC-----HhhHHHH
Q 009255          363 CNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKL-GPD-----RYTYAAI  436 (539)
Q Consensus       363 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~-----~~~~~~l  436 (539)
                      +..+...+...|++++|+..|++.++.++. +...+..++.+|...|++++|+..++++++... .+.     ..++..+
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~l   85 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKELDPT-NMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARI   85 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-cHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHH
Confidence            445667778888888888888888877433 677788888888888888888888888775310 011     2356667


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          437 HTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       437 ~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      +..+...+++++|++++++.+...
T Consensus        86 g~~~~~~~~~~~A~~~~~kal~~~  109 (128)
T d1elra_          86 GNSYFKEEKYKDAIHFYNKSLAEH  109 (128)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHhCCHHHHHHHHHHHHhcC
Confidence            777788888888888888888765

>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=98.36  E-value=3.6e-06  Score=65.26  Aligned_cols=87  Identities=9%  Similarity=-0.108  Sum_probs=68.5

Q ss_pred             ChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCC
Q 009255          394 DSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSK  473 (539)
Q Consensus       394 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~  473 (539)
                      ....|..++.++.+.|++++|+..+.++++.. +.+..++..++.++...|++++|++.|+++++..             
T Consensus        76 ~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~-------------  141 (169)
T d1ihga1          76 ALSCVLNIGACKLKMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA-------------  141 (169)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------------
T ss_pred             hHHHHHHHHHHHHhhcccchhhhhhhhhhhhh-hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhC-------------
Confidence            44567788899999999999999999999764 4457889999999999999999999999999987             


Q ss_pred             CCCCCCCChhhHHHHHHHHhhcCCHH
Q 009255          474 TPEEIDPSSISYSEKINEHCSQGRYK  499 (539)
Q Consensus       474 ~~~~~~~~~~~~~~l~~~~~~~g~~~  499 (539)
                           |.+..+...+..+........
T Consensus       142 -----p~n~~~~~~l~~~~~~l~~~~  162 (169)
T d1ihga1         142 -----PEDKAIQAELLKVKQKIKAQK  162 (169)
T ss_dssp             -----TTCHHHHHHHHHHHHHHHHHH
T ss_pred             -----CCCHHHHHHHHHHHHHHHHHH
Confidence                 334446666666554444333

>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=98.36  E-value=5.7e-06  Score=62.67  Aligned_cols=64  Identities=16%  Similarity=0.040  Sum_probs=56.9

Q ss_pred             hhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          396 VTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       396 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      .+|..++.+|.+.|++++|+..++++++.+ +.+..++..++.++...|++++|+..|+++++.+
T Consensus        68 ~~~~Nla~~~~~l~~~~~Al~~~~~al~~~-p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~  131 (153)
T d2fbna1          68 SCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLN  131 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             HHHhhHHHHHHHhcccchhhhhhhcccccc-chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            467788899999999999999999998764 4567899999999999999999999999999997

>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=98.36  E-value=9.1e-06  Score=63.10  Aligned_cols=125  Identities=11%  Similarity=0.060  Sum_probs=85.7

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcC
Q 009255          365 ILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVESG  444 (539)
Q Consensus       365 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  444 (539)
                      .........|++++|...|.+.+.....+ ....       ...+.+  +...-..+.    ......+..++.++...|
T Consensus        16 ~~g~~~~~~g~~e~A~~~~~~AL~l~rG~-~l~~-------~~~~~w--~~~~r~~l~----~~~~~a~~~la~~~~~~g   81 (179)
T d2ff4a2          16 TAGVHAAAAGRFEQASRHLSAALREWRGP-VLDD-------LRDFQF--VEPFATALV----EDKVLAHTAKAEAEIACG   81 (179)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTCCSS-TTGG-------GTTSTT--HHHHHHHHH----HHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhhCccc-cccc-------CcchHH--HHHHHHHHH----HHHHHHHHHHHHHHHHCC
Confidence            34456677888999988888888752111 1000       000111  111111111    012346677889999999


Q ss_pred             CHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHH-----cCCCCCHHH
Q 009255          445 RLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQ-----KGIAINKST  519 (539)
Q Consensus       445 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~~p~~~~  519 (539)
                      ++++|+..++++++.+                  |-+...|..++.+|...|++++|++.|+++.+     .|+.|...+
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            9999999999999998                  34445999999999999999999999999743     689999765


Q ss_pred             HH
Q 009255          520 YM  521 (539)
Q Consensus       520 ~~  521 (539)
                      -.
T Consensus       144 ~~  145 (179)
T d2ff4a2         144 RA  145 (179)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>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=98.29  E-value=0.00081  Score=57.30  Aligned_cols=137  Identities=15%  Similarity=0.174  Sum_probs=80.4

Q ss_pred             CcChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHH
Q 009255            7 LPDNVTYNTILDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNML   86 (539)
Q Consensus         7 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l   86 (539)
                      .||..--..++..|.+.|.++.|..+|..+..         |..++..+.+.++++.|.+++.+..      +..+|..+
T Consensus        11 ~~n~~d~~~i~~~c~~~~lye~A~~lY~~~~d---------~~rl~~~~v~l~~~~~avd~~~k~~------~~~~~k~~   75 (336)
T d1b89a_          11 GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSN---------FGRLASTLVHLGEYQAAVDGARKAN------STRTWKEV   75 (336)
T ss_dssp             CC----------------CTTTHHHHHHHTTC---------HHHHHHHHHTTTCHHHHHHHHHHHT------CHHHHHHH
T ss_pred             CCCcCCHHHHHHHHHHCCCHHHHHHHHHhCCC---------HHHHHHHHHhhccHHHHHHHHHHcC------CHHHHHHH
Confidence            35555566677788888888888888875542         5567777778888888777765442      55677777


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 009255           87 INGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEG  164 (539)
Q Consensus        87 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  164 (539)
                      ...+.+.....-+     .+.......++.....++..|-..|.+++...+++..... -..+...++-++..|++.+
T Consensus        76 ~~~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~-~~~~~~~~~~L~~lyak~~  147 (336)
T d1b89a_          76 CFACVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKFK  147 (336)
T ss_dssp             HHHHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-TTCCHHHHHHHHHHHHTTC
T ss_pred             HHHHHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC-CccchHHHHHHHHHHHHhC
Confidence            7777776655443     2222223345555667778888888888888888876543 2446667777888777754

>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=98.26  E-value=0.00091  Score=56.98  Aligned_cols=146  Identities=10%  Similarity=0.084  Sum_probs=93.1

Q ss_pred             CCHHHHHHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHH
Q 009255           43 PNRTTYNILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLI  122 (539)
Q Consensus        43 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~  122 (539)
                      ||..-...++..|.+.|.++.|..++..+.         -|..++..+.+.++++.|.+++.+..      +..+|..+.
T Consensus        12 ~n~~d~~~i~~~c~~~~lye~A~~lY~~~~---------d~~rl~~~~v~l~~~~~avd~~~k~~------~~~~~k~~~   76 (336)
T d1b89a_          12 PNNAHIQQVGDRCYDEKMYDAAKLLYNNVS---------NFGRLASTLVHLGEYQAAVDGARKAN------STRTWKEVC   76 (336)
T ss_dssp             C----------------CTTTHHHHHHHTT---------CHHHHHHHHHTTTCHHHHHHHHHHHT------CHHHHHHHH
T ss_pred             CCcCCHHHHHHHHHHCCCHHHHHHHHHhCC---------CHHHHHHHHHhhccHHHHHHHHHHcC------CHHHHHHHH
Confidence            455556677888889999999999998553         36778888889999999988877652      567888888


Q ss_pred             HHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCHH
Q 009255          123 NRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNME  202 (539)
Q Consensus       123 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  202 (539)
                      ..+.+......+     .+.......++.....++..|-..|.+++...+++...... ..+...++.++..|++.+ .+
T Consensus        77 ~~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~-~~~~~~~~~L~~lyak~~-~~  149 (336)
T d1b89a_          77 FACVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFK-PQ  149 (336)
T ss_dssp             HHHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTC-HH
T ss_pred             HHHHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCC-ccchHHHHHHHHHHHHhC-hH
Confidence            888877665443     22233344466666778888999999999999988876432 456667888888887764 45


Q ss_pred             HHHHHHHH
Q 009255          203 EAFRMMDV  210 (539)
Q Consensus       203 ~a~~~~~~  210 (539)
                      +..+.+..
T Consensus       150 kl~e~l~~  157 (336)
T d1b89a_         150 KMREHLEL  157 (336)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            55555443

>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=98.21  E-value=4.5e-06  Score=62.46  Aligned_cols=114  Identities=15%  Similarity=0.113  Sum_probs=71.3

Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcc----------CChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHH
Q 009255          372 REGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKE----------RRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALV  441 (539)
Q Consensus       372 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----------~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~  441 (539)
                      +.+.+++|+..|+..++..+ .++..+..++.++...          +.+++|+..|+++++.+ +.+..++..++.++.
T Consensus         9 r~~~fe~A~~~~e~al~~~P-~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~-P~~~~a~~~lG~~y~   86 (145)
T d1zu2a1           9 RILLFEQIRQDAENTYKSNP-LDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNAYT   86 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHccHHHHHHHHHHHHhhCC-cchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhc-chhhHHHhhHHHHHH
Confidence            34456666666666666532 2555555555555432          33466777777777543 334566777777766


Q ss_pred             hcC-----------CHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhH-HHHHHHHhhcCCHHHHHHHHHHHH
Q 009255          442 ESG-----------RLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISY-SEKINEHCSQGRYKDALQIFEETR  509 (539)
Q Consensus       442 ~~g-----------~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~g~~~~A~~~~~~~~  509 (539)
                      ..|           ++++|.++|+++++..                   |+...+ ..|...       .+|.+++.++.
T Consensus        87 ~~g~~~~~~~~~~~~~~~A~~~~~kal~l~-------------------P~~~~~~~~L~~~-------~ka~~~~~e~~  140 (145)
T d1zu2a1          87 SFAFLTPDETEAKHNFDLATQFFQQAVDEQ-------------------PDNTHYLKSLEMT-------AKAPQLHAEAY  140 (145)
T ss_dssp             HHHHHCCCHHHHHHHHHHHHHHHHHHHHHC-------------------TTCHHHHHHHHHH-------HTHHHHHHHHH
T ss_pred             HcccchhhHHHHHHhHHHhhhhhhcccccC-------------------CCHHHHHHHHHHH-------HHHHHHHHHHH
Confidence            543           4688999999999997                   776644 444333       46777777777


Q ss_pred             HcCC
Q 009255          510 QKGI  513 (539)
Q Consensus       510 ~~~~  513 (539)
                      +.|+
T Consensus       141 k~~~  144 (145)
T d1zu2a1         141 KQGL  144 (145)
T ss_dssp             HSSS
T ss_pred             HHhc
Confidence            6653

>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=98.21  E-value=5.4e-06  Score=56.68  Aligned_cols=83  Identities=6%  Similarity=-0.057  Sum_probs=64.2

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCCh-hhHHHHHHHHhhcCCHHHHHHHHHH
Q 009255          429 DRYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSS-ISYSEKINEHCSQGRYKDALQIFEE  507 (539)
Q Consensus       429 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~  507 (539)
                      +...+..++..+.+.|++++|+++++++++.....            ....++. .++..++.+|.+.|++++|+..+++
T Consensus         4 saddc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~------------~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~   71 (95)
T d1tjca_           4 TAEDSFELGKVAYTEADYYHTELWMEQALRQLDEG------------EISTIDKVSVLDYLSYAVYQQGDLDKALLLTKK   71 (95)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTT------------CCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhh------------hccCccHHHHHHHHhhHHHhcCChHHHHHHHHH
Confidence            33445578999999999999999999998765220            0012333 3899999999999999999999999


Q ss_pred             HHHcCCCCCHHHHHHHHH
Q 009255          508 TRQKGIAINKSTYMNLMN  525 (539)
Q Consensus       508 ~~~~~~~p~~~~~~~~l~  525 (539)
                      +++  +.|+.......+.
T Consensus        72 aL~--l~P~~~~a~~Nl~   87 (95)
T d1tjca_          72 LLE--LDPEHQRANGNLK   87 (95)
T ss_dssp             HHH--HCTTCHHHHHHHH
T ss_pred             HHH--hCcCCHHHHHHHH
Confidence            998  6799876655554

>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=98.20  E-value=8.9e-07  Score=82.26  Aligned_cols=225  Identities=9%  Similarity=-0.044  Sum_probs=113.7

Q ss_pred             HHHHHHHHHhhCCCCCC-HHhHHHHHHHHhccCCHHHHHHHHHHHhhcCCccCHhhHHH-HHHHHHccCCHHHHHHHHHH
Q 009255          203 EAFRMMDVMGRKGLKMN-TITLNTILHTLCCEKKLDEAYMLLNSASKRGYYLDEVSYGT-LITGYFRDEKANRALKLWDE  280 (539)
Q Consensus       203 ~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~~~~~~a~~~~~~  280 (539)
                      +|.+.|++..+.  .|+ ...+..+..++...++++++   +++++..    ++..... -+....-...+..+.+.++.
T Consensus         4 eA~q~~~qA~~l--~p~~a~a~~~la~~~~~~~~l~ea---ye~~i~~----dp~~a~~~~~e~~Lw~~~y~~~ie~~r~   74 (497)
T d1ya0a1           4 QSAQYLRQAEVL--KADMTDSKLGPAEVWTSRQALQDL---YQKMLVT----DLEYALDKKVEQDLWNHAFKNQITTLQG   74 (497)
T ss_dssp             HHHHHHHHHHHH--HGGGTCSSSCSSSSHHHHHHHHHH---HHHHHHH----CHHHHHHHTHHHHHHHHHTHHHHHHHHH
T ss_pred             HHHHHHHHHHHc--CCCCHHHHhhHHHHHHHHchHHHH---HHHHHHc----ChhhHHHHhHHHHHHHHHHHHHHHHHHH
Confidence            677788777653  222 23344455555556666554   5555544    2211100 01111111123456666666


Q ss_pred             HHHcCCCCCHhhHHHHHHH--HHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCC
Q 009255          281 MKERQIMPSTFTYNAMIWG--LSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKP  358 (539)
Q Consensus       281 ~~~~~~~~~~~~~~~l~~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  358 (539)
                      ..+....++..-.......  ....+.++.++..+....... .++...+..+...+.+.|+.+.|...+.......   
T Consensus        75 ~~k~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~~l~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~---  150 (497)
T d1ya0a1          75 QAKNRANPNRSEVQANLSLFLEAASGFYTQLLQELCTVFNVD-LPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSYI---  150 (497)
T ss_dssp             HHSCSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC--------------------------------CCHHHHHH---
T ss_pred             hcccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-hhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCC---
Confidence            6554333333322222222  222344455554444333322 2244566667777788888888888777766531   


Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHH
Q 009255          359 DIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHT  438 (539)
Q Consensus       359 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~  438 (539)
                      ...++..+...+...|++++|...|+++....+ .+...|+.++..+...|+..+|+..|.+.+... +|-..++..|..
T Consensus       151 ~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~P-~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~  228 (497)
T d1ya0a1         151 CQHCLVHLGDIARYRNQTSQAESYYRHAAQLVP-SNGQPYNQLAILASSKGDHLTTIFYYCRSIAVK-FPFPAASTNLQK  228 (497)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCC-CchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHH
Confidence            235677788888889999999999999888743 266788999999999999999999999988654 556677777776


Q ss_pred             HHHh
Q 009255          439 ALVE  442 (539)
Q Consensus       439 ~~~~  442 (539)
                      .+.+
T Consensus       229 ~~~~  232 (497)
T d1ya0a1         229 ALSK  232 (497)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6654

>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=97.98  E-value=4.4e-06  Score=69.45  Aligned_cols=51  Identities=25%  Similarity=0.310  Sum_probs=28.6

Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHh
Q 009255          372 REGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEE  423 (539)
Q Consensus       372 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  423 (539)
                      +.|++++|+..+++.++..+. |...+..++..++..|++++|...++.+.+
T Consensus         8 ~~G~l~eAl~~l~~al~~~P~-d~~ar~~La~lL~~~G~~e~A~~~l~~a~~   58 (264)
T d1zbpa1           8 SEGQLQQALELLIEAIKASPK-DASLRSSFIELLCIDGDFERADEQLMQSIK   58 (264)
T ss_dssp             TTTCHHHHHHHHHHHHHTCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            345566666666555555322 455555556666666666666666665554

>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=97.89  E-value=4e-05  Score=58.14  Aligned_cols=101  Identities=13%  Similarity=0.058  Sum_probs=69.0

Q ss_pred             HHHHHccCChHHHHHHHHHHHhCCC-CCC----------HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCC
Q 009255          402 ISSLCKERRLEDAFGLLSEMEEKKL-GPD----------RYTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPN  470 (539)
Q Consensus       402 ~~~~~~~~~~~~A~~~~~~~~~~~~-~~~----------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  470 (539)
                      +..+...|++++|+..|++.++... .|+          ..+|..++.++...|++++|.+.++++++........    
T Consensus        16 g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~----   91 (156)
T d2hr2a1          16 AQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGEL----   91 (156)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCT----
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccccccc----
Confidence            4455566778888888887775310 111          3467788999999999999999999998753110000    


Q ss_pred             CCCCCCCCCCChh-hHHHHHHHHhhcCCHHHHHHHHHHHHH
Q 009255          471 TSKTPEEIDPSSI-SYSEKINEHCSQGRYKDALQIFEETRQ  510 (539)
Q Consensus       471 ~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~  510 (539)
                          .....|... +++.++.+|...|++++|+..|+++++
T Consensus        92 ----~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          92 ----NQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             ----TSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ----cccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence                000001111 678899999999999999999999876

>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=97.89  E-value=1.7e-05  Score=65.89  Aligned_cols=125  Identities=15%  Similarity=0.049  Sum_probs=84.3

Q ss_pred             HhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHH
Q 009255          335 FCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDA  414 (539)
Q Consensus       335 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  414 (539)
                      ..+.|++++|+..+++.++.. +.+...+..++..++..|++++|.+.++...+..+. +...+..+...+...+..+++
T Consensus         6 aL~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~P~-~~~~~~~l~~ll~a~~~~~~a   83 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPE-YLPGASQLRHLVKAAQARKDF   83 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGG-GHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHhccccHHH
Confidence            456799999999999999875 448889999999999999999999999998886322 344555555554433333333


Q ss_pred             HHHHHHHHhCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 009255          415 FGLLSEMEEKKLGPDRYTYAAIHTALVESGRLEEAQKFTSIMVETGK  461 (539)
Q Consensus       415 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  461 (539)
                      ..-.......+-+++.......+..+...|+.++|.+.++++.+...
T Consensus        84 ~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~p  130 (264)
T d1zbpa1          84 AQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQ  130 (264)
T ss_dssp             TTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCC
T ss_pred             HHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCC
Confidence            22111111111122223344456677889999999999999998873

>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=97.85  E-value=0.00033  Score=53.97  Aligned_cols=70  Identities=13%  Similarity=0.133  Sum_probs=40.7

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHh-----CCCCCCHHH
Q 009255           82 TYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDE-----HGIKPNAVT  152 (539)
Q Consensus        82 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~  152 (539)
                      .+..+...+.+.|++++|+..++++.... +-+...|..++.++...|+..+|++.|+++..     .|+.|+..+
T Consensus        69 a~~~la~~~~~~g~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          69 AHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHHHCCCchHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            44555566666666666666666665543 33555566666666666666666666665522     355555443

>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=97.73  E-value=0.00012  Score=49.74  Aligned_cols=64  Identities=14%  Similarity=0.031  Sum_probs=46.7

Q ss_pred             hHHHHHHHHHccCChHHHHHHHHHHHhC-----CCCCC-HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          397 TYNTLISSLCKERRLEDAFGLLSEMEEK-----KLGPD-RYTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       397 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~-----~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      .+..++..+.+.|++++|+..|+++++.     ...++ ..++..++.++.+.|++++|++.++++++.+
T Consensus         7 dc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~   76 (95)
T d1tjca_           7 DSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELD   76 (95)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhC
Confidence            3445677777778888888877777643     11122 4567788888888899999999998888887

>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=0.0003  Score=53.08  Aligned_cols=94  Identities=18%  Similarity=0.047  Sum_probs=69.7

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCC-CC----------hhhHHHHHHHHHccCChHHHHHHHHHHHhC-----CCCCC-
Q 009255          367 LSGLCREGILEKALKFFRSWILKGKA-VD----------SVTYNTLISSLCKERRLEDAFGLLSEMEEK-----KLGPD-  429 (539)
Q Consensus       367 ~~~~~~~g~~~~A~~~~~~~~~~~~~-~~----------~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-----~~~~~-  429 (539)
                      ...+...|++++|+..|++.++.... |+          ...|+.+..+|...|++++|+..+++.++.     ...++ 
T Consensus        16 g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~   95 (156)
T d2hr2a1          16 AQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDE   95 (156)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccc
Confidence            44566678888888888887764211 11          246788899999999999999998888742     12222 


Q ss_pred             ----HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          430 ----RYTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       430 ----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                          ..++..++.++...|++++|++.|+++++..
T Consensus        96 ~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l~  130 (156)
T d2hr2a1          96 GKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMI  130 (156)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             cchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhh
Confidence                2356678899999999999999999998764

>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=97.27  E-value=0.0061  Score=44.00  Aligned_cols=110  Identities=15%  Similarity=0.095  Sum_probs=58.4

Q ss_pred             CHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHHHHHHHh----cCCHHHHH
Q 009255          375 ILEKALKFFRSWILKGKAVDSVTYNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAIHTALVE----SGRLEEAQ  450 (539)
Q Consensus       375 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~  450 (539)
                      ++++|.++|++..+.|   ++.....|.  .....+.++|+..+++..+.|   +......++..+..    ..+.++|.
T Consensus         8 d~~~A~~~~~kaa~~g---~~~a~~~l~--~~~~~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A~   79 (133)
T d1klxa_           8 DLKKAIQYYVKACELN---EMFGCLSLV--SNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAA   79 (133)
T ss_dssp             HHHHHHHHHHHHHHTT---CTTHHHHHH--TCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHH
T ss_pred             CHHHHHHHHHHHHHCC---Chhhhhhhc--cccccCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHHH
Confidence            4455555555555543   222222222  123345666666666666554   33344445544443    34567777


Q ss_pred             HHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhh----cCCHHHHHHHHHHHHHcC
Q 009255          451 KFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCS----QGRYKDALQIFEETRQKG  512 (539)
Q Consensus       451 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~  512 (539)
                      ++|+++.+.+                    ++.+...|+..|..    ..+.++|.++|+++.+.|
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            7777776654                    22344455555554    346777777777776654

>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=97.20  E-value=0.0065  Score=43.83  Aligned_cols=110  Identities=15%  Similarity=0.066  Sum_probs=61.7

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHc----cCChHHHH
Q 009255          340 QVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCK----ERRLEDAF  415 (539)
Q Consensus       340 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~A~  415 (539)
                      |+++|..+|++..+.+.   ......+..  ....+.++|.+.+++..+.|   ++.....|...|..    ..++++|+
T Consensus         8 d~~~A~~~~~kaa~~g~---~~a~~~l~~--~~~~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A~   79 (133)
T d1klxa_           8 DLKKAIQYYVKACELNE---MFGCLSLVS--NSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAA   79 (133)
T ss_dssp             HHHHHHHHHHHHHHTTC---TTHHHHHHT--CTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHH
T ss_pred             CHHHHHHHHHHHHHCCC---hhhhhhhcc--ccccCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHHH
Confidence            45556666665555441   122222221  22345666777776666653   44455555555543    34667777


Q ss_pred             HHHHHHHhCCCCCCHhhHHHHHHHHHh----cCCHHHHHHHHHHHHHcC
Q 009255          416 GLLSEMEEKKLGPDRYTYAAIHTALVE----SGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       416 ~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~  460 (539)
                      ++|++..+.+   +......|+..|..    ..+.++|.++++++.+.+
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            7777777654   33344455555554    356777777777777765

>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=97.12  E-value=0.0046  Score=42.95  Aligned_cols=80  Identities=10%  Similarity=-0.046  Sum_probs=58.6

Q ss_pred             CCCHhhHHHHHHHHHhcC---CHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCCh-hhHHHHHHHHhhcCCHHHHH
Q 009255          427 GPDRYTYAAIHTALVESG---RLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSS-ISYSEKINEHCSQGRYKDAL  502 (539)
Q Consensus       427 ~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~  502 (539)
                      .|+..+-...++++.+..   +.++|+.+++.+.+.+                  +.+. ..+..|+-+|.+.|++++|+
T Consensus        32 ~~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~------------------p~~~rd~lY~Lav~yyklgdy~~A~   93 (124)
T d2pqrb1          32 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA------------------ESRRRECLYYLTIGCYKLGEYSMAK   93 (124)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC------------------GGGHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcC------------------chhHHHHHHHHHHHHHHHhhHHHHH
Confidence            456666677777777654   4567888888888765                  2233 37788888899999999999


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHH
Q 009255          503 QIFEETRQKGIAINKSTYMNLMNG  526 (539)
Q Consensus       503 ~~~~~~~~~~~~p~~~~~~~~l~~  526 (539)
                      +.++++++  +.|++.....+...
T Consensus        94 ~~~~~~L~--ieP~n~qA~~L~~~  115 (124)
T d2pqrb1          94 RYVDTLFE--HERNNKQVGALKSM  115 (124)
T ss_dssp             HHHHHHHH--HCTTCHHHHHHHHH
T ss_pred             HHHHHHHc--cCCCcHHHHHHHHH
Confidence            99999987  57887766655543

>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=96.31  E-value=0.34  Score=43.11  Aligned_cols=412  Identities=11%  Similarity=0.049  Sum_probs=225.7

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHc--cCCHhHHHHHHHHHHhCCCCCC-hhhHHHHHHHHHhc
Q 009255           17 LDALFKKGKLNEVRDLLSDMKKQGLVPNRTTYNILVSGYCK--LGWLKEAMRVVDLMTQNKSLPD-VWTYNMLINGWCNA   93 (539)
Q Consensus        17 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~g~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~   93 (539)
                      +....++|+...+..+...+...  |  ...|...-..-..  ....++....+   .+..-.|- ...-...+..+.+.
T Consensus        13 a~~a~~~~~~~~~~~~~~~L~dy--p--L~pYl~~~~l~~~~~~~~~~~i~~Fl---~~~p~~P~~~~lr~~~l~~L~~~   85 (450)
T d1qsaa1          13 IKQAWDNRQMDVVEQMMPGLKDY--P--LYPYLEYRQITDDLMNQPAVTVTNFV---RANPTLPPARTLQSRFVNELARR   85 (450)
T ss_dssp             HHHHHHTTCHHHHHHHSGGGTTS--T--THHHHHHHHHHHTGGGCCHHHHHHHH---HHCTTCHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHCCCHHHHHHHHhhhcCC--C--CHHHHHHHHHHhccccCCHHHHHHHH---HHCCCChhHHHHHHHHHHHHHhc
Confidence            34456788888888888777432  2  2233333222222  23444333333   33211111 11223345566777


Q ss_pred             CChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHHHHH
Q 009255           94 GMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIV  173 (539)
Q Consensus        94 g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  173 (539)
                      ++++..+..+.     ..+.+...-.....+....|+...|.+.+..+-..|.. .                .+.+..++
T Consensus        86 ~~w~~~~~~~~-----~~p~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~~~-~----------------p~~c~~l~  143 (450)
T d1qsaa1          86 EDWRGLLAFSP-----EKPGTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGKS-Q----------------PNACDKLF  143 (450)
T ss_dssp             TCHHHHHHHCC-----SCCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSSC-C----------------CTHHHHHH
T ss_pred             cCHHHHHHhcc-----CCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC-C----------------chHHHHHH
Confidence            77766554332     12345555556667777788888887777666544322 1                22333444


Q ss_pred             HHHHHcCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHhHHHHHHHHhccCCHHHHHHHHHHHhhcCCcc
Q 009255          174 RNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMMDVMGRKGLKMNTITLNTILHTLCCEKKLDEAYMLLNSASKRGYYL  253 (539)
Q Consensus       174 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  253 (539)
                      ..+...| ..+...+-.-+......|++..|..++..+...    ........+...........   ..   ...  ..
T Consensus       144 ~~~~~~~-~lt~~~~~~R~~~~l~~~~~~~a~~l~~~l~~~----~~~~~~a~~~l~~~p~~~~~---~~---~~~--~~  210 (450)
T d1qsaa1         144 SVWRASG-KQDPLAYLERIRLAMKAGNTGLVTVLAGQMPAD----YQTIASAIISLANNPNTVLT---FA---RTT--GA  210 (450)
T ss_dssp             HHHHHTT-CSCHHHHHHHHHHHHHTTCHHHHHHHHHTCCGG----GHHHHHHHHHHHHCGGGHHH---HH---HHS--CC
T ss_pred             HHHHhcC-CCCHHHHHHHHHHHHHcCChhhHHHHHhhCChh----HHHHHHHHHHHHhChHhHHH---HH---hcC--CC
Confidence            4444443 234444444555566678888887776543211    22233333333322222221   11   111  11


Q ss_pred             CHhhHHHHHHHHHc--cCCHHHHHHHHHHHHHcCCCCCHhhHHHHH----HHHHcCCCHHHHHHHHHHHHHCCCCCCHHh
Q 009255          254 DEVSYGTLITGYFR--DEKANRALKLWDEMKERQIMPSTFTYNAMI----WGLSQSGKTEQAIDMLNELLQSGMIPDETT  327 (539)
Q Consensus       254 ~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~----~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  327 (539)
                      +......+..++.+  ..+.+.+...+......... +...+..+-    ......+..+.+...+......+.  +...
T Consensus       211 ~~~~~~~~~~~l~rla~~d~~~a~~~l~~~~~~~~~-~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~--~~~~  287 (450)
T d1qsaa1         211 TDFTRQMAAVAFASVARQDAENARLMIPSLAQAQQL-NEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRSQ--STSL  287 (450)
T ss_dssp             CHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHTTC-CHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTCC--CHHH
T ss_pred             ChhhhHHHHHHHHHHhccChhHHHHHHHhhhhcccc-cHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhccccc--chHH
Confidence            23222223333322  35788888888887665333 222222222    223345677888888877766543  4444


Q ss_pred             HHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHc
Q 009255          328 FNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILKGKAVDSVTYNTLISSLCK  407 (539)
Q Consensus       328 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~  407 (539)
                      ....+......+++..+...+..+... ......-...+.+++...|+.+.|...|..+...   ++  .|..|...  +
T Consensus       288 ~~w~~~~al~~~~~~~~~~~~~~l~~~-~~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~~---~~--fYG~LAa~--~  359 (450)
T d1qsaa1         288 IERRVRMALGTGDRRGLNTWLARLPME-AKEKDEWRYWQADLLLERGREAEAKEILHQLMQQ---RG--FYPMVAAQ--R  359 (450)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHSCTT-GGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS---CS--HHHHHHHH--H
T ss_pred             HHHHHHHHHHcCChHHHHHHHHhcCcc-cccHHHHHHHHHHHHHHcCChhhHHHHHHHHhcC---CC--hHHHHHHH--H
Confidence            455555666778999999998887543 2334555567889999999999999999988642   22  33333222  2


Q ss_pred             cCC-hHHHHHHHHHHHhCCCC--CCH----hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCC
Q 009255          408 ERR-LEDAFGLLSEMEEKKLG--PDR----YTYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDP  480 (539)
Q Consensus       408 ~~~-~~~A~~~~~~~~~~~~~--~~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  480 (539)
                      .|. +.-        ....++  +..    ..-...+..+...|....|...+..+...                    .
T Consensus       360 Lg~~~~~--------~~~~~~~~~~~~~~~~~~~~ra~~L~~~g~~~~A~~e~~~l~~~--------------------~  411 (450)
T d1qsaa1         360 IGEEYEL--------KIDKAPQNVDSALTQGPEMARVRELMYWNLDNTARSEWANLVKS--------------------K  411 (450)
T ss_dssp             TTCCCCC--------CCCCCCSCCCCHHHHSHHHHHHHHHHHTTCHHHHHHHHHHHHTT--------------------C
T ss_pred             cCCCCCC--------CcCCCCccHHHhhhcChHHHHHHHHHHcCCchHHHHHHHHHHhC--------------------C
Confidence            222 110        000011  110    01123456678899999999999888753                    3


Q ss_pred             ChhhHHHHHHHHhhcCCHHHHHHHHHHHH
Q 009255          481 SSISYSEKINEHCSQGRYKDALQIFEETR  509 (539)
Q Consensus       481 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  509 (539)
                      +......++....+.|.++.|+....+..
T Consensus       412 ~~~~~~~la~lA~~~g~~~~aI~a~~~~~  440 (450)
T d1qsaa1         412 SKTEQAQLARYAFNNQWWDLSVQATIAGK  440 (450)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHHHCCChhHHHHHHHHHH
Confidence            45566677888899999999998887763

>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=95.78  E-value=0.093  Score=36.22  Aligned_cols=68  Identities=10%  Similarity=0.100  Sum_probs=49.5

Q ss_pred             CCChhhHHHHHHHHHccC---ChHHHHHHHHHHHhCCCCCCH-hhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 009255          392 AVDSVTYNTLISSLCKER---RLEDAFGLLSEMEEKKLGPDR-YTYAAIHTALVESGRLEEAQKFTSIMVETG  460 (539)
Q Consensus       392 ~~~~~~~~~l~~~~~~~~---~~~~A~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  460 (539)
                      .|...+--.+++++.+..   +.++++.++++....+ +.+. ..+..++-+|.+.|++++|+++++.+++..
T Consensus        32 ~~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~-p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ie  103 (124)
T d2pqrb1          32 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA-ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHE  103 (124)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             CCCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcC-chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccC
Confidence            345556666777777554   4567888888887643 2233 566778888889999999999999999887

>d1qsaa1 a.118.5.1 (A:1-450) 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Bacterial muramidases
family: Bacterial muramidases
domain: 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain
species: Escherichia coli [TaxId: 562]

Probab=95.75  E-value=0.61  Score=41.35  Aligned_cols=352  Identities=10%  Similarity=0.020  Sum_probs=201.3

Q ss_pred             HHHHHHHHccCCHhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCChhhHHHHHHHHhcc
Q 009255           49 NILVSGYCKLGWLKEAMRVVDLMTQNKSLPDVWTYNMLINGWCNAGMLEEAFRLRKEMESLKLLPDVVTYNTLINRFFES  128 (539)
Q Consensus        49 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  128 (539)
                      ...+..+.+.++++..+..+.    . .+.+...-.....+....|+.+.|...+..+=..|. .               
T Consensus        76 ~~~l~~L~~~~~w~~~~~~~~----~-~p~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~~-~---------------  134 (450)
T d1qsaa1          76 SRFVNELARREDWRGLLAFSP----E-KPGTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGK-S---------------  134 (450)
T ss_dssp             HHHHHHHHHTTCHHHHHHHCC----S-CCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSS-C---------------
T ss_pred             HHHHHHHHhccCHHHHHHhcc----C-CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCC-C---------------
Confidence            344566778888766444331    1 223555556677788889999888887776654431 1               


Q ss_pred             CCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCHHHHHHHH
Q 009255          129 GRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEENGFSPDCVTYNTLIDANCKAGNMEEAFRMM  208 (539)
Q Consensus       129 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  208 (539)
                       ..+.+..++..+...|. ++...+-.-+......|+...|..+...+..    .........+.....   ...+....
T Consensus       135 -~p~~c~~l~~~~~~~~~-lt~~~~~~R~~~~l~~~~~~~a~~l~~~l~~----~~~~~~~a~~~l~~~---p~~~~~~~  205 (450)
T d1qsaa1         135 -QPNACDKLFSVWRASGK-QDPLAYLERIRLAMKAGNTGLVTVLAGQMPA----DYQTIASAIISLANN---PNTVLTFA  205 (450)
T ss_dssp             -CCTHHHHHHHHHHHTTC-SCHHHHHHHHHHHHHTTCHHHHHHHHHTCCG----GGHHHHHHHHHHHHC---GGGHHHHH
T ss_pred             -CchHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHcCChhhHHHHHhhCCh----hHHHHHHHHHHHHhC---hHhHHHHH
Confidence             22334445555555433 3555555556666778999988887765321    122233344443332   22222222


Q ss_pred             HHHhhCCCCCCHHhHHHHHHHHh--ccCCHHHHHHHHHHHhhcCCccCHhhHHH----HHHHHHccCCHHHHHHHHHHHH
Q 009255          209 DVMGRKGLKMNTITLNTILHTLC--CEKKLDEAYMLLNSASKRGYYLDEVSYGT----LITGYFRDEKANRALKLWDEMK  282 (539)
Q Consensus       209 ~~~~~~~~~~~~~~~~~l~~~~~--~~~~~~~a~~~~~~~~~~~~~~~~~~~~~----l~~~~~~~~~~~~a~~~~~~~~  282 (539)
                      ..   .  ..+......+...+.  ...+.+.+..++......... +......    +.......+..+.+...+....
T Consensus       206 ~~---~--~~~~~~~~~~~~~l~rla~~d~~~a~~~l~~~~~~~~~-~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~  279 (450)
T d1qsaa1         206 RT---T--GATDFTRQMAAVAFASVARQDAENARLMIPSLAQAQQL-NEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAI  279 (450)
T ss_dssp             HH---S--CCCHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHTTC-CHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHH
T ss_pred             hc---C--CCChhhhHHHHHHHHHHhccChhHHHHHHHhhhhcccc-cHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhc
Confidence            21   1  123332222222222  235778888888887665322 2222222    2223334566788888887776


Q ss_pred             HcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHHHCCCCCCHHhHHHHHHHHhcCCCHHHHHHHHHHHHhCCCCCCHHh
Q 009255          283 ERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELLQSGMIPDETTFNTIIHGFCSEGQVEKALQFHNKMVEKSFKPDIVT  362 (539)
Q Consensus       283 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  362 (539)
                      ....  +.......+......+++..+...+..+... ........--+..++...|+.+.|...|..+...   ++   
T Consensus       280 ~~~~--~~~~~~w~~~~al~~~~~~~~~~~~~~l~~~-~~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~~---~~---  350 (450)
T d1qsaa1         280 MRSQ--STSLIERRVRMALGTGDRRGLNTWLARLPME-AKEKDEWRYWQADLLLERGREAEAKEILHQLMQQ---RG---  350 (450)
T ss_dssp             HTCC--CHHHHHHHHHHHHHHTCHHHHHHHHHHSCTT-GGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS---CS---
T ss_pred             cccc--chHHHHHHHHHHHHcCChHHHHHHHHhcCcc-cccHHHHHHHHHHHHHHcCChhhHHHHHHHHhcC---CC---
Confidence            6533  4444445555566778999999998877543 2223445556788899999999999999998752   23   


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-hhh-----HHHHHHHHHccCChHHHHHHHHHHHhCCCCCCHhhHHHH
Q 009255          363 CNILLSGLCREGILEKALKFFRSWILKGKAVD-SVT-----YNTLISSLCKERRLEDAFGLLSEMEEKKLGPDRYTYAAI  436 (539)
Q Consensus       363 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~~-----~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l  436 (539)
                      |..++.+ .+.|..-.       +....++++ ...     -..-+..+...|....|...|..+...   .+......+
T Consensus       351 fYG~LAa-~~Lg~~~~-------~~~~~~~~~~~~~~~~~~~~~ra~~L~~~g~~~~A~~e~~~l~~~---~~~~~~~~l  419 (450)
T d1qsaa1         351 FYPMVAA-QRIGEEYE-------LKIDKAPQNVDSALTQGPEMARVRELMYWNLDNTARSEWANLVKS---KSKTEQAQL  419 (450)
T ss_dssp             HHHHHHH-HHTTCCCC-------CCCCCCCSCCCCHHHHSHHHHHHHHHHHTTCHHHHHHHHHHHHTT---CCHHHHHHH
T ss_pred             hHHHHHH-HHcCCCCC-------CCcCCCCccHHHhhhcChHHHHHHHHHHcCCchHHHHHHHHHHhC---CCHHHHHHH
Confidence            4333322 22332100       000000000 001     112355677889999999999988753   244556677


Q ss_pred             HHHHHhcCCHHHHHHHHHHH
Q 009255          437 HTALVESGRLEEAQKFTSIM  456 (539)
Q Consensus       437 ~~~~~~~g~~~~A~~~~~~~  456 (539)
                      +....+.|.++.|+....++
T Consensus       420 a~lA~~~g~~~~aI~a~~~~  439 (450)
T d1qsaa1         420 ARYAFNNQWWDLSVQATIAG  439 (450)
T ss_dssp             HHHHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHHCCChhHHHHHHHHH
Confidence            88888999999999876655

>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=95.12  E-value=0.28  Score=33.48  Aligned_cols=64  Identities=17%  Similarity=0.184  Sum_probs=37.4

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccccCCCCCCCCCCCCChhhHHHHHHHHhhcCCHHHHHHHHHHHHHc
Q 009255          432 TYAAIHTALVESGRLEEAQKFTSIMVETGKINHQVVQPNTSKTPEEIDPSSISYSEKINEHCSQGRYKDALQIFEETRQK  511 (539)
Q Consensus       432 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  511 (539)
                      .+...+..+..+|+-+.-.+++..+.+.+                  .|+++....++.+|.+.|...+|.+++.++-+.
T Consensus        88 ~vdlALd~lv~~~kkd~Ld~i~~~l~kn~------------------~i~~~~llkia~A~kkig~~re~nell~~ACe~  149 (161)
T d1wy6a1          88 HVNKALDILVIQGKRDKLEEIGREILKNN------------------EVSASILVAIANALRRVGDERDATTLLIEACKK  149 (161)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHC--C------------------CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhcC------------------CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHH
Confidence            33444455566666666666666655544                  455666666666666666666666666666665


Q ss_pred             CC
Q 009255          512 GI  513 (539)
Q Consensus       512 ~~  513 (539)
                      |+
T Consensus       150 G~  151 (161)
T d1wy6a1         150 GE  151 (161)
T ss_dssp             TC
T ss_pred             hH
Confidence            53

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=94.99  E-value=0.31  Score=33.26  Aligned_cols=56  Identities=9%  Similarity=0.029  Sum_probs=22.0

Q ss_pred             HHHhccCCHhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHhHHHHHHHHHHHc
Q 009255          123 NRFFESGRSMEAFKLIDELDEHGIKPNAVTHNIMIKWYCKEGKIDKACKIVRNMEEN  179 (539)
Q Consensus       123 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  179 (539)
                      ..+..+|.-++-.++++.+.+. -+|++.....+..+|.+.|...++.+++.+.-+.
T Consensus        94 d~lv~~~kkd~Ld~i~~~l~kn-~~i~~~~llkia~A~kkig~~re~nell~~ACe~  149 (161)
T d1wy6a1          94 DILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKK  149 (161)
T ss_dssp             HHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHhccHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHH
Confidence            3333344444444444443331 2333444444444444444444444444444333

>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=89.77  E-value=1.6  Score=28.06  Aligned_cols=47  Identities=13%  Similarity=0.111  Sum_probs=24.8

Q ss_pred             HHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcCCCHHHHHHHHHHHH
Q 009255          271 ANRALKLWDEMKERQIMPSTFTYNAMIWGLSQSGKTEQAIDMLNELL  317 (539)
Q Consensus       271 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  317 (539)
                      .-++.+-+..+...+..|++....+.+.+|.+.+++..|.++++-++
T Consensus        22 ~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK   68 (105)
T d1v54e_          22 AWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVK   68 (105)
T ss_dssp             HHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            33444444444445555555555555555555555555555555444

>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=89.61  E-value=1.7  Score=27.99  Aligned_cols=49  Identities=14%  Similarity=0.044  Sum_probs=26.5

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 009255          341 VEKALQFHNKMVEKSFKPDIVTCNILLSGLCREGILEKALKFFRSWILK  389 (539)
Q Consensus       341 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  389 (539)
                      .-+..+-+..+.....-|++.+..+.+++|.+.+++.-|.++|+.+..+
T Consensus        22 ~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K   70 (105)
T d1v54e_          22 AWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK   70 (105)
T ss_dssp             HHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            3344444444444455555555555556665556666666655555544